Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 59 of 208
Found at i:22356541 original size:30 final size:31
Alignment explanation
Indices: 22356487--22356545 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22356477 AAAATGATTA
* * *
22356487 AAAATTAGAAAAAAATATTTTAAAAATAAGC
1 AAAATGAGAAAAAAATACTATAAAAATAAGC
22356518 AAAATGAGAAAAAAA-ACTATAAAAATAA
1 AAAATGAGAAAAAAATACTATAAAAATAA
22356546 AATATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.20
Consensus pattern (31 bp):
AAAATGAGAAAAAAATACTATAAAAATAAGC
Found at i:22356576 original size:10 final size:10
Alignment explanation
Indices: 22356558--22356653 Score: 52
Period size: 10 Copynumber: 10.4 Consensus size: 10
22356548 TATTTAATAT
22356558 TAAAATTATA
1 TAAAATTATA
*
22356568 TAAACTTAT-
1 TAAAATTATA
22356577 TAAAATTATA
1 TAAAATTATA
*
22356587 -AAAA-TGTA
1 TAAAATTATA
22356595 -AAAATGT-TA
1 TAAAAT-TATA
22356604 TAAAA-TATAA
1 TAAAATTAT-A
*
22356614 AAAAATCTA-A
1 TAAAAT-TATA
22356624 T-AAA-T-TA
1 TAAAATTATA
*
22356631 TAAAATTTTA
1 TAAAATTATA
22356641 TAAAATTA-A
1 TAAAATTATA
22356650 TAAA
1 TAAA
22356654 CATGCTCCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 25
0.69 0.06 0.25
Matches are distributed among these distances:
7 3 0.04
8 11 0.16
9 24 0.35
10 28 0.41
12 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
TAAAATTATA
Found at i:22356631 original size:27 final size:26
Alignment explanation
Indices: 22356559--22356653 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 26
22356549 ATTTAATATT
*
22356559 AAAATTATATAAACTTATTAAAAT-TATA
1 AAAATTA-ATAAA-TTA-TAAAATATAAA
22356587 AAAATGTAA-AAATGTTATAAAATATAAA
1 AAAAT-TAATAAA--TTATAAAATATAAA
* * *
22356615 AAAATCTAATAAATTATAAAATTTTAT
1 AAAAT-TAATAAATTATAAAATATAAA
22356642 AAAATTAATAAA
1 AAAATTAATAAA
22356654 CATGCTCCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
26 7 0.12
27 25 0.44
28 20 0.35
29 5 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
AAAATTAATAAATTATAAAATATAAA
Found at i:22356652 original size:19 final size:19
Alignment explanation
Indices: 22356558--22356653 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 19
22356548 TATTTAATAT
* * *
22356558 TAAAATTATATAAACTTAT
1 TAAAATTTTATAAAATTAA
*
22356577 TAAAATTATA-AAAATGT-A
1 TAAAATTTTATAAAAT-TAA
*
22356595 -AAAATGTTATAAAATATAA
1 TAAAATTTTATAAAAT-TAA
* * *
22356614 AAAAATCTAAT-AAATT-A
1 TAAAATTTTATAAAATTAA
22356631 TAAAATTTTATAAAATTAA
1 TAAAATTTTATAAAATTAA
22356650 TAAA
1 TAAA
22356654 CATGCTCCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
17 16 0.26
18 16 0.26
19 21 0.34
20 8 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAATTTTATAAAATTAA
Found at i:22356712 original size:20 final size:22
Alignment explanation
Indices: 22356689--22356741 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
22356679 AATGTATTAG
*
22356689 AATTCTTAAAAAA-TA-ATAAA
1 AATTCTAAAAAAATTATATAAA
*
22356709 AATTGTAAAAAAATTATATAAA
1 AATTCTAAAAAAATTATATAAA
*
22356731 AAATCATAAAA
1 AATTC-TAAAA
22356742 GCTTGATCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.42
21 2 0.08
22 8 0.31
23 5 0.19
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (22 bp):
AATTCTAAAAAAATTATATAAA
Found at i:22357424 original size:25 final size:27
Alignment explanation
Indices: 22357363--22357424 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 27
22357353 AACATTTTTT
* *
22357363 TTATAAATTTAAATCAATTTTCATATTT
1 TTATAAA-TTAAATCAATTTTAATATTC
22357391 TTA-ATAATT-AAT-AATTTTAATATTC
1 TTATA-AATTAAATCAATTTTAATATTC
22357416 TTATAAATT
1 TTATAAATT
22357425 TTCTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 18 0.60
26 4 0.13
27 3 0.10
28 5 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATAAATTAAATCAATTTTAATATTC
Found at i:22376448 original size:18 final size:18
Alignment explanation
Indices: 22376412--22376447 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
22376402 TTTAGAGCAC
*
22376412 TATAAAAAAATTCTAAAA
1 TATAAAAAAATCCTAAAA
22376430 TATAAGAAAAATCCTAAA
1 TATAA-AAAAATCCTAAA
22376448 TCTAATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (18 bp):
TATAAAAAAATCCTAAAA
Found at i:22376801 original size:32 final size:32
Alignment explanation
Indices: 22376759--22376820 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
22376749 AAAATGATTA
* * * *
22376759 AAAATTAGAAAAAAATATTTTAAAAAATAAGC
1 AAAATGAGAAAAAAAAACTATAAAAAATAAGC
22376791 AAAATGAGAAAAAAAAACTATAAAAAATAA
1 AAAATGAGAAAAAAAAACTATAAAAAATAA
22376821 AATATTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.19
Consensus pattern (32 bp):
AAAATGAGAAAAAAAAACTATAAAAAATAAGC
Found at i:22376851 original size:10 final size:10
Alignment explanation
Indices: 22376833--22376929 Score: 52
Period size: 9 Copynumber: 10.4 Consensus size: 10
22376823 TATTTAATAT
22376833 TAAAATTATA
1 TAAAATTATA
*
22376843 TAAACTTAT-
1 TAAAATTATA
22376852 TAAAATTATA
1 TAAAATTATA
*
22376862 -AAAA-TGTA
1 TAAAATTATA
22376870 -AAAATGT-TA
1 TAAAAT-TATA
*
22376879 TAAAAATATAA
1 TAAAATTAT-A
*
22376890 AAAAATCTA-A
1 TAAAAT-TATA
22376900 T-AAA-T-TA
1 TAAAATTATA
*
22376907 TAAAATTTTA
1 TAAAATTATA
22376917 TAAAATTA-A
1 TAAAATTATA
22376926 TAAA
1 TAAA
22376930 CATGCTCCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
7 3 0.04
8 10 0.15
9 24 0.35
10 24 0.35
11 5 0.07
12 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
TAAAATTATA
Found at i:22376928 original size:19 final size:19
Alignment explanation
Indices: 22376833--22376929 Score: 60
Period size: 19 Copynumber: 5.2 Consensus size: 19
22376823 TATTTAATAT
* * *
22376833 TAAAATTATATAAACTTAT
1 TAAAATTTTATAAAATTAA
*
22376852 TAAAATTATA-AAAATGT-A
1 TAAAATTTTATAAAAT-TAA
*
22376870 -AAAATGTTATAAAAATATAA
1 TAAAATTTTAT-AAAAT-TAA
* * *
22376890 AAAAATCTAAT-AAATT-A
1 TAAAATTTTATAAAATTAA
22376907 TAAAATTTTATAAAATTAA
1 TAAAATTTTATAAAATTAA
22376926 TAAA
1 TAAA
22376930 CATGCTCCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
17 16 0.26
18 10 0.16
19 26 0.43
20 1 0.02
21 8 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAATTTTATAAAATTAA
Found at i:22377699 original size:25 final size:27
Alignment explanation
Indices: 22377638--22377699 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 27
22377628 AAACATTTTT
* *
22377638 TTATAAATTTAAATCAATTTTCATATTT
1 TTATAAA-TTAAATCAATTTTAATATTC
22377666 TTA-ATAATT-AAT-AATTTTAATATTC
1 TTATA-AATTAAATCAATTTTAATATTC
22377691 TTATAAATT
1 TTATAAATT
22377700 TTCTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 18 0.60
26 4 0.13
27 3 0.10
28 5 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATAAATTAAATCAATTTTAATATTC
Found at i:22385963 original size:7 final size:7
Alignment explanation
Indices: 22385948--22385978 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
22385938 CCAAAGCATC
*
22385948 AAAGAGA
1 AAAGGGA
22385955 AAAGGGA
1 AAAGGGA
22385962 AAAGGGA
1 AAAGGGA
22385969 AAAGGGA
1 AAAGGGA
22385976 AAA
1 AAA
22385979 AATGGGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (7 bp):
AAAGGGA
Found at i:22395439 original size:23 final size:23
Alignment explanation
Indices: 22395409--22395455 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22395399 CCTGTGAGCT
22395409 TATTACATTTCGACCTAAATCCA
1 TATTACATTTCGACCTAAATCCA
22395432 TATTACATTTCGACCTAAATCCA
1 TATTACATTTCGACCTAAATCCA
22395455 T
1 T
22395456 TCAGACTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (23 bp):
TATTACATTTCGACCTAAATCCA
Found at i:22397626 original size:40 final size:40
Alignment explanation
Indices: 22397571--22397650 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
22397561 TGACCTTTTG
22397571 CATTATGCATCCTTTTTCATAAACAATTTGCATTTTTCCC
1 CATTATGCATCCTTTTTCATAAACAATTTGCATTTTTCCC
22397611 CATTATGCATCCTTTTTCATAAACAATTTGCATTTTTCCC
1 CATTATGCATCCTTTTTCATAAACAATTTGCATTTTTCCC
22397651 TCAAAACTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (40 bp):
CATTATGCATCCTTTTTCATAAACAATTTGCATTTTTCCC
Found at i:22403828 original size:13 final size:12
Alignment explanation
Indices: 22403791--22403829 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
22403781 ACACATATTG
22403791 AATATTTAATTA
1 AATATTTAATTA
22403803 AATATTTTAAATTA
1 AATA-TTT-AATTA
22403817 AATATTATAATTA
1 AATATT-TAATTA
22403830 TTTTGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.17
13 10 0.42
14 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AATATTTAATTA
Found at i:22408316 original size:6 final size:6
Alignment explanation
Indices: 22408305--22408332 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22408295 ACACGTGTAC
22408305 ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATAT
22408333 ATACACGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:22409613 original size:23 final size:24
Alignment explanation
Indices: 22409587--22409639 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
22409577 TATTATAATT
22409587 TATTATTT-TTAGT-TTAATTTAAA
