Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 51 of 100
Found at i:12330107 original size:25 final size:25
Alignment explanation
Indices: 12330073--12330152 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
12330063 AAGTGGTATC
*
12330073 AGAGCTGAAGGTTCAAAACGTGAGA
1 AGAGTTGAAGGTTCAAAACGTGAGA
* * *
12330098 AGAGTTGAAGATTCAAGATGTG-GAA
1 AGAGTTGAAGGTTCAAAACGTGAG-A
* *
12330123 AAAGTTGAAGGTCCAAAACGTGAGA
1 AGAGTTGAAGGTTCAAAACGTGAGA
12330148 AGAGT
1 AGAGT
12330153 CAAAAGTTCG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (25 bp):
AGAGTTGAAGGTTCAAAACGTGAGA
Found at i:12330545 original size:52 final size:52
Alignment explanation
Indices: 12330457--12330613 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
12330447 TGGACAAGAA
*
12330457 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGGAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGG-GATTCTTAATAGGTAAGTTT
* * *
12330509 GACTTGCAAGAGAAGCATTCTAAAAGGAAATGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
* * * * *
12330561 GACTTACATGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
12330613 G
1 G
12330614 TATGATTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 87 0.95
53 5 0.05
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:12330956 original size:44 final size:43
Alignment explanation
Indices: 12330893--12330978 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 43
12330883 GACTAGAGGA
12330893 GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGAGGTTGAT
1 GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGA-GTTGAT
*
12330937 GATTGAGAGTGTCTTATGAGTATTGATTGTTGAGTGAGTTGA
1 GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGAGTTGA
12330979 AAAATCCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 5 0.12
44 36 0.88
ACGTcount: A:0.23, C:0.02, G:0.35, T:0.40
Consensus pattern (43 bp):
GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGAGTTGAT
Found at i:12337170 original size:20 final size:20
Alignment explanation
Indices: 12337145--12337187 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
12337135 AATCTCTATC
12337145 CAATATATAAATGCATATGT
1 CAATATATAAATGCATATGT
12337165 CAATATATAAATGCATATGT
1 CAATATATAAATGCATATGT
12337185 CAA
1 CAA
12337188 AGCAAGTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (20 bp):
CAATATATAAATGCATATGT
Found at i:12346459 original size:16 final size:17
Alignment explanation
Indices: 12346398--12346459 Score: 67
Period size: 16 Copynumber: 3.7 Consensus size: 17
12346388 AAAGATAAAG
12346398 AATAGGATAAATAAAAT
1 AATAGGATAAATAAAAT
*
12346415 AA-AAGATAAATAAAGAT
1 AATAGGATAAATAAA-AT
*
12346432 AAATAGG-CAAAT-AAAT
1 -AATAGGATAAATAAAAT
12346448 AATAGGATAAAT
1 AATAGGATAAAT
12346460 TAAGGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.16
16 17 0.46
17 6 0.16
18 6 0.16
19 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.21
Consensus pattern (17 bp):
AATAGGATAAATAAAAT
Found at i:12349328 original size:26 final size:25
Alignment explanation
Indices: 12349297--12349353 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
12349287 ATGGATAATC
*
12349297 AAATAATTAAA-GATAAAGAATAGGAT
1 AAATAAATAAATGATAAAGAA-A-GAT
*
12349323 AAATAAAATAAATGATAAATAAAGAT
1 AAAT-AAATAAATGATAAAGAAAGAT
12349349 AAATA
1 AAATA
12349354 GGGAGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.04
26 11 0.41
27 7 0.26
28 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.23
Consensus pattern (25 bp):
AAATAAATAAATGATAAAGAAAGAT
Found at i:12349339 original size:16 final size:17
Alignment explanation
Indices: 12349320--12349352 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
12349310 TAAAGAATAG
12349320 GATAAATAAA-ATAAAT
1 GATAAATAAAGATAAAT
12349336 GATAAATAAAGATAAAT
1 GATAAATAAAGATAAAT
12349353 AGGGAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (17 bp):
GATAAATAAAGATAAAT
Found at i:12349344 original size:11 final size:10
Alignment explanation
Indices: 12349299--12349385 Score: 56
Period size: 12 Copynumber: 8.5 Consensus size: 10
12349289 GGATAATCAA
*
12349299 ATAATTAAAG
1 ATAAATAAAG
*
12349309 ATAAAGAATAGG
1 ATAAATAA-A-G
12349321 ATAAATAAA-
1 ATAAATAAAG
12349330 ATAAAT---G
1 ATAAATAAAG
12349337 ATAAATAAAG
1 ATAAATAAAG
*
12349347 ATAAATAGGGAG
1 ATAAATA--AAG
12349359 ATAAATAATAGG
1 ATAAATAA-A-G
*
12349371 ATAAATTAAG
1 ATAAATAAAG
12349381 ATAAA
1 ATAAA
12349386 AAATAATAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 20 0.33
11 4 0.07
12 25 0.41
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:12351432 original size:16 final size:16
Alignment explanation
Indices: 12351413--12351466 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
12351403 CCTTTCTTTC
12351413 CTCTTTCTTTCATATT
1 CTCTTTCTTTCATATT
*
12351429 CTCTTTCTTCTCCTATT
1 CTCTTTCTT-TCATATT
*
12351446 -T-TATTCTTTCTTATT
1 CTCT-TTCTTTCATATT
12351461 CTCTTT
1 CTCTTT
12351467 ACAACCAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 7 0.22
16 18 0.56
17 7 0.22
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (16 bp):
CTCTTTCTTTCATATT
Found at i:12351601 original size:12 final size:12
Alignment explanation
Indices: 12351586--12351637 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
12351576 AACCTTTTTT
12351586 TTCTTGTCCTTA
1 TTCTTGTCCTTA
* * *
12351598 TTCTTATTCTTG
1 TTCTTGTCCTTA
*
12351610 TTCTTGTTCTTA
1 TTCTTGTCCTTA
* *
12351622 TTATTTTCCTTA
1 TTCTTGTCCTTA
12351634 TTCT
1 TTCT
12351638 CATTCTCCTT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.10, C:0.19, G:0.06, T:0.65
Consensus pattern (12 bp):
TTCTTGTCCTTA
Found at i:12351609 original size:18 final size:18
Alignment explanation
Indices: 12351586--12351643 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
12351576 AACCTTTTTT
12351586 TTCTTGTCCTTATTCTTA
1 TTCTTGTCCTTATTCTTA
* *
12351604 TTCTTGTTCTTGTTCTTA
1 TTCTTGTCCTTATTCTTA
* * *
12351622 TTATTTTCCTTATTCTCA
1 TTCTTGTCCTTATTCTTA
12351640 TTCT
1 TTCT
12351644 CCTTCTTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.10, C:0.21, G:0.05, T:0.64
Consensus pattern (18 bp):
TTCTTGTCCTTATTCTTA
Found at i:12351650 original size:36 final size:34
Alignment explanation
Indices: 12351583--12351663 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 34
12351573 TGGAACCTTT
* **
12351583 TTTTTCTTGTCCTTATTCTTATTCTTGTTCTTGTTC
1 TTTTT-TT-TCCTTATTCTCATTCTCCTTCTTGTTC
*
12351619 TTATTATTTTCCTTATTCTCATTCTCCTTCTTTTTC
1 TT-TT-TTTTCCTTATTCTCATTCTCCTTCTTGTTC
12351655 TTTTTTTTC
1 TTTTTTTTC
12351664 TTTAATTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
34 5 0.13
35 2 0.05
36 27 0.69
37 4 0.10
38 1 0.03
ACGTcount: A:0.07, C:0.21, G:0.04, T:0.68
Consensus pattern (34 bp):
TTTTTTTTCCTTATTCTCATTCTCCTTCTTGTTC
Found at i:12354936 original size:3 final size:3
Alignment explanation
Indices: 12354928--12354975 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
12354918 CATAATCAAG
12354928 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12354976 AAGTATAGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12355799 original size:49 final size:49
Alignment explanation
Indices: 12355739--12355836 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
12355729 AATGTTTCAG
*
12355739 TATACCACACCTTAGCTACATGACAACATTTATAAACATTAGATTTATA
1 TATACCACACCTTAGCTACATGACAACATTTATAAACATCAGATTTATA
* * *
12355788 TATACCGCACCTTAGCTGCATGACAACATTTATAAACGTCAGATTTATA
1 TATACCACACCTTAGCTACATGACAACATTTATAAACATCAGATTTATA
12355837 CTAGATCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (49 bp):
TATACCACACCTTAGCTACATGACAACATTTATAAACATCAGATTTATA
Found at i:12360020 original size:52 final size:52
Alignment explanation
Indices: 12359874--12360020 Score: 231
Period size: 52 Copynumber: 2.8 Consensus size: 52
12359864 GACTTGTAAA
* * *
12359874 AGAAGAATTCTAAGAGAAAAGGGATTCTTAATAGGTAAGTTTAACTTACAAG
1 AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAG
* *
12359926 AGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAGG
1 AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAG
* *
12359978 AGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTG
12360021 TATGATTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 87 1.00
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (52 bp):
AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAG
Found at i:12360597 original size:25 final size:25
Alignment explanation
Indices: 12360552--12360599 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
12360542 AAGTGGTATC
* *
12360552 AGAGTTGAAGGTTCGAAATGTGAGA
1 AGAGTTAAAGATTCGAAATGTGAGA
12360577 AGAGTTAAAGATTC-AAGATGTGA
1 AGAGTTAAAGATTCGAA-ATGTGA
12360600 AAAAAGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.40, C:0.04, G:0.31, T:0.25
Consensus pattern (25 bp):
AGAGTTAAAGATTCGAAATGTGAGA
Found at i:12360616 original size:25 final size:24
Alignment explanation
Indices: 12360557--12360618 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
12360547 GTATCAGAGT
* * *
12360557 TGAAGGTTCGAAATGTGAGAAGAGT
1 TGAAGGTTC-AAATGTGAAAAAAGC
* *
12360582 TAAAGATTCAAGATGTGAAAAAAGC
1 TGAAGGTTCAA-ATGTGAAAAAAGC
12360607 TGAAGGTTCAAA
1 TGAAGGTTCAAA
12360619 ACATGAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.44, C:0.06, G:0.27, T:0.23
Consensus pattern (24 bp):
TGAAGGTTCAAATGTGAAAAAAGC
Found at i:12361035 original size:52 final size:52
Alignment explanation
Indices: 12360947--12361103 Score: 206
Period size: 52 Copynumber: 3.0 Consensus size: 52
12360937 TGGACAAGAA
* * * * *
12360947 GACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
* * * *
12360999 GACTTACAAGAGGAGCATTCTAAAAGGAAATGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
* * *
12361051 GACTTACAAGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
12361103 G
1 G
12361104 TATGATTATA
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:12361699 original size:25 final size:25
Alignment explanation
Indices: 12361635--12361702 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
12361625 AAGTGGTATC
*
12361635 AAAGCTGAAGGTTCAAAATGTGAGA
1 AAAGCTGAAGGTTCAAAATGTGAAA
* * * *
12361660 AGAGTTGAAGATTCAAGATGTGAAA
1 AAAGCTGAAGGTTCAAAATGTGAAA
*
12361685 AAAGCTAAAGGTTCAAAA
1 AAAGCTGAAGGTTCAAAA
12361703 CGTGGAAAGA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.21
Consensus pattern (25 bp):
