Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 73 of 198
Found at i:22895718 original size:43 final size:42
Alignment explanation
Indices: 22895658--22895826 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 42
22895648 TCTCGTATAA
* *
22895658 CACATA-CAATGCCATATCCCAGATATGGTCTTACATGTTAT
1 CACATATCAATGCCATATCCCAGATATGGTCTTACACGTAAT
* * *
22895699 CACATATCAATGCCAATATCCCAGCTATGGTCTTACAGGAAAT
1 CACATATCAATGCC-ATATCCCAGATATGGTCTTACACGTAAT
* * * * *
22895742 CGCATAACAATGCCAATGTCCTAGACATGGTGGTCTTACACGTAAT
1 CACATATCAATGCC-ATATCCCAG--AT-ATGGTCTTACACGTAAT
*
22895788 CACATATATCGATGCCATATCCCAGATATGGTCTTACAC
1 CAC--ATATCAATGCCATATCCCAGATATGGTCTTACAC
22895827 AAAGTCTTAT
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
41 6 0.06
42 7 0.07
43 44 0.43
44 11 0.11
45 3 0.03
46 16 0.16
47 7 0.07
48 9 0.09
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
CACATATCAATGCCATATCCCAGATATGGTCTTACACGTAAT
Found at i:22895825 original size:44 final size:44
Alignment explanation
Indices: 22895664--22895877 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 44
22895654 ATAACACATA
* **
22895664 CAATGCCATATCCCAGATATGGTCTTACATGTTATCAC--ATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATATAT
* * *
22895706 CAATGCCAATATCCCAGCTATGGTCTTACAGGAAATCGCATA-A-
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCACATATAT
* * * *
22895749 CAATGCCAATGTCCTAGACATGGTGGTCTTACACGTAATCACATATAT
1 CAATGCC-ATATCCCAG--AT-ATGGTCTTACACGAAATCACATATAT
* **
22895797 CGATGCCATATCCCAGATATGGTCTTACAC-AAAGTCTTATATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAA-TCACATATAT
* * * * *
22895841 CGATGCCATAGCCTAGCTATGGTCTTATACGAAATCA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCA
22895878 TGTAATGCCA
Statistics
Matches: 138, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 7 0.05
43 43 0.31
44 48 0.35
45 7 0.05
46 19 0.14
47 8 0.06
48 6 0.04
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATATAT
Found at i:22902653 original size:18 final size:18
Alignment explanation
Indices: 22902618--22902654 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22902608 TTGAAACACA
* *
22902618 ATTTCAAACAACTTCAAT
1 ATTTCAAACAAATACAAT
22902636 ATTTCAAACAAATACAAT
1 ATTTCAAACAAATACAAT
22902654 A
1 A
22902655 ATATGTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (18 bp):
ATTTCAAACAAATACAAT
Found at i:22902771 original size:2 final size:2
Alignment explanation
Indices: 22902764--22902797 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22902754 AACTAATAAT
22902764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22902798 CCACATTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22903947 original size:51 final size:50
Alignment explanation
Indices: 22903804--22903994 Score: 235
Period size: 51 Copynumber: 3.8 Consensus size: 50
22903794 ACTATTATCA
* *
22903804 TTCGATACACGTAGTAGTCTTCACATAGTACTACACACGTGATC-AAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
*
22903853 TTAC-AGTCCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * *
22903905 TTCGGTACACATAATAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
22903955 TATCGATACACGTAGTAGCCTTCACATAGTACTACACACG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACG
22903995 AGATCATTGA
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 3 0.03
50 40 0.33
51 72 0.60
52 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:22911531 original size:50 final size:49
Alignment explanation
Indices: 22911470--22911654 Score: 246
Period size: 50 Copynumber: 3.7 Consensus size: 49
22911460 CATTCGATAT
*
22911470 ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTCC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGA-CAAGTTTTATGGTAC
*
22911520 ACGTAGTAGCCTTCACATAGTACTACACACGTGACAAAGCTTTT-CGGTAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGAC-AAG-TTTTATGGTAC
* * * * * *
22911570 ACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATTGATAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACAAGT-TTTA-TGGTAC
22911621 ACGTAGTAGCCTTCACATAGTACTACACACGTGA
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGA
22911655 TCATCGATAC
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 5 0.04
50 73 0.62
51 39 0.33
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (49 bp):
ACGTAGTAGCCTTCACATAGTACTACACACGTGACAAGTTTTATGGTAC
Found at i:22911599 original size:26 final size:26
Alignment explanation
Indices: 22911567--22911649 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
22911557 AGCTTTTCGG
22911567 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
22911593 TACACAT-GT-GACCATT-ATTTATTGA-
1 TACACATAGTAG-CC-TTCACTTAGT-AC
* *
22911618 TACACGTAGTAGCCTTCACATAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
22911644 TACACA
1 TACACA
22911650 CGTGATCATC
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:22911637 original size:101 final size:100
Alignment explanation
Indices: 22911473--22911654 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 100
22911463 TCGATATACG
* *
22911473 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTCCACGTAGTAGCCTTCACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGATACACGTAGTAGCCTTCACAT
22911538 AGTACTACACACGTGACAAAGCTTTTCGGTACACA
66 AGTACTACACACGTGACAAAGCTTTTCGGTACACA
* * * *
22911573 TAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATTGATACACGTAGTAGCCTTCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-TGATACACGTAGTAGCCTTCAC
22911637 ATAGTACTACACACGTGA
64 ATAGTACTACACACGTGA
22911655 TCATCGATAC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 3 0.04
100 33 0.45
101 38 0.51
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (100 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGATACACGTAGTAGCCTTCACAT
AGTACTACACACGTGACAAAGCTTTTCGGTACACA
Found at i:22915497 original size:42 final size:42
Alignment explanation
Indices: 22915451--22915549 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
22915441 TGTCATCACT
*
22915451 CGTGTAACTCACTGAGTTGTCC-CACACACCCATGTGTCAGGC
1 CGTGTAACTCACTGAGTTG-CCACACACACCCATGTGCCAGGC
* * * *
22915493 CGTGTAACTCTCTAAGTTGCCACACACGCCCGTGTGCCAGGC
1 CGTGTAACTCACTGAGTTGCCACACACACCCATGTGCCAGGC
*
22915535 CGTGTAATTCACTGA
1 CGTGTAACTCACTGA
22915550 CTTGAAACAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.24
Consensus pattern (42 bp):
CGTGTAACTCACTGAGTTGCCACACACACCCATGTGCCAGGC
Found at i:22916222 original size:38 final size:37
Alignment explanation
Indices: 22916125--22916222 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 37
22916115 CGTAGGCATC
* * **
22916125 AAGCCTGCTAGGAACTAAGTCTGAATAACACCGGCAGT
1 AAGCCTGCTAGGCACTAAG-CTTAATAACACCGGCACA
*
22916163 AAGCCTGCTAGGCACTCAGCTTAATAAACACCGGCACA
1 AAGCCTGCTAGGCACTAAGCTTAAT-AACACCGGCACA
*
22916201 AAGCCTGCTAGGCACAAAGCTT
1 AAGCCTGCTAGGCACTAAGCTT
22916223 GCTAGGCATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
37 5 0.10
38 47 0.90
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (37 bp):
AAGCCTGCTAGGCACTAAGCTTAATAACACCGGCACA
Found at i:22916236 original size:16 final size:16
Alignment explanation
Indices: 22916195--22916230 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
22916185 AATAAACACC
22916195 GGCACAAAGCCTGCTA
1 GGCACAAAGCCTGCTA
*
22916211 GGCACAAAGCTTGCTA
1 GGCACAAAGCCTGCTA
22916227 GGCA
1 GGCA
22916231 TTAAGCCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.14
Consensus pattern (16 bp):
GGCACAAAGCCTGCTA
Found at i:22923336 original size:22 final size:22
Alignment explanation
Indices: 22923311--22923352 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22923301 AGCATATAAA
22923311 TTATAACTCATAATTATTTTTT
1 TTATAACTCATAATTATTTTTT
* **
22923333 TTATAATTTTTAATTATTTT
1 TTATAACTCATAATTATTTT
22923353 CCAAAGTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATAACTCATAATTATTTTTT
Found at i:22926265 original size:33 final size:35
Alignment explanation
Indices: 22926219--22926284 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
22926209 AAAAAAGGAA
*
22926219 AAACCTAATCTAAAA-AT-AAAAGAAAAGAAAAAG
1 AAACCTAACCTAAAACATGAAAAGAAAAGAAAAAG
*
22926252 AAACCTAACCTAAAACTATGAAAAGTAAAGAAA
1 AAACCTAACCTAAAAC-ATGAAAAGAAAAGAAA
22926285 GATGATCAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
35 2 0.07
36 12 0.43
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.14
Consensus pattern (35 bp):
AAACCTAACCTAAAACATGAAAAGAAAAGAAAAAG
Found at i:22929549 original size:12 final size:12
Alignment explanation
Indices: 22929510--22929549 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
22929500 AAATAAACAT
22929510 AAACTTAAAAGA
1 AAACTTAAAAGA
* *
22929522 AAAATAAAAAGA
1 AAACTTAAAAGA
22929534 AAACTTAAAAGA
1 AAACTTAAAAGA
22929546 AAAC
1 AAAC
22929550 AAATAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.12
Consensus pattern (12 bp):
AAACTTAAAAGA
Found at i:22929629 original size:22 final size:23
Alignment explanation
Indices: 22929601--22929662 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 23
22929591 GTGAGTCGCC
22929601 GGTGCTGA-AGAGGATATATGGA
1 GGTGCTGACAGAGGATATATGGA
22929623 GGTGCTGACAGATCAGAGGATATATGGA
1 GGTGCT----GA-CAGAGGATATATGGA
22929651 GGTGCTGACAGA
1 GGTGCTGACAGA
22929663 TCTACTACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
22 6 0.18
23 4 0.12
24 2 0.06
26 2 0.06
28 20 0.59
ACGTcount: A:0.31, C:0.10, G:0.39, T:0.21
Consensus pattern (23 bp):
GGTGCTGACAGAGGATATATGGA
Found at i:22929649 original size:28 final size:28
Alignment explanation
Indices: 22929609--22929664 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
22929599 CCGGTGCTGA
22929609 AGAGGATATATGGAGGTGCTGACAGATC
1 AGAGGATATATGGAGGTGCTGACAGATC
