Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 109 of 182
Found at i:32997823 original size:7 final size:7
Alignment explanation
Indices: 32997811--32997851 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
32997801 TATTTTTCAT
32997811 CCTAAAC
1 CCTAAAC
32997818 CCTAAAC
1 CCTAAAC
*
32997825 TCTAAAC
1 CCTAAAC
32997832 CCTAAAC
1 CCTAAAC
32997839 CCTAAAC
1 CCTAAAC
32997846 CTCTAA
1 C-CTAA
32997852 GCTTAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 27 0.87
8 4 0.13
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:32997836 original size:21 final size:22
Alignment explanation
Indices: 32997811--32997851 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
32997801 TATTTTTCAT
32997811 CCTAAACCCTAAA-CTCTAAAC
1 CCTAAACCCTAAACCTCTAAAC
32997832 CCTAAACCCTAAACCTCTAA
1 CCTAAACCCTAAACCTCTAA
32997852 GCTTAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (22 bp):
CCTAAACCCTAAACCTCTAAAC
Found at i:32998171 original size:5 final size:6
Alignment explanation
Indices: 32998139--32998169 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
32998129 TAACTTATGA
32998139 TTATTT TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
32998170 ATGGTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:32998177 original size:18 final size:18
Alignment explanation
Indices: 32998133--32998180 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
32998123 TATAATTAAC
*
32998133 TTATGATTATTTTTATTT
1 TTATGTTTATTTTTATTT
*
32998151 TTATTTTTATTTTTA-TT
1 TTATGTTTATTTTTATTT
32998168 TTATGGTTTATTT
1 TTAT-GTTTATTT
32998181 AATTAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (18 bp):
TTATGTTTATTTTTATTT
Found at i:33001823 original size:29 final size:29
Alignment explanation
Indices: 33001781--33001849 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
33001771 GTCTGTCGTT
33001781 GCCACACGGGCGTGTGCTTGGCCGTGTGA
1 GCCACACGGGCGTGTGCTTGGCCGTGTGA
33001810 GCCACACGGGCGTGTGCTTGGCCGTGTGA
1 GCCACACGGGCGTGTGCTTGGCCGTGTGA
33001839 GCCACACGGGC
1 GCCACACGGGC
33001850 TAGGCCAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.12, C:0.30, G:0.41, T:0.17
Consensus pattern (29 bp):
GCCACACGGGCGTGTGCTTGGCCGTGTGA
Found at i:33001937 original size:45 final size:46
Alignment explanation
Indices: 33001838--33001941 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 46
33001828 TGGCCGTGTG
* *
33001838 AGCCACACGGGCTAGGCCAAGTTAGGCATGTGGGCCCACACAGGCA
1 AGCCACACGGGCAAGGCCAAGTTAGGCATGTGGGACCACACAGGCA
* * * **
33001884 TGCCACACGGGCAAGGCCAA-TCTGGGCGTGT-GGACCACATGGGCA
1 AGCCACACGGGCAAGGCCAAGT-TAGGCATGTGGGACCACACAGGCA
33001929 AGCCACACGGGCA
1 AGCCACACGGGCA
33001942 TGTGGGCTCA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
45 24 0.49
46 25 0.51
ACGTcount: A:0.25, C:0.31, G:0.34, T:0.11
Consensus pattern (46 bp):
AGCCACACGGGCAAGGCCAAGTTAGGCATGTGGGACCACACAGGCA
Found at i:33017206 original size:12 final size:13
Alignment explanation
Indices: 33017180--33017217 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
33017170 TTCAATTTAC
33017180 TTATATAATAATT
1 TTATATAATAATT
*
33017193 TTATA-AATATTT
1 TTATATAATAATT
*
33017205 TTATTTAATAATT
1 TTATATAATAATT
33017218 ACAGACTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATATAATAATT
Found at i:33018765 original size:9 final size:9
Alignment explanation
Indices: 33018681--33018767 Score: 113
Period size: 9 Copynumber: 9.6 Consensus size: 9
33018671 GGTCGGTTAA
*
33018681 CCGAATTAA
1 CCGAATTAC
33018690 CCGAATTAC
1 CCGAATTAC
33018699 CCGAATTAC
1 CCGAATTAC
33018708 CCGAATTAC
1 CCGAATTAC
*
33018717 CCGAATTAA
1 CCGAATTAC
*
33018726 CCGAATTAA
1 CCGAATTAC
33018735 CCGAATTA-
1 CCGAATTAC
*
33018743 CCGAAAAATAC
1 CCG--AATTAC
33018754 CCGAATTAC
1 CCGAATTAC
33018763 CCGAA
1 CCGAA
33018768 ACTTTTTTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
8 3 0.04
9 61 0.86
10 4 0.06
11 3 0.04
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (9 bp):
CCGAATTAC
Found at i:33020318 original size:3 final size:3
Alignment explanation
Indices: 33020310--33020353 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
33020300 TTAGTACTGG
33020310 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33020354 GAAAGTCAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33031226 original size:11 final size:10
Alignment explanation
Indices: 33031211--33031238 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
33031201 ATACTCTATA
33031211 ATTTTTTTAT
1 ATTTTTTTAT
33031221 ATTTTTTTAT
1 ATTTTTTTAT
33031231 ATTTTTTT
1 ATTTTTTT
33031239 CATAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
ATTTTTTTAT
Found at i:33033448 original size:18 final size:18
Alignment explanation
Indices: 33033425--33033572 Score: 94
Period size: 17 Copynumber: 8.2 Consensus size: 18
33033415 CAACTTTTTC
*
33033425 TTTTTTTGAAAATACGAA
1 TTTTTTTGAAAACACGAA
* *
33033443 TTTTTTTTTAAAATACAAGAA
1 --TTTTTTTGAAA-ACACGAA
*
33033464 --TTTTAG-AAACACGAA
1 TTTTTTTGAAAACACGAA
* *
33033479 ATTTTTTAAAAACACGAA
1 TTTTTTTGAAAACACGAA
**
33033497 -AATTTT-AAAACACGAGA
1 TTTTTTTGAAAACACGA-A
33033514 TTTTTTTGAAAACACGAA
1 TTTTTTTGAAAACACGAA
33033532 TTTTCTTTTTG-AAACACGAA
1 --TT-TTTTTGAAAACACGAA
* *
33033552 ATTTTTT-AAAACACAAA
1 TTTTTTTGAAAACACGAA
33033569 TTTT
1 TTTT
33033573 ATTTTTGAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 25
0.72 0.11 0.18
Matches are distributed among these distances:
15 6 0.06
16 11 0.11
17 29 0.28
18 15 0.15
19 9 0.09
20 21 0.21
21 11 0.11
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (18 bp):
TTTTTTTGAAAACACGAA
Found at i:33033451 original size:21 final size:20
Alignment explanation
Indices: 33033425--33033467 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
33033415 CAACTTTTTC
*
33033425 TTTTTTTGAAAATAC-GAAT
1 TTTTTTTTAAAATACAGAAT
33033444 TTTTTTTTAAAATACAAGAAT
1 TTTTTTTTAAAATAC-AGAAT
33033465 TTT
1 TTT
33033468 AGAAACACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
21 7 0.33
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTTTTTTAAAATACAGAAT
Found at i:33033481 original size:16 final size:15
Alignment explanation
Indices: 33033448--33033517 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 15
33033438 ACGAATTTTT
* *
33033448 TTTTAAAATACAAGAA
1 TTTTAAAACACGA-AA
33033464 TTTTAGAAACACGAAA
1 TTTTA-AAACACGAAA
33033480 TTTTTTAAAAACACGAAAA
1 --TTTT-AAAACACG-AAA
*
33033499 TTTTAAAACACGAGA
1 TTTTAAAACACGAAA
33033514 TTTT
1 TTTT
33033518 TTTGAAAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
15 6 0.13
16 15 0.33
17 10 0.22
18 11 0.24
19 4 0.09
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (15 bp):
TTTTAAAACACGAAA
Found at i:33033489 original size:34 final size:33
Alignment explanation
Indices: 33033446--33033573 Score: 100
Period size: 35 Copynumber: 3.7 Consensus size: 33
33033436 ATACGAATTT
*
33033446 TTTTTTAAAATACA-AGAATTTTAGAAACACGAAA
1 TTTTTTAAAA-ACACAAAATTTTA-AAACACGAAA
*
33033480 TTTTTTAAAAACACGAAAATTTTAAAACACGAGAT
1 TTTTTTAAAAACAC-AAAATTTTAAAACACGA-AA
* ** *
33033515 TTTTTTGAAAACACGAATTTTCTTTTTGAAACACGAAA
1 TTTTTTAAAAACAC-AA----AATTTTAAAACACGAAA
33033553 TTTTTT-AAAACAC-AAATTTTA
1 TTTTTTAAAAACACAAAATTTTA
33033574 TTTTTGAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
31 4 0.05
33 3 0.04
34 18 0.23
35 26 0.34
37 7 0.09
38 7 0.09
39 12 0.16
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (33 bp):
TTTTTTAAAAACACAAAATTTTAAAACACGAAA
Found at i:33033518 original size:16 final size:16
Alignment explanation
Indices: 33033464--33033572 Score: 76
Period size: 18 Copynumber: 6.2 Consensus size: 16
33033454 AATACAAGAA
33033464 TTTTAGAAACACGAAATT
1 TTTTA-AAACACGAAA-T
*
33033482 TTTTAAAAACACGAAAA
1 TTTT-AAAACACGAAAT
*
33033499 TTTTAAAACACGAGATTT
1 TTTTAAAACACGA-A-AT
*
33033517 TTTTGAAAACACGAATTTTCT
1 TTTT-AAAACACGAA----AT
*
33033538 TTTTGAAACACGAAATT
1 TTTTAAAACACGAAA-T
33033555 TTTTAAAACAC-AAAT
1 TTTTAAAACACGAAAT
33033570 TTT
1 TTT
33033573 ATTTTTGAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
15 4 0.05
16 12 0.16
17 16 0.21
18 19 0.25
19 10 0.13
20 9 0.12
21 6 0.08
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (16 bp):
TTTTAAAACACGAAAT
Found at i:33033542 original size:21 final size:20
Alignment explanation
Indices: 33033514--33033585 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
33033504 AAACACGAGA
33033514 TTTTTTTGAAAACACGAATT
1 TTTTTTTGAAAACACGAATT
33033534 TTCTTTTTG-AAACACGAA--
1 TT-TTTTTGAAAACACGAATT
* *
33033552 ATTTTTT-AAAACACAAATT
1 TTTTTTTGAAAACACGAATT
33033571 TTATTTTTGAAAACA
1 TT-TTTTTGAAAACA
33033586 TAAAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
17 13 0.30
18 1 0.02
19 1 0.02
20 16 0.37
21 12 0.28
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (20 bp):
TTTTTTTGAAAACACGAATT
Found at i:33033556 original size:39 final size:37
Alignment explanation
Indices: 33033463--33033582 Score: 124
Period size: 37 Copynumber: 3.3 Consensus size: 37
33033453 AAATACAAGA
*
33033463 ATTTTAGAAACACGAAATTTTTTAAAAACACGAAA----
1 ATTTTTGAAACACGAAATTTTTT-AAAACAC-AAATTTT
* * *
33033498 A-TTTTAAAACACGAGATTTTTTTGAAAACACGAATTTT
1 ATTTTTGAAACACGA-AATTTTTT-AAAACACAAATTTT
*
33033536 CTTTTTGAAACACGAAATTTTTTAAAACACAAATTTT
1 ATTTTTGAAACACGAAATTTTTTAAAACACAAATTTT
33033573 ATTTTTGAAA
1 ATTTTTGAAA
33033583 ACATAAAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
34 13 0.19
35 15 0.22
37 22 0.32
38 7 0.10
39 12 0.17
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (37 bp):
ATTTTTGAAACACGAAATTTTTTAAAACACAAATTTT
Found at i:33033563 original size:17 final size:17
Alignment explanation
Indices: 33033464--33033949 Score: 119
Period size: 17 Copynumber: 26.4 Consensus size: 17
33033454 AATACAAGAA
33033464 TTTTAGAAACACGAAATT
1 TTTTA-AAACACGAAATT
*
33033482 TTTTAAAAACACGAAA-A
1 TTTT-AAAACACGAAATT
*
33033499 TTTTAAAACACGAGATTT
1 TTTTAAAACACGA-AATT
*
33033517 TTTTGAAAACACGAATTTTCT
1 TTTT-AAAACACGAA--AT-T
*
33033538 TTTTGAAACACGAAATT
1 TTTTAAAACACGAAATT
33033555 TTTTAAAACAC-AAATTTTAT
1 TTTTAAAACACGAAA---T-T
**
33033575 TTTTGAAAACATAAAAATT
1 TTTT-AAAACA-CGAAATT
33033594 TTGATAAAATACGAAACACGAAGATTTT
1 TT--T----TA--AAACACGAA-A--TT
* *
33033622 TTTTGAAACACGAAAAT
1 TTTTAAAACACGAAATT
* * *
33033639 TTATGAAACACGGTCAATT
1 TTTTAAAACAC-G-AAATT
* *
33033658 TTTGAAAACACGAAAAT
1 TTTTAAAACACGAAATT
* *
33033675 TTTTGAAAGACGAGAATTTT
1 TTTTAAAACACGA-AA--TT
33033695 TTTTAAAACACAGAAA-T
1 TTTTAAAACAC-GAAATT
* * *
33033712 TTATGAAACACGGAGATCTTT
1 TTTTAAAACAC-GA-A--ATT
* **
33033733 TTTTAAAATA--ATTTTT
1 TTTTAAAACACGA-AATT
* * *
33033749 TTTTGAAATACGGGAATT
1 TTTTAAAACAC-GAAATT
*
33033767 TTTGAAAACACGGGAAA-T
1 TTTTAAAACAC--GAAATT
* *
33033785 TTTGAAAACACGAAAAT
1 TTTTAAAACACGAAATT
*
33033802 TTTTGAAACACTGAAA-T
1 TTTTAAAACAC-GAAATT
*
33033819 TTTGAAAACACGAAGA-T
1 TTTTAAAACACGAA-ATT
* * *
33033836 TTTTGAAGCATGAGAATT
1 TTTTAAAACACGA-AATT
*
33033854 TTTGAAAACACGAAGATTT
1 TTTTAAAACACGAA-A-TT
* *
33033873 TTTTTAAACAAGGAAA-T
1 TTTTAAAAC-ACGAAATT
*
33033890 TTTTGAAACACGAGAAATTT
1 TTTTAAAACAC--GAAA-TT
*
33033910 TTTTGAAAACACGAAAAT
1 TTTT-AAAACACGAAATT
* *
33033928 TTTTGAAACAC-AATTT
1 TTTTAAAACACGAAATT
33033944 TTTTAA
1 TTTTAA
33033950 GAAGTACCGT
Statistics
Matches: 351, Mismatches: 65, Indels: 106
0.67 0.12 0.20
Matches are distributed among these distances:
16 40 0.11
