Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 52 of 373
Found at i:15411030 original size:21 final size:21
Alignment explanation
Indices: 15411006--15411046 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15410996 TCACCTTGGC
*
15411006 CTCTCCATTTTTTTCTTTTTT
1 CTCTCCATTTTATTCTTTTTT
**
15411027 CTCTTTATTTTATTCTTTTT
1 CTCTCCATTTTATTCTTTTT
15411047 CTTTTTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (21 bp):
CTCTCCATTTTATTCTTTTTT
Found at i:15417226 original size:64 final size:64
Alignment explanation
Indices: 15417150--15417277 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
15417140 AAAATAGACG
15417150 AAGAATAAAATAAGAACAAACCACAGAGAGTAAGAACGCAAGAGGGAGAGAAATTTGAGTGAAT
1 AAGAATAAAATAAGAACAAACCACAGAGAGTAAGAACGCAAGAGGGAGAGAAATTTGAGTGAAT
15417214 AAGAATAAAATAAGAACAAACCACAGAGAGTAAGAACGCAAGAGGGAGAGAAATTTGAGTGAAT
1 AAGAATAAAATAAGAACAAACCACAGAGAGTAAGAACGCAAGAGGGAGAGAAATTTGAGTGAAT
15417278 GCTCTTCAAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.53, C:0.09, G:0.25, T:0.12
Consensus pattern (64 bp):
AAGAATAAAATAAGAACAAACCACAGAGAGTAAGAACGCAAGAGGGAGAGAAATTTGAGTGAAT
Found at i:15417502 original size:17 final size:18
Alignment explanation
Indices: 15417449--15417546 Score: 137
Period size: 17 Copynumber: 5.5 Consensus size: 18
15417439 AATCATATCT
*
15417449 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
* *
15417468 TCTAAGACTGCAATCATA
1 TCTAAGATTGCTATCATA
15417486 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
15417503 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
15417521 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
15417538 TCTAAGATT
1 TCTAAGATT
15417547 ACATATCATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
17 31 0.44
18 31 0.44
19 9 0.13
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:15417545 original size:35 final size:35
Alignment explanation
Indices: 15417449--15417555 Score: 169
Period size: 35 Copynumber: 3.0 Consensus size: 35
15417439 AATCATATCT
*
15417449 TCTAAGATTGTATATCATATCTAAGACTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
15417486 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
15417521 TCTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
15417556 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 52 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:15418521 original size:12 final size:12
Alignment explanation
Indices: 15418504--15418528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15418494 CGAGGAGCTG
15418504 AAACTATTGGCT
1 AAACTATTGGCT
15418516 AAACTATTGGCT
1 AAACTATTGGCT
15418528 A
1 A
15418529 TTTAAATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
AAACTATTGGCT
Found at i:15421423 original size:37 final size:37
Alignment explanation
Indices: 15421381--15421455 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
15421371 CACCTTTTAC
15421381 AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
1 AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
*
15421418 AATAGTACTGATACCGGGTAATGCCTTCTCCTTTGAA
1 AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
15421455 A
1 A
15421456 CAAGGATCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (37 bp):
AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
Found at i:15424668 original size:6 final size:6
Alignment explanation
Indices: 15424659--15424694 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
15424649 CTCCACCTCT
*
15424659 ATCTTG ATCTTG ATCTTG ATCTTG ATCTTT ATCTTG
1 ATCTTG ATCTTG ATCTTG ATCTTG ATCTTG ATCTTG
15424695 TTTTTTCGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.53
Consensus pattern (6 bp):
ATCTTG
Found at i:15432775 original size:90 final size:90
Alignment explanation
Indices: 15432681--15432879 Score: 231
Period size: 90 Copynumber: 2.2 Consensus size: 90
15432671 TGCCATAGTG
* * * * *
15432681 TCTTTCAACTATGGTCTTTCTCAATAGAATTGTGATGCCATAATGTCTTTTATTCATGGTCTTA-
1 TCTTTCAACTATGGTCTTACTCAATAGAATCGTGATGCCATAACGTCTTTCAGTCATGGTCTTAC
15432745 TTGGTTAGAATCATGATGCCATAACA
66 TTGGTTAGAAT-ATGATGCCATAACA
* **
15432771 TCTTTC-AGTCATGGTCTTACTCGTTAGAATCGTGATGCCATAACGTCTTTCAGTCATGGTCTTA
1 TCTTTCAACT-ATGGTCTTACTCAATAGAATCGTGATGCCATAACGTCTTTCAGTCATGGTCTTA
* ** * * **
15432835 CTTGTTTCTAGTATGGTGCCATAATG
65 CTTGGTTAGAATATGATGCCATAACA
15432861 TCTTTCAACTATGGTCTTA
1 TCTTTCAACTATGGTCTTA
15432880 ATCATTTCCT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
89 2 0.02
90 79 0.88
91 9 0.10
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (90 bp):
TCTTTCAACTATGGTCTTACTCAATAGAATCGTGATGCCATAACGTCTTTCAGTCATGGTCTTAC
TTGGTTAGAATATGATGCCATAACA
Found at i:15432834 original size:45 final size:45
Alignment explanation
Indices: 15432635--15432836 Score: 199
Period size: 45 Copynumber: 4.5 Consensus size: 45
15432625 TTGTCATAGT
* * * * * * * **
15432635 GTCTTTCAATCATAGTCTAATTCGTTTGATTTGTGATGCCATAGT
1 GTCTTTCAGTCATGGTCTTACTCGTTAGAATCGTGATGCCATAAC
* * ** * *
15432680 GTCTTTCA-ACTATGGTCTTTCTCAATAGAATTGTGATGCCATAAT
1 GTCTTTCAGTC-ATGGTCTTACTCGTTAGAATCGTGATGCCATAAC
* * * * *
15432725 GTCTTTTATTCATGGTCTTATTGGTTAGAATCATGATGCCATAAC
1 GTCTTTCAGTCATGGTCTTACTCGTTAGAATCGTGATGCCATAAC
*
15432770 ATCTTTCAGTCATGGTCTTACTCGTTAGAATCGTGATGCCATAAC
1 GTCTTTCAGTCATGGTCTTACTCGTTAGAATCGTGATGCCATAAC
15432815 GTCTTTCAGTCATGGTCTTACT
1 GTCTTTCAGTCATGGTCTTACT
15432837 TGTTTCTAGT
Statistics
Matches: 128, Mismatches: 27, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
44 1 0.01
45 126 0.98
46 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.41
Consensus pattern (45 bp):
GTCTTTCAGTCATGGTCTTACTCGTTAGAATCGTGATGCCATAAC
Found at i:15432855 original size:45 final size:43
Alignment explanation
Indices: 15432716--15432867 Score: 137
Period size: 45 Copynumber: 3.4 Consensus size: 43
15432706 AGAATTGTGA
* * * * *
15432716 TGCCATAATGTCTTTTATTCATGGTCTTA-TTGGTTAGAATCATGA
1 TGCCATAACGTCTTTCAGTCATGGTCTTACTTGTTTAG--T-ATGG
* * *
15432761 TGCCATAACATCTTTCAGTCATGGTCTTACTCG-TTAGAATCGTG
1 TGCCATAACGTCTTTCAGTCATGGTCTTACTTGTTTAGTAT-G-G
15432805 ATGCCATAACGTCTTTCAGTCATGGTCTTACTTGTTTCTAGTATGG
1 -TGCCATAACGTCTTTCAGTCATGGTCTTACTTG-TT-TAGTATGG
*
15432851 TGCCATAATGTCTTTCA
1 TGCCATAACGTCTTTCA
15432868 ACTATGGTCT
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
45 76 0.85
46 3 0.03
47 2 0.02
48 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (43 bp):
TGCCATAACGTCTTTCAGTCATGGTCTTACTTGTTTAGTATGG
Found at i:15435200 original size:12 final size:12
Alignment explanation
Indices: 15435183--15435207 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15435173 GATGAGCAAG
15435183 TTATTATTTTAA
1 TTATTATTTTAA
15435195 TTATTATTTTAA
1 TTATTATTTTAA
15435207 T
1 T
15435208 GTCTTCAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTTTAA
Found at i:15437659 original size:42 final size:45
Alignment explanation
Indices: 15437596--15437806 Score: 256
Period size: 42 Copynumber: 4.7 Consensus size: 45
15437586 CTTCCTTTTC
** *
15437596 TCGATGCCATAGTTCAACTATGGTCTTACACAT-C-T-TCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATACATATCACAT-A
*
15437639 T-GATGCCATAGCCCAGCTATGGTCTTACACAT--AT-TCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATACATATCACATA
15437680 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT-ACATATCACATA
*
15437729 TCGATGCCATAGCCCAGCTATGGTCTTACATAGATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTAC--ACAT-ACATATCACATA
15437777 TCGATGCCATAGCCCAGCTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
15437807 TGAATCACAT
Statistics
Matches: 151, Mismatches: 6, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
41 2 0.01
42 63 0.42
43 1 0.01
45 2 0.01
46 1 0.01
48 46 0.30
49 35 0.23
51 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (45 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATACATATCACATA
Found at i:15437745 original size:91 final size:93
Alignment explanation
Indices: 15437596--15437819 Score: 279
Period size: 97 Copynumber: 2.5 Consensus size: 93
15437586 CTTCCTTTTC
** *
15437596 TCGATGCCATAGTTCAACTATGGTCTTACAC--AT--C-T-TCACATAATGATGCCATAGCCCAG
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATAATGATGCCATAGCCCAG
* *
15437655 CTATGGTCTTAC-A-CATAT-TCATATA
66 CTATGGTCTTACAATCACATATCACATA
15437680 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACAT-ATCGATGCCATAGCCC
1 TCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCACATAAT-GATGCCATAGCCC
15437744 AGCTATGGTCTTACATAGATCACATATCACATA
64 AGCTATGGTCTTAC--A-ATCACATATCACATA
