Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 37
Found at i:3920661 original size:17 final size:15
Alignment explanation
Indices: 3920627--3920666 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
3920617 AGAGACATGC
*
3920627 ATATTTAATATTATA
1 ATATTTAAGATTATA
3920642 ATATTTAAGATTTAATA
1 ATATTTAAGA-TT-ATA
3920659 ATATTTAA
1 ATATTTAA
3920667 CATAACCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 2 0.09
17 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATATTTAAGATTATA
Found at i:3921234 original size:22 final size:23
Alignment explanation
Indices: 3921202--3921245 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3921192 TTTTTAGGTG
* *
3921202 AAATAATTAATGT-TACATATAA
1 AAATAAATAATATGTACATATAA
3921224 AAATAAATAATATGTACATATA
1 AAATAAATAATATGTACATATA
3921246 TAAGGGACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
AAATAAATAATATGTACATATAA
Found at i:3921872 original size:16 final size:16
Alignment explanation
Indices: 3921853--3921893 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3921843 TATTTATAAA
3921853 TATAAATTCAACT-TGT
1 TATAAATTCAACTAT-T
*
3921869 TATAAGTTCAACTATT
1 TATAAATTCAACTATT
3921885 TATAAATTC
1 TATAAATTC
3921894 GATATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (16 bp):
TATAAATTCAACTATT
Found at i:3921936 original size:11 final size:11
Alignment explanation
Indices: 3921922--3922031 Score: 69
Period size: 11 Copynumber: 9.2 Consensus size: 11
3921912 TCTATTTAAA
*
3921922 TATTTAATCAT
1 TATTAAATCAT
*
3921933 TATTAAATAAT
1 TATTAAATCAT
3921944 TATTAATAATCAT
1 TATT-A-AATCAT
3921957 TATTAAATCAT
1 TATTAAATCAT
*
3921968 TATTATTAATTAT
1 TATTA--AATCAT
* *
3921981 TA-TAATTTAAT
1 TATTAA-ATCAT
3921992 TATTAATAATCAT
1 TATT-A-AATCAT
*
3922005 TATTAAATTAT
1 TATTAAATCAT
3922016 TAATATCAAATCAT
1 T-AT-T-AAATCAT
3922030 TA
1 TA
3922032 AATATTAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.01
11 35 0.45
12 8 0.10
13 26 0.33
14 8 0.10
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:3921954 original size:24 final size:24
Alignment explanation
Indices: 3921926--3922069 Score: 129
Period size: 24 Copynumber: 6.0 Consensus size: 24
3921916 TTTAAATATT
3921926 TAATCATTATTAAATAATTATTAA
1 TAATCATTATTAAATAATTATTAA
* *
3921950 TAATCATTATTAAATCATTATTAT
1 TAATCATTATTAAATAATTATTAA
* *
3921974 TAATTATTA-TAATTTAATTATTAA
1 TAATCATTATTAA-ATAATTATTAA
3921998 TAATCATTATT--A-AATTATTAA
1 TAATCATTATTAAATAATTATTAA
* *
3922019 T-ATCAAATCATTAAAT-ATTAATAA
1 TAATC--ATTATTAAATAATTATTAA
*
3922043 TAAATCATTATTAGAAAATATTATTAA
1 T-AATCATTATTA-AATA-ATTATTAA
3922070 ATTAGTAGTA
Statistics
Matches: 95, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.03
21 10 0.11
22 5 0.05
23 3 0.03
24 61 0.64
25 3 0.03
26 3 0.03
27 7 0.07
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.46
Consensus pattern (24 bp):
TAATCATTATTAAATAATTATTAA
Found at i:3921990 original size:14 final size:15
Alignment explanation
Indices: 3921973--3922001 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3921963 ATCATTATTA
3921973 TTAATTATT-ATAAT
1 TTAATTATTAATAAT
3921987 TTAATTATTAATAAT
1 TTAATTATTAATAAT
3922002 CATTATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATTATTAATAAT
Found at i:3922086 original size:13 final size:13
Alignment explanation
Indices: 3922070--3922103 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3922060 ATATTATTAA
3922070 ATTAGTAGTAATC
1 ATTAGTAGTAATC
*
3922083 ATTATTAGTAATC
1 ATTAGTAGTAATC
*
3922096 TTTAGTAG
1 ATTAGTAG
3922104 AAACTGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (13 bp):
ATTAGTAGTAATC
Found at i:3925719 original size:11 final size:11
Alignment explanation
Indices: 3925703--3925765 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
3925693 AAAATTACAT
3925703 TATTAAAAATA
1 TATTAAAAATA
3925714 TATTAAAAATA
1 TATTAAAAATA
* ***
3925725 CATTATTGATA
1 TATTAAAAATA
3925736 -ATTATAAAA-A
1 TATTA-AAAATA
3925746 T-TTAAAAATA
1 TATTAAAAATA
3925756 TATTAAAAAT
1 TATTAAAAAT
3925766 TCTATAATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 4 0.10
10 10 0.24
11 27 0.66
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:3925834 original size:7 final size:7
Alignment explanation
Indices: 3925824--3925883 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
3925814 CCTTAAATCC
*
3925824 TAAACCG
1 TAAACCA
3925831 TAAATCC-
1 TAAA-CCA
*
3925838 TAAATCA
1 TAAACCA
3925845 TAAACCA
1 TAAACCA
3925852 TAAATCC-
1 TAAA-CCA
*
3925859 TAAACCT
1 TAAACCA
3925866 TAAACCA
1 TAAACCA
*
3925873 TAAACCC
1 TAAACCA
3925880 TAAA
1 TAAA
3925884 TTACACTTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 3 0.07
7 38 0.84
8 4 0.09
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:3925834 original size:14 final size:14
Alignment explanation
Indices: 3925812--3925841 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3925802 CCTTGTAAGG
*
3925812 AACCTTAAATCCTA
1 AACCGTAAATCCTA
3925826 AACCGTAAATCCTA
1 AACCGTAAATCCTA
3925840 AA
1 AA
3925842 TCATAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (14 bp):
AACCGTAAATCCTA
Found at i:3925841 original size:21 final size:21
Alignment explanation
Indices: 3925817--3925884 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
3925807 TAAGGAACCT
*
3925817 TAAATCCTAAACCGTAAATCC
1 TAAATCCTAAACCATAAATCC
*
3925838 TAAATCATAAACCATAAATCC
1 TAAATCCTAAACCATAAATCC
*
3925859 TAAA-CCTTAAACCATAAACCC
1 TAAATCC-TAAACCATAAATCC
3925880 TAAAT
1 TAAAT
3925885 TACACTTACC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
20 1 0.02
21 40 0.98
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (21 bp):
TAAATCCTAAACCATAAATCC
Found at i:3925848 original size:14 final size:13
Alignment explanation
Indices: 3925817--3925884 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 13
3925807 TAAGGAACCT
* *
3925817 TAAATCCTAAACCG
1 TAAA-CCTAAATCA
3925831 TAAATCCTAAATCA
1 TAAA-CCTAAATCA
*
3925845 TAAACCATAAATCC
1 TAAACC-TAAATCA
*
3925859 TAAACCTTAAACCA
1 TAAACC-TAAATCA
3925873 TAAACCCTAAAT
1 TAAA-CCTAAAT
3925885 TACACTTACC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
13 2 0.04
14 41 0.91
15 2 0.04
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (13 bp):
TAAACCTAAATCA
Found at i:3925952 original size:7 final size:7
Alignment explanation
Indices: 3925936--3925995 Score: 66
Period size: 7 Copynumber: 8.6 Consensus size: 7
3925926 GTCTTTATAA
*
3925936 TAAACTC
1 TAAACCC
3925943 TAAACCC
1 TAAACCC
3925950 TAAACCC
1 TAAACCC
3925957 TAAACCC
1 TAAACCC
**
3925964 TAAACTA
1 TAAACCC
*
3925971 TAAACCT
1 TAAACCC
*
3925978 TAAAACC
1 TAAACCC
*
3925985 TAAAACC
1 TAAACCC
3925992 TAAA
1 TAAA
3925996 TCCGATTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:3934295 original size:38 final size:38
Alignment explanation
Indices: 3934249--3934325 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
3934239 TCTAATCTAA
3934249 TTTATTTTATAGAAAAGAAAACTCACACGTAAATAATT
1 TTTATTTTATAGAAAAGAAAACTCACACGTAAATAATT
3934287 TTTATTTTATAGAAAAGAAAACTCACACGTAAATAATT
1 TTTATTTTATAGAAAAGAAAACTCACACGTAAATAATT
3934325 T
1 T
3934326 AGATTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (38 bp):
TTTATTTTATAGAAAAGAAAACTCACACGTAAATAATT
Found at i:3935467 original size:22 final size:22
Alignment explanation
Indices: 3935441--3935488 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
3935431 AAAAAATAAG
* *
3935441 AACTAAAGTGATTATTTTAATA
1 AACTAAAATGATCATTTTAATA
3935463 AACTAAAATGATCATTTTAATA
1 AACTAAAATGATCATTTTAATA
3935485 AACT
1 AACT
3935489 CTTGGAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (22 bp):
AACTAAAATGATCATTTTAATA
Found at i:3935583 original size:30 final size:32
Alignment explanation
Indices: 3935549--3935611 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
3935539 ATACTAATTA
3935549 AAAGT-TTATAAAAAATAT-TAATTAT-AATAT
1 AAAGTATTA-AAAAAATATATAATTATAAATAT
* *
3935579 AAAGTATTAAAAATATATATATTTATAAATAT
1 AAAGTATTAAAAAAATATATAATTATAAATAT
3935611 A
1 A
3935612 CTAATAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 13 0.46
31 9 0.32
32 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (32 bp):
AAAGTATTAAAAAAATATATAATTATAAATAT
Found at i:3939389 original size:16 final size:17
Alignment explanation
Indices: 3939370--3939406 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3939360 TAAAATATTA
3939370 TTTTA-AATAATTAC-AT
1 TTTTACAATAA-TACTAT
3939386 TTTTACAATAATACTAT
1 TTTTACAATAATACTAT
3939403 TTTT
1 TTTT
3939407 TCATCCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTACAATAATACTAT
Found at i:3943300 original size:83 final size:83
Alignment explanation
Indices: 3943220--3943499 Score: 291
Period size: 83 Copynumber: 3.3 Consensus size: 83
3943210 TACTTTTTGT
* *
3943220 AATCTCACATTTTACCTTTATAATTGAATCCTTATTTTTTTAATCTCATTTTTTACTTTTATAAT
1 AATCTCACTTTTTACCTTTATAATTGAA-CCTTATTTTTTTAATCTCATTTTTTACCTTTATAAT
3943285 TGATGCCTTAA-TTTTTTC
65 TGATGCCTTAATTTTTTTC
* *
3943303 AATTTCACTTTTTACCTTTATGAA-TGAGA-CTT-TTTTTTTCAATCTCATTTTCTACCTTTATA
1 AATCTCACTTTTTACCTTTAT-AATTGA-ACCTTATTTTTTT-AATCTCATTTTTTACCTTTATA
* *
3943365 ATTAATACCTTAATTATTTTT-
63 ATTGATGCCTTAATT-TTTTTC
* * ** *
3943386 AATCTTACTTTTTACCTTTATAATTGAAGCCCCTAATTTTTCAAATCTCACTTTTTACCTTTATA
1 AATCTCACTTTTTACCTTTATAATTGAA---CCTTATTTTTTTAATCTCATTTTTTACCTTTATA
* *