AAAGCTGAAGGTTCAAAATGTGAAA
Found at i:12362107 original size:52 final size:52
Alignment explanation
Indices: 12362019--12362175 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
12362009 TGGATAAGAA
* *
12362019 GACTTGCAAAAGAAGAATTCTAAGA-GAAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAG-GATTCTTAATAGGCAAGTTT
* * *
12362071 GACTTGCAAGAGAAGCATTCTAAAAGGAAATGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGCAAGTTT
** * * * *
12362123 GACTTATAAGAGAAGAATTCTAAGAGGAGAGGGATTTTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGCAAGTTT
12362175 G
1 G
12362176 TATGATTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 86 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:12363243 original size:52 final size:52
Alignment explanation
Indices: 12363087--12363243 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
12363077 TGGACAAGAA
* * * *
12363087 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGGAGATTATTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAGAGGAAAGG-GATTCTTAATAGGCAAGTTT
* * * * *
12363139 AACTTGCAAGAGAAGCATTTTAAAAGGAAATGGATTCTTAATAGACAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * *
12363191 GACTTACAAGAGAAGAATTTTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
12363243 G
1 G
12363244 TATGATTATA
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
52 82 0.94
53 5 0.06
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTTTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:12363586 original size:44 final size:43
Alignment explanation
Indices: 12363523--12363608 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 43
12363513 GACTAGAGGA
12363523 GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGAGGTTGAT
1 GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGA-GTTGAT
*
12363567 GATTGAGAGTGTCTTATGAGTATTGATTGTTGAGTGAGTTGA
1 GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGAGTTGA
12363609 AAAATCCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 5 0.12
44 36 0.88
ACGTcount: A:0.23, C:0.02, G:0.35, T:0.40
Consensus pattern (43 bp):
GATTGAGAGTGTCGTATGAGTATTGATTGTTGAGTGAGTTGAT
Found at i:12370747 original size:221 final size:221
Alignment explanation
Indices: 12370360--12370770 Score: 554
Period size: 221 Copynumber: 1.9 Consensus size: 221
12370350 TTTATGTGAC
* *** ***
12370360 GGTATATTGAAGGTATTTTACTGTAGAAGATGCCTTTAATAATTTTTAAAATTTTTTGAGAAAAA
1 GGTATATTGAAGGTATTTTACAGTAGAAGATGCCTTTAATAATGCCTAAAATTTTAAAAGAAAAA
*
12370425 ATATTAAAGGCGTCCATTATTAACAAATGCCTCCAGTAATGGATTACTAAGTTTAAAGGTATATT
66 ATATTAAAGGCGTCCATTATTAACAAACGCCTCCAGTAATGGATTACTAAGTTTAAAGGTATATT
* *
12370490 GAAGATGCTTTTTCAAACAAACACCTTCTATAACCATCGCGGTATATTGAAGGCATTTTATAATA
131 AAAGATGCTTTTTCAAACAAACACCTTCTATAACCATCGCGGTATATTAAAGGCATTTTATAATA
12370555 AAAGACACCTTTAACAATTTTATCGT
196 AAAGACACCTTTAACAATTTTATCGT
* **
12370581 GGTATATTGAAGGTATTTTACAGTAGAAGATGCCTTTAATAATGCCTACAATTTTAAAAGGGAAA
1 GGTATATTGAAGGTATTTTACAGTAGAAGATGCCTTTAATAATGCCTAAAATTTTAAAAGAAAAA
* * ** * * * * *
12370646 ATATTGAAGGTGTCTGTTATTAACAAACGCTTTCTGTAATGGATTACTAAGTTTAAGGGTATGTT
66 ATATTAAAGGCGTCCATTATTAACAAACGCCTCCAGTAATGGATTACTAAGTTTAAAGGTATATT
* ** * * *
12370711 AAAGGTG-TATTTTTGAATAAACACCTTCTGTAACCATCGTGGTATATTAAAGGCATTTTA
131 AAAGATGCT-TTTTCAAACAAACACCTTCTATAACCATCGCGGTATATTAAAGGCATTTTA
12370771 CTGTAGAAGA
Statistics
Matches: 161, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
220 1 0.01
221 160 0.99
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (221 bp):
GGTATATTGAAGGTATTTTACAGTAGAAGATGCCTTTAATAATGCCTAAAATTTTAAAAGAAAAA
ATATTAAAGGCGTCCATTATTAACAAACGCCTCCAGTAATGGATTACTAAGTTTAAAGGTATATT
AAAGATGCTTTTTCAAACAAACACCTTCTATAACCATCGCGGTATATTAAAGGCATTTTATAATA
AAAGACACCTTTAACAATTTTATCGT
Found at i:12385031 original size:16 final size:17
Alignment explanation
Indices: 12384970--12385031 Score: 67
Period size: 16 Copynumber: 3.7 Consensus size: 17
12384960 AAAGATAAAG
12384970 AATAGGATAAATAAAAT
1 AATAGGATAAATAAAAT
*
12384987 AA-AAGATAAATAAAGAT
1 AATAGGATAAATAAA-AT
*
12385004 AAATAGG-CAAAT-AAAT
1 -AATAGGATAAATAAAAT
12385020 AATAGGATAAAT
1 AATAGGATAAAT
12385032 TAAGGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.16
16 17 0.46
17 6 0.16
18 6 0.16
19 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.21
Consensus pattern (17 bp):
AATAGGATAAATAAAAT
Found at i:12385968 original size:6 final size:6
Alignment explanation
Indices: 12385957--12385982 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12385947 AGATTAAAAG
12385957 ATACAA ATACAA ATACAA ATACAA AT
1 ATACAA ATACAA ATACAA ATACAA AT
12385983 TTAAAGATGC
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:0.65, C:0.15, G:0.00, T:0.19
Consensus pattern (6 bp):
ATACAA
Found at i:12387078 original size:16 final size:16
Alignment explanation
Indices: 12387031--12387071 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
12387021 TTTTTCCTTA
12387031 AAAAATTATATTTTTT
1 AAAAATTATATTTTTT
12387047 AAAAATTATATTTTTT
1 AAAAATTATATTTTTT
12387063 AAAAATTAT
1 AAAAATTAT
12387072 CTCTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AAAAATTATATTTTTT
Found at i:12387598 original size:31 final size:30
Alignment explanation
Indices: 12387540--12387601 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
12387530 AGAAAACTTG
* *
12387540 TTGAAAAATTAAACTTTGCCTATAAACTCA
1 TTGAAAAATTAAACTTTGCCGAAAAACTCA
* *
12387570 TTGAAAAATTCAACCTTTGTCGAAAAACTCA
1 TTGAAAAATT-AAACTTTGCCGAAAAACTCA
12387601 T
1 T
12387602 CAAAAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (30 bp):
TTGAAAAATTAAACTTTGCCGAAAAACTCA
Found at i:12391083 original size:29 final size:29
Alignment explanation
Indices: 12391040--12391098 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 29
12391030 TGCATACTTA
12391040 ATAAGTTTCAGCTAAGATTCAATTCCAAG
1 ATAAGTTTCAGCTAAGATTCAATTCCAAG
12391069 ATAAGTTTC-GACTAAGATTCAATTCCAAG
1 ATAAGTTTCAG-CTAAGATTCAATTCCAAG
12391098 A
1 A
12391099 CCATGTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
ATAAGTTTCAGCTAAGATTCAATTCCAAG
Found at i:12397331 original size:11 final size:11
Alignment explanation
Indices: 12397310--12397363 Score: 90
Period size: 11 Copynumber: 4.9 Consensus size: 11
12397300 AATCCCATAA
*
12397310 GAGATTAGTTT
1 GAGATTTGTTT
*
12397321 GGGATTTGTTT
1 GAGATTTGTTT
12397332 GAGATTTGTTT
1 GAGATTTGTTT
12397343 GAGATTTGTTT
1 GAGATTTGTTT
12397354 GAGATTTGTT
1 GAGATTTGTT
12397364 AAATATTACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:12397543 original size:52 final size:51
Alignment explanation
Indices: 12397395--12397532 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 51
12397385 AAAACTTGAA
* * *
12397395 AAAGAAGAATTCTAAGAGAAAAGGGATTCTTAATAAGTAAGTTTGACTTGC
1 AAAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTAC
*
12397446 AAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTAC
1 AA-AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTAC
* * *
12397498 AGAAGAAGAATTCTAGGAGGATAGAGATTCTTAAT
1 A-AAGAAGAATTCTAAGAGGAAAGGGATTCTTAAT
12397533 GGGCGAGTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 2 0.03
52 74 0.96
53 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTAC
Found at i:12398551 original size:55 final size:53
Alignment explanation
Indices: 12398471--12398608 Score: 152
Period size: 55 Copynumber: 2.6 Consensus size: 53
12398461 ACTTGCAAAG
* * * **
12398471 AAGAATTTTAAGA-GAAAAGAGATTCTTAATAGGTAAAGTTTGAACTTGTAAGAA
1 AAGAATTCTAAAAGGAAAAG-GATTCTTAATAGGCAAAGTTTG-ACTTACAAGAA
* *
12398525 AAGAAATTCTAAAAGGAAAAGGATTCTTAATAGGCCAAGTTTGACTTACAAGAG
1 AAG-AATTCTAAAAGGAAAAGGATTCTTAATAGGCAAAGTTTGACTTACAAGAA
* * *
12398579 AAGAATTCTAAGAGGAGAGGGATTCTTAAT
1 AAGAATTCTAAAAGGAAAAGGATTCTTAAT
12398609 GGGAAGTTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 24 0.33
54 14 0.19
55 28 0.39
56 6 0.08
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (53 bp):
AAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAAGTTTGACTTACAAGAA
Found at i:12400201 original size:120 final size:119
Alignment explanation
Indices: 12399963--12400286 Score: 347
Period size: 120 Copynumber: 2.7 Consensus size: 119
12399953 TATTTACGAA
* * ** * * * *
12399963 AAAGTTGAAAGTATCAATTTTTCTTGAAGAT-CCAA-TT-AAAAAA-TATACTTTTGAGAAAAAA
1 AAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAGCAT--TTTTAAGGAAAAG
* * * * *
12400024 TTGAAAGTATCAACTTTTCATGAAAATAAAAAATTTCAAAAACCATATTTTTTAGG
64 TTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTCAAAAAACATATTTTTGAGG
*
12400080 AAAAGTTGGAAAATATTAATTTTTTCTTGAAAATAAAAATTTTCAAAAAA-CA-TTTTAAGGAAA
1 -AAAGTT-GAAAATATCAA-TTTTTCTTGAAAATAAAAA-TTTCAAAAAAGCATTTTTAAGGAAA
* *
12400143 AGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTTCAAAAAAGATATTTTTGAGG
62 AGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTCAAAAAACATATTTTTGAGG
* * *
12400200 AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAATGGTATTTTTGAGGAAAAG
1 AAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAAAAAA--GCATTTTTAAGGAAAAG
*
12400265 TTGAAAGTATCAATTTTCCTTA
64 TTGAAAGTATCAATTTTTCTTA
12400287 TTTAAAGGCA
Statistics
Matches: 175, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
116 10 0.06
117 19 0.11
118 15 0.09
119 16 0.09
120 70 0.40
121 36 0.21
123 2 0.01
124 7 0.04
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (119 bp):
AAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAGCATTTTTAAGGAAAAGTT
GAAAGTATCAATTTTTCTTAAAAATAAAAAATTTCAAAAAACATATTTTTGAGG
Found at i:12400206 original size:59 final size:60
Alignment explanation
Indices: 12399962--12400281 Score: 375
Period size: 59 Copynumber: 5.4 Consensus size: 60
12399952 ATATTTACGA
* ** * * *
12399962 AAAAGTTGAAAGTATCAATTTTTCTTGAAGAT-CCAA-TT-AAAAAATATACTTTTGAGA
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAGATATTTTTGAGG
* * * ** *
12400019 AAAAATTGAAAGTATCAACTTTTCATGAAAATAAAAAATTTCAAAAACCATATTTTTTAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAAATTTCAAAAAAGATATTTTTGAGG
* * * *
12400080 AAAAGTTGGAAAATATTAATTTTTTCTTGAAAATAAAAATTTTC-AAAAA-ACA-TTTTAAGG
1 AAAAGTT-GAAAGTATCAA-TTTTTCTTGAAAATAAAAA-TTTCAAAAAAGATATTTTTGAGG
* *
12400140 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAAGATATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAGATATTTTTGAGG
*