1 TATTATTTCTTAGTATTAATTT-AA
22409610 TATT-TTTCTTAGTAAGTTAATTTAA
1 TATTATTTCTTAGT-A-TTAATTTAA
22409635 TATTA
1 TATTA
22409640 ATTGTTTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
22 3 0.12
23 9 0.36
25 6 0.24
26 7 0.28
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
TATTATTTCTTAGTATTAATTTAA
Found at i:22412955 original size:18 final size:18
Alignment explanation
Indices: 22412928--22412964 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22412918 TTGATTTTCA
*
22412928 AATTCAAATAACTCGAAT
1 AATTCAAATAAATCGAAT
*
22412946 AATTCGAATAAATCGAAT
1 AATTCAAATAAATCGAAT
22412964 A
1 A
22412965 TCAGACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:22413120 original size:21 final size:21
Alignment explanation
Indices: 22413096--22413138 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22413086 ACTCTCCCCA
22413096 TTTACTTTCCCCCCAAAATTT
1 TTTACTTTCCCCCCAAAATTT
* * *
22413117 TTTATTTTCCCCCTAAACTTT
1 TTTACTTTCCCCCCAAAATTT
22413138 T
1 T
22413139 ACTTCTCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTACTTTCCCCCCAAAATTT
Found at i:22415525 original size:15 final size:16
Alignment explanation
Indices: 22415505--22415534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22415495 TCTAAAATTA
22415505 TTTTTG-AGAAATAAG
1 TTTTTGAAGAAATAAG
22415520 TTTTTGAAGAAATAA
1 TTTTTGAAGAAATAA
22415535 TTAAGAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (16 bp):
TTTTTGAAGAAATAAG
Found at i:22416935 original size:15 final size:15
Alignment explanation
Indices: 22416886--22416935 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
22416876 TGTTTGATAA
*
22416886 ATTGAAAAATTAAAT
1 ATTGAAAAAATAAAT
* **
22416901 ATTAAAAAAATATCT
1 ATTGAAAAAATAAAT
*
22416916 GTTGAAAAAATAAAT
1 ATTGAAAAAATAAAT
22416931 ATTGA
1 ATTGA
22416936 GAGTGTGAAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (15 bp):
ATTGAAAAAATAAAT
Found at i:22420200 original size:19 final size:19
Alignment explanation
Indices: 22420168--22420206 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22420158 CAAAAATTAC
22420168 AAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAAT-TTTAT
*
22420188 AAAAATTTC-AAATTTTAT
1 AAAAAATTCAAAATTTTAT
22420206 A
1 A
22420207 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATTCAAAATTTTAT
Found at i:22422987 original size:15 final size:15
Alignment explanation
Indices: 22422963--22422996 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22422953 TCGATATAAC
*
22422963 TTGAAAAATTAAGTG
1 TTGAAAAATTAAGAG
*
22422978 TTGAATAATTAAGAG
1 TTGAAAAATTAAGAG
22422993 TTGA
1 TTGA
22422997 GTTTTCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (15 bp):
TTGAAAAATTAAGAG
Found at i:22441804 original size:12 final size:12
Alignment explanation
Indices: 22441781--22441816 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
22441771 TATGGAAAGC
22441781 ATTTTAATTTTAA
1 ATTTT-ATTTTAA
22441794 ATTTTATTTTAA
1 ATTTTATTTTAA
22441806 ATTTTTATTTT
1 A-TTTTATTTT
22441817 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTTTAA
Found at i:22442149 original size:26 final size:28
Alignment explanation
Indices: 22442105--22442165 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
22442095 TAAAATTTGA
*
22442105 TAAAAAAAAATCTGAG-CCCTTAAAAGT
1 TAAAAAAAAATCTGAGCCCCTTAAAAAT
*
22442132 TAAAAAAAAAT-TGGGCCCCTTAAAAAT
1 TAAAAAAAAATCTGAGCCCCTTAAAAAT
*
22442159 TAGAAAA
1 TAAAAAA
22442166 TAATATTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.21
Consensus pattern (28 bp):
TAAAAAAAAATCTGAGCCCCTTAAAAAT
Found at i:22445157 original size:20 final size:20
Alignment explanation
Indices: 22445129--22445172 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
22445119 AGGGACCAAC
* * *
22445129 AATTAGAAAGAATTGGATTA
1 AATTAGAAAAAATGGGATAA
*
22445149 AATTGGAAAAAATGGGATAA
1 AATTAGAAAAAATGGGATAA
22445169 AATT
1 AATT
22445173 TACACATAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.27
Consensus pattern (20 bp):
AATTAGAAAAAATGGGATAA
Found at i:22451005 original size:33 final size:35
Alignment explanation
Indices: 22450943--22451008 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
22450933 GATTTGAAAT
* * *
22450943 TTTTGAAGGTGAAGACCTTTTTTTTAACCTCAAAA
1 TTTTGAAGATGAAGACCTCTTTTTGAACCTCAAAA
22450978 TTTTGAAGATG-A-ACCTCTTTTTGAACCTCAA
1 TTTTGAAGATGAAGACCTCTTTTTGAACCTCAA
22451009 CTAATTGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 17 0.61
34 1 0.04
35 10 0.36
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (35 bp):
TTTTGAAGATGAAGACCTCTTTTTGAACCTCAAAA
Found at i:22461120 original size:21 final size:21
Alignment explanation
Indices: 22461093--22461246 Score: 134
Period size: 21 Copynumber: 7.3 Consensus size: 21
22461083 GTGTTTTACT
* * *
22461093 TTCTGTTTAGCCCTTTTGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* *
22461114 TTTTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTTCGAGC
22461135 TTCTGTTCAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* *
22461156 TTCTGTTCAACTCTTAT-GAGT
1 TTCTGTTCAGCTCTT-TCGAGC
* *
22461177 TTTTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* * *
22461198 TTCTGTTTAACTCTTAT-GAGT
1 TTCTGTTCAGCTCTT-TCGAGC
* *
22461219 TTCTATTAAGCTCTTAT-GAGC
1 TTCTGTTCAGCTCTT-TCGAGC
22461240 TTCTGTT
1 TTCTGTT
22461247 GGCATATTCA
Statistics
Matches: 107, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
21 106 0.99
22 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTTCGAGC
Found at i:22461184 original size:42 final size:42
Alignment explanation
Indices: 22461092--22461246 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
22461082 TGTGTTTTAC
* * * * * *
22461092 TTTCTGTTTAGCCCTTTTGAGCTTTTGTTCAGCTCTTACGAG
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
*
22461134 CTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* * *
22461176 TTTTTGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
22461218 TTTCTATTAAGCTCTTAT-GAGCTTCTGTT
1 TTTCTGTTCAGCTCTT-TCGAGCTTCTGTT
22461247 GGCATATTCA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
Found at i:22461185 original size:63 final size:63
Alignment explanation
Indices: 22461109--22461246 Score: 190
Period size: 63 Copynumber: 2.2 Consensus size: 63
22461099 TTAGCCCTTT
* *
22461109 TGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAGCTCTT-TCGAGCTTCTGTTCAA-CTCTTA
1 TGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTAT-GAGCTTCTATT-AAGCTCTTA
* * *
22461172 TGAGTTTTTGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTCTATTAAGCTCTTA
1 TGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGCTTCTATTAAGCTCTTA
*
22461235 TGAGCTTCTGTT
1 TGAGCTTTTGTT
22461247 GGCATATTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
62 2 0.03
63 63 0.95
64 1 0.02
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (63 bp):
TGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGCTTCTATTAAGCTCTTA
Found at i:22469610 original size:62 final size:61
Alignment explanation
Indices: 22469513--22469632 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 61
22469503 TATTTCTTTA
* *
22469513 CATATGTATAATTGAATCGAAATCAAAATTTCATGTATATATTTGAA-TTACAATCAAAATTT
1 CATATGTATAATTGAATCCAAATCAAAATTTCATGT-TAAATTTGAACTTA-AATCAAAATTT
*
22469575 CATATGTATAATT-ACA-CCAAATC-AAATTTCACATGTTAAATTTTAACTTAAATCAAAA
1 CATATGTATAATTGA-ATCCAAATCAAAATTT--CATGTTAAATTTGAACTTAAATCAAAA
22469633 CTAATGTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
60 6 0.12
61 23 0.45
62 22 0.43
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (61 bp):
CATATGTATAATTGAATCCAAATCAAAATTTCATGTTAAATTTGAACTTAAATCAAAATTT
Found at i:22470189 original size:23 final size:23
Alignment explanation
Indices: 22470159--22470203 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
22470149 TAGTGTAATT
22470159 AAATTGATTCCTACGTTAAGCAC
1 AAATTGATTCCTACGTTAAGCAC
22470182 AAATTGATTCCTACGTTAAGCA
1 AAATTGATTCCTACGTTAAGCA
22470204 TTGGATCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AAATTGATTCCTACGTTAAGCAC
Found at i:22477194 original size:29 final size:29
Alignment explanation
Indices: 22477135--22477201 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
22477125 CGATTTCACG
*
22477135 AAAAATC-GCCCATTCCGGTAAATAATTA
1 AAAAATCGGCCCATTCCGGTAAATAATAA
*
22477163 AAAAATCGGCCCATTTCGGTAAATTAA-AA
1 AAAAATCGGCCCATTCCGGTAAA-TAATAA
*
22477192 AAAAAACGGC
1 AAAAATCGGC
22477202 TTTCATTGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 7 0.21
29 24 0.71
30 3 0.09
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (29 bp):
AAAAATCGGCCCATTCCGGTAAATAATAA
Found at i:22479531 original size:5 final size:5
Alignment explanation
Indices: 22479523--22479557 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
22479513 TGGTGTGGTT
22479523 GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC
1 GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC
