Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 39 of 182
Found at i:12350672 original size:18 final size:17
Alignment explanation
Indices: 12350644--12350678 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12350634 ATTATTAAGA
*
12350644 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12350661 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12350679 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12350892 original size:44 final size:45
Alignment explanation
Indices: 12350843--12350933 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
12350833 ACCTCTATTC
* * *
12350843 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
12350887 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
12350932 CA
1 CA
12350934 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:12350935 original size:16 final size:16
Alignment explanation
Indices: 12350914--12350982 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
12350904 GATTAGCTAT
12350914 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12350930 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
12350947 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
12350963 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
12350979 TACA
1 TACA
12350983 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12350956 original size:33 final size:32
Alignment explanation
Indices: 12350914--12350982 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
12350904 GATTAGCTAT
12350914 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
12350947 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
12350979 TACA
1 TACA
12350983 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:12357865 original size:21 final size:21
Alignment explanation
Indices: 12357841--12357882 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
12357831 ATCATATAAT
12357841 CAATTATTAATCCAACTCCAC
1 CAATTATTAATCCAACTCCAC
12357862 CAATTATTAATCCAACTCCAC
1 CAATTATTAATCCAACTCCAC
12357883 ATGTTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (21 bp):
CAATTATTAATCCAACTCCAC
Found at i:12360806 original size:31 final size:32
Alignment explanation
Indices: 12360743--12360807 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
12360733 AAAAACTTAA
12360743 TAGTGCAGTAAAATAAAAATTTTCGAAAAGTT
1 TAGTGCAGTAAAATAAAAATTTTCGAAAAGTT
* * *
12360775 TAGTG-AGTTAAATGAAAACTTTT-GAATAGTT
1 TAGTGCAGTAAAAT-AAAAATTTTCGAAAAGTT
12360806 TA
1 TA
12360808 ATGACTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.35
Consensus pattern (32 bp):
TAGTGCAGTAAAATAAAAATTTTCGAAAAGTT
Found at i:12365600 original size:25 final size:25
Alignment explanation
Indices: 12365566--12365613 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
12365556 TTAATTTAAT
*
12365566 TTTGAGTTAAGATTATTT-AAATTTA
1 TTTGAATTAAG-TTATTTCAAATTTA
12365591 TTTGAATTAAGTTATTTCAAATT
1 TTTGAATTAAGTTATTTCAAATT
12365614 CAAAGCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (25 bp):
TTTGAATTAAGTTATTTCAAATTTA
Found at i:12368756 original size:21 final size:20
Alignment explanation
Indices: 12368727--12368779 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
12368717 AATAATAAAA
*
12368727 TAAATAAATAATTCATGAAGT
1 TAAAAAAATAATTC-TGAAGT
* *
12368748 TAAAAAAATAATTCTTAATT
1 TAAAAAAATAATTCTGAAGT
12368768 TAAAGAAAATAA
1 TAAA-AAAATAA
12368780 ACGTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAAAAAATAATTCTGAAGT
Found at i:12375538 original size:20 final size:20
Alignment explanation
Indices: 12375513--12375553 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12375503 AATGCAAGCA
12375513 ACCTACGGTTCTTGCTCTTC
1 ACCTACGGTTCTTGCTCTTC
12375533 ACCTACGGTTCTTGCTCTTC
1 ACCTACGGTTCTTGCTCTTC
12375553 A
1 A
12375554 ATTTACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.34, G:0.15, T:0.39
Consensus pattern (20 bp):
ACCTACGGTTCTTGCTCTTC
Found at i:12378641 original size:12 final size:14
Alignment explanation
Indices: 12378607--12378639 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12378597 CAAATACACC
12378607 TTTTATTAACATTAA
1 TTTT-TTAACATTAA
12378622 TTTTTTAA-ATTAA
1 TTTTTTAACATTAA
12378635 TTTTT
1 TTTTT
12378640 AATACTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 4 0.22
15 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTTAACATTAA
Found at i:12389029 original size:3 final size:3
Alignment explanation
Indices: 12389014--12389092 Score: 68
Period size: 3 Copynumber: 25.7 Consensus size: 3
12389004 AAAAAGTATT
* ** * * * **
12389014 TAA TAA TAT TAA TAA TAA TGC TAA TAA TAA TAA TTA TTA TAA TAG TTT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12389062 TAA TAA TAA TATA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TA-A TAA TAA T-AA TAA TAA TA
12389093 GCACATATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
3 55 0.90
4 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:12393121 original size:17 final size:19
Alignment explanation
Indices: 12393089--12393123 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
12393079 ATGAATATTC
12393089 TTGTATTTATATTTAATTT
1 TTGTATTTATATTTAATTT
12393108 TTGT-TTTA-ATTTAATT
1 TTGTATTTATATTTAATT
12393124 ATATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (19 bp):
TTGTATTTATATTTAATTT
Found at i:12396416 original size:95 final size:95
Alignment explanation
Indices: 12396301--12396490 Score: 362
Period size: 95 Copynumber: 2.0 Consensus size: 95
12396291 ATCCAACCTT
12396301 TTCAAAATTAGATTCAATTTATGTGCATACTGCACACCCATTTATGTCTAGGGAATGTACCTATA
1 TTCAAAATTAGATTCAATTTATGTGCATACTGCACACCCATTTATGTCTAGGGAATGTACCTATA
12396366 CAATTAGGAAATAAAAGTAATTGAATGAAA
66 CAATTAGGAAATAAAAGTAATTGAATGAAA
*
12396396 TTCAAAATTAGATTCAATTTATGTGCATACTGCACACCCATTTATGTCTAGGGAATGTACGTATA
1 TTCAAAATTAGATTCAATTTATGTGCATACTGCACACCCATTTATGTCTAGGGAATGTACCTATA
*
12396461 CAATTAGTAAATAAAAGTAATTGAATGAAA
66 CAATTAGGAAATAAAAGTAATTGAATGAAA
12396491 CAGTAGATTA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (95 bp):
TTCAAAATTAGATTCAATTTATGTGCATACTGCACACCCATTTATGTCTAGGGAATGTACCTATA
CAATTAGGAAATAAAAGTAATTGAATGAAA
Found at i:12397323 original size:14 final size:14
Alignment explanation
Indices: 12397304--12397331 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12397294 TACCTCTTGA
12397304 AATACCCTATTAGC
1 AATACCCTATTAGC
12397318 AATACCCTATTAGC
1 AATACCCTATTAGC
12397332 GGGCACAATT
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:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
AATACCCTATTAGC
Found at i:12405648 original size:26 final size:26
Alignment explanation
Indices: 12405615--12405700 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
12405605 ATTGCAGATC
*
12405615 TTATGAGCGTCTTG-TTATATGGCTCT
1 TTATGAGCGTCTTGATTA-AAGGCTCT
*
12405641 TTATGAGCTTCTTGATTAAAGGCTCT
1 TTATGAGCGTCTTGATTAAAGGCTCT
* * ** *
12405667 TTGTGAGCTTCCCGATTAAAGGCTTT
1 TTATGAGCGTCTTGATTAAAGGCTCT
*
12405693 TTGTGAGC
1 TTATGAGC
12405701 TTCCCGTTAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 50 0.94
27 3 0.06
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (26 bp):
TTATGAGCGTCTTGATTAAAGGCTCT
Found at i:12405701 original size:26 final size:26
Alignment explanation
Indices: 12405635--12405706 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
12405625 CTTGTTATAT
* **
12405635 GGCTCTTTATGAGCTTCTTGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
12405661 GGCTCTTTGTGAGCTTCCCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
*
12405687 GGCTTTTTGTGAGCTTCCCG
1 GGCTCTTTGTGAGCTTCCCG
12405707 TTAGTGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:12405876 original size:24 final size:25
Alignment explanation
Indices: 12405817--12405879 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
12405807 AGGCTCTTTG
* **
12405817 TGAGCTTCCCGTTATATTGCCCAGA
1 TGAGCTTCCCGTTACAAGGCCCAGA
* *
12405842 TAAGCTTCCCGTTACAAGGCTCA-A
1 TGAGCTTCCCGTTACAAGGCCCAGA
12405866 TGAGCTTCCCGTTA
1 TGAGCTTCCCGTTA
12405880 TAGTGCTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (25 bp):
TGAGCTTCCCGTTACAAGGCCCAGA
Found at i:12424420 original size:22 final size:22
Alignment explanation
Indices: 12424386--12424434 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12424376 TTAGTTTACC
* *
12424386 AAATTGAATTAAAAATGTTATT
1 AAATTAAACTAAAAATGTTATT
*
12424408 AAATTAAACTAAAAGTGTTATT
1 AAATTAAACTAAAAATGTTATT
12424430 AAATT
1 AAATT
12424435 TATCATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (22 bp):
AAATTAAACTAAAAATGTTATT
Found at i:12424470 original size:18 final size:16
Alignment explanation
Indices: 12424429--12424481 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 16
12424419 AAAGTGTTAT
12424429 TAAATTTATCATAAAAATA
1 TAAATTTAT-A-AAAAA-A
12424448 TAAATTCTATAAAAAAA
1 TAAATT-TATAAAAAAA
*
12424465 TCAAATTTTTAAAAAAA
1 T-AAATTTATAAAAAAA
12424482 CTTTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 11 0.35
18 10 0.32
19 7 0.23
20 3 0.10
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATTTATAAAAAAA
Found at i:12425498 original size:22 final size:22
Alignment explanation
Indices: 12425455--12425518 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
12425445 ATATGTTATA
*
12425455 TTAAAATATTTTAAATTTAAAAT
1 TTAAAATATTTTAAA-TAAAAAT
12425478 TTAAAATATTTATAAA-AAAAAT
1 TTAAAATATTT-TAAATAAAAAT
12425500 TTAAAA-ATTTTAACATAAA
1 TTAAAATATTTTAA-ATAAA
12425519 GTACATGTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 14 0.38
23 11 0.30
24 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAATATTTTAAATAAAAAT
Found at i:12428944 original size:16 final size:16
Alignment explanation
