Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 148 of 214
Found at i:44272610 original size:18 final size:18
Alignment explanation
Indices: 44272586--44272773 Score: 87
Period size: 18 Copynumber: 9.9 Consensus size: 18
44272576 TCCGCCAACA
44272586 CCACCTCCACCACC-CCT
1 CCACCTCCACCACCACCT
* *
44272603 AGCACCTCCACCTCCACCT
1 -CCACCTCCACCACCACCT
44272622 CCACCTCCACCACCACCAGCT
1 CCACCTCCACCACCA-C--CT
*
44272643 CCTATTCCTCCACCAGCC-CCA
1 CC-A--CCTCCACCA-CCACCT
* **
44272664 CCACCACCACCAATACCT
1 CCACCTCCACCACCACCT
* * *
44272682 GCACCCACTCCAGCACCTCCT
1 -C-CAC-CTCCACCACCACCT
* * * * *
44272703 CCTA-CACCTCCGCCAACA
1 CC-ACCTCCACCACCACCT
44272721 CCACCTCCACCACC-CCT
1 CCACCTCCACCACCACCT
* *
44272738 AGCACCTCCACCTCCACCT
1 -CCACCTCCACCACCACCT
44272757 CCACCTCCACCACCACC
1 CCACCTCCACCACCACC
44272774 AGCTCCTATT
Statistics
Matches: 122, Mismatches: 32, Indels: 32
0.66 0.17 0.17
Matches are distributed among these distances:
17 2 0.02
18 78 0.64
19 9 0.07
20 4 0.03
21 16 0.13
22 1 0.01
23 1 0.01
24 9 0.07
25 2 0.02
ACGTcount: A:0.22, C:0.61, G:0.04, T:0.13
Consensus pattern (18 bp):
CCACCTCCACCACCACCT
Found at i:44272614 original size:6 final size:6
Alignment explanation
Indices: 44272586--44272638 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
44272576 TCCGCCAACA
* * *
44272586 CCACCT CCACCA CC-CCT AGCACCT CCACCT CCACCT CCACCT CCACCA
1 CCACCT CCACCT CCACCT -CCACCT CCACCT CCACCT CCACCT CCACCT
44272634 CCACC
1 CCACC
44272639 AGCTCCTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 2 0.05
6 35 0.88
7 3 0.08
ACGTcount: A:0.21, C:0.66, G:0.02, T:0.11
Consensus pattern (6 bp):
CCACCT
Found at i:44272620 original size:12 final size:12
Alignment explanation
Indices: 44272584--44273649 Score: 182
Period size: 12 Copynumber: 87.6 Consensus size: 12
44272574 CCTCCGCCAA
44272584 CACCACCTCCAC
1 CACCACCTCCAC
*
44272596 CACC-CCTAGCAC
1 CACCACCT-CCAC
*
44272608 CTCCACCTCCAC
1 CACCACCTCCAC
*
44272620 CTCCACCTCCAC
1 CACCACCTCCAC
44272632 CACCACCAGCTCCTATTC
1 CACCA-C--CTCC-A--C
* *
44272650 CTCCACCAGCC-C
1 CACCACC-TCCAC
*
44272662 CACCACCACCAC
1 CACCACCTCCAC
** *
44272674 CAATACCTGCA-
1 CACCACCTCCAC
*
44272685 C-CCA-CTCCAG
1 CACCACCTCCAC
*
44272695 CACCTCCTCCTA-
1 CACCACCTCC-AC
* * *
44272707 CACCTCCGCCAA
1 CACCACCTCCAC
44272719 CACCACCTCCAC
1 CACCACCTCCAC
*
44272731 CACC-CCTAGCAC
1 CACCACCT-CCAC
*
44272743 CTCCACCTCCAC
1 CACCACCTCCAC
*
44272755 CTCCACCTCCAC
1 CACCACCTCCAC
44272767 CACCACCAGCTCCTATTC