12400200 -AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAATGGTATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAA-GATATTTTTGAGG
12400260 AAAAGTTGAAAGTATCAATTTT
1 AAAAGTTGAAAGTATCAATTTT
12400282 CCTTATTTAA
Statistics
Matches: 223, Mismatches: 28, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
57 32 0.14
58 22 0.10
59 57 0.26
60 35 0.16
61 43 0.19
62 18 0.08
63 16 0.07
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (60 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAGATATTTTTGAGG
Found at i:12403396 original size:11 final size:11
Alignment explanation
Indices: 12403375--12403428 Score: 90
Period size: 11 Copynumber: 4.9 Consensus size: 11
12403365 AATCCCATAA
*
12403375 GAGATTAGTTT
1 GAGATTTGTTT
*
12403386 GGGATTTGTTT
1 GAGATTTGTTT
12403397 GAGATTTGTTT
1 GAGATTTGTTT
12403408 GAGATTTGTTT
1 GAGATTTGTTT
12403419 GAGATTTGTT
1 GAGATTTGTT
12403429 AAATATTACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:12403608 original size:52 final size:52
Alignment explanation
Indices: 12403462--12403596 Score: 207
Period size: 52 Copynumber: 2.6 Consensus size: 52
12403452 AACTTGAAAA
* * *
12403462 AGAAGAATTCTAAGAGAAAAGGGATTCTTAATAAGTAAGTTTGACTTGCAAG
1 AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAAG
* *
12403514 AGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAGG
1 AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAAG
*
12403566 AGAAGAATTCTAAGAGGATAAGAGATTCTTA
1 AGAAGAATTCTAAGAGGA-AAGGGATTCTTA
12403597 TGGGCGAGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
52 64 0.85
53 11 0.15
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (52 bp):
AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAAG
Found at i:12404625 original size:52 final size:52
Alignment explanation
Indices: 12404549--12404693 Score: 184
Period size: 52 Copynumber: 2.8 Consensus size: 52
12404539 CTTGCAAAAG
* * **
12404549 AAGAATTTTAAGA-GAAAAGAGATTCTTAATAGGTAAGTTTGACTTGTAAGAA
1 AAGAATTCTAAGAGGAAAAG-GATTCTTAATAGGAAAGTTTGACTTACAAGAA
* * *
12404601 AAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTTGACTTACAAGAG
1 AAGAATTCTAAGAGGAAAAGGATTCTTAATAGGAAAGTTTGACTTACAAGAA
* * *
12404653 AAGAATTCTAAGAGGAGAGGGATTCTTAATGGGAAAGTTTG
1 AAGAATTCTAAGAGGAAAAGGATTCTTAATAGGAAAGTTTG
12404694 TATGATTATA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 75 0.93
53 6 0.07
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (52 bp):
AAGAATTCTAAGAGGAAAAGGATTCTTAATAGGAAAGTTTGACTTACAAGAA
Found at i:12406177 original size:117 final size:117
Alignment explanation
Indices: 12406040--12406320 Score: 368
Period size: 117 Copynumber: 2.4 Consensus size: 117
12406030 TATTTTACGA
* ** * *
12406040 AAAAGTTGAAAGTATCAATTTTTCTTGAAGAT-CCAA-TTAAAAAAATATACTTTGAGAAAAAAT
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAAACAT--TTTAAGAAAAAAT
* * *
12406103 TGAAAGTATCAACTTTTCATGAAAATAAAAATTTCAAAAACCATATTTTTTAGG
64 TGAAAGTATCAACTTTTCATAAAAATAAAAATTTCAAAAAACATATTTTTGAGG
* * * * *
12406157 AAAAGTTGAAAATATTAATTTTTCTTGAAAATAAAAATTTCAAAAAACATTTTAAGGAAAAGTTG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAAACATTTTAAGAAAAAATTG
* * * *
12406222 AAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAAGATATTTTTGAGG
66 AAAGTATCAACTTTTCATAAAAATAAAAATTTCAAAAAACATATTTTTGAGG
*
12406274 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAA
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAAA
12406321 TGGTATTTTT
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
117 131 0.92
118 2 0.01
119 10 0.07
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (117 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTAAAAAAACATTTTAAGAAAAAATTG
AAAGTATCAACTTTTCATAAAAATAAAAATTTCAAAAAACATATTTTTGAGG
Found at i:12406357 original size:60 final size:59
Alignment explanation
Indices: 12406040--12406356 Score: 401
Period size: 60 Copynumber: 5.4 Consensus size: 59
12406030 TATTTTACGA
* ** * *
12406040 AAAAGTTGAAAGTATCAATTTTTCTTGAAGAT-CCAA-TT-AAAAAAATATACTTTGAGA
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAATAT-TTTTGAGG
* * * * *
12406097 AAAAATTGAAAGTATCAACTTTTCATGAAAATAAAAATTTCAAAAACCATATTTTTTAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAA-AATATTTTTGAGG
* * * *
12406157 AAAAGTTGAAAATATTAATTTTTCTTGAAAATAAAAATTTC-AAAAAACA-TTTTAAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAATATTTTTGAGG
* *
12406214 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAAGATATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAA-ATATTTTTGAGG
*
12406274 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAATGGTATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAA--ATATTTTTGAGG
12406335 AAAAGTTGAAAGTATCAATTTT
1 AAAAGTTGAAAGTATCAATTTT
12406357 CCTTATTTAA
Statistics
Matches: 225, Mismatches: 27, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
57 72 0.32
58 9 0.04
59 8 0.04
60 98 0.44
61 38 0.17
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (59 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAATATTTTTGAGG
Found at i:12419072 original size:221 final size:221
Alignment explanation
Indices: 12418689--12419091 Score: 553
Period size: 221 Copynumber: 1.8 Consensus size: 221
12418679 TTTATGTGAC
* *** *
12418689 GGTATATTAAAGGTATTTTACAGTAGAAGATACCTTTAATAATTTTTAAAATTTTTCAAAGAAAA
1 GGTATATTAAAGGTATTTTACAGTAGAAGACACCTTTAATAATGCCTAAAATTTTTAAAAGAAAA
*
12418754 ATATTGAAGGCATCTATTATTAACAAATGCATTTAGTAATGGATTACTAAGTTTAAAGGTATATT
66 ATATTGAAGGCATCTATTATTAACAAACGCATTTAGTAATGGATTACTAAGTTTAAAGGTATATT
* * *
12418819 GAAGATACTTTTTCAAACAAACACCTTCTATAACCATCGTGGTATTTTGAAGGTGTTTTATAATA
131 AAAGATACTTTTTCAAACAAACACCTTCTATAACCATCATGGTATATTGAAGGTGTTTTATAATA
12418884 AAAGATGCCTTTAACAATTTTATCAT
196 AAAGATGCCTTTAACAATTTTATCAT
* * *
12418910 GGTATATTGAAGGTATTTTACAGTAGAAGACGCCTTTAATAATGCCTAAAA-TTTTAAAAGGGAA
1 GGTATATTAAAGGTATTTTACAGTAGAAGACACCTTTAATAATGCCTAAAATTTTTAAAA-GAAA
** * * * * *
12418974 AATATTGAAGGTGTTTGTTATTAACAAACGCCTTCT-GTAATGGATTACTAAGTTTAAGGGTATG
65 AATATTGAAGGCATCTATTATTAACAAACGCATT-TAGTAATGGATTACTAAGTTTAAAGGTATA
* *
12419038 TTAAAGGCATA-TTTTT-GAATAAACACCTTCTATAACCATCATGGTATATTGAAG
129 TTAAA-G-ATACTTTTTCAAACAAACACCTTCTATAACCATCATGGTATATTGAAG
12419092 ACATTTTACT
Statistics
Matches: 157, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
220 7 0.04
221 140 0.89
222 7 0.04
223 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (221 bp):
GGTATATTAAAGGTATTTTACAGTAGAAGACACCTTTAATAATGCCTAAAATTTTTAAAAGAAAA
ATATTGAAGGCATCTATTATTAACAAACGCATTTAGTAATGGATTACTAAGTTTAAAGGTATATT
AAAGATACTTTTTCAAACAAACACCTTCTATAACCATCATGGTATATTGAAGGTGTTTTATAATA
AAAGATGCCTTTAACAATTTTATCAT
Found at i:12420761 original size:33 final size:33
Alignment explanation
Indices: 12420722--12420788 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
12420712 GAGAAGCATC
12420722 AAAGTTTTATAAGTTGCTTGAAGAGATGAATGA
1 AAAGTTTTATAAGTTGCTTGAAGAGATGAATGA
12420755 AAAGTTTTATAAGTTGCTTGAAGAGATGAATGA
1 AAAGTTTTATAAGTTGCTTGAAGAGATGAATGA
12420788 A
1 A
12420789 GAACATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (33 bp):
AAAGTTTTATAAGTTGCTTGAAGAGATGAATGA
Found at i:12434472 original size:16 final size:17
Alignment explanation
Indices: 12434451--12434495 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
12434441 AAATAATTAA
* *
12434451 AAATAAAGA-ATAGGAT
1 AAATAAAGATAAAAGAT
12434467 AAATAAA-ATAAAAGAT
1 AAATAAAGATAAAAGAT
12434483 AAATAAAGATAAA
1 AAATAAAGATAAA
12434496 TAGGCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.04
16 19 0.76
17 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (17 bp):
AAATAAAGATAAAAGAT
Found at i:12434472 original size:26 final size:25
Alignment explanation
Indices: 12434441--12434497 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
12434431 ATGGATAATC
*
12434441 AAATAATTAAAA-ATAAAGAATAGGAT
1 AAATAAATAAAAGATAAAGAA-A-GAT
*
12434467 AAATAAAATAAAAGATAAATAAAGAT
1 AAAT-AAATAAAAGATAAAGAAAGAT
12434493 AAATA
1 AAATA
12434498 GGCAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.04
26 11 0.41
27 8 0.30
28 7 0.26
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (25 bp):
AAATAAATAAAAGATAAAGAAAGAT
Found at i:12437642 original size:26 final size:25
Alignment explanation
Indices: 12437611--12437667 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
12437601 ATGGATAATC
*
12437611 AAATAATTAAA-GATAAAGAATAGGAT
1 AAATAAATAAATGATAAAGAA-A-GAT
*
12437637 AAATAAAATAAATGATAAATAAAGAT
1 AAAT-AAATAAATGATAAAGAAAGAT
12437663 AAATA
1 AAATA
12437668 GGGAGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.04
26 11 0.41
27 7 0.26
28 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.23
Consensus pattern (25 bp):
AAATAAATAAATGATAAAGAAAGAT
Found at i:12437653 original size:16 final size:17
Alignment explanation
Indices: 12437634--12437666 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
12437624 TAAAGAATAG
12437634 GATAAATAAA-ATAAAT
1 GATAAATAAAGATAAAT
12437650 GATAAATAAAGATAAAT
1 GATAAATAAAGATAAAT
12437667 AGGGAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (17 bp):
GATAAATAAAGATAAAT
Found at i:12437658 original size:11 final size:10
Alignment explanation
Indices: 12437613--12437699 Score: 56
Period size: 12 Copynumber: 8.5 Consensus size: 10
12437603 GGATAATCAA
*
12437613 ATAATTAAAG
1 ATAAATAAAG
*
12437623 ATAAAGAATAGG
1 ATAAATAA-A-G
12437635 ATAAATAAA-
1 ATAAATAAAG
12437644 ATAAAT---G
1 ATAAATAAAG
12437651 ATAAATAAAG
1 ATAAATAAAG
*
12437661 ATAAATAGGGAG
1 ATAAATA--AAG
12437673 ATAAATAATACG
1 ATAAATAA-A-G
*
12437685 ATAAATTAAG
1 ATAAATAAAG
12437695 ATAAA
1 ATAAA
12437700 AAAATAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 20 0.33
11 4 0.07
12 25 0.41
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.23
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:12439894 original size:12 final size:12
Alignment explanation
Indices: 12439879--12439930 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
12439869 GTTCTTGTTT
12439879 TTCTTGTCCTTA
1 TTCTTGTCCTTA
* * *
12439891 TTCTTATTCTTG
1 TTCTTGTCCTTA
*
12439903 TTCTTGTTCTTA
1 TTCTTGTCCTTA
*
12439915 TTCTTTTCCTTA
1 TTCTTGTCCTTA
12439927 TTCT
1 TTCT
12439931 CATTCTCCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.08, C:0.21, G:0.06, T:0.65
Consensus pattern (12 bp):
TTCTTGTCCTTA
Found at i:12439896 original size:6 final size:6