Indices: 12428923--12428954 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12428913 TTAGAATCTA
12428923 GTCTCAATGAAATTTG
1 GTCTCAATGAAATTTG
12428939 GTCTCAATGAAATTTG
1 GTCTCAATGAAATTTG
12428955 CTTCAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
GTCTCAATGAAATTTG
Found at i:12431885 original size:16 final size:16
Alignment explanation
Indices: 12431864--12431895 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12431854 TTAGAATCTA
12431864 GTCTCAATGAAATTTG
1 GTCTCAATGAAATTTG
12431880 GTCTCAATGAAATTTG
1 GTCTCAATGAAATTTG
12431896 CTTCAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
GTCTCAATGAAATTTG
Found at i:12433181 original size:12 final size:13
Alignment explanation
Indices: 12433151--12433185 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
12433141 ATTGTTTTTA
*
12433151 ATAACTTAATTTG
1 ATAATTTAATTTG
12433164 ATAATTTAATTT-
1 ATAATTTAATTTG
12433176 ATAATTTAAT
1 ATAATTTAAT
12433186 ATCAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (13 bp):
ATAATTTAATTTG
Found at i:12449310 original size:132 final size:134
Alignment explanation
Indices: 12449142--12449384 Score: 314
Period size: 132 Copynumber: 1.8 Consensus size: 134
12449132 CCTTACTTAT
12449142 AAGGCATCAAACTACTTGCCATTCGACCCCATAAGATGAATACATCTAAGCCCATTTCTTAATAC
1 AAGGCATCAAACTACTTGCCATTCGACCCCATAAGATGAATACATCTAAGCCCATTTCTTAATAC
12449207 -TATGCACTAA-TTTTTTTAG-TACATTTATAATTAACTCACACACATTTATTTGAATCTGAGAC
66 TTA-GCACTAATTTTTTTTAGCTACATTTATAATTAACTCACACACATTTATTTGAATCTGAGAC
12449269 CATAA
130 CATAA
** * * * *** *
12449274 AAGGCATCAAACTACTTGTTATTTGACCTC-TAAAGATGAGTGGGTCTAAGCCCATTTCTTCATA
1 AAGGCATCAAACTACTTGCCATTCGACCCCAT-AAGATGAATACATCTAAGCCCATTTCTTAATA
* *
12449338 CTTAGCACTAACTTTTTTTTTTTGCTATATTTATAATTAACTCACAC
65 CTTAGCACTAA---TTTTTTTTAGCTACATTTATAATTAACTCACAC
12449385 GCCTCGAGTT
Statistics
Matches: 93, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
131 1 0.01
132 61 0.66
133 2 0.02
136 8 0.09
137 21 0.23
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (134 bp):
AAGGCATCAAACTACTTGCCATTCGACCCCATAAGATGAATACATCTAAGCCCATTTCTTAATAC
TTAGCACTAATTTTTTTTAGCTACATTTATAATTAACTCACACACATTTATTTGAATCTGAGACC
ATAA
Found at i:12456650 original size:19 final size:19
Alignment explanation
Indices: 12456626--12456683 Score: 89
Period size: 19 Copynumber: 3.0 Consensus size: 19
12456616 CACTCACTCT
12456626 TTTTTCGGTTTTATTTTAA
1 TTTTTCGGTTTTATTTTAA
12456645 TTTTTCGGTTTTATTTTAA
1 TTTTTCGGTTTTATTTTAA
* *
12456664 TTTTTAGTTTTTACTTTTAA
1 TTTTTCGGTTTTA-TTTTAA
12456684 AGGTTATACG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 30 0.83
20 6 0.17
ACGTcount: A:0.17, C:0.05, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTTTCGGTTTTATTTTAA
Found at i:12468652 original size:26 final size:26
Alignment explanation
Indices: 12468597--12468657 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
12468587 TTCTTTTATT
*
12468597 AAATATATATACATATTAAAAAATAT
1 AAATATATATACATATTAAAAAATAA
* **
12468623 AAATATATATATATA-TAAATTCATAA
1 AAATATATATACATATTAAA-AAATAA
12468649 AAATATATA
1 AAATATATA
12468658 ATTTAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATATATATACATATTAAAAAATAA
Found at i:12468736 original size:25 final size:24
Alignment explanation
Indices: 12468683--12468746 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
12468673 TATAAATTAT
*
12468683 TAAAATTATTAAA-AACAAAAATA
1 TAAAATTATTAAATTACAAAAATA
12468706 TAAAATT-TTAATATTACAATAAATA
1 TAAAATTATTAA-ATTACAA-AAATA
*
12468731 TTAAATTATTAAATTA
1 TAAAATTATTAAATTA
12468747 TTTATAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 8 0.23
24 4 0.11
25 15 0.43
26 4 0.11
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATTATTAAATTACAAAAATA
Found at i:12468849 original size:23 final size:24
Alignment explanation
Indices: 12468822--12468878 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
12468812 TTCTATACTT
12468822 TATATTTTTTTCT-AGA-TTTTATA
1 TATATTTTTTTCTGA-ATTTTTATA
*
12468845 TATA-TATTTTCTGAATTTTTATA
1 TATATTTTTTTCTGAATTTTTATA
*
12468868 TATATATTTTT
1 TATATTTTTTT
12468879 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.29
23 16 0.57
24 4 0.14
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TATATTTTTTTCTGAATTTTTATA
Found at i:12468867 original size:21 final size:21
Alignment explanation
Indices: 12468820--12468872 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
12468810 TTTTCTATAC
*
12468820 TTTATAT-TTTTTTCTAGATT
1 TTTATATATATTTTCTAGATT
12468840 TTATATATATATTTTCT-GAATT
1 TT-TATATATATTTTCTAG-ATT
12468862 TTTATATATAT
1 TTTATATATAT
12468873 ATTTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.07
21 15 0.52
22 12 0.41
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTATATATATTTTCTAGATT
Found at i:12471225 original size:27 final size:26
Alignment explanation
Indices: 12471195--12471253 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
12471185 GCACATAATT
12471195 AGGAAGCACTC-TCTCGAGCCATATAAC
1 AGGAAGC-CTCATCT-GAGCCATATAAC
* *
12471222 AGGAAG-CTCATGTGAGCCATGTAAC
1 AGGAAGCCTCATCTGAGCCATATAAC
12471247 AGGAAGC
1 AGGAAGC
12471254 TTATCCGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 20 0.71
26 2 0.07
27 6 0.21
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (26 bp):
AGGAAGCCTCATCTGAGCCATATAAC
Found at i:12471503 original size:64 final size:64
Alignment explanation
Indices: 12471415--12471534 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
12471405 GCTATATCGA
* * * *** *
12471415 GACGCTTATAAAGAGTTGCAGTATGTCCGCAATTTATGTAGGATCAATACCGATCATATAACAG
1 GACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAGGATCAATACCGATCATATAACAG
* *
12471479 GACGCTCACAAAGAGCTGCGGTATGTTCGCAACACATGCAGGATCAATACCGATCA
1 GACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAGGATCAATACCGATCA
12471535 AGATGCTAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (64 bp):
GACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAGGATCAATACCGATCATATAACAG
Found at i:12475916 original size:33 final size:33
Alignment explanation
Indices: 12475869--12475934 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
12475859 AAAGTATTTA
12475869 CGTATTTACATATGTTTTGGTCTTATGATCATT
1 CGTATTTACATATGTTTTGGTCTTATGATCATT
** *
12475902 CGTATTTATGTATGTTTTGGTCTTGTGATCATT
1 CGTATTTACATATGTTTTGGTCTTATGATCATT
12475935 AGTTTTCAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (33 bp):
CGTATTTACATATGTTTTGGTCTTATGATCATT
Found at i:12476738 original size:138 final size:138
Alignment explanation
Indices: 12476490--12476765 Score: 543
Period size: 138 Copynumber: 2.0 Consensus size: 138
12476480 ATCTTTTGAG
12476490 GAAATCTCGAAACATGCCAAGAACAAGAAGATAGCTGTTTTCCTAGATTATGATGGTACTCTTTC
1 GAAATCTCGAAACATGCCAAGAACAAGAAGATAGCTGTTTTCCTAGATTATGATGGTACTCTTTC
12476555 TCCTATCGTAGATGATCCAGATCGAGCTTTTATGTCTGATGCTGTAAGTATGACAGTCTATTTCA
66 TCCTATCGTAGATGATCCAGATCGAGCTTTTATGTCTGATGCTGTAAGTATGACAGTCTATTTCA
12476620 ATGCTTGC
131 ATGCTTGC
*
12476628 GAAATCTCGAGACATGCCAAGAACAAGAAGATAGCTGTTTTCCTAGATTATGATGGTACTCTTTC
1 GAAATCTCGAAACATGCCAAGAACAAGAAGATAGCTGTTTTCCTAGATTATGATGGTACTCTTTC
12476693 TCCTATCGTAGATGATCCAGATCGAGCTTTTATGTCTGATGCTGTAAGTATGACAGTCTATTTCA
66 TCCTATCGTAGATGATCCAGATCGAGCTTTTATGTCTGATGCTGTAAGTATGACAGTCTATTTCA
12476758 ATGCTTGC
131 ATGCTTGC
12476766 ATGTTGTCTT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (138 bp):
GAAATCTCGAAACATGCCAAGAACAAGAAGATAGCTGTTTTCCTAGATTATGATGGTACTCTTTC
TCCTATCGTAGATGATCCAGATCGAGCTTTTATGTCTGATGCTGTAAGTATGACAGTCTATTTCA
ATGCTTGC
Found at i:12477840 original size:6 final size:6
Alignment explanation
Indices: 12477829--12477854 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12477819 TTATTGTGTG
12477829 TTGCCA TTGCCA TTGCCA TTGCCA TT
1 TTGCCA TTGCCA TTGCCA TTGCCA TT
12477855 TAGATTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (6 bp):
TTGCCA
Found at i:12480256 original size:31 final size:31
Alignment explanation
Indices: 12480221--12480283 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
12480211 ATGTCTGTTA
12480221 TATCTTTATTTATTCCTAGTTTGTGTGGCTT
1 TATCTTTATTTATTCCTAGTTTGTGTGGCTT
12480252 TATCTTTATTTATTCCTAGTTTGTGTGGCTT
1 TATCTTTATTTATTCCTAGTTTGTGTGGCTT
12480283 T
1 T
12480284 CTTTATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.59
Consensus pattern (31 bp):
TATCTTTATTTATTCCTAGTTTGTGTGGCTT
Found at i:12485328 original size:103 final size:99
Alignment explanation
Indices: 12485127--12485326 Score: 280
Period size: 103 Copynumber: 2.0 Consensus size: 99
12485117 AGAAAAACGA
12485127 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTCTT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTT----AAAATTCTT
*
12485192 TTTTGTGTCAGAGTCAGATATCAGTATACAAAAAAAAT
62 TTTTGTGTCAGAATCAGATATCAGTATACAAAAAAAAT
* * *
12485230 AAAAAAAATTTTGGGT-CTTGGCCTGTCAATGGCCGGCTCCCAGTACAA-TTT-AAATTTTTTTT
1 AAAAAAAAATTTGGGTGC-TGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAATTCTTTTT
*
12485292 TCGTGTTAGAATCAGATATCAGTATACAAAAAAAA
65 T-GTGTCAGAATCAGATATCAGTATACAAAAAAAA
12485327 AATTTGTGTC
Statistics
Matches: 90, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
97 11 0.12
98 31 0.34
102 4 0.04
103 44 0.49
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (99 bp):
AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAATTCTTTTTT
GTGTCAGAATCAGATATCAGTATACAAAAAAAAT
Found at i:12485350 original size:136 final size:137
Alignment explanation
Indices: 12485193--12485463 Score: 481
Period size: 137 Copynumber: 2.0 Consensus size: 137
12485183 AAAATTCTTT
*
12485193 TTTGTGTCAGAGTCAGATATCAGTATACAAAAAAAAT-AAAAAAAATTTTGGGTCTTGGCCTGTC
1 TTTGTGTCAAAGTCAGATATCAGTATACAAAAAAAATAAAAAAAAATTTTGGGTCTTGGCCTGTC