3943451 ATTGAGGTCCCTAATTTTTTTC
63 ATTGATG-CCTTAATTTTTTTC
* * * *
3943473 AGTCCCACCTTTTACCTTTATACTTGA
1 AATCTCACTTTTTACCTTTATAATTGA
3943500 GGCTCTTAAT
Statistics
Matches: 162, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
81 7 0.04
82 37 0.23
83 45 0.28
84 8 0.05
86 31 0.19
87 34 0.21
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.51
Consensus pattern (83 bp):
AATCTCACTTTTTACCTTTATAATTGAACCTTATTTTTTTAATCTCATTTTTTACCTTTATAATT
GATGCCTTAATTTTTTTC
Found at i:3943402 original size:43 final size:42
Alignment explanation
Indices: 3943213--3943494 Score: 238
Period size: 43 Copynumber: 6.7 Consensus size: 42
3943203 TCACCTTTAC
* *
3943213 TTTTTGTAATCTCACATTTTACCTTTATAATTGAAT-CCTT-A
1 TTTTTTTAATCTCACTTTTTACCTTTATAATT-AATACCTTAA
* * * *
3943254 TTTTTTTAATCTCATTTTTTACTTTTATAATTGATGCCTTAA
1 TTTTTTTAATCTCACTTTTTACCTTTATAATTAATACCTTAA
* * * *
3943296 TTTTTTCAATTTCACTTTTTACCTTTATGAA-TGAGA-CTT--
1 TTTTTTTAATCTCACTTTTTACCTTTAT-AATTAATACCTTAA
3943335 TTTTTTTCAATCTCA-TTTTCTACCTTTATAATTAATACCTTAA
1 TTTTTTT-AATCTCACTTTT-TACCTTTATAATTAATACCTTAA
* ** *
3943378 TTATTTTTAATCTTACTTTTTACCTTTATAATTGAAGCCCCTAA
1 TT-TTTTTAATCTCACTTTTTACCTTTATAATT-AATACCTTAA
** * *
3943422 TTTTTCAAATCTCACTTTTTACCTTTATAATTGAGGT-CCCTAA
1 TTTTTTTAATCTCACTTTTTACCTTTATAATT-A-ATACCTTAA
* * *
3943465 TTTTTTTCAGTCCCACCTTTTACCTTTATA
1 TTTTTTT-AATCTCACTTTTTACCTTTATA
3943495 CTTGAGGCTC
Statistics
Matches: 198, Mismatches: 29, Indels: 25
0.79 0.12 0.10
Matches are distributed among these distances:
39 12 0.06
40 20 0.10
41 38 0.19
42 28 0.14
43 63 0.32
44 37 0.19
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.52
Consensus pattern (42 bp):
TTTTTTTAATCTCACTTTTTACCTTTATAATTAATACCTTAA
Found at i:3944092 original size:20 final size:21
Alignment explanation
Indices: 3944007--3944133 Score: 70
Period size: 20 Copynumber: 6.3 Consensus size: 21
3943997 AAATAACCAA
**
3944007 CAAATTCGCAACGCGA-ACTC
1 CAAATTCGCAACGCGATTTTC
* *
3944027 C-AATTCAGCAACAC-AGTTTC
1 CAAATTC-GCAACGCGATTTTC
* * *
3944047 CAAATTCACAACTC-AGTTTC
1 CAAATTCGCAACGCGATTTTC
*
3944067 TGAAA-TCGCAACGCGATTTTC
1 -CAAATTCGCAACGCGATTTTC
* **
3944088 CAAATTAGCAACGTAATTTT-
1 CAAATTCGCAACGCGATTTTC
* *
3944108 AAAATTCGTAACGCGA-TTTC
1 CAAATTCGCAACGCGATTTTC
3944128 CAAATT
1 CAAATT
3944134 TTCAACGTTT
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
19 9 0.11
20 47 0.58
21 25 0.31
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:3944607 original size:41 final size:41
Alignment explanation
Indices: 3944489--3944709 Score: 146
Period size: 41 Copynumber: 5.4 Consensus size: 41
3944479 CATTTCTTAA
* *
3944489 ACAAACGCCACTATAGAGTAGTACTATAGCGGTGTTTTTAT
1 ACAAACGCCACAATAGAGTAGTACTATAGCGGCGTTTTTAT
* * * * * *
3944530 ATAAACGCCGCAGTAG-GTACATA-TGTAGTGGCGTTTTTCA-
1 ACAAACGCCACAATAGAGTA-GTACTATAGCGGCGTTTTT-AT
* *
3944570 ACAAACGCCACAATAGAGTAGTACTTTAGCAGCGTTTTTAT
1 ACAAACGCCACAATAGAGTAGTACTATAGCGGCGTTTTTAT
* * * * * *
3944611 ACAAACTCCGCAATAG-GT-CTATCTATAGTGGCATTTTTTCT
1 ACAAACGCCACAATAGAGTAGTA-CTATAGCGGC-GTTTTTAT
* * * * *
3944652 AACAAACGCCATAAAAGATTTGTACTTTAGCGGCGTTTTTAT
1 -ACAAACGCCACAATAGAGTAGTACTATAGCGGCGTTTTTAT
* * *
3944694 AAAAATGCCATAATAG
1 ACAAACGCCACAATAG
3944710 GGTTCTTCTA
Statistics
Matches: 134, Mismatches: 36, Indels: 20
0.71 0.19 0.11
Matches are distributed among these distances:
39 2 0.01
40 40 0.30
41 63 0.47
42 18 0.13
43 9 0.07
44 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (41 bp):
ACAAACGCCACAATAGAGTAGTACTATAGCGGCGTTTTTAT
Found at i:3944692 original size:83 final size:82
Alignment explanation
Indices: 3944488--3944783 Score: 269
Period size: 81 Copynumber: 3.6 Consensus size: 82
3944478 ACATTTCTTA
* * * * * * * *
3944488 AACAAACGCCACTATAGAGTAGTACTATAGCGGTGTTTTTATATAAACGCCGCAGTAGGTAC-AT
1 AACAAACGCCACAAAAGATTAGTACTTTAGCGGCGTTTTTATACAAACTCCGCAATAGGT-CTAT
* * *
3944552 ATGTAGTGGCGTTTTTC-
65 CTATAGTGGCTTTTTTCT
* * *
3944569 AACAAACGCCACAATAGAGTAGTACTTTAGCAGCGTTTTTATACAAACTCCGCAATAGGTCTATC
1 AACAAACGCCACAAAAGATTAGTACTTTAGCGGCGTTTTTATACAAACTCCGCAATAGGTCTATC
3944634 TATAGTGGCATTTTTTCT
66 TATAGTGGC-TTTTTTCT
* * * **
3944652 AACAAACGCCATAAAAGATTTGTACTTTAGCGGCGTTTTTATA-AAAATGCCATAATAGGGTTCT
1 AACAAACGCCACAAAAGATTAGTACTTTAGCGGCGTTTTTATACAAACT-CCGCAATA-GG-TCT
*
3944716 -TCTATAGTGACTTTTTTTCT
63 ATCTATAGTGGC-TTTTTTCT
* * * * *
3944736 AATAAACGTCGCAACAGATTAGAACTTTAGCGGCGTTTTT-TCACAAAC
1 AACAAACGCCACAAAAGATTAGTACTTTAGCGGCGTTTTTAT-ACAAAC
3944784 GTCGCAAAAA
Statistics
Matches: 179, Mismatches: 28, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.01
81 63 0.35
82 10 0.06
83 45 0.25
84 54 0.30
85 6 0.03
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (82 bp):
AACAAACGCCACAAAAGATTAGTACTTTAGCGGCGTTTTTATACAAACTCCGCAATAGGTCTATC
TATAGTGGCTTTTTTCT
Found at i:3944763 original size:84 final size:83
Alignment explanation
Indices: 3944563--3944775 Score: 234
Period size: 84 Copynumber: 2.6 Consensus size: 83
3944553 TGTAGTGGCG
* * * * * *
3944563 TTTTTC-AACAAACGCCACAATAGAGTAGTACTTTAGCAGCGTTTTTATACAAACTCCGCAATAG
1 TTTTTCTAACAAACGCCACAAAAGATTAGAACTTTAGCGGCGTTTTTATACAAAATCCACAATAG
*
3944627 GTCTATCTATAGTGGCAT
66 GTCTATCTATAGTGACAT
* * * *
3944645 TTTTTCTAACAAACGCCATAAAAGATTTGTACTTTAGCGGCGTTTTTATA-AAAATGCCATAATA
1 TTTTTCTAACAAACGCCACAAAAGATTAGAACTTTAGCGGCGTTTTTATACAAAAT-CCACAATA
*
3944709 GGGTTCT-TCTATAGTGACTT
65 -GG-TCTATCTATAGTGACAT
* * * *
3944729 TTTTTCTAATAAACGTCGCAACAGATTAGAACTTTAGCGGCGTTTTT
1 TTTTTCTAACAAACGCCACAAAAGATTAGAACTTTAGCGGCGTTTTT
3944776 TCACAAACGT
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
82 10 0.09
83 44 0.40
84 53 0.48
85 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (83 bp):
TTTTTCTAACAAACGCCACAAAAGATTAGAACTTTAGCGGCGTTTTTATACAAAATCCACAATAG
GTCTATCTATAGTGACAT
Found at i:3945262 original size:35 final size:36
Alignment explanation
Indices: 3945211--3945281 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
3945201 TATGTGCAGG
* *
3945211 GGGAACATATTTCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTTCCCCCTGGGGGGTATCGATCCCCC
*
3945247 GGGAACAGA-TTCCCCCTGGGGGGTATTGATCCCCC
1 GGGAACAGATTTCCCCCTGGGGGGTATCGATCCCCC
3945282 CTAAATGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 24 0.75
36 8 0.25
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.23
Consensus pattern (36 bp):
GGGAACAGATTTCCCCCTGGGGGGTATCGATCCCCC
Found at i:3945888 original size:31 final size:31
Alignment explanation
Indices: 3945845--3945969 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
3945835 AGGGTCGAGG
*
3945845 GTTTGCCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
3945876 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
3945907 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
3945938 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
3945969 G
1 G
3945970 GTCTTTCGGG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:3947023 original size:20 final size:20
Alignment explanation
Indices: 3947000--3947037 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3946990 TTTGAAACTT
*
3947000 AAATTCGCAATGCGAAAATG
1 AAATTCGCAACGCGAAAATG
3947020 AAATTCGCAACGCGAAAA
1 AAATTCGCAACGCGAAAA
3947038 CTAAAACCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAATG
Found at i:3947079 original size:20 final size:20
Alignment explanation
Indices: 3947054--3947092 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3947044 CCGCGTTGCG
3947054 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
3947074 ATTTTCGTGTTGCGAATTT
1 ATTTTCGTGTTGCGAATTT
3947093 AAGTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:3947099 original size:20 final size:20
Alignment explanation
Indices: 3947056--3947099 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3947046 GCGTTGCGAT
* *
3947056 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
3947076 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
3947096 TTTC
1 TTTC
3947100 AAAAACTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:3947615 original size:19 final size:20
Alignment explanation
Indices: 3947593--3947630 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3947583 ATATTCGTAT
*
3947593 TTCGAATT-TGAAAATAAAA
1 TTCGAATTACGAAAATAAAA
*
3947612 TTCGCATTACGAAAATAAA
1 TTCGAATTACGAAAATAAA
3947631 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (20 bp):
TTCGAATTACGAAAATAAAA
Found at i:3947766 original size:20 final size:20
Alignment explanation
Indices: 3947710--3947772 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
3947700 GTGAATTTCA
* *
3947710 AAACTGAGTTGCGAATCTGGG
1 AAACTGTGTTGCGAAT-TTGG
* *
3947731 AAATTCGTGTTACGAATTTGG
1 AAACT-GTGTTGCGAATTTGG
*
3947752 AAACTGTGTTGCGAAATTGG
1 AAACTGTGTTGCGAATTTGG
3947772 A
1 A
3947773 GTTCGAGTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 14 0.41
21 11 0.32
22 9 0.26
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (20 bp):
AAACTGTGTTGCGAATTTGG
Found at i:3947841 original size:26 final size:27
Alignment explanation
Indices: 3947790--3947844 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3947780 TTGCGAATTT
*
3947790 ATTGGTTATTTTTGTAAATCCAAAAAA
1 ATTGGTTATTTTCGTAAATCCAAAAAA
3947817 ATTGGTTATTTTCGTAAATCCAAAAAA
1 ATTGGTTATTTTCGTAAATCCAAAAAA
3947844 A
1 A
3947845 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (27 bp):