Alignment explanation
Indices: 12439887--12439936 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
12439877 TTTTCTTGTC
* * *
12439887 CTTATT CTTATT CTTGTT CTTGTT CTTATT CTT-TT CCTTATT CTCATT
1 CTTATT CTTATT CTTATT CTTATT CTTATT CTTATT -CTTATT CTTATT
12439935 CT
1 CT
12439937 CCTTCTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 2 0.05
6 35 0.90
7 2 0.05
ACGTcount: A:0.10, C:0.22, G:0.04, T:0.64
Consensus pattern (6 bp):
CTTATT
Found at i:12439902 original size:18 final size:18
Alignment explanation
Indices: 12439879--12439936 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
12439869 GTTCTTGTTT
12439879 TTCTTGTCCTTATTCTTA
1 TTCTTGTCCTTATTCTTA
* *
12439897 TTCTTGTTCTTGTTCTTA
1 TTCTTGTCCTTATTCTTA
* *
12439915 TTCTTTTCCTTATTCTCA
1 TTCTTGTCCTTATTCTTA
12439933 TTCT
1 TTCT
12439937 CCTTCTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.09, C:0.22, G:0.05, T:0.64
Consensus pattern (18 bp):
TTCTTGTCCTTATTCTTA
Found at i:12444430 original size:221 final size:221
Alignment explanation
Indices: 12444047--12444458 Score: 585
Period size: 221 Copynumber: 1.9 Consensus size: 221
12444037 TTTATGTGGC
* **** *** *
12444047 GGTATATTAAAGGTATTTTACAGTAGAAGATGCCTTTAATAATTTTTAAAATTTTTTGAGGAAAA
1 GGTATATTAAAGGTATTTTACAGTAGAAGACGCCTTTAATAATGCCCAAAATTTTAAAAGAAAAA
* * *
12444112 CTATTTAAGGCGTCTATTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATT
66 ATATTGAAGGCGTCTATTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATT
* ** *
12444177 GAAGATGCTTTTTCAAACAAACACCTTCTATAACCATCGTGGTATATTGAAGGCATTTTATAATA
131 AAAGACACTTTTTCAAACAAACACCTTCTATAACCATCGTAGTATATTGAAGGCATTTTATAATA
12444242 AAAGACGCCTTTAACAATTTCATCGT
196 AAAGACGCCTTTAACAATTTCATCGT
12444268 GGTATATTGAAA-GTATTTTACAGTAGAAGACGCCTTTAATAATGCCCAAAATTTTAAAAGAAAA
1 GGTATATT-AAAGGTATTTTACAGTAGAAGACGCCTTTAATAATGCCCAAAATTTTAAAAGAAAA
* * * *
12444332 AATATTGAAGGCGTCTGTTATTAACAAACGCCTTCTGTAATGGATTACTAAGTTTAAGGGTATGT
65 AATATTGAAGGCGTCTATTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATAT
* * *
12444397 TAAAGGCACATTTTT-GAATAAACACCTTCTATAACCATCGTAGTATATTGAAGGCATTTTAT
130 TAAAGACAC-TTTTTCAAACAAACACCTTCTATAACCATCGTAGTATATTGAAGGCATTTTAT
12444459 TGTAGAAGAC
Statistics
Matches: 166, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
221 158 0.95
222 8 0.05
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (221 bp):
GGTATATTAAAGGTATTTTACAGTAGAAGACGCCTTTAATAATGCCCAAAATTTTAAAAGAAAAA
ATATTGAAGGCGTCTATTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATT
AAAGACACTTTTTCAAACAAACACCTTCTATAACCATCGTAGTATATTGAAGGCATTTTATAATA
AAAGACGCCTTTAACAATTTCATCGT
Found at i:12451481 original size:21 final size:21
Alignment explanation
Indices: 12451414--12451482 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
12451404 TATGATTTTT
12451414 TTAATTTTTAATATTAAAAATCA
1 TTAA-TTTTAATATTAAAAA-CA
* * *
12451437 TGAAACTTTAAT-TTAAAAAAA
1 T-TAATTTTAATATTAAAAACA
*
12451458 TTAATTTTAATATTAAATACA
1 TTAATTTTAATATTAAAAACA
12451479 TTAA
1 TTAA
12451483 AGTAAAGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 8 0.22
21 13 0.35
22 7 0.19
23 7 0.19
24 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (21 bp):
TTAATTTTAATATTAAAAACA
Found at i:12455693 original size:94 final size:91
Alignment explanation
Indices: 12455583--12455761 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 91
12455573 CAAATAACAA
* * *
12455583 TCAACTAATAAATCAATATCAACTCAAAACAAATCTAATGTAAAATTGAATTAAATGATCACATA
1 TCAACTAATAAATCAATATCAACACAAAACAAATCCAATATAAAATTGAATT-AA--ATCACATA
*
12455648 GGGTGAGATATGACCTTGGACTTCAAGAT
63 GGGTGAGATATAACCTTGGACTTCAAGAT
* * * *
12455677 TCAACTAATAGATCAATGTTAACACAAAACAAATCCATTATAAAATTGAATTAAATCACATAGGG
1 TCAACTAATAAATCAATATCAACACAAAACAAATCCAATATAAAATTGAATTAAATCACATAGGG
* *
12455742 TGAGATGTAATCTTGGACTT
66 TGAGATATAACCTTGGACTT
12455762 ACAGATTTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
91 28 0.37
93 2 0.03
94 45 0.60
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (91 bp):
TCAACTAATAAATCAATATCAACACAAAACAAATCCAATATAAAATTGAATTAAATCACATAGGG
TGAGATATAACCTTGGACTTCAAGAT
Found at i:12468931 original size:47 final size:46
Alignment explanation
Indices: 12468847--12468940 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 46
12468837 GTTTGAATTC
* * * *
12468847 AAAAACTTAAGTTATTAGGTTATTGAGCACATGAAATTGATAGACA
1 AAAAACTTAAGCTATTAAGTTATTGAGCACATAAAATTAATAGACA
* * *
12468893 AAAAAGCTTAAGCTATTAAGTTCTTGAGCACGTAAAATTAATTGACA
1 AAAAA-CTTAAGCTATTAAGTTATTGAGCACATAAAATTAATAGACA
12468940 A
1 A
12468941 GGTCAACCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 5 0.12
47 35 0.88
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (46 bp):
AAAAACTTAAGCTATTAAGTTATTGAGCACATAAAATTAATAGACA
Found at i:12479542 original size:3 final size:3
Alignment explanation
Indices: 12479534--12479589 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
12479524 GGCCTAATAT
12479534 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12479582 TTA TTA TT
1 TTA TTA TT
12479590 TAATAATCGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12482170 original size:49 final size:49
Alignment explanation
Indices: 12482116--12482210 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
12482106 TTAAACATAA
12482116 AGCAATTGGAAGATCAAGTACTCAAGAACAAGTAAAAACACTTAACAAC
1 AGCAATTGGAAGATCAAGTACTCAAGAACAAGTAAAAACACTTAACAAC
* *
12482165 AGCAATTGGAAGGTCAAGTACTCAAGAACAAGTAAGAACACTTAAC
1 AGCAATTGGAAGATCAAGTACTCAAGAACAAGTAAAAACACTTAAC
12482211 CACAACACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (49 bp):
AGCAATTGGAAGATCAAGTACTCAAGAACAAGTAAAAACACTTAACAAC
Found at i:12483924 original size:71 final size:71
Alignment explanation
Indices: 12483806--12483939 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
12483796 GAATCTCGAT
* *
12483806 AGAAAATGGAGAGTCGCTATCAACATCCTAAACATACTTAATTGAAACATTACAGATAATGCCCC
1 AGAAAATGGAGAGTCGCTATCAACAACCTAAACATACTTAATAGAAACATTACAGATAATGCCCC
12483871 AAGTAA
66 AAGTAA
* * **
12483877 AGAAAATGGGGAGTC-CTTATCAATAACCTAGTCATACTTAATAGAAACATTACAGATAATGCC
1 AGAAAATGGAGAGTCGC-TATCAACAACCTAAACATACTTAATAGAAACATTACAGATAATGCC
12483940 TCACGAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.02
71 55 0.98
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (71 bp):
AGAAAATGGAGAGTCGCTATCAACAACCTAAACATACTTAATAGAAACATTACAGATAATGCCCC
AAGTAA
Found at i:12493009 original size:13 final size:13
Alignment explanation
Indices: 12492993--12493017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12492983 ATGGAATGAA
12492993 TTGATTTTTAAAG
1 TTGATTTTTAAAG
12493006 TTGATTTTTAAA
1 TTGATTTTTAAA
12493018 TATATAATAT
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:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTGATTTTTAAAG
Found at i:12496557 original size:2 final size:2
Alignment explanation
Indices: 12496552--12496577 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12496542 TTTTCTGTTA
12496552 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12496578 CTATTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12496624 original size:2 final size:2
Alignment explanation
Indices: 12496617--12496646 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12496607 GTTCCATGTT
12496617 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
12496647 AATTGATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12500835 original size:30 final size:29
Alignment explanation
Indices: 12500794--12500905 Score: 118
Period size: 30 Copynumber: 3.8 Consensus size: 29
12500784 TATACTTTTA
* *
12500794 TTATACCCAAATAAA-CTTTTAAATATTAAT
1 TTATACTCAAATAAATC-CTTAAAT-TTAAT
12500824 TTATACTCAAATAAATCCTTAACATTTAAT
1 TTATACTCAAATAAATCCTTAA-ATTTAAT
*
12500854 TTATATTCAAATAAATCCTTAAATTTTAAT
1 TTATACTCAAATAAATCCTTAAA-TTTAAT
* * * *
12500884 TTGTATTTAAATAAACCCTTAA
1 TTATACTCAAATAAATCCTTAA
12500906 CACAAGATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.01
30 69 0.95
31 3 0.04
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.42
Consensus pattern (29 bp):
TTATACTCAAATAAATCCTTAAATTTAAT
Found at i:12500858 original size:60 final size:60
Alignment explanation
Indices: 12500794--12500907 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
12500784 TATACTTTTA
* *
12500794 TTATACCCAAATAAA-CTTTTAAATATTAATTTATACTCAAATAAATCCTTAACATTTAAT
1 TTATACCCAAATAAATC-CTTAAATATTAATTTATACTCAAATAAACCCTTAACATTTAAT
** * * * *
12500854 TTATATTCAAATAAATCCTTAAATTTTAATTTGTATTTAAATAAACCCTTAACA
1 TTATACCCAAATAAATCCTTAAATATTAATTTATACTCAAATAAACCCTTAACA
12500908 CAAGATATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 44 0.98
61 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (60 bp):
TTATACCCAAATAAATCCTTAAATATTAATTTATACTCAAATAAACCCTTAACATTTAAT
Found at i:12501593 original size:19 final size:19
Alignment explanation
Indices: 12501551--12501607 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 19
12501541 TTTTAAATTA
12501551 AAATTAAATAATGATTTATTT
1 AAATTAAATAAT-A-TTATTT
12501572 AAATTAAAATAATATT-TTT
1 AAATT-AAATAATATTATTT
*
12501591 AAATTTAAATTATATTA
1 AAA-TTAAATAATATTA
12501608 ACGTAAGTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 15 0.47
20 4 0.12
21 6 0.19
22 7 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AAATTAAATAATATTATTT
Found at i:12501596 original size:25 final size:26
Alignment explanation
Indices: 12501539--12501602 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
12501529 ATATTTTTTA
*
12501539 ATTTTTAAATTAAAATT-AAATAATG
1 ATTTTTAAATTTAAATTAAAATAATG
12501564 A--TTT--ATTTAAATTAAAATAAT-
1 ATTTTTAAATTTAAATTAAAATAATG
12501585 ATTTTTAAATTTAAATTA
1 ATTTTTAAATTTAAATTA
12501603 TATTAACGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
21 9 0.27
22 7 0.21
23 6 0.18
25 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTTTTAAATTTAAATTAAAATAATG
Found at i:12504117 original size:21 final size:22
Alignment explanation
Indices: 12504074--12504117 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
12504064 ATTTTTAATG
*
12504074 TTTTAAAAATCATAAAATATAA
1 TTTTAAAAATCATAAAAAATAA
12504096 TTTT-AAAAT-ATAAAAAAGTAA
1 TTTTAAAAATCATAAAAAA-TAA
12504117 T
1 T
12504118 AGTTTTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTTAAAAATCATAAAAAATAA
Found at i:12505152 original size:2 final size:2