*
15437777 TCGATGCCATAGCCCAGCTATGGTCTTACATGAATCACATATC
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
15437820 TCACTAATAC
Statistics
Matches: 120, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
84 28 0.23
87 2 0.02
89 1 0.01
90 3 0.03
91 33 0.28
95 1 0.01
96 15 0.12
97 37 0.31
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (93 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATAATGATGCCATAGCCCAG
CTATGGTCTTACAATCACATATCACATA
Found at i:15437785 original size:48 final size:48
Alignment explanation
Indices: 15437666--15437819 Score: 249
Period size: 48 Copynumber: 3.2 Consensus size: 48
15437656 TATGGTCTTA
*
15437666 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTA-AT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACA--TAGAT
15437716 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATAGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATAGAT
15437764 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAT-GAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATAG-AT
15437812 CACATATC
1 CACATATC
15437820 TCACTAATAC
Statistics
Matches: 101, Mismatches: 1, Indels: 6
0.94 0.01 0.06
Matches are distributed among these distances:
47 3 0.03
48 56 0.55
49 36 0.36
50 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATAGAT
Found at i:15445296 original size:68 final size:67
Alignment explanation
Indices: 15445224--15445373 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
15445214 CATCATGTGT
* * * *
15445224 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
15445286 ATGTAG
62 ATGTAG
** * *
15445292 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
15445357 AG
66 AG
15445359 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
15445374 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:15445329 original size:64 final size:64
Alignment explanation
Indices: 15445248--15445431 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
15445238 AGACATTATG
* *
15445248 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
15445312 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
15445377 AA
63 AA
* * * * *
15445379 ACTG--GCTAGATCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
15445432 CAAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 15 0.15
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:15452646 original size:22 final size:22
Alignment explanation
Indices: 15452618--15452661 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15452608 AGCTCCGGTG
15452618 TTAGTTTAGCCAGAATTGGGTA
1 TTAGTTTAGCCAGAATTGGGTA
15452640 TTAGTTTAGCCAGAATTGGGTA
1 TTAGTTTAGCCAGAATTGGGTA
15452662 AACAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (22 bp):
TTAGTTTAGCCAGAATTGGGTA
Found at i:15453273 original size:17 final size:18
Alignment explanation
Indices: 15453251--15453286 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15453241 TCGAAACCGG
15453251 TCGGTTAA-CCAAAAAAA
1 TCGGTTAATCCAAAAAAA
*
15453268 TCGGTTAATCGAAAAAAA
1 TCGGTTAATCCAAAAAAA
15453286 T
1 T
15453287 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (18 bp):
TCGGTTAATCCAAAAAAA
Found at i:15453477 original size:7 final size:6
Alignment explanation
Indices: 15453436--15453476 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
15453426 ATAATTTAAT
*
15453436 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
15453477 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:15453477 original size:20 final size:20
Alignment explanation
Indices: 15453439--15453478 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15453429 ATTTAATAAA
**
15453439 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
15453459 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
15453479 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:15453510 original size:9 final size:9
Alignment explanation
Indices: 15453496--15453572 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
15453486 TTTATACAAA
*
15453496 TAATTCAGT
1 TAATTCGGT
15453505 TAATTCGGT
1 TAATTCGGT
15453514 TAATTCGGT
1 TAATTCGGT
* *
15453523 TAATTTGGG
1 TAATTCGGT
*
15453532 TAATTCGGG
1 TAATTCGGT
*
15453541 TAATTCGAT
1 TAATTCGGT
*
15453550 TAATTCGAT
1 TAATTCGGT
15453559 TAATTCGGT
1 TAATTCGGT
15453568 TAATT
1 TAATT
15453573 TTATACTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:15458251 original size:46 final size:46
Alignment explanation
Indices: 15458184--15458309 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
15458174 AACCCGCCCC
* * *
15458184 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
15458230 TAAGTGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
15458276 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15458310 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:15458328 original size:46 final size:45
Alignment explanation
Indices: 15458186--15458328 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
15458176 CCCGCCCCTA
* ** * *
15458186 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
* * *** *
15458231 AAGTGAACTCGGACTCAACTCAACAAGTTCAGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
15458277 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
15458324 AGTGA
1 AGTGA
15458329 CATGTCACTT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:15467788 original size:22 final size:22
Alignment explanation
Indices: 15467760--15467804 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15467750 CATGGAGGGC
*
15467760 CCAGATGAGAGAAAACAGACAA
1 CCAGATGAGAAAAAACAGACAA
15467782 CCAGATGAGAAAAAACAGACAA
1 CCAGATGAGAAAAAACAGACAA
15467804 C
1 C
15467805 TCAATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.20, G:0.20, T:0.04
Consensus pattern (22 bp):
CCAGATGAGAAAAAACAGACAA
Found at i:15472867 original size:79 final size:79
Alignment explanation
Indices: 15472736--15472892 Score: 260
Period size: 79 Copynumber: 2.0 Consensus size: 79
15472726 CTAAAATAAT
* * *
15472736 CAATTAAGTTATTTCGTTAGTAGAATTCGTGGTTGACCACGTTGACCTTTAAAATAAATTAACAA
1 CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACCTTTAAAATAAATTAACAA
15472801 ACCAATCATATAGC
66 ACCAATCATATAGC
* *
15472815 CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACTTTTAAAATAAATTGACAA
1 CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACCTTTAAAATAAATTAACAA
*
15472880 ACTAATCATATAG
66 ACCAATCATATAG
15472893 TAACATGTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (79 bp):
CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACCTTTAAAATAAATTAACAA
ACCAATCATATAGC
Found at i:15473050 original size:18 final size:18
Alignment explanation
Indices: 15473029--15473087 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
15473019 TAAAAAAATA
*
15473029 AAAACTTATAAATGTTAT
1 AAAACTTATAAATATTAT
*
15473047 AAAAC-TATAAAATATTTT
1 AAAACTTAT-AAATATTAT
* *
15473065 AAAACTAATAAAATATTTT
1 AAAACTTAT-AAATATTAT
15473084 AAAA
1 AAAA
15473088 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.08
18 17 0.47
19 16 0.44
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAACTTATAAATATTAT
Found at i:15473077 original size:19 final size:18
Alignment explanation
Indices: 15473046--15473087 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
15473036 ATAAATGTTA
15473046 TAAAACTATAAAATATTT
1 TAAAACTATAAAATATTT
15473064 TAAAACTAATAAAATATTT
1 TAAAACT-ATAAAATATTT
15473083 TAAAA
1 TAAAA
15473088 TTTTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAACTATAAAATATTT
Found at i:15473126 original size:20 final size:20
Alignment explanation
Indices: 15473052--15473138 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
15473042 GTTATAAAAC
*
15473052 TATAAAATATTTTAAAACTA
1 TATAAAATATTTTAAAAATA
* *
15473072 -ATAAAATATTTTAAAATTT
1 TATAAAATATTTTAAAAATA
**
15473091 TATAAAA-ATGAATAAAAATA
1 TATAAAATAT-TTTAAAAATA
*
15473111 TATAAAA-ATTCTTAAAAACA
1 TATAAAATATT-TTAAAAATA
15473131 TATAAAAT
1 TATAAAAT
15473139 CATAAAAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 19 0.35
20 35 0.65
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
TATAAAATATTTTAAAAATA
Found at i:15473153 original size:19 final size:20
Alignment explanation
Indices: 15473104--15473154 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 20
15473094 AAAAATGAAT
*
15473104 AAAAATATATAAAAATTCTTAA
1 AAAAAT-TAT-AAAATTCATAA
*
15473126 AAACA-TATAAAA-TCATAA
1 AAAAATTATAAAATTCATAA
15473144 AAAAATTATAA
1 AAAAATTATAA
15473155 GAATATTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 3 0.12