* * *
12485257 AATGGCCGGCTCCCAGTACAATTTAAATTTTTTTTTCGTGTTAGAATCAGATATCAGTATACAAA
66 AATGGCCGGCACCCAGTACAATTTAAAATTTTTTTTCGTGTTAGAATCAGATATCAATATACAAA
12485322 AAAAAAA
131 AAAAAAA
12485329 TTTGTGTCAAAGTCAGATATCAGTATACAAAAAAAATAAAAAAAAATTTTGGGTCTTGGCCTGTC
1 TTTGTGTCAAAGTCAGATATCAGTATACAAAAAAAATAAAAAAAAATTTTGGGTCTTGGCCTGTC
* *
12485394 AATGGTCGGCACCCAGTACAATTTAAAATTTTTTTTCGTGTTAGAATCAGATATCAATATACGAA
66 AATGGCCGGCACCCAGTACAATTTAAAATTTTTTTTCGTGTTAGAATCAGATATCAATATACAAA
12485459 AAAAA
131 AAAAA
12485464 TTTAAAAAAA
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 36 0.28
137 92 0.72
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (137 bp):
TTTGTGTCAAAGTCAGATATCAGTATACAAAAAAAATAAAAAAAAATTTTGGGTCTTGGCCTGTC
AATGGCCGGCACCCAGTACAATTTAAAATTTTTTTTCGTGTTAGAATCAGATATCAATATACAAA
AAAAAAA
Found at i:12485505 original size:100 final size:100
Alignment explanation
Indices: 12485332--12485687 Score: 398
Period size: 107 Copynumber: 3.4 Consensus size: 100
12485322 AAAAAAATTT
* *
12485332 GTGTCA-AAGTCAGATATCAGTATACAAAAAAAATAAAAAAAAATTTTGGGT-CTTGGCCTGTCA
1 GTGTCAGAA-TCAGATATCAGTATACGAAAAAAATTAAAAAAAATTTTGGGTGC-TGGCCTGTCA
*
12485395 ATGGTCGGCACCCAGTACAATTTAAAA-TTTTTTTTC
64 ATGGCCGGCACCCAGTACAATTTAAAATTTTTTTTTC
* * * **
12485431 GTGTTAGAATCAGATATCAATATACGAAAAAAATTTAAAAAAATTTTTTAGTGCTGGCCTGTCAA
1 GTGTCAGAATCAGATATCAGTATACGAAAAAAA-TTAAAAAAAATTTTGGGTGCTGGCCTGTCAA
12485496 TGGCCGGCACCCAGTACAATTTAAAAAAAAAATTCTTTTTTTTC
65 TGGCCGGCACCCAGTACAATTT------AAAA-T-TTTTTTTTC
* *
12485540 TTGTCAGAATCAGATATCAGTATACGAAAAAAA-TAAAAAAAATTTTGGGTGCTGGCTTGTCAAT
1 GTGTCAGAATCAGATATCAGTATACGAAAAAAATTAAAAAAAATTTTGGGTGCTGGCCTGTCAAT
12485604 GGCCGGCACCCAGTACAATTTTAAAAAAAAATTTCTTTTTTTTC
66 GGCCGGCACCCAGTACAA-TTT-----AAAA--T-TTTTTTTTC
*
12485648 GTGTCAGAATCAGATAACAGTATACGAAAAAAA-TAAAAAA
1 GTGTCAGAATCAGATATCAGTATACGAAAAAAATTAAAAAA
12485688 TAAATGAGAT
Statistics
Matches: 226, Mismatches: 17, Indels: 19
0.86 0.06 0.07
Matches are distributed among these distances:
99 27 0.12
100 48 0.21
101 1 0.00
106 4 0.02
107 54 0.24
108 53 0.23
109 39 0.17
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (100 bp):
GTGTCAGAATCAGATATCAGTATACGAAAAAAATTAAAAAAAATTTTGGGTGCTGGCCTGTCAAT
GGCCGGCACCCAGTACAATTTAAAATTTTTTTTTC
Found at i:12485611 original size:107 final size:108
Alignment explanation
Indices: 12485422--12485687 Score: 426
Period size: 108 Copynumber: 2.5 Consensus size: 108
12485412 CAATTTAAAA
* * * *
12485422 TTTTTTTTCGTGTTAGAATCAGATATCAATATACGAAAAAAATTTAAAAAAATTTTTTAGTGCTG
1 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAA--TAAAAAAAATTTTGAGTGCTG
12485487 GCCTGTCAATGGCCGGCACCCAGTACAA-TTTAAAAAAAAAATTC
64 GCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAATTC
* *
12485531 TTTTTTTTCTTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTGCTGGC
1 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGAGTGCTGGC
* *
12485596 TTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAATTTC
66 CTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAATTC
*
12485639 TTTTTTTTCGTGTCAGAATCAGATAACAGTATACGAAAAAAATAAAAAA
1 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAA
12485688 TAAATGAGAT
Statistics
Matches: 146, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
107 45 0.31
108 62 0.42
109 39 0.27
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (108 bp):
TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGAGTGCTGGC
CTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAATTC
Found at i:12486069 original size:106 final size:107
Alignment explanation
Indices: 12485772--12486209 Score: 601
Period size: 99 Copynumber: 4.1 Consensus size: 107
12485762 AATCTCATTT
* *
12485772 AATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGTCACGAAAAAAAAGAAATTTTTTT
1 AATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAA-AGATTTTTTT
* *
12485837 TTAAATTGTACCGGGTGCTGGCCATTGACAGGCCAACA-CCAA
65 TTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAA
* *
12485879 ATTTTTTTTTTATTTTTTTCTTATACTGATATCTGATTCTGACACG-------AA-ATTTTTTTT
1 AATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGATTTTTTTT
*
12485936 TAAAATTGTACTGGGTGCCGGCTATTGACAGGCCAACACCC-A
66 T-AAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAA
* *
12485978 AATTTTTTTTAATTTTTTTCGTATATTGATATCTGATTCTGACACGAAAAAAAAAGATTTTTTTT
1 AATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGATTTTTTTT
12486043 TAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAA
66 TAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCC-AA
*
12486086 AGATTTTTATTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC-AAAAAAAAAGAATTT
1 A-A--TTT-TTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG-ATTT
* *
12486150 TTTTTAAAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
61 TTTTT--TAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAA
12486199 AATTTTTTTTT
1 AATTTTTTTTT
12486210 TCGTTTTTTT
Statistics
Matches: 296, Mismatches: 16, Indels: 36
0.85 0.05 0.10
Matches are distributed among these distances:
98 10 0.03
99 77 0.26
100 3 0.01
106 40 0.14
107 53 0.18
108 2 0.01
109 7 0.02
110 3 0.01
111 13 0.04
112 47 0.16
113 3 0.01
114 38 0.13
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (107 bp):
AATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGATTTTTTTT
TAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAA
Found at i:12490081 original size:24 final size:24
Alignment explanation
Indices: 12490066--12490117 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12490056 AATCAAAGTC
12490066 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
12490090 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
12490114 AAAT
1 AAAT
12490118 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:12491002 original size:205 final size:205
Alignment explanation
Indices: 12490650--12491060 Score: 822
Period size: 205 Copynumber: 2.0 Consensus size: 205
12490640 TGCACAACCT
12490650 CCGATTCTAAAGACATAACCTGTGAGAGATCTTCTTCTATCAAGGTCTCCAACAAAATCAGCATC
1 CCGATTCTAAAGACATAACCTGTGAGAGATCTTCTTCTATCAAGGTCTCCAACAAAATCAGCATC
12490715 AACATACCCAATGACTTTATCTCTAGTTCTTCCAAACTATAAGCAAACATTAGTAGTACCTCGTA
66 AACATACCCAATGACTTTATCTCTAGTTCTTCCAAACTATAAGCAAACATTAGTAGTACCTCGTA
12490780 AGTATCTTAAAATCGACTGAACTACTTTCCAATATTCTTTACCGGGATTCGTTATGTATCTGCTA
131 AGTATCTTAAAATCGACTGAACTACTTTCCAATATTCTTTACCGGGATTCGTTATGTATCTGCTA
12490845 ATTTCACTGA
196 ATTTCACTGA
12490855 CCGATTCTAAAGACATAACCTGTGAGAGATCTTCTTCTATCAAGGTCTCCAACAAAATCAGCATC
1 CCGATTCTAAAGACATAACCTGTGAGAGATCTTCTTCTATCAAGGTCTCCAACAAAATCAGCATC
12490920 AACATACCCAATGACTTTATCTCTAGTTCTTCCAAACTATAAGCAAACATTAGTAGTACCTCGTA
66 AACATACCCAATGACTTTATCTCTAGTTCTTCCAAACTATAAGCAAACATTAGTAGTACCTCGTA
12490985 AGTATCTTAAAATCGACTGAACTACTTTCCAATATTCTTTACCGGGATTCGTTATGTATCTGCTA
131 AGTATCTTAAAATCGACTGAACTACTTTCCAATATTCTTTACCGGGATTCGTTATGTATCTGCTA
12491050 ATTTCACTGA
196 ATTTCACTGA
12491060 C
1 C
12491061 TATATATGAT
Statistics
Matches: 206, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 206 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (205 bp):
CCGATTCTAAAGACATAACCTGTGAGAGATCTTCTTCTATCAAGGTCTCCAACAAAATCAGCATC
AACATACCCAATGACTTTATCTCTAGTTCTTCCAAACTATAAGCAAACATTAGTAGTACCTCGTA
AGTATCTTAAAATCGACTGAACTACTTTCCAATATTCTTTACCGGGATTCGTTATGTATCTGCTA
ATTTCACTGA
Found at i:12497273 original size:24 final size:23
Alignment explanation
Indices: 12497232--12497281 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
12497222 ATCAAAGTCG
* *
12497232 AATATATTATGCTAATAAATGCTA
1 AATATATTATACTAAT-AATCCTA
*
12497256 AATATATTATACTCATAATCCTA
1 AATATATTATACTAATAATCCTA
12497279 AAT
1 AAT
12497282 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (23 bp):
AATATATTATACTAATAATCCTA
Found at i:12500397 original size:36 final size:36
Alignment explanation
Indices: 12500350--12500421 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
12500340 TTAAAAACAA
12500350 GGGTTCATTTTAGCTTGAGATTCGAAAGTACAATTT
1 GGGTTCATTTTAGCTTGAGATTCGAAAGTACAATTT
12500386 GGGTTCATTTTAGCTTGAGATTCGAAAGTACAATTT
1 GGGTTCATTTTAGCTTGAGATTCGAAAGTACAATTT
12500422 TTATTCACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (36 bp):
GGGTTCATTTTAGCTTGAGATTCGAAAGTACAATTT
Found at i:12500642 original size:16 final size:16
Alignment explanation
Indices: 12500621--12500654 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
12500611 TTTGGGTTCG
12500621 TTGATAAATTCGTTGC
1 TTGATAAATTCGTTGC
12500637 TTGATAAATTCGTTGC
1 TTGATAAATTCGTTGC
12500653 TT
1 TT
12500655 CTCAGCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (16 bp):
TTGATAAATTCGTTGC
Found at i:12502069 original size:36 final size:36
Alignment explanation
Indices: 12502029--12502101 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
12502019 ACCAATGTCT
* *
12502029 CATCCAAGTTTGTTTTACGGTTTATAGAATATAATC
1 CATCCAAGTTCGTTTTACGATTTATAGAATATAATC
*
12502065 CATCCAAGTTCGTTTTACGATTTATAGAATGTAATC
1 CATCCAAGTTCGTTTTACGATTTATAGAATATAATC
12502101 C
1 C
12502102 TTTTGAGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (36 bp):
CATCCAAGTTCGTTTTACGATTTATAGAATATAATC
Found at i:12520813 original size:21 final size:22
Alignment explanation
Indices: 12520784--12520830 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
12520774 CAGAAGGAGT
*
12520784 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
12520806 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
12520827 GAGT
1 GAGT
12520831 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:12528253 original size:22 final size:22
Alignment explanation
Indices: 12528223--12528264 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12528213 ATTTAAACTA