Alignment explanation
Indices: 12505145--12505170 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12505135 TACTTTGATT
12505145 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
12505171 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12505175 original size:2 final size:2
Alignment explanation
Indices: 12505170--12505200 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12505160 ATATATATAT
*
12505170 AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12505201 AGTGACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12505390 original size:105 final size:105
Alignment explanation
Indices: 12505226--12505447 Score: 338
Period size: 105 Copynumber: 2.1 Consensus size: 105
12505216 CTTAACCTAA
12505226 AAAATTAAATTGATTAGCTTGAACCCAAATTCAATGGATTTGATTTAATTAAAAAAGTCAACAAT
1 AAAATTAAATTGATTAGCTTGAACCCAAATTCAATGGATTTGATTTAATTAAAAAAGTCAACAAT
* *
12505291 CTAAACTCGTGCTACCCCAAAC-CAAAATCAGACTTAATCT
66 CTAAACTCATCCTACCCCAAACAC-AAATCAGACTTAATCT
* * * * *
12505331 AAAATTAATTTGATTAGCTTGAATCTAAATTCAATTGATTTGATTTAATTAAATAAGTCAACAAT
1 AAAATTAAATTGATTAGCTTGAACCCAAATTCAATGGATTTGATTTAATTAAAAAAGTCAACAAT
*
12505396 CTAAACTCATCCTACCCTAAACACAAATCAGACTTAATCT
66 CTAAACTCATCCTACCCCAAACACAAATCAGACTTAATCT
*
12505436 AAACTTGAAATT
1 AAAATT-AAATT
12505448 ATCCAATTCC
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 100 0.95
106 5 0.05
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (105 bp):
AAAATTAAATTGATTAGCTTGAACCCAAATTCAATGGATTTGATTTAATTAAAAAAGTCAACAAT
CTAAACTCATCCTACCCCAAACACAAATCAGACTTAATCT
Found at i:12506341 original size:20 final size:20
Alignment explanation
Indices: 12506316--12506355 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12506306 TTAAACTATA
*
12506316 CCAAAGCCAAATTTAAGCTT
1 CCAAAGCCAAATCTAAGCTT
**
12506336 CCAAAGTTAAATCTAAGCTT
1 CCAAAGCCAAATCTAAGCTT
12506356 TGACAACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (20 bp):
CCAAAGCCAAATCTAAGCTT
Found at i:12507298 original size:14 final size:16
Alignment explanation
Indices: 12507279--12507310 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
12507269 AAATAACGCC
12507279 ACAAAT-CTAGAA-TG
1 ACAAATACTAGAAGTG
12507293 ACAAATACTAGAAGTG
1 ACAAATACTAGAAGTG
12507309 AC
1 AC
12507311 GCATAGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (16 bp):
ACAAATACTAGAAGTG
Found at i:12507528 original size:17 final size:17
Alignment explanation
Indices: 12507489--12507532 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
12507479 CAGTAAAGTC
12507489 AAATGGAAAACATGCAG
1 AAATGGAAAACATGCAG
* * *
12507506 ACATGGCAAACATGTAG
1 AAATGGAAAACATGCAG
12507523 AAATGGAAAA
1 AAATGGAAAA
12507533 TGAAATCTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.52, C:0.11, G:0.23, T:0.14
Consensus pattern (17 bp):
AAATGGAAAACATGCAG
Found at i:12511671 original size:28 final size:28
Alignment explanation
Indices: 12511638--12511723 Score: 136
Period size: 28 Copynumber: 3.1 Consensus size: 28
12511628 TATGATAGAA
*
12511638 GCTAATATTTAAAGTCTTAGAAGCCAAG
1 GCTAATATATAAAGTCTTAGAAGCCAAG
* *
12511666 GCTAATGTATAAAATCTTAGAAGCCAAG
1 GCTAATATATAAAGTCTTAGAAGCCAAG
*
12511694 GCTAATATATAAAGTCTTAGATGCCAAG
1 GCTAATATATAAAGTCTTAGAAGCCAAG
12511722 GC
1 GC
12511724 AATGTCTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (28 bp):
GCTAATATATAAAGTCTTAGAAGCCAAG
Found at i:12513563 original size:20 final size:20
Alignment explanation
Indices: 12513538--12513575 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12513528 TTCATCATTG
12513538 AAAAATTCAAAATTTTAAGA
1 AAAAATTCAAAATTTTAAGA
* *
12513558 AAAAATTGAATATTTTAA
1 AAAAATTCAAAATTTTAA
12513576 TTTTTTCTTA
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:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATTTTAAGA
Found at i:12519945 original size:20 final size:21
Alignment explanation
Indices: 12519920--12519970 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
12519910 TCGTTCATTG
12519920 ATTTTTTAAATTTATTTT-T-T
1 ATTTTTTAAA-TTATTTTATAT
12519940 ATTTTTTAAATTATTTTAATAT
1 ATTTTTTAAATTATTTT-ATAT
12519962 ATTTTTTAA
1 ATTTTTTAA
12519971 TATATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.25
20 10 0.36
21 1 0.04
22 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTTAAATTATTTTATAT
Found at i:12519968 original size:12 final size:12
Alignment explanation
Indices: 12519939--12519977 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
12519929 ATTTATTTTT
12519939 TATTTTTTAA-A
1 TATTTTTTAATA
*
12519950 T-TATTTTAATA
1 TATTTTTTAATA
12519961 TATTTTTTAATA
1 TATTTTTTAATA
12519973 TATTT
1 TATTT
12519978 AAATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTTAATA
Found at i:12519976 original size:22 final size:22
Alignment explanation
Indices: 12519939--12519987 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
12519929 ATTTATTTTT
*
12519939 TATTTTTTAAATTATTTTAATA
1 TATTTTTTAAATTATTTAAATA
12519961 TATTTTTT-AATATATTTAAATA
1 TATTTTTTAAAT-TATTTAAATA
*
12519983 AATTT
1 TATTT
12519988 AATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTTTTAAATTATTTAAATA
Found at i:12519989 original size:31 final size:29
Alignment explanation
Indices: 12519932--12519993 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
12519922 TTTTTAAATT
* * *
12519932 TATTTTTTATTTTTTAAATTATTTTAATA
1 TATTTTTTATTATTTAAATAAATTTAATA
12519961 TATTTTTTAATATATTTAAATAAATTTAATA
1 TATTTTTT-AT-TATTTAAATAAATTTAATA
12519992 TA
1 TA
12519994 AAATAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.29
30 2 0.07
31 18 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TATTTTTTATTATTTAAATAAATTTAATA
Found at i:12521562 original size:11 final size:11
Alignment explanation
Indices: 12521546--12521577 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
12521536 ATATTTATTC
12521546 TTAATAAAAAA
1 TTAATAAAAAA
*
12521557 TTAATAAAATA
1 TTAATAAAAAA
12521568 TTAATAAAAA
1 TTAATAAAAA
12521578 TTTTGGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TTAATAAAAAA
Found at i:12525878 original size:9 final size:9
Alignment explanation
Indices: 12525856--12525932 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
12525846 AATGAATGAA
*
12525856 AAAAAAAGAG
1 AAAAAAA-AT
12525866 AAAAAAAAT
1 AAAAAAAAT
12525875 -AAAAAAAT
1 AAAAAAAAT
* **
12525883 -GAAAGGAT
1 AAAAAAAAT
* *
12525891 GAAAAAATT
1 AAAAAAAAT
12525900 AAAAAAAAT
1 AAAAAAAAT
*
12525909 GAAAAAAAT
1 AAAAAAAAT
12525918 GAAAAAAAAT
1 -AAAAAAAAT
12525928 AAAAA
1 AAAAA
12525933 TGAAAAAAAG
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
8 13 0.25
9 25 0.47
10 15 0.28
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:12525914 original size:19 final size:18
Alignment explanation
Indices: 12525865--12525941 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 18
12525855 AAAAAAAAGA
12525865 GAAAAAAAATAAAAAAAT
1 GAAAAAAAATAAAAAAAT
** *
12525883 G--AAAGGATGAAAAAAT
1 GAAAAAAAATAAAAAAAT
*
12525899 TAAAAAAAATGAAAAAAAT
1 GAAAAAAAAT-AAAAAAAT
12525918 GAAAAAAAAT--AAAAAT
1 GAAAAAAAATAAAAAAAT
12525934 GAAAAAAA
1 GAAAAAAA
12525942 GTTGANNNNN
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 26 0.54
18 6 0.12
19 16 0.33
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (18 bp):
GAAAAAAAATAAAAAAAT
Found at i:12525932 original size:35 final size:34
Alignment explanation
Indices: 12525846--12525941 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 34
12525836 AGATATCACT
*
12525846 AATGAATGAAAAAAAAAGA-GAAAAAAAATAAAAA
1 AATGAAAGAAAAAAAAA-ATGAAAAAAAATAAAAA
* ** *
12525880 AATGAAAGGATGAAAAAATTAAAAAAAATGAAAAA
1 AATGAAAGAAAAAAAAAATGAAAAAAAAT-AAAAA
12525915 AATGAAA-AAAAATAAAAATGAAAAAAA
1 AATGAAAGAAAAA-AAAAATGAAAAAAA
12525942 GTTGANNNNN
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
33 1 0.02
34 24 0.48
35 25 0.50
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (34 bp):
AATGAAAGAAAAAAAAAATGAAAAAAAATAAAAA
Found at i:12525940 original size:9 final size:9
Alignment explanation
Indices: 12525867--12525941 Score: 77
Period size: 9 Copynumber: 8.8 Consensus size: 9
12525857 AAAAAAGAGA
12525867 AAAAAAAT-
1 AAAAAAATG
12525875 AAAAAAATG
1 AAAAAAATG
**
12525884 -AAAGGATG
1 AAAAAAATG
* *
12525892 AAAAAATTA
1 AAAAAAATG
12525901 AAAAAAATG
1 AAAAAAATG
12525910 AAAAAAATG
1 AAAAAAATG
12525919 AAAAAAA--
1 AAAAAAATG
*
12525926 ATAAAAATG
1 AAAAAAATG
12525935 AAAAAAA
1 AAAAAAA
12525942 GTTGANNNNN
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
7 6 0.11
8 14 0.26
9 33 0.62
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:12525941 original size:10 final size:10
Alignment explanation
Indices: 12525892--12525932 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
12525882 TGAAAGGATG
*
12525892 AAAAAATTAA
1 AAAAAATGAA
12525902 AAAAAATG-A
1 AAAAAATGAA
12525911 AAAAAATGAA
1 AAAAAATGAA
12525921 AAAAAAT-AA
1 AAAAAATGAA
12525930 AAA
1 AAA
12525933 TGAAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:12528551 original size:58 final size:59
Alignment explanation
Indices: 12528302--12528832 Score: 610
Period size: 57 Copynumber: 8.9 Consensus size: 59
12528292 TCTTGTACAG
* * *
12528302 GGAAAATTGATACTTTCAACTTTTTCCCTGAAAAATATTTTTTTTGAAACTTTAATTTC--A
1 GGAAAATTGATACTTTCAAC-TTTT-CCTCAAAAATTTTTTTTTTGAAA-TTTGATTTCTAA
*
12528362 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAAATTT-A--T-TAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTG-AAATTTGATTTCTAA
*
12528418 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTC-CA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTTGAAA-TTTGATTTCTAA
12528478 GGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAATTT-ATTTCTAA
1 GG-AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTTGAAATTTGATTTCTAA
*
12528538 GG-AAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTGATTTTTAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTTG-AAATTTGATTTCT-AA
* * * *
12528599 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGGAAATTT-ATTTCTAG
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTGATTTCTAA
* * *
12528656 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAACTTTGA--TCTTA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAA-TTTGATTTCTAA
* * *
12528713 GGAAAATTGGTACTTTCAACTTTTCCTC-AAAATCTCTTTTTTTGAAA-ATGTATTTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTTGAAATTTG-A-TTTCTAA