17 100 0.28
18 73 0.21
19 44 0.13
20 47 0.13
21 28 0.08
22 1 0.00
23 3 0.01
24 1 0.00
25 3 0.01
26 7 0.02
28 4 0.01
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (17 bp):
TTTTAAAACACGAAATT
Found at i:33033647 original size:37 final size:36
Alignment explanation
Indices: 33033606--33033947 Score: 191
Period size: 36 Copynumber: 9.5 Consensus size: 36
33033596 GATAAAATAC
*
33033606 GAAACACGAAGATTTTTTTTGAAACACGAAAATTTAT
1 GAAACACG-AGATTTTTTTTGAAACACGAAAATTTTT
**
33033643 GAAACACG-G-TCAATTTTTGAAAACACGAAAATTTTT
1 GAAACACGAGAT-TTTTTTTG-AAACACGAAAATTTTT
* * *
33033679 GAAAGACGAGAATTTTTTTTAAAACAC-AGAAATTTAT
1 GAAACACGAG-ATTTTTTTTGAAACACGA-AAATTTTT
* **
33033716 GAAACACGGAGATCTTTTTTT-AAA-A-TAATTTTTTTTT
1 GAAACAC-GAGAT-TTTTTTTGAAACACGAA--AATTTTT
* * * *
33033753 GAAATACGGGA--ATTTTTGAAAACACGGGAAA-TTTT
1 GAAACACGAGATTTTTTTTG-AAACAC-GAAAATTTTT
**
33033788 GAAAACACGA-A-AATTTTTGAAACACTG-AAA-TTTT
1 G-AAACACGAGATTTTTTTTGAAACAC-GAAAATTTTT
* * *
33033822 GAAAACACGAAGA---TTTTTGAAGCATGAGAATTTTT
1 G-AAACACG-AGATTTTTTTTGAAACACGAAAATTTTT
* *
33033857 GAAAACACGAAGATTTTTTTT-AAACAAGGAAATTTTT
1 G-AAACACG-AGATTTTTTTTGAAACACGAAAATTTTT
*
33033894 GAAACACGAGAAATTTTTTTGAAAACACGAAAATTTTT
1 GAAACACGAG-ATTTTTTTTG-AAACACGAAAATTTTT
33033932 GAAACAC-A-ATTTTTTT
1 GAAACACGAGATTTTTTT
33033948 AAGAAGTACC
Statistics
Matches: 244, Mismatches: 33, Indels: 58
0.73 0.10 0.17
Matches are distributed among these distances:
33 6 0.02
34 29 0.12
35 51 0.21
36 58 0.24
37 57 0.23
38 42 0.17
39 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (36 bp):
GAAACACGAGATTTTTTTTGAAACACGAAAATTTTT
Found at i:33033663 original size:18 final size:17
Alignment explanation
Indices: 33033621--33033938 Score: 162
Period size: 17 Copynumber: 17.7 Consensus size: 17
33033611 ACGAAGATTT
33033621 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
33033638 TTTATGAAACACGGTCAA
1 TTTTTGAAACAC-GAAAA
33033656 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* *
33033674 TTTTTGAAAGACGAGAATTT
1 TTTTTGAAACACGA-AA--A
*
33033694 TTTTTAAAACAC-AGAAA
1 TTTTTGAAACACGA-AAA
* **
33033711 TTTATGAAACACGGAGATCT
1 TTTTTGAAACAC-GA-A-AA
* * **
33033731 TTTTTTAAA-A-TAATTTT
1 TTTTTGAAACACGAA--AA
* **
33033748 TTTTTGAAATACGGGAA
1 TTTTTGAAACACGAAAA
*
33033765 TTTTTGAAAACACGGGAAA
1 TTTTTG-AAACAC-GAAAA
33033784 -TTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
33033801 TTTTTGAAACACTG-AAA
1 TTTTTGAAACAC-GAAAA
*
33033818 -TTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
* * *
33033835 TTTTTGAAGCATGAGAA
1 TTTTTGAAACACGAAAA
*
33033852 TTTTTGAAAACACGAAGATT
1 TTTTTG-AAACACGAA-A-A
* * *
33033872 TTTTTTAAACAAGGAAA
1 TTTTTGAAACACGAAAA
33033889 TTTTTGAAACACGAGAAA
1 TTTTTGAAACACGA-AAA
33033907 TTTTTTTGAAAACACGAAAA
1 --TTTTTG-AAACACGAAAA
33033927 TTTTTGAAACAC
1 TTTTTGAAACAC
33033939 AATTTTTTTA
Statistics
Matches: 232, Mismatches: 44, Indels: 50
0.71 0.13 0.15
Matches are distributed among these distances:
16 7 0.03
17 96 0.41
18 64 0.28
19 26 0.11
20 31 0.13
21 8 0.03
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:33033668 original size:19 final size:18
Alignment explanation
Indices: 33033621--33033935 Score: 163
Period size: 18 Copynumber: 17.5 Consensus size: 18
33033611 ACGAAGATTT
33033621 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
33033638 TTTATG-AAACACGGTCAA
1 TTTTTGAAAACAC-GAAAA
33033656 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
**
33033674 TTTTTGAAAGACGA-GAATT
1 TTTTTGAAA-AC-ACGAAAA
*
33033693 TTTTTTAAAACAC-AGAAA
1 TTTTTGAAAACACGA-AAA
* **
33033711 TTTATG-AAACACGGAGATCT
1 TTTTTGAAAACAC-GA-A-AA
* * ***
33033731 TTTTTTAAAATA--ATTTT
1 TTTTTGAAAACACGA-AAA
* **
33033748 TTTTTG-AAATACGGGAA
1 TTTTTGAAAACACGAAAA
*
33033765 TTTTTGAAAACACGGGAAA
1 TTTTTGAAAACAC-GAAAA
33033784 -TTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
33033801 TTTTTG-AAACACTG-AAA
1 TTTTTGAAAACAC-GAAAA
*
33033818 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* * *
33033835 TTTTTG-AAGCATGAGAA
1 TTTTTGAAAACACGAAAA
*
33033852 TTTTTGAAAACACGAAGAT
1 TTTTTGAAAACACGAA-AA
** * *
33033871 TTTTTTTAAACAAGGAAA
1 TTTTTGAAAACACGAAAA
33033889 TTTTTG-AAACACGAGAAA
1 TTTTTGAAAACACGA-AAA
33033907 TTTTTTTGAAAACACGAAAA
1 --TTTTTGAAAACACGAAAA
33033927 TTTTTGAAA
1 TTTTTGAAA
33033936 CACAATTTTT
Statistics
Matches: 227, Mismatches: 46, Indels: 49
0.70 0.14 0.15
Matches are distributed among these distances:
16 11 0.05
17 71 0.31
18 80 0.35
19 39 0.17
20 14 0.06
21 12 0.05
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:33033912 original size:38 final size:36
Alignment explanation
Indices: 33033606--33033938 Score: 159
Period size: 37 Copynumber: 9.2 Consensus size: 36
33033596 GATAAAATAC
* * *
33033606 GAAACACGAAGATTTTTTTTG-AAACACGAAAATTTAT
1 GAAACACGAA-A-ATTTTTTGAAAACAAGAAAATTTTT
** *
33033643 GAAACACGGTCAA-TTTTTGAAAACACGAAAATTTTT
1 GAAACAC-GAAAATTTTTTGAAAACAAGAAAATTTTT
* * * *
33033679 GAAAGACGAGAATTTTTTTTAAAACACAG-AAATTTAT
1 GAAACACGA-AAATTTTTTGAAAACA-AGAAAATTTTT
** * * ****
33033716 GAAACACGGAGATCTTTTTTTAAAATAA-TTTTTTTTT
1 GAAACAC-GA-AAATTTTTTGAAAACAAGAAAATTTTT
* ** * *
33033753 GAAATACGGGAA-TTTTTGAAAACACGGGAAA-TTTT
1 GAAACACGAAAATTTTTTGAAAACA-AGAAAATTTTT
*
33033788 GAAAACACGAAAA-TTTTTG-AAACACTG-AAA-TTTT
1 G-AAACACGAAAATTTTTTGAAAACA-AGAAAATTTTT
* * * *
33033822 GAAAACACGAAGA-TTTTTG-AAGCATGAGAATTTTT
1 G-AAACACGAAAATTTTTTGAAAACAAGAAAATTTTT
* ** *
33033857 GAAAACACGAAGATTTTTTTTAAACAAGGAAATTTTT
1 G-AAACACGAAAATTTTTTGAAAACAAGAAAATTTTT
*
33033894 GAAACACGAGAAATTTTTTTGAAAACACGAAAATTTTT
1 GAAACACGA-AAA-TTTTTTGAAAACAAGAAAATTTTT
33033932 GAAACAC
1 GAAACAC
33033939 AATTTTTTTA
Statistics
Matches: 232, Mismatches: 48, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
33 2 0.01
34 41 0.18
35 36 0.16
36 50 0.22
37 58 0.25
38 45 0.19
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (36 bp):
GAAACACGAAAATTTTTTGAAAACAAGAAAATTTTT
Found at i:33034233 original size:16 final size:15
Alignment explanation
Indices: 33034206--33034255 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
33034196 ATTCGAATTT
33034206 AAAAAAAT-AAAATA
1 AAAAAAATAAAAATA
33034220 AAAAAAATAAAAA-A
1 AAAAAAATAAAAATA
*
33034234 GAACATAAATACAAAATA
1 -AA-AAAAATA-AAAATA
33034252 AAAA
1 AAAA
33034256 TACTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 7 0.24
17 6 0.21
18 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAAAAATAAAAATA
Found at i:33034233 original size:21 final size:23
Alignment explanation
Indices: 33034207--33034255 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
33034197 TTCGAATTTA
* *
33034207 AAAAAATAAAATAAAA--AAAAT
1 AAAAAAGAAAATAAATACAAAAT
*
33034228 AAAAAAGAACATAAATACAAAAT
1 AAAAAAGAAAATAAATACAAAAT
33034251 AAAAA
1 AAAAA
33034256 TACTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (23 bp):
AAAAAAGAAAATAAATACAAAAT
Found at i:33034882 original size:26 final size:26
Alignment explanation
Indices: 33034840--33034892 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
33034830 TTCTCTTTTA
33034840 TTTTTGTTTGTTACTTGCTTCTTGTT
1 TTTTTGTTTGTTACTTGCTTCTTGTT
* * *
33034866 TTTTTTTTTGCTT-CTTGGTTGTTGTT
1 TTTTTGTTTG-TTACTTGCTTCTTGTT
33034892 T
1 T
33034893 GCTTTGCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.02, C:0.09, G:0.17, T:0.72
Consensus pattern (26 bp):
TTTTTGTTTGTTACTTGCTTCTTGTT
Found at i:33035274 original size:29 final size:29
Alignment explanation
Indices: 33035213--33035376 Score: 118
Period size: 30 Copynumber: 5.6 Consensus size: 29
33035203 GAAGTTTCTG
* * * *
33035213 GGGCAAAAATGTAATTTTAGGAAAATATG
1 GGGCTAAAATGTAATTTTAGAAAAATTTA
* * *
33035242 GGGCTAAAATGTAATTTTTGGAAATTTTA
1 GGGCTAAAATGTAATTTTAGAAAAATTTA
** *
33035271 GGGCCCAAATGTAA-TTTA-CAAAATATTA
1 GGGCTAAAATGTAATTTTAGAAAAAT-TTA
* * * *
33035299 GGGGTCAAGATGCAAATTTAGAAAAATTTA
1 GGGCT-AAAATGTAATTTTAGAAAAATTTA
*
33035329 GAGG-TCAAAATGTAATTTTTGAAAAATTTA
1 G-GGCT-AAAATGTAATTTTAGAAAAATTTA
*
33035359 GAGGCTAAAATGCAATTT
1 G-GGCTAAAATGTAATTT
33035377 ATTTTTGTAT
Statistics
Matches: 108, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.04
28 9 0.08
29 42 0.39
30 45 0.42
31 8 0.07
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (29 bp):
GGGCTAAAATGTAATTTTAGAAAAATTTA
Found at i:33035937 original size:75 final size:75
Alignment explanation
Indices: 33035846--33036596 Score: 858
Period size: 75 Copynumber: 9.8 Consensus size: 75
33035836 GTGCAGCCCA
* * *
33035846 AGGCTCAACTCACCTCTCGCATTATAAGTTGATTTTTTTGAACAACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
33035911 GCGTGACCCG
66 GCGTGACCCG
* **
33035921 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-AAAGAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGA-AAATACCTC
* * **
33035985 GGCATGGTCCG
65 AGCGTGACCCG
*
33035996 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCGAAAAATAGAAATTGAAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTT-GAAAAACAGAAATTGAAAATAC
33036061 CTCAGCGTGACCCG
62 CTCAGCGTGACCCG
* * *
33036075 AGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTT-AAAAACCAAAAATTGAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-CAGAAATTG-AAAATACCT
* *
33036139 C-GACATGACTCG
64 CAG-CGTGACCCG
* * *
33036151 AAGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTG-AAAACAGAAATTTAAAAGAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT--GA-AAATAC
33036213 CTCAGCGTGCGACCCG
62 CTCAGCGT--GACCCG
*** *
33036229 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAGACAGAAACTTAAAAGAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-ACAGAAA-TT--GA-AAATA
*
33036294 CCTCGGCATGTGACCCG
61 CCTCAGC--GTGACCCG
* *
33036311 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAATAGAAATTTAAAAGAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT--GA-AAATAC
*
33036373 CTCAGCGTGCGACCCA
62 CTCAGCGT--GACCCG
*
33036389 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAATACCTC
*
33036452 AGCGTAACCCG
65 AGCGTGACCCG
*
33036463 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
33036528 GCGTGACCCG
66 GCGTGACCCG
* * * *
33036538 AGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTGGAAAAATAAAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAAACAGAAATTGAAAA
33036597 ATAATTCTTG
Statistics
Matches: 591, Mismatches: 55, Indels: 59
0.84 0.08 0.08
Matches are distributed among these distances:
73 5 0.01
74 53 0.09
75 162 0.27
76 115 0.19
77 2 0.00
78 111 0.19
79 68 0.12
80 7 0.01
81 3 0.01
82 63 0.11
84 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
GCGTGACCCG
Found at i:33035951 original size:154 final size:150
Alignment explanation
Indices: 33035787--33036574 Score: 914
Period size: 154 Copynumber: 5.1 Consensus size: 150
33035777 CACTTATCAG
* ** * * * *
33035787 ATTATAAGTTGACCTTTGAAAAATAGAAATTTAAAAGAAAGACCTCGGTGTGCAGCCCAAGGCTC
1 ATTATGAGTTGATTTTTGAAAAACAGAAA-TTAAAAGAAATACCTCGGCGTG-A-CCCGAGGCTC
* *
33035852 AACTCACCTCTCGCATTATAAGTTGATTTTTTTGAACAACAGAAATTGAAAATACCTCAGCGTGA
63 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAATACCTCAGCGTGA
33035917 CCCGAGGCTCAACTCACCTCTCGC
127 CCCGAGGCTCAACTCACCTCTCGC
* **
33035941 ATTATGAGTTGATTTTTTTGAAAAACAG-AA--AAAAGAAATACCTCGGCATGGTCCGAGGCTCA
1 ATTATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAGAAATACCTCGGCGTGACCCGAGGCTCA
*