22 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAAATTCATAA
Found at i:15473342 original size:16 final size:17
Alignment explanation
Indices: 15473318--15473359 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15473308 AAAGTTGAAG
*
15473318 TAATTTTTTTTA-TTTT
1 TAATATTTTTTAGTTTT
15473334 TAATATTTTTTAGTTTT
1 TAATATTTTTTAGTTTT
*
15473351 TAATGTTTT
1 TAATATTTT
15473360 ATTTAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TAATATTTTTTAGTTTT
Found at i:15473344 original size:17 final size:17
Alignment explanation
Indices: 15473318--15473364 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
15473308 AAAGTTGAAG
15473318 TAATTTTTTTTA-TTTT
1 TAATTTTTTTTAGTTTT
*
15473334 TAATATTTTTTAGTTTT
1 TAATTTTTTTTAGTTTT
15473351 TAATGTTTTATTTA
1 TAAT-TTTT-TTTA
15473365 ATTGAACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 11 0.42
17 8 0.31
18 3 0.12
19 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
TAATTTTTTTTAGTTTT
Found at i:15473474 original size:10 final size:9
Alignment explanation
Indices: 15473437--15473528 Score: 71
Period size: 10 Copynumber: 9.8 Consensus size: 9
15473427 TCATTGATCC
15473437 AATTTTTAT
1 AATTTTTAT
*
15473446 AATATTTAT
1 AATTTTTAT
*
15473455 AACATTTTAT
1 AA-TTTTTAT
15473465 AATTTGTTAT
1 AATTT-TTAT
15473475 AATTTTTATT
1 AATTTTTA-T
*
15473485 AAGTTTATAT
1 AA-TTTTTAT
15473495 CAA-TTTT-T
1 -AATTTTTAT
15473503 AATTTTTGAT
1 AATTTTT-AT
*
15473513 ATTTTTTAT
1 AATTTTTAT
*
15473522 ACTTTTT
1 AATTTTT
15473529 TTAGGTTAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 26 0.39
10 27 0.40
11 7 0.10
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:15473481 original size:19 final size:18
Alignment explanation
Indices: 15473437--15473483 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
15473427 TCATTGATCC
15473437 AATTTTTATAATATTTAT
1 AATTTTTATAATATTTAT
* *
15473455 AACATTTTATAATTTGTTAT
1 AA-TTTTTATAATAT-TTAT
15473475 AATTTTTAT
1 AATTTTTAT
15473484 TAAGTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTTTTATAATATTTAT
Found at i:15473492 original size:38 final size:39
Alignment explanation
Indices: 15473437--15473521 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 39
15473427 TCATTGATCC
15473437 AATTTTTA-TAATATTTATAAC-ATTTTATAATTTGTT-AT
1 AATTTTTATTAATATTTATAACAATTTT-TAATTT-TTGAT
* *
15473475 AATTTTTATTAA-GTTTATATCAATTTTTAATTTTTGAT
1 AATTTTTATTAATATTTATAACAATTTTTAATTTTTGAT
*
15473513 ATTTTTTAT
1 AATTTTTAT
15473522 ACTTTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 2 0.05
38 31 0.76
39 8 0.20
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (39 bp):
AATTTTTATTAATATTTATAACAATTTTTAATTTTTGAT
Found at i:15474577 original size:19 final size:19
Alignment explanation
Indices: 15474555--15474607 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
15474545 GTTTAAAAAA
15474555 TTATAATTTTTAT-GTTTTT
1 TTATAATTTTTATAG-TTTT
*
15474574 TTATTATTTTTATAAGTTTT
1 TTATAATTTTTAT-AGTTTT
*
15474594 TAATAATTTTTATA
1 TTATAATTTTTATA
15474608 CATGTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.45
20 15 0.52
21 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
TTATAATTTTTATAGTTTT
Found at i:15474583 original size:9 final size:9
Alignment explanation
Indices: 15474555--15474696 Score: 76
Period size: 9 Copynumber: 15.2 Consensus size: 9
15474545 GTTTAAAAAA
15474555 TTATAATTT
1 TTATAATTT
**
15474564 TTATGTTTTT
1 TTAT-AATTT
*
15474574 TTATTATTT
1 TTATAATTT
15474583 TTATAAGTTT
1 TTATAA-TTT
15474593 TTAATAATTT
1 TT-ATAATTT
*
15474603 TTATACATGT
1 TTATA-ATTT
*
15474613 TTATAAAATT
1 TTAT-AATTT
*
15474623 TTAAATATATT
1 TTATA-AT-TT
15474634 TTATTAA-TT
1 TTA-TAATTT
*
15474643 TTATAA--A
1 TTATAATTT
*
15474650 ATATAATTT
1 TTATAATTT
15474659 TTAT-ATTT
1 TTATAATTT
* *
15474667 TTATAGTAT
1 TTATAATTT
15474676 TTATAAGTTT
1 TTATAA-TTT
*
15474686 TTATTATTT
1 TTATAATTT
15474695 TT
1 TT
15474697 TTATAAATTT
Statistics
Matches: 102, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
7 5 0.05
8 11 0.11
9 37 0.36
10 37 0.36
11 11 0.11
12 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:15474625 original size:30 final size:30
Alignment explanation
Indices: 15474572--15474651 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
15474562 TTTTATGTTT
* * *
15474572 TTTTATTATTTTTAT-AAGTTTTTAATA-A
1 TTTTATTAATTTTATAAAATTTTAAATATA
15474600 TTTT-TATACATGTTTATAAAATTTTAAATATA
1 TTTTAT-TA-AT-TTTATAAAATTTTAAATATA
15474632 TTTTATTAATTTTATAAAAT
1 TTTTATTAATTTTATAAAAT
15474652 ATAATTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 1 0.02
28 6 0.14
29 1 0.02
30 15 0.35
31 12 0.28
32 7 0.16
33 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTATTAATTTTATAAAATTTTAAATATA
Found at i:15475243 original size:75 final size:76
Alignment explanation
Indices: 15475114--15475258 Score: 238
Period size: 75 Copynumber: 1.9 Consensus size: 76
15475104 ACTATTAAGG
* *
15475114 ACATTAAATTAATAATTAAATATAACGAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
1 ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
15475179 AATATGTCAAA
66 AATATGTCAAA
* * *
15475190 ACATTAAACTAATAATTTAATATAA-AAAAGTTTTAAATTATTTCATTTTTATGAAATTATTAAA
1 ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
15475254 AATAT
66 AATAT
15475259 CCAATTATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 41 0.64
76 23 0.36
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (76 bp):
ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
AATATGTCAAA
Found at i:15481378 original size:2 final size:2
Alignment explanation
Indices: 15481373--15481408 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15481363 AAGGAGGAAG
15481373 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15481409 TTCTTCCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15487417 original size:39 final size:39
Alignment explanation
Indices: 15487363--15487526 Score: 247
Period size: 39 Copynumber: 4.2 Consensus size: 39
15487353 AAAATGTGTA
15487363 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
15487402 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* **
15487441 TGGAAATGTATCTTGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
15487480 TGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
15487519 TGGTAATA
1 TGGAAATA
15487527 AAATTTCGGG
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:15490224 original size:18 final size:18
Alignment explanation
Indices: 15490201--15490238 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15490191 AATTGGTTGA
15490201 TAGTTCTATTTGGAGGCT
1 TAGTTCTATTTGGAGGCT
15490219 TAGTTCTATTTGGAGGCT
1 TAGTTCTATTTGGAGGCT
15490237 TA
1 TA
15490239 ATATGTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (18 bp):
TAGTTCTATTTGGAGGCT
Found at i:15493781 original size:40 final size:40
Alignment explanation
Indices: 15493736--15493925 Score: 308
Period size: 40 Copynumber: 4.8 Consensus size: 40
15493726 CAAGCTCAAT
* * * * *
15493736 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
* * *
15493776 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
15493816 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
15493856 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
15493896 TGCCTTCGGGTTTTAGCCCGGATATATCAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAA
15493926 TTGCTCATGC
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
Found at i:15501838 original size:40 final size:40
Alignment explanation
Indices: 15501793--15501982 Score: 281
Period size: 40 Copynumber: 4.8 Consensus size: 40
15501783 CAAGCTCAAT
* * * * *
15501793 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
* * *
15501833 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
* *
15501873 TGCCTTCAGGTTTTAGCCCGGATTTATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
15501913 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
*
15501953 TGCCTTTGGGTTTTAGCCCGGATATATCAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAA
15501983 TTGCTCATGC
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
Found at i:15512568 original size:24 final size:25
Alignment explanation
Indices: 15512541--15512589 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
15512531 CCATACTAAT
*
15512541 CATA-AATCTCATGTACA-CTTATAA
1 CATATAATC-CATGTAAACCTTATAA
15512565 CATATAATCCATGTAAACCTTATAA
1 CATATAATCCATGTAAACCTTATAA
15512590 TCCATGTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (25 bp):
CATATAATCCATGTAAACCTTATAA