12528773 GGAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTGGAAAAATTTGATTT
1 GG-AAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TTTTTTTTT-G--AAATTTGATTT
12528833 TTATTTGAAG
Statistics
Matches: 414, Mismatches: 27, Indels: 56
0.83 0.05 0.11
Matches are distributed among these distances:
55 1 0.00
56 44 0.11
57 87 0.21
58 83 0.20
59 25 0.06
60 50 0.12
61 72 0.17
62 42 0.10
63 1 0.00
64 3 0.01
65 4 0.01
66 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTGATTTCTAA
Found at i:12528570 original size:27 final size:27
Alignment explanation
Indices: 12528480--12528570 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 27
12528470 GATTTCCAGG
12528480 AAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTCCTC
** ** * * *
12528507 AAAAATCTTTTTTTTTGAAATTTAT-TTC
1 AAAAAT-TGATACTTTCAACTTT-TCCTC
12528535 TAAGGAAATTGATACTTTCAACTTTTCCTC
1 -AA--AAATTGATACTTTCAACTTTTCCTC
12528565 AAAAAT
1 AAAAAT
12528571 CTTTTTTTTT
Statistics
Matches: 44, Mismatches: 14, Indels: 12
0.63 0.20 0.17
Matches are distributed among these distances:
27 10 0.23
28 12 0.27
29 6 0.14
30 12 0.27
31 4 0.09
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.44
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCCTC
Found at i:12528697 original size:175 final size:177
Alignment explanation
Indices: 12528299--12528814 Score: 714
Period size: 175 Copynumber: 2.9 Consensus size: 177
12528289 TTTTCTTGTA
*
12528299 CAGGGAAAATTGATACTTTCAACTTTTTCCCTGAAAAATATTTTTTTTGAAACTTTAATTTC-AG
1 CAGGGAAAATTGATACTTTCAAC-TTTT-CCTCAAAAATA-TTTTTTTGAAACTTTAATTTCTAG
12528363 GAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TATTTTTTTGAAAATTTA---TTAAGGAAAA
63 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTTGAAAATTTATTTTTAAGGAAAA
* *
12528424 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTC
128 TTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAACTTTGATTTC
* *
12528476 CAGGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAA-TTT-ATTTCTAAG
1 CAGGGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAACTTTAATTTCT-AG
*
12528539 G-AAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTGATTTTTAAAGGAA
63 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTTGAAAATTT-ATTTTT-AAGGAA
12528603 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTT-ATTTC
126 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTC
* * * *
12528653 TAGGGAAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATCT-TAGGAA
1 CAGGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTCTAGGAA
* * *
12528717 AATTGGTACTTTCAACTTTTCCTC-AAAATCTCTTTTTTTGAAAATGTATTTTCTAAGGAAAAAT
66 AATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTTGAAAATTTATTTT-TAAGG-AAAAT
*
12528781 TGATACTTTCAACTTTTCCCTAAAAATATTTTTT
129 TGATACTTTCAACTTTTCCCCAAAAATATTTTTT
12528815 TTTGGAAAAA
Statistics
Matches: 309, Mismatches: 15, Indels: 32
0.87 0.04 0.09
Matches are distributed among these distances:
174 14 0.05
175 117 0.38
176 62 0.20
177 65 0.21
178 3 0.01
179 10 0.03
180 2 0.01
181 36 0.12
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (177 bp):
CAGGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTCTAGGAA
AATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTTGAAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTC
Found at i:12528872 original size:10 final size:10
Alignment explanation
Indices: 12528850--12528884 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
12528840 AAGAAAATAG
12528850 AATAATAAAA
1 AATAATAAAA
12528860 AAT-ATAAATA
1 AATAATAAA-A
12528870 AATAATAAAA
1 AATAATAAAA
12528880 AATAA
1 AATAA
12528885 AGAAAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 13 0.57
11 5 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAATAAAA
Found at i:12528875 original size:20 final size:21
Alignment explanation
Indices: 12528844--12528883 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
12528834 TATTTGAAGA
12528844 AAATAGAATAATAAAAAATAT
1 AAATAGAATAATAAAAAATAT
12528865 AAATA-AATAATAAAAAATA
1 AAATAGAATAATAAAAAATA
12528884 AAGAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
AAATAGAATAATAAAAAATAT
Found at i:12528911 original size:16 final size:16
Alignment explanation
Indices: 12528873--12528923 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
12528863 ATAAATAAAT
*
12528873 AATAAAA-AATAAAGAA
1 AATAAAACAA-AAATAA
12528889 AAGTAAAACAAAAATAA
1 AA-TAAAACAAAAATAA
* *
12528906 AATAAAACTAAGATAA
1 AATAAAACAAAAATAA
12528922 AA
1 AA
12528924 AGAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 16 0.53
17 12 0.40
18 2 0.07
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (16 bp):
AATAAAACAAAAATAA
Found at i:12528924 original size:22 final size:20
Alignment explanation
Indices: 12528843--12528912 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
12528833 TTATTTGAAG
* *
12528843 AAAATAGAATAATAAAAAAT
1 AAAATAAAATAAAAAAAAAT
*
12528863 ATAAAT-AAATAATAAAAAAT
1 A-AAATAAAATAAAAAAAAAT
*
12528883 AAAGA-AAAGTAAAACAAAAAT
1 AAA-ATAAAATAAAA-AAAAAT
12528904 AAAATAAAA
1 AAAATAAAA
12528913 CTAAGATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.05
20 23 0.56
21 16 0.39
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAATAAAATAAAAAAAAAT
Found at i:12529081 original size:8 final size:8
Alignment explanation
Indices: 12529068--12529093 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12529058 GCTCGGGGGA
12529068 GCAGCTTG
1 GCAGCTTG
12529076 GCAGCTTG
1 GCAGCTTG
12529084 GCAGCTTG
1 GCAGCTTG
12529092 GC
1 GC
12529094 GCGGCTCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.27, G:0.38, T:0.23
Consensus pattern (8 bp):
GCAGCTTG
Found at i:12529467 original size:31 final size:31
Alignment explanation
Indices: 12529425--12529491 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
12529415 GGCAGGTCGT
*
12529425 CGGAAACTTC-AATGTTCGCCGGAATTGTT-GC
1 CGGAAAATTCAAAT-TTCGCCGGAATT-TTCGC
*
12529456 CGGAAAATTCAAATTTCGTCGGAATTTTCGC
1 CGGAAAATTCAAATTTCGCCGGAATTTTCGC
12529487 CGGAA
1 CGGAA
12529492 TCTGGAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 27 0.84
32 3 0.09
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (31 bp):
CGGAAAATTCAAATTTCGCCGGAATTTTCGC
Found at i:12529964 original size:3 final size:3
Alignment explanation
Indices: 12529956--12530004 Score: 64
Period size: 3 Copynumber: 15.7 Consensus size: 3
12529946 ACATATTTAA
12529956 AAT AAT AAT AAT AAAT AAT AAT AAT AAT -AT AAT AAAT AAT AAT ATAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT
12530003 AA
1 AA
12530005 CATATACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.05
3 31 0.74
4 9 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12530071 original size:9 final size:9
Alignment explanation
Indices: 12530059--12530091 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
12530049 ATAAATAAAC
12530059 AAAAAAAGA
1 AAAAAAAGA
12530068 AAAAAAAGA
1 AAAAAAAGA
*
12530077 AAAAAAGGA
1 AAAAAAAGA
12530086 AAAAAA
1 AAAAAA
12530092 GTTTCAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:12530079 original size:17 final size:17
Alignment explanation
Indices: 12530059--12530092 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12530049 ATAAATAAAC
12530059 AAAAAAAGAAAAAAAAG
1 AAAAAAAGAAAAAAAAG
*
12530076 AAAAAAAGGAAAAAAAG
1 AAAAAAAGAAAAAAAAG
12530093 TTTCAGGATA
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:12531789 original size:18 final size:19
Alignment explanation
Indices: 12531765--12531816 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
12531755 AAAGATAAGC
12531765 CTTTTTGTATAAATTAGCT
1 CTTTTTGTATAAATTAGCT
**
12531784 -TTTTTGT-TAAATGGGCT
1 CTTTTTGTATAAATTAGCT
*
12531801 CCTTTTGTATAAATTA
1 CTTTTTGTATAAATTA
12531817 TAAAAATGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 8 0.31
18 13 0.50
19 5 0.19
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (19 bp):
CTTTTTGTATAAATTAGCT
Found at i:12533023 original size:17 final size:17
Alignment explanation
Indices: 12532969--12533039 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
12532959 CAATATATTT
12532969 AAATTATATA-TTAAAA
1 AAATTATATATTTAAAA
12532985 AAA-TATATA---AAAA
1 AAATTATATATTTAAAA
*
12532998 GATAATTATATTTTTAAAA
1 -A-AATTATATATTTAAAA
12533017 AAATTATATATTTAAAA
1 AAATTATATATTTAAAA
*
12533034 AGATTA
1 AAATTA
12533040 AAAGATAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.09
14 1 0.02
15 8 0.17
16 8 0.17
17 20 0.43
18 1 0.02
19 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTATATATTTAAAA
Found at i:12536333 original size:18 final size:18
Alignment explanation
Indices: 12536310--12536346 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
12536300 GGTTCAACAA
12536310 CCATTTCAATGAAAATGC
1 CCATTTCAATGAAAATGC
*
12536328 CCATTTCAATGAAATTGC
1 CCATTTCAATGAAAATGC
12536346 C
1 C
12536347 GATTATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (18 bp):
CCATTTCAATGAAAATGC
Found at i:12545057 original size:22 final size:20
Alignment explanation
Indices: 12545032--12545071 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
12545022 AGTTTTATCG
12545032 ATTTTTGAAATATATATTTTTT
1 ATTTTTGAAA-AT-TATTTTTT
*
12545054 ATTTTTTAAAATTATTTT
1 ATTTTTGAAAATTATTTT
12545072 AATATAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTTTGAAAATTATTTTTT
Found at i:12546540 original size:2 final size:2
Alignment explanation
Indices: 12546527--12546566 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
12546517 CATTATAATT
*
12546527 TA TA TG 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 TA TA TA
12546567 AGATTTCGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12553518 original size:158 final size:157
Alignment explanation
Indices: 12553104--12553624 Score: 556
Period size: 156 Copynumber: 3.3 Consensus size: 157
12553094 ATTGTTGATG
* * * *
12553104 TAGATAGTGTAGTAATTGAAAGACTAAACATTGCAGGATAAATGATATTGAACTGTATAGCGTTT
1 TAGATAGTATAGTAATTGAAAGACTAAACATTGCAGGAT-GATGATATTGAACTATATAGTGTTT
* * * *
12553169 TGTGCTTATTGGGATGAAATGAATTTGTAAAGGTG--AACTATTGTGTAATTTGTTTTATGATTC
65 TGTGCTTATTGAGATGAAATGAATTTGTGAAGGTGAAAACTATTATGTAATTTGTTTTATGATTT
*
12553232 TGGTTGTGTATTGTGATTGTTAATAAAT
130 TGGTTGTGTATTATGATTGTTAATAAAT
* * * * **
12553260 TAGATACTATTGTAATTGAAAGACT--ACATTGCAAGACGAACAGTATTGAACTATATAGTGTTT