22479558 ATCTTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
GGGTC
Found at i:22492927 original size:5 final size:5
Alignment explanation
Indices: 22492917--22492943 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22492907 ATAATTTTTT
22492917 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
22492944 TCGAGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:22500921 original size:3 final size:3
Alignment explanation
Indices: 22500817--22500908 Score: 71
Period size: 3 Copynumber: 30.7 Consensus size: 3
22500807 CAATGTGTCC
* * * *
22500817 TCA TCA TCA CCA TCA CCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TCG
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
** * * *
22500865 TTG TCA TTCG TC- TCA TTGA -CC TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA -TCA TCA TCA -TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
22500909 GGCCTCATCA
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 2 0.03
3 64 0.91
4 4 0.06
ACGTcount: A:0.27, C:0.36, G:0.04, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:22508576 original size:18 final size:18
Alignment explanation
Indices: 22508553--22508677 Score: 178
Period size: 18 Copynumber: 6.9 Consensus size: 18
22508543 ACCGTTTACA
22508553 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
22508571 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
* *
22508589 GTACTATTCACATATATG
1 GTACTATTCACGTATACG
* *
22508607 GCACTATTCACATATACG
1 GTACTATTCACGTATACG
*
22508625 GTACTATTCACGTATACA
1 GTACTATTCACGTATACG
* *
22508643 GCACTATTCACGTATACT
1 GTACTATTCACGTATACG
*
22508661 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
22508678 AGTAGTTGGG
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 96 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:22520238 original size:21 final size:21
Alignment explanation
Indices: 22520212--22520252 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22520202 ATCTGCTCAA
* *
22520212 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
22520233 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
22520253 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:22526199 original size:129 final size:127
Alignment explanation
Indices: 22526064--22526358 Score: 371
Period size: 128 Copynumber: 2.3 Consensus size: 127
22526054 TCTATATTTG
* ** *
22526064 ATAAATATAATTATTTATATATGCAATATATAAACATGAAACAATGCTATATCAATAATTGTATT
1 ATAAATATAATTATTT-TATATGCAATATATAAACATAAAACAATAATATATAAATAATTGTATT
* *
22526129 TATAAAAATTGATTCAAATTAAAATTTT-ATATATAAAATTACACAAAATCAAATTTCAAATATA
65 T-TAAAAATTGAATCAAA-TAAAATTTTCATATATAAAATTACACAAAATCAAAATTCAAATATA
* * * *
22526193 ATAAATAAAATTATTTTTATATACAATATATAAACTTAAAATAATAATATATAAATAATTGTATT
1 ATAAATATAATTA-TTTTATATGCAATATATAAACATAAAACAATAATATATAAATAATTGTATT
* * * * *
22526258 TTTAAAATTGAATCAAATCAAATTTTCGTATATAAAATTATACAAAATTAAAATTCAAATATA
65 TTAAAAATTGAATCAAATAAAATTTTCATATATAAAATTACACAAAATCAAAATTCAAATATA
* * *
22526321 ATAAACATAACTA-TTCATATGCAATATATAAA-ATAAAA
1 ATAAATATAATTATTTTATATGCAATATATAAACATAAAA
22526359 TAAACACTTT
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
125 5 0.03
126 17 0.12
127 8 0.06
128 56 0.39
129 54 0.38
130 3 0.02
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (127 bp):
ATAAATATAATTATTTTATATGCAATATATAAACATAAAACAATAATATATAAATAATTGTATTT
TAAAAATTGAATCAAATAAAATTTTCATATATAAAATTACACAAAATCAAAATTCAAATATA
Found at i:22527150 original size:30 final size:30
Alignment explanation
Indices: 22527060--22527150 Score: 173
Period size: 30 Copynumber: 3.0 Consensus size: 30
22527050 ATCACGAGTA
22527060 GTTTCTGGGTTTTAAAGATAGATTTATACC
1 GTTTCTGGGTTTTAAAGATAGATTTATACC
*
22527090 ATTTCTGGGTTTTAAAGATAGATTTATACC
1 GTTTCTGGGTTTTAAAGATAGATTTATACC
22527120 GTTTCTGGGTTTTAAAGATAGATTTATACC
1 GTTTCTGGGTTTTAAAGATAGATTTATACC
22527150 G
1 G
22527151 ATCTCCTTGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (30 bp):
GTTTCTGGGTTTTAAAGATAGATTTATACC
Found at i:22532718 original size:23 final size:23
Alignment explanation
Indices: 22532688--22532733 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
22532678 TATCTAAGAT
22532688 TGCAAAATACTGAGGAACTATGG
1 TGCAAAATACTGAGGAACTATGG
*
22532711 TGCAAAATACTGAGGAATTATGG
1 TGCAAAATACTGAGGAACTATGG
22532734 ATCATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (23 bp):
TGCAAAATACTGAGGAACTATGG
Found at i:22540481 original size:35 final size:34
Alignment explanation
Indices: 22540430--22540495 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
22540420 AATCATATAC
*
22540430 AATAAAATTTAAATATTTT-TAAATTATATTCAT
1 AATAAAATTTAAATATTTTACAAATTATATTCAT
22540463 AATAAAATATCTAAATATTTTACAAATTATATT
1 AATAAAAT-T-TAAATATTTTACAAATTATATT
22540496 TAAATCAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 8 0.28
34 1 0.03
35 10 0.34
36 10 0.34
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (34 bp):
AATAAAATTTAAATATTTTACAAATTATATTCAT
Found at i:22544249 original size:22 final size:22
Alignment explanation
Indices: 22544222--22544264 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22544212 GAGTTATACA
22544222 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
***
22544244 ATAACAGTGAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
22544265 AGTAGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.14, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:22563569 original size:18 final size:18
Alignment explanation
Indices: 22563529--22563572 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22563519 AATTTTTATG
**
22563529 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
22563547 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
22563565 CTTGGGTT
1 ATTGGGTT
22563573 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:22564755 original size:18 final size:18
Alignment explanation
Indices: 22564732--22564774 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22564722 GTTTAAGGTG
22564732 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
22564750 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
22564768 TAATTAA
1 TAATTAA
22564775 AAACCTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:22573556 original size:17 final size:17
Alignment explanation
Indices: 22573534--22573569 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22573524 CTTCAACAAA
22573534 GATAAATTATTTGATTC
1 GATAAATTATTTGATTC
22573551 GATAAATTATTTGATTC
1 GATAAATTATTTGATTC
22573568 GA
1 GA
22573570 GTTTTCCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (17 bp):
GATAAATTATTTGATTC
Found at i:22581991 original size:3 final size:3
Alignment explanation
Indices: 22581978--22582009 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
22581968 GACAATCTGA
*
22581978 AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22582010 ATATTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22587398 original size:7 final size:7
Alignment explanation
Indices: 22587386--22587422 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22587376 GCTAAGCTAC
22587386 CACTTAT
1 CACTTAT
22587393 CACTTAT
1 CACTTAT
22587400 CACTTAT
1 CACTTAT
*
22587407 CACTTGT
1 CACTTAT
*
22587414 CACTGAT
1 CACTTAT
22587421 CA
1 CA
22587423 GATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:22587398 original size:57 final size:57
Alignment explanation
Indices: 22587334--22587574 Score: 316
Period size: 57 Copynumber: 4.3 Consensus size: 57
22587324 CTTACACGGA
* *
22587334 ATCACTTATCATTTATCTCTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
22587391 ATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
* * *
22587448 ATCGCTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
* * **
22587506 AT--C--AT---TTGTCACTTGTCACTGATCAGATAAGTGCAATTAAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
* *
22587557 ATCACTTGTCACTGATCA
1 ATCACTTATCACTTATCA
22587575 GAAATACTCA
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
51 44 0.27
53 1 0.01
54 2 0.01
55 1 0.01
56 1 0.01
57 98 0.60
58 17 0.10
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (57 bp):
ATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
Found at i:22591280 original size:17 final size:18
Alignment explanation
Indices: 22591248--22591283 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
22591238 AATCAGAGGA
22591248 GGGATTTTCCTTTGATTT
1 GGGATTTTCCTTTGATTT
*
22591266 GGGATTTT-TTTTGATTT
1 GGGATTTTCCTTTGATTT
22591283 G
1 G
22591284 TCATAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.06, G:0.25, T:0.58
Consensus pattern (18 bp):
GGGATTTTCCTTTGATTT
Found at i:22594568 original size:6 final size:7
Alignment explanation
Indices: 22594551--22594577 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22594541 GGGTTCGATG
22594551 AAAAAAT
1 AAAAAAT
22594558 AAAAAAT
1 AAAAAAT
22594565 AAAAAAT
1 AAAAAAT
22594572 AAAAAA
1 AAAAAA