Found at i:15512846 original size:23 final size:23
Alignment explanation
Indices: 15512793--15512847 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
15512783 TTGAGCCGAT
*
15512793 AAACGGTAAGCTCAATTGAGCTG
1 AAACGGTAAGCTCAATAGAGCTG
**
15512816 -AACGGTAAGCTCTGTAGAGCTG
1 AAACGGTAAGCTCAATAGAGCTG
15512838 AAACGGTAAG
1 AAACGGTAAG
15512848 TCCCTAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCAATAGAGCTG
Found at i:15518872 original size:33 final size:33
Alignment explanation
Indices: 15518835--15518898 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
15518825 ATACTTACTT
15518835 GTATACTTAATCGTATATGGTGGCTAGAGACTG
1 GTATACTTAATCGTATATGGTGGCTAGAGACTG
* *
15518868 GTATACTTACTCGTATCTGGTGGCTAGAGAC
1 GTATACTTAATCGTATATGGTGGCTAGAGAC
15518899 AAACAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (33 bp):
GTATACTTAATCGTATATGGTGGCTAGAGACTG
Found at i:15520577 original size:31 final size:31
Alignment explanation
Indices: 15520488--15520592 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
15520478 AGTGGAATGT
15520488 ATTAATAAAATATTATCAAGATAAATATTAA
1 ATTAATAAAATATTATCAAGATAAATATTAA
** * * * * *
15520519 ATTAAATTTAACA-TCTC-ATATTAATATTGA
1 ATT-AATAAAATATTATCAAGATAAATATTAA
15520549 ATTAATAAAATATTATCAAGATAAATATTAA
1 ATTAATAAAATATTATCAAGATAAATATTAA
*
15520580 ATTTATTAAAATA
1 A-TTAATAAAATA
15520593 ATATTATTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
29 6 0.11
30 16 0.29
31 17 0.31
32 16 0.29
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (31 bp):
ATTAATAAAATATTATCAAGATAAATATTAA
Found at i:15520585 original size:21 final size:21
Alignment explanation
Indices: 15520556--15520598 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15520546 TGAATTAATA
*
15520556 AAATATTATCAAGATAAATATT
1 AAATATTATCAAAAT-AATATT
*
15520578 AAAT-TTATTAAAATAATATT
1 AAATATTATCAAAATAATATT
15520598 A
1 A
15520599 TTTTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATATTATCAAAATAATATT
Found at i:15532354 original size:18 final size:16
Alignment explanation
Indices: 15532313--15532355 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
15532303 GATTATTAAA
*
15532313 TTATTTAATTAAAAGT
1 TTATTTAATTAAAAAT
15532329 TTATTTAATTAAAAAT
1 TTATTTAATTAAAAAT
15532345 TATGATTTAAT
1 T-T-ATTTAAT
15532356 AACTTATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.67
17 1 0.04
18 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTATTTAATTAAAAAT
Found at i:15540967 original size:79 final size:81
Alignment explanation
Indices: 15540801--15540982 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 81
15540791 CGAATGATGT
* *
15540801 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
15540865 GTGTGAGTTACTAATT
66 GTGCGAGTTACTAATA
** * * * **
15540881 CTAGGCTAAG-CCCGAAGGCATTAGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
15540943 TGTGCGAGTTACT-ATAA
65 TGTGCGAGTTACTAAT-A
*
15540960 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
15540983 TGAACGAGTA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.04
79 55 0.65
80 26 0.31
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTAGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATA
Found at i:15540991 original size:40 final size:40
Alignment explanation
Indices: 15540800--15540984 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
15540790 TCGAATGATG
* * * *
15540800 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15540840 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
15540880 TCTAGGCTAAG-CCCGAAGGCATTAGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15540919 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15540960 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15540985 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 80 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15541006 original size:79 final size:79
Alignment explanation
Indices: 15540853--15541017 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
15540843 GGACTAAGAT
* * * **
15540853 CCGAAGGCATTTGTGTGAGTTACTAATTCTAGGCTAAGCCCGAAGGCATTAGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
*
15540918 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
15540932 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTAGAACGAGTTA-C
* *
15540995 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15541011 CCGAAGG
1 CCGAAGG
15541018 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15549019 original size:40 final size:39
Alignment explanation
Indices: 15548829--15549012 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
15548819 CGAATGATGT
* * * *
15548829 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
15548869 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
15548909 CCGGACTAAG-CCCGAAGGCATTAGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15548947 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15548988 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15549013 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 34 0.27
40 82 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15549034 original size:79 final size:79
Alignment explanation
Indices: 15548881--15549045 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
15548871 GGACTAAGAT
* **
15548881 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGACTAAGCCCGAAGGCATTAGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGGCATTAGAACGAGTTACTAA
*
15548946 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
15548960 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGACTAAG-CCCGAAGGCATTAGAACGAGTTA-C
* *
15549023 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15549039 CCGAAGG
1 CCGAAGG
15549046 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGGCATTAGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15551869 original size:33 final size:32
Alignment explanation
Indices: 15551811--15551874 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
15551801 GTATTGCCAA
15551811 AAACATATATTAGATCATAAAGTCATATTTTCG
1 AAACATATATTAGATCATAAAGTCAT-TTTTCG
*
15551844 AAACATAT-TTCAGATCGA-AATGTCATTTTTC
1 AAACATATATT-AGATC-ATAAAGTCATTTTTC
15551875 ATTATCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 7 0.25
33 20 0.71
34 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (32 bp):
AAACATATATTAGATCATAAAGTCATTTTTCG
Found at i:15556875 original size:16 final size:16
Alignment explanation
Indices: 15556856--15556886 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15556846 AGATGTGAAT
*
15556856 TGAATTGAATTAAATA
1 TGAATCGAATTAAATA
15556872 TGAATCGAATTAAAT
1 TGAATCGAATTAAAT
15556887 TGAGCTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (16 bp):
TGAATCGAATTAAATA
Found at i:15559145 original size:46 final size:46
Alignment explanation
Indices: 15559095--15559270 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
15559085 TGATTGAGCA
15559095 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15559141 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
15559186 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15559234 -CCTGAGCTCGTTGATTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15559271 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15559253 original size:93 final size:93
Alignment explanation
Indices: 15559092--15559263 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
15559082 GGATGATTGA
*
15559092 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
15559157 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
15559185 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
15559249 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
15559264 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15565176 original size:25 final size:23
Alignment explanation
Indices: 15565123--15565177 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
15565113 GGCTCTCCAA
* *
15565123 AGCTTCCCGATATGGCTCGCTTG
1 AGCTTCCCGATATGGCTAGCTGG
* *
15565146 AACTTCCCGATACATGGCTATCTGG
1 AGCTTCCCGAT--ATGGCTAGCTGG
15565171 AGCTTCC
1 AGCTTCC
15565178 TATTCAATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 10 0.40
25 15 0.60
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (23 bp):
AGCTTCCCGATATGGCTAGCTGG
Found at i:15579683 original size:24 final size:24
Alignment explanation
Indices: 15579624--15579685 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
15579614 TTAGCCCTCT
* *
15579624 CGAGCTTCCCATTATGTGGTTCAG
1 CGAGCTTCCCATTATATGGTTCAA
* *