*
12528223 TTAAAATAATAAAATTATATTT
1 TTAAAATAATAAAAATATATTT
*
12528245 TTAAGATAATAAAAATATAT
1 TTAAAATAATAAAAATATAT
12528265 AATTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAAATAATAAAAATATATTT
Found at i:12528653 original size:20 final size:20
Alignment explanation
Indices: 12528628--12528677 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
12528618 TGGCTTAAAA
12528628 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
12528648 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
12528665 GTGGTAGTGGATT
1 TTGGTAGTGGATT
12528678 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:12533292 original size:20 final size:20
Alignment explanation
Indices: 12533267--12533316 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
12533257 TGGCTTAAAA
12533267 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
12533287 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
12533304 GTGGTAGTGGATT
1 TTGGTAGTGGATT
12533317 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:12533852 original size:5 final size:5
Alignment explanation
Indices: 12533837--12533975 Score: 269
Period size: 5 Copynumber: 27.6 Consensus size: 5
12533827 TAATAATAAA
12533837 TATACT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
12533888 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
12533938 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
12533976 TCTTAATATA
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 129 0.97
6 4 0.03
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:12538718 original size:10 final size:10
Alignment explanation
Indices: 12538703--12538735 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
12538693 AAATATTTTG
12538703 TTTTTTCTTT
1 TTTTTTCTTT
12538713 TTTTTTCTTT
1 TTTTTTCTTT
*
12538723 TTGTTTCTTT
1 TTTTTTCTTT
12538733 TTT
1 TTT
12538736 AATATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:12538743 original size:20 final size:20
Alignment explanation
Indices: 12538706--12538744 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12538696 TATTTTGTTT
** *
12538706 TTTCTTTTTTTTTCTTTTTG
1 TTTCTTTTTTAATATTTTTG
12538726 TTTCTTTTTTAATATTTTT
1 TTTCTTTTTTAATATTTTT
12538745 TTGCAAGTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTCTTTTTTAATATTTTTG
Found at i:12540396 original size:20 final size:20
Alignment explanation
Indices: 12540367--12540404 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12540357 TTTTATCCTG
*
12540367 AATCCTGAACTTAGAACCTC
1 AATCCAGAACTTAGAACCTC
*
12540387 AATCCAGAACTTTGAACC
1 AATCCAGAACTTAGAACC
12540405 ACAAATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (20 bp):
AATCCAGAACTTAGAACCTC
Found at i:12542993 original size:5 final size:5
Alignment explanation
Indices: 12542983--12543007 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12542973 TATTTAATAA
12542983 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
12543008 CTTCTCTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:12543966 original size:55 final size:55
Alignment explanation
Indices: 12543879--12544002 Score: 169
Period size: 55 Copynumber: 2.3 Consensus size: 55
12543869 TGATTTTGGA
* * * * *
12543879 TTGAATCGATTATTTTTATGTTTAAATCGATTGTTATGCTAGAATATTGCTT-TGT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTCATGCTAGAACACTGCTTCT-T
* *
12543934 TTGAATCGATTGTTTATATGTTTAAATTGATTGTCATGTTAGAACACTGCTTCTT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTCATGCTAGAACACTGCTTCTT
12543989 TTGAATCGATTGTT
1 TTGAATCGATTGTT
12544003 ATGTTGGAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 60 0.98
56 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.49
Consensus pattern (55 bp):
TTGAATCGATTGTTTATATGTTTAAATCGATTGTCATGCTAGAACACTGCTTCTT
Found at i:12544007 original size:34 final size:34
Alignment explanation
Indices: 12543962--12544036 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
12543952 TGTTTAAATT
*
12543962 GATTGTCATGTTAGAACACTGCTTCTTTTGAATC
1 GATTGTTATGTTAGAACACTGCTTCTTTTGAATC
* * * *
12543996 GATTGTTATGTTGGAATATTGTTTCTTTTGAATC
1 GATTGTTATGTTAGAACACTGCTTCTTTTGAATC
12544030 GATTGTT
1 GATTGTT
12544037 TATATGTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (34 bp):
GATTGTTATGTTAGAACACTGCTTCTTTTGAATC
Found at i:12544036 original size:18 final size:18
Alignment explanation
Indices: 12543984--12544037 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
12543974 AGAACACTGC
12543984 TTCTTTTGAATCGATTGT
1 TTCTTTTGAATCGATTGT
* *
12544002 TAT-GTTGGAAT--ATTGT
1 T-TCTTTTGAATCGATTGT
12544018 TTCTTTTGAATCGATTGT
1 TTCTTTTGAATCGATTGT
12544036 TT
1 TT
12544038 ATATGTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 1 0.04
16 12 0.43
18 14 0.50
19 1 0.04
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (18 bp):
TTCTTTTGAATCGATTGT
Found at i:12544051 original size:55 final size:55
Alignment explanation
Indices: 12543992--12544168 Score: 266
Period size: 55 Copynumber: 3.2 Consensus size: 55
12543982 GCTTCTTTTG
* *
12543992 AATCGATTGTTATGTTGGAATATTGTTTCTTTTGAATCGATTGTTTATATGTTTA
1 AATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTA
* *
12544047 AATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATTGATTGTTTATATGTTCA
1 AATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTA
* * * *
12544102 AATCGATTGTTATATTGGATTGCTGCTTCTTTTGAATCGGTTGTTTATATGTTTA
1 AATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTA
12544157 AAT-GAATTGTTA
1 AATCG-ATTGTTA
12544169 CGTAGCATGT
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 1 0.01
55 110 0.99
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (55 bp):
AATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTA
Found at i:12544055 original size:89 final size:89
Alignment explanation
Indices: 12543903--12544091 Score: 290
Period size: 89 Copynumber: 2.1 Consensus size: 89
12543893 TTTATGTTTA
*
12543903 AATCGATTGTTATGCTAGAATATTGCTTTGTTTGAATCGATTGTTTATATGTTTAAATTGATTGT
1 AATCGATTGTTATGCTAGAATATTGCTTTGTTTGAATCGATTGTTTATATGTTTAAATCGATTGT
12543968 CATGTTAGAACACTGCTTCTTTTG
66 CATGTTAGAACACTGCTTCTTTTG
* * *
12543992 AATCGATTGTTATGTTGGAATATTG-TTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTG
1 AATCGATTGTTATGCTAGAATATTGCTTT-GTTTGAATCGATTGTTTATATGTTTAAATCGATTG
* * *
12544056 TTATGTTGGAATACTGCTTCTTTTG
65 TCATGTTAGAACACTGCTTCTTTTG
*
12544081 AATTGATTGTT
1 AATCGATTGTT
12544092 TATATGTTCA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 3 0.03
89 88 0.97
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (89 bp):
AATCGATTGTTATGCTAGAATATTGCTTTGTTTGAATCGATTGTTTATATGTTTAAATCGATTGT
CATGTTAGAACACTGCTTCTTTTG
Found at i:12544139 original size:144 final size:144
Alignment explanation
Indices: 12543879--12544146 Score: 385
Period size: 144 Copynumber: 1.9 Consensus size: 144
12543869 TGATTTTGGA
* *
12543879 TTGAATCGATTATTTTTATGTTTAAATCGATTGTTATGCTAGAATATTGCTTTGTTTGAATCGAT
1 TTGAATCGATTATTTATATGTTTAAATCGATTGTTATGCTAGAATACTGCTTTGTTTGAATCGAT
* * *
12543944 TGTTTATATGTTTAAATTGATTGTCATGTTAGAACACTGCTTCTTTTGAATCGATTGTTATGTTG
66 TGTTTATATGTTCAAATCGATTGTCATATTAGAACACTGCTTCTTTTGAATCGATTGTTATGTTG
12544009 GAATATTGTTTCTT
131 GAATATTGTTTCTT
* * * *
12544023 TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCT-TTTGAATTGA
1 TTGAATCGATTATTTATATGTTTAAATCGATTGTTATGCTAGAATACTGCTT-TGTTTGAATCGA
* * *** *
12544087 TTGTTTATATGTTCAAATCGATTGTTATATTGGATTGCTGCTTCTTTTGAATCGGTTGTT
65 TTGTTTATATGTTCAAATCGATTGTCATATTAGAACACTGCTTCTTTTGAATCGATTGTT
12544147 TATATGTTTA
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
144 107 0.99
145 1 0.01
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.50
Consensus pattern (144 bp):
TTGAATCGATTATTTATATGTTTAAATCGATTGTTATGCTAGAATACTGCTTTGTTTGAATCGAT
TGTTTATATGTTCAAATCGATTGTCATATTAGAACACTGCTTCTTTTGAATCGATTGTTATGTTG
GAATATTGTTTCTT
Found at i:12551946 original size:17 final size:17
Alignment explanation
Indices: 12551924--12551957 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12551914 ATCCACTAAT
*
12551924 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
12551941 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
12551958 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:12556586 original size:17 final size:17
Alignment explanation
Indices: 12556564--12556597 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12556554 ATCCACTAAT
*
12556564 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
12556581 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
12556598 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:12557462 original size:54 final size:54
Alignment explanation
Indices: 12557376--12557480 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
12557366 TGCTGAACTC
*
12557376 GACTACCAGTAGTGGACTCCTCAACACCTGTAGGAGAGCCAGCAGGTATACTTT
1 GACTACCAGTAGTAGACTCCTCAACACCTGTAGGAGAGCCAGCAGGTATACTTT
* ** *
12557430 GACTACCAGTAGTAGAGTCCTCAACATTTGTAGGAGAGTCAGCAGGTATAC
1 GACTACCAGTAGTAGACTCCTCAACACCTGTAGGAGAGCCAGCAGGTATAC
12557481 ATAAAAACTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (54 bp):
GACTACCAGTAGTAGACTCCTCAACACCTGTAGGAGAGCCAGCAGGTATACTTT
Found at i:12559575 original size:35 final size:35
Alignment explanation
Indices: 12559536--12559602 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
12559526 TTGCCTCTTT
12559536 CCACTCTCCCATGCTGTCTGCCACCAGCACCACTC
1 CCACTCTCCCATGCTGTCTGCCACCAGCACCACTC
*
12559571 CCACTCTCCCATGCTGTTTGCCACCAGCACCA
1 CCACTCTCCCATGCTGTCTGCCACCAGCACCA
12559603 TCACACACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.18, C:0.49, G:0.12, T:0.21
Consensus pattern (35 bp):
CCACTCTCCCATGCTGTCTGCCACCAGCACCACTC