22929637 AGAGGATATATGGAGGTGCTGACAGATC
1 AGAGGATATATGGAGGTGCTGACAGATC
22929665 TACTACAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.21
Consensus pattern (28 bp):
AGAGGATATATGGAGGTGCTGACAGATC
Found at i:22931257 original size:10 final size:10
Alignment explanation
Indices: 22931242--22931313 Score: 67
Period size: 10 Copynumber: 6.9 Consensus size: 10
22931232 CAGAGGAAGA
22931242 AAATAAAAAT
1 AAATAAAAAT
22931252 AAATAAAATAAT
1 AAAT-AAA-AAT
*
22931264 AAATAAGAAT
1 AAATAAAAAT
22931274 AAA-AATTAAAT
1 AAATAA--AAAT
22931285 AAATAAAAAT
1 AAATAAAAAT
22931295 GAAAT-AAAAT
1 -AAATAAAAAT
*
22931305 AAAGAAAAA
1 AAATAAAAA
22931314 GCTAAAGGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
9 5 0.10
10 23 0.44
11 15 0.29
12 9 0.17
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:22931261 original size:15 final size:15
Alignment explanation
Indices: 22931241--22931307 Score: 79
Period size: 15 Copynumber: 4.5 Consensus size: 15
22931231 ACAGAGGAAG
22931241 AAAATAAAAATAAAT
1 AAAATAAAAATAAAT
22931256 AAAAT---AATAAAT
1 AAAATAAAAATAAAT
22931268 AAGAATAAAAATTAAAT
1 AA-AATAAAAA-TAAAT
22931285 -AAATAAAAATGAAAT
1 AAAATAAAAAT-AAAT
22931300 AAAATAAA
1 AAAATAAA
22931308 GAAAAAGCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
12 9 0.20
13 3 0.07
14 1 0.02
15 17 0.38
16 10 0.22
17 5 0.11
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAAAATAAAT
Found at i:22933867 original size:51 final size:50
Alignment explanation
Indices: 22933781--22934122 Score: 354
Period size: 51 Copynumber: 6.7 Consensus size: 50
22933771 TATCGATGAA
*
22933781 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * * * * * *
22933832 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATT-GT
* * *
22933883 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * *
22933934 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATT-GT
* * *
22933985 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTG-T
*
22934036 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATA-TTG-T
*
22934086 CACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
22934123 TGAATGATAA
Statistics
Matches: 243, Mismatches: 37, Indels: 22
0.80 0.12 0.07
Matches are distributed among these distances:
50 50 0.21
51 191 0.79
52 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGT
Found at i:22933957 original size:102 final size:101
Alignment explanation
Indices: 22933781--22934119 Score: 441
Period size: 102 Copynumber: 3.3 Consensus size: 101
22933771 TATCGATGAA
* * * *
22933781 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
22933846 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
22933883 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
22933948 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * *
22933985 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGATCACGTGTGTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA--TGGTCACATGTGTAGT
* * * * * *
22934048 ACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
*
22934086 CACGTGTGTAGTACTATGTGGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
22934120 TATTGAATGA
Statistics
Matches: 212, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.00
101 41 0.19
102 169 0.80
103 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:22934040 original size:153 final size:152
Alignment explanation
Indices: 22933776--22934122 Score: 423
Period size: 153 Copynumber: 2.3 Consensus size: 152
22933766 TAAGGTATCG
* * *
22933776 ATGAACACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
* * * * * *
22933841 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAG
66 AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAG
**
22933906 GCTACTACGTGAA-TCGATAAATG
131 GCTACTACGTGAACT-G-TAAAAC
* * * * *
22933929 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGTCACGTGT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGT
* * *
22933992 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTG
64 CTAGTACTAAGTGAAGGCTACAACGTGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTG
22934056 AAGGCTACTACGTGAACTGTAAAAC
128 AAGGCTACTACGTGAACTGTAAAAC
* * *
22934081 TTGATCACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTAT
22934123 TGAATGATAA
Statistics
Matches: 165, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
152 45 0.27
153 115 0.70
154 5 0.03
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (152 bp):
ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAG
GCTACTACGTGAACTGTAAAAC
Found at i:22936471 original size:38 final size:38
Alignment explanation
Indices: 22936400--22936489 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
22936390 CTCTCCGACC
* * ** *
22936400 ACCATGCACACCACATATGAGCTACTTAAGCCCATCCA
1 ACCATGCACACCACATAGGACCTACAAAAGCCCACCCA
22936438 ACCATGCACACCACATAGGACCT-CAAAAGGCCCACCCA
1 ACCATGCACACCACATAGGACCTACAAAA-GCCCACCCA
* *
22936476 ACCCTACACACCAC
1 ACCATGCACACCAC
22936490 TTATGTGGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 3 0.07
38 41 0.93
ACGTcount: A:0.36, C:0.42, G:0.10, T:0.12
Consensus pattern (38 bp):
ACCATGCACACCACATAGGACCTACAAAAGCCCACCCA
Found at i:22944038 original size:12 final size:13
Alignment explanation
Indices: 22944023--22944058 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
22944013 ATTTAACTAC
22944023 GAATGTAA-CAAA
1 GAATGTAATCAAA
22944035 GAATG-AATCAAA
1 GAATGTAATCAAA
22944047 GAA-GTAATCAAA
1 GAATGTAATCAAA
22944059 TATTAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.14
12 19 0.86
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (13 bp):
GAATGTAATCAAA
Found at i:22947541 original size:18 final size:17
Alignment explanation
Indices: 22947507--22947554 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
22947497 TTTATTCCAC
*
22947507 TCATTTTGCATTTAACAA
1 TCATATTGC-TTTAACAA
*
22947525 TCATATTGCTTTAAACAC
1 TCATATTGCTTT-AACAA
*
22947543 TTATATTGCTTT
1 TCATATTGCTTT
22947555 TATTCACTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (17 bp):
TCATATTGCTTTAACAA
Found at i:22953757 original size:9 final size:9
Alignment explanation
Indices: 22953740--22953776 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
22953730 TGAGTTTTCG
22953740 AATTCGAAT
1 AATTCGAAT
*
22953749 AACTCGAAT
1 AATTCGAAT
*
22953758 AATTCGGAT
1 AATTCGAAT
22953767 AATTCGAAT
1 AATTCGAAT
22953776 A
1 A
22953777 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22954027 original size:30 final size:31
Alignment explanation
Indices: 22953991--22954050 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
22953981 ATACCTTTTA
*
22953991 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
22954021 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
22954051 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:22956503 original size:17 final size:17
Alignment explanation
Indices: 22956481--22956514 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22956471 ACACAATATT
22956481 TTGAAAATATT-ATTTAA
1 TTGAAAA-ATTAATTTAA
22956498 TTGAAAAATTAATTTAA
1 TTGAAAAATTAATTTAA
22956515 CAAATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTGAAAAATTAATTTAA
Found at i:22960625 original size:8 final size:8
Alignment explanation
Indices: 22960612--22960643 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
22960602 ATAATGCAGG
22960612 AAAACTGT
1 AAAACTGT
22960620 AAAACTGT
1 AAAACTGT
22960628 AAAACTGT
1 AAAACTGT
22960636 AAAACTGT
1 AAAACTGT
22960644 CGCATCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (8 bp):
AAAACTGT
Found at i:22961780 original size:21 final size:20
Alignment explanation
Indices: 22961754--22961797 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22961744 GTCCCTATAC
*
22961754 TTTTTTATCAATTTGATCCCT
1 TTTTTTATCAA-TTGATCACT
* *
22961775 TTTTTTTTGAATTGATCACT
1 TTTTTTATCAATTGATCACT
22961795 TTT
1 TTT
22961798 AGTCCTGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTTTATCAATTGATCACT
Found at i:22963116 original size:90 final size:91
Alignment explanation
Indices: 22962963--22963167 Score: 249
Period size: 90 Copynumber: 2.3 Consensus size: 91
22962953 TTAAAGGTGT
* * * *
22962963 AAAAAGCCCTCAAACTTTTTC--CAAAAAAGCAATTAAGCCCCTTCTTATTTTTTACACTTAATT
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAACCCCTGCTTATTTTTTACACTCAATT
*
22963026 GAGCACTTGAACTTTCAAAATGCAT-CA
66 GAGCACTTAAACTTTCAAAAT--ATACA
* *
22963053 AAAAAGCCCTCAAACTTCTTCAAAAAAAAAGCAATTAAATCCCTGC-TATTTTTT-CACTCAATT
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAACCCCTGCTTATTTTTTACACTCAATT
* * *
22963116 GGGTACTTAAACTTTCAAAATATACC
66 GAGCACTTAAACTTTCAAAATATACA
*
22963142 AAAAAGACCCTCAAAATTTTTCAAAA
1 AAAAAG-CCCTCAAACTTTTTCAAAA
22963168 TAGCAATTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
88 2 0.02
89 7 0.07
90 63 0.64
91 8 0.08
92 19 0.19
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (91 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAACCCCTGCTTATTTTTTACACTCAATT
GAGCACTTAAACTTTCAAAATATACA
Found at i:22963237 original size:18 final size:18
Alignment explanation
Indices: 22963213--22963262 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
22963203 AAAAAATAAC
22963213 AATAAAATAATAAATTTT
1 AATAAAATAATAAATTTT
*
22963231 AGA-AAAATTATTAAATTTT
1 A-ATAAAA-TAATAAATTTT
22963250 AATAAAAT-ATAAA
1 AATAAAATAATAAA
22963263 AATGTAACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 16 0.59
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AATAAAATAATAAATTTT
Found at i:22965404 original size:20 final size:17
Alignment explanation
Indices: 22965361--22965396 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22965351 TTTTGGAAGG
22965361 TGATTCTTTTTTCTCTC
1 TGATTCTTTTTTCTCTC
* *
22965378 TGATTCTTTATTCTTTC