1 CACCA-C--CTCC-A--C
* *
44272785 CTCCACCAGCC-C
1 CACCACC-TCCAC
*
44272797 CACCACCACCAC
1 CACCACCTCCAC
** *
44272809 CAATACCTGCA-
1 CACCACCTCCAC
*
44272820 C-CCA-CTCCAG
1 CACCACCTCCAC
*
44272830 CACCTCCTCCTA-
1 CACCACCTCC-AC
* * *
44272842 CACCTCCGCCAA
1 CACCACCTCCAC
44272854 CACCACCTCCAC
1 CACCACCTCCAC
*
44272866 CACCTA--TAGCAC
1 CACC-ACCT-CCAC
*
44272878 CTCCACCTCCAC
1 CACCACCTCCAC
*
44272890 CTCCA---CCAC
1 CACCACCTCCAC
* *
44272899 CACCAGCTCCTC
1 CACCACCTCCAC
* *
44272911 CTCCACCGGCC-C
1 CACCACC-TCCAC
* *
44272923 CAACACCACCAC
1 CACCACCTCCAC
** *
44272935 CAATACCTGCA-
1 CACCACCTCCAC
*
44272946 C-CCA-CTCCAG
1 CACCACCTCCAC
* **
44272956 CACCTCCTCCTG
1 CACCACCTCCAC
* * *
44272968 CACCTCCGCCAA
1 CACCACCTCCAC
*
44272980 CACCACCTCTAC
1 CACCACCTCCAC
*
44272992 CACC-CCTAGCAC
1 CACCACCT-CCAC
*
44273004 CTCCACCTCCAC
1 CACCACCTCCAC
* *
44273016 CTCCACCACCAC
1 CACCACCTCCAC
* * *
44273028 CAGCTCCTATTCCTC
1 CACCACC---TCCAC
*
44273043 CACCAGCTCCA-
1 CACCACCTCCAC
*
44273054 -A-CACCACCAC
1 CACCACCTCCAC
** **
44273064 CAATACCGGCA-
1 CACCACCTCCAC
*
44273075 C-CCA-CTCCAG
1 CACCACCTCCAC
*
44273085 CACCTCCTCCTA-
1 CACCACCTCC-AC
* * *
44273097 CACCTCCGCCAA
1 CACCACCTCCAC
44273109 CACCACCTCCAC
1 CACCACCTCCAC
*
44273121 CACC-CCTAGCAC
1 CACCACCT-CCAC
*
44273133 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273145 CTCCACCTCCAC
1 CACCACCTCCAC
** *
44273157 CACCACCAGCTC
1 CACCACCTCCAC
*
44273169 CTA-CTCCTCCAC
1 C-ACCACCTCCAC
**
44273181 CAGCC-CCAACAC
1 CA-CCACCTCCAC
**
44273193 CACCACCAATACCTG
1 CACCACC--T-CCAC
*
44273208 CACC-CACTCCAG
1 CACCAC-CTCCAC
* **
44273220 CACCTCCTCCTG
1 CACCACCTCCAC
* * *
44273232 CACCTCCGCCAA
1 CACCACCTCCAC
44273244 CACCACCTCCAC
1 CACCACCTCCAC
* * *
44273256 CACCCTTAGCACCTC
1 CA-CC--ACCTCCAC
44273271 CACCACCTCCAC
1 CACCACCTCCAC
*
44273283 CACCAACTCCTACTC
1 CACCACCTCC-A--C
* * *
44273298 CTCCACCGCCTC
1 CACCACCTCCAC
*
44273310 CAACACCTCCAC
1 CACCACCTCCAC
44273322 CAGCTCCTACTCCTCCAC
1 CA---CC-A--CCTCCAC
**
44273340 CAACC-CCGACAC
1 C-ACCACCTCCAC
44273352 CACCA-CTACCAC
1 CACCACCT-CCAC
* *
44273364 CTACTCCCACTCCAG
1 C-AC-CAC-CTCCAC
*
44273379 CACCTCCTCCTA-
1 CACCACCTCC-AC
* *
44273391 CACCACCACCAA
1 CACCACCTCCAC
44273403 CACCACCTCCAC
1 CACCACCTCCAC
*
44273415 CACC-CCTAGCAC
1 CACCACCT-CCAC
* *
44273427 CACCACTTGCAC
1 CACCACCTCCAC
* *
44273439 CTCCACTTCCAC
1 CACCACCTCCAC
* * *
44273451 CCCCACCTGCTC
1 CACCACCTCCAC
*
44273463 CTA-CTCCTCCAC
1 C-ACCACCTCCAC
*
44273475 CACC-CCTAGCAC
1 CACCACCT-CCAC