Found at i:12560912 original size:3 final size:3
Alignment explanation
Indices: 12560904--12560929 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12560894 GATTTAGTCC
12560904 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
12560930 CCTATTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:12564435 original size:78 final size:78
Alignment explanation
Indices: 12563982--12564472 Score: 284
Period size: 78 Copynumber: 6.3 Consensus size: 78
12563972 TCTTATTTAT
* * * * * * *
12563982 ACTCATTCTCGTAAGATAAAAGTGCCATCAGGATCTGATCCTATCCATAA-TCTTTCGAGAGAAA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCATATCCATAATTC-TTCAAGAGAAA
*
12564046 CGGTTCCTATTCAT
65 CGGTTCCTATTCAC
* * * * ** * * ** *
12564060 GCTCGTTTTCGCAAGATAGAGGTGTCGTTGGGATCGGATC-T-TACATATAATCGACCAAAAGAA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCATATCCATA-ATTC-TTCAAGAGAA
12564123 ACGGTTCCTATTCAC
64 ACGGTTCCTATTCAC
* * * * * * * *
12564138 ACTCATTCTCACAAGATAGAAGTGTCGTAAGGACCGGAT-ATTATCCATAATCTGTTGAA-AAAA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCA-TATCCATAAT-TCTTCAAGAGAA
**
12564201 ATAGTTCCTATTCAC
64 ACGGTTCCTATTCAC
* *** * * * * *
12564216 ACTTGTTCTTATAAGATAGAAGTGCCATCAAGAGT-GAATCCCAT-TCC-TAATCCTTCGAGAGA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGA-TCGGAT--CATATCCATAATTCTTCAAGAGA
*
12564278 AA-GGATTCCTATGCAC
63 AACGG-TTCCTATTCAC
* * * * * * ** * *
12564294 ATTTGTTCTCGCAAGTTAGACGTGCCGTTAGGA-CTGGATCCTATCCATGGTCCTTCAAAAGAAA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATC-GGATCATATCCATAATTCTTCAAGAGAAA
12564358 -GGTTTCCTATTCAC
65 CGG-TTCCTATTCAC
* *
12564372 AATCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCATATCCATAATTCTCCAAGAGAAAC
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCATATCCATAATTCTTCAAGAGAAAC
* **
12564437 GATTCCTAAGCAC
66 GGTTCCTATTCAC
* * * *
12564450 ACTCATTCTGGCAAAATAAAAGT
1 ACTCGTTCTCGCAAGATAGAAGT
12564473 ACTGAATCCT
Statistics
Matches: 307, Mismatches: 88, Indels: 36
0.71 0.20 0.08
Matches are distributed among these distances:
76 7 0.02
77 9 0.03
78 274 0.89
79 9 0.03
80 7 0.02
81 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (78 bp):
ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCATATCCATAATTCTTCAAGAGAAAC
GGTTCCTATTCAC
Found at i:12564824 original size:16 final size:16
Alignment explanation
Indices: 12564803--12564835 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
12564793 TTCGCTGTAT
12564803 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
12564819 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
12564835 T
1 T
12564836 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:12564910 original size:44 final size:45
Alignment explanation
Indices: 12564817--12564911 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
12564807 ATAGAGGCGT
*
12564817 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
12564862 AATGGAATAGAGGCGTAATAG-TATTC-TTATGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
12564906 AATGGA
1 AATGGA
12564912 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:12565147 original size:22 final size:21
Alignment explanation
Indices: 12565122--12565173 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
12565112 TAGATATTCT
*
12565122 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
12565144 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
12565166 TAAT-TTAA
1 TAATATTAA
12565174 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:12574321 original size:29 final size:30
Alignment explanation
Indices: 12574265--12574338 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
12574255 ATATCAAAAT
* *
12574265 TATACTTGAACTTTGATTTAATGAGTAATT-
1 TATACATGAATTTTGATTTAAT-AGTAATTA
*
12574295 TGATACATGAATTTTGATTTGAT-GTAATTA
1 T-ATACATGAATTTTGATTTAATAGTAATTA
12574325 TATACATGAATTTT
1 TATACATGAATTTT
12574339 CATTGATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 19 0.49
30 2 0.05
31 18 0.46
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (30 bp):
TATACATGAATTTTGATTTAATAGTAATTA
Found at i:12580650 original size:24 final size:24
Alignment explanation
Indices: 12580616--12580678 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
12580606 ATTCAACGCC
*
12580616 TTTTTATATATATTTTTTAGAATT
1 TTTTTAAATATATTTTTTAGAATT
**
12580640 TTTTTAAATATAAATTTTAGAATT
1 TTTTTAAATATATTTTTTAGAATT
*
12580664 TTTATAAATAT-TTTT
1 TTTTTAAATATATTTT
12580679 AATTTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTTAAATATATTTTTTAGAATT
Found at i:12580703 original size:19 final size:18
Alignment explanation
Indices: 12580661--12580703 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
12580651 AAATTTTAGA
* *
12580661 ATTTTTATAAATATTTTT
1 ATTTTTAAAAATATTTTG
*
12580679 AATTTTAAAAATTATTTTG
1 ATTTTTAAAAA-TATTTTG
12580698 ATTTTT
1 ATTTTT
12580704 TTTTTGTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:12584990 original size:14 final size:14
Alignment explanation
Indices: 12584971--12585006 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
12584961 ACGTAAACAA
12584971 AAATAAAATAAGAT
1 AAATAAAATAAGAT
12584985 AAATAAAATAAGAT
1 AAATAAAATAAGAT
12584999 AAATAAAA
1 AAATAAAA
12585007 ACCATCCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAGAT
Found at i:12591063 original size:5 final size:5
Alignment explanation
Indices: 12591055--12591083 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
12591045 AAACCTTTCA
12591055 ATTGG ATTGG ATTGG ATTGG ATTGG ATTG
1 ATTGG ATTGG ATTGG ATTGG ATTGG ATTG
12591084 ATTTTCAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (5 bp):
ATTGG
Found at i:12596451 original size:13 final size:13
Alignment explanation
Indices: 12596433--12596505 Score: 50
Period size: 13 Copynumber: 6.1 Consensus size: 13
12596423 GAAAATTTCA
12596433 TATAATTTATATT
1 TATAATTTATATT
12596446 TATAATTTAT-TT
1 TATAATTTATATT
*
12596458 TA-AA-TTATAAT
1 TATAATTTATATT
* ** *
12596469 TGTACGTTAT-TA
1 TATAATTTATATT
*
12596481 T-TAATTT-TAAT
1 TATAATTTATATT
12596492 TATAATTTATATT
1 TATAATTTATATT
12596505 T
1 T
12596506 TTTTCTAAGT
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
10 5 0.11
11 9 0.20
12 12 0.27
13 18 0.41
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (13 bp):
TATAATTTATATT
Found at i:12596465 original size:23 final size:23
Alignment explanation
Indices: 12596439--12596501 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
12596429 TTCATATAAT
*
12596439 TTATATTTATAATTTATT-TTAAA
1 TTATAATTATAATTTATTATT-AA
* **
12596462 TTATAATTGTACGTTATTATTAA
1 TTATAATTATAATTTATTATTAA
*
12596485 TTTTAATTATAATTTAT
1 TTATAATTATAATTTAT
12596502 ATTTTTTTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTATAATTATAATTTATTATTAA
Found at i:12599139 original size:59 final size:59
Alignment explanation
Indices: 12599073--12599191 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
12599063 AATTTTTATT
*
12599073 TGACATGAAATGAAAACCTAATTCAATTGATTCAATTTAAATTTGATTTAACTCGATTA
1 TGACATGAAATGAAAACCTAATTCAATTGATTCAATTTAAATTTCATTTAACTCGATTA
* * *
12599132 TGACATGAAATGAGAATCTAATTTAATTGATTCAATTTAAATTTCATTTAACTCGATTA
1 TGACATGAAATGAAAACCTAATTCAATTGATTCAATTTAAATTTCATTTAACTCGATTA
12599191 T
1 T
12599192 CTTAAATATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (59 bp):
TGACATGAAATGAAAACCTAATTCAATTGATTCAATTTAAATTTCATTTAACTCGATTA
Found at i:12611081 original size:3 final size:3
Alignment explanation
Indices: 12611075--12611103 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12611065 CATCATCATC
12611075 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12611104 GCAGTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12612520 original size:19 final size:19
Alignment explanation
Indices: 12612479--12612520 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12612469 CTCGTTAATG
* *
12612479 GTGTTTGATTAGTTGAATT
1 GTGTCTGATTAGTTGAATC
12612498 GTGTCTGATTAG-TGAAATC
1 GTGTCTGATTAGTTG-AATC
12612517 GTGT
1 GTGT
12612521 GTGCATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (19 bp):
GTGTCTGATTAGTTGAATC
Found at i:12618267 original size:188 final size:185
Alignment explanation
Indices: 12617951--12618332 Score: 534
Period size: 188 Copynumber: 2.0 Consensus size: 185
12617941 CACTGAAATT
* * *
12617951 AAAATTTATTGTAATTACTAGAAGATATAATTACTACATATTAATAGTTAAACTTTCTTACAACT
1 AAAATTTTTTGTAATTACAAGAAGATATAATTACTACA-ATTAATAATTAAACTTTCTTACAACT
* *
12618016 ACTCTATGGTCTCTAAAAACAACTCATAAAAGAAACTCAAATTTACCTCGATAATTGCAAAGTCA
65 ACTCTATGATCTCTAAAAACAACTCATAAAAGAAACTCAAATTTACCTCCATAATTGCAAAGTCA
*
12618081 AGCTTGAACTCAAAG-AGCTTGAGCTATCAAATAAGTCAAATTAAAATACAGGGATTG
130 AGCTTAAACTC-AAGTAGCTTGAGCTATCAAATAAGTCAAA-TAAAATACAGGGATTG
* * * *
12618138 AAAATTTTTTGTAATTACAAGAAGATATAATTACTAC-CTTAATAATTAAATTTTCTTATAATTA
1 AAAATTTTTTGTAATTACAAGAAGATATAATTACTACAATTAATAATTAAACTTTCTTACAACTA
* ** *
12618202 CTCTATTATCTCTAAAAACAACAACTCATAAAAGAATTTCAAATTTAGCTCCATAATTGCAAAGT
66 CTCTATGATCTCT--AAA-AACAACTCATAAAAGAAACTCAAATTTACCTCCATAATTGCAAAGT
* * * *
12618267 CAAGTTTAAACTCCAGTAGCTTGGGCTATCAAATAAGTCAAATAAAGTACAGGGATTG
128 CAAGCTTAAACTCAAGTAGCTTGAGCTATCAAATAAGTCAAATAAAATACAGGGATTG
12618325 AAAATTTT
1 AAAATTTT
12618333 AAAATTGAAA
Statistics
Matches: 173, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
185 33 0.19
187 63 0.36
188 77 0.45
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (185 bp):
AAAATTTTTTGTAATTACAAGAAGATATAATTACTACAATTAATAATTAAACTTTCTTACAACTA
CTCTATGATCTCTAAAAACAACTCATAAAAGAAACTCAAATTTACCTCCATAATTGCAAAGTCAA
GCTTAAACTCAAGTAGCTTGAGCTATCAAATAAGTCAAATAAAATACAGGGATTG
Found at i:12623398 original size:4 final size:4
Alignment explanation