1 TGATTCTTTTTTCTCTC
22965395 TG
1 TG
22965397 CTGATTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.19, G:0.08, T:0.64
Consensus pattern (17 bp):
TGATTCTTTTTTCTCTC
Found at i:22965411 original size:20 final size:21
Alignment explanation
Indices: 22965377--22965416 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22965367 TTTTTTCTCT
*
22965377 CTGATTCTTTATTCT-TTCTG
1 CTGATTCTCTATTCTATTCTG
*
22965397 CTGATTCTCTCTTCTATTCT
1 CTGATTCTCTATTCTATTCT
22965417 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.25, G:0.07, T:0.57
Consensus pattern (21 bp):
CTGATTCTCTATTCTATTCTG
Found at i:22966100 original size:17 final size:17
Alignment explanation
Indices: 22966078--22966118 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22966068 TTCTTACATT
*
22966078 TTTTATTTGTTTATACA
1 TTTTATTTATTTATACA
**
22966095 TTTTATTTATTTATTTA
1 TTTTATTTATTTATACA
22966112 TTTTATT
1 TTTTATT
22966119 ATTACATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATTTATTTATACA
Found at i:22982413 original size:18 final size:18
Alignment explanation
Indices: 22982378--22982422 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
22982368 GCCATAAGTG
*
22982378 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
22982396 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
22982414 AC-TTTTGAA
1 ACGTTTTGAA
22982423 TACGAATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 17 0.68
19 1 0.04
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:22982628 original size:14 final size:14
Alignment explanation
Indices: 22982606--22982636 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22982596 ATTAAAATAT
22982606 ATTAAAAATTAGAA
1 ATTAAAAATTAGAA
*
22982620 ATTAGAAATTAGAA
1 ATTAAAAATTAGAA
22982634 ATT
1 ATT
22982637 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (14 bp):
ATTAAAAATTAGAA
Found at i:22982932 original size:9 final size:9
Alignment explanation
Indices: 22982901--22982977 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
22982891 TTTATAAAAT
22982901 TTTTATATA
1 TTTTATATA
* *
22982910 TTTTACAATT
1 TTTTA-TATA
22982920 TTTTATATA
1 TTTTATATA
*
22982929 TTTTTTATGA
1 TTTTATAT-A
22982939 -TTTATATA
1 TTTTATATA
*
22982947 TTTT-TCTAA
1 TTTTATAT-A
22982956 TTTT-TAATA
1 TTTTAT-ATA
22982965 TTTTA-ATA
1 TTTTATATA
22982973 TTTTA
1 TTTTA
22982978 CTAAAATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
8 11 0.20
9 34 0.63
10 9 0.17
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATATA
Found at i:22982961 original size:19 final size:19
Alignment explanation
Indices: 22982898--22982968 Score: 78
Period size: 18 Copynumber: 3.8 Consensus size: 19
22982888 GACTTTATAA
*
22982898 AATTTTTATATATTTTAC-
1 AATTTTTATATATTTTTCT
22982916 AATTTTTTATATATTTTT-T
1 AA-TTTTTATATATTTTTCT
*
22982935 -ATGATTTATATATTTTTCT
1 AAT-TTTTATATATTTTTCT
22982954 AATTTTTA-ATATTTT
1 AATTTTTATATATTTT
22982969 AATATTTTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 1 0.02
18 23 0.51
19 19 0.42
20 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
AATTTTTATATATTTTTCT
Found at i:22982987 original size:26 final size:27
Alignment explanation
Indices: 22982939--22982999 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
22982929 TTTTTTATGA
* **
22982939 TTTATATATTTTTCTAATTTTTAATAT
1 TTTATATATTTTACTAAAATTTAATAT
22982966 TTTA-ATATTTTACTAAAATTTAATCAT
1 TTTATATATTTTACTAAAATTTAAT-AT
22982993 ATTTATA
1 -TTTATA
22983000 GTTTTTATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 17 0.61
27 6 0.21
28 4 0.14
29 1 0.04
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTATATATTTTACTAAAATTTAATAT
Found at i:22983038 original size:21 final size:20
Alignment explanation
Indices: 22983010--22983049 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
22983000 GTTTTTATTG
*
22983010 ATTTTAATTTTTTATAAAAA
1 ATTTTAATTTTTAATAAAAA
22983030 ATTTCTAATTTTTAATAAAA
1 ATTT-TAATTTTTAATAAAA
22983050 CAAGGGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAATTTTTAATAAAAA
Found at i:22986161 original size:15 final size:16
Alignment explanation
Indices: 22986143--22986172 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22986133 TTTAATTAAG
22986143 TTAAATTTA-AATTTT
1 TTAAATTTATAATTTT
22986158 TTAAATTTATAATTT
1 TTAAATTTATAATTT
22986173 ATTTTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAAATTTATAATTTT
Found at i:22998509 original size:17 final size:17
Alignment explanation
Indices: 22998463--22998510 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
22998453 TAAAATAGAT
* *
22998463 TAAAGAAATAAAAATAAA
1 TAAAGAAA-GAAAAGAAA
* *
22998481 TAAATAATGAAAAGAAA
1 TAAAGAAAGAAAAGAAA
22998498 TAAAGAAAGAAAA
1 TAAAGAAAGAAAA
22998511 ATAAACAAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (17 bp):
TAAAGAAAGAAAAGAAA
Found at i:22998512 original size:27 final size:27
Alignment explanation
Indices: 22998464--22998528 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
22998454 AAAATAGATT
**
22998464 AAAGAAATAAAAATAAATAAATAATGA
1 AAAGAAATAAAAATAAATAAATAAACA
22998491 AAAGAAATAAAGAA-AGAA-AAATAAACA
1 AAAGAAATAAA-AATA-AATAAATAAACA
*
22998518 AACGAAATAAA
1 AAAGAAATAAA
22998529 TCGATAAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.12
Consensus pattern (27 bp):
AAAGAAATAAAAATAAATAAATAAACA
Found at i:23004203 original size:14 final size:14
Alignment explanation
Indices: 23004184--23004210 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23004174 GTTTGCTTTA
23004184 GTTTGATTCATAAT
1 GTTTGATTCATAAT
23004198 GTTTGATTCATAA
1 GTTTGATTCATAA
23004211 GTTATGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (14 bp):
GTTTGATTCATAAT
Found at i:23015913 original size:253 final size:254
Alignment explanation
Indices: 23014938--23015942 Score: 1838
Period size: 253 Copynumber: 4.0 Consensus size: 254
23014928 TTTTGAAATC
*
23014938 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTAC-TAGTTAATTTTTAATTTTTAAATCACTTCT
23015003 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
65 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
* *
23015068 ACAATCCTCGTGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
130 ACAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTA
* * *
23015133 CACTTACACATTTCTATTGTTTCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
195 CACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
*
23015193 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTAC-TAGTTAATTTTTAATTTTTAAATCACTTCT
*
23015258 TCAAAAC-AAATTTTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
65 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
23015322 ACAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTA
130 ACAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTA
23015387 CACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
195 CACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
23015447 GTGCTTTGGAATTTTTAC-TTTTATTTCTATTA-TAGTTAATTTTTAATTTTTAAATCACTTCTT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACTAGTTAATTTTTAATTTTTAAATCACTTCTT
23015510 CAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
66 CAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
23015575 CAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTAC
131 CAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTAC
23015640 ACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
196 ACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
23015699 GTGCTTTGGAATTTTTACTTTTTATTTCTATTA-TAGTTAATTTTTAATTTTTAAATCACTTCTT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACTAGTTAATTTTTAATTTTTAAATCACTTCTT
23015763 CAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
66 CAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
* * * * *
23015828 CAATCCTCGTGAGTACGATAACTCGACATTTACTTGTCACTTTATTACTTTTTGCGATTGTTTAC
131 CAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTAC
*
23015893 ACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATA
196 ACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATA
23015943 TGTCAGACCA
Statistics
Matches: 734, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
251 36 0.05
252 199 0.27
253 233 0.32
254 194 0.26
255 72 0.10
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.43
Consensus pattern (254 bp):
GTGCTTTGGAATTTTTACTTTTTATTTCTATTACTAGTTAATTTTTAATTTTTAAATCACTTCTT
CAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
CAATCCTCATGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTACGATTGTTTAC
ACTTACACATTTATGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
Found at i:23017089 original size:27 final size:28
Alignment explanation
Indices: 23017058--23017402 Score: 207
Period size: 27 Copynumber: 12.8 Consensus size: 28
23017048 CTTTAGTGTG
*
23017058 CGCCATAAAGGCATTCC-CTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* *
23017085 CGCCACAAAGGTA-TCCTTTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
23017112 CGCCATAAAGGC-TTCCTTTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
*
23017139 CGCCATAAAGGC-TTCTTTTTTC-TAGAT
1 CGCCATAAAGGCATTC-CTTTTCATAGAT
* ** *
23017166 CGCCACAAAAAC-TTCATTTTTC-TAGAT
1 CGCCATAAAGGCATTC-CTTTTCATAGAT
* * * *
23017193 CACCACAAAGGC-TTCCTTTTTATAAAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * * * * *
23017220 CACCACAAGGGC-TTTCTTTTTAAAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* *
23017247 CGCCACAAAGGC-TTCCTTTTTATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
** *
23017274 CGCCGCAAAGGC-TTCCTGTTT-ATAAAT
1 CGCCATAAAGGCATTCCT-TTTCATAGAT
* * * * *
23017301 CACCACAAGGGCTTTCCTTTT-AAAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * *
23017328 CACCACAAAGGC-TTCCTTTTTATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