33036003 ACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCGAAAAATAGAAATTGAAAATACCTCAGCG
64 ACTCACCTCTCGCAATATGAGTTGA---TTTTTTT-G-AAAACAGAAATTGAAAATACCTCAGCG
*
33036068 TGACCCGAGGCTCAACTCACTTCTCGC
124 TGACCCGAGGCTCAACTCACCTCTCGC
* * * * * * *
33036095 ATTATGAGTTGATTTTTTTAAAAACCAAAAATT-GAA-AAATACCTCGACATGACTCGAAGCTCA
1 ATTATGAGTTGA-TTTTTGAAAAA-CAGAAATTAAAAGAAATACCTCGGCGTGACCCGAGGCTCA
* *
33036158 ACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAACAGAAATTTAAAAGAAATACCTCAGCGT
64 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAA-TT--GA-AAATACCTCAGCGT
33036221 GCGACCCGAGGCTCAACTCACCTCTCGC
125 --GACCCGAGGCTCAACTCACCTCTCGC
*
33036249 AATATGAGTTGATTTTTGAAAAAAGACAGAAACTTAAAAGAAATACCTCGGCATGTGACCCGAGG
1 ATTATGAGTTGATTTTTG--AAAA-ACAGAAA-TTAAAAGAAATACCTCGGC--GTGACCCGAGG
* *
33036314 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAAATTTAAAAGAAATACCTCA
60 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAA-TT--GA-AAATACCTCA
*
33036377 GCGTGCGACCCAAGGCTCAACTCACCTCTCGC
121 GCGT--GACCCGAGGCTCAACTCACCTCTCGC
* * * * *
33036409 AATATGAGTTGATTTTTGAAAAGCAGAAATT-GAA-AAATACCTCAGCGTAACCCGAGGCTCAAC
1 ATTATGAGTTGATTTTTGAAAAACAGAAATTAAAAGAAATACCTCGGCGTGACCCGAGGCTCAAC
33036472 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCC
66 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGACCC
33036537 GAGGCTCAACTCACCTCTCGC
130 GAGGCTCAACTCACCTCTCGC
*
33036558 ATTATGAGTTAATTTTT
1 ATTATGAGTTGATTTTT
33036575 TTGGAAAAAT
Statistics
Matches: 560, Mismatches: 46, Indels: 61
0.84 0.07 0.09
Matches are distributed among these distances:
148 9 0.02
149 43 0.08
150 37 0.07
151 15 0.03
152 71 0.13
153 23 0.04
154 135 0.24
155 68 0.12
156 18 0.03
157 8 0.01
158 15 0.03
160 118 0.21
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (150 bp):
ATTATGAGTTGATTTTTGAAAAACAGAAATTAAAAGAAATACCTCGGCGTGACCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCCG
AGGCTCAACTCACCTCTCGC
Found at i:33037453 original size:1 final size:1
Alignment explanation
Indices: 33037443--33037514 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
33037433 TTCATCTTGA
* * * * * * * * * *
33037443 TTTTTCTTTTTCTTTTCTATTTTCTTTTTTCTTTTTTTTTGTTTTTTTGTTTTTTTTGTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
33037508 TTTTTTT
1 TTTTTTT
33037515 GTTAGGCATA
Statistics
Matches: 51, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.01, C:0.07, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:33037489 original size:24 final size:24
Alignment explanation
Indices: 33037443--33037517 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
33037433 TTCATCTTGA
* *
33037443 TTTTTCTTTTTCTTTTCTATTTTCT-
1 TTTTTCTTTTT-TTTTGT-TTTTTTG
33037468 TTTTTCTTTTTTTTTGTTTTTTTG
1 TTTTTCTTTTTTTTTGTTTTTTTG
33037492 TTTTT-TTTGTTTTTTGTTTTTTTG
1 TTTTTCTTT-TTTTTTGTTTTTTTG
33037516 TT
1 TT
33037518 AGGCATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.17
24 27 0.59
25 11 0.24
ACGTcount: A:0.01, C:0.07, G:0.07, T:0.85
Consensus pattern (24 bp):
TTTTTCTTTTTTTTTGTTTTTTTG
Found at i:33037490 original size:25 final size:25
Alignment explanation
Indices: 33037443--33037514 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
33037433 TTCATCTTGA
* *
33037443 TTTTTCTTTTTCTTTT-CTATTTTCT
1 TTTTTCTTTTT-TTTTGTTTTTTTCT
*
33037468 TTTTTCTTTTTTTTTGTTTTTTTGT
1 TTTTTCTTTTTTTTTGTTTTTTTCT
*
33037493 TTTTT-TTGTTTTTTGTTTTTTT
1 TTTTTCTTTTTTTTTGTTTTTTT
33037515 GTTAGGCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 20 0.48
25 22 0.52
ACGTcount: A:0.01, C:0.07, G:0.06, T:0.86
Consensus pattern (25 bp):
TTTTTCTTTTTTTTTGTTTTTTTCT
Found at i:33037515 original size:8 final size:8
Alignment explanation
Indices: 33037462--33037517 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
33037452 TTCTTTTCTA
*
33037462 TTTTCTTT
1 TTTTGTTT
*
33037470 TTTCTTTTT
1 TTT-TGTTT
33037479 TTTTGTTT
1 TTTTGTTT
33037487 TTTTGTTT
1 TTTTGTTT
33037495 TTTT-TGTT
1 TTTTGT-TT
33037503 TTTTGTTT
1 TTTTGTTT
33037511 TTTTGTT
1 TTTTGTT
33037518 AGGCATAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 1 0.02
8 34 0.79
9 8 0.19
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.88
Consensus pattern (8 bp):
TTTTGTTT
Found at i:33044376 original size:30 final size:30
Alignment explanation
Indices: 33044340--33044400 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
33044330 TGCAAACAGA
33044340 TCTATCCTTCTCAAGGTATCTAGATGATTC
1 TCTATCCTTCTCAAGGTATCTAGATGATTC
*
33044370 TCTATCCTTCTCAAGGTATCTGGATGATTC
1 TCTATCCTTCTCAAGGTATCTAGATGATTC
33044400 T
1 T
33044401 GAACTAACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (30 bp):
TCTATCCTTCTCAAGGTATCTAGATGATTC
Found at i:33046290 original size:19 final size:19
Alignment explanation
Indices: 33046266--33046401 Score: 104
Period size: 19 Copynumber: 7.3 Consensus size: 19
33046256 CAACTTTTTC
*
33046266 TTTTTTTGAAAATACGAAT
1 TTTTTTTGAAAACACGAAT
* *
33046285 TTTTTTTGAAAATAC-AAG
1 TTTTTTTGAAAACACGAAT
** * *
33046303 AATTTTAG-AAACACGAAA
1 TTTTTTTGAAAACACGAAT
*
33046321 TTTTTTTAAAAACACGAA-
1 TTTTTTTGAAAACACGAAT
**
33046339 -AATTTTG-AAACACGAGAT
1 TTTTTTTGAAAACACGA-AT
33046357 TTTTTTTGAAAACACGAATT
1 TTTTTTTGAAAACACGAA-T
33046377 TTATTTTTG-AAACACGAAAT
1 TT-TTTTTGAAAACACG-AAT
33046397 TTTTT
1 TTTTT
33046402 AAAACACAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.09
17 10 0.11
18 13 0.14
19 33 0.35
20 21 0.23
21 8 0.09
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (19 bp):
TTTTTTTGAAAACACGAAT
Found at i:33046326 original size:36 final size:35
Alignment explanation
Indices: 33046269--33046781 Score: 180
Period size: 36 Copynumber: 14.4 Consensus size: 35
33046259 CTTTTTCTTT
* * *
33046269 TTTTGAAAATACGAATTTTTTTTGAAAATAC-AAGAA
1 TTTTG-AAACACGAAATTTTTTTGAAAACACGAA-AA
*
33046305 TTTTAGAAACACGAAATTTTTTTAAAAACACGAAAA
1 TTTT-GAAACACGAAATTTTTTTGAAAACACGAAAA
* *
33046341 TTTTGAAACACGAGATTTTTTTTGAAAACACGAATTTTAT
1 TTTTGAAACACGA-AATTTTTTTGAAAACACGAA----AA
*
33046381 TTTTGAAACACGAAA-TTTTTT-AAAACACAAAATTTA
1 TTTTGAAACACGAAATTTTTTTGAAAACACGAAA---A
*** * *
33046417 TTTGTGAAA-A-GATAAAAATGTTG-----A-TAAAA
1 TTT-TGAAACACGA-AATTTTTTTGAAAACACGAAAA
** *
33046446 -TACGAAACACGAGGATTTTTTTTG-AAACACGAAAA
1 TTTTGAAACACGA--AATTTTTTTGAAAACACGAAAA
*
33046481 TTTATGAAACACGATCAA--TTTTTGAAAACATGAAAA
1 TTT-TGAAACACGA--AATTTTTTTGAAAACACGAAAA
* *
33046517 TTTTTGAAAGACGAGAATTTTTTT-AAAACAC-AGAAT
1 -TTTTGAAACACGA-AATTTTTTTGAAAACACGA-AAA
* * *
33046553 TTTATGAAACACGGAGATCTTTTTTGAAAATAAGAAAA
1 TTT-TGAAACAC-GAAAT-TTTTTTGAAAACACGAAAA
* * * *
33046591 TTTTCGAAATACGGGAA--TTGTCGAAAACACGAGAAA
1 TTTT-GAAACAC-GAAATTTTTTTGAAAACACGA-AAA
* *
33046627 TTTTGAAAACACGAAA-ATTTTT-AAAACACTG-GAA
1 TTTTG-AAACACGAAATTTTTTTGAAAACAC-GAAAA
* * * * *
33046661 TTTTCAAAACATGAAGA--TTTTTG-AAGCATGAGAAT
1 TTTT-GAAACACGAA-ATTTTTTTGAAAACACGA-AAA
* * *
33046696 TTTTGAAAACACG-AA-TTTTTTGAAAACAAGGAGAT
1 TTTTG-AAACACGAAATTTTTTTGAAAAC-ACGAAAA
33046731 TTTTGAAACACGAGAAATTTTTTTGAAAACACGAAAA
1 TTTTGAAACAC--GAAATTTTTTTGAAAACACGAAAA
*
33046768 TTTTTGAGACACGA
1 -TTTTGAAACACGA
33046782 TTTTTTAAAG
Statistics
Matches: 359, Mismatches: 65, Indels: 106
0.68 0.12 0.20
Matches are distributed among these distances:
27 4 0.01
28 2 0.01
29 3 0.01
30 5 0.01
32 3 0.01
33 4 0.01
34 37 0.10
35 71 0.20
36 114 0.32
37 53 0.15
38 47 0.13
39 2 0.01
40 14 0.04
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (35 bp):
TTTTGAAACACGAAATTTTTTTGAAAACACGAAAA
Found at i:33046343 original size:20 final size:18
Alignment explanation
Indices: 33046305--33046415 Score: 93
Period size: 20 Copynumber: 6.0 Consensus size: 18
33046295 AATACAAGAA
33046305 TTTTAGAAACACGAAATTT
1 TTTTA-AAACACGAAATTT
*
33046324 TTTTAAAAACACGAAA--A
1 TTTT-AAAACACGAAATTT
* *
33046341 TTTTGAAACACGAGATTTT
1 TTTTAAAACACGA-AATTT
*
33046360 TTTTGAAAACACGAATTTTAT
1 TTTT-AAAACACGAA-ATT-T
*
33046381 TTTTGAAACACGAAA-TT
1 TTTTAAAACACGAAATTT
*
33046398 TTTTAAAACACAAAATTT
1 TTTTAAAACACGAAATTT
33046416 ATTTGTGAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
16 8 0.11
17 19 0.25
18 3 0.04
19 19 0.25
20 21 0.28
21 5 0.07
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (18 bp):
TTTTAAAACACGAAATTT
Found at i:33046506 original size:18 final size:17
Alignment explanation
Indices: 33046464--33046781 Score: 158
Period size: 17 Copynumber: 17.8 Consensus size: 17
33046454 ACGAGGATTT
33046464 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* *
33046481 TTTATGAAACACGATCAA
1 TTTTTGAAACACGA-AAA
*
33046499 TTTTTGAAAACATGAAAA
1 TTTTTG-AAACACGAAAA
* *
33046517 TTTTTGAAAGACGAGAATT
1 TTTTTGAAACACGA-AA-A
* *
33046536 TTTTTAAAACAC-AGAA
1 TTTTTGAAACACGAAAA
**
33046552 TTTTATGAAACACGGAGATCT
1 TTTT-TGAAACAC-GA-A-AA
* *
33046573 TTTTTGAAAATAAGAAAA
1 TTTTTG-AAACACGAAAA
* * **
33046591 TTTTCGAAATACGGGAA
1 TTTTTGAAACACGAAAA
* *
33046608 TTGTCGAAAACACGAGAAA
1 TTTTTG-AAACACGA-AAA
33046627 -TTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* *
33046644 TTTTTAAAACACTG-GAA
1 TTTTTGAAACAC-GAAAA
** * *
33046661 TTTTCAAAACATGAAGA
1 TTTTTGAAACACGAAAA
* * *
33046678 TTTTTGAAGCATGAGAA
1 TTTTTGAAACACGAAAA
*
33046695 TTTTTGAAAACACG-AAT
1 TTTTTG-AAACACGAAAA
* * *
33046712 TTTTTGAAAACAAGGAGA
1 TTTTTG-AAACACGAAAA
33046730 TTTTTGAAACACGAGAAA
1 TTTTTGAAACACGA-AAA
33046748 TTTTTTTGAAAACACGAAAA
1 --TTTTTG-AAACACGAAAA
*
33046768 TTTTTGAGACACGA
1 TTTTTGAAACACGA
33046782 TTTTTTAAAG
Statistics
Matches: 228, Mismatches: 52, Indels: 42
0.71 0.16 0.13
Matches are distributed among these distances:
16 5 0.02
17 107 0.47
18 66 0.29
19 21 0.09
20 13 0.06
21 16 0.07
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:33046637 original size:74 final size:74
Alignment explanation
Indices: 33046470--33046639 Score: 172
Period size: 74 Copynumber: 2.3 Consensus size: 74
33046460 ATTTTTTTTG
* * *
33046470 AAACAC-GAAAATTTATGAAACAC---GATCAATTTTTGAAAACATGAAAATTTTTGAAAGACGA
1 AAACACAG-AAATTTATGAAACACGGAGATC-TTTTTTGAAAACAAGAAAATTTTCGAAAGACGA
* **
33046531 GAATTTTTTTA
64 GAATTTGTCGA
* * * *
33046542 AAACACAGAATTTTATGAAACACGGAGATCTTTTTTGAAAATAAGAAAATTTTCGAAATACGGGA
1 AAACACAGAAATTTATGAAACACGGAGATCTTTTTTGAAAACAAGAAAATTTTCGAAAGACGAGA
33046607 A-TTGTCGA
66 ATTTGTCGA
33046615 AAACACGAGAAATTT-TGAAAACACG
1 AAACAC-AGAAATTTATG-AAACACG
33046640 AAAATTTTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
72 20 0.25
73 13 0.16
74 44 0.54
75 4 0.05
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.28
Consensus pattern (74 bp):
AAACACAGAAATTTATGAAACACGGAGATCTTTTTTGAAAACAAGAAAATTTTCGAAAGACGAGA
ATTTGTCGA
Found at i:33046705 original size:52 final size:52
Alignment explanation
Indices: 33046464--33046765 Score: 167
Period size: 52 Copynumber: 5.7 Consensus size: 52
33046454 ACGAGGATTT
* * * *
33046464 TTTTTGAAACACGA-AAATTTATG-AAACACGATCAATTTTTGAAAACATGAAAA
1 TTTTTGAAACACGAGAAATTTTTGAAAACACG---AATTTTTCAAAACAAGAAGA
* * * * * *
33046517 TTTTTGAAAGACGAGAATTTTTTTAAAACACAGAATTTTAT-GAAACACGGAGA
1 TTTTTGAAACACGAGAAATTTTTGAAAACAC-GAATTTT-TCAAAACAAGAAGA
** * ** *
33046570 TCTTTTTTGAAA-ATAAGAAAATTTTCGAAATACGGGAA-TTGTCGAAAACACGAGAA-A
1 ---TTTTTGAAACACGAG-AAATTTTTGAAA-ACACGAATTTTTC-AAAACA--AGAAGA
*
33046627 -TTTTGAAAACACGA-AAATTTTT-AAAACACTGGAA-TTTTCAAAACATGAAGA
1 TTTTTG-AAACACGAGAAATTTTTGAAAACAC--GAATTTTTCAAAACAAGAAGA
* * * *
33046678 TTTTTGAAGCATGAG-AATTTTTGAAAACACGAATTTTTTGAAAACAAGGAGA