ATTGGTTATTTTCGTAAATCCAAAAAA
Found at i:3968543 original size:31 final size:31
Alignment explanation
Indices: 3968505--3968658 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
3968495 CCCGAAGGAC
* *
3968505 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
3968536 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
3968567 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
3968598 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
3968629 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
3968659 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:3969461 original size:21 final size:21
Alignment explanation
Indices: 3969431--3969475 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3969421 ATTCTGTCGT
* *
3969431 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3969452 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3969473 TTG
1 TTG
3969476 CCCAGAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3972477 original size:31 final size:31
Alignment explanation
Indices: 3972412--3972562 Score: 229
Period size: 30 Copynumber: 5.0 Consensus size: 31
3972402 CCCGAAGGAC
* *
3972412 CAGTCCATA-GATTCCGAA-AACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
3972442 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
3972473 CAGTCCAT-TGTTCCGAAGAACATAGGT-AA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
3972502 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
3972533 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
3972563 CCCTCGACCC
Statistics
Matches: 111, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
29 10 0.09
30 51 0.46
31 50 0.45
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:3973356 original size:21 final size:20
Alignment explanation
Indices: 3973326--3973369 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
3973316 ATTCTGTCGT
* *
3973326 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
3973346 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
3973367 TTG
1 TTG
3973370 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:3974626 original size:36 final size:34
Alignment explanation
Indices: 3974581--3974669 Score: 106
Period size: 36 Copynumber: 2.6 Consensus size: 34
3974571 CAAAGGGCTC
*
3974581 GTTCGTTCATTTACGTTCGTGAACATTCGATTATAT
1 GTTCGTTCATTTATGTTCGTGAACATTC-ATT-TAT
* ** *
3974617 GTTCGTTCATTTATGTTCATTTATATTCATTTAT
1 GTTCGTTCATTTATGTTCGTGAACATTCATTTAT
*
3974651 GGTCGTTCATTTATGTTCG
1 GTTCGTTCATTTATGTTCG
3974670 AACAGATGGC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
34 20 0.43
35 3 0.07
36 23 0.50
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.51
Consensus pattern (34 bp):
GTTCGTTCATTTATGTTCGTGAACATTCATTTAT
Found at i:3974668 original size:10 final size:10
Alignment explanation
Indices: 3974621--3974651 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3974611 TTATATGTTC
3974621 GTTCATTTAT
1 GTTCATTTAT
3974631 GTTCATTTAT
1 GTTCATTTAT
*
3974641 ATTCATTTAT
1 GTTCATTTAT
3974651 G
1 G
3974652 GTCGTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (10 bp):
GTTCATTTAT
Found at i:3975331 original size:22 final size:25
Alignment explanation
Indices: 3975302--3975359 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
3975292 GTATCTGAAT
*
3975302 ATTATTACCATATA-TT-AAAAAAC
1 ATTATTACCATAAATTTCAAAAAAC
*
3975325 A-TATTACCATAAATTTCAAAAATC
1 ATTATTACCATAAATTTCAAAAAAC
3975349 ATTATTACCAT
1 ATTATTACCAT
3975360 TAAAGCAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.37
23 3 0.10
24 7 0.23
25 9 0.30
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTATTACCATAAATTTCAAAAAAC
Found at i:3976249 original size:6 final size:6
Alignment explanation
Indices: 3976205--3976246 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
3976195 AATTTCTCTT
* * *
3976205 ACAGAA ACAGCA ACAGCA ACAGCA ACAGCA GCAGCA GCAGCA
1 ACAGCA ACAGCA ACAGCA ACAGCA ACAGCA ACAGCA ACAGCA
3976247 GCAAATGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.48, C:0.31, G:0.21, T:0.00
Consensus pattern (6 bp):
ACAGCA
Found at i:3978554 original size:18 final size:18
Alignment explanation
Indices: 3978531--3978565 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3978521 TCCCATCCGG
*
3978531 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
3978549 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
3978566 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:3979837 original size:7 final size:7
Alignment explanation
Indices: 3979825--3979860 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
3979815 TGGTCAACGC
3979825 CGGTCAA
1 CGGTCAA
3979832 CGGTCAA
1 CGGTCAA
3979839 CGGTCAA
1 CGGTCAA
3979846 CGGTCAA
1 CGGTCAA
3979853 CGGGTCAA
1 C-GGTCAA
3979861 TGGGTCGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.28, C:0.28, G:0.31, T:0.14
Consensus pattern (7 bp):
CGGTCAA
Found at i:3979889 original size:30 final size:30
Alignment explanation
Indices: 3979853--3979912 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
3979843 CAACGGTCAA
*
3979853 CGGGTCAA-TGGGTCGG-TCAACGGGTCGGGT
1 CGGGTCAACT-GGTCGGATAAAC-GGTCGGGT
3979883 CGGGTCAACTGGTCGGATAAACGGTCGGGT
1 CGGGTCAACTGGTCGGATAAACGGTCGGGT
3979913 AAACGGGTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.17, C:0.20, G:0.43, T:0.20
Consensus pattern (30 bp):
CGGGTCAACTGGTCGGATAAACGGTCGGGT
Found at i:3979890 original size:18 final size:17
Alignment explanation
Indices: 3979846--3979898 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
3979836 CAACGGTCAA
3979846 CGGTCAACGGGTCAATGGGT
1 CGGTCAACGGGTC---GGGT
3979866 CGGTCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
*
3979883 CGGGTCAACTGGTCGG
1 C-GGTCAACGGGTCGG
3979899 ATAAACGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 5 0.16
18 13 0.42
20 13 0.42
ACGTcount: A:0.15, C:0.23, G:0.43, T:0.19
Consensus pattern (17 bp):
CGGTCAACGGGTCGGGT
Found at i:3979896 original size:13 final size:12
Alignment explanation
Indices: 3979880--3979925 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
3979870 CAACGGGTCG
*
3979880 GGTCGGGTCAAC
1 GGTCGGGTAAAC
*
3979892 TGGTCGGATAAAC
1 -GGTCGGGTAAAC
3979905 GGTCGGGTAAAC
1 GGTCGGGTAAAC
3979917 GGGTCGGGT
1 -GGTCGGGT
3979926 CGGGTCGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.20, C:0.17, G:0.43, T:0.20
Consensus pattern (12 bp):
GGTCGGGTAAAC
Found at i:3983553 original size:18 final size:18
Alignment explanation
Indices: 3983530--3983564 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3983520 TTCCATCCGG
*
3983530 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
3983548 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
3983565 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:3984867 original size:7 final size:7
Alignment explanation
Indices: 3984855--3984891 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
3984845 TGGTCAACGC
3984855 CGGTCAA
1 CGGTCAA
3984862 CGGTCAA
1 CGGTCAA
3984869 CGGGTCAA
1 C-GGTCAA
3984877 CGGTCAA
1 CGGTCAA
3984884 CGGGTCAA
1 C-GGTCAA
3984892 TGGGTCGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (7 bp):
CGGTCAA
Found at i:3984876 original size:8 final size:8
Alignment explanation
Indices: 3984846--3984910 Score: 68
Period size: 8 Copynumber: 8.5 Consensus size: 8
3984836 GGTCAACAAT
3984846 GGTCAACG
1 GGTCAACG
3984854 CCGGTCAAC-
1 --GGTCAACG
3984863 GGTCAACG
1 GGTCAACG
3984871 GGTCAAC-
1 GGTCAACG
3984878 GGTCAACG
1 GGTCAACG
*
3984886 GGTCAATG
1 GGTCAACG
3984894 GGT---CG
1 GGTCAACG
3984899 GGTCAACG
1 GGTCAACG
3984907 GGTC
1 GGTC
3984911 GGGTCGGGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
5 4 0.08
7 14 0.29
8 23 0.48
10 7 0.15
ACGTcount: A:0.22, C:0.26, G:0.37, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:3984876 original size:15 final size:15
Alignment explanation
Indices: 3984846--3984891 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
3984836 GGTCAACAAT
3984846 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
3984863 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
3984878 GGTCAACGGGTCAA
1 GGTCAACGGGTCAA
3984892 TGGGTCGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 21 0.72
17 8 0.28
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:3984902 original size:13 final size:13
Alignment explanation
Indices: 3984884--3984959 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
3984874 CAACGGTCAA
*
3984884 CGGGTCAATGGGT
1 CGGGTCAACGGGT
3984897 CGGGTCAACGGGTCGGGT
1 CGGGTCAAC--G---GGT
*
3984915 CGGGTCAACTGGT
1 CGGGTCAACGGGT
* *
3984928 CGGATAAACGGGT
1 CGGGTCAACGGGT
*
3984941 CGGGTAAACGGGT
1 CGGGTCAACGGGT
3984954 CGGGTC
1 CGGGTC
3984960 GGGTCGGGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
13 38 0.75
15 1 0.02
18 12 0.24
ACGTcount: A:0.17, C:0.20, G:0.45, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:3984916 original size:18 final size:18
Alignment explanation
Indices: 3984878--3984930 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
3984868 ACGGGTCAAC
3984878 GGTCAACGGGTCAATGGGTCG
1 GGTCAACGGGTC---GGGTCG
3984899 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
3984917 GGTCAACTGGTCGG
1 GGTCAACGGGTCGG
3984931 ATAAACGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 19 0.61
21 12 0.39