Indices: 12623389--12623440 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
12623379 TTTGTTTTGT
* ** * *
12623389 TTTA TTTA TTTA TTTA TTTA TTTA TGTA TCCA TTCA TTTA TTTA TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
12623437 TTTA
1 TTTA
12623441 CTCTTTTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:12623643 original size:7 final size:7
Alignment explanation
Indices: 12623631--12623657 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12623621 TAGCATCCCT
12623631 TTATTTA
1 TTATTTA
12623638 TTATTTA
1 TTATTTA
12623645 TTATTTA
1 TTATTTA
12623652 TTATTT
1 TTATTT
12623658 TAGTATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:12632718 original size:33 final size:31
Alignment explanation
Indices: 12632681--12632755 Score: 80
Period size: 33 Copynumber: 2.4 Consensus size: 31
12632671 ACTCATACTC
*
12632681 ATATTATTTTTATTGAATTTTTTAAAAATATTT
1 ATATTATTTTTATTGAA-TATTTAAAAA-ATTT
* * *
12632714 ATATTATTCTTAATTTAATATTTAATAAATTT
1 ATATTATT-TTTATTGAATATTTAAAAAATTT
12632746 ATA-TATTTTT
1 ATATTATTTTT
12632756 TTCATTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 2 0.06
31 4 0.11
32 7 0.19
33 16 0.44
34 7 0.19
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (31 bp):
ATATTATTTTTATTGAATATTTAAAAAATTT
Found at i:12649567 original size:18 final size:18
Alignment explanation
Indices: 12649532--12649572 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
12649522 TTTATAGTGT
*
12649532 TTTTTTAGAAATTTTTAA
1 TTTTTTAGAAATTATTAA
12649550 TATTTTTAGAAA-TATTAA
1 T-TTTTTAGAAATTATTAA
12649568 TTTTT
1 TTTTT
12649573 AAATTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTTTAGAAATTATTAA
Found at i:12655599 original size:65 final size:65
Alignment explanation
Indices: 12655519--12655652 Score: 250
Period size: 65 Copynumber: 2.1 Consensus size: 65
12655509 AAGTAACCTA
* *
12655519 TTCAGTCTCATTTCATTCATGAATATGGAAATCACATACTATGCCAAAACTTTATATTCAAATAG
1 TTCAATCTCATTTCATTCATGAATATGGAAATCACATACTATGCCAAAACTTCATATTCAAATAG
12655584 TTCAATCTCATTTCATTCATGAATATGGAAATCACATACTATGCCAAAACTTCATATTCAAATAG
1 TTCAATCTCATTTCATTCATGAATATGGAAATCACATACTATGCCAAAACTTCATATTCAAATAG
12655649 TTCA
1 TTCA
12655653 CTAACAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (65 bp):
TTCAATCTCATTTCATTCATGAATATGGAAATCACATACTATGCCAAAACTTCATATTCAAATAG
Found at i:12673451 original size:20 final size:20
Alignment explanation
Indices: 12673409--12673453 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
12673399 TTTATTTTCT
**
12673409 ATTTTTCTTAAATCCCATTA
1 ATTTTTCTTAAATCCCAGAA
*
12673429 ATTTTTCTTAAATCCTAGAA
1 ATTTTTCTTAAATCCCAGAA
12673449 ATTTT
1 ATTTT
12673454 ATACTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTTTCTTAAATCCCAGAA
Found at i:12674141 original size:13 final size:13
Alignment explanation
Indices: 12674120--12674153 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
12674110 GAGAAGTATT
12674120 AAAGTAAAAAGAAA
1 AAAG-AAAAAGAAA
12674134 AAAGAAAAAGAAA
1 AAAGAAAAAGAAA
*
12674147 AACGAAA
1 AAAGAAA
12674154 CCTAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:12675076 original size:6 final size:6
Alignment explanation
Indices: 12675053--12675078 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12675043 TTGTTGTTGT
12675053 TGATGC TGATGC TGATGC TGATGC TG
1 TGATGC TGATGC TGATGC TGATGC TG
12675079 CTGGTGGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.35, T:0.35
Consensus pattern (6 bp):
TGATGC
Found at i:12679625 original size:12 final size:12
Alignment explanation
Indices: 12679608--12679632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12679598 CACTTACCTG
12679608 ATACCCTTGATT
1 ATACCCTTGATT
12679620 ATACCCTTGATT
1 ATACCCTTGATT
12679632 A
1 A
12679633 AATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (12 bp):
ATACCCTTGATT
Found at i:12681774 original size:28 final size:28
Alignment explanation
Indices: 12681730--12681784 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
12681720 TTGTAATTTT
12681730 TTTAAAACTTACAAAAAAAATATTAAAAC
1 TTTAAAACTTACAAAAAAAATA-TAAAAC
*
12681759 TTTAAAATTTAC-AAAAAAATATAAAA
1 TTTAAAACTTACAAAAAAAATATAAAA
12681785 TATAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.20
28 9 0.36
29 11 0.44
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (28 bp):
TTTAAAACTTACAAAAAAAATATAAAAC
Found at i:12686230 original size:210 final size:211
Alignment explanation
Indices: 12685910--12686564 Score: 1183
Period size: 210 Copynumber: 3.1 Consensus size: 211
12685900 CAGTGGTGCT
*
12685910 GTTATTGGAAGAACTTCCAATTTGTCGCACCTTCGAACTGACAGATATTGAAGAGAGGAAAATCC
1 GTTATTGGAAGAACTTCCAATTTGACGCACCTTCGAACTGACAGATATTGAAGAGAGGAAAATCC
12685975 TTCCAAATTTGGGATCGAACTTAAATCAGGACAATCGTCTAGATCTAATTCTTTGAGACAAGTGG
66 TTCCAAATTTGGGATCGAACTTAAATCAGGACAATCGTCTAGATCTAATTCTTTGAGACAAGTGG
12686040 AGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAATC-ACAAATGCGAAGCTTTTCAAG
131 AGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAATCGACAAATGCGAAGCTTTTCAAG
12686104 AGATGAACATCCTCCA
196 AGATGAACATCCTCCA
*
12686120 GTTATTGGAAGAACTTCCAATTTGACGCACCTTCGAACTGACAGATCTTGAAGAGAGGAAAATCC
1 GTTATTGGAAGAACTTCCAATTTGACGCACCTTCGAACTGACAGATATTGAAGAGAGGAAAATCC
12686185 TTCCAAATTTGGGATCGAACTTAAATCAGGACAATCGTCTAGATCTAATTCTTTGAGACAAGTGG
66 TTCCAAATTTGGGATCGAACTTAAATCAGGACAATCGTCTAGATCTAATTCTTTGAGACAAGTGG
*
12686250 AGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAATCGA-AAATGCAAAGCTTTTCAAG
131 AGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAATCGACAAATGCGAAGCTTTTCAAG
*
12686314 AGATGAACATCCTCCG
196 AGATGAACATCCTCCA
*** * *
12686330 GTTATTGGAAGAACTTCCAATTTCTTGCACCATCGAACTGATAGATATTGAAGAGAGGAAAATCC
1 GTTATTGGAAGAACTTCCAATTTGACGCACCTTCGAACTGACAGATATTGAAGAGAGGAAAATCC
12686395 TTCCAAATTTGGGATCGAACTTAAATCAGGACAAAT-GTCTAGATCTAATTCTTTGAGACAAGTG
66 TTCCAAATTTGGGATCGAACTTAAATCAGGAC-AATCGTCTAGATCTAATTCTTTGAGACAAGTG
*
12686459 GAGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAACCGAC-AATGCGAAGCTTTTCAA
130 GAGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAATCGACAAATGCGAAGCTTTTCAA
12686523 GAGATGAACATCCTCCA
195 GAGATGAACATCCTCCA
12686540 GTTATTGGAAGAACTTCCAATTTGA
1 GTTATTGGAAGAACTTCCAATTTGA
12686565 AAGAGTAAAA
Statistics
Matches: 427, Mismatches: 15, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
210 423 0.99
211 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (211 bp):
GTTATTGGAAGAACTTCCAATTTGACGCACCTTCGAACTGACAGATATTGAAGAGAGGAAAATCC
TTCCAAATTTGGGATCGAACTTAAATCAGGACAATCGTCTAGATCTAATTCTTTGAGACAAGTGG
AGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAATCGACAAATGCGAAGCTTTTCAAG
AGATGAACATCCTCCA
Found at i:12689400 original size:39 final size:39
Alignment explanation
Indices: 12689346--12689424 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
12689336 TCCATTGCCA
12689346 TAGAGCTGCCAAGAAATCCTTCAGCCATCCACAGTTGCT
1 TAGAGCTGCCAAGAAATCCTTCAGCCATCCACAGTTGCT
12689385 TAGAGCTGCCAAGAAATCCTTCAGCCATCCACAGTTGCT
1 TAGAGCTGCCAAGAAATCCTTCAGCCATCCACAGTTGCT
12689424 T
1 T
12689425 CAATTCCTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (39 bp):
TAGAGCTGCCAAGAAATCCTTCAGCCATCCACAGTTGCT
Found at i:12691504 original size:19 final size:19
Alignment explanation
Indices: 12691473--12691519 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
12691463 TTATTTTAGT
*
12691473 AATTA-TTTT-TAAATTTA
1 AATTATTTTTATAAATATA
12691490 AATTATTTTTATAAATATA
1 AATTATTTTTATAAATATA
12691509 ATATT-TTTTTA
1 A-ATTATTTTTA
12691520 AACTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 14 0.54
20 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTATTTTTATAAATATA
Found at i:12692834 original size:46 final size:46
Alignment explanation
Indices: 12692759--12692897 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 46
12692749 ACAATGCTAT
* * * *
12692759 AACTCAGTATGGTTTTATTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
* **
12692805 AACTCAGTATGGTTTTCTTTACTGTAATACCATATTTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
* *
12692851 AACTCAGTATGGTTTTCTTTACTGAAATGCCATACCTACGGTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
12692897 A
1 A
12692898 CTTTACCATG
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
Found at i:12695225 original size:31 final size:31
Alignment explanation
Indices: 12695188--12695254 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
12695178 ACAAAATGAC
12695188 CACTAAACTATTCAAAAGTTTTCATTTAAGT
1 CACTAAACTATTCAAAAGTTTTCATTTAAGT
* ** *
12695219 TACTAAACTATTTGAAAGTTTTTATTTAAGT
1 CACTAAACTATTCAAAAGTTTTCATTTAAGT
12695250 CACTA
1 CACTA
12695255 GGTTGTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (31 bp):
CACTAAACTATTCAAAAGTTTTCATTTAAGT
Found at i:12696037 original size:15 final size:16
Alignment explanation
Indices: 12696017--12696054 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
12696007 TATGTATCAT
*
12696017 CAAATTATTA-TAGAA
1 CAAATTACTACTAGAA
12696032 CAAATTACTAGCTAGAA
1 CAAATTACTA-CTAGAA
12696049 CAAATT
1 CAAATT
12696055 CAAACTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (16 bp):
CAAATTACTACTAGAA
Found at i:12699027 original size:144 final size:144
Alignment explanation
Indices: 12698413--12699020 Score: 1198
Period size: 144 Copynumber: 4.2 Consensus size: 144
12698403 AGTGGGGAGA
12698413 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
1 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
12698478 GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
66 GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
12698543 GGGCAGTGAAGAAC
131 GGGCAGTGAAGAAC
12698557 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