1 TTTTTGAAACACGAGAAATTTTTGAAAACACGAA-TTTTTCAAAACAAGAAGA
33046730 TTTTTGAAACACGAGAAATTTTTTTGAAAACACGAA
1 TTTTTGAAACACGAGAAA--TTTTTGAAAACACGAA
33046766 AATTTTTGAG
Statistics
Matches: 190, Mismatches: 33, Indels: 50
0.70 0.12 0.18
Matches are distributed among these distances:
50 6 0.03
51 16 0.08
52 48 0.25
53 48 0.25
54 11 0.06
55 29 0.15
56 27 0.14
57 3 0.02
58 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (52 bp):
TTTTTGAAACACGAGAAATTTTTGAAAACACGAATTTTTCAAAACAAGAAGA
Found at i:33046766 original size:19 final size:18
Alignment explanation
Indices: 33046267--33046774 Score: 121
Period size: 17 Copynumber: 27.4 Consensus size: 18
33046257 AACTTTTTCT
* *
33046267 TTTTTTGAAAATACGAATT
1 TTTTTTGAAAACACGAA-A
*
33046286 TTTTTTGAAAATAC-AAGA
1 TTTTTTGAAAACACGAA-A
* *
33046304 ATTTTAG-AAACACGAAA
1 TTTTTTGAAAACACGAAA
*
33046321 TTTTTTTAAAAACACGAAA
1 -TTTTTTGAAAACACGAAA
* *
33046340 -ATTTTG-AAACACGAGATT
1 TTTTTTGAAAACACGA-A-A
*
33046358 TTTTTTGAAAACACGAATTT
1 TTTTTTGAAAACACGAA--A
33046378 TATTTTTG-AAACACGAAA
1 T-TTTTTGAAAACACGAAA
*
33046396 TTTTTT-AAAACACAAAA
1 TTTTTTGAAAACACGAAA
* **
33046413 TTTATTTGTGAAAAGATAAAAA
1 -TT-TTT-TGAAAACA-CGAAA
* *
33046435 TGTTGATAAAAT-ACGAAACACGAGGATT
1 T-TT--T---TTGA--AAACACGA--A-A
33046463 TTTTTTG-AAACACGAAA
1 TTTTTTGAAAACACGAAA
* *
33046480 ATTTATG-AAACACGATCAA
1 TTTTTTGAAAACACGA--AA
*
33046499 -TTTTTGAAAACATGAAA
1 TTTTTTGAAAACACGAAA
* *
33046516 ATTTTTG-AAAGACGAGAA
1 TTTTTTGAAAACACGA-AA
*
33046534 TTTTTTTAAAACAC-AGAA
1 TTTTTTGAAAACACGA-AA
* *
33046552 TTTTATG-AAACACGGAGATC
1 TTTTTTGAAAACAC-GA-A-A
* *
33046572 TTTTTTGAAAATAAGAAA
1 TTTTTTGAAAACACGAAA
* * * *
33046590 ATTTTCGAAATAC-GGGAA
1 TTTTTTGAAA-ACACGAAA
* *
33046608 -TTGTCGAAAACACGAGAA
1 TTTTTTGAAAACACGA-AA
*
33046626 -ATTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
* *
33046643 ATTTTT-AAAACACTGGAA
1 TTTTTTGAAAACAC-GAAA
* *
33046661 --TTTTCAAAACATGAAGA
1 TTTTTTGAAAACACGAA-A
* *
33046678 -TTTTTG-AAGCATGAGAA
1 TTTTTTGAAAACACGA-AA
33046695 -TTTTTGAAAACACG-AA
1 TTTTTTGAAAACACGAAA
* *
33046711 TTTTTTGAAAACAAGGAGA
1 TTTTTTGAAAAC-ACGAAA
33046730 -TTTTTG-AAACACGAGAAA
1 TTTTTTGAAAACAC--GAAA
33046748 TTTTTTTGAAAACACGAAA
1 -TTTTTTGAAAACACGAAA
*
33046767 ATTTTTGA
1 TTTTTTGA
33046775 GACACGATTT
Statistics
Matches: 371, Mismatches: 63, Indels: 111
0.68 0.12 0.20
Matches are distributed among these distances:
16 19 0.05
17 106 0.29
18 104 0.28
19 57 0.15
20 43 0.12
21 23 0.06
22 6 0.02
23 1 0.00
24 1 0.00
25 3 0.01
26 4 0.01
27 3 0.01
28 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTTGAAAACACGAAA
Found at i:33046921 original size:18 final size:18
Alignment explanation
Indices: 33046898--33046932 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33046888 TGATTCTATT
33046898 AAAACACGAGAATTTTAA
1 AAAACACGAGAATTTTAA
33046916 AAAACACGAGAATTTTA
1 AAAACACGAGAATTTTA
33046933 GAATATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAACACGAGAATTTTAA
Found at i:33048705 original size:12 final size:12
Alignment explanation
Indices: 33048688--33048714 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33048678 ATTCCGAAGT
33048688 ATATATATATAC
1 ATATATATATAC
33048700 ATATATATATAC
1 ATATATATATAC
33048712 ATA
1 ATA
33048715 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:33049229 original size:27 final size:27
Alignment explanation
Indices: 33049198--33049375 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33049188 TAAATTGTAC
33049198 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33049225 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33049251 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33049279 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33049307 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33049334 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33049361 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33049376 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33049312 original size:82 final size:81
Alignment explanation
Indices: 33049199--33049354 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33049189 AAATTGTACA
* *
33049199 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33049263 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33049280 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33049345 TGCGAGTTGA
65 TGCGAATTGA
33049355 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33049366 original size:82 final size:81
Alignment explanation
Indices: 33049195--33049375 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33049185 GATTAAATTG
* *
33049195 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33049260 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33049276 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33049340 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33049358 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33049376 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33057861 original size:38 final size:35
Alignment explanation
Indices: 33057802--33057992 Score: 156
Period size: 38 Copynumber: 5.2 Consensus size: 35
33057792 GAAAACACGA
* *
33057802 TTTTTTTAAAATACGAGAATTTTAGAAACACGA-AT
1 TTTTTTTAAAAAACGAAAATTTT-GAAACACGAGAT
33057837 TGTTTTTTAAAAAACCCGAAAATTTTGAAACACGAGA-
1 T-TTTTTTAAAAAA--CGAAAATTTTGAAACACGAGAT
* *
33057874 TTTTTTTGAAACACGAAAATTTATGAAACACG-GTCAAT
1 TTTTTTTAAAAAACGAAAATTT-TGAAACACGAG---AT
*
33057912 TTTTTTT-AAAAACGAAAATTTTTGAAAAACGAGAAT
1 TTTTTTTAAAAAACGAAAA-TTTTGAAACACGAG-AT
* * * *
33057948 TTTTTTTGAAAACACGGAAATTTATGAAACATGGAAAT
1 TTTTTTT-AAAAAACGAAAATTT-TGAAACA-CGAGAT
33057986 TTTTTTT
1 TTTTTTT
33057993 TTTGAAAACA
Statistics
Matches: 130, Mismatches: 11, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
34 10 0.08
35 10 0.08
36 31 0.24
37 32 0.25
38 45 0.35
39 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (35 bp):
TTTTTTTAAAAAACGAAAATTTTGAAACACGAGAT
Found at i:33057867 original size:37 final size:34
Alignment explanation
Indices: 33057788--33057992 Score: 150
Period size: 37 Copynumber: 5.6 Consensus size: 34
33057778 CTTTTTCTTT
*
33057788 TTTTGAAAACACG-A-TTTTTTTAAAATA-CGAGAA
1 TTTTG-AAACACGAATTTTTTTTAAAA-ACCGAAAA
33057821 TTTTAGAAACACGAATTGTTTTTTAAAAAACCCGAAAA
1 TTTT-GAAACACGAATT-TTTTTT-AAAAA-CCGAAAA
* *
33057859 TTTTGAAACACGAGATTTTTTTGAAACA-CGAAAA
1 TTTTGAAACACGA-ATTTTTTTTAAAAACCGAAAA
33057893 TTTATGAAACACGGTCAATTTTTTTTAAAAA-CGAAAA
1 TTT-TGAAACAC-G--AATTTTTTTTAAAAACCGAAAA
* * *
33057930 TTTTTGAAAAACGAGAATTTTTTTTGAAAACACGGAAA
1 -TTTTGAAACAC--GAATTTTTTTTAAAAAC-CGAAAA
*
33057968 TTTATGAAACATGGAAATTTTTTTT
1 TTT-TGAAACA-CG-AATTTTTTTT
33057993 TTTGAAAACA
Statistics
Matches: 142, Mismatches: 11, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
33 11 0.08
34 11 0.08
35 9 0.06
36 26 0.18
37 47 0.33
38 38 0.27
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (34 bp):
TTTTGAAACACGAATTTTTTTTAAAAACCGAAAA
Found at i:33057895 original size:72 final size:70
Alignment explanation
Indices: 33057787--33057992 Score: 215
Period size: 72 Copynumber: 2.8 Consensus size: 70
33057777 ACTTTTTCTT
* * *
33057787 TTTTTGAAAAC-ACGATTTTTTTAAAATACGAGAATTT-TAGAAACAC-G-AATTGTTTTTTAAA
1 TTTTTGAAAACGA-GATTTTTTTGAAACACGAAAATTTAT-GAAACACGGCAATT-TTTTTT-AA
33057848 AAACCCGAAAA
62 AAA--CGAAAA
33057859 -TTTTGAAACACGAGATTTTTTTGAAACACGAAAATTTATGAAACACGGTCAATTTTTTTTAAAA
1 TTTTTGAAA-ACGAGATTTTTTTGAAACACGAAAATTTATGAAACACGG-CAATTTTTTTTAAAA
33057923 ACGAAAA
64 ACGAAAA
* * *
33057930 TTTTTGAAAAACGAGAATTTTTTTTGAAAACACGGAAATTTATGAAACATGGAAATTTTTTTT
1 TTTTTG-AAAACGAG-A-TTTTTTTG-AAACACGAAAATTTATGAAACACGGCAATTTTTTTT
33057993 TTTGAAAACA
Statistics
Matches: 117, Mismatches: 6, Indels: 20
0.82 0.04 0.14
Matches are distributed among these distances:
71 14 0.12
72 40 0.34
73 12 0.10
74 24 0.21
75 27 0.23
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (70 bp):
TTTTTGAAAACGAGATTTTTTTGAAACACGAAAATTTATGAAACACGGCAATTTTTTTTAAAAAC
GAAAA
Found at i:33058055 original size:79 final size:76
Alignment explanation
Indices: 33057839--33058069 Score: 181
Period size: 75 Copynumber: 3.0 Consensus size: 76
33057829 ACACGAATTG
* ** *
33057839 TTTTTTAAAAAACCCGAAAA-TTTTGAAACACGAG-ATTTTTTTGAAACACGAAAATTTATG-AA
1 TTTTTTAAAAAA---GAAAATTTTTGAAAAACGAGAATTTTTTAAAAACACGGAAATTTATGAAA
**
33057901 ACACGGTCAA---TT
63 ACAC-GAAAATTTTT
* *
33057913 TTTTTTAAAAACGAAAATTTTTGAAAAACGAGAATTTTTTTTGAAAACACGGAAATTTATG-AAA
1 TTTTTTAAAAAAGAAAATTTTTGAAAAACGAGAA--TTTTTTAAAAACACGGAAATTTATGAAAA
* *
33057977 CATGGAAATTTTT
64 CACGAAAATTTTT
* * * *
33057990 TTTTTTGAAAACAAGAAAATTTTTGATATACGGGAA-TTTTTAAAAACACGGGAAATTTTTTTGA
1 TTTTTT-AAAA-AAGAAAATTTTTGAAAAACGAGAATTTTTTAAAAACAC-GGAAA--TTTATGA
33058054 AAACACGAAAATTTTT
61 AAACACGAAAATTTTT
33058070 GAAACACTGG
Statistics
Matches: 128, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
71 5 0.04
72 13 0.10
73 1 0.01
74 14 0.11
75 27 0.21
76 12 0.09
77 13 0.10
78 4 0.03
79 25 0.20
80 14 0.11
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (76 bp):
TTTTTTAAAAAAGAAAATTTTTGAAAAACGAGAATTTTTTAAAAACACGGAAATTTATGAAAACA
CGAAAATTTTT
Found at i:33058056 original size:21 final size:20
Alignment explanation
Indices: 33058026--33058069 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
33058016 TATACGGGAA
*
33058026 TTTTTAAAAACACGGGAAATT
1 TTTTTAAAAACAC-GAAAATT
*
33058047 TTTTTGAAAACACGAAAATT
1 TTTTTAAAAACACGAAAATT
33058067 TTT
1 TTT
33058070 GAAACACTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (20 bp):
TTTTTAAAAACACGAAAATT
Found at i:33058064 original size:56 final size:55
Alignment explanation
Indices: 33057989--33058143 Score: 167
Period size: 56 Copynumber: 2.9 Consensus size: 55
33057979 TGGAAATTTT
* *
33057989 TTTTTTTGAAAACAAGAAAATTTTTGATATACGGGAATTTTTAAAAACACGGGAAA
1 TTTTTTTGAAAACAAGAAAATTTTTGAAACACGGGAATTTTT-AAAACACGGGAAA
* *
33058045 TTTTTTTGAAAACACGAAAATTTTTGAAACACTGGAATTTTTAAAACAC--GAAGA
1 TTTTTTTGAAAACAAGAAAATTTTTGAAACACGGGAATTTTTAAAACACGGGAA-A
* * ** *
33058099 --TTTTTG-AAACATGAGAATTTTTGAAAACACGAAAATTTTTGAAAC
1 TTTTTTTGAAAACAAGAAAATTTTTG-AAACACGGGAATTTTTAAAAC
33058144 CCGATTTTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
51 15 0.17
52 23 0.26
53 3 0.03
54 1 0.01
55 7 0.08
56 38 0.44
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (55 bp):
TTTTTTTGAAAACAAGAAAATTTTTGAAACACGGGAATTTTTAAAACACGGGAAA
Found at i:33058093 original size:34 final size:35
Alignment explanation
Indices: 33058047--33058143 Score: 162
Period size: 34 Copynumber: 2.8 Consensus size: 35
33058037 ACGGGAAATT
33058047 TTTTTGAAAACACGAAAATTTTTGAAACACTG-GAA
1 TTTTTGAAAACACGAAAATTTTTGAAACA-TGAGAA
*
33058082 TTTTT-AAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACATGAGAA
33058116 TTTTTGAAAACACGAAAATTTTTGAAAC
1 TTTTTGAAAACACGAAAATTTTTGAAAC
33058144 CCGATTTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
33 2 0.03
34 30 0.52
35 26 0.45
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACATGAGAA
Found at i:33058143 original size:17 final size:17
Alignment explanation
Indices: 33057848--33058143 Score: 146
Period size: 17 Copynumber: 16.2 Consensus size: 17
33057838 GTTTTTTAAA
*
33057848 AAACCCGAAAA-TTTTG
1 AAACACGAAAATTTTTG
**
33057864 AAACACGAGATTTTTTTG