ACGTcount: A:0.15, C:0.21, G:0.45, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:3984922 original size:31 final size:31
Alignment explanation
Indices: 3984884--3984945 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
3984874 CAACGGTCAA
* *
3984884 CGGGTCAA-TGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCAACT-GGTCGGATAAACGGGTCGGGT
3984915 CGGGTCAACTGGTCGGATAAACGGGTCGGGT
1 CGGGTCAACTGGTCGGATAAACGGGTCGGGT
3984946 AAACGGGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.16, C:0.19, G:0.45, T:0.19
Consensus pattern (31 bp):
CGGGTCAACTGGTCGGATAAACGGGTCGGGT
Found at i:3989230 original size:29 final size:27
Alignment explanation
Indices: 3989181--3989239 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
3989171 AGGGGTGCAC
3989181 AAAAAATTCGAATATCCGATTTTGCGAA
1 AAAAAATTCGAATATCCGA-TTTGCGAA
* *
3989209 AAAAAATATCCGAA-ATCGGATTTGGGAA
1 AAAAAAT-T-CGAATATCCGATTTGCGAA
3989237 AAA
1 AAA
3989240 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 17 0.63
29 6 0.22
30 4 0.15
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (27 bp):
AAAAAATTCGAATATCCGATTTGCGAA
Found at i:3989337 original size:12 final size:12
Alignment explanation
Indices: 3989322--3989367 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
3989312 CGGTTTTTTT
*
3989322 ACCGGATAAAAA
1 ACCGGTTAAAAA
3989334 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
3989349 ACCGGTTAAAAA
1 ACCGGTTAAAAA
3989361 ACCGGTT
1 ACCGGTT
3989368 TTTATCTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:3989349 original size:15 final size:13
Alignment explanation
Indices: 3989328--3989368 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
3989318 TTTTACCGGA
3989328 TAAAAAACCGGTT
1 TAAAAAACCGGTT
3989341 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
3989355 TAAAAAACCGGTT
1 TAAAAAACCGGTT
3989368 T
1 T
3989369 TTATCTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:3991697 original size:21 final size:21
Alignment explanation
Indices: 3991673--3991714 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3991663 AGTTTATTTT
*
3991673 TAAACTTTATTTTAATTATCG
1 TAAACTTTATTTCAATTATCG
*
3991694 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
3991715 AACTTGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:3991763 original size:33 final size:32
Alignment explanation
Indices: 3991703--3991811 Score: 159
Period size: 33 Copynumber: 3.4 Consensus size: 32
3991693 GTAAACTTTG
3991703 TTTCAA-TTATCGAACTTGAAGTTTTTAAGTA
1 TTTCAATTTATCGAACTTGAAGTTTTTAAGTA
*
3991734 TTTGAATTTATCGAACTTGAAAGTTTTTAAGTA
1 TTTCAATTTATCGAACTTG-AAGTTTTTAAGTA
* *
3991767 TTTTAATTTATCGAACTTGGAAGTATTTAAGTA
1 TTTCAATTTATCGAACTT-GAAGTTTTTAAGTA
3991800 TTTCAA-TTATCG
1 TTTCAATTTATCG
3991812 TAAACTTTGT
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 5 0.07
32 18 0.25
33 47 0.66
34 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (32 bp):
TTTCAATTTATCGAACTTGAAGTTTTTAAGTA
Found at i:3992194 original size:24 final size:25
Alignment explanation
Indices: 3992143--3992194 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
3992133 TGCTTGTTCG
* *
3992143 AATTTTTATATTATTTTATTTAATA
1 AATTTTTATATTATTTTATTGAAAA
*
3992168 AATTTTTTTATT-TTTTATTGAAAA
1 AATTTTTATATTATTTTATTGAAAA
3992192 AAT
1 AAT
3992195 GGAGGTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTTTATATTATTTTATTGAAAA
Found at i:3998378 original size:21 final size:21
Alignment explanation
Indices: 3998336--3998402 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 21
3998326 AAAACAACCG
*
3998336 AAAAATGTGTCA-AAAGACTAA
1 AAAAACGTGTCATAAAGA-TAA
*
3998357 AAAAACGTGTCATAAATATAAA
1 AAAAACGTGTCATAAAGAT-AA
* *
3998379 TAAAAACATGTCATGAAGATAA
1 -AAAAACGTGTCATAAAGATAA
3998401 AA
1 AA
3998403 TTATTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 14 0.37
22 8 0.21
23 16 0.42
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (21 bp):
AAAAACGTGTCATAAAGATAA
Found at i:4001457 original size:2 final size:2
Alignment explanation
Indices: 4001450--4001478 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4001440 CTTCAATTCC
4001450 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4001479 GAAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4005227 original size:36 final size:36
Alignment explanation
Indices: 4005187--4005258 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
4005177 CATTTATGAG
** *
4005187 ACATATAATTGAATATGTTCACGAACGTTAAACGAA
1 ACATATAAAAGAACATGTTCACGAACGTTAAACGAA
* *
4005223 ACATATAAAAGAACATGTTCATGAATGTTAAACGAA
1 ACATATAAAAGAACATGTTCACGAACGTTAAACGAA
4005259 TTAACAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (36 bp):
ACATATAAAAGAACATGTTCACGAACGTTAAACGAA
Found at i:4005897 original size:17 final size:16
Alignment explanation
Indices: 4005877--4005911 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4005867 ACAAACAAAC
*
4005877 AAAAATATAATTGTAAT
1 AAAAATAT-ATTATAAT
4005894 AAAAATATATTATAAT
1 AAAAATATATTATAAT
4005910 AA
1 AA
4005912 CTCACTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
AAAAATATATTATAAT
Found at i:4008254 original size:42 final size:42
Alignment explanation
Indices: 4008195--4008287 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
4008185 AGGTCCAGCA
*
4008195 TTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAACC
1 TTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGATAAACC
4008237 TTACAGTTT-CTCAGGTCCCTTTGCTGTGTGCAAGGATAAACC
1 TTACAGTTTAC-CAGGTCCCTTTGCTGTGTGCAAGGATAAACC
4008279 TTACAGTTT
1 TTACAGTTT
4008288 TCTTAGGCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (42 bp):
TTACAGTTTACCAGGTCCCTTTGCTGTGTGCAAGGATAAACC
Found at i:4008311 original size:43 final size:42
Alignment explanation
Indices: 4008195--4008311 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
4008185 AGGTCCAGCA
* *
4008195 TTACAGTTTAC-CAGGTCCCTTTGCTGTGTGCAAGGGTAAACC
1 TTACAGTTT-CTCAGGTCCCTCTGCTGTGTGCAAGGATAAACC
*
4008237 TTACAGTTTCTCAGGTCCCTTTGCTGTGTGCAAGGATAAACC
1 TTACAGTTTCTCAGGTCCCTCTGCTGTGTGCAAGGATAAACC
* *
4008279 TTACAGTTTTCTTAGG-CTCCTCTGCTTTGTGCA
1 TTACAG-TTTCTCAGGTC-CCTCTGCTGTGTGCA
4008312 CAAGTTAAGC
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
41 1 0.01
42 46 0.68
43 21 0.31
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (42 bp):
TTACAGTTTCTCAGGTCCCTCTGCTGTGTGCAAGGATAAACC
Found at i:4014489 original size:29 final size:28
Alignment explanation
Indices: 4014432--4014606 Score: 97
Period size: 29 Copynumber: 6.1 Consensus size: 28
4014422 CGAGTGACAT
4014432 TTTGGTAATTA-TTTGAGAAATGGTGCTA
1 TTTGGTAATTATTTTGA-AAATGGTGCTA
*
4014460 TTCTGGTAATTATTTTGAAAA-GAGTTCTA
1 TT-TGGTAATTATTTTGAAAATG-GTGCTA
* * * ** * *
4014489 TTTTGTAATTTTTTTTAAAAAAGAGATAA
1 TTTGGTAATTATTTTGAAAATGGTGCT-A
* * *
4014518 TTTTGTAAAATT-TTTT-AAAATAGTGATA
1 TTTGGT--AATTATTTTGAAAATGGTGCTA
* * *
4014546 TTTTAGTAATTATTTTGAAAATGATGTTA
1 -TTTGGTAATTATTTTGAAAATGGTGCTA
* * *
4014575 TTTTGGTAATTAATTTCACAATGGTGCTA
1 -TTTGGTAATTATTTTGAAAATGGTGCTA
4014604 TTT
1 TTT
4014607 TCGTAATGTT
Statistics
Matches: 117, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
27 4 0.03
28 28 0.24
29 72 0.62
30 9 0.08
31 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (28 bp):
TTTGGTAATTATTTTGAAAATGGTGCTA
Found at i:4015517 original size:42 final size:42
Alignment explanation
Indices: 4015454--4015581 Score: 175
Period size: 42 Copynumber: 3.0 Consensus size: 42
4015444 GAAGGAAGTA
* *
4015454 TTACCAGGTCCCTTTGTTGTGTGCAAAGGTAAGCATTACAGT
1 TTACCAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGT
*
4015496 TTACCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGT
1 TTACCAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGT
** * * * *
4015538 TCCCCAGGTCCCTTTGCTATGTGCAATGATAAACCTTACAGT
1 TTACCAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGT
4015580 TT
1 TT
4015582 TTCTAGGCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (42 bp):
TTACCAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGT
Found at i:4016116 original size:32 final size:32
Alignment explanation
Indices: 4016071--4016142 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
4016061 GGGTTACATA
* *
4016071 AATATTTGATATAATATCAAAAATAGCCTTCT
1 AATATTTGATATAATATCAAAAACAACCTTCT
*
4016103 AATATTTGGTATAATATCAAAAACAACCTTCT
1 AATATTTGATATAATATCAAAAACAACCTTCT
4016135 AATATTTG
1 AATATTTG
4016143 TTTGAATGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (32 bp):
AATATTTGATATAATATCAAAAACAACCTTCT
Found at i:4016381 original size:32 final size:32
Alignment explanation
Indices: 4016344--4016428 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
4016334 CGTGACATGT
*
4016344 TCATATCACTTAAGGCGATGATATGATATATA
1 TCATATCACTTAAGGCGATGATATGAGATATA
4016376 TCATATCACTTAAGGCGATGATATGAGATATA
1 TCATATCACTTAAGGCGATGATATGAGATATA
*
4016408 TCACATCACTTAAGGCGATGA
1 TCATATCACTTAAGGCGATGA
4016429 CATAACATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (32 bp):
TCATATCACTTAAGGCGATGATATGAGATATA
Found at i:4023517 original size:21 final size:20
Alignment explanation
Indices: 4023493--4023534 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4023483 ATATATAATT
*
4023493 ATATATATAATACATTTTAAA
1 ATATATATAATA-ACTTTAAA
*
4023514 ATATGTATAATAACTTTAAA
1 ATATATATAATAACTTTAAA
4023534 A
1 A