*
44273487 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273499 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273511 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273523 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273535 CACC-CCTAGCAC
1 CACCACCT-CCAC
* *
44273547 CACCACTTGCAC
1 CACCACCTCCAC
* *
44273559 CTCCACTTCCAC
1 CACCACCTCCAC
* * *
44273571 CCCCACCTGCTC
1 CACCACCTCCAC
*
44273583 CTA-CTCCTCCAC
1 C-ACCACCTCCAC
*
44273595 CACC-CCTAGCAC
1 CACCACCT-CCAC
*
44273607 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273619 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273631 CTCCACCTCCAC
1 CACCACCTCCAC
*
44273643 CTCCACC
1 CACCACC
44273650 ACCTCCAATT
Statistics
Matches: 778, Mismatches: 177, Indels: 198
0.67 0.15 0.17
Matches are distributed among these distances:
9 29 0.04
10 9 0.01
11 58 0.07
12 558 0.72
13 43 0.06
14 6 0.01
15 43 0.06
16 11 0.01
17 2 0.00
18 18 0.02
19 1 0.00
ACGTcount: A:0.22, C:0.59, G:0.04, T:0.14
Consensus pattern (12 bp):
CACCACCTCCAC
Found at i:44272626 original size:96 final size:94
Alignment explanation
Indices: 44272338--44272903 Score: 372
Period size: 96 Copynumber: 6.1 Consensus size: 94
44272328 CCAACCCCAA
* * * * *
44272338 CACCACCACCAACACCTGCACCCACTCCAGCACCTCCACCAACACCACCTC-CAGCATCTCCACC
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCC-CCTACACCACCCCACACCACCTCCACC
* *
44272402 ACCCCTAGCACCTCCACCACCCCCAGCC-CCAA
65 ACCCCTAGCACCT---CCACCTCCAGCCTCCAC
* * * *
44272434 CACCACCACCAACACCTGCACCCACTCCAGCACCTCCACTAACACCACCTC-CAGCACCTCCACC
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCCCCT-ACACCACCCCACACCACCTCCACC
* * * * * *
44272498 ACCACTAGCTCCTACTCCTCCACCAACCCCAC
65 ACCCCTAGCACCTCCACCTCCAGC--CTCCAC
*
44272530 CACCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCA
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCC-CCTACACCACC-CC-ACACCACCTCCA
44272595 CCACCCCTAGCACCTCCACCTCCA-CCTCCAC
63 CCACCCCTAGCACCTCCACCTCCAGCCTCCAC
* * * * * ** * * *
44272626 CTCCACCACC---ACCAGCTCCTATTCCTCCACCAGCCCC-ACCACCACCACCA-A-TACCTGCA
1 CACCACCACCAATACCTGCACCCACTCCAGCACC-TCCCCTA-CACCACC-CCACACCACCTCCA
* * * *
44272685 CCCACTCC-AGCACCTCCTCCTACA-CCTCCGC
63 -CCACCCCTAGCACCTCCACCTCCAGCCTCCAC
* ** * * * * *
44272716 CAACACCACC--T-CCACCACCC-CT--AGCACCTCCACCTCCACCTCCAC-CTCCACCACCACC
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCC-CCTACACCACCCCACACCACCTCCACC
* **
44272774 AGCTCCTA-TTCCTCCA---CCAGCC-CCAC