1 AAACACGA-AAATTTTTG
*
33057882 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
** *
33057899 AAACACGGTCAATTTTTTTT
1 AAACAC-G--AAAATTTTTG
*
33057919 AAAAACGAAAATTTTTG
1 AAACACGAAAATTTTTG
* *
33057936 AAAAACGAGAATTTTTTTTG
1 AAACACGA-AA--ATTTTTG
* *
33057956 AAAACACGGAAATTTATG
1 -AAACACGAAAATTTTTG
* *
33057974 AAACATGGAAATTTTTTTTTTTG
1 AAACA-CGAAA-----ATTTTTG
*
33057997 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* * ** *
33058015 ATATACGGGAATTTTTAA
1 AAACACGAAAATTTTT-G
*
33058033 AAACACGGGAAATTTTTTTG
1 AAACAC--GAAA-ATTTTTG
33058053 AAAACACGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
33058071 AAACACTG-GAATTTTTA
1 AAACAC-GAAAATTTTTG
*
33058088 AAACACGAAGATTTTTG
1 AAACACGAAAATTTTTG
* *
33058105 AAACATGAGAATTTTTG
1 AAACACGAAAATTTTTG
33058122 AAAACACGAAAATTTTTG
1 -AAACACGAAAATTTTTG
33058140 AAAC
1 AAAC
33058144 CCGATTTTTT
Statistics
Matches: 208, Mismatches: 48, Indels: 47
0.69 0.16 0.16
Matches are distributed among these distances:
16 8 0.04
17 87 0.42
18 56 0.27
19 5 0.02
20 21 0.10
21 17 0.08
23 9 0.04
24 5 0.02
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:33058636 original size:10 final size:10
Alignment explanation
Indices: 33058621--33058690 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 10
33058611 AATTGAACCC
33058621 TTTTTTCCTT
1 TTTTTTCCTT
33058631 TTTTTT-CTT
1 TTTTTTCCTT
*
33058640 TTTTCTTCTTTT
1 TTTT-TTC-CTT
*
33058652 TCTTTTTTCTT
1 T-TTTTTCCTT
* *
33058663 TTTTTTTCTC
1 TTTTTTCCTT
33058673 TTTTTTCTCTT
1 TTTTTTC-CTT
33058684 CTTTTTT
1 -TTTTTT
33058691 TTTGGCCTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
9 7 0.15
10 22 0.46
11 5 0.10
12 11 0.23
13 3 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCCTT
Found at i:33058661 original size:23 final size:23
Alignment explanation
Indices: 33058629--33058690 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
33058619 CCTTTTTTCC
33058629 TTTTTTTTCTTTTTTCTTCT-TT
1 TTTTTTTTCTTTTTTCTTCTCTT
*
33058651 TTCTTTTTTCTTTTTTTTTCTCTT
1 TT-TTTTTTCTTTTTTCTTCTCTT
*
33058675 TTTTCTCTTCTTTTTT
1 TTTT-TTTTCTTTTTT
33058691 TTTGGCCTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 2 0.06
23 19 0.54
24 14 0.40
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTTCTTTTTTCTTCTCTT
Found at i:33058678 original size:26 final size:26
Alignment explanation
Indices: 33058620--33058693 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
33058610 AAATTGAACC
*
33058620 CTTTTTTCCTTTTTT-TTCTTTTTTCT
1 CTTTTTT-CTTTTTTCTTTTTTTTTCT
33058646 -TCTTTTTCTTTTTTCTTTTTTTTTCT
1 CT-TTTTTCTTTTTTCTTTTTTTTTCT
*
33058672 CTTTTTTC--TCTTCTTTTTTTTT
1 CTTTTTTCTTTTTTCTTTTTTTTT
33058694 GGCCTGCTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 13 0.30
25 8 0.19
26 21 0.49
27 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (26 bp):
CTTTTTTCTTTTTTCTTTTTTTTTCT
Found at i:33058708 original size:16 final size:16
Alignment explanation
Indices: 33058689--33058733 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
33058679 CTCTTCTTTT
*
33058689 TTTTTGGCCTGCTGCC
1 TTTTGGGCCTGCTGCC
33058705 TTTTGGGCCTGC-G-C
1 TTTTGGGCCTGCTGCC
*
33058719 TATTGGGCCTGCTGC
1 TTTTGGGCCTGCTGC
33058734 TGGCGTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 12 0.48
15 2 0.08
16 11 0.44
ACGTcount: A:0.02, C:0.29, G:0.31, T:0.38
Consensus pattern (16 bp):
TTTTGGGCCTGCTGCC
Found at i:33058756 original size:15 final size:15
Alignment explanation
Indices: 33058732--33058766 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
33058722 TGGGCCTGCT
*
33058732 GCTGGCGTTGGGCTG
1 GCTGGAGTTGGGCTG
33058747 GCTGGAGTTGGGCTG
1 GCTGGAGTTGGGCTG
33058762 GCTGG
1 GCTGG
33058767 CCTGCTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.17, G:0.54, T:0.26
Consensus pattern (15 bp):
GCTGGAGTTGGGCTG
Found at i:33059191 original size:14 final size:15
Alignment explanation
Indices: 33059168--33059210 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
33059158 TCTCCTCCCT
*
33059168 TTTTCCTTTTCTT-C
1 TTTTCTTTTTCTTCC
33059182 TTTTCTTTTTCTTCC
1 TTTTCTTTTTCTTCC
*
33059197 TTTGTCTTTCTCTT
1 TTT-TCTTTTTCTT
33059211 TTATTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 4 0.16
16 9 0.36
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTCTTTTTCTTCC
Found at i:33059241 original size:23 final size:23
Alignment explanation
Indices: 33059215--33059271 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
33059205 TCTCTTTTAT
33059215 TTTTGTTTG-TTACTTGCTTCTTG
1 TTTTGTTTGCTTA-TTGCTTCTTG
* * *
33059238 TTTTTTTTGCTTATTGGTTGTTG
1 TTTTGTTTGCTTATTGCTTCTTG
33059261 -TTTGCTTTGCT
1 TTTTG-TTTGCT
33059272 AGGTGCCGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 3 0.11
23 22 0.79
24 3 0.11
ACGTcount: A:0.04, C:0.11, G:0.19, T:0.67
Consensus pattern (23 bp):
TTTTGTTTGCTTATTGCTTCTTG
Found at i:33059696 original size:30 final size:30
Alignment explanation
Indices: 33059656--33059723 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
33059646 TGTAATTTAC
* *
33059656 AAAATATTAGGGGTTAAGATACAAATTTAGA
1 AAAAT-TTAGGGGTCAAAATACAAATTTAGA
* * *
33059687 AAAATTTAGGGGTCAAAATATAATTTTTGA
1 AAAATTTAGGGGTCAAAATACAAATTTAGA
33059717 AAAATTT
1 AAAATTT
33059724 GGAGGCTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (30 bp):
AAAATTTAGGGGTCAAAATACAAATTTAGA
Found at i:33061137 original size:29 final size:29
Alignment explanation
Indices: 33061104--33061196 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
33061094 GAATCTGGTG
* *
33061104 ATTTTGTCACAATTATTCGTTATTTGGCA
1 ATTTTATCACATTTATTCGTTATTTGGCA
* * **
33061133 ATTTTATCTCATTTATTCGTTATTTTGTG
1 ATTTTATCACATTTATTCGTTATTTGGCA
*
33061162 ATTTTATCGCATTTATTCGTTATTTGGCA
1 ATTTTATCACATTTATTCGTTATTTGGCA
33061191 GATTTT
1 -ATTTT
33061197 CTGCAATTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
29 48 0.91
30 5 0.09
ACGTcount: A:0.20, C:0.12, G:0.13, T:0.55
Consensus pattern (29 bp):
ATTTTATCACATTTATTCGTTATTTGGCA
Found at i:33061206 original size:29 final size:29
Alignment explanation
Indices: 33061113--33061206 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
33061103 GATTTTGTCA
33061113 CAATTATTCGTTATTTGGCA-ATTTTATCT-
1 CAATTATTCGTTATTTGGCAGA-TTT-TCTG
* * * *
33061142 CATTTATTCGTTATTTTG-TGATTTTATCG
1 CAATTATTCGTTATTTGGCAGATTTTCT-G
*
33061171 CATTTATTCGTTATTTGGCAGATTTTCTG
1 CAATTATTCGTTATTTGGCAGATTTTCTG
33061200 CAATTAT
1 CAATTAT
33061207 ACTCATTTGG
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
27 2 0.04
28 3 0.06
29 41 0.77
30 7 0.13
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (29 bp):
CAATTATTCGTTATTTGGCAGATTTTCTG
Found at i:33065675 original size:56 final size:56
Alignment explanation
Indices: 33065615--33065773 Score: 159
Period size: 61 Copynumber: 2.8 Consensus size: 56
33065605 ATATTATATT
*
33065615 ATATTAAATTTAATATTTCATATTAATATTAAATTAATAAAATATTATCTAGATGAA
1 ATATTAAATTTAATATTTCATATTAATATTAAATTAATAAAATACTATCTAGAT-AA
*
33065672 TATTAAATTAAATTTAATATCTTGC--ATTAATATTAAACTAATAAAATACTATCTAGATAA
1 -A-T--ATTAAATTTAATAT-TT-CATATTAATATTAAATTAATAAAATACTATCTAGATAA
* *
33065732 ATATTAAA-TTAA-A-TT-AAATTAAATATTAAATTTATTAAAATA
1 ATATTAAATTTAATATTTCATATT-AATATTAAA-TTAATAAAATA
33065774 ATATTATTTT
Statistics
Matches: 88, Mismatches: 4, Indels: 22
0.77 0.04 0.19
Matches are distributed among these distances:
52 5 0.06
53 9 0.10
54 10 0.11
55 4 0.05
56 6 0.07
58 2 0.02
59 2 0.02
60 2 0.02
61 45 0.51
62 2 0.02
63 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (56 bp):
ATATTAAATTTAATATTTCATATTAATATTAAATTAATAAAATACTATCTAGATAA
Found at i:33065676 original size:66 final size:64
Alignment explanation
Indices: 33065569--33065758 Score: 246
Period size: 66 Copynumber: 3.0 Consensus size: 64
33065559 GAATTAATCA
*
33065569 CATTAATATTAAATTAATAAAATATTATCAAGATAAATATTATATTATATTAAATTTAATATTT-
1 CATTAATATTAAATTAATAAAATATTATCTAGATAAATATTATATTA-ATTAAATTTAATATTTG
*
33065633 CATATTAATATTAAATTAATAAAATATTATCTAGATGAATA-T-TA--AATTAAATTTAATATCT
1 C--ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTATATTAATTAAATTTAATAT-T
33065694 TG
63 TG
* * * *
33065696 CATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTAAATTAAATATT
1 CATTAATATTAAATTAATAAAATATTATCTAGATAAATATTATATT-AATTAAATTTAATATT
33065759 AAATTTATTA
Statistics
Matches: 110, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
61 49 0.45
62 4 0.04
63 2 0.02
64 3 0.03
65 2 0.02
66 50 0.45
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (64 bp):
CATTAATATTAAATTAATAAAATATTATCTAGATAAATATTATATTAATTAAATTTAATATTTG
Found at i:33065686 original size:61 final size:61
Alignment explanation
Indices: 33065569--33065746 Score: 243
Period size: 61 Copynumber: 2.8 Consensus size: 61
33065559 GAATTAATCA
*
33065569 CATTAATATTAAATTAATAAAATATTATCAAGATAAATATTATATTATATTAAATTTAATAT-TT
1 CATTAATATTAAATTAATAAAATATTATCTAGATAAATA-T-TA--A-ATTAAATTTAATATCTT
33065633 -
61 G
*
33065633 CATATTAATATTAAATTAATAAAATATTATCTAGATGAATATTAAATTAAATTTAATATCTTG
1 C--ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTTG
* *
33065696 CATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATT
1 CATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATT
33065747 AAATTAAATA
Statistics
Matches: 105, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
61 61 0.58
62 3 0.03
63 1 0.01
64 3 0.03
65 1 0.01
66 36 0.34
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
CATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTTG
Found at i:33065754 original size:22 final size:21
Alignment explanation
Indices: 33065728--33065779 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
33065718 TACTATCTAG
33065728 ATAAATATTAAATTAAATTAAA
1 ATAAATATTAAATT-AATTAAA
* *
33065750 TTAAATATTAAATTTATTAAA
1 ATAAATATTAAATTAATTAAA
33065771 AT-AATATTA
1 ATAAATATTA
33065780 TTTTTGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 7 0.26
21 7 0.26
22 13 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAATATTAAATTAATTAAA
Found at i:33068568 original size:16 final size:17
Alignment explanation
Indices: 33068536--33068569 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
33068526 GAGGATGACA
33068536 TTTGTTTGATATTTATT
1 TTTGTTTGATATTTATT
*
33068553 TTTGTTTG-TTTTTATT
1 TTTGTTTGATATTTATT
33068569 T
1 T
33068570 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATATTTATT
Found at i:33077882 original size:39 final size:41
Alignment explanation
Indices: 33077768--33077951 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
33077758 GCTCCTCGTT
* *
33077768 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
33077808 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
33077848 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
33077887 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
33077928 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33077952 CATCATTCAA
Statistics
Matches: 129, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.02
39 52 0.40
40 64 0.50
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:33077912 original size:79 final size:82
Alignment explanation
Indices: 33077768--33077951 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 82
33077758 GCTCCTCGTT
* *
33077768 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
33077832 GAT-TTAGT-A-TCTCGCA
66 GATATT-GTCACT-TAGCA