1 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
*
12698622 GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATACTTCGA
66 GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
12698687 GGGCAGTGAAGAAC
131 GGGCAGTGAAGAAC
12698701 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
1 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
*
12698766 GAGATTTCCCAACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
66 GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
12698831 GGGCAGTGAAGAAC
131 GGGCAGTGAAGAAC
12698845 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
1 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
12698910 GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
66 GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
12698975 GGGCAGTGAAGAAC
131 GGGCAGTGAAGAAC
12698989 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCC
1 TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCC
12699021 CCAACCAGTC
Statistics
Matches: 460, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 460 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (144 bp):
TGAAGTTGGTGAGGAAGACTCTTTAGCTTTCCAAAACCACTCAAATATAGACGCTTTAGAGAAGA
GAGATTTCCCGACCACTCTGGAAAGGCTTCTACTCCTTCAAACCCTTCTATCGTCAATTCTTCGA
GGGCAGTGAAGAAC
Found at i:12699546 original size:210 final size:210
Alignment explanation
Indices: 12699174--12700330 Score: 1959
Period size: 210 Copynumber: 5.5 Consensus size: 210
12699164 TCCATATCAG
** *
12699174 ATCAGGACAACCGTCTAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
1 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
*
12699239 TGCTTAATTTTTCACAACCGAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
66 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
* * *
12699304 AGAACTTCCAATTTGTCGCACCGTT-TAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAAT
131 AGAACTTCCAATTTGTTGCACC-TTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAAT
12699368 TTGGGATCGAACTTAA
195 TTGGGATCGAACTTAA
*
12699384 ATCAGGACAATTGTCTAGATATAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
1 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
*
12699449 TGCTTAATTTTTCACAACCCAAAATGCAAAGCATTTCAAGAGATGAACATCCTCCAGTTATTGGA
66 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
*
12699514 AGAACTTCCAATTTGTTGCAGCTTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATT
131 AGAACTTCCAATTTGTTGCACCTTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATT
12699579 TGGGATCGAACTTAA
196 TGGGATCGAACTTAA
** * *
12699594 ATCAGGACAACCGTATAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
1 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
*
12699659 TGCTTAATTTTTTACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
66 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
* *
12699724 AGAACTTCCAATTTGTTGCACCTACGAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATT
131 AGAACTTCCAATTTGTTGCACCTTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATT
12699789 TGGGATCGAACTTAA
196 TGGGATCGAACTTAA
12699804 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAAT-C--CTCCAATCT
1 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
* *
12699866 TGCTTAATTTTTCACAATCGC-AAATGCGAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGG
66 TGCTTAATTTTTCACAA-CCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGG
*
12699930 AAGAACTTCCAATTTGTTGCAGCTTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAAT
130 AAGAACTTCCAATTTGTTGCACCTTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAAT
12699995 TTGGGATCGAACTTAA
195 TTGGGATCGAACTTAA
*
12700011 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGTGGTAGATAATCCATCTCCAATCT
1 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
12700076 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
66 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
* * *
12700141 AGAACTTCCAATTTGTCGCACCGTT-TAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAAT
131 AGAACTTCCAATTTGTTGCACC-TTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAAT
12700205 TTGGGATCGAACTTAA
195 TTGGGATCGAACTTAA
* **
12700221 ATCAGAACAA-TACCGTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATC
1 ATCAGGACAATTGTC-TAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATC
* * *
12700285 TTGCTTAATTTTTCACAATCGAAAATGCGAAGCTTTTCAAGAGATG
65 TTGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATG
12700331 TCAACCAGAT
Statistics
Matches: 895, Mismatches: 44, Indels: 16
0.94 0.05 0.02
Matches are distributed among these distances:
207 196 0.22
208 3 0.00
209 7 0.01
210 687 0.77
211 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (210 bp):
ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
AGAACTTCCAATTTGTTGCACCTTCCAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAATT
TGGGATCGAACTTAA
Found at i:12700095 original size:417 final size:419
Alignment explanation
Indices: 12699174--12700330 Score: 2063
Period size: 417 Copynumber: 2.8 Consensus size: 419
12699164 TCCATATCAG
12699174 ATCAGGACAACCGTCTAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
1 ATCAGGACAACCGTCTAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
*
12699239 TGCTTAATTTTTCACAACCGAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
66 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
12699304 AGAACTTCCAATTTGTCGCACCGTTTAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAATT
131 AGAACTTCCAATTTGTCGCACCGTTTAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAATT
*
12699369 TGGGATCGAACTTAAATCAGGACAATTGTCTAGATATAATTCTTTGAGACAAGTGGAGGTAGATA
196 TGGGATCGAACTTAAATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATA
* * *
12699434 ATCCATCTCCAATCTTGCTTAATTTTTCACAA-CCCAAAATGCAAAGCATTTCAAGAGATGAACA
261 ATCCA-CTCCAATCTTGCTTAATTTTTCACAATCGC-AAATGCGAAGCTTTTCAAGAGATGAACA
12699498 TCCTCCAGTTATTGGAAGAACTTCCAATTTGTTGCAGCTTCCAACTGACAGATATTGAAGAGAGG
324 TCCTCCAGTTATTGGAAGAACTTCCAATTTGTTGCAGCTTCCAACTGACAGATATTGAAGAGAGG
12699563 AAAATCCTTCCAAATTTGGGATCGAACTTAA
389 AAAATCCTTCCAAATTTGGGATCGAACTTAA
*
12699594 ATCAGGACAACCGTATAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
1 ATCAGGACAACCGTCTAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
*
12699659 TGCTTAATTTTTTACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
66 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
* ** *
12699724 AGAACTTCCAATTTGTTGCACC-TACGAACTGACAGATATTGAAGAGAGGAAAATCCTTCCAAAT
131 AGAACTTCCAATTTGTCGCACCGT-TTAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAAT
12699788 TTGGGATCGAACTTAAATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGAT
195 TTGGGATCGAACTTAAATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGAT
12699853 AAT-C-CTCCAATCTTGCTTAATTTTTCACAATCGCAAATGCGAAGCTTTTCAAGAGATGAACAT
260 AATCCACTCCAATCTTGCTTAATTTTTCACAATCGCAAATGCGAAGCTTTTCAAGAGATGAACAT
12699916 CCTCCAGTTATTGGAAGAACTTCCAATTTGTTGCAGCTTCCAACTGACAGATATTGAAGAGAGGA
325 CCTCCAGTTATTGGAAGAACTTCCAATTTGTTGCAGCTTCCAACTGACAGATATTGAAGAGAGGA
12699981 AAATCCTTCCAAATTTGGGATCGAACTTAA
390 AAATCCTTCCAAATTTGGGATCGAACTTAA
** * *
12700011 ATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGTGGTAGATAATCCATCTCCAATCT
1 ATCAGGACAACCGTCTAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
12700076 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
66 TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
12700141 AGAACTTCCAATTTGTCGCACCGTTTAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAATT
131 AGAACTTCCAATTTGTCGCACCGTTTAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAATT
* **
12700206 TGGGATCGAACTTAAATCAGAACAA-TACCGTAGATCTAATTCTTTGAGACAAGTGGAGGTAGAT
196 TGGGATCGAACTTAAATCAGGACAATTGTC-TAGATCTAATTCTTTGAGACAAGTGGAGGTAGAT
*
12700270 AATCCATCTCCAATCTTGCTTAATTTTTCACAATCGAAAATGCGAAGCTTTTCAAGAGATG
260 AATCCA-CTCCAATCTTGCTTAATTTTTCACAATCGCAAATGCGAAGCTTTTCAAGAGATG
12700331 TCAACCAGAT
Statistics
Matches: 705, Mismatches: 25, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
416 2 0.00
417 392 0.56
418 4 0.01
419 2 0.00
420 305 0.43
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (419 bp):
ATCAGGACAACCGTCTAGATCTAATTTTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCT
TGCTTAATTTTTCACAACCCAAAATGCAAAGCTTTTCAAGAGATGAACATCCTCCAGTTATTGGA
AGAACTTCCAATTTGTCGCACCGTTTAACTGACAGATTTTGAAGAGAGGAAAATCCTTCCAAATT
TGGGATCGAACTTAAATCAGGACAATTGTCTAGATCTAATTCTTTGAGACAAGTGGAGGTAGATA
ATCCACTCCAATCTTGCTTAATTTTTCACAATCGCAAATGCGAAGCTTTTCAAGAGATGAACATC
CTCCAGTTATTGGAAGAACTTCCAATTTGTTGCAGCTTCCAACTGACAGATATTGAAGAGAGGAA
AATCCTTCCAAATTTGGGATCGAACTTAA
Found at i:12700427 original size:102 final size:102
Alignment explanation
Indices: 12700246--12700432 Score: 338
Period size: 102 Copynumber: 1.8 Consensus size: 102
12700236 TAGATCTAAT
* *
12700246 TCTTTGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTTTTCACAATCGAAAAT
1 TCTTCGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTCTTCACAATCGAAAAT
*
12700311 GCGAAGCTTTTCAAGAGATGTCAACCAGATAAATCTA
66 GCCAAGCTTTTCAAGAGATGTCAACCAGATAAATCTA
*
12700348 TCTTCGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTCTTCACAATCGGAAAT
1 TCTTCGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTCTTCACAATCGAAAAT
12700413 GCCAAGCTTTTCAAGAGATG
66 GCCAAGCTTTTCAAGAGATG
12700433 AACATCCTTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 81 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (102 bp):
TCTTCGAGACAAGTGGAGGTAGATAATCCATCTCCAATCTTGCTTAATTCTTCACAATCGAAAAT
GCCAAGCTTTTCAAGAGATGTCAACCAGATAAATCTA
Found at i:12704308 original size:21 final size:22
Alignment explanation
Indices: 12704262--12704308 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