** * *
23017355 CGCCGCAAAGG-ATTCCTTTTTATAAAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * * *
23017382 AGCCACAAAGGCTTTCTTTTT
1 CGCCATAAAGGCATTCCTTTT
23017403 TGGTGTGTTC
Statistics
Matches: 269, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
26 15 0.06
27 234 0.87
28 20 0.07
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (28 bp):
CGCCATAAAGGCATTCCTTTTCATAGAT
Found at i:23017116 original size:54 final size:54
Alignment explanation
Indices: 23017058--23017401 Score: 347
Period size: 54 Copynumber: 6.4 Consensus size: 54
23017048 CTTTAGTGTG
* * *
23017058 CGCCATAAAGGCATTCC-CTTCATAGATCGCCACAAAGG-TATCCTTTTCATAGAT
1 CGCCACAAAGGC-TTCCTTTTCATAGATCGCCACAAAGGCT-TCCTTTTTATAGAT
* * * *
23017112 CGCCATAAAGGCTTCCTTTTCATAGATCGCCATAAAGGCTTCTTTTTTCTAGAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
** * * *
23017166 CGCCACAAAAACTTCATTTTTC-TAGATCACCACAAAGGCTTCCTTTTTATAAAT
1 CGCCACAAAGGCTTC-CTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
* * * * *
23017220 CACCACAAGGGCTTTCTTTTTAAAGATCGCCACAAAGGCTTCCTTTTTATAGAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
* * * * *
23017274 CGCCGCAAAGGCTTCCTGTTT-ATAAATCACCACAAGGGCTTTCC-TTTTAAAGAT
1 CGCCACAAAGGCTTCCT-TTTCATAGATCGCCACAAAGGC-TTCCTTTTTATAGAT
* * * * *
23017328 CACCACAAAGGCTTCCTTTTTATAGATCGCCGCAAAGGATTCCTTTTTATAAAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
* *
23017382 AGCCACAAAGGCTTTCTTTT
1 CGCCACAAAGGCTTCCTTTT
23017402 TTGGTGTGTT
Statistics
Matches: 237, Mismatches: 45, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
53 15 0.06
54 209 0.88
55 13 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (54 bp):
CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTTATAGAT
Found at i:23017193 original size:81 final size:81
Alignment explanation
Indices: 23017081--23017402 Score: 407
Period size: 81 Copynumber: 4.0 Consensus size: 81
23017071 TTCCCTTCAT
* * * * * *
23017081 AGATCGCCACAAAGG-TATCCTTTTCATAGATCGCCATAAAGGCTTCCTTTTCATAGATCGCCAT
1 AGATCGCCACAAAGGCT-TCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCAC
**
23017145 AAAGGC-TTCTTTTTTCT
65 AAAGGCTTTC-TTTTTAA
** * * *
23017162 AGATCGCCACAAAAACTTCATTTTTCTAGATCACCACAAAGGCTTCCTTTTTATAAATCACCACA
1 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCACA
*
23017227 AGGGCTTTCTTTTTAA
66 AAGGCTTTCTTTTTAA
* *
23017243 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCGCAAAGGCTTCCTGTTTATAAATCACCACA
1 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCACA
* *
23017308 AGGGCTTTCCTTTTAA
66 AAGGCTTTCTTTTTAA
* * *
23017324 AGATCACCACAAAGGCTTCCTTTTTATAGATCGCCGCAAAGGATTCCTTTTTATAAAT-AGCCAC
1 AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCA-CCAC
23017388 AAAGGCTTTCTTTTT
65 AAAGGCTTTCTTTTT
23017403 TGGTGTGTTC
Statistics
Matches: 211, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 206 0.98
82 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (81 bp):
AGATCGCCACAAAGGCTTCCTTTTTATAGATCGCCACAAAGGCTTCCTTTTTATAAATCACCACA
AAGGCTTTCTTTTTAA
Found at i:23020573 original size:16 final size:16
Alignment explanation
Indices: 23020552--23020582 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23020542 TTTGGACTAA
23020552 ATTGAATAGAATGAAT
1 ATTGAATAGAATGAAT
*
23020568 ATTGAATGGAATGAA
1 ATTGAATAGAATGAA
23020583 CTTTCTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (16 bp):
ATTGAATAGAATGAAT
Found at i:23022060 original size:13 final size:15
Alignment explanation
Indices: 23022032--23022063 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
23022022 CTCAGCTGTG
23022032 TGTGACACATGGCCA
1 TGTGACACATGGCCA
23022047 TGTGACA-A-GGCCA
1 TGTGACACATGGCCA
23022060 TGTG
1 TGTG
23022064 TCCCTTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (15 bp):
TGTGACACATGGCCA
Found at i:23023765 original size:37 final size:37
Alignment explanation
Indices: 23023722--23023987 Score: 282
Period size: 37 Copynumber: 7.2 Consensus size: 37
23023712 CAATCTGCTA
*
23023722 GACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * * *
23023759 GGCTTGTTCTTATGATTAAAGCTAAGACAGTCAGTTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * ***
23023796 GACATGTCCTTATGATTCAAGCTAAGATAGTCCACTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * * * * *
23023833 GACTTGTTCTTATGATTAAAGCTAAGATAATCCGTTA
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
**
23023870 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
* * * * * *
23023907 GACTTGTTCTTATGATTAAAGTTAAGATAGT-TCGCTA
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCT-GTTG
* *
23023944 GACTTGTCCTTATAATTCAAGCTAAGACCGTCTGTTG
1 GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
23023981 GACTTGT
1 GACTTGT
23023988 TTCCAAGTTT
Statistics
Matches: 185, Mismatches: 42, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
36 1 0.01
37 183 0.99
38 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (37 bp):
GACTTGTCCTTATGATTCAAGCTAAGACAGTCTGTTG
Found at i:23023847 original size:74 final size:73
Alignment explanation
Indices: 23023720--23023988 Score: 367
Period size: 74 Copynumber: 3.6 Consensus size: 73
23023710 AACAATCTGC
* ** *
23023720 TAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGGCTTGTTCTTATGATTAAAGCTAAG
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
*
23023785 ACAGTCAGT
66 ATAGTC-GT
* * * *
23023794 TGGACATGTCCTTATGATTCAAGCTAAGATAGTCCACTGGACTTGTTCTTATGATTAAAGCTAAG
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
*
23023859 ATAATCCGT
66 ATAGT-CGT
*
23023868 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGTTAAG
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
*
23023933 ATAGTTCGC
66 ATAG-TCGT
* * **
23023942 TAGACTTGTCCTTATAATTCAAGCTAAGACCGTCTGTTGGACTTGTT
1 TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTT
23023989 TCCAAGTTTC
Statistics
Matches: 172, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
74 170 0.99
75 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (73 bp):
TAGACTTGTCCTTATGATTCAAGCTAAGACAGTCTACTGGACTTGTTCTTATGATTAAAGCTAAG
ATAGTCGT
Found at i:23023985 original size:111 final size:111
Alignment explanation
Indices: 23023718--23023987 Score: 353
Period size: 111 Copynumber: 2.4 Consensus size: 111
23023708 AAAACAATCT
* *
23023718 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGGCTTGTTCTTATGATTAAAGCTA
1 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGTCCTTATGATTAAAGCTA
* *
23023783 AGACAGTCAGTTGGACATGTCCTTATGATTCAAGCTAAGATAGTCC
66 AGACAGTCAGCTGGACATGTCCTTATGATTAAAGCTAAGATAGTCC
* * * * * * * *
23023829 ACTGGACTTGTTCTTATGATTAAAGCTAAGATAATCCGTTAGACTTGTCCTTATGATTCAAGCTA
1 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGTCCTTATGATTAAAGCTA
* * * *
23023894 AGACAGTCTA-CTGGACTTGTTCTTATGATTAAAGTTAAGATAGTTC
66 AGACAGTC-AGCTGGACATGTCCTTATGATTAAAGCTAAGATAGTCC
* **
23023940 GCTAGACTTGTCCTTATAATTCAAGCTAAGACCGTCTGTTGGACTTGT
1 GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGT
23023988 TTCCAAGTTT
Statistics
Matches: 132, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
111 131 0.99
112 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (111 bp):
GCTAGACTTGTCCTTATGATTCAAGCTAAGACAATCTGTTGGACTTGTCCTTATGATTAAAGCTA
AGACAGTCAGCTGGACATGTCCTTATGATTAAAGCTAAGATAGTCC
Found at i:23024102 original size:14 final size:14
Alignment explanation
Indices: 23024085--23024189 Score: 102
Period size: 14 Copynumber: 7.5 Consensus size: 14
23024075 GTCTGCAGGC
23024085 ATGAATCTGCATAT
1 ATGAATCTGCATAT
* * *
23024099 ATGAATCCGTACAT
1 ATGAATCTGCATAT
*
23024113 ATGAATCCGCATAT
1 ATGAATCTGCATAT
* * * *
23024127 AAGATTCTGTATCT
1 ATGAATCTGCATAT
*
23024141 ATGAATCTGCCTAT
1 ATGAATCTGCATAT
* *
23024155 GTGAATCTGCATCT
1 ATGAATCTGCATAT
*
23024169 ATAAATCTGCATAT
1 ATGAATCTGCATAT
23024183 ATGAATC
1 ATGAATC
23024190 CACATATAAT
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 69 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (14 bp):
ATGAATCTGCATAT
Found at i:23024116 original size:28 final size:28
Alignment explanation
Indices: 23024085--23024190 Score: 115
Period size: 28 Copynumber: 3.8 Consensus size: 28
23024075 GTCTGCAGGC
23024085 ATGAATCTGCATATATGAATCCGTA-CAT
1 ATGAATCTGCATATATGAATCCGTATC-T
* * * *
23024113 ATGAATCCGCATATAAGATTCTGTATCT
1 ATGAATCTGCATATATGAATCCGTATCT
* * * *
23024141 ATGAATCTGCCTATGTGAATCTGCATCT
1 ATGAATCTGCATATATGAATCCGTATCT
*
23024169 ATAAATCTGCATATATGAATCC
1 ATGAATCTGCATATATGAATCC
23024191 ACATATAATA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
28 62 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (28 bp):
ATGAATCTGCATATATGAATCCGTATCT
Found at i:23024166 original size:70 final size:70
Alignment explanation
Indices: 23024086--23024249 Score: 177
Period size: 70 Copynumber: 2.3 Consensus size: 70
23024076 TCTGCAGGCA
* * * * **
23024086 TGAATCTGCATATATGAATCCGTACATATGAATCCGCATATAA-GATTCTGTATCTATGAATCTG
1 TGAATCTGCATATATGAATCCGCACATATGAATCCACATATAATAATT-TGTATCTATAAATCCA
*
23024150 CCTATG
65 CCCATG
* * * * *
23024156 TGAATCTGCATCTATAAATCTGCATATATGAATCCACATATAATAATTTGTATTTATAAATCCAC
1 TGAATCTGCATATATGAATCCGCACATATGAATCCACATATAATAATTTGTATCTATAAATCCAC
23024221 CCATG
66 CCATG
* * *
23024226 TGATTATGCATTTATGAATCCGCA
1 TGAATCTGCATATATGAATCCGCA
23024250 GGGACTATTC
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
70 73 0.96
71 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (70 bp):
TGAATCTGCATATATGAATCCGCACATATGAATCCACATATAATAATTTGTATCTATAAATCCAC
CCATG
Found at i:23025113 original size:18 final size:18
Alignment explanation
Indices: 23025075--23025132 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
23025065 TCAAACCTTG
23025075 TAAAAA-CCCTAAACC-A