**
33077848 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
33077909 CGGATATTGTCACTTAGCA
64 CGGATATTGTCACTTAGCA
33077928 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33077952 CATCATTCAA
Statistics
Matches: 92, Mismatches: 5, Indels: 15
0.82 0.04 0.13
Matches are distributed among these distances:
78 14 0.15
79 54 0.59
80 23 0.25
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATATTGTCACTTAGCA
Found at i:33079044 original size:11 final size:12
Alignment explanation
Indices: 33079028--33079052 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33079018 AGGATGAGCA
33079028 TTTTTTTTTCTT
1 TTTTTTTTTCTT
33079040 TTTTTTTTTCTT
1 TTTTTTTTTCTT
33079052 T
1 T
33079053 CTAGTTTCGG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:33085956 original size:28 final size:28
Alignment explanation
Indices: 33085893--33086102 Score: 323
Period size: 28 Copynumber: 7.5 Consensus size: 28
33085883 ATATTAAGTC
*
33085893 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33085920 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
33085948 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
33085976 TGCACACTTAGTGCTATATAATCATACT
1 CGCACACTTAGTGCTATATAATCAAACT
33086004 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
33086032 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33086060 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33086089 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33086103 CAATCTCATG
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 22 0.13
28 128 0.76
29 18 0.11
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33105240 original size:40 final size:40
Alignment explanation
Indices: 33105185--33105263 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
33105175 TTCGGGAAAG
33105185 CTCAAATCCCGATGGAAAGGACCTTATACCATTCATAGAT
1 CTCAAATCCCGATGGAAAGGACCTTATACCATTCATAGAT
33105225 CTCAAATCCCGATGGAAAGGACCTTATACCATTCATAGA
1 CTCAAATCCCGATGGAAAGGACCTTATACCATTCATAGA
33105264 GATTATCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (40 bp):
CTCAAATCCCGATGGAAAGGACCTTATACCATTCATAGAT
Found at i:33105594 original size:6 final size:6
Alignment explanation
Indices: 33105583--33105616 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
33105573 ATCTAAAAGT
33105583 TTTTAA TTTTAA TTTTAA TTTTGTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA -TTT-TAA TTTTAA TT
33105617 GTCTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:33105611 original size:14 final size:13
Alignment explanation
Indices: 33105583--33105616 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
33105573 ATCTAAAAGT
33105583 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
33105595 TTTTAATTTTGTAA
1 TTTTAATTTT-TAA
33105609 TTTTAATT
1 TTTTAATT
33105617 GTCTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 3 0.15
14 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:33106320 original size:15 final size:15
Alignment explanation
Indices: 33106300--33106330 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33106290 CTATATGTAA
33106300 GAATCAACCCATGAT
1 GAATCAACCCATGAT
33106315 GAATCAACCCATGAT
1 GAATCAACCCATGAT
33106330 G
1 G
33106331 TTGTAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (15 bp):
GAATCAACCCATGAT
Found at i:33113714 original size:47 final size:47
Alignment explanation
Indices: 33113636--33114050 Score: 695
Period size: 47 Copynumber: 8.7 Consensus size: 47
33113626 CCCTTCGGGA
* * * * * *
33113636 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33113683 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33113730 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33113777 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33113824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33113871 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33113918 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33113967 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33114016 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
33114051 AGAATCCTAA
Statistics
Matches: 352, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 257 0.73
49 95 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33115212 original size:18 final size:18
Alignment explanation
Indices: 33115189--33115230 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
33115179 CATATGCATT
33115189 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
33115207 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
33115225 TTTAAT
1 TTTAAT
33115231 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:33119482 original size:25 final size:25
Alignment explanation
Indices: 33119438--33119548 Score: 82
Period size: 25 Copynumber: 4.4 Consensus size: 25
33119428 GTACATGTAT
*** * *
33119438 GCTCATACGAGCTATGAATCGGTAT
1 GCTCATACGAGCTGCAAATCAGTAA
* *
33119463 GCTCTTATGAGCTGCAAATCAGTAA
1 GCTCATACGAGCTGCAAATCAGTAA
**
33119488 GCTCATACGAGCTG-AGAATTGGTAA
1 GCTCATACGAGCTGCA-AATCAGTAA
* **
33119513 GCTC-TCACGAGCTGTAAATTTGTAA
1 GCTCAT-ACGAGCTGCAAATCAGTAA
33119538 GCTCATACGAG
1 GCTCATACGAG
33119549 TTTTGGTGTG
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
24 2 0.03
25 66 0.94
26 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGCAAATCAGTAA
Found at i:33119517 original size:50 final size:50
Alignment explanation
Indices: 33119438--33119548 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
33119428 GTACATGTAT
* * *
33119438 GCTCATACGAGCTATGAATCGGTATGCTCTTATGAGCTGCAAATCAGTAA
1 GCTCATACGAGCTATGAATCGGTAAGCTCTCACGAGCTGCAAATCAGTAA
* * **
33119488 GCTCATACGAGCTGA-GAATTGGTAAGCTCTCACGAGCTGTAAATTTGTAA
1 GCTCATACGAGCT-ATGAATCGGTAAGCTCTCACGAGCTGCAAATCAGTAA
33119538 GCTCATACGAG
1 GCTCATACGAG
33119549 TTTTGGTGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
GCTCATACGAGCTATGAATCGGTAAGCTCTCACGAGCTGCAAATCAGTAA
Found at i:33124952 original size:11 final size:11
Alignment explanation
Indices: 33124936--33124972 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
33124926 TCTATCGATT
33124936 TTATACAATAA
1 TTATACAATAA
33124947 TTATACAATAA
1 TTATACAATAA
33124958 TTATACAATAA
1 TTATACAATAA
33124969 TTAT
1 TTAT
33124973 GGAGGTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (11 bp):
TTATACAATAA
Found at i:33128253 original size:15 final size:16
Alignment explanation
Indices: 33128224--33128253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33128214 GAAACCTACT
33128224 TTAACACATTATCAAA
1 TTAACACATTATCAAA
33128240 TTAACACA-TATCAA
1 TTAACACATTATCAA
33128254 TAAAGCACCA
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:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:33129602 original size:11 final size:11
Alignment explanation
Indices: 33129586--33129622 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
33129576 TCTATCGATT
33129586 TTATACAATAA
1 TTATACAATAA
33129597 TTATACAATAA
1 TTATACAATAA
33129608 TTATACAATAA
1 TTATACAATAA
33129619 TTAT
1 TTAT
33129623 GGAGGTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (11 bp):
TTATACAATAA
Found at i:33132903 original size:15 final size:16
Alignment explanation
Indices: 33132874--33132903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33132864 GAAACCTACT
33132874 TTAACACATTATCAAA
1 TTAACACATTATCAAA
33132890 TTAACACA-TATCAA
1 TTAACACATTATCAA
33132904 TAAAGCACCA
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:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:33141775 original size:21 final size:21
Alignment explanation
Indices: 33141749--33141791 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
33141739 GATTTTTTTT
33141749 ATAGATTATGAAT-CTTTGTTG
1 ATAGATTATGAATAC-TTGTTG
33141770 ATAGATTATGAATACTTGTTG
1 ATAGATTATGAATACTTGTTG
33141791 A
1 A
33141792 AAAATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (21 bp):
ATAGATTATGAATACTTGTTG
Found at i:33143479 original size:12 final size:12
Alignment explanation
Indices: 33143462--33143491 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33143452 TCAGTGAGTT
33143462 ACACGGCCTAGC
1 ACACGGCCTAGC
*
33143474 ACACGGCCTGGC
1 ACACGGCCTAGC
33143486 ACACGG
1 ACACGG
33143492 GTGTGTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:33171086 original size:40 final size:40
Alignment explanation
Indices: 33171049--33171231 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
33171039 GCTACTCGTT
*
33171049 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
33171089 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
33171129 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
33171168 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
33171209 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
33171232 TACATCATTC
Statistics
Matches: 123, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 76 0.62
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:33171160 original size:79 final size:81
Alignment explanation
Indices: 33171049--33171231 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
33171039 GCTACTCGTT
* *
33171049 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
33171113 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
33171129 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33171192 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
33171209 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
33171232 TACATCATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 4 0.04
79 55 0.61
80 31 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:33173384 original size:27 final size:26
Alignment explanation
Indices: 33173327--33173384 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
33173317 GTAAAATTAC
*
33173327 CATTTTACCCCTAGGGGTATTATGGT
1 CATTTTACCCCTAAGGGTATTATGGT
* * * *
33173353 TATTTTACCCTTCAAGGGTATTTTTGT
1 CATTTTACCCCT-AAGGGTATTATGGT
33173380 CATTT
1 CATTT
33173385 GACAACCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (26 bp):
CATTTTACCCCTAAGGGTATTATGGT
Found at i:33175811 original size:13 final size:13
Alignment explanation
Indices: 33175793--33175817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33175783 GAGATTTAAT
33175793 TTGATTATGTAAA
1 TTGATTATGTAAA
33175806 TTGATTATGTAA
1 TTGATTATGTAA
33175818 TCTTGTAAAC
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:33191769 original size:31 final size:31
Alignment explanation
Indices: 33191731--33191896 Score: 151
Period size: 31 Copynumber: 5.4 Consensus size: 31
33191721 TAATCACATT
33191731 AATATTAAATTAATAAAATATTATCAAGATA
1 AATATTAAATTAATAAAATATTATCAAGATA
** * * *
33191762 AATATTAAATT-A-AATTTATTATCTCATATT
1 AATATTAAATTAATAAAATATTATC-AAGATA
** *
33191792 AATATTAAATTAATAAAATATTATCTTGATG
1 AATATTAAATTAATAAAATATTATCAAGATA
** * * *
33191823 AATATTAAATT-A-AATTTATTATATAATATT
1 AATATTAAATTAATAAAATATTAT-CAAGATA
* *
33191853 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATATTATCAAGATA
33191884 AATATTAAATTAA
1 AATATTAAATTAA
33191897 ATATAAGATT
Statistics
Matches: 104, Mismatches: 25, Indels: 12
0.74 0.18 0.09
Matches are distributed among these distances:
29 17 0.16
30 29 0.28
31 42 0.40
32 16 0.15
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (31 bp):
AATATTAAATTAATAAAATATTATCAAGATA
Found at i:33191827 original size:61 final size:61
Alignment explanation