12704252 AAATTAAATT
* * *
12704262 TATTATAATTGTAAATAATATA
1 TATTATAATTATAAATAAAAAA
12704284 -ATTATAA-TATAAATAAAAAA
1 TATTATAATTATAAATAAAAAA
12704304 TATTA
1 TATTA
12704309 AGATGATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TATTATAATTATAAATAAAAAA
Found at i:12704355 original size:17 final size:17
Alignment explanation
Indices: 12704314--12704360 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
12704304 TATTAAGATG
**
12704314 ATTATATATTAAATTTTA
1 ATTA-ATATTAAATTAAA
*
12704332 ATAAATATTAAATTAAA
1 ATTAATATTAAATTAAA
12704349 ATTAATA-TAAAT
1 ATTAATATTAAAT
12704361 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.20
17 17 0.68
18 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAATATTAAATTAAA
Found at i:12706114 original size:31 final size:31
Alignment explanation
Indices: 12706078--12706140 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
12706068 CAAAATGAGC
12706078 ACTAAACTATTCAAAAGTTTTCATTTAAGTT
1 ACTAAACTATTCAAAAGTTTTCATTTAAGTT
* *
12706109 ACTAAACTATTCGAAAGTTTTTATTTAAGTT
1 ACTAAACTATTCAAAAGTTTTCATTTAAGTT
12706140 A
1 A
12706141 TTAGATTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (31 bp):
ACTAAACTATTCAAAAGTTTTCATTTAAGTT
Found at i:12707469 original size:54 final size:56
Alignment explanation
Indices: 12707411--12707525 Score: 180
Period size: 54 Copynumber: 2.1 Consensus size: 56
12707401 ATGGTATGTT
*
12707411 TTTTTAATGGCGCCTATCTGACAGGCGCTAATGAATTTTTTATATT-A-TTTTTTC
1 TTTTTAATGGCGCCTATCTGACAGGCGCCAATGAATTTTTTATATTAATTTTTTTC
* *
12707465 TTTTTAATGGCGCCTCTCTGACAGGTGCCAATGAATTTTTTATATTAAATTTTTTTC
1 TTTTTAATGGCGCCTATCTGACAGGCGCCAATGAATTTTTTATATT-AATTTTTTTC
12707522 TTTT
1 TTTT
12707526 AATAAAATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
54 43 0.78
56 1 0.02
57 11 0.20
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.50
Consensus pattern (56 bp):
TTTTTAATGGCGCCTATCTGACAGGCGCCAATGAATTTTTTATATTAATTTTTTTC
Found at i:12708485 original size:8 final size:9
Alignment explanation
Indices: 12708464--12708523 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
12708454 TTTATGTTAG
12708464 TTTTTATAA
1 TTTTTATAA
12708473 TTTTTATAA
1 TTTTTATAA
12708482 TTTTTATAA
1 TTTTTATAA
*
12708491 TTTTTCT-A
1 TTTTTATAA
*
12708499 TTTTAAATAA
1 TTTT-TATAA
*
12708509 TTTTAATAA
1 TTTTTATAA
12708518 CTTTTT
1 -TTTTT
12708524 TTGTAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
8 5 0.11
9 30 0.68
10 9 0.20
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:12708601 original size:13 final size:13
Alignment explanation
Indices: 12708583--12708607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12708573 TGACATGTAG
12708583 TAACATATGATTA
1 TAACATATGATTA
12708596 TAACATATGATT
1 TAACATATGATT
12708608 GGATGAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
TAACATATGATTA
Found at i:12709337 original size:6 final size:6
Alignment explanation
Indices: 12709326--12709360 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
12709316 GAAGATGGAT
12709326 GATGCA GATGCA GATGCA GATGCA GATGCA GATGC
1 GATGCA GATGCA GATGCA GATGCA GATGCA GATGC
12709361 TTTGGAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.17
Consensus pattern (6 bp):
GATGCA
Found at i:12710630 original size:46 final size:46
Alignment explanation
Indices: 12710558--12710742 Score: 264
Period size: 46 Copynumber: 4.0 Consensus size: 46
12710548 ACAATGCTAT
* * * *
12710558 AACTCAGTATGATTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
* *
12710604 AACTTAGTATGGTTTTCTTTACTGAAATATCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
* **
12710650 AACTCAATATGGTTTTCTTTACT-ATAATACCATATTTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGA-AATACCATACCTACGTTCCAC
*
12710696 AACTCAGTATGGTTTTCTTTACTGAAATGCCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
12710742 A
1 A
12710743 CTTTACCATG
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 120 0.98
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
Found at i:12713063 original size:31 final size:31
Alignment explanation
Indices: 12713025--12713092 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
12713015 TACAAAATGA
12713025 TCACTAAACTATTCAAAAGTTTTCATTTAAG
1 TCACTAAACTATTCAAAAGTTTTCATTTAAG
* * *
12713056 TTACTAAACTATTCGAAAGTTTTTATTTAAG
1 TCACTAAACTATTCAAAAGTTTTCATTTAAG
12713087 TCACTA
1 TCACTA
12713093 GATTGTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTTTCATTTAAG
Found at i:12713876 original size:6 final size:6
Alignment explanation
Indices: 12713865--12713905 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
12713855 GAAGATGGAT
12713865 GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA GATGC
1 GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA GATGC
12713906 TGTGGAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.34, T:0.17
Consensus pattern (6 bp):
GATGCA
Found at i:12714363 original size:25 final size:25
Alignment explanation
Indices: 12714335--12714388 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 25
12714325 ATTTTCATAT
12714335 ATTATATAATTTATAATACATAAA-A
1 ATTATATAATTTATAATA-ATAAATA
12714360 A-T-TA-AATTTATAATAATAAATA
1 ATTATATAATTTATAATAATAAATA
*
12714382 ATAATAT
1 ATTATAT
12714389 TATAATGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
21 5 0.21
22 13 0.54
23 2 0.08
24 3 0.12
25 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTATATAATTTATAATAATAAATA
Found at i:12715261 original size:32 final size:34
Alignment explanation
Indices: 12715192--12715263 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 34
12715182 GCGACGGCTC
* *
12715192 GCCCGAAATATGGGAGAATTTGGGTAAAAATATAG
1 GCCCGAAATATGGGAG-ATTTGGGCAAAAAAATAG
12715227 GCCCGAAATAT-GG-G-TTTGGGCAAAAAAATGAG
1 GCCCGAAATATGGGAGATTTGGGCAAAAAAAT-AG
12715259 GCCCG
1 GCCCG
12715264 TTTAGAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 13 0.38
32 7 0.21
33 1 0.03
34 2 0.06
35 11 0.32
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (34 bp):
GCCCGAAATATGGGAGATTTGGGCAAAAAAATAG
Found at i:12715370 original size:11 final size:11
Alignment explanation
Indices: 12715354--12715379 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12715344 ATTTTTTTAA
12715354 TTTTAAAATAT
1 TTTTAAAATAT
12715365 TTTTAAAATAT
1 TTTTAAAATAT
12715376 TTTT
1 TTTT
12715380 TTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:12716728 original size:15 final size:16
Alignment explanation
Indices: 12716708--12716745 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
12716698 TATGTATCAC
*
12716708 CAAATTATTA-TAGAA
1 CAAATTACTACTAGAA
12716723 CAAATTACTAGCTAGAA
1 CAAATTACTA-CTAGAA
12716740 CAAATT
1 CAAATT
12716746 CAAACTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (16 bp):
CAAATTACTACTAGAA
Found at i:12719701 original size:25 final size:25
Alignment explanation
Indices: 12719667--12719742 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
12719657 GACTTTCTAA
* *
12719667 TATTTAATACCCATATTTTTGACTT
1 TATTTGATACCCATATCTTTGACTT
12719692 TATTTGATACCCATATCTTTGACTT
1 TATTTGATACCCATATCTTTGACTT
12719717 TATTTGATACCCATATCTTTGACTT
1 TATTTGATACCCATATCTTTGACTT
12719742 T
1 T
12719743 CCATAAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (25 bp):
TATTTGATACCCATATCTTTGACTT
Found at i:12724370 original size:15 final size:15
Alignment explanation
Indices: 12724325--12724432 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
12724315 CCAATATCTC
12724325 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12724340 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12724355 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12724370 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12724385 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12724400 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
12724415 GATACCCATATCTTT
1 GATACCCATATCTTT
12724430 GAT
1 GAT
12724433 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:12724439 original size:30 final size:30
Alignment explanation
Indices: 12724315--12724438 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
12724305 TTTTATTATG
*
12724315 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
12724346 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12724376 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
12724406 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12724436 CCA
1 CCA
12724439 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:12729063 original size:15 final size:15
Alignment explanation
Indices: 12729018--12729125 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
12729008 CCAATATCTC
12729018 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12729033 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12729048 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12729063 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12729078 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12729093 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
12729108 GATACCCATATCTTT
1 GATACCCATATCTTT
12729123 GAT
1 GAT
12729126 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:12729132 original size:30 final size:30
Alignment explanation
Indices: 12729008--12729131 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
12728998 TTTTATTATG
*
12729008 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
12729039 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12729069 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
12729099 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12729129 CCA
1 CCA
12729132 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Done.