1 TAAAAATCCCTAAACCTA
*
23025091 TAAAAATCTCTAAACCTA
1 TAAAAATCCCTAAACCTA
23025109 TAAAAA-CCCTAAATCCTA
1 TAAAAATCCCTAAA-CCTA
23025127 -AAAAAT
1 TAAAAAT
23025133 ATAAGCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 6 0.17
17 19 0.53
18 11 0.31
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAAATCCCTAAACCTA
Found at i:23026362 original size:9 final size:9
Alignment explanation
Indices: 23026331--23026402 Score: 55
Period size: 9 Copynumber: 8.2 Consensus size: 9
23026321 AAAATTATTA
23026331 TTTTAGAAATT
1 TTTTA-AAA-T
23026342 TTTTAAAA-
1 TTTTAAAAT
23026350 -TTTAAAAT
1 TTTTAAAAT
23026358 TTTTAAAA-
1 TTTTAAAAT
23026366 -TTTAAAA-
1 TTTTAAAAT
* *
23026373 ATTTAAAAA
1 TTTTAAAAT
*
23026382 TTTTAAATT
1 TTTTAAAAT
23026391 TTTATAAAAT
1 TTT-TAAAAT
23026401 TT
1 TT
23026403 AAAAATAGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
7 14 0.27
8 7 0.13
9 16 0.31
10 10 0.19
11 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:23026362 original size:16 final size:16
Alignment explanation
Indices: 23026341--23026406 Score: 87
Period size: 16 Copynumber: 4.0 Consensus size: 16
23026331 TTTTAGAAAT
23026341 TTTTTAAAATTTAAAA
1 TTTTTAAAATTTAAAA
23026357 TTTTTAAAATTTAAAA
1 TTTTTAAAATTTAAAA
* * *
23026373 ATTTAAAAATTTTAAAT
1 TTTTTAAAA-TTTAAAA
23026390 TTTTATAAAATTTAAAA
1 TTTT-TAAAATTTAAAA
23026407 ATAGAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
16 23 0.55
17 15 0.36
18 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTTAAAATTTAAAA
Found at i:23026375 original size:8 final size:8
Alignment explanation
Indices: 23026346--23026408 Score: 72
Period size: 8 Copynumber: 7.6 Consensus size: 8
23026336 GAAATTTTTT
23026346 AAAATTTA
1 AAAATTTA
* *
23026354 AAATTTTT
1 AAAATTTA
23026362 AAAATTTA
1 AAAATTTA
23026370 AAAATTTA
1 AAAATTTA
23026378 AAAATTTTA
1 AAAA-TTTA
**
23026387 AATTTTTA
1 AAAATTTA
23026395 TAAAATTTA
1 -AAAATTTA
23026404 AAAAT
1 AAAAT
23026409 AGAAATTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
8 33 0.73
9 12 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTA
Found at i:23026406 original size:7 final size:7
Alignment explanation
Indices: 23026343--23026391 Score: 53
Period size: 7 Copynumber: 6.4 Consensus size: 7
23026333 TTAGAAATTT
23026343 TTTAAAA
1 TTTAAAA
23026350 TTTAAAA
1 TTTAAAA
23026357 TTTTTAAAA
1 --TTTAAAA
23026366 TTTAAAAA
1 TTT-AAAA
23026374 TTTAAAAA
1 TTT-AAAA
*
23026382 TTTTAAA
1 TTTAAAA
23026389 TTT
1 TTT
23026392 TTATAAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
7 16 0.42
8 15 0.39
9 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
TTTAAAA
Found at i:23026414 original size:25 final size:25
Alignment explanation
Indices: 23026334--23026423 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
23026324 ATTATTATTT
*
23026334 TAGAAATTTTT-TAAAATTTAAAATT
1 TAGAAATTTTTATAAAATTTAAAA-A
** *
23026359 TTTAAA-ATTTA-AAAATTTAAAAA
1 TAGAAATTTTTATAAAATTTAAAAA
**
23026382 TTTTAAATTTTTATAAAATTTAAAAA
1 -TAGAAATTTTTATAAAATTTAAAAA
23026408 TAGAAATTTTTATAAA
1 TAGAAATTTTTATAAA
23026424 TAGTTTGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
24 20 0.37
25 22 0.41
26 12 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAGAAATTTTTATAAAATTTAAAAA
Found at i:23026463 original size:20 final size:21
Alignment explanation
Indices: 23026438--23026478 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
23026428 TTGAATCTTA
23026438 AAAATTATTTTAAATT-TTTT
1 AAAATTATTTTAAATTATTTT
*
23026458 AAAATTATTTTGAATTATTTT
1 AAAATTATTTTAAATTATTTT
23026479 GTAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AAAATTATTTTAAATTATTTT
Found at i:23026479 original size:10 final size:10
Alignment explanation
Indices: 23026439--23026478 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
23026429 TGAATCTTAA
23026439 AAATTATTTT
1 AAATTATTTT
23026449 AAATT-TTTT
1 AAATTATTTT
23026458 AAAATTATTTT
1 -AAATTATTTT
*
23026469 GAATTATTTT
1 AAATTATTTT
23026479 GTAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 4 0.15
10 19 0.70
11 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (10 bp):
AAATTATTTT
Found at i:23027114 original size:19 final size:19
Alignment explanation
Indices: 23027090--23027128 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23027080 TCAATAAATA
23027090 ACATTATTAGTATATATAC
1 ACATTATTAGTATATATAC
23027109 ACATTATTAGTATATATAC
1 ACATTATTAGTATATATAC
23027128 A
1 A
23027129 TATGCACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
ACATTATTAGTATATATAC
Found at i:23039584 original size:25 final size:25
Alignment explanation
Indices: 23039542--23039594 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
23039532 TGTTCTCAAA
*
23039542 AATTCAATTAATATAAAATATTA-AT
1 AATTCAATAAATATAAAA-ATTAGAT
23039567 AATTCAATAAAT-TGAAAAATTAGAT
1 AATTCAATAAATAT-AAAAATTAGAT
23039592 AAT
1 AAT
23039595 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTCAATAAATATAAAAATTAGAT
Found at i:23047059 original size:18 final size:19
Alignment explanation
Indices: 23047033--23047069 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23047023 AATTTTGGAA
23047033 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
23047051 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
23047070 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:23049948 original size:15 final size:16
Alignment explanation
Indices: 23049928--23049957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23049918 TTTAACTAAG
23049928 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
23049943 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
23049958 TTTCTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:23051505 original size:11 final size:11
Alignment explanation
Indices: 23051477--23051523 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
23051467 CTGTTGAAAA
*
23051477 TAATCAAAA-T
1 TAATAAAAATT
23051487 TAATAAAAATT
1 TAATAAAAATT
*
23051498 TGATAAAAAATT
1 TAAT-AAAAATT
*
23051510 TAATTAAAATT
1 TAATAAAAATT
23051521 TAA
1 TAA
23051524 CATGTTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 8 0.26
11 13 0.42
12 10 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
TAATAAAAATT
Found at i:23054638 original size:11 final size:11
Alignment explanation
Indices: 23054622--23054648 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23054612 TCTTGTCGAA
23054622 AATTATAAAAT
1 AATTATAAAAT
23054633 AATTATAAAAT
1 AATTATAAAAT
23054644 AATTA
1 AATTA
23054649 AATTGTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:23059078 original size:18 final size:19
Alignment explanation
Indices: 23059050--23059086 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23059040 GCATTCACAT
23059050 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
23059069 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
23059087 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:23062504 original size:58 final size:58
Alignment explanation
Indices: 23062411--23062526 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
23062401 CAATAGAGGA
23062411 GCCACCTAAATTAGAACTGAAGGTACTTCCCTCACATTTGAAATATGTTTATTTAGGT
1 GCCACCTAAATTAGAACTGAAGGTACTTCCCTCACATTTGAAATATGTTTATTTAGGT
*
23062469 GCCACCTAAATTAGAACTGAAGGTACTTCCTTCACATTTGAAATATGTTTATTTAGGT
1 GCCACCTAAATTAGAACTGAAGGTACTTCCCTCACATTTGAAATATGTTTATTTAGGT
23062527 AACTCTTCTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (58 bp):
GCCACCTAAATTAGAACTGAAGGTACTTCCCTCACATTTGAAATATGTTTATTTAGGT
Found at i:23066210 original size:50 final size:50
Alignment explanation
Indices: 23066146--23066378 Score: 252
Period size: 50 Copynumber: 4.5 Consensus size: 50
23066136 TGGTACTACT
* * * *
23066146 AATGCCATATCCCAGATATGGTCTTAAATGGGAGCTCTCATATAGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATATCGGTGCC
* ** *
23066196 CATGCCATGTCCCAGACATGGTCTT-ACGGGCGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTAAATGG-GACCTCTCATATCGGTGCC
* * *
23066246 AATGCCATGTCCCACACATGGTCTTACATGGGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATATCGGTGCC
* * * *
23066296 AAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCC
1 -AATGCCATGTCCCAGACATGGTCTTAAATGGGACCTCTCAT-A--TC---GGTGCC
23066353 AATGCCATGTCCCAGACATGGTCTTA
1 AATGCCATGTCCCAGACATGGTCTTA
23066379 CATAGAATCT
Statistics
Matches: 154, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 3 0.02
50 80 0.52
51 40 0.26
54 2 0.01
56 24 0.16
57 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATATCGGTGCC
Found at i:23073229 original size:50 final size:50
Alignment explanation
Indices: 23073101--23073397 Score: 227
Period size: 50 Copynumber: 5.8 Consensus size: 50
23073091 GAATATAACA
* * * ** * * * *
23073101 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * * * * *
23073150 TGCCAATGTCATATCTCAGATATGCTCTTACATAGGAACTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * ** * * *
23073200 TGCCAATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCGTCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
23073250 TGCCAACGCCATGCCCCACACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
23073300 TGTCAACGCCATGTCCCAGACATGGTCTTACATAGTACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
* *
23073356 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23073398 TTACCCAAAT
Statistics
Matches: 192, Mismatches: 49, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
49 34 0.18
50 119 0.62
53 1 0.01
56 38 0.20
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:23081233 original size:18 final size:19
Alignment explanation
Indices: 23081205--23081241 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23081195 GCATTCACAT
23081205 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