Indices: 33191728--33191898 Score: 288
Period size: 61 Copynumber: 2.8 Consensus size: 61
33191718 AATTAATCAC
* * *
33191728 ATTAATATTAAATTAATAAAATATTATCAAGATAAATATTAAATTAAATTTATTATCTCAT
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTATTATATAAT
* *
33191789 ATTAATATTAAATTAATAAAATATTATCTTGATGAATATTAAATTAAATTTATTATATAAT
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTATTATATAAT
*
33191850 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAAT
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAAT
33191899 ATAAGATTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 102 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTATTATATAAT
Found at i:33192731 original size:17 final size:17
Alignment explanation
Indices: 33192709--33192741 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33192699 GAGATTTTCC
33192709 AAATTAATTT-TTCAAAA
1 AAATT-ATTTATTCAAAA
33192726 AAATTATTTATTCAAA
1 AAATTATTTATTCAAA
33192742 TTCTCTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTATTTATTCAAAA
Found at i:33212740 original size:15 final size:15
Alignment explanation
Indices: 33212720--33212755 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
33212710 AAATAATATA
*
33212720 TAAATTGGATTGAAT
1 TAAATTGAATTGAAT
33212735 TAAATTGAATTGAAT
1 TAAATTGAATTGAAT
33212750 TGAAAT
1 T-AAAT
33212756 AAGTAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (15 bp):
TAAATTGAATTGAAT
Found at i:33214940 original size:17 final size:17
Alignment explanation
Indices: 33214918--33214955 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
33214908 CAAACGAACT
33214918 AAGTGACAAGTGCAAGA
1 AAGTGACAAGTGCAAGA
33214935 AAGTGACAAGTGCAAGA
1 AAGTGACAAGTGCAAGA
33214952 AAGT
1 AAGT
33214956 AAAAATGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.11, G:0.29, T:0.13
Consensus pattern (17 bp):
AAGTGACAAGTGCAAGA
Found at i:33229334 original size:19 final size:19
Alignment explanation
Indices: 33229312--33229349 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33229302 TAATGAAGGA
33229312 ATTATATGATATTATTAAT
1 ATTATATGATATTATTAAT
33229331 ATTATATGATATTATTAAT
1 ATTATATGATATTATTAAT
33229350 CTCTTTTTGG
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:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTATATGATATTATTAAT
Found at i:33230411 original size:18 final size:18
Alignment explanation
Indices: 33230390--33230425 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33230380 AAAAGGAAAT
33230390 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
33230408 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
33230426 GCACTTGACA
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:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:33232005 original size:30 final size:30
Alignment explanation
Indices: 33231940--33232006 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
33231930 TAAAAAAATT
* *
33231940 ATGAAATAAAAATTAATTAAAATTACATAA
1 ATGAAATAAAAATTAAATAAAATTACAAAA
*
33231970 ATGAAA-AAAATATTAAATAAGATT-CAAAA
1 ATGAAATAAAA-ATTAAATAAAATTACAAAA
33231999 ATTGAAAT
1 A-TGAAAT
33232007 TAACCCTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (30 bp):
ATGAAATAAAAATTAAATAAAATTACAAAA
Found at i:33243638 original size:2 final size:2
Alignment explanation
Indices: 33243633--33243662 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33243623 ATATATATAT
*
33243633 AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33243663 TACGGATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33245512 original size:15 final size:15
Alignment explanation
Indices: 33245492--33245522 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33245482 GTTATGTAAG
33245492 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
33245507 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
33245522 T
1 T
33245523 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:33249841 original size:15 final size:15
Alignment explanation
Indices: 33249821--33249851 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33249811 GTTATGTAAG
33249821 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
33249836 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
33249851 T
1 T
33249852 ATGTTGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:33252330 original size:15 final size:16
Alignment explanation
Indices: 33252306--33252335 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33252296 TTAAATATGA
33252306 TAAAAGTAAAAATAAT
1 TAAAAGTAAAAATAAT
33252322 TAAAA-TAAAAATAA
1 TAAAAGTAAAAATAA
33252336 CTATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAAAGTAAAAATAAT
Found at i:33256379 original size:12 final size:12
Alignment explanation
Indices: 33256362--33256388 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33256352 GTTCATGAGC
33256362 TTCATGGATGCT
1 TTCATGGATGCT
33256374 TTCATGGATGCT
1 TTCATGGATGCT
33256386 TTC
1 TTC
33256389 TCGAGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (12 bp):
TTCATGGATGCT
Found at i:33259807 original size:69 final size:69
Alignment explanation
Indices: 33259725--33259928 Score: 345
Period size: 69 Copynumber: 3.0 Consensus size: 69
33259715 CGTGAAGAGA
*
33259725 TGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATTA
1 TGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAA
33259790 AAAC
66 AAAC
*
33259794 TGTAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAA
1 TGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAA
*
33259859 AAAT
66 AAAC
* * * *
33259863 TGCAACCTCCAACATAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGTAGGATAA
1 TGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAA
33259928 A
66 A
33259929 GACTACAACC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 127 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (69 bp):
TGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAA
AAAC
Found at i:33259938 original size:69 final size:68
Alignment explanation
Indices: 33259730--33259958 Score: 341
Period size: 69 Copynumber: 3.3 Consensus size: 68
33259720 AGAGATGTAG
33259730 CCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATTAAAACT
1 CCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGA-TAAAACT
* *
33259795 GTAG
65 GCAA
* *
33259799 CCTCCAACACAGTTAGTAAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAAAAATT
1 CCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGAT-AAAACT
33259864 GCAA
65 GCAA
* *
33259868 CCTCCAACATAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGTAGGATAAAGACT
1 CCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAAA-ACT
*
33259933 ACAA
65 GCAA
* * *
33259937 CCTCTAACATAGTTAGCGAGAG
1 CCTCCAACACAGTTAGTGAGAG
33259959 TTAAAAACTC
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
68 4 0.03
69 143 0.97
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (68 bp):
CCTCCAACACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGATAAAACTG
CAA
Found at i:33260058 original size:57 final size:56
Alignment explanation
Indices: 33259967--33260174 Score: 240
Period size: 57 Copynumber: 3.6 Consensus size: 56
33259957 AGTTAAAAAC
* * *
33259967 TCCCAGGTGTGTTATCTTTCAAAATTTTCTTAAGTAT-AATACAACTTGCGG-TTTCACA
1 TCCCAGTTG-GTTATCTTTC-AAATTTTCTTAAGTATGAA-ACAGCTTGCGGATCT-ACA
* * * * * *
33260025 TACCCAGCTGTTTATCTTTTAAATTTTCTTAAGTATGAAACAGCTTACGCATCTATA
1 T-CCCAGTTGGTTATCTTTCAAATTTTCTTAAGTATGAAACAGCTTGCGGATCTACA
*
33260082 TCCCCAGTTGGTTATCTTTCAAATTTTTTTAAGTATGAAACAGCTTGCGGATCTACA
1 T-CCCAGTTGGTTATCTTTCAAATTTTCTTAAGTATGAAACAGCTTGCGGATCTACA
*
33260139 TCCCAAGTTGGTTATCTTTCAAATTTTCTCAAGTAT
1 TCCC-AGTTGGTTATCTTTCAAATTTTCTTAAGTAT
33260175 AAAGTTGCTC
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
56 3 0.02
57 105 0.82
58 13 0.10
59 7 0.05
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (56 bp):
TCCCAGTTGGTTATCTTTCAAATTTTCTTAAGTATGAAACAGCTTGCGGATCTACA
Found at i:33260202 original size:114 final size:116
Alignment explanation
Indices: 33259967--33260174 Score: 273
Period size: 114 Copynumber: 1.8 Consensus size: 116
33259957 AGTTAAAAAC
*
33259967 TCCCAGGTGTGTTATCTTTCAAAATTTTCTTAAGTATAATACAACTTGCGGTTTCACATACCCAG
1 TCCCAGGTGTGTTATCTTTCAAAATTTTCTTAAGTATAATACAACTTGCGGTCTCACATACCCAG
* * *
33260032 CTGTTTATCTTTTAAATTTTCTTAAGTATGAAACAGCTTACGCATCTATAT
66 CTGGTTATCTTTCAAATTTTCTCAAGTATGAAACAGCTTACGCATCTATAT
* * * *
33260083 CCCCAGTTG-GTTATCTTTC-AAATTTTTTTAAGTATGAA-ACAGCTTGCGGATCT-ACAT-CCC
1 TCCCAGGTGTGTTATCTTTCAAAATTTTCTTAAGTAT-AATACAACTTGCGG-TCTCACATACCC
*
33260143 AAGTTGGTTATCTTTCAAATTTTCTCAAGTAT
64 -AGCTGGTTATCTTTCAAATTTTCTCAAGTAT
33260175 AAAGTTGCTC
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
113 3 0.04
114 56 0.70
115 14 0.17
116 7 0.09
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (116 bp):
TCCCAGGTGTGTTATCTTTCAAAATTTTCTTAAGTATAATACAACTTGCGGTCTCACATACCCAG
CTGGTTATCTTTCAAATTTTCTCAAGTATGAAACAGCTTACGCATCTATAT
Found at i:33263676 original size:25 final size:24
Alignment explanation
Indices: 33263622--33263737 Score: 92
Period size: 25 Copynumber: 4.7 Consensus size: 24
33263612 ACCCCGTTAT
*
33263622 ATGGCTCTCACGAG-TTTCCTGATA
1 ATGGCTCTCATGAGCTTTCC-GATA
*
33263646 TGTGGCTCTCATGAGCTTTCCGATTA
1 -ATGGCTCTCATGAGCTTTCCGA-TA
* * * *
33263672 ATGGCTCTCTTGAGCTTTCTGTTT
1 ATGGCTCTCATGAGCTTTCCGATA
*
33263696 ATGGCTCGCATGAGC-TTCTCGATA
1 ATGGCTCTCATGAGCTTTC-CGATA
* *
33263720 ATTGGCTCACAAGAGCTT
1 A-TGGCTCTCATGAGCTT
33263738 CCCGTTTACA
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
23 3 0.04
24 17 0.24
25 44 0.61
26 8 0.11
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (24 bp):
ATGGCTCTCATGAGCTTTCCGATA
Found at i:33263745 original size:49 final size:49
Alignment explanation
Indices: 33263648--33263745 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 49
33263638 TCCTGATATG
* * ** * *
33263648 TGGCTCTCATGAGCTTTCCGATTAATGGCTCTCTTGAGCTTTCTGTTTA
1 TGGCTCGCATGAGCTTTCCGATTAATGGCTCACAAGAGCTTCCCGTTTA
33263697 TGGCTCGCATGAGC-TTCTCGA-TAATTGGCTCACAAGAGCTTCCCGTTTA
1 TGGCTCGCATGAGCTTTC-CGATTAA-TGGCTCACAAGAGCTTCCCGTTTA
33263746 CATGCTCTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
48 6 0.15
49 35 0.85
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (49 bp):
TGGCTCGCATGAGCTTTCCGATTAATGGCTCACAAGAGCTTCCCGTTTA
Found at i:33277378 original size:70 final size:70
Alignment explanation
Indices: 33277265--33277662 Score: 447
Period size: 70 Copynumber: 5.7 Consensus size: 70
33277255 TTGAGCTCGT
* * * * *
33277265 GCTAACTATTTCGAGGCTGTGATATCAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAA
33277330 CTCTC
66 CTCTC
* * * * * *
33277335 GCTAACTGTTTGAAGGCTGTGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAA
33277400 CTCTC
66 CTCTC
* * * * * *
33277405 GCTAACTATTTGGAGGCTGAGGTATTAAACCTGCGAGCCTTAGAGTGATA-CTTAGGAGCTTTTA
1 GCTAACTATTTGGAGGCTGCGATATTAAACCTACGAGCCTTAGAATGACAGC-TGGGAGCTTTTA
33277469 ACTCTC
65 ACTCTC
* * * ** * ** * *
33277475 ACTAATTGTTTAAAGGTTGCGATATTAAACCTGGGAGCCTTAGATTGACAGTTGGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAA
33277540 CTCTC
66 CTCTC
* * *
33277545 GCTAACTATTTGGAGGCGGCGATATTAAACCTACGAGCCTTAGAGTGACAGTTGGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAA
*
33277610 CACTC
66 CTCTC
* * * * * *
33277615 ACTAATTGTTTGGAGGCTGCGGTATTAAACCTACAAGCTTTAGAATGA