1 TAGATAGTATAGTAATTGAAAGACTAAACATTGCAGGATGATGA-TATTGAACTATATAGTGTTT
* * * * * *
12553323 TATGTTTATTGAGAT-ATAATGACTTTGTGAAGATGAAAACTATTATGTAACTTGTTTTATTATT
65 TGTGCTTATTGAGATGA-AATGAATTTGTGAAGGTGAAAACTATTATGTAATTTGTTTTATGATT
* *
12553387 TTGGTTGTGTGTTATGATTGTTGATAAAGT
129 TTGGTTGTGTATTATGATTGTTAATAAA-T
* *
12553417 T-GATAGTATAGTAATTGGAAGACTAAACATTGTAGGATGATTGATATTGAACTATATAGTGTTT
1 TAGATAGTATAGTAATTGAAAGACTAAACATTGCAGGATGA-TGATATTGAACTATATAGTGTTT
* * * *
12553481 TGTACTTATTGAGATGAAATGATTTTGTGAAGGTGAAAACTATTAGGTAATTTGCTTTATGATTT
65 TGTGCTTATTGAGATGAAATGAATTTGTGAAGGTGAAAACTATTATGTAATTTGTTTTATGATTT
* *
12553546 T-G--GTGTATTGTGATTGTTAATGAAT
130 TGGTTGTGTATTATGATTGTTAATAAAT
* * * * ** ** * *
12553571 CAAAAAGTGTAGTAATTGAAATCCTAAATGTTGTAGGATGAATGGTATTGAACT
1 TAGATAGTATAGTAATTGAAAGACTAAACATTGCAGGATG-ATGATATTGAACT
12553625 GTGTCATTAA
Statistics
Matches: 300, Mismatches: 54, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
153 3 0.01
154 56 0.19
155 59 0.20
156 91 0.30
157 3 0.01
158 86 0.29
159 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (157 bp):
TAGATAGTATAGTAATTGAAAGACTAAACATTGCAGGATGATGATATTGAACTATATAGTGTTTT
GTGCTTATTGAGATGAAATGAATTTGTGAAGGTGAAAACTATTATGTAATTTGTTTTATGATTTT
GGTTGTGTATTATGATTGTTAATAAAT
Found at i:12570562 original size:37 final size:37
Alignment explanation
Indices: 12570504--12570579 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 37
12570494 TTTTATATAT
*
12570504 ATTTTTAATATATAATTTAAATATATTGTTACCAACAAA
1 ATTTGTAATATATAATTT-AA-ATATTGTTACCAACAAA
*
12570543 ATTTGTAATA-ATAA-TTAAATATTGTTATCAACAAA
1 ATTTGTAATATATAATTTAAATATTGTTACCAACAAA
12570578 AT
1 AT
12570580 CTAATTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 18 0.51
36 2 0.06
37 2 0.06
38 4 0.11
39 9 0.26
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (37 bp):
ATTTGTAATATATAATTTAAATATTGTTACCAACAAA
Found at i:12573399 original size:18 final size:17
Alignment explanation
Indices: 12573378--12573411 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
12573368 TTATCCTGAA
12573378 CTTTTTTTTCCTTTTTTT
1 CTTTTTTTT-CTTTTTTT
12573396 CTTTTTTTTCTTTTTT
1 CTTTTTTTTCTTTTTT
12573412 GTATATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
CTTTTTTTTCTTTTTTT
Found at i:12573476 original size:3 final size:3
Alignment explanation
Indices: 12573463--12573509 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
12573453 ATGTATATAG
12573463 TTA TATA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12573508 TT
1 TT
12573510 TTAATATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12573931 original size:25 final size:25
Alignment explanation
Indices: 12573902--12573955 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
12573892 CTGGGAGTGA
*
12573902 GAAAAATTTTT-TAGAAATTTTTGG
1 GAAAAATTTTTCTAGAAATTTCTGG
*
12573926 CGAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTTCTAGAAATTTCTGG
12573952 GAAA
1 GAAA
12573956 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.39
Consensus pattern (25 bp):
GAAAAATTTTTCTAGAAATTTCTGG
Found at i:12574382 original size:8 final size:8
Alignment explanation
Indices: 12574369--12574394 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12574359 GGCGAGCCGC
12574369 GCCAAGCT
1 GCCAAGCT
12574377 GCCAAGCT
1 GCCAAGCT
12574385 GCCAAGCT
1 GCCAAGCT
12574393 GC
1 GC
12574395 TCCCTCCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.27, T:0.12
Consensus pattern (8 bp):
GCCAAGCT
Found at i:12574559 original size:17 final size:18
Alignment explanation
Indices: 12574536--12574575 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
12574526 ATTTAATATT
12574536 CTTTTTATCTTAGTTTTA
1 CTTTTTATCTTAGTTTTA
* *
12574554 -TTTTTATTTTTGTTTTA
1 CTTTTTATCTTAGTTTTA
12574571 CTTTT
1 CTTTT
12574576 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (18 bp):
CTTTTTATCTTAGTTTTA
Found at i:12574591 original size:10 final size:10
Alignment explanation
Indices: 12574578--12574612 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
12574568 TTACTTTTCT
12574578 TTATTTTTTA
1 TTATTTTTTA
12574588 TTATTTATTTA
1 TTATTT-TTTA
12574599 -TATTTTTTA
1 TTATTTTTTA
12574608 TTATT
1 TTATT
12574613 CTATTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.17
10 15 0.65
11 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:12574602 original size:20 final size:21
Alignment explanation
Indices: 12574579--12574618 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
12574569 TACTTTTCTT
12574579 TATTTTTTATTATT-TATTTA
1 TATTTTTTATTATTCTATTTA
12574599 TATTTTTTATTATTCTATTT
1 TATTTTTTATTATTCTATTT
12574619 TCTTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTTTTTATTATTCTATTTA
Found at i:12574803 original size:60 final size:59
Alignment explanation
Indices: 12574646--12575158 Score: 718
Period size: 60 Copynumber: 8.7 Consensus size: 59
12574636 AATTTTCCAA
* *
12574646 AAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATACATTTTC
1 AAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* * * * * * *
12574705 AAAAAAGAGATTTTTAAGGAAAAGTTGAAAGTACCAATTTTTCTTA-AGATCAAAGTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTTC
*
12574764 AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTAGAAATAAA-TTTC
1 -AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* * *
12574823 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*
12574881 AAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 -AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* * **
12574941 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGATTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTTC
12575001 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTTC
* *
12575060 --AGAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-ATTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
12575116 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
12575159 CTACACAAGA
Statistics
Matches: 410, Mismatches: 32, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
56 3 0.01
57 98 0.24
58 47 0.11
59 108 0.26
60 151 0.37
61 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (59 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:12574947 original size:176 final size:177
Alignment explanation
Indices: 12574646--12575158 Score: 750
Period size: 176 Copynumber: 2.9 Consensus size: 177
12574636 AATTTTCCAA
* * * *
12574646 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATACATTTTCAAAAAA
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * * * *
12574711 GAGATTTTTAAGGAAAAGTTGAAAGTACCAATTTTTCTTA-AGATCAAAGTTTCAAAAAAAAATA
66 AAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAA-TTTC-AAAAAAAATA
* *
12574775 TTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTAGAAAT-AAA-TTTC
128 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAAGATTC
*
12574823 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAA
*
12574887 AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAGAT
65 AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCAAAAAAAATAT
*
12574952 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGATTC
129 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAAGATTC
* * *
12575001 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC--AGAA
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * *
12575064 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTCCAAAAAAATATTT
66 AAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAATATTT
*
12575129 TTGGGGAAAAGTTGAAAGTATCAATTTTCC
131 TTGAGGAAAAGTTGAAAGTATCAATTTTCC
12575159 CTACACAAGA
Statistics
Matches: 307, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
175 43 0.14
176 151 0.49
177 52 0.17
178 6 0.02
179 55 0.18
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (177 bp):
AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
AAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAATATTT
TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAAGATTC
Found at i:12575055 original size:236 final size:235
Alignment explanation
Indices: 12574627--12575158 Score: 811
Period size: 236 Copynumber: 2.2 Consensus size: 235
12574617 TTTCTTCAAA
* *
12574627 TAAAAATCAAATTTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 TAAAAAT-AAATTTT-CAAAAAAAAAAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
12574692 GAAATACATTTTCAAAAAAGAGATTTTTAAGGAAAAGTTGAAAGTACCAATTTTTCTTAAGATCA
62 GAAATAAATTTTCAAAAAAAAGATTTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTAAGATCA
*
12574757 AAGTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTAGAAATAAATTT
127 AAGATTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTAGAAATAAATTT
*
12574822 CCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
192 CCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
12574866 TAAAAATAAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
1 TAAAAATAAATTTTCAAAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
* *
12574931 ATAAATTTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAA-ATCAA
65 ATAAATTTTCAAAAAAAAGATTTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTT--AAGATCAA
*
12574995 AGATTC-AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTT
128 AGATTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTAGA-AATAAATTT
* *
12575058 TCAGAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
192 CCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * * * *
12575102 TAGAAATAAA-ATTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAATAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
12575159 CTACACAAGA
Statistics
Matches: 272, Mismatches: 17, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
234 33 0.12
235 11 0.04
236 185 0.68
237 25 0.09
238 11 0.04
239 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (235 bp):
TAAAAATAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA
TAAATTTTCAAAAAAAAGATTTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTAAGATCAAAGA
TTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTAGAAATAAATTTCCAA
AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:12580326 original size:40 final size:42
Alignment explanation
Indices: 12580282--12580371 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
12580272 TTCTAGGAGT
*