22594578 GGGCTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:22597195 original size:34 final size:34
Alignment explanation
Indices: 22597152--22597218 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
22597142 ACCTCGGGAG
*
22597152 TATACCAGAATATCATCAATAAACACTACAACAA
1 TATACCAGAATATCATCAATAAACACCACAACAA
22597186 TATACCAGAATATCATCAATAAACACCACAACA
1 TATACCAGAATATCATCAATAAACACCACAACA
22597219 TATCTATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.52, C:0.25, G:0.03, T:0.19
Consensus pattern (34 bp):
TATACCAGAATATCATCAATAAACACCACAACAA
Found at i:22600582 original size:25 final size:25
Alignment explanation
Indices: 22600550--22600617 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
22600540 CTCTCAAGCC
** *
22600550 ATATAACGGGAAGCTCATGTGAGTT
1 ATATAACGGGAAGCTCATCCGAGAT
*
22600575 ATATAACGGGAAGCTTATCCGAGAT
1 ATATAACGGGAAGCTCATCCGAGAT
* *
22600600 GTATAACAGGAAGCTCAT
1 ATATAACGGGAAGCTCAT
22600618 AAAAGCCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATCCGAGAT
Found at i:22603027 original size:24 final size:23
Alignment explanation
Indices: 22603000--22603046 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
22602990 GTCATTTCAA
22603000 ATTTTATCTATGTT-TTATTTATTT
1 ATTTTATCTA-GTTATTA-TTATTT
*
22603024 ATTTTATGTAGTTATTATTATTT
1 ATTTTATCTAGTTATTATTATTT
22603047 TGTTCTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (23 bp):
ATTTTATCTAGTTATTATTATTT
Found at i:22605982 original size:165 final size:165
Alignment explanation
Indices: 22605701--22606024 Score: 585
Period size: 165 Copynumber: 2.0 Consensus size: 165
22605691 ATTGTAAAAA
*
22605701 TGTGAAATTGTAGAAAAATATGGAATTTTTATGATGACAAGGACTAAATTGTTAAACTTGAGAAA
1 TGTGAAATTGTAGAAAAATATGGAATTTTTATGATGACAAGGACTAAATTGTCAAACTTGAGAAA
* *
22605766 ATATGTGGATTAAATAGTAGAAGTGAAATATATAGAAATTAATACGTGAAACAATATATTAATAT
66 ATATGTGGATAAAATAATAGAAGTGAAATATATAGAAATTAATACGTGAAACAATATATTAATAT
22605831 AAAATATGTGATTAAAGTGTAACAAGAAAGGAAAC
131 AAAATATGTGATTAAAGTGTAACAAGAAAGGAAAC
*
22605866 TGTGAAATTGTAGAAAAATATGGAATTTTTATGATGACAATGACTAAATTGTCAAACTTGAGAAA
1 TGTGAAATTGTAGAAAAATATGGAATTTTTATGATGACAAGGACTAAATTGTCAAACTTGAGAAA
* * *
22605931 ATATGTGGATAAAATAATATAAGTGAAATATATAGAAATTGATATGTGAAACAATATATTAATAT
66 ATATGTGGATAAAATAATAGAAGTGAAATATATAGAAATTAATACGTGAAACAATATATTAATAT
22605996 AAAATATGTGATTAAAGTGTAACAAGAAA
131 AAAATATGTGATTAAAGTGTAACAAGAAA
22606025 TAAAAATGAT
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (165 bp):
TGTGAAATTGTAGAAAAATATGGAATTTTTATGATGACAAGGACTAAATTGTCAAACTTGAGAAA
ATATGTGGATAAAATAATAGAAGTGAAATATATAGAAATTAATACGTGAAACAATATATTAATAT
AAAATATGTGATTAAAGTGTAACAAGAAAGGAAAC
Found at i:22617855 original size:18 final size:18
Alignment explanation
Indices: 22617828--22617871 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22617818 GTAAATAAAA
*
22617828 TAAAGTAAATAAAAGTAAC
1 TAAAG-AAATAAAAGAAAC
22617847 TAAAGAAATAAAAGAAAC
1 TAAAGAAATAAAAGAAAC
*
22617865 AAAAGAA
1 TAAAGAA
22617872 CAGCAGAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (18 bp):
TAAAGAAATAAAAGAAAC
Found at i:22618976 original size:40 final size:39
Alignment explanation
Indices: 22618901--22619047 Score: 204
Period size: 39 Copynumber: 3.7 Consensus size: 39
22618891 CAAGCACTTA
* * *
22618901 TGTGCCGACTACTATTACTGTTACCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGATTCGACACTTTG
* *
22618940 TGTGTCGAATACTGTTACTGTTAACCGATTCAACACTTTA
1 TGTGTCGAATACTGTTACTGTT-ACCGATTCGACACTTTG
* *
22618980 TGTGTCGAATACTGTTACTGTTTCCGATTTGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGATTCGACACTTTG
* *
22619019 TGTGTCGAATACTGTTACCGTTACTGATT
1 TGTGTCGAATACTGTTACTGTTACCGATT
22619048 ACTGTTTACT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 58 0.61
40 37 0.39
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACCGATTCGACACTTTG
Found at i:22619029 original size:79 final size:79
Alignment explanation
Indices: 22618890--22619041 Score: 234
Period size: 79 Copynumber: 1.9 Consensus size: 79
22618880 GGCTTACTGA
*
22618890 TCAAGCACTTATGTGCCGACTACTATTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
1 TCAAGCACTTATGTGCCGAATACTATTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
*
22618955 TACTGTTAACCGAT
66 TACCGTTAACCGAT
* * * *
22618969 TCAA-CACTTTATGTGTCGAATACTGTTACTGTTTCCGATTTGACACTTTGTGTGTCGAATACTG
1 TCAAGCAC-TTATGTGCCGAATACTATTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTG
22619033 TTACCGTTA
65 TTACCGTTA
22619042 CTGATTACTG
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 3 0.05
79 63 0.95
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (79 bp):
TCAAGCACTTATGTGCCGAATACTATTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
TACCGTTAACCGAT
Found at i:22625324 original size:18 final size:19
Alignment explanation
Indices: 22625297--22625338 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
22625287 TCAAAACCAA
22625297 ATTT-TAAAAA-TCCAAAT
1 ATTTATAAAAATTCCAAAT
22625314 ATTTATAAAAATTCCAAAT
1 ATTTATAAAAATTCCAAAT
22625333 -TTTATA
1 ATTTATA
22625339 TCTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 12 0.52
19 7 0.30
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTATAAAAATTCCAAAT
Found at i:22626240 original size:98 final size:98
Alignment explanation
Indices: 22626066--22626262 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
22626056 GTACAATAAA
* *
22626066 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATT
* *
22626131 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
22626164 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATT
22626229 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
22626262 A
1 A
22626263 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:22626991 original size:16 final size:16
Alignment explanation
Indices: 22626959--22626993 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22626949 AAAATATAGG
* *
22626959 AAAATATTAGTTTAAA
1 AAAATATTAGCTGAAA
22626975 AAAATATTAGCTGAAA
1 AAAATATTAGCTGAAA
22626991 AAA
1 AAA
22626994 TAAGTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.29
Consensus pattern (16 bp):
AAAATATTAGCTGAAA
Found at i:22627628 original size:19 final size:19
Alignment explanation
Indices: 22627604--22627695 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
22627594 AATCATATAT
22627604 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
22627623 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
22627642 TTTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
22627661 TCTTTGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22627680 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22627696 CTCAAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22627653 original size:38 final size:38
Alignment explanation
Indices: 22627581--22627695 Score: 140
Period size: 38 Copynumber: 2.9 Consensus size: 38
22627571 AAATTAAATC
*
22627581 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATATT-TAAGATTGCATATCATA
*
22627623 TCTAAGATTATATATCATATTTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATTTAAGATTGCATATCATA
** * *
22627661 TCTTTGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATTTAAGATTGCATATC
22627696 CTCAAAAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
38 47 0.71
39 5 0.08
41 4 0.06
42 10 0.15
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTACATATCATATTTAAGATTGCATATCATA
Found at i:22629343 original size:20 final size:20
Alignment explanation
Indices: 22629318--22629360 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
22629308 AAAATAAACA
**
22629318 TATAATTATTCATTTAATAT
1 TATAATTATTCAAATAATAT
22629338 TATAATTATTCAAATAATAT
1 TATAATTATTCAAATAATAT
22629358 TAT
1 TAT
22629361 TTGAATAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATTCAAATAATAT
Found at i:22633591 original size:23 final size:21
Alignment explanation
Indices: 22633545--22633599 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
22633535 AACAAAAGTT
*
22633545 TAATTACAA-TAATAATGATA
1 TAATTACAATTAATAATCATA
22633565 -AATTACAATTAATATATCCATA
1 TAATTACAATTAATA-AT-CATA
*
22633587 TAATTAAAATTAA
1 TAATTACAATTAA
22633600 AATTAATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 8 0.28
20 5 0.17
21 2 0.07
22 3 0.10
23 11 0.38
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATTACAATTAATAATCATA
Found at i:22643376 original size:49 final size:49
Alignment explanation
Indices: 22643318--22643419 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
22643308 CAAGCTATTA
22643318 AAATGATGAAATTACATTTTAACTTTTATAATAATTAATTCTAACCCCC
1 AAATGATGAAATTACATTTTAACTTTTATAATAATTAATTCTAACCCCC
22643367 AAATGATGAAATTACATTTTAACTTTTATAATAATTAATTCTAACCCCC
1 AAATGATGAAATTACATTTTAACTTTTATAATAATTAATTCTAACCCCC
22643416 AAAT
1 AAAT
22643420 TTTCTATTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (49 bp):
AAATGATGAAATTACATTTTAACTTTTATAATAATTAATTCTAACCCCC
Found at i:22645396 original size:185 final size:185