15579648 TGAACTTCCCATTATATGGTTCAA
1 CGAGCTTCCCATTATATGGTTCAA
*
15579672 CGAGCTTTCCATTA
1 CGAGCTTCCCATTA
15579686 ATAGCTCTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (24 bp):
CGAGCTTCCCATTATATGGTTCAA
Found at i:15582197 original size:18 final size:18
Alignment explanation
Indices: 15582176--15582242 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
15582166 AATCGGTTAA
*
15582176 TCAGTAACAATCATTTAT
1 TCAGTAACAGTCATTTAT
* * *
15582194 TCAGTATCAGTCGTTTTT
1 TCAGTAACAGTCATTTAT
*
15582212 TCAGTAACAGTCAATTAT
1 TCAGTAACAGTCATTTAT
*
15582230 TCAGTAGCAGTCA
1 TCAGTAACAGTCA
15582243 GTCTTTAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:15582382 original size:6 final size:6
Alignment explanation
Indices: 15582365--15582405 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
15582355 TACACTGTGT
* * *
15582365 CAGTAA CGGTAA CAGTAA CAGTAA TAGTAA TAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
15582406 GCGGCACACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:15583701 original size:21 final size:22
Alignment explanation
Indices: 15583677--15583724 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
15583667 AAAATCTTAT
15583677 AATATAATTATT-TAATT-AATA
1 AATATAATT-TTATAATTAAATA
15583698 AATAT-ATTTTATAATTAAATA
1 AATATAATTTTATAATTAAATA
*
15583719 CATATA
1 AATATA
15583725 TTACAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 2 0.09
20 8 0.35
21 13 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATAATTTTATAATTAAATA
Found at i:15587696 original size:19 final size:19
Alignment explanation
Indices: 15587672--15587709 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15587662 TACAAAGCTA
15587672 ACAAACAAGCTTAACTAAC
1 ACAAACAAGCTTAACTAAC
15587691 ACAAACAAGCTTAACTAAC
1 ACAAACAAGCTTAACTAAC
15587710 TCTACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (19 bp):
ACAAACAAGCTTAACTAAC
Found at i:15590628 original size:17 final size:17
Alignment explanation
Indices: 15590606--15590642 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
15590596 TAATCAAATG
15590606 AGTGCTCTAGTTGACAT
1 AGTGCTCTAGTTGACAT
*
15590623 AGTGCTTTAGTTGACAT
1 AGTGCTCTAGTTGACAT
15590640 AGT
1 AGT
15590643 TCATTATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (17 bp):
AGTGCTCTAGTTGACAT
Found at i:15596693 original size:56 final size:56
Alignment explanation
Indices: 15596607--15596838 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
15596597 ACAAGGGATG
*
15596607 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
15596663 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
15596719 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
15596775 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
15596831 ATGGGCAA
1 ATGGGCAA
15596839 TAAACTAATA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:15598119 original size:79 final size:81
Alignment explanation
Indices: 15597983--15598165 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
15597973 TCGAATGATG
* *
15597983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
15598047 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
15598062 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15598124 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
15598142 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
15598166 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:15598174 original size:40 final size:40
Alignment explanation
Indices: 15597983--15598167 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
15597973 TCGAATGATG
* * * *
15597983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15598023 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15598063 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15598102 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
15598143 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15598168 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15598189 original size:79 final size:79
Alignment explanation
Indices: 15598036--15598190 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
15598026 GGACTAAGAT
* **
15598036 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
15598101 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
15598115 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
15598178 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
15598191 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:15601057 original size:33 final size:32
Alignment explanation
Indices: 15600984--15601076 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 32
15600974 AACTTGAGCT
*
15600984 GGAAGGAGTGGAGTAC-TGCGATTGATACGGGCC
1 GGAAGGAGTGGAGTACATG-G-TGGATACGGGCC
*
15601017 -AAGAGGAGTGGAGTACGATGGTGGATACGGGCC
1 GGA-AGGAGTGGAGTAC-ATGGTGGATACGGGCC
* * *
15601050 GGAAGGAGCGGAGCACTAAGGTGGATA
1 GGAAGGAGTGGAGTAC-ATGGTGGATA
15601077 TGAGTCAGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
32 1 0.02
33 44 0.90
34 2 0.04
35 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.44, T:0.15
Consensus pattern (32 bp):
GGAAGGAGTGGAGTACATGGTGGATACGGGCC
Found at i:15604184 original size:24 final size:26
Alignment explanation
Indices: 15604149--15604213 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
15604139 ATACATTACC
15604149 TTTTTTCTTTCTTTC-TTCT-TCTTCT
1 TTTTTTC-TTCTTTCTTTCTCTCTTCT
* *
15604174 TTTTTTCTTC-TCCTTTCTCTCTTTT
1 TTTTTTCTTCTTTCTTTCTCTCTTCT
15604199 TTTTTTCTCTCTTTC
1 TTTTTTCT-TCTTTC
15604214 GGTGTGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 2 0.06
24 7 0.21
25 20 0.61
26 2 0.06
27 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTTCTTCTTTCTTTCTCTCTTCT
Found at i:15604196 original size:22 final size:22
Alignment explanation
Indices: 15604149--15604213 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
15604139 ATACATTACC
*
15604149 TTTTTTCTTTCTTTCTTCTTCTTCT
1 TTTTTTC-TTCTCTC-T-TTCTTCT
15604174 TTTTTTCTTCTC-CTTTCTCTCT
1 TTTTTTCTTCTCTCTTTCT-TCT
*
15604196 TTTTTTTTTCTCTCTTTC
1 TTTTTTCTTCTCTCTTTC
15604214 GGTGTGGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.11
22 15 0.42
23 6 0.17
24 4 0.11
25 7 0.19
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTCTTCTCTCTTTCTTCT
Found at i:15612890 original size:19 final size:19
Alignment explanation
Indices: 15612844--15612890 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
15612834 ATAAAAATTC
15612844 AAATATATATAATTTATAAA
1 AAATATA-ATAATTTATAAA
*
15612864 AAACATAATAA-TTATAAA
1 AAATATAATAATTTATAAA
15612882 AAATTATAA
1 AAA-TATAA
15612891 AAATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 8 0.33
20 6 0.25
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATAATAATTTATAAA
Found at i:15613228 original size:35 final size:35
Alignment explanation
Indices: 15613165--15613234 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
15613155 ATTTTTAAAA
15613165 TTTTTAAAATCTTTTATATTATATATATAAATAAT
1 TTTTTAAAATCTTTTATATTATATATATAAATAAT
*
15613200 TTTTTAAAAT-TTTTA-ATTAATATAATATATATAAT
1 TTTTTAAAATCTTTTATATT-ATAT-ATATAAATAAT
15613235 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 3 0.09
34 9 0.28
35 20 0.62
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (35 bp):
TTTTTAAAATCTTTTATATTATATATATAAATAAT
Found at i:15613486 original size:22 final size:22
Alignment explanation
Indices: 15613458--15613505 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
15613448 GTGCGTTTAG
15613458 ATACCAAAATGAAAAATTAAGT
1 ATACCAAAATGAAAAATTAAGT
*
15613480 ATACCAAAATGAAAAATTAGGT
1 ATACCAAAATGAAAAATTAAGT
15613502 ATAC
1 ATAC
15613506 TTTAGGGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (22 bp):
ATACCAAAATGAAAAATTAAGT
Found at i:15620692 original size:21 final size:21
Alignment explanation
Indices: 15620666--15620707 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15620656 ATCGAAGGTT
*
15620666 TCTGGTTCACATAAATCAAAA
1 TCTGGTACACATAAATCAAAA
15620687 TCTGGTACACATAAATCAAAA
1 TCTGGTACACATAAATCAAAA
15620708 CATTGCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (21 bp):
TCTGGTACACATAAATCAAAA
Found at i:15624358 original size:22 final size:22
Alignment explanation
Indices: 15624333--15624377 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15624323 TTTAATAAAG
*
15624333 AAAATATCTATAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
15624355 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
15624377 A
1 A
15624378 CACTCCCCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:15628133 original size:22 final size:22