12580282 ATTTACTTTTCC-AAGTT-CGTTGCCTCTGTTTAGAAGAGCA
1 ATTTACTTTTCCAAAGTTACGGTGCCTCTGTTTAGAAGAGCA
* *
12580322 ATTTAC-TTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTTACGGTGCCTCTGTTTAGAAGAGCA
12580363 ATTTACTTT
1 ATTTACTTT
12580372 CCTCTGTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 5 0.11
40 11 0.25
41 26 0.59
42 2 0.05
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (42 bp):
ATTTACTTTTCCAAAGTTACGGTGCCTCTGTTTAGAAGAGCA
Found at i:12580375 original size:27 final size:27
Alignment explanation
Indices: 12580345--12580398 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
12580335 AGTTATGGTG
12580345 CCTCTGTTTAGAGGAGCAATTTACTTT
1 CCTCTGTTTAGAGGAGCAATTTACTTT
12580372 CCTCTGTTTAGAGGAGCAATTTACTTT
1 CCTCTGTTTAGAGGAGCAATTTACTTT
12580399 TCAAAGTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
CCTCTGTTTAGAGGAGCAATTTACTTT
Found at i:12580415 original size:68 final size:68
Alignment explanation
Indices: 12580304--12580441 Score: 231
Period size: 68 Copynumber: 2.0 Consensus size: 68
12580294 AAGTTCGTTG
*
12580304 CCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTTACGGTGCCTCTGTTTAGAGGAGCAATTTAC
12580369 TTT
66 TTT
* * * *
12580372 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTTACGGTGCCTCTGTTTAGAGGAGCAATTTAC
12580437 TTT
66 TTT
12580440 CC
1 CC
12580442 AAAGTCGTGG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (68 bp):
CCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTTACGGTGCCTCTGTTTAGAGGAGCAATTTAC
TTT
Found at i:12580472 original size:109 final size:108
Alignment explanation
Indices: 12580282--12580482 Score: 339
Period size: 109 Copynumber: 1.9 Consensus size: 108
12580272 TTCTAGGAGT
* *
12580282 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTTATGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTCATGGTGCC
*
12580347 TCTGTTTAGAGGAGCAATTTACTTTCCTCTGTTTAGAGGAGCA
66 TCTATTTAGAGGAGCAATTTACTTTCCTCTGTTTAGAGGAGCA
* *
12580390 ATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTCATGGTGC
*
12580455 CTCTATTTAGAGGAGCAATTTATTTTCC
65 CTCTATTTAGAGGAGCAATTTACTTTCC
12580483 CAAAGTCGTG
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
108 16 0.19
109 70 0.81
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (108 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTCATGGTGCC
TCTATTTAGAGGAGCAATTTACTTTCCTCTGTTTAGAGGAGCA
Found at i:12580499 original size:42 final size:41
Alignment explanation
Indices: 12580372--12580896 Score: 627
Period size: 41 Copynumber: 12.4 Consensus size: 41
12580362 AATTTACTTT
12580372 CCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCCGT--TG
1 CCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAG-T-CGTGGTG
*
12580413 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTG
*
12580454 CCTCTATTTAGAGGAGCAATTTATTTTCCCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTT-CCAAAGTCGTGGTG
*
12580496 CCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTTC-CAAAGTCGTGGTG
* *
12580538 CCTCTGCTTAGAGGAGCAATTTACTTTCCAAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTTCC-AAAGTCGTGGTG
*
12580580 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTACCACCAAAGTCGTGGTA
1 CCTCTGTTTAGAGGAGCAATTTA--TTT-----T----CCAAAGTCGTGGTG
*
12580632 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTG
*
12580673 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGT--TG
1 CCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTGGTG
*
12580713 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTG
1 CCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTG
* * *
12580754 CCTCTGTTTAGAGGAGCAATTTACTTCCCAAAGTTTCGT-CTAG
1 CCTCTGTTTAGAGGAGCAATTTATTTTCCAAAG--TCGTGGT-G
12580797 CCTCTGTTTTAGAGGAGCAATTTACTTTT-CAAA-TCGTTGGTG
1 CCTCTG-TTTAGAGGAGCAATTTA-TTTTCCAAAGTCG-TGGTG
* * *
12580839 CCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTTGAG
1 CCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTGGTG
12580881 CCTCTG-TTAGAGGAGC
1 CCTCTGTTTAGAGGAGC
12580897 TTTGGTTAAA
Statistics
Matches: 430, Mismatches: 25, Indels: 58
0.84 0.05 0.11
Matches are distributed among these distances:
39 15 0.03
40 29 0.07
41 159 0.37
42 147 0.34
43 15 0.03
44 23 0.05
45 3 0.01
49 1 0.00
50 2 0.00
52 34 0.08
53 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (41 bp):
CCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTG
Found at i:12580566 original size:84 final size:83
Alignment explanation
Indices: 12580372--12580896 Score: 665
Period size: 84 Copynumber: 6.2 Consensus size: 83
12580362 AATTTACTTT
*
12580372 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTT
1 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTT
12580435 ACTTTC-CAAAGTCGTGGTG
64 ACTTTCTCAAAGTCGTGGTG
* *
12580454 CCTCTATTTAGAGGAGCAATTTATTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTTAGAGGAGCAATTTACTTT-CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
12580519 CTTTCTCAAAGTCGTGGTG
65 CTTTCTCAAAGTCGTGGTG
*
12580538 CCTCTGCTTAGAGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTTAGAGGAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
* *
12580603 TTTTTCAAAGTACCACCAAAGTCGTGGTA
65 -CTTTC----T-----CAAAGTCGTGGTG
12580632 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
12580697 TTT-TCAAAAGTCGT--TG
66 TTTCTC-AAAGTCGTGGTG
* *
12580713 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
* *
12580778 -TTCCCAAAGTTTCGT-CTAG
66 TTTCTCAAAG--TCGTGGT-G
*
12580797 CCTCTGTTTTAGAGGAGCAATTTACTTTTCAAA-TCGTTGGTGCCTCTGTTTAGAGGAGCAATTT
1 CCTCTG-TTTAGAGGAGCAATTTACTTTCCAAAGTCG-TGGTGCCTCTGTTTAGAGGAGCAATTT
* * * *
12580861 ATTTTTTCAAAGTCGTTGAG
64 ACTTTCTCAAAGTCGTGGTG
12580881 CCTCTG-TTAGAGGAGC
1 CCTCTGTTTAGAGGAGC
12580897 TTTGGTTAAA
Statistics
Matches: 398, Mismatches: 20, Indels: 50
0.85 0.04 0.11
Matches are distributed among these distances:
80 6 0.02
81 68 0.17
82 41 0.10
83 46 0.12
84 93 0.23
85 57 0.14
86 7 0.02
87 1 0.00
89 1 0.00
92 3 0.01
93 35 0.09
94 40 0.10
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (83 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
TTTCTCAAAGTCGTGGTG
Found at i:12580767 original size:81 final size:81
Alignment explanation
Indices: 12580619--12580896 Score: 393
Period size: 81 Copynumber: 3.4 Consensus size: 81
12580609 AAAGTACCAC
*
12580619 CAAAGTCGTGGTA-CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTA
1 CAAAGTCGT--TAGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
12580683 GAGGAGCAATTTACTTTT
64 GAGGAGCAATTTACTTTT
*
12580701 CAAAAGTCGTT-GCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 C-AAAGTCGTTAGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
**
12580765 AGGAGCAATTTACTTCC
65 AGGAGCAATTTACTTTT
12580782 CAAAGTTTCGTCTAGCCTCTGTTTTAGAGGAGCAATTTACTTTTCAAA-TCGTTGGTGCCTCTGT
1 CAAAG--TCGT-TAGCCTCTG-TTTAGAGGAGCAATTTACTTTTCAAAGTCG-TGGTGCCTCTGT
*
12580846 TTAGAGGAGCAATTTATTTTTT
61 TTAGAGGAGCAATTTA-CTTTT
12580868 CAAAGTCGTTGAGCCTCTG-TTAGAGGAGC
1 CAAAGTCGTT-AGCCTCTGTTTAGAGGAGC
12580897 TTTGGTTAAA
Statistics
Matches: 178, Mismatches: 8, Indels: 20
0.86 0.04 0.10
Matches are distributed among these distances:
80 4 0.02
81 67 0.38
82 15 0.08
83 10 0.06
84 22 0.12
85 53 0.30
86 7 0.04
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (81 bp):
CAAAGTCGTTAGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
GGAGCAATTTACTTTT
Found at i:12580869 original size:260 final size:259
Alignment explanation
Indices: 12580372--12580873 Score: 786
Period size: 260 Copynumber: 1.9 Consensus size: 259
12580362 AATTTACTTT
*
12580372 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
*
12580437 TTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCCAAAGTCGTGGTGCCTCTG
66 TTTCAAAAGTCGT-GTGCCTCTATTTAGAGGAGCAATTTATTTTCCCAAAGTCGTGGTGCCTCTG
* *
12580502 TTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGCTTAGAGGAGCAATTTACTTTCC
130 TTTAGAGGAGCAATTTACTTTCCCAAAGTCGTGCTGCCTCTGCTTAGAGGAGCAATTTACTTTCC
12580567 AAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTACCACCAAAGTCGTGGTA
195 AAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTACCACCAAAGTCGTGGTA
12580632 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTT
* *
12580695 ACTTTTCAAAAGTCGT-TGCCTCTGTTTAGAGGAGCAATTTATTTT-TCAAAGTCGTGGTGCCTC
64 AC-TTTCAAAAGTCGTGTGCCTCTATTTAGAGGAGCAATTTATTTTCCCAAAGTCGTGGTGCCTC
*
12580758 TGTTTAGAGGAGCAATTTAC-TTCCCAAAGTTTCGT-CTAGCCTCTGTTTTAGAGGAGCAATTTA
128 TGTTTAGAGGAGCAATTTACTTTCCCAAAG--TCGTGCT-GCCTCTG-CTTAGAGGAGCAATTTA
*
12580821 CTTTTC-AAA-TCGTTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
189 CTTTCCAAAAGTCG-TGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGT
12580874 CGTTGAGCCT
Statistics
Matches: 225, Mismatches: 8, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
257 8 0.04
258 44 0.20
259 71 0.32
260 90 0.40
261 12 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (259 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
TTTCAAAAGTCGTGTGCCTCTATTTAGAGGAGCAATTTATTTTCCCAAAGTCGTGGTGCCTCTGT
TTAGAGGAGCAATTTACTTTCCCAAAGTCGTGCTGCCTCTGCTTAGAGGAGCAATTTACTTTCCA
AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTACCACCAAAGTCGTGGTA
Found at i:12581144 original size:16 final size:16
Alignment explanation
Indices: 12581125--12581163 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
12581115 TTTTTTGTAT
12581125 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
12581141 TTTATTATTATTATTA
1 TTTATTATTATTATTA
*
12581157 TATATTA
1 TTTATTA
12581164 ATATATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:12581230 original size:55 final size:56
Alignment explanation
Indices: 12581125--12581259 Score: 132
Period size: 55 Copynumber: 2.4 Consensus size: 56
12581115 TTTTTTGTAT
* *
12581125 TTTATGTATTTTATTATTTATTATTATTATTATATATTAATATATGTATAT-CTT-TA
1 TTTATTTA-TTTATTATTT-TTATTAATATTATATATTAATATATGTATATACTTATA
* * * *
12581181 TTTATTTATTTATTATTTTCTATTAATATT-TATATGTATTGTATTTATATAGTTATA
1 TTTATTTATTTATTATTTT-TATTAATATTATATAT-TAATATATGTATATACTTATA
*
12581238 TATATTTTATATTATTATTTTT
1 TTTA-TTTAT-TTATTATTTTT
12581260 TTCTCTTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
54 6 0.09
55 30 0.45
56 9 0.14
57 5 0.08
58 6 0.09
59 10 0.15
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (56 bp):
TTTATTTATTTATTATTTTTATTAATATTATATATTAATATATGTATATACTTATA
Done.