4023535 AATGTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATATATAATAACTTTAAA
Found at i:4023533 original size:20 final size:21
Alignment explanation
Indices: 4023493--4023539 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
4023483 ATATATAATT
* *
4023493 ATATATATAATACATTTTAAA
1 ATATGTATAATACACTTTAAA
4023514 ATATGTATAATA-ACTTTAAA
1 ATATGTATAATACACTTTAAA
*
4023534 AAATGT
1 ATATGT
4023540 CTTTAACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
ATATGTATAATACACTTTAAA
Found at i:4023535 original size:21 final size:21
Alignment explanation
Indices: 4023493--4023539 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
4023483 ATATATAATT
* *
4023493 ATATATATAATACATTTTAAA
1 ATATGTATAATACATTTAAAA
4023514 ATATGTATAATA-ACTTTAAAA
1 ATATGTATAATACA-TTTAAAA
4023535 A-ATGT
1 ATATGT
4023540 CTTTAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
ATATGTATAATACATTTAAAA
Found at i:4025178 original size:52 final size:52
Alignment explanation
Indices: 4025100--4025205 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
4025090 CTATGATATC
4025100 TTAAACCTCTCCACTTAATAAAAGAAAAACAATCTTTAGTTAAAACAGAAGT
1 TTAAACCTCTCCACTTAATAAAAGAAAAACAATCTTTAGTTAAAACAGAAGT
*
4025152 TTAAACCTCTCCACTTGATAAAAGAAAAACAATCTTTAGTTAAAACAGAAGT
1 TTAAACCTCTCCACTTAATAAAAGAAAAACAATCTTTAGTTAAAACAGAAGT
4025204 TT
1 TT
4025206 TTTAACGATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.28
Consensus pattern (52 bp):
TTAAACCTCTCCACTTAATAAAAGAAAAACAATCTTTAGTTAAAACAGAAGT
Found at i:4026260 original size:31 final size:31
Alignment explanation
Indices: 4026200--4026260 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
4026190 ATCCATGTTA
*
4026200 AATAGGGTATCTAAAATTAATTTTGAAACTC
1 AATAGGGTATCTAAAATTAATTCTGAAACTC
4026231 AATAGGGTATCTAAAATTAATTGCT-AAACT
1 AATAGGGTATCTAAAATTAATT-CTGAAACT
4026261 TCAAAACGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (31 bp):
AATAGGGTATCTAAAATTAATTCTGAAACTC
Found at i:4027001 original size:22 final size:22
Alignment explanation
Indices: 4026976--4027027 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
4026966 TTTGGCATAT
4026976 GTTTTTGCGCCACAGGTAACTA
1 GTTTTTGCGCCACAGGTAACTA
4026998 GTTTTTGCGCCACAGGTAACTA
1 GTTTTTGCGCCACAGGTAACTA
*
4027020 GTATTTGC
1 GTTTTTGC
4027028 TTTCTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (22 bp):
GTTTTTGCGCCACAGGTAACTA
Found at i:4028512 original size:15 final size:16
Alignment explanation
Indices: 4028492--4028522 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4028482 ATATATGTAT
4028492 TATA-TTTTTATTTAA
1 TATATTTTTTATTTAA
4028507 TATATTTTTTATTTAA
1 TATATTTTTTATTTAA
4028523 AATAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTTTTTATTTAA
Found at i:4028730 original size:14 final size:15
Alignment explanation
Indices: 4028706--4028735 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4028696 AAATTTAGAT
4028706 AATATTTTATATTTA
1 AATATTTTATATTTA
4028721 AATA-TTTATATTTA
1 AATATTTTATATTTA
4028735 A
1 A
4028736 TTTTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATATTTTATATTTA
Found at i:4038108 original size:25 final size:25
Alignment explanation
Indices: 4038080--4038131 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
4038070 ACTCTTAGAA
*
4038080 AGTTAAATAGATAAGGATAACTACT
1 AGTTAAATAGATAAGAATAACTACT
4038105 AGTTAAATAGATAAGAATAACTACT
1 AGTTAAATAGATAAGAATAACTACT
4038130 AG
1 AG
4038132 GTAGTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (25 bp):
AGTTAAATAGATAAGAATAACTACT
Found at i:4039394 original size:15 final size:15
Alignment explanation
Indices: 4039374--4039412 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
4039364 GATTCTGGTG
4039374 CAAGTGATCATATGA
1 CAAGTGATCATATGA
4039389 CAAGTGATCATATGA
1 CAAGTGATCATATGA
*
4039404 CAGGTGATC
1 CAAGTGATC
4039413 TTAGGCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (15 bp):
CAAGTGATCATATGA
Found at i:4040444 original size:10 final size:11
Alignment explanation
Indices: 4040428--4040455 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4040418 GTTTTTCTTC
4040428 AATTTTTTCCT
1 AATTTTTTCCT
4040439 AATTTTTTCCT
1 AATTTTTTCCT
4040450 AATTTT
1 AATTTT
4040456 AAACTGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTTTTCCT
Found at i:4048921 original size:15 final size:16
Alignment explanation
Indices: 4048901--4048933 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4048891 TACATTGATC
4048901 CTCCTGC-TTTGTTTT
1 CTCCTGCTTTTGTTTT
4048916 CTCCTGCTTTTGTTTT
1 CTCCTGCTTTTGTTTT
4048932 CT
1 CT
4048934 GCAAGCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.00, C:0.27, G:0.12, T:0.61
Consensus pattern (16 bp):
CTCCTGCTTTTGTTTT
Found at i:4051082 original size:57 final size:57
Alignment explanation
Indices: 4051013--4051128 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
4051003 ATTACCTGAA
*
4051013 GGATCTTCACAAGATCTTGGACTAGGATTAGATTCTTGGTTTTGCTGCAGAGATGCT
1 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGATGCT
* *
4051070 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGTTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGATGCT
4051127 GG
1 GG
4051129 TGGTTCCATC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGATGCT
Found at i:4060254 original size:2 final size:2
Alignment explanation
Indices: 4060249--4060274 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4060239 AATTCATAAA
4060249 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4060275 TTACAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4062270 original size:23 final size:23
Alignment explanation
Indices: 4062237--4062280 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4062227 TTTTTAAATA
*
4062237 TCTTAACTTAAATTATATTTTAT
1 TCTTAACTTAAAATATATTTTAT
*
4062260 TCTTAAGTTAAAATATATTTT
1 TCTTAACTTAAAATATATTTT
4062281 GAAGTTAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (23 bp):
TCTTAACTTAAAATATATTTTAT
Found at i:4062353 original size:27 final size:29
Alignment explanation
Indices: 4062311--4062396 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
4062301 TATTTTAAAA
*
4062311 AGTTAAGATAATAATAAAATATATATTTT
1 AGTTAAGATAAGAATAAAATATATATTTT
*
4062340 -TTTAA-ATAAGAATAAAATATAT-TTTT
1 AGTTAAGATAAGAATAAAATATATATTTT
*
4062366 AAGTGAAGATAAGAATAAAATATATATTTT
1 -AGTTAAGATAAGAATAAAATATATATTTT
4062396 A
1 A
4062397 TATATTAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
26 4 0.08
27 16 0.33
28 7 0.14
29 18 0.37
30 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (29 bp):
AGTTAAGATAAGAATAAAATATATATTTT
Found at i:4062377 original size:23 final size:24
Alignment explanation
Indices: 4062333--4062382 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
4062323 AATAAAATAT
*
4062333 ATATTTTTTTAAATAAGAATAA-A
1 ATATATTTTTAAATAAGAATAAGA
*
4062356 ATATATTTTTAAGTGAAG-ATAAGA
1 ATATATTTTTAAAT-AAGAATAAGA
4062380 ATA
1 ATA
4062383 AAATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (24 bp):
ATATATTTTTAAATAAGAATAAGA
Found at i:4062378 original size:29 final size:30
Alignment explanation
Indices: 4062310--4062586 Score: 123
Period size: 30 Copynumber: 9.1 Consensus size: 30
4062300 ATATTTTAAA
*
4062310 AAGTTAAGATAATAATAAAATATATATTTT
1 AAGTTAAGATAAGAATAAAATATATATTTT
*
4062340 --TTTAA-ATAAGAATAAAATATAT-TTTT
1 AAGTTAAGATAAGAATAAAATATATATTTT
*
4062366 AAGTGAAGATAAGAATAAAATATATATTTT
1 AAGTTAAGATAAGAATAAAATATATATTTT
* *
4062396 ATATATTAA-ATTAATAATAAAATATTTAAATATTTTTT
1 A-A-GTTAAGA-TAAGAATAAAATA--T--ATA--TTTT
* * *
4062434 AAGTTTAATTATTTA-AA-AAAATATGT-TTTT
1 AAG-TTAA-GA-TAAGAATAAAATATATATTTT
* *
4062464 AAGTGATGATAA-AGATAAAATATATATTTTT
1 AAGTTAAGATAAGA-ATAAAATATATA-TTTT
* * *
4062495 ACA-TTAAAATAAAAAT-AAATATAT-TTAAT
1 A-AGTTAAGATAAGAATAAAATATATATT-TT
* * *
4062524 AAGTTAAGAAAAAAATAAAATATAT-TTAAT
1 AAGTTAAGATAAGAATAAAATATATATT-TT
* *
4062554 AAGTTAAAATTTAAAAATAAAATATA-ATTTT
1 AAGTTAAGA--TAAGAATAAAATATATATTTT
4062585 AA
1 AA
4062587 ATTTTAAAAT
Statistics
Matches: 195, Mismatches: 24, Indels: 55
0.71 0.09 0.20
Matches are distributed among these distances:
26 4 0.02
27 19 0.10
28 12 0.06
29 40 0.21
30 41 0.21
31 18 0.09
32 33 0.17
33 1 0.01
34 1 0.01
35 1 0.01
36 3 0.02
37 11 0.06
38 7 0.04
39 4 0.02
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (30 bp):
AAGTTAAGATAAGAATAAAATATATATTTT
Found at i:4063496 original size:38 final size:38
Alignment explanation
Indices: 4063448--4063525 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
4063438 TCGGGGCGGA
*
4063448 TTTTTTAAGTGTGATATTTGGGTC-GAGTCGGGTCAGGT
1 TTTTTTAAGTGTGATATTCGGGTCGGA-TCGGGTCAGGT
*
4063486 TTTTTTAAGTGTGATATTCGGGTCGGATCGGGTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGGATCGGGTCAGGT
4063524 TT
1 TT
4063526 AGGGTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.14, C:0.09, G:0.35, T:0.42
Consensus pattern (38 bp):
TTTTTTAAGTGTGATATTCGGGTCGGATCGGGTCAGGT
Found at i:4063674 original size:242 final size:238
Alignment explanation
Indices: 4063234--4063680 Score: 684
Period size: 242 Copynumber: 1.9 Consensus size: 238
4063224 TTTTGTTCGG
* *
4063234 GTCGGGTGAGATTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAATCGG
1 GTCGGGTCAGATTTTTTTAAGTGTGATATTCGGGTCGGGGTCGGGTTTAGGGTGAAAAAAATCGG
* * *
4063299 GCCGACCCGAAAATATATAATTCGGGTCGAGTCGGATTAAGTCACTGTTTTTATTAAATAAAAAT