Alignment explanation
Indices: 22645084--22645456 Score: 737
Period size: 185 Copynumber: 2.0 Consensus size: 185
22645074 CGACTCAGAG
*
22645084 AGTTACTTCACATTGAACACGTATGGTCTATGTCATTTAGAACACGTGCTAGTCTTTGCAGCCTT
1 AGTTACTTCACATTGAACACGTAGGGTCTATGTCATTTAGAACACGTGCTAGTCTTTGCAGCCTT
22645149 TGTTTTTCAACCCACAGCATCTATAAACTCCAACCCCCAAATTCAATTCCCCATATCTCTATCCC
66 TGTTTTTCAACCCACAGCATCTATAAACTCCAACCCCCAAATTCAATTCCCCATATCTCTATCCC
22645214 ATCTCCTGTAAGAGGGACTTCAATGCTCTGAATCATTGGGTTTGGAGTATTGGGA
131 ATCTCCTGTAAGAGGGACTTCAATGCTCTGAATCATTGGGTTTGGAGTATTGGGA
22645269 AGTTACTTCACATTGAACACGTAGGGTCTATGTCATTTAGAACACGTGCTAGTCTTTGCAGCCTT
1 AGTTACTTCACATTGAACACGTAGGGTCTATGTCATTTAGAACACGTGCTAGTCTTTGCAGCCTT
22645334 TGTTTTTCAACCCACAGCATCTATAAACTCCAACCCCCAAATTCAATTCCCCATATCTCTATCCC
66 TGTTTTTCAACCCACAGCATCTATAAACTCCAACCCCCAAATTCAATTCCCCATATCTCTATCCC
22645399 ATCTCCTGTAAGAGGGACTTCAATGCTCTGAATCATTGGGTTTGGAGTATTGGGA
131 ATCTCCTGTAAGAGGGACTTCAATGCTCTGAATCATTGGGTTTGGAGTATTGGGA
22645454 AGT
1 AGT
22645457 GTATAAATCT
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 187 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (185 bp):
AGTTACTTCACATTGAACACGTAGGGTCTATGTCATTTAGAACACGTGCTAGTCTTTGCAGCCTT
TGTTTTTCAACCCACAGCATCTATAAACTCCAACCCCCAAATTCAATTCCCCATATCTCTATCCC
ATCTCCTGTAAGAGGGACTTCAATGCTCTGAATCATTGGGTTTGGAGTATTGGGA
Found at i:22646070 original size:20 final size:17
Alignment explanation
Indices: 22646022--22646076 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
22646012 ATATGTTATT
22646022 TTTATATATTATAATAA
1 TTTATATATTATAATAA
22646039 TTTAT-TACTTATAAAATTAA
1 TTTATATA-TTAT--AA-TAA
*
22646059 TTTATATATTATTATAA
1 TTTATATATTATAATAA
22646076 T
1 T
22646077 ATAAACATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 2 0.06
17 13 0.41
18 1 0.03
19 2 0.06
20 12 0.38
21 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATATATTATAATAA
Found at i:22646965 original size:15 final size:17
Alignment explanation
Indices: 22646940--22646972 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22646930 TTAGATTAGT
22646940 TTTTATTTAAAA-ATAA
1 TTTTATTTAAAATATAA
22646956 TTTT-TTTAAAATATAA
1 TTTTATTTAAAATATAA
22646972 T
1 T
22646973 ACATTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATTTAAAATATAA
Found at i:22647065 original size:21 final size:21
Alignment explanation
Indices: 22647040--22647105 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
22647030 TATATTAAAA
22647040 AAATAATATCATAAATATAAT
1 AAATAATATCATAAATATAAT
* * * *
22647061 AAAT-ATTTTAT-TATATTAAA
1 AAATAATATCATAAATA-TAAT
* *
22647081 AAATAATACCATAAATATAGT
1 AAATAATATCATAAATATAAT
22647102 AAAT
1 AAAT
22647106 GTTTTATTGT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 14 0.44
22 3 0.09
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATAATATCATAAATATAAT
Found at i:22647094 original size:41 final size:41
Alignment explanation
Indices: 22647029--22647121 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 41
22647019 TTAAAAATAT
*
22647029 TTATATTAAAAAAATAATATCATAAATATAATAAATATTTTA
1 TTATATT-AAAAAATAATACCATAAATATAATAAATATTTTA
* *
22647071 TTATATTAAAAAATAATACCATAAATATAGTAAATGTTTTA
1 TTATATTAAAAAATAATACCATAAATATAATAAATATTTTA
*
22647112 TTGTATTAAA
1 TTATATTAAA
22647122 TATAATTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 40 0.85
42 7 0.15
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (41 bp):
TTATATTAAAAAATAATACCATAAATATAATAAATATTTTA
Found at i:22651575 original size:42 final size:42
Alignment explanation
Indices: 22651524--22651679 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
22651514 TAGAGAAAAA
*
22651524 CGCCACTGAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAG
1 CGCCGCTGAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAG
* * *
22651566 CGTCGCTGAAGAATATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTGAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAG
* * * *
22651608 CGCCGCTGAAGAACATGTTCTTCAGCGGCGTTTTTCTATAAG
1 CGCCGCTGAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAG
* * * *
22651650 TGCCGCTAAAGAACATGTTCTTTAACGGCG
1 CGCCGCTGAAGAACATGGTCTTTAGCGGCG
22651680 CTTTGTATAA
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 100 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (42 bp):
CGCCGCTGAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAG
Found at i:22651758 original size:43 final size:41
Alignment explanation
Indices: 22651521--22651770 Score: 135
Period size: 42 Copynumber: 5.9 Consensus size: 41
22651511 GCTTAGAGAA
* * * * *
22651521 AAACGCCACTGAAGAACATGGTCTTTAGCGGCGTTTTTAT-C
1 AAACGCCGCT-AAGAACATGTTATTTAGCGGCCTTTTTTTAC
* * * * * *
22651562 TAAGCGTCGCTGAAGAATATGGTCTTTAGCGGCGTTTTTTT-C
1 -AAACGCCGCT-AAGAACATGTTATTTAGCGGCCTTTTTTTAC
* * * * * *
22651604 TAAGCGCCGCTGAAGAACATGTTCTTCAGCGGCGTTTTTCTAT
1 -AAACGCCGCT-AAGAACATGTTATTTAGCGGCCTTTTTTTAC
** * * * * *
22651647 AAGTGCCGCTAAAGAACATGTTCTTTAACGGCGCTTTGTATAA
1 AAACGCCGCT-AAGAACATGTTATTTAGCGGC-CTTTTTTTAC
* * **
22651690 AAACGCCACTAGAGATCATAATATTTAGCGGCTCTTTTTTTAC
1 AAACGCCGCTA-AGAACATGTTATTTAGCGGC-CTTTTTTTAC
22651733 AAACGCCGCTACAGAACATGTTATTTAGCGGCGCTTTT
1 AAACGCCGCTA-AGAACATGTTATTTAGCGGC-CTTTT
22651771 GTACAAAAAC
Statistics
Matches: 168, Mismatches: 37, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
42 101 0.60
43 67 0.40
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
AAACGCCGCTAAGAACATGTTATTTAGCGGCCTTTTTTTAC
Found at i:22652198 original size:21 final size:21
Alignment explanation
Indices: 22652151--22652201 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22652141 TTCTTTTGAA
* *
22652151 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTACAG
*
22652172 CCTCTGCTTCCCTCGCTACCG
1 CCTCTGCTTCCCTCGCTACAG
*
22652193 CGTCTGCTT
1 CCTCTGCTT
22652202 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.45, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTACAG
Found at i:22669314 original size:7 final size:7
Alignment explanation
Indices: 22669302--22669335 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
22669292 AACAAATTTC
*
22669302 ATTTTGG
1 ATTTTGA
22669309 ATTTTGA
1 ATTTTGA
22669316 ATTTTGA
1 ATTTTGA
*
22669323 ATTTTAA
1 ATTTTGA
22669330 ATTTTG
1 ATTTTG
22669336 GTATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
ATTTTGA
Found at i:22669912 original size:25 final size:23
Alignment explanation
Indices: 22669871--22669923 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 23
22669861 TTTCTTTCCA
22669871 TTTTCTCTTTTCTTTTCTTT-TT
1 TTTTCTCTTTTCTTTTCTTTATT
22669893 TATTTCTCTCTTTCTCTTTCTTTATT
1 T-TTTCTCT-TTTCT-TTTCTTTATT
22669919 TTTTC
1 TTTTC
22669924 CTTCACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 1 0.04
23 7 0.26
24 5 0.19
25 11 0.41
26 3 0.11
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTCTCTTTTCTTTTCTTTATT
Found at i:22672194 original size:44 final size:43
Alignment explanation
Indices: 22672134--22672219 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
22672124 ATTGTAGTAA
* *
22672134 AATAGAAGTTGCGATAATAATATATTTAAAAATAATTACAATTT
1 AATAGAAGTTGCGATAAGAATACATTT-AAAATAATTACAATTT
*
22672178 AATAGAAGTT-CTGATAAGAATACATTTAAAATAATTATAATT
1 AATAGAAGTTGC-GATAAGAATACATTTAAAATAATTACAATT
22672220 CCATTGACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 15 0.39
44 23 0.61
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (43 bp):
AATAGAAGTTGCGATAAGAATACATTTAAAATAATTACAATTT
Found at i:22711021 original size:17 final size:17
Alignment explanation
Indices: 22710999--22711032 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22710989 ATCCACTAAT
*
22710999 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22711016 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22711033 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22715661 original size:17 final size:17
Alignment explanation
Indices: 22715639--22715672 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22715629 ATCCACTAAT
*
22715639 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
22715656 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
22715673 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:22717222 original size:22 final size:22
Alignment explanation
Indices: 22717194--22717251 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
22717184 AAGTAAATAT
22717194 ATATAATAAAATAAAAAAGTAA
1 ATATAATAAAATAAAAAAGTAA
*
22717216 ATATAATAAAATAAATAAGTAA
1 ATATAATAAAATAAAAAAGTAA
22717238 ATGA-AAT-AAATAAA
1 AT-ATAATAAAATAAA
22717252 GAAAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 7 0.21
22 26 0.76
23 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (22 bp):
ATATAATAAAATAAAAAAGTAA
Found at i:22717233 original size:4 final size:4
Alignment explanation
Indices: 22717187--22717251 Score: 51
Period size: 4 Copynumber: 15.0 Consensus size: 4
22717177 AACATTTAAG
* *