23081224 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
23081242 TTCTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:23090669 original size:9 final size:9
Alignment explanation
Indices: 23090630--23090682 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
23090620 AGGTTAAGAA
23090630 AATT-ATTT
1 AATTAATTT
*
23090638 AATTAA-TA
1 AATTAATTT
*
23090646 AATTAACTT
1 AATTAATTT
*
23090655 AGTTAATTT
1 AATTAATTT
*
23090664 AATTAATTA
1 AATTAATTT
23090673 AATTAATTT
1 AATTAATTT
23090682 A
1 A
23090683 TAAATAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 11 0.31
9 25 0.69
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (9 bp):
AATTAATTT
Found at i:23090673 original size:13 final size:13
Alignment explanation
Indices: 23090636--23090680 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
23090626 AGAAAATTAT
23090636 TTAATTAA-TAAA
1 TTAATTAATTAAA
* *
23090648 TTAACTTAGTTAAT
1 TTAA-TTAATTAAA
23090662 TTAATTAATTAAA
1 TTAATTAATTAAA
23090675 TTAATT
1 TTAATT
23090681 TATAAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 4 0.15
13 16 0.59
14 7 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:23092393 original size:20 final size:21
Alignment explanation
Indices: 23092368--23092406 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
23092358 TAGGGAGTAG
23092368 TCTTTCACTTGA-TTAAAAAA
1 TCTTTCACTTGAGTTAAAAAA
23092388 TCTTTCACTTGAGTTAAAA
1 TCTTTCACTTGAGTTAAAA
23092407 TTATTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (21 bp):
TCTTTCACTTGAGTTAAAAAA
Found at i:23092653 original size:30 final size:31
Alignment explanation
Indices: 23092619--23092676 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
23092609 TATATTATAA
23092619 TAATAGTTATACATGTAT-TAA-TATTTTTAG
1 TAATAGTTATACAT-TATATAATTATTTTTAG
*
23092649 TAATAGTTATATATTATATAATTATTTT
1 TAATAGTTATACATTATATAATTATTTT
23092677 ATGTATTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 16 0.64
31 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (31 bp):
TAATAGTTATACATTATATAATTATTTTTAG
Found at i:23092677 original size:30 final size:31
Alignment explanation
Indices: 23092619--23092691 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
23092609 TATATTATAA
23092619 TAATAGTTATACATGTATTAATATTTTTA-G
1 TAATAGTTATACATGTATTAATATTTTTATG
*
23092649 TAATAGTTATATAT-TATATAAT-TATTTTATG
1 TAATAGTTATACATGTAT-TAATAT-TTTTATG
* *
23092680 TATTAGTAATAC
1 TAATAGTTATAC
23092692 TAATACATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.11
30 22 0.61
31 10 0.28
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (31 bp):
TAATAGTTATACATGTATTAATATTTTTATG
Found at i:23092686 original size:37 final size:41
Alignment explanation
Indices: 23092645--23092732 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 41
23092635 ATTAATATTT
* * *
23092645 TTAGTAATAGTTATATATTAT-ATA-ATTAT-T-TTATGTA
1 TTAGTAATACTAATACATTATAATATATTATATATTATGTA
23092682 TTAGTAATACTAATACATTATAATATATTATAATATTATGTA
1 TTAGTAATACTAATACATTATAATATATTAT-ATATTATGTA
23092724 TTAGTAATA
1 TTAGTAATA
23092733 TACTAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 18 0.42
38 3 0.07
39 5 0.12
41 1 0.02
42 16 0.37
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (41 bp):
TTAGTAATACTAATACATTATAATATATTATATATTATGTA
Found at i:23092883 original size:18 final size:18
Alignment explanation
Indices: 23092860--23092894 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23092850 ATAATTATAG
23092860 TATTAAATTAATATTTTA
1 TATTAAATTAATATTTTA
23092878 TATTAAATTAATATTTT
1 TATTAAATTAATATTTT
23092895 TTAAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTAAATTAATATTTTA
Found at i:23093952 original size:15 final size:16
Alignment explanation
Indices: 23093932--23093972 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23093922 GAATACACAT
23093932 GAATTTATATATAT-A
1 GAATTTATATATATAA
*
23093947 GAATTTAGAT-TATAA
1 GAATTTATATATATAA
*
23093962 AAATTTATATA
1 GAATTTATATA
23093973 AACAAAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
GAATTTATATATATAA
Found at i:23094163 original size:18 final size:19
Alignment explanation
Indices: 23094124--23094163 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23094114 GAATATTTTT
* *
23094124 TTAAAAATATATATATAGA
1 TTAAAAATATATAAATACA
23094143 TTAAAAATA-ATAAATACA
1 TTAAAAATATATAAATACA
23094161 TTA
1 TTA
23094164 TCGAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
TTAAAAATATATAAATACA
Found at i:23095901 original size:44 final size:44
Alignment explanation
Indices: 23095838--23096221 Score: 188
Period size: 44 Copynumber: 8.8 Consensus size: 44
23095828 TTTCTGGTTC
* * * *
23095838 TAATCCGCTCCATTGCAACTTCAAGGAGATAGGATTATTAGCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTT
* *
23095882 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--TAGCTT
* * *
23095927 CAGTCTGC-CTCACTGCAACTTC-GGGAGGATAAGACTTGCTTA-C-T
1 TAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATTAGCTT
* * * *
23095971 TAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTA-GATGC--
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTA-GCTT
* * * * * *
23096013 -GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAT-GTTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTAGCTT
* *** * *
23096055 TAATCCGCTCCACTGCAACTTCAAAAAGATAGGATTATCAGCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTT
* * * * * *
23096099 TAACCTGCTCCACTACAACTTTAGGGAGATAAGGTT-TGCAATCTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--TAGCTT
* * * * *
23096144 CAGTCTGC-CTTACTGCAACTTCA-GGAGGATAAAACTTGCTTA-C-T
1 TAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATTAGCTT
* *
23096188 TAGTCTGCTCCCCTGCAACTTCAGGGAGATAAGA
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
23096222 CTAGATGGGA
Statistics
Matches: 257, Mismatches: 56, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
40 23 0.09
41 8 0.03
43 11 0.04
44 144 0.56
45 63 0.25
46 6 0.02
48 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTT
Found at i:23096145 original size:217 final size:217
Alignment explanation
Indices: 23095754--23096309 Score: 833
Period size: 217 Copynumber: 2.5 Consensus size: 217
23095744 CTTCAATCTT
* *
23095754 CTCCTCTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * * *
23095819 GATCTAAGATTTCTGGTTCTAATCCGCTCCATTGCAACTTCAAGGAGATAGGATTATTAGCTTTA
66 GATC-CA-A----T-GTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTTTA
* * *
23095884 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
124 ACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTC
* *
23095949 GGGAGGATAAGACTTGCTTACTTAGTCTG
189 AGGAGGATAAAACTTGCTTACTTAGTCTG
*
23095978 CTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
**
23096043 GATCCAATGTTTTAATCCGCTCCACTGCAACTTCAAAAAGATAGGATTATCAGCTTTAACCTGCT
66 GATCCAATGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTTTAACCTGCT
* * *
23096108 CCACTACAACTTTAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTTACTGCAACTTCAGGAGGA
131 CCACTACAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
23096173 TAAAACTTGCTTACTTAGTCTG
196 TAAAACTTGCTTACTTAGTCTG
* * ** *
23096195 CTCCCCTGCAACTTCAGGGAGATAAGACTAGATGGGATCTGCTCTCTATAACTTCAGAAAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
23096260 GATCCAATGTTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTAT
66 GATCCAATGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTAT
23096310 TGGCCATGGA
Statistics
Matches: 305, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
217 236 0.77
218 1 0.00
222 1 0.00
223 1 0.00
224 66 0.22
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAATGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTTTAACCTGCT
CCACTACAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
TAAAACTTGCTTACTTAGTCTG
Found at i:23108422 original size:15 final size:16
Alignment explanation
Indices: 23108402--23108442 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23108392 GAATACACAT
23108402 GAATTTATATATAT-A
1 GAATTTATATATATAA
*
23108417 GAATTTAGAT-TATAA
1 GAATTTATATATATAA
*
23108432 AAATTTATATA
1 GAATTTATATA
23108443 AACAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
GAATTTATATATATAA
Found at i:23111812 original size:2 final size:2
Alignment explanation
Indices: 23111807--23111835 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23111797 ATCATCCATA
23111807 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 A
23111836 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23122322 original size:27 final size:27
Alignment explanation
Indices: 23122292--23122344 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
23122282 GGGGGTGGTG
* *
23122292 CCTATCTGGTAGGCGCCATTGGTGACC
1 CCTATCTGGTAGGCACCACTGGTGACC
23122319 CCTATCTGGTAGGCACCACTGGTGAC
1 CCTATCTGGTAGGCACCACTGGTGAC
23122345 TAGAGTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (27 bp):
CCTATCTGGTAGGCACCACTGGTGACC
Found at i:23122593 original size:21 final size:20
Alignment explanation
Indices: 23122555--23122594 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23122545 AATTTTAAAA
*
23122555 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
23122575 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
23122595 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:23126121 original size:44 final size:42
Alignment explanation
Indices: 23126071--23126158 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 42
23126061 AATTATAATT
*
23126071 TTAAATTCTAATTATTTTTAAATGTGTAATTACCACAACTTCTA
1 TTAAATTCTAATTATTTTTAAA--TATAATTACCACAACTTCTA
* * *
23126115 TTAAATTTTAATTATTTTTAAATATATTTATCACAACTTCTA
1 TTAAATTCTAATTATTTTTAAATATAATTACCACAACTTCTA
23126157 TT
1 TT