66 ACCGACCCGAAAATATATAATTCAGGTCGAGGCGGATTAAGTCACTGTTTTTATTAAAT--AAAT
*
4063364 ATTTTTTATTATTTAGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACT
129 ATTTTTTATTATTTAGGTCGGGTCGGATTTCTAATTCATATATTCAGGTCGGGTCGGATGAAACT
4063429 TTATTTTGTTCGGGGCGGATTTTTTAAGTGTGATATTTGGGTCGA
194 TTATTTTGTTCGGGGCGGATTTTTTAAGTGTGATATTTGGGTCGA
*
4063474 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGGATCGGGTCGGGTTTAGGGTGAAAAAAA
1 GTCGGGTCAGATTTTTTTAAGTGTGATATTCGGGTC-G---GGGTCGGGTTTAGGGTGAAAAAAA
* * *
4063539 TCGGACCGACCCGAAAATATATATAATTTAGGTCGGGGCGGATTAAGTCATTGTTTTTATTAAAT
62 TCGGACCGACCCG-AAA-ATATATAATTCAGGTCGAGGCGGATTAAGTCACTGTTTTTATTAAAT
* *
4063604 -AAT-TTTTTT-TTATTTCGGGTCGGGTCGGATTTTTAATTCATATATTCAGGTCGGGTCGGATG
125 AAATATTTTTTATTATTT-AGGTCGGGTCGGATTTCTAATTCATATATTCAGGTCGGGTCGGATG
4063666 AAACTTTATTTTGTT
189 AAACTTTATTTTGTT
4063681 TGGGACGGGT
Statistics
Matches: 188, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
240 34 0.18
241 7 0.04
242 64 0.34
243 3 0.02
244 35 0.19
245 3 0.02
246 42 0.22
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (238 bp):
GTCGGGTCAGATTTTTTTAAGTGTGATATTCGGGTCGGGGTCGGGTTTAGGGTGAAAAAAATCGG
ACCGACCCGAAAATATATAATTCAGGTCGAGGCGGATTAAGTCACTGTTTTTATTAAATAAATAT
TTTTTATTATTTAGGTCGGGTCGGATTTCTAATTCATATATTCAGGTCGGGTCGGATGAAACTTT
ATTTTGTTCGGGGCGGATTTTTTAAGTGTGATATTTGGGTCGA
Found at i:4064337 original size:16 final size:17
Alignment explanation
Indices: 4064318--4064355 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4064308 ATTGGATTCT
*
4064318 AATTCCTACA-GATTTC
1 AATTCCTACACCATTTC
*
4064334 AATTCCTTCACCATTTC
1 AATTCCTACACCATTTC
4064351 AATTC
1 AATTC
4064356 TCTCCTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (17 bp):
AATTCCTACACCATTTC
Found at i:4067739 original size:122 final size:122
Alignment explanation
Indices: 4067514--4067881 Score: 648
Period size: 122 Copynumber: 3.0 Consensus size: 122
4067504 ACAAAAACTA
*
4067514 TTGAGGGAATAAAGGTTTGATTTCATTAATATTCAAATTTATAAGACCTAAAATTAAATAAAACT
1 TTGAAGGAATAAAGGTTTGATTTCATTAATATTCAAATTTATAAGACCTAAAATTAAATAAAACT
* *
4067579 AAAAAAGTTGGGGCATGGCCCATTCTATGCTATTCATGGTTCCATCATTGCCACAAT
66 AAAAAAGTTGGGGCATGGCCCATTCTATGTTATACATGGTTCCATCATTGCCACAAT
4067636 TTGAAGGAATAAAGGTTTGATTTCATTAATATTCAAATTTATAAGACCTAAAATTAAATAAAACT
1 TTGAAGGAATAAAGGTTTGATTTCATTAATATTCAAATTTATAAGACCTAAAATTAAATAAAACT
4067701 AAAAAAGTTGGGGCATGGCCCATTCTATGTTATACATGGTTCCATCATTGCCACAAT
66 AAAAAAGTTGGGGCATGGCCCATTCTATGTTATACATGGTTCCATCATTGCCACAAT
4067758 TTGAAGGAATAAAGGTTTGATTTCATTAATATTCAAATTTATAAGACCTAAAATTAAATAAAACT
1 TTGAAGGAATAAAGGTTTGATTTCATTAATATTCAAATTTATAAGACCTAAAATTAAATAAAACT
* * * * *
4067823 ACAAAATTTGAGGCATGGCCCACTT-TATGTTATACATGGTTCCATCACTGTCACAAT
66 AAAAAAGTTGGGGCATGGCCCA-TTCTATGTTATACATGGTTCCATCATTGCCACAAT
4067880 TT
1 TT
4067882 AAAATTGATT
Statistics
Matches: 237, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
122 235 0.99
123 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (122 bp):
TTGAAGGAATAAAGGTTTGATTTCATTAATATTCAAATTTATAAGACCTAAAATTAAATAAAACT
AAAAAAGTTGGGGCATGGCCCATTCTATGTTATACATGGTTCCATCATTGCCACAAT
Found at i:4068021 original size:8 final size:8
Alignment explanation
Indices: 4067977--4068021 Score: 58
Period size: 7 Copynumber: 5.6 Consensus size: 8
4067967 AGGACGTATC
4067977 TTTATATT
1 TTTATATT
4067985 GTTTATTATT
1 -TTTA-TATT
4067995 TTTA-ATT
1 TTTATATT
4068002 TTTA-ATT
1 TTTATATT
4068009 TTTATATT
1 TTTATATT
4068017 TTTAT
1 TTTAT
4068022 GACATGTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.41
8 8 0.24
9 8 0.24
10 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTATATT
Found at i:4083183 original size:30 final size:29
Alignment explanation
Indices: 4083153--4083222 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 29
4083143 ATTAATTTTG
*
4083153 GGAACTAAATTGAAATTTTAACTAAATTT
1 GGAACTAAATTAAAATTTTAACTAAATTT
* *
4083182 GGAGACCAAATTAAAATTTTAATTAAATTT
1 GGA-ACTAAATTAAAATTTTAACTAAATTT
*
4083212 GGATCTAAATT
1 GGAACTAAATT
4083223 CAGAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (29 bp):
GGAACTAAATTAAAATTTTAACTAAATTT
Found at i:4084611 original size:12 final size:12
Alignment explanation
Indices: 4084594--4084625 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4084584 GGCTTTTATC
4084594 GGGTGTATAGGT
1 GGGTGTATAGGT
4084606 GGGTGTATAGGT
1 GGGTGTATAGGT
4084618 GGGTGTAT
1 GGGTGTAT
4084626 GGTTCTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (12 bp):
GGGTGTATAGGT
Found at i:4093462 original size:26 final size:21
Alignment explanation
Indices: 4093433--4093489 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 21
4093423 AAAGTTGATA
4093433 ATTAATTTTATTATTATATTAATC
1 ATTAATTTTA-TATTAT-TT-ATC
4093457 TTATTAATTGTTATATTATTTATC
1 --ATTAATT-TTATATTATTTATC
4093481 ATTAATTTT
1 ATTAATTTT
4093490 TAGTTTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
24 3 0.10
25 2 0.07
26 13 0.43
27 3 0.10
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTAATTTTATATTATTTATC
Found at i:4098518 original size:18 final size:19
Alignment explanation
Indices: 4098476--4098518 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
4098466 TTTGGTTCAC
4098476 GGAATGTAAGATTACCATTG
1 GGAATGTAAGATTACCA-TG
4098496 GGAATGTAAGATTACCA-G
1 GGAATGTAAGATTACCATG
4098514 GGAAT
1 GGAAT
4098519 ATGATTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.26
20 17 0.74
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (19 bp):
GGAATGTAAGATTACCATG
Found at i:4104929 original size:44 final size:44
Alignment explanation
Indices: 4104864--4104997 Score: 184
Period size: 44 Copynumber: 3.1 Consensus size: 44
4104854 TTGATGTATG
4104864 ATATATATAATATTTCAAGCCTACCACAATTGAATGTATGATAT
1 ATATATATAATATTTCAAGCCTACCACAATTGAATGTATGATAT
* * * *
4104908 ATATATATAAGATTTCGAGCCTACCAAAATTG-ATATAT-ATAT
1 ATATATATAATATTTCAAGCCTACCACAATTGAATGTATGATAT
* **
4104950 ATATATATATTCCTT-AAGCCTACCACAATTGAATGTATGATAT
1 ATATATATAATATTTCAAGCCTACCACAATTGAATGTATGATAT
4104993 ATATA
1 ATATA
4104998 AGTCTACTCC
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 14 0.18
42 20 0.26
43 14 0.18
44 29 0.38
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (44 bp):
ATATATATAATATTTCAAGCCTACCACAATTGAATGTATGATAT
Found at i:4111534 original size:112 final size:113
Alignment explanation
Indices: 4111336--4111541 Score: 335
Period size: 112 Copynumber: 1.8 Consensus size: 113
4111326 AACTTTCAAC
** *
4111336 AAAGTATCGATACATTTTTATAAAATGTATTTATACTTTCAACATATTAGATAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAATGTATCGATACTTTCAACATATCAGATAAATTTTACCGGT
4111401 TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTTTTATATTGT
66 TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTTTTATATTGT
* *
4111449 AAAGTATCGAT-CCTTTTTATCAAAATG-ATCGATACTTTCAACATATCAGGTAAATTTTACCGG
1 AAAGTATCGATACATTTTTAT-AAAATGTATCGATACTTTCAACATATCAGATAAATTTTACCGG
*
4111512 TTTTGTCATAATGAAACTGGTTTTGTCATA
65 TTTTATCATAATGAAACTGGTTTTGTCATA
4111542 ATGAAACTGG
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
112 69 0.80
113 17 0.20
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (113 bp):
AAAGTATCGATACATTTTTATAAAATGTATCGATACTTTCAACATATCAGATAAATTTTACCGGT
TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTTTTATATTGT
Found at i:4111535 original size:20 final size:20
Alignment explanation
Indices: 4111510--4111561 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
4111500 AAATTTTACC
4111510 GGTTTTGTCATAATGAAACT
1 GGTTTTGTCATAATGAAACT
4111530 GGTTTTGTCATAATGAAACT
1 GGTTTTGTCATAATGAAACT
4111550 GGTTTTGTCATA
1 GGTTTTGTCATA
4111562 TTTTTATCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (20 bp):
GGTTTTGTCATAATGAAACT
Found at i:4111635 original size:132 final size:132
Alignment explanation
Indices: 4111398--4111673 Score: 498
Period size: 132 Copynumber: 2.1 Consensus size: 132
4111388 AAATTTTACC
* * *
4111398 GGTTTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTTTTATATTGTAAAGTATCGATCCT
1 GGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATAGATCCT
*
4111463 TTTTATCAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAA
66 TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAA
4111528 CT
131 CT
*
4111530 GGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTATCTGTTATATTGTAAAGTATAGATCCT
1 GGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATAGATCCT
4111595 TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAA
66 TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAA
4111660 CT
131 CT
*
4111662 GATTTTGTCATA
1 GGTTTTGTCATA
4111674 CTTTTACCTG
Statistics
Matches: 138, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 138 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (132 bp):
GGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATAGATCCT
TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAA
CT
Found at i:4111765 original size:113 final size:113
Alignment explanation
Indices: 4111531--4111821 Score: 467
Period size: 113 Copynumber: 2.6 Consensus size: 113
4111521 AATGAAACTG
* * *
4111531 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTATCTGTTATATTGTAAAGTATAGAT-CCT
1 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACAT
*
4111595 TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCG
66 TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCA
* *
4111643 GTTTTGTCATAATGAAACTGATTTTGTCATACTTTTACCTGTTATATTGTAAAGTATCGATACAT
1 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACAT
* * *
4111708 TTTTATAAAAATGATCGATGCTTTCAACATATCCGGTAAATTTTACTA
66 TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCA
* * *
4111756 GTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTATGATATTGTAAAGTATCGATACAT
1 GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACAT
4111821 T
66 T
4111822 ATATGCGCTA
Statistics
Matches: 164, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
112 57 0.35
113 107 0.65
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (113 bp):
GTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACAT
TTTTATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCA
Found at i:4112090 original size:23 final size:23
Alignment explanation
Indices: 4112064--4112113 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
4112054 ACCTATTTTA
*
4112064 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
4112087 TTATATAAGTGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
4112110 TTAT
1 TTAT
4112114 TGTGTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:4112203 original size:87 final size:87
Alignment explanation
Indices: 4112052--4112251 Score: 312
Period size: 87 Copynumber: 2.3 Consensus size: 87
4112042 ATTAAATAAT
* * * *
4112052 TAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGTGCTACCTAATATGTTATTGT
1 TAACCTATTTTATTATATAAGCGCTAACTATTACATTATATAAGCGATACCTAATATGTTATTGT
4112117 G-TTTGATAATGTTTCTAGTAAG
66 GCTTT-ATAATGTTTCTAGTAAG
* *
4112139 TAACTTATTTTATTATATAAGCGCTAACTATTACATTATATAAGCGATACTTAATATGTTATTGT
1 TAACCTATTTTATTATATAAGCGCTAACTATTACATTATATAAGCGATACCTAATATGTTATTGT
*
4112204 GCTTTATAATGTTTCTAGTAAT
66 GCTTTATAATGTTTCTAGTAAG
*
4112226 TAACCTATTTTATTATATAAACGCTA
1 TAACCTATTTTATTATATAAGCGCTA
4112252 CCTCTGTGGA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 100 0.97
88 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (87 bp):
TAACCTATTTTATTATATAAGCGCTAACTATTACATTATATAAGCGATACCTAATATGTTATTGT
GCTTTATAATGTTTCTAGTAAG
Found at i:4112964 original size:113 final size:113
Alignment explanation
Indices: 4112642--4113144 Score: 778
Period size: 113 Copynumber: 4.5 Consensus size: 113
4112632 ATTTTACCGA
* * *
4112642 TTTTGTCATATTTTTATATGTTATATTGTAAAGTATCGAT-CCTTTTTATAAAAATGATCGATAC
1 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
*
4112706 TTTCAACATATCAGGTAAATTTTACCGGTTTTATCATAATGAAACTGG
66 TTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGG
* * * *
4112754 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGAT-CCTTTTCATAAAAAGGATCGATAC
1 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
* *
4112818 TTTCAACATATCAGGTAAATTTTACTGGTTTTGTCATAATGAAACTAG
66 TTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGG
* * *
4112866 CTTTGTCATATTTTTACCTGTTATATTGTAAAGTATTGATACATTTTTATAAAAAAGATCGATAC
1 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
* *
4112931 TTTCAACATATCCGGTAAATTTTACCGGTTTTGTCATAATAAAACTGG
66 TTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGG
* ** *
4112979 TTTTGTCATATTTGTACATGTTATATTGTAAAGTATTAATACATTTTTATAAAAAAGATCGATAT
1 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
* * *
4113044 TTTCAACATATC-CGAAAATTTTTACCGGTTTTGTCATAATGAAACTGA
66 TTTCAACATATCAGGTAAA-TTTTACCGGTTTTGTCATAATGAAACTGG
4113092 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAA
1 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAA
4113145 GTATCGATAC
Statistics
Matches: 361, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
112 147 0.41
113 214 0.59
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (113 bp):
TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
TTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGG
Found at i:4113549 original size:87 final size:88
Alignment explanation
Indices: 4113401--4113605 Score: 317
Period size: 87 Copynumber: 2.4 Consensus size: 88
4113391 AACATATTTT
* * * * *
4113401 ATTATATAAG-CGCTACATAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATTTT
1 ATTATATAAGACGATACCTAATATGTTATTGTGATTGATAATGTTTCCAGAAATTAACCTATTTT
*
4113465 ATTATATAAGCGCTACCTATTAC
66 ATTATATAAACGCTACCTATTAC
* *
4113488 ATTATATAAGATG-TACCTAATATGTTATTGTGATTGATAATGTTTCCAGAAATTAATCTATTTT
1 ATTATATAAGACGATACCTAATATGTTATTGTGATTGATAATGTTTCCAGAAATTAACCTATTTT
4113552 ATTATATAAACGCTACCTATTAC
66 ATTATATAAACGCTACCTATTAC
4113575 ATTATATAA-ACGATACCTAATATGTTATTGT
1 ATTATATAAGACGATACCTAATATGTTATTGT
4113606 ACTTCATAAT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
86 2 0.02
87 105 0.97
88 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (88 bp):
ATTATATAAGACGATACCTAATATGTTATTGTGATTGATAATGTTTCCAGAAATTAACCTATTTT
ATTATATAAACGCTACCTATTAC
Found at i:4113602 original size:23 final size:23
Alignment explanation
Indices: 4113552--4113596 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4113542 AATCTATTTT
* *
4113552 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGATACCTAATAC
4113575 ATTATATAAACGATACCTAATA
1 ATTATATAAACGATACCTAATA
4113597 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGATACCTAATAC
Found at i:4119989 original size:21 final size:21
Alignment explanation
Indices: 4119952--4120034 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
4119942 TTTTGGTGCA
*
4119952 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
4119972 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
*
4119993 GAAGGGGAACCGATTCCCCCCAC
1 G-A-GGGAACCGATTCCCCCCAT
* * *
4120016 AAGGGAATCGATACCCCCC
1 GAGGGAACCGATTCCCCCC
4120035 TGGGGTTCTG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.20
21 23 0.45
22 2 0.04
23 16 0.31
ACGTcount: A:0.25, C:0.36, G:0.24, T:0.14
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:4126895 original size:18 final size:17
Alignment explanation
Indices: 4126858--4126892 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
4126848 ACTTAAAAAA
4126858 AAAAAGGAAAGGAAAGG
1 AAAAAGGAAAGGAAAGG
4126875 AAAAAGAGAAAGAGAAAG
1 AAAAAG-GAAAG-GAAAG
4126893 AAAGGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AAAAAGGAAAGGAAAGG
Found at i:4130664 original size:45 final size:47
Alignment explanation
Indices: 4130612--4130700 Score: 146
Period size: 45 Copynumber: 1.9 Consensus size: 47
4130602 TCGAATAAAT
*
4130612 GCATGCGAACTAGATATCATGCGGTTAGG-TTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATCATGCAGTTAGGATTTATTTTTGTGAACAA
*
4130657 GCATGCGAATTAGATATCATGCAGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCAGTTAGGATTTATTTTTGTGAA
4130701 TAACAAAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 27 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCAGTTAGGATTTATTTTTGTGAACAA
Found at i:4140266 original size:12 final size:11
Alignment explanation
Indices: 4140246--4140399 Score: 66
Period size: 12 Copynumber: 13.5 Consensus size: 11
4140236 ATTTCGCTTG
4140246 AAGAAGAAATAA
1 AAGAAGAAA-AA
*
4140258 AAGAGGAAAAA
1 AAGAAGAAAAA
*
4140269 AA-ACG-AAAA
1 AAGAAGAAAAA
* *
4140278 ATGAAAAAAAA
1 AAGAAGAAAAA
4140289 AATG-AGAAAAA
1 AA-GAAGAAAAA
* *
4140300 GAAAAAGAGAAA
1 -AAGAAGAAAAA
*
4140312 AAGAAGAAAAG
1 AAGAAGAAAAA
4140323 AA-AAGAAAAA
1 AAGAAGAAAAA
*
4140333 ATGAGAAAAAATAAA
1 A--AG-AAGAA-AAA
4140348 AATGAAGAAAAA
1 AA-GAAGAAAAA
*
4140360 ATGAAAGAAAAA
1 AAG-AAGAAAAA
*
4140372 CAAAAAGATAAAA
1 -AAGAAGA-AAAA
*
4140385 ATGAA-AAAAA
1 AAGAAGAAAAA
*
4140395 GAGAA
1 AAGAA
4140400 ATAAAAGGAG
Statistics
Matches: 106, Mismatches: 22, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
9 5 0.05
10 18 0.17
11 27 0.25
12 37 0.35
13 10 0.09
14 5 0.05
15 4 0.04
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:4140297 original size:14 final size:15
Alignment explanation
Indices: 4140267--4140359 Score: 83
Period size: 14 Copynumber: 6.3 Consensus size: 15
4140257 AAAGAGGAAA
4140267 AAAAACGAAAAAT--G
1 AAAAA-GAAAAATGAG
4140281 AAAAA-AAAAATGAG
1 AAAAAGAAAAATGAG
4140295 AAAAAGAAAAA-GAG
1 AAAAAGAAAAATGAG
4140309 AAAAAGAAGAAA--AG
1 AAAAAGAA-AAATGAG
4140323 -AAAAGAAAAAATGAG
1 AAAAAG-AAAAATGAG
*
4140338 AAAAAATAAAAATGAAG
1 -AAAAAGAAAAATG-AG
4140355 AAAAA
1 AAAAA
4140360 ATGAAAGAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
12 6 0.09
13 8 0.12
14 26 0.38
15 10 0.15
16 12 0.18
17 6 0.09
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAAATGAG
Found at i:4140313 original size:43 final size:46
Alignment explanation
Indices: 4140266--4140401 Score: 122
Period size: 51 Copynumber: 2.9 Consensus size: 46
4140256 AAAAGAGGAA
*
4140266 AAAAAACGAAAAATGAAAA-AAAAAATGAG-AAAAAGAAAAA-G-AG
1 AAAAAA-GAAAAAAGAAAAGAAAAAATGAGAAAAAAGAAAAATGAAG
*
4140309 -AAAAAGAAGAAAAGAAAAGAAAAAATGAGAAAAAATAAAAATGAAG
1 AAAAAAGAA-AAAAGAAAAGAAAAAATGAGAAAAAAGAAAAATGAAG
* *
4140355 AAAAAATGAAAGAAAAACAAAAAGATAAAAATGA-AAAAAAGAGAAAT
1 AAAAAA-G--A-AAAAA-GAAAAGA-AAAAATGAGAAAAAAGAAAAAT
4140402 AAAAGGAGGG
Statistics
Matches: 76, Mismatches: 5, Indels: 16
0.78 0.05 0.16
Matches are distributed among these distances:
41 3 0.04
42 13 0.17
43 10 0.13
44 10 0.13
45 1 0.01
46 2 0.03
47 5 0.07
48 1 0.01
50 5 0.07
51 18 0.24
52 8 0.11
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.07
Consensus pattern (46 bp):
AAAAAAGAAAAAAGAAAAGAAAAAATGAGAAAAAAGAAAAATGAAG