22717187 TAAA TATA TATAA TAAAA TAAA -AAA GTAAA TATAA TAAAA TAAA TAAG
1 TAAA TAAA TA-AA T-AAA TAAA TAAA -TAAA TA-AA T-AAA TAAA TAAA
22717235 TAAA TGAAA TAAA TAAA
1 TAAA T-AAA TAAA TAAA
22717252 GAAAAGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
3 3 0.06
4 27 0.54
5 18 0.36
6 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:22717249 original size:26 final size:24
Alignment explanation
Indices: 22717183--22717251 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 24
22717173 CTTTAACATT
22717183 TAAGTAAATATATATAATAAAATAAA
1 TAAGTAAATA-ATA-AATAAAATAAA
*
22717209 AAAGTAAAT-AT-AATAAAATAAA
1 TAAGTAAATAATAAATAAAATAAA
22717231 TAAGTAAATGAAATAAATAAA
1 TAAGTAAAT--AATAAATAAA
22717252 GAAAAGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 19 0.51
24 2 0.05
25 2 0.05
26 14 0.38
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (24 bp):
TAAGTAAATAATAAATAAAATAAA
Found at i:22719428 original size:89 final size:89
Alignment explanation
Indices: 22719325--22719505 Score: 326
Period size: 89 Copynumber: 2.0 Consensus size: 89
22719315 TACTTTAACT
* ** *
22719325 AATAAAAGTGTATTTTAAAAATTCACATGTAAATGTACGTAAAAAGCAAATTAAAAATATATATT
1 AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACAAAAAAAACAAATTAAAAATATATATT
22719390 TATTTTTATTGATATTATACTTTA
66 TATTTTTATTGATATTATACTTTA
22719414 AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACAAAAAAAACAAATTAAAAATATATATT
1 AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACAAAAAAAACAAATTAAAAATATATATT
22719479 TATTTTTATTGATATTATACTTTA
66 TATTTTTATTGATATTATACTTTA
22719503 AAT
1 AAT
22719506 TACATATATG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (89 bp):
AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACAAAAAAAACAAATTAAAAATATATATT
TATTTTTATTGATATTATACTTTA
Found at i:22724341 original size:899 final size:894
Alignment explanation
Indices: 22722608--22724407 Score: 3151
Period size: 899 Copynumber: 2.0 Consensus size: 894
22722598 GTCGATGCCA
*
22722608 ATCAAATTAAGACTCAATCGGCTTTTATATCAATTTTTTAAATATATTTATTACATAATTATTTT
1 ATCAAATTAAGACTCAATCGGCTTTTATATAAATTTTTTAAATATATTTATTACATAATTATTTT
* *
22722673 TGTTACCATCATCATAGATAGACTTGATCATGGGCCAGGCCACCCGTCCCCAACCCAGAACTCAG
66 TATTACCATCATCATAGATAGACTTGATCATGAGCCAGGCCACCCGTCCCCAACCCAGAACTCAG
*
22722738 CTTGGTCCAACCCGTCCCCATCATCATTATTTTTTTTGGCCTGCTCTTGGGCCTATACTTGATCA
131 CTTGGTCCAACCCGTCCCCATCATCATTATTTTTTTTGGCCTGCCCTTGGGCCTATACTTGATCA
* * *
22722803 TATATGCTCTTCTTGACATAATTCCTAGAACTATCCATAGCCCCTCTCCAATCCAATCCATAAAT
196 TATATGCTATTCTTGACACAATTCCTAGAACTATCCATAGCCCATCTCCAATCCAATCCATAAAT
*
22722868 AGGAGGATAATACGCTTTAACATACTCAGACTCACGTCCTCCTGCATTGGCAATAATGTTCATGT
261 AGGAGGATAATACGCTTTAACATACTCAAACTCACGTCCTCCTGCATTGGCAATAATGTTCATGT
22722933 CAATCGAGTTATGACTCAATTGACAACTATTTAAGTATAAAGATTTTTTATATATATATTTTCAA
326 CAATCGAGTTATGACTCAATTGACAACTATTTAAGTATAAAGATTTTTTATATATATATTTTCAA
22722998 TATTTTGGGAAATATTTATTTTAATATTTTTAGTGTATTTGATGTATTATATTTTTTAAATTTAT
391 TATTTTGGGAAATATTTATTTTAATATTTTTAGTGTATTTGATGTATTATATTTTTTAAATTTAT
* ** * * *
22723063 TTTTATATAAAAAAATTAATACATGCGGGCCAAGTCGAACTCGAATTTAGCAATTTTAATTCAGA
456 ATAAAAATAAAAAAATTAATACAGGCGGACCAAGTCGAACTCGAATTTAGCAATTTTAATTCAGA
22723128 TTGAGCTTGGGCAGAAATTTAAGTTCAATTTTCAAACCGAACCTAAAAATTAAGACTAAAATTTT
521 TTGAGCTTGGGCAGAAATTTAAGTTCAATTTTCAAACCGAACCTAAAAATTAAGACTAAAATTTT
* *
22723193 ACATTGACCCAATCTGATCTATGATAAAGTCCAATCATAAATACACCTTAATTTAATATATCCTA
586 ACATCGACCCAATCTAATCTATGATAAAGTCCAATCATAAATACACCTTAATTTAATATATCCTA
22723258 TACCCCTAATCCAATATTCTCACTGAAATCCAAATTAGAAGAATTTCCGTTGCTGCAAGAATTCA
651 TACCCCTAATCCAATATTCTCACTGAAATCCAAATTAGAAGAATTTCCGTTGCTGCAAGAATTCA
*
22723323 TAAGACCGCAACTACCACTGCAGTTGGTACTCGTCCTATCATAGAATAATTAGTTGATGGTAACT
716 TAAGACCGCAACCACCACTGCAGTTGGTACTCGTCCTATCATAGAATAATTAGTTGATGGTAACT
*
22723388 TTCATTAATTCTAAAAGCGAGATTAAATAATTGTTATGTATTTTTAATTGATGTTTTAAAAAAGA
781 TTCATTAATTCTAAAAGCGAGATTAAATAACTGTTATGTATTTTTAATTGATGTTTTAAAAAAGA
* *
22723453 ACTAAATAAAACATATAATTTTAAAATTTAAAAACTCTTTAGTCAATTT
846 ACTAAATAAAACATACAATTTTAAAATTTAAAAACTCTTTAGTAAATTT
*
22723502 ATCAAATTAAGACTCAATCGGTTTTTATATAAATTTTTTAAATATATTTATTACATAATTATTTT
1 ATCAAATTAAGACTCAATCGGCTTTTATATAAATTTTTTAAATATATTTATTACATAATTATTTT
* *
22723567 TATTACCATCATCATAGATAGACTTGATCATGAGCCAGGCCACCTGTCCCCAACTCAGAACTCAG
66 TATTACCATCATCATAGATAGACTTGATCATGAGCCAGGCCACCCGTCCCCAACCCAGAACTCAG
* *
22723632 CTTGGTTCAACCCGT-CCCATCGTCATTA-TTTTTTTGGCCTGGTCCAACCCAAATT-GGCCTAT
131 CTTGGTCCAACCCGTCCCCATCATCATTATTTTTTTTGGCCT-G-----CCC---TTGGGCCTAT
*
22723694 ACTTGATCATATATGCTATTCTTGACACAATTTCTAGAACTATCCATAGCCCATCTCCAATCCAA
187 ACTTGATCATATATGCTATTCTTGACACAATTCCTAGAACTATCCATAGCCCATCTCCAATCCAA
22723759 TCCATAAATAGGAGGATAATACGCTTTAACATACTCAAACTCACGTCCTCCTGCATTGGCAATAA
252 TCCATAAATAGGAGGATAATACGCTTTAACATACTCAAACTCACGTCCTCCTGCATTGGCAATAA
*
22723824 TGTTCATGTCAATCGAGTTATGGCTCAATTGACAACTATTTAAGTATAAAGATTTTTT-TATATA
317 TGTTCATGTCAATCGAGTTATGACTCAATTGACAACTATTTAAGTATAAAGATTTTTTATATATA
*
22723888 TATTTTCAATTTTTTGGGAAATATTTATTTTAATATTTTTAGTGTATTTGATGTATTATATTTTT
382 TATTTTCAATATTTTGGGAAATATTTATTTTAATATTTTTAGTGTATTTGATGTATTATATTTTT
**
22723953 TAAATTTATATAAAAATAAAAATTTTAATACAGGCGGACCAAGTCGAACTCGAATTTAGCAATTT
447 TAAATTTATATAAAAATAAAAAAATTAATACAGGCGGACCAAGTCGAACTCGAATTTAGCAATTT
* * *
22724018 TAATTCGGATTGAGCTTGGGCAGAATTTTAAGTTCAATTTTCAAGCCGAACCTAAAAATTAAGAC
512 TAATTCAGATTGAGCTTGGGCAGAAATTTAAGTTCAATTTTCAAACCGAACCTAAAAATTAAGAC
*
22724083 TAAAATTTTACATCGACCCAA-CTTAATCTATGATCAAGTCCAATCATAAATACACCTTAATTTA
577 TAAAATTTTACATCGACCCAATC-TAATCTATGATAAAGTCCAATCATAAATACACCTTAATTTA
*
22724147 ATATATCCTATACCCCTAATCCAATATTCTCACTGAAATCCAATTTAGAAGAATTTCCGTTGCTG
641 ATATATCCTATACCCCTAATCCAATATTCTCACTGAAATCCAAATTAGAAGAATTTCCGTTGCTG
22724212 CAAGAATTCATAAGACCGCAACCACCACTGCAGTTGGTACTCGTCCTATCATAGAATAATTAGTT
706 CAAGAATTCATAAGACCGCAACCACCACTGCAGTTGGTACTCGTCCTATCATAGAATAATTAGTT
22724277 GATGGTAACTTTCATTAATTCTAAAAGCGAGATTAAATAACTGTTATGTATTTTTAATTGATGTT
771 GATGGTAACTTTCATTAATTCTAAAAGCGAGATTAAATAACTGTTATGTATTTTTAATTGATGTT
*
22724342 TTAAAAAAGAACTAAATAAAACATACAATTTTAAAATTTAAAAACTCTTTTGTAAATTT
836 TTAAAAAAGAACTAAATAAAACATACAATTTTAAAATTTAAAAACTCTTTAGTAAATTT
22724401 ATCAAAT
1 ATCAAAT
22724408 AATATTTATA
Statistics
Matches: 860, Mismatches: 36, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
892 12 0.01
893 13 0.02
894 138 0.16
898 3 0.00
899 503 0.58
900 189 0.22
901 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (894 bp):
ATCAAATTAAGACTCAATCGGCTTTTATATAAATTTTTTAAATATATTTATTACATAATTATTTT
TATTACCATCATCATAGATAGACTTGATCATGAGCCAGGCCACCCGTCCCCAACCCAGAACTCAG
CTTGGTCCAACCCGTCCCCATCATCATTATTTTTTTTGGCCTGCCCTTGGGCCTATACTTGATCA
TATATGCTATTCTTGACACAATTCCTAGAACTATCCATAGCCCATCTCCAATCCAATCCATAAAT
AGGAGGATAATACGCTTTAACATACTCAAACTCACGTCCTCCTGCATTGGCAATAATGTTCATGT
CAATCGAGTTATGACTCAATTGACAACTATTTAAGTATAAAGATTTTTTATATATATATTTTCAA
TATTTTGGGAAATATTTATTTTAATATTTTTAGTGTATTTGATGTATTATATTTTTTAAATTTAT
ATAAAAATAAAAAAATTAATACAGGCGGACCAAGTCGAACTCGAATTTAGCAATTTTAATTCAGA
TTGAGCTTGGGCAGAAATTTAAGTTCAATTTTCAAACCGAACCTAAAAATTAAGACTAAAATTTT
ACATCGACCCAATCTAATCTATGATAAAGTCCAATCATAAATACACCTTAATTTAATATATCCTA
TACCCCTAATCCAATATTCTCACTGAAATCCAAATTAGAAGAATTTCCGTTGCTGCAAGAATTCA
TAAGACCGCAACCACCACTGCAGTTGGTACTCGTCCTATCATAGAATAATTAGTTGATGGTAACT
TTCATTAATTCTAAAAGCGAGATTAAATAACTGTTATGTATTTTTAATTGATGTTTTAAAAAAGA
ACTAAATAAAACATACAATTTTAAAATTTAAAAACTCTTTAGTAAATTT
Found at i:22726660 original size:50 final size:50
Alignment explanation
Indices: 22726609--22726708 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
22726599 AAGATTCAAA
* * * *
22726609 TTTTTAGTTCTAGAATCTTCACTTCCACAATCAAACTTCCCAATTATAAAT
1 TTTTTA-TTCTAGAATATTCACTTACACAATCAAACCTCCAAATTATAAAT
* *
22726660 TTTTTATTTTAGAATATTCACTTACACAGTCAAACCTCCAAATTATAAA
1 TTTTTATTCTAGAATATTCACTTACACAATCAAACCTCCAAATTATAAA
22726709 AAAAAATAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 37 0.86
51 6 0.14
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (50 bp):
TTTTTATTCTAGAATATTCACTTACACAATCAAACCTCCAAATTATAAAT
Found at i:22728451 original size:31 final size:31
Alignment explanation
Indices: 22728388--22728451 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
22728378 AGTCTACTAT
*
22728388 CTTAAATAAAAACTTTAGAATAGTTCTTTGA
1 CTTAAATAAAAACTTTAGAATACTTCTTTGA
* * *
22728419 CTTAAATGAAAATTTTGGAATACTT-TTATGA
1 CTTAAATAAAAACTTTAGAATACTTCTT-TGA
22728450 CT
1 CT
22728452 ATTTTATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (31 bp):
CTTAAATAAAAACTTTAGAATACTTCTTTGA
Found at i:22731047 original size:3 final size:3
Alignment explanation
Indices: 22731039--22731084 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
22731029 TTATAAAGTT
22731039 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22731085 GAGAAGACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22731985 original size:41 final size:41