23126159 TTATTTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 19 0.47
44 21 0.52
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (42 bp):
TTAAATTCTAATTATTTTTAAATATAATTACCACAACTTCTA
Found at i:23144547 original size:13 final size:13
Alignment explanation
Indices: 23144529--23144557 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23144519 AGAGAGAGGT
23144529 AAATTTCATGGAG
1 AAATTTCATGGAG
23144542 AAATTTCATGGAG
1 AAATTTCATGGAG
23144555 AAA
1 AAA
23144558 GGTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (13 bp):
AAATTTCATGGAG
Found at i:23144908 original size:20 final size:18
Alignment explanation
Indices: 23144880--23144933 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
23144870 AAAATGATAA
*
23144880 AATCTAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT--TTTC
*
23144900 AATTAAGTTAAACATTTTC
1 AATCAAGTTAAA-ATTTTC
*
23144919 AATCATGTTAAAATT
1 AATCAAGTTAAAATT
23144934 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 10 0.34
21 2 0.07
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTC
Found at i:23150150 original size:21 final size:21
Alignment explanation
Indices: 23150126--23150179 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
23150116 ATGTTGAAAG
23150126 TAAATTAATAAAAAATAAGA-A
1 TAAATTAATAAAAAATAA-ATA
*
23150147 TAAATT-ATAAATAATAAATTA
1 TAAATTAATAAAAAATAAA-TA
23150168 TAAA-TAATAAAA
1 TAAATTAATAAAA
23150180 CAAGTAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.39
21 16 0.57
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAATTAATAAAAAATAAATA
Found at i:23150156 original size:7 final size:7
Alignment explanation
Indices: 23150126--23150178 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
23150116 ATGTTGAAAG
23150126 TAAATTAA
1 TAAA-TAA
*
23150134 TAAAAAA
1 TAAATAA
*
23150141 T-AAGAA
1 TAAATAA
*
23150147 TAAATTA
1 TAAATAA
23150154 TAAATAA
1 TAAATAA
*
23150161 TAAATTA
1 TAAATAA
23150168 TAAATAA
1 TAAATAA
23150175 TAAA
1 TAAA
23150179 ACAAGTAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
6 5 0.14
7 28 0.76
8 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (7 bp):
TAAATAA
Found at i:23150164 original size:14 final size:14
Alignment explanation
Indices: 23150145--23150178 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
23150135 AAAAAATAAG
23150145 AATAAATTATAAAT
1 AATAAATTATAAAT
23150159 AATAAATTATAAAT
1 AATAAATTATAAAT
23150173 AATAAA
1 AATAAA
23150179 ACAAGTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAATTATAAAT
Found at i:23151815 original size:22 final size:22
Alignment explanation
Indices: 23151785--23151827 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23151775 CCAGTATATG
* *
23151785 AGAGTCTTTTATGGGATGTATA
1 AGAGCCTTTTATGGGACGTATA
23151807 AGAGCCTTTTATGGGACGTAT
1 AGAGCCTTTTATGGGACGTAT
23151828 GAAAGCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (22 bp):
AGAGCCTTTTATGGGACGTATA
Found at i:23151834 original size:22 final size:22
Alignment explanation
Indices: 23151781--23151839 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
23151771 CGCACCAGTA
* * *
23151781 TATGAGAGTCTTTTATGGGATG
1 TATGAAAGCCTTTTATGGGACG
23151803 TAT-AAGAGCCTTTTATGGGACG
1 TATGAA-AGCCTTTTATGGGACG
*
23151825 TATGAAAGCCATTTA
1 TATGAAAGCCTTTTA
23151840 AGGGTAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (22 bp):
TATGAAAGCCTTTTATGGGACG
Found at i:23153001 original size:70 final size:66
Alignment explanation
Indices: 23152882--23153015 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 66
23152872 ACAATATAAC
* * *
23152882 GGTTTTGCCTTTTAACTTAATAGGTAAACATTTATCAAAATGACATAGTTTTGCATTTTTACTTA
1 GGTTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAATGACATAGTTCTGC-TTTTTACTTA
23152947 AT
65 AT
** *
23152949 GGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATGATGTAGTTCTGCTTTTTTCT
1 GGTTTTGACTTTTAAC-TT--AAAAGGTAAACATTTATCAAAATGACATAGTTCTGCTTTTTACT
23153014 TA
63 TA
23153016 TTTGGATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 15 0.26
68 2 0.03
69 9 0.16
70 32 0.55
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (66 bp):
GGTTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAATGACATAGTTCTGCTTTTTACTTAA
T
Found at i:23154209 original size:72 final size:72
Alignment explanation
Indices: 23154092--23154293 Score: 264
Period size: 72 Copynumber: 2.8 Consensus size: 72
23154082 GGATTTCATG
* * * *
23154092 ATCGATGACTTGAGATCTAACATGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATC-GAAT
1 ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
23154156 CAT-TGATT
66 -ATCT-ATT
* *
23154164 ATCGATGGCTTGAGATCCAACACGTGTTGCGGATTCTCTAAAGCTTGTGTGAGCAACATCAAAAT
1 ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
*
23154229 ATCTTTT
66 ATCTATT
* * * * *
23154236 ACCGATGGCTTGAGATTCAGCACGTGTTGTGAATTCTCTAAAGTTTGTGTGAGCAGCA
1 ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCA
23154294 CTAGGTAAAG
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
72 110 0.96
73 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (72 bp):
ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
ATCTATT
Found at i:23155302 original size:19 final size:21
Alignment explanation
Indices: 23155258--23155307 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
23155248 ACGGGATAAA
23155258 GTATCGATACTCTATATTAAG
1 GTATCGATACTCTATATTAAG
23155279 GTATCGATACT-T-TA-TAAGG
1 GTATCGATACTCTATATTAA-G
23155298 GTATCGATAC
1 GTATCGATAC
23155308 ATTGGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.11
19 13 0.46
20 1 0.04
21 11 0.39
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (21 bp):
GTATCGATACTCTATATTAAG
Found at i:23157872 original size:45 final size:44
Alignment explanation
Indices: 23157806--23158004 Score: 283
Period size: 45 Copynumber: 4.4 Consensus size: 44
23157796 AGTATACAGT
* * * *
23157806 AATCAGTAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTG
1 AATC-GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
23157851 AATCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AATC-GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
23157896 AATCGATAACAGTAACAGTAGCAGTATTCGACACACAAAGTGCCG
1 AATCG-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
23157941 AGTCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATC-GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
23157986 AATCAGT-ACAGTAACAGTA
1 AATC-GTAACAGTAACAGTA
23158005 GTCGGCACAT
Statistics
Matches: 140, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
44 13 0.09
45 126 0.90
46 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (44 bp):
AATCGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:23158027 original size:37 final size:38
Alignment explanation
Indices: 23157868--23158030 Score: 123
Period size: 45 Copynumber: 3.9 Consensus size: 38
23157858 AACAGTAACG
*
23157868 GTAACAGTATTCGACACACAAAGTGCCGAATC-GATAACA
1 GTAACAGTAGTCGACACACAAAGTGCCGAATCAG-T-ACA
*
23157907 GTAACAGTAGCAGTATTCGACACACAAAGTGCCGAGTCGGTAACAGTAACA
1 GTAACAGT---AG---TCGACACACAAAGTGCCGA------ATCAGT-ACA
*
23157958 GTAACAGTATTCGACACACAAAGTGCCGAATCAGTACA
1 GTAACAGTAGTCGACACACAAAGTGCCGAATCAGTACA
* * *
23157996 GTAACAGTAGTCGGCACA-TAAGTGCCTAATCAGTA
1 GTAACAGTAGTCGACACACAAAGTGCCGAATCAGTA
23158031 AGCCGGCAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
37 15 0.15
38 19 0.18
39 13 0.13
42 1 0.01
45 38 0.37
48 1 0.01
51 15 0.15
52 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (38 bp):
GTAACAGTAGTCGACACACAAAGTGCCGAATCAGTACA
Found at i:23164429 original size:24 final size:24
Alignment explanation
Indices: 23164397--23164470 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
23164387 TTAACGATAG
23164397 TTCTTTCTTCTTTATTTTTTTATT
1 TTCTTTCTTCTTTATTTTTTTATT
** * *
23164421 TTCTTTCTTCTTTATCATTTCATC
1 TTCTTTCTTCTTTATTTTTTTATT
23164445 TTC-TTCTT-TTTCATTTTATTTATT
1 TTCTTTCTTCTTT-ATTTT-TTTATT
23164469 TT
1 TT
23164471 GCTAATCGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 3 0.08
23 8 0.20
24 29 0.73
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (24 bp):
TTCTTTCTTCTTTATTTTTTTATT
Found at i:23165277 original size:62 final size:61
Alignment explanation
Indices: 23165114--23165325 Score: 212
Period size: 62 Copynumber: 3.4 Consensus size: 61
23165104 GTGTAGGGTT
* * * *
23165114 CACACGGCCAAGGACATGGGCATGTGTCTAGGCCGTGTAACTCACTATTTGTGGTATAAGAC
1 CACACAGCCAAGGACACGGGCATGTGTCT-GGGCGTGTAACTCACTATTTATGGTATAAGAC
* * *
23165176 CACA-AGCCCAATGACACGGGCATGTGTCTGAGCTATGTAACTCACTATTTATGGTATAAGAC
1 CACACAG-CCAAGGACACGGGCATGTGTCTGGGC-GTGTAACTCACTATTTATGGTATAAGAC
* * * * * *
23165238 CACACAGCCAAGGACACAGGCATGTGTTTGGGTCGTGTAACTCGA-TGTTTGTGGTGTAAAAC
1 CACACAGCCAAGGACACGGGCATGTGTCTGGG-CGTGTAACTC-ACTATTTATGGTATAAGAC
** * *
23165300 CACATGGCCAGGGACATGGGCATGTG
1 CACACAGCCAAGGACACGGGCATGTG
23165326 CCCAGGCCGT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
61 3 0.02
62 117 0.94
63 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (61 bp):
CACACAGCCAAGGACACGGGCATGTGTCTGGGCGTGTAACTCACTATTTATGGTATAAGAC
Found at i:23171517 original size:34 final size:34
Alignment explanation
Indices: 23171473--23171543 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
23171463 TACGCTTAGG
* *
23171473 AAAACTCAGTGATATTTCTATAATCCAAACATTT
1 AAAACACAGTGATATTTCAATAATCCAAACATTT
*
23171507 AAAACACAGTGATATTTCAATAATCCGAACATTT
1 AAAACACAGTGATATTTCAATAATCCAAACATTT
23171541 AAA
1 AAA
23171544 GACAAGAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (34 bp):
AAAACACAGTGATATTTCAATAATCCAAACATTT
Found at i:23173049 original size:16 final size:16
Alignment explanation
Indices: 23173028--23173058 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23173018 GCATGGCTTT