Found at i:4140321 original size:44 final size:44
Alignment explanation
Indices: 4140256--4140396 Score: 133
Period size: 43 Copynumber: 3.0 Consensus size: 44
4140246 AAGAAGAAAT
*
4140256 AAAAGAGGAAAAAAAACGAAAAATGAAAA-AAAAAATGAGAAAAAGA
1 AAAAGA-GAAAAAGAA-GAAAAA-GAAAAGAAAAAATGAGAAAAAGA
*
4140302 AAAAGAGAAAAAGAAG-AAAAGAAAAGAAAAAATGAGAAAAAATA
1 AAAAGAGAAAAAGAAGAAAAAGAAAAGAAAAAATGAG-AAAAAGA
* *
4140346 AAAATGAAGAAAAAATGAAAGAAAAACAAAAAGATAAAAATGAAAAAAAGA
1 AAAA-G-AG-AAAAA-G-AAGAAAAA-GAAAAGA-AAAAATGAGAAAAAGA
4140397 GAAATAAAAG
Statistics
Matches: 80, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
42 5 0.06
43 14 0.17
44 11 0.14
45 9 0.11
46 8 0.10
47 5 0.06
48 1 0.01
49 3 0.04
50 4 0.05
51 12 0.15
52 8 0.10
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (44 bp):
AAAAGAGAAAAAGAAGAAAAAGAAAAGAAAAAATGAGAAAAAGA
Found at i:4140348 original size:27 final size:25
Alignment explanation
Indices: 4140264--4140394 Score: 90
Period size: 27 Copynumber: 5.0 Consensus size: 25
4140254 ATAAAAGAGG
*
4140264 AAAAAAAA-CGAAAAATGAAAAAAA
1 AAAAAAAAGAGAAAAATGAAAAAAA
*
4140288 AAATGAGAAAA-AGAAAAAGAGAAAAAGAA
1 AAA--A-AAAAGAGAAAAA-TGAAAAA-AA
4140317 GAAAAGAAAAGA-AAAAATGAGAAAAAA
1 -AAAA-AAAAGAGAAAAATGA-AAAAAA
* *
4140344 TAAAAATGAAGA-AAAAATGAAAGAAA
1 -AAAAA-AAAGAGAAAAATGAAAAAAA
* *
4140370 AACAAAAAGATAAAAATGAAAAAAA
1 AAAAAAAAGAGAAAAATGAAAAAAA
4140395 GAGAAATAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
24 7 0.08
25 17 0.19
26 7 0.08
27 30 0.34
28 21 0.24
29 3 0.03
30 3 0.03
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.06
Consensus pattern (25 bp):
AAAAAAAAGAGAAAAATGAAAAAAA
Found at i:4140391 original size:14 final size:13
Alignment explanation
Indices: 4140274--4140391 Score: 72
Period size: 12 Copynumber: 8.8 Consensus size: 13
4140264 AAAAAAAACG
4140274 AAAAATGAAAA-A
1 AAAAATGAAAAGA
4140286 AAAAATGAGAAAAAGA
1 AAAAAT--G-AAAAGA
4140302 AAAAGA-GAAAAAGA
1 AAAA-ATG-AAAAGA
4140316 AGAAAA-GAAAAGA
1 A-AAAATGAAAAGA
*
4140329 AAAAATGAGAAAAAA
1 AAAAAT--GAAAAGA
4140344 TAAAAATG--AAGA
1 -AAAAATGAAAAGA
4140356 AAAAATG-AAAGA
1 AAAAATGAAAAGA
4140368 AAAACA--AAAAGA
1 AAAA-ATGAAAAGA
4140380 TAAAAATGAAAA
1 -AAAAATGAAAA
4140392 AAAGAGAAAT
Statistics
Matches: 88, Mismatches: 2, Indels: 30
0.73 0.02 0.25
Matches are distributed among these distances:
11 7 0.08
12 27 0.31
13 12 0.14
14 17 0.19
15 13 0.15
16 11 0.12
17 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAAATGAAAAGA
Found at i:4140391 original size:60 final size:58
Alignment explanation
Indices: 4140281--4140405 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 58
4140271 ACGAAAAATG
* * *
4140281 AAAAAAAAAATGAGAAAAAGAAAAAGAGAAAAAGAAGAAAAGAAAAGAAAAAATGAGA
1 AAAAAAAAAATGAGAAAAAGAAAAAGAAAAAAAAAAGAAAAGAAAAGAAAAAAAGAGA
* * *
4140339 AAAAATAAAAATGAAGAAAAA-ATGAAAGAAAAACAAAAAGATAA-AAATGAAAAAAAGAGA
1 AAAAA-AAAAATG-AGAAAAAGA-AAAAGAAAAA-AAAAAGAAAAGAAAAGAAAAAAAGAGA
*
4140399 AATAAAA
1 AAAAAAA
4140406 GGAGGGTTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
58 5 0.09
59 10 0.18
60 33 0.59
61 8 0.14
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (58 bp):
AAAAAAAAAATGAGAAAAAGAAAAAGAAAAAAAAAAGAAAAGAAAAGAAAAAAAGAGA
Found at i:4141729 original size:37 final size:36
Alignment explanation
Indices: 4141675--4141746 Score: 126
Period size: 37 Copynumber: 2.0 Consensus size: 36
4141665 AAACAGGTCA
4141675 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
*
4141711 ATCTGTAAGCCTTCACGGAAGATTAGTGAAGCAAAC
1 ATCT-TAAGCCTTCACGGAAGAGTAGTGAAGCAAAC
4141747 TCATTTTATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
Found at i:4141898 original size:111 final size:109
Alignment explanation
Indices: 4141761--4142064 Score: 391
Period size: 111 Copynumber: 2.8 Consensus size: 109
4141751 TTTATGAAGA
*
4141761 TCGAGTCCTATACTCTCTGAAGGAATATGGAGCGGACCCGTTTATTGAAGATT-TTCCAAGTTAT
1 TCGAGTTCTATACTCTCTGAAGGAATA-GGAGCGGACCCGTTTATTGAAGATTGTT-CAAGTTAT
*
4141825 ATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGT
64 ATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTA-TGAAGATTGT
** * ** *
4141872 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGATTCGTTTGTTGAAGATTGTTTGAGTTCTA
1 TCGAGTTCTATACTCTCTGAAGGAATAG-GAGCGGACCCGTTTATTGAAGATTGTTCAAGTTATA
4141937 TACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATGAAGATTGT
65 TACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATGAAGATTGT
* * * * *
4141982 TCGAGTTCTATACTCCCTG-AGCGGATAGGGAGCGTACCCGTTTATTGAAGATTGATCGAGTCT-
1 TCGAGTTCTATACTCTCTGAAG-GAATA-GGAGCGGACCCGTTTATTGAAGATTGTTCAAGT-TA
4142045 TATACTC-CTTGAAGGAATAG
63 TATACTCTC-TGAAGGAATAG
4142065 GGAGAATACT
Statistics
Matches: 171, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
109 3 0.02
110 77 0.45
111 89 0.52
112 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (109 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGGAGCGGACCCGTTTATTGAAGATTGTTCAAGTTATAT
ACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATGAAGATTGT
Found at i:4141978 original size:166 final size:165
Alignment explanation
Indices: 4141763--4142064 Score: 418
Period size: 166 Copynumber: 1.8 Consensus size: 165
4141753 TATGAAGATC
4141763 GAGTCCTATACTCTCTGAAGGAATATGGAGCGGACCCGTTTATTGAAGATT-TTCCAAGTTATAT
1 GAGTCCTATACTCTCTGAAGGAATATGGAGCGGACCCGTTTATTGAAGATTGTT-CAAGTTATAT
* *
4141827 ACTCTCTGAAG-GAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCGAGT-TCTATACT-CTC
65 ACTCCCTG-AGCGAATAGAGAGCGGACCCG-TTTATTGAAGATTGATCGAGTCT-TATACTCCT-
4141889 TGAAGGAATAGAGAGCGGATTCGTTTGTTGAAGATTGTTT
126 TGAAGGAATAGAGAGCGGATTCGTTTGTTGAAGATTGTTT
* * * *
4141929 GAGTTCTATACTCTCTGAAGGAATA-GAGAGCGGACCCATTT-TATGAAGATTGTTCGAGTTCTA
1 GAGTCCTATACTCTCTGAAGGAATATG-GAGCGGACCCGTTTAT-TGAAGATTGTTCAAGTTATA
* * *
4141992 TACTCCCTGAGCGGATAGGGAGCGTACCCGTTTATTGAAGATTGATCGAGTCTTATACTCCTTGA
64 TACTCCCTGAGCGAATAGAGAGCGGACCCGTTTATTGAAGATTGATCGAGTCTTATACTCCTTGA
4142057 AGGAATAG
129 AGGAATAG
4142065 GGAGAATACT
Statistics
Matches: 121, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
165 41 0.34
166 78 0.64
167 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (165 bp):
GAGTCCTATACTCTCTGAAGGAATATGGAGCGGACCCGTTTATTGAAGATTGTTCAAGTTATATA
CTCCCTGAGCGAATAGAGAGCGGACCCGTTTATTGAAGATTGATCGAGTCTTATACTCCTTGAAG
GAATAGAGAGCGGATTCGTTTGTTGAAGATTGTTT
Found at i:4142068 original size:55 final size:55
Alignment explanation
Indices: 4141761--4142064 Score: 386
Period size: 55 Copynumber: 5.5 Consensus size: 55
4141751 TTTATGAAGA
*
4141761 TCGAGTCCTATACTCTCTGAAGGAATATG-GAGCGGACCCGTTTATTGAAGATT-T
1 TCGAGTTCTATACTCTCTGAAGGAATA-GAGAGCGGACCCGTTTATTGAAGATTGT
* *
4141815 TCCAAGTTATATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGT
1 T-CGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCG-TTTATTGAAGATTGT
** *
4141872 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGATTCGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGT
* *
4141927 TTGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCATTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTAT-TGAAGATTGT
* * * * *
4141982 TCGAGTTCTATACTCCCTG-AGCGGATAGGGAGCGTACCCGTTTATTGAAGATTGA
1 TCGAGTTCTATACTCTCTGAAG-GAATAGAGAGCGGACCCGTTTATTGAAGATTGT
4142037 TCGAG-TCTTATACTC-CTTGAAGGAATAG
1 TCGAGTTC-TATACTCTC-TGAAGGAATAG
4142065 GGAGAATACT
Statistics
Matches: 220, Mismatches: 20, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
54 8 0.04
55 159 0.72
56 51 0.23
57 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (55 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGT
Found at i:4142086 original size:110 final size:109
Alignment explanation
Indices: 4141761--4142098 Score: 317
Period size: 110 Copynumber: 3.1 Consensus size: 109
4141751 TTTATGAAGA
* * * * *
4141761 TCGAGTCCTATACTCTCTGAAGGAATATG-GAGCGGACCCGTTTATTGAAGATT-TTCCAAGTTA
1 TCGAGTTCTATACTCCCTGAAGGAATA-GAGAGCGGACCCGTTTATTGAAGATTGAT-CGAGTTC
** * *
4141824 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGT
64 TATACTCTCTGAAGGAATAGAGAGAAGACCC-ATAT-TTGAAGATTGT
* ** * * *
4141872 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGATTCGTTTGTTGAAGATTGTTTGAGTTCTA
1 TCGAGTTCTATACTCCCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGATCGAGTTCTA
** *
4141937 TACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATGAAGATTGT
66 TACTCTCTGAAGGAATAGAGAGAAGACCCATATT-TGAAGATTGT
* * *
4141982 TCGAGTTCTATACTCCCTG-AGCGGATAGGGAGCGTACCCGTTTATTGAAGATTGATCGAG-TCT
1 TCGAGTTCTATACTCCCTGAAG-GAATAGAGAGCGGACCCGTTTATTGAAGATTGATCGAGTTC-
* * ** *
4142045 TATACTC-CTTGAAGGAATAGGGAGAATACTTATCATTTGAAGATTTT
64 TATACTCTC-TGAAGGAATAGAGAGAAGACCCAT-ATTTGAAGATTGT
*
4142092 TCAAGTT
1 TCGAGTT
4142099 TCATTTATCC
Statistics
Matches: 194, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
109 6 0.03
110 102 0.53
111 84 0.43
112 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (109 bp):
TCGAGTTCTATACTCCCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGATCGAGTTCTA
TACTCTCTGAAGGAATAGAGAGAAGACCCATATTTGAAGATTGT
Found at i:4145176 original size:2 final size:2
Alignment explanation
Indices: 4145169--4145200 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4145159 ATTAATTTTA
4145169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4145201 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.