Alignment explanation
Indices: 15628108--15628152 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
15628098 TTTAATAAAG
15628108 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
15628130 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
15628152 A
1 A
15628153 CACTTCTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:15632423 original size:21 final size:21
Alignment explanation
Indices: 15632382--15632424 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15632372 TGTGTGTTGG
*
15632382 ATTAAATTGAGTATGAATTAT
1 ATTAAATTGAGTATAAATTAT
15632403 ATTAAATTGAGT-TAAATT-T
1 ATTAAATTGAGTATAAATTAT
15632422 ATT
1 ATT
15632425 CGTATCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
21 12 0.57
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (21 bp):
ATTAAATTGAGTATAAATTAT
Found at i:15632834 original size:25 final size:25
Alignment explanation
Indices: 15632756--15632839 Score: 100
Period size: 25 Copynumber: 3.3 Consensus size: 25
15632746 TGGCTCGCAA
15632756 GAGCTTCCCGTTATACA-GCTCAAAT
1 GAGCTTCCCGTT-TACATGCTCAAAT
* *
15632781 GAGCTTCCCG-TTATATGGCTCAAAA
1 GAGCTTCCCGTTTACAT-GCTCAAAT
*
15632806 GAGCTTCCCGTTTACATGCTCATAT
1 GAGCTTCCCGTTTACATGCTCAAAT
15632831 GAGCATTCC
1 GAGC-TTCC
15632840 TGAATATGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.06
24 1 0.02
25 37 0.74
26 9 0.18
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGTTTACATGCTCAAAT
Found at i:15632847 original size:50 final size:50
Alignment explanation
Indices: 15632732--15632847 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
15632722 AACTCTCTTT
* **
15632732 AGCTTCCCAATAA-ATGGCTCGCAAGAGCTTCCCGTTATACAGCTCAAATG
1 AGCTTCCC-GTAATATGGCTCAAAAGAGCTTCCCGTTATACAGCTCAAATG
* *
15632782 AGCTTCCCGTTATATGGCTCAAAAGAGCTTCCCGTT-TACATGCTCATATG
1 AGCTTCCCGTAATATGGCTCAAAAGAGCTTCCCGTTATACA-GCTCAAATG
*
15632832 AGCATTCCTG-AATATG
1 AGC-TTCCCGTAATATG
15632848 AATTGACAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
49 6 0.11
50 45 0.80
51 5 0.09
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
AGCTTCCCGTAATATGGCTCAAAAGAGCTTCCCGTTATACAGCTCAAATG
Found at i:15643331 original size:157 final size:157
Alignment explanation
Indices: 15643128--15643423 Score: 472
Period size: 157 Copynumber: 1.9 Consensus size: 157
15643118 TATAAGGGCA
*
15643128 AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAGTATGAATTATATTAAATTGAGTT
1 AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
* * *
15643193 AAATTCATTCGTATAGAAT-TGGATAGACCTAATAC-GAAGTTAGACT-GAGGTAAAGAAAAAGT
66 AAATTCATTCGTATAG-ATCCGGATAAACCTAATACAG-AGTTAG-CTCGAGGCAAAGAAAAAGT
15643255 ATCGGATTAGTAATTCATTCGTATAGGGAC
128 ATCGGATTAGTAATTCATTCGTATAGGGAC
* * *
15643285 AAATAGTAATTTTTCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
1 AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
*
15643350 AAATTCATTCGTATAGATCCGGATAAACCTAATACAGAGTTAGGTCGAGGCAAAGAAAAAGTATC
66 AAATTCATTCGTATAGATCCGGATAAACCTAATACAGAGTTAGCTCGAGGCAAAGAAAAAGTATC
15643415 GGATTAGTA
131 GGATTAGTA
15643424 GCTTTGTATC
Statistics
Matches: 128, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
156 3 0.02
157 124 0.97
158 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (157 bp):
AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
AAATTCATTCGTATAGATCCGGATAAACCTAATACAGAGTTAGCTCGAGGCAAAGAAAAAGTATC
GGATTAGTAATTCATTCGTATAGGGAC
Found at i:15648107 original size:47 final size:47
Alignment explanation
Indices: 15648053--15648143 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
15648043 TTGTAGCCTA
15648053 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATAT
1 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATAT
15648100 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATA
1 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATA
15648144 AATTATTGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (47 bp):
TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATAT
Found at i:15648275 original size:29 final size:29
Alignment explanation
Indices: 15648233--15648290 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
15648223 GTGGTGCCGC
*
15648233 CTCTTTACCACCCACAATATATAATTTCA
1 CTCTTCACCACCCACAATATATAATTTCA
15648262 CTCTTCACCACCCACAATATATAATTTCA
1 CTCTTCACCACCCACAATATATAATTTCA
15648291 GTAGATAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (29 bp):
CTCTTCACCACCCACAATATATAATTTCA
Found at i:15655579 original size:21 final size:22
Alignment explanation
Indices: 15655539--15655585 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
15655529 CTCTGCTCAA
*
15655539 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
15655560 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
15655582 ACTC
1 ACTC
15655586 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:15658703 original size:15 final size:16
Alignment explanation
Indices: 15658667--15658702 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15658657 ATTTATTAAT
*
15658667 TAAAATTTTTATATTA
1 TAAAATTTTTATATGA
*
15658683 TAAAATTTTTATGTGA
1 TAAAATTTTTATATGA
15658699 TAAA
1 TAAA
15658703 TAAATTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TAAAATTTTTATATGA
Found at i:15675995 original size:135 final size:135
Alignment explanation
Indices: 15675413--15675984 Score: 738
Period size: 135 Copynumber: 4.3 Consensus size: 135
15675403 ATTATAAGCC
* * * * *
15675413 TTATCTTCACTGAGCAGAAGTAGAGCAGGCT-AA-ATACTAGATCTTATCTTTACTGAGTAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
* * ** *
15675476 TGAAGCAGATCGAATTTTAGAGAATCTTATCTCCATATACCGGCGATGGAGCAAATTCCAATCAT
66 TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
15675541 CAGCT
131 CAGCT
* *
15675546 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATTTTCATTGAGCAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
**
15675611 TGAAGCAGATCGGATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
66 TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
15675676 CAGCT
131 CAGCT
* * * *
15675681 TTATCTTCACTGAGCAGGAATGGAGCAGGCTAAATATACCAGGTCTTATCTTCGCTGAGCAAGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
* * * ** * * **
15675746 -CAGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTCAGCCA
66 TGA-AGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCA
* * *
15675810 CCAACC
130 TCAGCT
* * *
15675816 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCATTGGGCATGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
* * *
15675881 TGAAGTAGATCAAATTTTGGAGAATCTTATCTTCACGTACAGGCGATGGAGCAGATTCCAATCAT
66 TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
15675946 CAGCT
131 CAGCT
* * * *
15675951 TTATCTTTACTAAGCAGTAG-GGTAACAGGCTAAA
1 TTATCTTCACTGAGCAGGAGTGG-AGCAGGCTAAA
15675985 ATTTATAGAT
Statistics
Matches: 378, Mismatches: 56, Indels: 8
0.86 0.13 0.02
Matches are distributed among these distances:
133 29 0.08
134 5 0.01
135 343 0.91
136 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (135 bp):
TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
CAGCT
Found at i:15685213 original size:25 final size:26
Alignment explanation
Indices: 15685175--15685227 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
15685165 TTATAGCCAT
* *
15685175 ACGAACCGTATAACTAAAGA-CCAAA
1 ACGAACCATATAACTAAAAAGCCAAA
*
15685200 ACGAACCATTTAACTAAAAAGCCAAA
1 ACGAACCATATAACTAAAAAGCCAAA
15685226 AC
1 AC
15685228 ACACCGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.13
Consensus pattern (26 bp):
ACGAACCATATAACTAAAAAGCCAAA
Found at i:15689196 original size:41 final size:41
Alignment explanation
Indices: 15689149--15689246 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
15689139 TAAAATCATT
* *
15689149 AAAATTATTAAAAAAATTATACAAAAGATTA-ATAATATTA-A
1 AAAATTATTAAAAAAATGACACAAAA-ATTATAT-ATATTATA
*
15689190 AAAATTA-TAAATATAAATGACACAAAAATTGTATATATTATA
1 AAAATTATTAAA-A-AAATGACACAAAAATTATATATATTATA
15689232 AAAATTATTAAAAAA
1 AAAATTATTAAAAAA
15689247 TGCAAGAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
40 4 0.08
41 19 0.39
42 22 0.45
43 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (41 bp):
AAAATTATTAAAAAAATGACACAAAAATTATATATATTATA
Found at i:15691289 original size:8 final size:8
Alignment explanation
Indices: 15691266--15691300 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
15691256 TCACTTAAAT
*
15691266 AAATTTTA
1 AAATTATA
*
15691274 AAAATATA
1 AAATTATA
15691282 AAATTATA
1 AAATTATA
15691290 AAATTATA
1 AAATTATA
15691298 AAA
1 AAA