Alignment explanation
Indices: 22731928--22732125 Score: 279
Period size: 41 Copynumber: 4.8 Consensus size: 41
22731918 TTTTGTAAGT
*
22731928 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
22731969 TCAGGCTTTATGCCTAGCAGACTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
22732010 TCAGGCTTTATGCCTAGCAGACTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * * * *
22732051 TCAGGCTTTATGTCTAGCATGCTTTGTGCTGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * *
22732092 TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG
22732126 TTTTATGCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
Found at i:22733076 original size:48 final size:47
Alignment explanation
Indices: 22732983--22733076 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 47
22732973 TGTTGTTAAA
* * * *
22732983 TTTGGTATGTATATGCTGCCTATTTGCTGTATATAAGCTGTCCAAAT
1 TTTGGTATGTAAATGCTGCCAAATTGATGTATATAAGCTGTCCAAAT
22733030 TTTGGTATGTAAATGCTGTCCAAATTGATGTATA-AGAGCTGTCCAAA
1 TTTGGTATGTAAATGCTG-CCAAATTGATGTATATA-AGCTGTCCAAA
22733077 CAAGGTAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
47 18 0.44
48 23 0.56
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (47 bp):
TTTGGTATGTAAATGCTGCCAAATTGATGTATATAAGCTGTCCAAAT
Found at i:22735622 original size:6 final size:6
Alignment explanation
Indices: 22735611--22735644 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
22735601 CCACCTTTTT
22735611 GGCCCG GGCCCG GGCCCG GGCCC- GGCCC- GGCCCG
1 GGCCCG GGCCCG GGCCCG GGCCCG GGCCCG GGCCCG
22735645 ACCCGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.53, G:0.47, T:0.00
Consensus pattern (6 bp):
GGCCCG
Found at i:22735696 original size:11 final size:11
Alignment explanation
Indices: 22735682--22735707 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22735672 ATTTTTTTAA
22735682 TTTTAAAATAC
1 TTTTAAAATAC
22735693 TTTTAAAATAC
1 TTTTAAAATAC
22735704 TTTT
1 TTTT
22735708 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:22735717 original size:41 final size:40
Alignment explanation
Indices: 22735658--22735737 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 40
22735648 CGAATATAAT
**
22735658 AAATATTTTTTTTTATTTTTTTAATTTTAAAATACTTTTA
1 AAATATTTTTTTAAATTTTTTTAATTTTAAAATACTTTTA
22735698 AAATACTTTTTTTAAATTTTTTTAATTTTAAAATACTTTT
1 AAATA-TTTTTTTAAATTTTTTTAATTTTAAAATACTTTT
22735738 TTAATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 5 0.14
41 32 0.86
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (40 bp):
AAATATTTTTTTAAATTTTTTTAATTTTAAAATACTTTTA
Found at i:22735727 original size:30 final size:29
Alignment explanation
Indices: 22735693--22735774 Score: 141
Period size: 28 Copynumber: 2.9 Consensus size: 29
22735683 TTTAAAATAC
22735693 TTTTAAAATACTTTTTTTAAATTTTTTTAA
1 TTTTAAAATACTTTTTTT-AATTTTTTTAA
22735723 TTTTAAAATAC-TTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTTTAATTTTTTTAA
22735751 TTTTAAAATA-TTTTTTTAATTTTT
1 TTTTAAAATACTTTTTTTAATTTTT
22735775 AAAATAAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
28 34 0.67
29 6 0.12
30 11 0.22
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTAAAATACTTTTTTTAATTTTTTTAA
Found at i:22735763 original size:19 final size:20
Alignment explanation
Indices: 22735741--22735780 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
22735731 TACTTTTTTA
22735741 ATTTTTTTAA-TTTTAAAAT
1 ATTTTTTTAATTTTTAAAAT
22735760 ATTTTTTTAATTTTTAAAAT
1 ATTTTTTTAATTTTTAAAAT
22735780 A
1 A
22735781 AATTTTTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTTAATTTTTAAAAT
Found at i:22735773 original size:8 final size:9
Alignment explanation
Indices: 22735704--22735774 Score: 54
Period size: 9 Copynumber: 7.6 Consensus size: 9
22735694 TTTAAAATAC
22735704 TTTTTTTAAA
1 TTTTTTT-AA
22735714 TTTTTTTAA
1 TTTTTTTAA
**
22735723 -TTTTAAAA
1 TTTTTTTAA
22735731 TACTTTTTTAA
1 T--TTTTTTAA
22735742 TTTTTTTAA
1 TTTTTTTAA
***
22735751 TTTTAAAATA
1 TTTTTTTA-A
22735761 TTTTTTTAA
1 TTTTTTTAA
22735770 TTTTT
1 TTTTT
22735775 AAAATAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
8 6 0.13
9 21 0.45
10 13 0.28
11 7 0.15
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:22735786 original size:19 final size:19
Alignment explanation
Indices: 22735745--22735786 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
22735735 TTTTTAATTT
**
22735745 TTTTAATTTTAAAATATTT
1 TTTTAATTTTAAAATATAA
22735764 TTTTAATTTTTAAAATA-AA
1 TTTTAA-TTTTAAAATATAA
22735783 TTTT
1 TTTT
22735787 TGGTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTTTAAAATATAA
Found at i:22735786 original size:20 final size:19
Alignment explanation
Indices: 22735744--22735787 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
22735734 TTTTTTAATT
**
22735744 TTTTTAATTTTAAAATATT
1 TTTTTAATTTTAAAATAAA
22735763 TTTTTAATTTTTAAAATAAA
1 TTTTTAA-TTTTAAAATAAA
22735783 TTTTT
1 TTTTT
22735788 GGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTTAAAATAAA
Found at i:22737373 original size:50 final size:50
Alignment explanation
Indices: 22737314--22737549 Score: 181
Period size: 50 Copynumber: 4.7 Consensus size: 50
22737304 CATTCGATAT
* * *
22737314 ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTC
1 ACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTATCCGGTTC
* *
22737364 ACGTAGTAGCCTGCACATCGTACTACACACGTGACCATTAA-TAT-CTGTTAC
1 ACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AACTATCCGGTT-C
* * * * * *
22737415 ACATAGTAGCCTGCACATAGTACTATACACGTGATTCGAAGCTATCCGATGC
1 ACGTAGTAGCCTGCACATAGTACTACACACGTGA--CCAAACTATCCGGTTC
*** * * * *** *
22737467 GTATAGTAGCCTGCACATAGTACCACACATGCGACCTTTC-ATTCCGGTAC
1 ACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTA-TCCGGTTC
* * *
22737517 ATGTAGTAGTCTACACATAGTACTACACACGTG
1 ACGTAGTAGCCTGCACATAGTACTACACACGTG
22737550 GCCATCACTT
Statistics
Matches: 146, Mismatches: 32, Indels: 16
0.75 0.16 0.08
Matches are distributed among these distances:
49 1 0.01
50 72 0.49
51 35 0.24
52 34 0.23
53 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
ACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTATCCGGTTC
Found at i:22740921 original size:18 final size:18
Alignment explanation
Indices: 22740898--22740933 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22740888 TATTTCAAGT
22740898 TTGATTTCATGATTTTAA
1 TTGATTTCATGATTTTAA
22740916 TTGATTTCATGATTTTAA
1 TTGATTTCATGATTTTAA
22740934 GTACTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (18 bp):
TTGATTTCATGATTTTAA
Found at i:22741339 original size:57 final size:59
Alignment explanation
Indices: 22741251--22741393 Score: 193
Period size: 57 Copynumber: 2.4 Consensus size: 59
22741241 AATTTGGATT
* *
22741251 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCA-AT-ATC
1 ACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCAGATGATC
*
22741308 ACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATTAGGATAGGATC
1 ACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATCA-GAT--GATC
*
22741370 ACCCGTCTGGGCTAGATCCTTTTT
1 ACCCGTCCGGGCTAGATCCTTTTT
22741394 ACCGTCAATT
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
56 6 0.08
57 42 0.56
59 2 0.03
62 19 0.25
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (59 bp):
ACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCAGATGATC
Found at i:22744042 original size:20 final size:20
Alignment explanation
Indices: 22744019--22744103 Score: 80
Period size: 20 Copynumber: 4.0 Consensus size: 20
22744009 GCCTGAGTGA
22744019 CATTCTGCTAGCCTTTGTGG
1 CATTCTGCTAGCCTTTGTGG
*
22744039 CATTCTGCTAGCCTTTATGG
1 CATTCTGCTAGCCTTTGTGG
* * *
22744059 CGTATTCTGATTTGGCCATTGTGG
1 C--ATTCTG--CTAGCCTTTGTGG
* *
22744083 CATTCTGTTAGCATTTGTGG
1 CATTCTGCTAGCCTTTGTGG
22744103 C
1 C
22744104 GTATTTTGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
20 31 0.58
22 12 0.23
24 10 0.19
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.41
Consensus pattern (20 bp):
CATTCTGCTAGCCTTTGTGG
Found at i:22744082 original size:44 final size:44
Alignment explanation
Indices: 22744032--22744157 Score: 164
Period size: 44 Copynumber: 2.9 Consensus size: 44
22744022 TCTGCTAGCC
*
22744032 TTTGTGGCATTCTGCTAGCCTTTATGGCGTATTCTGATTTGGCCA
1 TTTGTGGCATTCTGCTAGCCTTTGTGGCGTATTCTGATTTGG-CA
* * *
22744077 -TTGTGGCATTCTGTTAGCATTTGTGGCGTATTTTGATTTGGCA
1 TTTGTGGCATTCTGCTAGCCTTTGTGGCGTATTCTGATTTGGCA
* * * *
22744120 TTTGTGGTATTTTTCTAGCCTTTGTGGCGTACTCTGAT
1 TTTGTGGCATTCTGCTAGCCTTTGTGGCGTATTCTGAT
22744158 AAGTTACGAC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 2 0.03
44 67 0.97
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.46
Consensus pattern (44 bp):
TTTGTGGCATTCTGCTAGCCTTTGTGGCGTATTCTGATTTGGCA
Found at i:22744121 original size:24 final size:24
Alignment explanation
Indices: 22744056--22744126 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
22744046 CTAGCCTTTA
22744056 TGGCGTATTCTGATTTGGCCA-TTG