1 GCTAACTATTTGGAGGCTGCGATATTAAACCTACGAGCCTTAGAATGA
33277663 TAAATACAAA
Statistics
Matches: 280, Mismatches: 46, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
69 1 0.00
70 279 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (70 bp):
GCTAACTATTTGGAGGCTGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAA
CTCTC
Found at i:33277461 original size:140 final size:140
Alignment explanation
Indices: 33277265--33277664 Score: 541
Period size: 140 Copynumber: 2.9 Consensus size: 140
33277255 TTGAGCTCGT
* * * *
33277265 GCTAACTATTTCGAGGCTGTGATATCAAACCTACGAGCCTTAGAATGACAAC-TAGGAGCTTTTA
1 GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGA-AACTTAGGAGCTTTTA
* * *
33277329 ACTCTCGCTAACTGTTTGAAGGCTGTGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGC
65 ACTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGC
33277394 TTTTAACTCTC
130 TTTTAACTCTC
* * *
33277405 GCTAACTATTTGGAGGCTGAGGTATTAAACCTGCGAGCCTTAGAGTGATACTTAGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGAAACTTAGGAGCTTTTAA
* * * * * * *
33277470 CTCTCACTAATTGTTTAAAGGTTGCGATATTAAACCTGGGAGCCTTAGATTGACAGTTGGGAGCT
66 CTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGCT
33277535 TTTAACTCTC
131 TTTAACTCTC
* * * * *
33277545 GCTAACTATTTGGAGGCGGCGATATTAAACCTACGAGCCTTAGAGTGACAGTTGGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGAAACTTAGGAGCTTTTAA
* * * * *
33277610 CACTCACTAATTGTTTGGAGGCTGCGGTATTAAACCTACAAGCTTTAGAATGATA
66 CTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATA
33277665 AATACAAATA
Statistics
Matches: 224, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
139 2 0.01
140 222 0.99
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (140 bp):
GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGAAACTTAGGAGCTTTTAA
CTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGCT
TTTAACTCTC
Found at i:33277575 original size:210 final size:210
Alignment explanation
Indices: 33277285--33277664 Score: 535
Period size: 210 Copynumber: 1.8 Consensus size: 210
33277275 TCGAGGCTGT
*
33277285 GATATCAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAACTCTCGCTAACTGTTTGAAG
1 GATATCAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAACTCTCGCTAACTATTTGAAG
* * * * * * *
33277350 GCTGTGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGCTTTTAACTCTCGCTAACTATT
66 GCGGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAACACTCACTAACTATT
* * *
33277415 TGGAGGCTGAGGTATTAAACCTGCGAGCCTTAGAGTGATACTTAGGAGCTTTTAACTCTCACTAA
131 TGGAGGCTGAGGTATTAAACCTACAAGCCTTAGAATGATACTTAGGAGCTTTTAACTCTCACTAA
33277480 TTGTTTAAAGGTTGC
196 TTGTTTAAAGGTTGC
* ** * ** * *
33277495 GATATTAAACCTGGGAGCCTTAGATTGACAGTTGGGAGCTTTTAACTCTCGCTAACTATTTGGAG
1 GATATCAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAACTCTCGCTAACTATTTGAAG
* * * *
33277560 GCGGCGATATTAAACCTACGAGCCTTAGAGTGACAGTTGGGAGCTTTTAACACTCACTAATTGTT
66 GCGGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAACACTCACTAACTATT
* *
33277625 TGGAGGCTGCGGTATTAAACCTACAAGCTTTAGAATGATA
131 TGGAGGCTGAGGTATTAAACCTACAAGCCTTAGAATGATA
33277665 AATACAAATA
Statistics
Matches: 145, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
210 145 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (210 bp):
GATATCAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAACTCTCGCTAACTATTTGAAG
GCGGCGATATTAAACCTACGAGCCTTAGAATGACAGCTGGGAGCTTTTAACACTCACTAACTATT
TGGAGGCTGAGGTATTAAACCTACAAGCCTTAGAATGATACTTAGGAGCTTTTAACTCTCACTAA
TTGTTTAAAGGTTGC
Found at i:33278061 original size:23 final size:23
Alignment explanation
Indices: 33278027--33278077 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
33278017 AGCCTGAAAA
*
33278027 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
33278050 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
33278073 AGTAA
1 TGTAA
33278078 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:33297899 original size:723 final size:723
Alignment explanation
Indices: 33296513--33297959 Score: 2867
Period size: 723 Copynumber: 2.0 Consensus size: 723
33296503 CTAAAGGTTG
33296513 GAGTGCTTGCAAGTGCCCAAACAGAATCCGTATGCACAGCATATGAATGCACACAGCGTTGCTGA
1 GAGTGCTTGCAAGTGCCCAAACAGAATCCGTATGCACAGCATATGAATGCACACAGCGTTGCTGA
33296578 CCAAGGTCCCATAGCCTACAAGTTAAAATTACAACTGCTTGAAAGGCATGGTCTTAAATTATTTA
66 CCAAGGTCCCATAGCCTACAAGTTAAAATTACAACTGCTTGAAAGGCATGGTCTTAAATTATTTA
*
33296643 TGGTTGAAAACAGCATGAGGTTCAACAGTGAAACAATAAACAAATTGTGTACCTGATCATAGAAT
131 TGGTTGAAAACAGCATGAGGTTCAACAGCGAAACAATAAACAAATTGTGTACCTGATCATAGAAT
33296708 CAGACGACCCCGATAAACAATATCTGAAAGATAACAAAATGTCTGTCAAACACTTAACTAATGAA
196 CAGACGACCCCGATAAACAATATCTGAAAGATAACAAAATGTCTGTCAAACACTTAACTAATGAA
33296773 ATAAATAAAGCACAGAAGAGAATAAAATCAAATAACATAATTCATTAGCAGTCAATCAAGGGAAG
261 ATAAATAAAGCACAGAAGAGAATAAAATCAAATAACATAATTCATTAGCAGTCAATCAAGGGAAG
*
33296838 AACCTATAAGATAAAAACAAATACCCTGATACATTAAAAGAAGTATTCATCCCAATTTCACTTGA
326 AACCTATAAGATAAAAACAAAGACCCTGATACATTAAAAGAAGTATTCATCCCAATTTCACTTGA
*
33296903 AAGCAGTTATAAAATGTGCACATGTGCATCTATATAAAGCCATAACAAGGTTTAGTCTCCACTGT
391 AAGCAGTTATAAAATGTGCACATATGCATCTATATAAAGCCATAACAAGGTTTAGTCTCCACTGT
33296968 TCAACCACCCATTCGTTATAAAAATCTTTACCATCATAGGACCATTATTAATATACTAAAATTTT
456 TCAACCACCCATTCGTTATAAAAATCTTTACCATCATAGGACCATTATTAATATACTAAAATTTT
33297033 ACAATCAGATGAGTTTACACCACCGCAATAGAAGAGTTTGGCAGTCACAATAGAAAATAATCAGA
521 ACAATCAGATGAGTTTACACCACCGCAATAGAAGAGTTTGGCAGTCACAATAGAAAATAATCAGA
33297098 TGACAAATACGCGTCATATGACACATGCTAAAGCTATTGTAAGCTTCCAACTAATGTCAAGTTAA
586 TGACAAATACGCGTCATATGACACATGCTAAAGCTATTGTAAGCTTCCAACTAATGTCAAGTTAA
33297163 TTCTATTTGTAACTCAAAAAGCGACTGGAGCTGAATTCATTGCACCAACCTGCCAGTAGAATCCA
651 TTCTATTTGTAACTCAAAAAGCGACTGGAGCTGAATTCATTGCACCAACCTGCCAGTAGAATCCA
33297228 TAAGTAGA
716 TAAGTAGA
33297236 GAGTGCTTGCAAGTGCCCAAACAGAATCCGTATGCACAGCATATGAATGCACACAGCGTTGCTGA
1 GAGTGCTTGCAAGTGCCCAAACAGAATCCGTATGCACAGCATATGAATGCACACAGCGTTGCTGA
33297301 CCAAGGTCCCATAGCCTACAAGTTAAAATTACAACTGCTTGAAAGGCATGGTCTTAAATTATTTA
66 CCAAGGTCCCATAGCCTACAAGTTAAAATTACAACTGCTTGAAAGGCATGGTCTTAAATTATTTA
33297366 TGGTTGAAAACAGCATGAGGTTCAACAGCGAAACAATAAACAAATTGTGTACCTGATCATAGAAT
131 TGGTTGAAAACAGCATGAGGTTCAACAGCGAAACAATAAACAAATTGTGTACCTGATCATAGAAT
33297431 CAGACGACCCCGATAAACAATATCTGAAAGATAACAAAATGTCTGTCAAACACTTAACTAATGAA
196 CAGACGACCCCGATAAACAATATCTGAAAGATAACAAAATGTCTGTCAAACACTTAACTAATGAA
33297496 ATAAATAAAGCACAGAAGAGAATAAAATCAAATAACATAATTCATTAGCAGTCAATCAAGGGAAG
261 ATAAATAAAGCACAGAAGAGAATAAAATCAAATAACATAATTCATTAGCAGTCAATCAAGGGAAG
33297561 AACCTATAAGATAAAAACAAAGACCCTGATACATTAAAAGAAGTATTCATCCCAATTTCACTTGA
326 AACCTATAAGATAAAAACAAAGACCCTGATACATTAAAAGAAGTATTCATCCCAATTTCACTTGA
33297626 AAGCAGTTATAAAATGTGCACATATGCATCTATATAAAGCCATAACAAGGTTTAGTCTCCACTGT
391 AAGCAGTTATAAAATGTGCACATATGCATCTATATAAAGCCATAACAAGGTTTAGTCTCCACTGT
33297691 TCAACCACCCATTCGTTATAAAAATCTTTACCATCATAGGACCATTATTAATATACTAAAATTTT
456 TCAACCACCCATTCGTTATAAAAATCTTTACCATCATAGGACCATTATTAATATACTAAAATTTT
33297756 ACAATCAGATGAGTTTACACCACCGCAATAGAAGAGTTTGGCAGTCACAATAGAAAATAATCAGA
521 ACAATCAGATGAGTTTACACCACCGCAATAGAAGAGTTTGGCAGTCACAATAGAAAATAATCAGA
33297821 TGACAAATACGCGTCATATGACACATGCTAAAGCTATTGTAAGCTTCCAACTAATGTCAAGTTAA
586 TGACAAATACGCGTCATATGACACATGCTAAAGCTATTGTAAGCTTCCAACTAATGTCAAGTTAA
33297886 TTCTATTTGTAACTCAAAAAGCGACTGGAGCTGAATTCATTGCACCAACCTGCCAGTAGAATCCA
651 TTCTATTTGTAACTCAAAAAGCGACTGGAGCTGAATTCATTGCACCAACCTGCCAGTAGAATCCA
33297951 TAAGTAGA
716 TAAGTAGA
33297959 G
1 G
33297960 CCCTAATGTT
Statistics
Matches: 721, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
723 721 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (723 bp):
GAGTGCTTGCAAGTGCCCAAACAGAATCCGTATGCACAGCATATGAATGCACACAGCGTTGCTGA
CCAAGGTCCCATAGCCTACAAGTTAAAATTACAACTGCTTGAAAGGCATGGTCTTAAATTATTTA
TGGTTGAAAACAGCATGAGGTTCAACAGCGAAACAATAAACAAATTGTGTACCTGATCATAGAAT
CAGACGACCCCGATAAACAATATCTGAAAGATAACAAAATGTCTGTCAAACACTTAACTAATGAA
ATAAATAAAGCACAGAAGAGAATAAAATCAAATAACATAATTCATTAGCAGTCAATCAAGGGAAG
AACCTATAAGATAAAAACAAAGACCCTGATACATTAAAAGAAGTATTCATCCCAATTTCACTTGA
AAGCAGTTATAAAATGTGCACATATGCATCTATATAAAGCCATAACAAGGTTTAGTCTCCACTGT
TCAACCACCCATTCGTTATAAAAATCTTTACCATCATAGGACCATTATTAATATACTAAAATTTT
ACAATCAGATGAGTTTACACCACCGCAATAGAAGAGTTTGGCAGTCACAATAGAAAATAATCAGA
TGACAAATACGCGTCATATGACACATGCTAAAGCTATTGTAAGCTTCCAACTAATGTCAAGTTAA
TTCTATTTGTAACTCAAAAAGCGACTGGAGCTGAATTCATTGCACCAACCTGCCAGTAGAATCCA
TAAGTAGA
Found at i:33300916 original size:3 final size:3
Alignment explanation
Indices: 33300908--33300938 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
33300898 AGCGCTTGGG
*
33300908 GGA GGA GGA GGA TGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
33300939 AGGGATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.65, T:0.03
Consensus pattern (3 bp):
GGA
Found at i:33301425 original size:20 final size:20
Alignment explanation
Indices: 33301398--33301441 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
33301388 TCCTTGCCAT
33301398 ATTCTTTTTTTCTT-TTTCC
1 ATTCTTTTTTTCTTCTTTCC
*
33301417 ATTCTTTTTTTCTTCTTTTC
1 ATTCTTTTTTTCTTCTTTCC
33301437 ATTCT
1 ATTCT
33301442 CTTTCTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (20 bp):
ATTCTTTTTTTCTTCTTTCC
Found at i:33301454 original size:20 final size:21
Alignment explanation
Indices: 33301411--33301455 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
33301401 CTTTTTTTCT
* * *
33301411 TTTTCCATTCTTTTTTTCTTC
1 TTTTCCATTCTCTTTCTCTAC
33301432 TTTT-CATTCTCTTTCTCTAC
1 TTTTCCATTCTCTTTCTCTAC
33301452 TTTT
1 TTTT
33301456 TCTCATCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCCATTCTCTTTCTCTAC
Found at i:33305019 original size:5 final size:5
Alignment explanation
Indices: 33305009--33305077 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
33304999 TAATTTATTA
* *
33305009 CATAT CATAT CATAT CATAT CATAT CAAATTT CATAT CGA-AG CATAT
1 CATAT CATAT CATAT CATAT CATAT C--ATAT CATAT C-ATAT CATAT
*
33305056 CTTATAT TATAT CATAT CATAT
1 C--ATAT CATAT CATAT CATAT
33305078 TTCATCATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 1 0.02
5 42 0.81
6 1 0.02
7 8 0.15
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (5 bp):
CATAT
Found at i:33305043 original size:22 final size:23
Alignment explanation
Indices: 33305018--33305077 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
33305008 ACATATCATA
33305018 TCATATCATATCATATCAAAT-T
1 TCATATCATATCATATCAAATAT
* **
33305040 TCATATCGA-AGCATATCTTATAT
1 TCATATC-ATATCATATCAAATAT
33305063 T-ATATCATATCATAT
1 TCATATCATATCATAT
33305078 TTCATCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 1 0.03
22 27 0.87
23 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (23 bp):
TCATATCATATCATATCAAATAT
Found at i:33305044 original size:54 final size:54
Alignment explanation
Indices: 33304975--33305077 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
33304965 AGTATCGTGG
* *
33304975 CATATCAGATATCATAACGGAGCATAAT-TTAT-TACATATCATATCATATCATAT
1 CATATCAAATATCATAACGAAGCAT-ATCTTATAT-CATATCATATCATATCATAT
* * *
33305029 CATATCAAATTTCATATCGAAGCATATCTTATATTATATCATATCATAT
1 CATATCAAATATCATAACGAAGCATATCTTATATCATATCATATCATAT
33305078 TTCATCATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.05
54 39 0.93
55 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (54 bp):
CATATCAAATATCATAACGAAGCATATCTTATATCATATCATATCATATCATAT
Done.