15691301 ATACATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATTATA
Found at i:15696958 original size:30 final size:30
Alignment explanation
Indices: 15696924--15697022 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
15696914 AAATTTTCAC
*
15696924 TTTAAGTGAGTAATTATTGTTTAAATAAAT
1 TTTAAGTGAGTAATTATTATTTAAATAAAT
** * **
15696954 TTTAA-AAAATAAGTTAAAATTTAAAACTAAAAAT
1 TTTAAGTGAGTAA-TTATTATTT-AAA-T--AAAT
*
15696988 TTTAAGTGAGTAATTATTTTTTAAATAAAT
1 TTTAAGTGAGTAATTATTATTTAAATAAAT
15697018 TTTAA
1 TTTAA
15697023 ATGATTAGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
29 4 0.08
30 20 0.39
31 3 0.06
32 2 0.04
33 3 0.06
34 15 0.29
35 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.43
Consensus pattern (30 bp):
TTTAAGTGAGTAATTATTATTTAAATAAAT
Found at i:15700399 original size:6 final size:6
Alignment explanation
Indices: 15700390--15700427 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
15700380 GCAGGCGGAG
15700390 GCGGCA GCGGCA GCGGCA GCGGCA GCGGCA GCGGCA GC
1 GCGGCA GCGGCA GCGGCA GCGGCA GCGGCA GCGGCA GC
15700428 AACCGGGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.34, G:0.50, T:0.00
Consensus pattern (6 bp):
GCGGCA
Found at i:15700722 original size:27 final size:27
Alignment explanation
Indices: 15700684--15700742 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
15700674 AAAATTTTAA
*
15700684 AAAAAAATATAATACATTAAAATTACT
1 AAAAAAATATAATACATCAAAATTACT
*
15700711 AAAAAAATATAATACATCAAAATTATT
1 AAAAAAATATAATACATCAAAATTACT
15700738 AAAAA
1 AAAAA
15700743 TATTAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (27 bp):
AAAAAAATATAATACATCAAAATTACT
Found at i:15700911 original size:14 final size:14
Alignment explanation
Indices: 15700892--15700923 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15700882 ACAATATTCA
15700892 AATAATAACAACAT
1 AATAATAACAACAT
15700906 AATAATAACAACAT
1 AATAATAACAACAT
15700920 AATA
1 AATA
15700924 GTGAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAATAACAACAT
Found at i:15702279 original size:10 final size:10
Alignment explanation
Indices: 15702264--15702293 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
15702254 ACATTTTAAT
15702264 TAAATAAAAA
1 TAAATAAAAA
15702274 TAAATAAAAA
1 TAAATAAAAA
15702284 TAAAATAAAA
1 T-AAATAAAA
15702294 TATTTCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:15708885 original size:46 final size:45
Alignment explanation
Indices: 15708831--15708961 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 45
15708821 ATATTTGGGC
15708831 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-T-GCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAG-GA
*** * *
15708875 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GACTAGGA
15708924 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15708962 GCGGGATACA
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
46 33 0.46
47 33 0.46
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAGGA
Found at i:15708947 original size:47 final size:43
Alignment explanation
Indices: 15708828--15708955 Score: 148
Period size: 47 Copynumber: 2.8 Consensus size: 43
15708818 AGGATATTTG
** *
15708828 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGAAT
* *
15708871 GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACT
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACAGATG-AA-T
15708920 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
1 -GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
15708956 TTATGGGCGG
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
46 30 0.42
47 33 0.46
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (43 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGAAT
Found at i:15723309 original size:7 final size:7
Alignment explanation
Indices: 15723299--15723324 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15723289 AACTATTAAT
15723299 AATTTTA
1 AATTTTA
15723306 AATTTTA
1 AATTTTA
15723313 AATTTTA
1 AATTTTA
15723320 AATTT
1 AATTT
15723325 ATTCATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:15727583 original size:19 final size:19
Alignment explanation
Indices: 15727559--15727597 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15727549 AAGGTAGAAG
15727559 ACTAGTTTGATCATAATTA
1 ACTAGTTTGATCATAATTA
15727578 ACTAGTTTGATCATAATTA
1 ACTAGTTTGATCATAATTA
15727597 A
1 A
15727598 AACCATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ACTAGTTTGATCATAATTA
Found at i:15737612 original size:18 final size:18
Alignment explanation
Indices: 15737589--15737624 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15737579 ACTACAATAC
*
15737589 TAGAATAATTTAGAAACA
1 TAGAATAATTTAAAAACA
15737607 TAGAATAATTTAAAAACA
1 TAGAATAATTTAAAAACA
15737625 AATTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (18 bp):
TAGAATAATTTAAAAACA
Found at i:15739059 original size:19 final size:19
Alignment explanation
Indices: 15739031--15739095 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
15739021 ATTATCCAAA
*
15739031 TCAATTCAATTGATTTTAT
1 TCAATCCAATTGATTTTAT
* *
15739050 TCAATCCAATTCCA----AA
1 TCAATCCAATT-GATTTTAT
*
15739066 TCAATTCAATTGATTTTAT
1 TCAATCCAATTGATTTTAT
15739085 TCAATCCAATT
1 TCAATCCAATT
15739096 TAAATAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
15 1 0.03
16 11 0.32
19 21 0.62
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.43
Consensus pattern (19 bp):
TCAATCCAATTGATTTTAT
Found at i:15739064 original size:35 final size:35
Alignment explanation
Indices: 15739025--15739095 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
15739015 ATATGTATTA
15739025 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
1 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
15739060 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
1 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
15739095 T
1 T
15739096 TAAATAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.41
Consensus pattern (35 bp):
TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
Found at i:15739467 original size:21 final size:19
Alignment explanation
Indices: 15739443--15739485 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
15739433 GTTGTATTCA
15739443 ATTAAACTCATATACTATTTC
1 ATTAAACTCA-ATAC-ATTTC
* *
15739464 ATTAAATTCAATTCATTTC
1 ATTAAACTCAATACATTTC
15739483 ATT
1 ATT
15739486 CTAACTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAACTCAATACATTTC
Found at i:15740779 original size:13 final size:13
Alignment explanation
Indices: 15740763--15740787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15740753 TGTTTATTTT
15740763 ATATAATAATATA
1 ATATAATAATATA
15740776 ATATAATAATAT
1 ATATAATAATAT
15740788 TAAATATCTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:15740973 original size:34 final size:33
Alignment explanation
Indices: 15740899--15740982 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
15740889 TTCACTAGGT
15740899 TTATTTATTAATAATAATAAAATATAATAACATAC
1 TTATTTATTAAT--TAATAAAATATAATAACATAC
*
15740934 TTATTTATTAAGTTAATATAATATAATATA-ATA-
1 TTATTTATTAA-TTAATAAAATATAATA-ACATAC
*
15740967 TATATTTTTTAATTAA
1 T-TATTTATTAATTAA
15740983 AAATATTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
33 5 0.11
34 26 0.59
35 12 0.27
36 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (33 bp):
TTATTTATTAATTAATAAAATATAATAACATAC
Found at i:15752531 original size:30 final size:30
Alignment explanation
Indices: 15752497--15752556 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15752487 TACTATTGAA
*
15752497 CTATGATACAATTTTCAGATATAAAGATAG
1 CTATGATACAAGTTTCAGATATAAAGATAG
* *
15752527 CTATGGTACAAGTTTCAGATATAGAGATAG
1 CTATGATACAAGTTTCAGATATAAAGATAG
15752557 TTGAAGGTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (30 bp):
CTATGATACAAGTTTCAGATATAAAGATAG
Found at i:15757701 original size:39 final size:39
Alignment explanation
Indices: 15757657--15757734 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
15757647 TTTAAGTCTC
*
15757657 TTTGTGTGGATTTCCTTAAATTGAATTGTATATGAGTGA
1 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
15757696 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
1 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
15757735 ACACTGAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (39 bp):
TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
Found at i:15760568 original size:28 final size:28
Alignment explanation
Indices: 15760536--15760617 Score: 100