1 TGGCGTATTCTGATTTGG-CATTTG
*
22744080 TGGC--ATTCTG--TTAGCATTTG
1 TGGCGTATTCTGATTTGGCATTTG
*
22744100 TGGCGTATTTTGATTTGGCATTTG
1 TGGCGTATTCTGATTTGGCATTTG
22744124 TGG
1 TGG
22744127 TATTTTTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 10 0.26
22 11 0.28
24 16 0.41
ACGTcount: A:0.13, C:0.13, G:0.30, T:0.45
Consensus pattern (24 bp):
TGGCGTATTCTGATTTGGCATTTG
Found at i:22744132 original size:22 final size:22
Alignment explanation
Indices: 22744060--22744130 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
22744050 CCTTTATGGC
22744060 GTATTCTGATTTGGCCA-TTGTG
1 GTATTCTGATTTGG-CATTTGTG
* *
22744082 GCATTCTG--TTAGCATTTGTGG
1 GTATTCTGATTTGGCATTTGT-G
*
22744103 CGTATTTTGATTTGGCATTTGTG
1 -GTATTCTGATTTGGCATTTGTG
22744126 GTATT
1 GTATT
22744131 TTTCTAGCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 2 0.05
20 7 0.18
21 1 0.03
22 18 0.46
23 1 0.03
24 10 0.26
ACGTcount: A:0.14, C:0.11, G:0.27, T:0.48
Consensus pattern (22 bp):
GTATTCTGATTTGGCATTTGTG
Found at i:22744600 original size:15 final size:15
Alignment explanation
Indices: 22744580--22744624 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
22744570 TATTTATATT
22744580 AATTAAATTAAAATA
1 AATTAAATTAAAATA
*
22744595 AATTAAAATATAAAT-
1 AATTAAATTA-AAATA
22744610 AATTAAATTAAAATA
1 AATTAAATTAAAATA
22744625 TTTTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTAAATTAAAATA
Found at i:22746827 original size:110 final size:110
Alignment explanation
Indices: 22746634--22746883 Score: 428
Period size: 110 Copynumber: 2.3 Consensus size: 110
22746624 ATTTGGTTGA
* *
22746634 AATTTTCAAACGCAAAACATTGTCTTATTTTGAAATTTTTAATAAGGATATTAAGCCATTTGGTT
1 AATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTT
* * *
22746699 AAATGAGAAAAATCGACACCTAGCACCTTAGGACATGTTTTTTCG
66 AAACGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTCG
*
22746744 AATTTTCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTT
1 AATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTT
22746809 AAACGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTCG
66 AAACGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTCG
* *
22746854 AATTTCCAAATGCAAAACATTGCCTTATTT
1 AATTTTCAAACGCAAAACATTGCCTTATTT
22746884 AAAAATATTT
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 131 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (110 bp):
AATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTT
AAACGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTCG
Found at i:22747365 original size:13 final size:13
Alignment explanation
Indices: 22747346--22747376 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22747336 TATGAATCAT
22747346 AATATATAAAATA
1 AATATATAAAATA
*
22747359 CATATATAAAATA
1 AATATATAAAATA
22747372 AATAT
1 AATAT
22747377 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATATAAAATA
Found at i:22747522 original size:3 final size:3
Alignment explanation
Indices: 22747514--22747552 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
22747504 ATAAGCAATT
* *
22747514 ATA ATA ATA ATA ATA ATA ATA ACA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22747553 TGAAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:22748668 original size:34 final size:37
Alignment explanation
Indices: 22748627--22748695 Score: 92
Period size: 35 Copynumber: 1.9 Consensus size: 37
22748617 TGTTAATTGA
22748627 TTTGGGTTG-TG-GTGTTTGGGTTTG-TT-TTGGGCTG
1 TTTGGGTTGATGTGT-TTTGGGTTTGCTTGTTGGGCTG
*
22748661 TTTGGGTTGATTTGTTTTGGGTTTGCTTGTTGGGC
1 TTTGGGTTGATGTGTTTTGGGTTTGCTTGTTGGGC
22748696 CAGGTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 9 0.30
35 11 0.37
36 4 0.13
37 6 0.20
ACGTcount: A:0.01, C:0.04, G:0.41, T:0.54
Consensus pattern (37 bp):
TTTGGGTTGATGTGTTTTGGGTTTGCTTGTTGGGCTG
Found at i:22748897 original size:97 final size:98
Alignment explanation
Indices: 22748775--22748967 Score: 253
Period size: 98 Copynumber: 2.0 Consensus size: 98
22748765 ATTTTTAAAA
* * * * *
22748775 AATAATTATTTACATTAATTGAGTAAAATAAATATATAGTT-ATTAAATTAAGATAAATAAACAC
1 AATAATTATTTAAATTAATTAAGTAAAATAAATATACAATTAATTAAATTAAAATAAATAAACAC
* * *
22748839 ATCAATATACGTGCGCACGTGATTTGAGAAACT
66 ATCAATAGACATGCGCACGTGATTTAAGAAACT
* * *
22748872 AATAATTTTTTAAATTAATTAAGTAAAATACATATACAATTAATTAAATTAAAATAAATAAACGC
1 AATAATTATTTAAATTAATTAAGTAAAATAAATATACAATTAATTAAATTAAAATAAATAAACAC
* * *
22748937 GTCAATGGACATGGGCACGTGATTTAAGAAA
66 ATCAATAGACATGCGCACGTGATTTAAGAAA
22748968 TCAATAAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
97 35 0.43
98 46 0.57
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (98 bp):
AATAATTATTTAAATTAATTAAGTAAAATAAATATACAATTAATTAAATTAAAATAAATAAACAC
ATCAATAGACATGCGCACGTGATTTAAGAAACT
Found at i:22751596 original size:9 final size:9
Alignment explanation
Indices: 22751584--22751635 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
22751574 AAATTAATCA
22751584 AATTAAACG
1 AATTAAACG
22751593 AATTAAACG
1 AATTAAACG
*
22751602 AATTAACCG
1 AATTAAACG
*
22751611 AATT-ACCTG
1 AATTAAAC-G
*
22751620 AATTAACCG
1 AATTAAACG
22751629 AATTAAA
1 AATTAAA
22751636 TCACTACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 3 0.08
9 33 0.85
10 3 0.08
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAAACG
Found at i:22751598 original size:18 final size:18
Alignment explanation
Indices: 22751575--22751615 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22751565 TTTGGTTAAA
*
22751575 AATTAATCAAATTAAACG
1 AATTAAACAAATTAAACG
* *
22751593 AATTAAACGAATTAACCG
1 AATTAAACAAATTAAACG
22751611 AATTA
1 AATTA
22751616 CCTGAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (18 bp):
AATTAAACAAATTAAACG
Found at i:22751606 original size:27 final size:27
Alignment explanation
Indices: 22751575--22751634 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
22751565 TTTGGTTAAA
*
22751575 AATTAATCAAATTAAAC-GAATTAAACG
1 AATTAACCAAATT-AACTGAATTAAACG
* * *
22751602 AATTAACCGAATTACCTGAATTAACCG
1 AATTAACCAAATTAACTGAATTAAACG
22751629 AATTAA
1 AATTAA
22751635 ATCACTACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTAACCAAATTAACTGAATTAAACG
Found at i:22751797 original size:18 final size:18
Alignment explanation
Indices: 22751771--22751814 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22751761 AATTTTTGTG
* *
22751771 ATTGTGTTGAGTTGGGTA
1 ATTGGGTTGAGTTGGATA
*
22751789 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGAGTTGGATA
*
22751807 TTTGGGTT
1 ATTGGGTT
22751815 TGGATTAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (18 bp):
ATTGGGTTGAGTTGGATA
Found at i:22758268 original size:6 final size:6
Alignment explanation
Indices: 22758257--22758291 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
22758247 AAACAAAAGT
22758257 AAACTC AAACTC AAAACTC AAACTC AAACTC AAAC
1 AAACTC AAACTC -AAACTC AAACTC AAACTC AAAC
22758292 AGAAGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (6 bp):
AAACTC
Found at i:22758273 original size:13 final size:12
Alignment explanation
Indices: 22758257--22758291 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
22758247 AAACAAAAGT
22758257 AAACTCAAACTC
1 AAACTCAAACTC
22758269 AAAACTCAAACTC
1 -AAACTCAAACTC
22758282 AAACTCAAAC
1 AAACTCAAAC
22758292 AGAAGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (12 bp):
AAACTCAAACTC
Found at i:22778689 original size:5 final size:5
Alignment explanation
Indices: 22778679--22778704 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22778669 TAGAGAGATC
22778679 GGTCG GGTCG GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTCG GGTCG GGTCG G
22778705 CTCATCTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.62, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:22780948 original size:22 final size:22
Alignment explanation
Indices: 22780923--22780978 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
22780913 TTTGTTGCCG
*
22780923 TTTTGATGTTATTTTACTATTA
1 TTTTGATGTTATATTACTATTA
* * *
22780945 TTTTGCTATTATATTATTATTA
1 TTTTGATGTTATATTACTATTA
22780967 TTTT-ATGGTTAT
1 TTTTGAT-GTTAT
22780979 CATTTGGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTTGATGTTATATTACTATTA
Found at i:22780972 original size:11 final size:11
Alignment explanation
Indices: 22780931--22780971 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
22780921 CGTTTTGATG
22780931 TTATTTTACTA
1 TTATTTTACTA
*
22780942 TTATTTTGCTA
1 TTATTTTACTA
* *
22780953 TTATATTATTA
1 TTATTTTACTA
22780964 TTATTTTA
1 TTATTTTA
22780972 TGGTTATCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (11 bp):
TTATTTTACTA
Found at i:22786743 original size:2 final size:2
Alignment explanation
Indices: 22786736--22786768 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22786726 TGTCAGTGAT
*
22786736 TC TC TC TC TC AC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22786769 TACAGTGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Done.