23173028 CTATTTCTTTTATTAC
1 CTATTTCTTTTATTAC
*
23173044 CTATTTGTTTTATTA
1 CTATTTCTTTTATTA
23173059 TACTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (16 bp):
CTATTTCTTTTATTAC
Found at i:23175558 original size:14 final size:14
Alignment explanation
Indices: 23175539--23175565 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23175529 GGAACCCTAC
23175539 AATAAAAAAACAAA
1 AATAAAAAAACAAA
23175553 AATAAAAAAACAA
1 AATAAAAAAACAA
23175566 GGTGGGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AATAAAAAAACAAA
Found at i:23176214 original size:18 final size:19
Alignment explanation
Indices: 23176172--23176214 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23176162 GGAGAGGAGG
*
23176172 ATTGACAAGGAAGTGCAAC
1 ATTGAGAAGGAAGTGCAAC
* *
23176191 AGTGAGAAGGAGGTG-AAC
1 ATTGAGAAGGAAGTGCAAC
23176209 ATTGAG
1 ATTGAG
23176215 CAGCCAGTGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.40, C:0.09, G:0.35, T:0.16
Consensus pattern (19 bp):
ATTGAGAAGGAAGTGCAAC
Found at i:23182835 original size:22 final size:23
Alignment explanation
Indices: 23182792--23182837 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
23182782 CAGGTTTTAC
23182792 TGTCTAGCTGCTGCCGATTTTAATT
1 TGTCTAGCTGCTGCC-A-TTTAATT
*
23182817 TGTCTTGCTGCTGCC-TTTAAT
1 TGTCTAGCTGCTGCCATTTAAT
23182838 ATGATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
25 14 0.70
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.46
Consensus pattern (23 bp):
TGTCTAGCTGCTGCCATTTAATT
Found at i:23185915 original size:85 final size:85
Alignment explanation
Indices: 23185757--23185926 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 85
23185747 TTAGATAAAA
* ** * *
23185757 ATATTTACAGTTACTACCACTTGTTGTGAGTAAACAACATGGTTGCAGATTAAGCAAACTGCCAC
1 ATATTTACAATTACTACCACTTGTTGTGAGTAAACAACATAATTGCAGATTAAACAAACTACCAC
23185822 TAGGTTTGTGGACGAGCCAC
66 TAGGTTTGTGGACGAGCCAC
* * * * *
23185842 ATATTTACAATTACTGCCACTTGTTGTGAGT-GACAATATAATTGCATATTAAATAAACTACCAC
1 ATATTTACAATTACTACCACTTGTTGTGAGTAAACAACATAATTGCAGATTAAACAAACTACCAC
*
23185906 TAGGTTTTGTGGATGAGCCAC
66 TAGG-TTTGTGGACGAGCCAC
23185927 TACTTGTTTG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 29 0.40
85 44 0.60
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (85 bp):
ATATTTACAATTACTACCACTTGTTGTGAGTAAACAACATAATTGCAGATTAAACAAACTACCAC
TAGGTTTGTGGACGAGCCAC
Found at i:23186492 original size:28 final size:28
Alignment explanation
Indices: 23186434--23186602 Score: 107
Period size: 27 Copynumber: 5.9 Consensus size: 28
23186424 TAAAATTTTA
* * * *
23186434 GGTAAAACTGTAAAATCTAAAAAATA-G
1 GGTAAAATTGTAAATTTTGAAAAATAGG
23186461 GGTAAAATTGTAAATTTTGAAAAATAGG
1 GGTAAAATTGTAAATTTTGAAAAATAGG
* * *
23186489 GGTAAAACTGTAAAGTTTG-AAAATAAGC
1 GGTAAAATTGTAAATTTTGAAAAAT-AGG
* * *
23186517 GCT-AAATTGGAAATTTGGGAAAACATA--
1 GGTAAAATTGTAAATTT-TGAAAA-ATAGG
*
23186544 GGCAAAACTT-TAAATTTTGGAAAAAAAATAGG
1 GGTAAAA-TTGTAAATTTT-G---AAAAATAGG
*
23186576 GGTAAAATTGTAAAATTTTAAAAAATA
1 GGTAAAATTGT-AAATTTTGAAAAATA
23186603 AGAGCTAAAC
Statistics
Matches: 109, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
27 38 0.35
28 33 0.30
29 13 0.12
30 5 0.05
31 6 0.06
32 7 0.06
33 7 0.06
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (28 bp):
GGTAAAATTGTAAATTTTGAAAAATAGG
Found at i:23186618 original size:29 final size:29
Alignment explanation
Indices: 23186586--23186656 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
23186576 GGTAAAATTG
* * *
23186586 TAAAATTTTAAAAAAT-AAGAGCTAAACTA
1 TAAAATTTGAAAAAATAAAG-GCAAAAATA
*
23186615 TAAAATTTGGAAAAATAAAGGCAAAAATA
1 TAAAATTTGAAAAAATAAAGGCAAAAATA
23186644 TAAAATTTGAAAA
1 TAAAATTTGAAAA
23186657 TTAGTGGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 33 0.92
30 3 0.08
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (29 bp):
TAAAATTTGAAAAAATAAAGGCAAAAATA
Found at i:23186711 original size:28 final size:27
Alignment explanation
Indices: 23186679--23186770 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
23186669 TTATATATTT
*
23186679 TAAAACATAGGGGAAAACTGTAAAATC
1 TAAAAAATAGGGGAAAACTGTAAAATC
*
23186706 TAAAAAATA-GGGACTAAACTATAAAATC
1 TAAAAAATAGGGGA--AAACTGTAAAATC
* **
23186734 TGGAAAGCT-GGGGCAAAA-TGTAAAATC
1 T-AAAAAATAGGGG-AAAACTGTAAAATC
23186761 TAAAAAATAG
1 TAAAAAATAG
23186771 AGGACACACG
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
26 8 0.16
27 18 0.36
28 16 0.32
29 7 0.14
30 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (27 bp):
TAAAAAATAGGGGAAAACTGTAAAATC
Found at i:23187324 original size:319 final size:319
Alignment explanation
Indices: 23186745--23187378 Score: 1072
Period size: 319 Copynumber: 2.0 Consensus size: 319
23186735 GGAAAGCTGG
*
23186745 GGCAAAATGTAAAATCTAAAAAATAGAGGACACACGACCATCTGACTGGATCGTGTGGAAAGCCC
1 GGCAAAATGTAAAATCTAAAAAATAGAGGACACACGACCATCTGACTGGATCGTATGGAAAGCCC
23186810 TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
66 TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
*
23186875 AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGCCGTGTACCCTATCTTAGGC
131 AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGCCGTGTACCCTATCCTAGGC
* *
23186940 ATAGTTTTGCCTGATTGACTTGTAAAAGAACACACTCATGTTACCAAGATCTTGAACGACATTCC
196 ACAGTTTTGCCTGATTGACTTGTAAAAGAACACACTCATATTACCAAGATCTTGAACGACATTCC
* *
23187005 TGACGTTTGAATCTGGTCTGGGGTACCTAAATCGGGTCCTTCAAACGATATTTATCCTA
261 TCACGTTTGAATCTGGTCTGGGGTACCTAAATCGGGTCCTTCAAACAATATTTATCCTA
* * * *
23187064 GGCAAAATGTAAAATCTAAAAAATAGGGGACACACGATCGTCTGACTGGATTGTATGGAAAGCCC
1 GGCAAAATGTAAAATCTAAAAAATAGAGGACACACGACCATCTGACTGGATCGTATGGAAAGCCC
* * * *
23187129 TGGACCGTGTAGAGAGGTTATATGGTCGTGTGGCTGGATCATGTAATAGACTAAGGTTGTGTGAG
66 TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
* * *
23187194 AGTCGAAAAACCTAGGGTTTTAGGGGAACATGTTTGTGTGA-GGGCCTGTGTGCCCTATCCTAGG
131 AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGCC-GTGTACCCTATCCTAGG
* * *
23187258 CACAGTTTTGCCTGATTTACTTGTAAAAGAACACACTCCTATTACCAAGATCTTGAGCGACATTC
195 CACAGTTTTGCCTGATTGACTTGTAAAAGAACACACTCATATTACCAAGATCTTGAACGACATTC
23187323 CTCACGTTTGAATCTGGTCTGGGGTACCTAAATCGGGTCCTTCAAACAATATTTAT
260 CTCACGTTTGAATCTGGTCTGGGGTACCTAAATCGGGTCCTTCAAACAATATTTAT
23187379 ACACGGTTTA
Statistics
Matches: 294, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
318 5 0.02
319 289 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (319 bp):
GGCAAAATGTAAAATCTAAAAAATAGAGGACACACGACCATCTGACTGGATCGTATGGAAAGCCC
TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGCCGTGTACCCTATCCTAGGC
ACAGTTTTGCCTGATTGACTTGTAAAAGAACACACTCATATTACCAAGATCTTGAACGACATTCC
TCACGTTTGAATCTGGTCTGGGGTACCTAAATCGGGTCCTTCAAACAATATTTATCCTA
Found at i:23188520 original size:94 final size:94
Alignment explanation
Indices: 23188355--23188530 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 94
23188345 GTTACAAGAA
* * *
23188355 GTGAGCTATGAGAGTATTTTCTAGTCAATATGGGATTAAAATTAACTTTTTAATGAAATAGTAAA
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAATAGTAAA
*
23188420 AAAAATTGTCACTTATTTATAAGATAAAT
66 AAAAATTGACACTTATTTATAAGATAAAT
* *
23188449 GTGAGATATGAGAGTATTCTCTAGTCAATGTGAGATTAAAATT-ATTCTTTTAATGAAAATAGT-
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACT-TTTTAATG-AAATAGTA
* *
23188512 GAAGAAATTGACACTTATT
64 AAAAAAATTGACACTTATT
23188531 GTAAGCACGA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
93 2 0.03
94 63 0.88
95 7 0.10
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (94 bp):
GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAATAGTAAA
AAAAATTGACACTTATTTATAAGATAAAT
Found at i:23188681 original size:21 final size:22
Alignment explanation
Indices: 23188640--23188681 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23188630 TAGCCAATGT
23188640 GGGATTAAAATTAACTTTTTAA
1 GGGATTAAAATTAACTTTTTAA
23188662 GGGATTAAAATTAA-TTTTTA
1 GGGATTAAAATTAACTTTTTA
23188682 CTGAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
GGGATTAAAATTAACTTTTTAA
Found at i:23188797 original size:69 final size:68
Alignment explanation
Indices: 23188663--23188832 Score: 220
Period size: 69 Copynumber: 2.5 Consensus size: 68
23188653 ACTTTTTAAG
* * * * * *
23188663 GGATTAAAATTAA-TTTTTACTGAAAATATGAAGAAGAGAGCTATGAGAATATTTTTTAGTCAAT
1 GGATTAAAATTAACTTTTTAATGAAAATATGAAGAAGAGAACTATAAGAATATTCTCTAATCAAT
23188727 GT-
66 GTA
* *
23188729 GAGATTAAAATTAACTTTTTAATGAAAATATTGAAGAAGTGAACTATAAGAGTATTCTCTAATCA
1 G-GATTAAAATTAACTTTTTAATGAAAATA-TGAAGAAGAGAACTATAAGAATATTCTCTAATCA
23188794 ATGTA
64 ATGTA
23188799 GGATTAAAA-TAACTTTTTAATGAAAATAATGAAG
1 GGATTAAAATTAACTTTTTAATGAAAAT-ATGAAG
23188833 GAATTATCAC
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
66 1 0.01
67 12 0.13
68 37 0.41
69 40 0.44
70 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (68 bp):
GGATTAAAATTAACTTTTTAATGAAAATATGAAGAAGAGAACTATAAGAATATTCTCTAATCAAT
GTA
Found at i:23189158 original size:22 final size:22
Alignment explanation
Indices: 23189127--23189168 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23189117 TAATTTTAAA
23189127 AATAAAATATAATTTAAAATAT
1 AATAAAATATAATTTAAAATAT
* * *
23189149 AATAATATATTATTTTAAAT
1 AATAAAATATAATTTAAAAT
23189169 TGATTTATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAAAATATAATTTAAAATAT
Found at i:23190207 original size:31 final size:31
Alignment explanation
Indices: 23190169--23190236 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
23190159 TAAAAATAAT
23190169 AAAAACATGAAAACAATATATTTATTAATTA
1 AAAAACATGAAAACAATATATTTATTAATTA
*
23190200 AAAAACATGAAAATAATATATTTATTAATTA
1 AAAAACATGAAAACAATATATTTATTAATTA
23190231 AAAAAC
1 AAAAAC
23190237 TTAGAACAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAACATGAAAACAATATATTTATTAATTA
Done.