Period size: 27 Copynumber: 3.0 Consensus size: 28
15760526 ATCGTTTAAC
*
15760536 ATAAAAAATATTAAGTTAAATT-TATTTT
1 ATAAAAAATATTAA-ATAAATTATATTTT
15760564 ATAAAAAA-ATCTAAATAAATTATATTTT
1 ATAAAAAATAT-TAAATAAATTATATTTT
15760592 -TAAAAAATATTCAAAT-AATTATATTT
1 ATAAAAAATATT-AAATAAATTATATTT
15760618 ATCATTTATC
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
27 26 0.53
28 23 0.47
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (28 bp):
ATAAAAAATATTAAATAAATTATATTTT
Found at i:15765717 original size:70 final size:70
Alignment explanation
Indices: 15765604--15765749 Score: 274
Period size: 70 Copynumber: 2.1 Consensus size: 70
15765594 ATATTTCAAA
15765604 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTAGGATAAAATCTTTTTACC
1 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTAGGATAAAATCTTTTTACC
15765669 ATTCT
66 ATTCT
* *
15765674 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTTTCTAGTGCTTATGATAAAATCTTTTTACC
1 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTAGGATAAAATCTTTTTACC
15765739 ATTCT
66 ATTCT
15765744 TATTTT
1 TATTTT
15765750 ATCCTTTTGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (70 bp):
TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTAGGATAAAATCTTTTTACC
ATTCT
Found at i:15774501 original size:42 final size:45
Alignment explanation
Indices: 15774392--15774518 Score: 141
Period size: 48 Copynumber: 2.8 Consensus size: 45
15774382 GAAAAACTTA
* *
15774392 CACACTTAGTGCC--TAATAAATAGCCGAAGCTATATCAATCTCG
1 CACACTAAGTGCCAATAATATATAGCCGAAGCTATATCAATCTCG
* *
15774435 CACACTAAGTGCCAATATATATATATAGCCGAAGCTATCTCGATCTCG
1 CACACTAAGTGCC-A-ATA-ATATATAGCCGAAGCTATATCAATCTCG
* * *
15774483 CGCACTAAGTGCAAATATATATATAGCTGAAGCTAT
1 CACACTAAGTGCCAATA-ATATATAGCCGAAGCTAT
15774519 CTTGATTTCG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
43 12 0.17
46 21 0.29
47 3 0.04
48 36 0.50
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (45 bp):
CACACTAAGTGCCAATAATATATAGCCGAAGCTATATCAATCTCG
Found at i:15774518 original size:46 final size:46
Alignment explanation
Indices: 15774411--15774541 Score: 181
Period size: 46 Copynumber: 2.8 Consensus size: 46
15774401 TGCCTAATAA
* *
15774411 ATAGCCGAAGCTATATCAATCTCGCACACTAAGTGCCAATATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTG-CAA-ATATATAT
*
15774459 ATAGCCGAAGCTATCTCGATCTCGCGCACTAAGTGCAAATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAAATATATAT
* * * *
15774505 ATAGCTGAAGCTATCTTGATTTCGTACACTAAGTGCA
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCA
15774542 TATAATTAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
46 40 0.53
47 3 0.04
48 32 0.43
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (46 bp):
ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAAATATATAT
Found at i:15775067 original size:21 final size:19
Alignment explanation
Indices: 15775043--15775081 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
15775033 CTTGTATAGC
15775043 TATCATCAAACATTCAAAATA
1 TATCATCAAA-A-TCAAAATA
*
15775064 TATCATTAAAATCAAAAT
1 TATCATCAAAATCAAAAT
15775082 TCTCATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 1 0.06
21 9 0.53
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
TATCATCAAAATCAAAATA
Found at i:15780521 original size:40 final size:40
Alignment explanation
Indices: 15780470--15780562 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
15780460 CTAAGTATCA
15780470 CACACTTAGTGCC-TCTTATAGCCGAAGCTA-TTCCAACTCG
1 CACACTTAGTGCCAT-TTATAGCCGAAGCTATTTCCAAC-CG
* **
15780510 CACACTTAGTGCCATTTGTAGCCGAAGCTATTTTGAACCG
1 CACACTTAGTGCCATTTATAGCCGAAGCTATTTCCAACCG
15780550 CACACTTAGTGCC
1 CACACTTAGTGCC
15780563 GAACATAGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
40 42 0.88
41 6 0.12
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (40 bp):
CACACTTAGTGCCATTTATAGCCGAAGCTATTTCCAACCG
Found at i:15786459 original size:46 final size:46
Alignment explanation
Indices: 15786387--15786523 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
15786377 TATATATACA
* * * * * *
15786387 CATCGCATACATATCTCACATTAGCCATTTGGCTTTACCGCATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* * *
15786433 CATCTCATACACGTTTCGCATTAGCCATTCGGATTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* *
15786479 CATCTCATACACATTTTGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATAT
15786524 ATACACTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
Found at i:15786568 original size:47 final size:47
Alignment explanation
Indices: 15786497--15786781 Score: 419
Period size: 47 Copynumber: 6.1 Consensus size: 47
15786487 ACACATTTTG
* * * * * *
15786497 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* *
15786544 CATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
15786591 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
15786638 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
15786685 CATTGGCCATTCGTCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
15786732 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
15786779 CAT
1 CAT
15786782 AAAATCCTAA
Statistics
Matches: 219, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 218 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:15786732 original size:25 final size:25
Alignment explanation
Indices: 15786609--15786733 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 25
15786599 ATTCGGCCTT
*
15786609 ATCACATATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* * *
15786634 ATCACA-TTA-GCCA--TTCGGCCTT-
1 ATCACACATATG-CATGTTC-ACATTC
*
15786656 ATCACACATACGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
15786681 AT--CACAT-TGGCCAT-TCGTC-C-TT-
1 ATCACACATAT-G-CATGT--TCACATTC
15786703 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
15786728 ATCACA
1 ATCACA
15786734 TTGGCCATTC
Statistics
Matches: 75, Mismatches: 7, Indels: 36
0.64 0.06 0.31
Matches are distributed among these distances:
22 13 0.17
23 21 0.28
24 21 0.28
25 20 0.27
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:15788316 original size:35 final size:35
Alignment explanation
Indices: 15788270--15788340 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
15788260 CTCTCATAAC
15788270 TAAAATCCATAAGTAAGTCATCCAATTCCACCATT
1 TAAAATCCATAAGTAAGTCATCCAATTCCACCATT
15788305 TAAAATCCATAAGTAAGTCATCCAATTCCACCATT
1 TAAAATCCATAAGTAAGTCATCCAATTCCACCATT
15788340 T
1 T
15788341 CAATAAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (35 bp):
TAAAATCCATAAGTAAGTCATCCAATTCCACCATT
Found at i:15790717 original size:40 final size:40
Alignment explanation
Indices: 15790671--15790866 Score: 338
Period size: 40 Copynumber: 4.9 Consensus size: 40
15790661 GAATACACAT
* * *
15790671 CACCAGCATGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
15790711 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
15790751 CACCAGCACGTATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
15790791 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
* *
15790831 CACCAGCACGTATGCTTTTCGAGACTTAGCCCGGAT
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
15790867 CATATATAAC
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:15792408 original size:46 final size:46
Alignment explanation
Indices: 15792352--15792488 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
15792342 TATATATACA
* * * * * *
15792352 CATCTTATACATATCTCACATTAGCCATTTGGCTTTACCGCATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* *
15792398 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* *
15792444 CATCTCATACACATTTCGCATTAGCCATTCGGTTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATAT
15792489 ATACACTTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
Found at i:15792533 original size:47 final size:47
Alignment explanation
Indices: 15792462--15792746 Score: 410
Period size: 47 Copynumber: 6.1 Consensus size: 47
15792452 ACACATTTCG
* ** * * * *
15792462 CATTAGCCATTCGGTTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* *
15792509 CATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
15792556 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
15792603 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
15792650 CATTGGCCATTCGTCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
15792697 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
15792744 CAT
1 CAT
15792747 AAAATCCTAA
Statistics
Matches: 218, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 217 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Done.