65 A-CCCCTAGCACCTCCACCTCCAGCCTCCAC
*
44272800 CACCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCA
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCC-CCTACACCACC-CC-ACACCACCTCCA
**
44272865 CCACCTATAGCACCTCCACCTCCA-CCTCCAC
63 CCACCCCTAGCACCTCCACCTCCAGCCTCCAC
44272896 CACCACCA
1 CACCACCA
44272904 GCTCCTCCTC
Statistics
Matches: 367, Mismatches: 70, Indels: 66
0.73 0.14 0.13
Matches are distributed among these distances:
84 14 0.04
85 2 0.01
86 7 0.02
87 33 0.09
88 3 0.01
89 1 0.00
90 59 0.16
91 8 0.02
92 5 0.01
93 50 0.14
94 2 0.01
95 4 0.01
96 145 0.40
97 3 0.01
98 1 0.00
99 30 0.08
ACGTcount: A:0.25, C:0.59, G:0.04, T:0.12
Consensus pattern (94 bp):
CACCACCACCAATACCTGCACCCACTCCAGCACCTCCCCTACACCACCCCACACCACCTCCACCA
CCCCTAGCACCTCCACCTCCAGCCTCCAC
Found at i:44272653 original size:36 final size:35
Alignment explanation
Indices: 44272488--44273181 Score: 150
Period size: 36 Copynumber: 21.0 Consensus size: 35
44272478 CCACCTCCAG
* *
44272488 CACCTCCACCACCACTAGCTCCTACTCCTCCA-CC
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * * *
44272522 AACC-CCACCACCACCA---CCAATACCTGCA-CC
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * *
44272552 CA-CTCCAGCACC-TC--CTCCTACACCTCCGCCAACAC
1 CACCTCCACCACCACCAGCTCCTACACCT---CC-ACCC
* *
44272587 CACCTCCACCACC-CCTAGCACCTCCACCTCCACCTC
1 CACCTCCACCACCACC-AGCTCCTACACCTCCACC-C
**
44272623 CACCTCCACCACCACCAGCTCCTATTCCTCCA--C
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * *
44272656 CAGCC-CCACCACCACCA---CCAATACCTGCA-CC
1 CA-CCTCCACCACCACCAGCTCCTACACCTCCACCC
* * *
44272687 CA-CTCCAGCACC-TC--CTCCTACACCTCCGCCAACAC
1 CACCTCCACCACCACCAGCTCCTACACCT---CC-ACCC
* *
44272722 CACCTCCACCACC-CCTAGCACCTCCACCTCCACCTC
1 CACCTCCACCACCACC-AGCTCCTACACCTCCACC-C
**
44272758 CACCTCCACCACCACCAGCTCCTATTCCTCCA--C
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * *
44272791 CAGCC-CCACCACCACCA---CCAATACCTGCA-CC
1 CA-CCTCCACCACCACCAGCTCCTACACCTCCACCC
* * *
44272822 CA-CTCCAGCACC-TC--CTCCTACACCTC--CGC
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * * * *
44272851 CAACACCACCTCCACCACCT-ATAGCACCTCCACCTC
1 CACCTCCACCACCACCAGCTCCTA-CACCTCCACC-C
44272887 CACCTCCACCACCACCAGCTCCT---CCTCCA-CC
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
** * * * *
44272918 GGCC-CCAACACCACCA---CCAATACCTGCA-CC
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * * * *
44272948 CA-CTCCAGCACC-TC--CTCCTGCACCTCCGCCAA
1 CACCTCCACCACCACCAGCTCCTACACCTCCACC-C
* * *
44272980 CACCACCTCTACCA-C--C-CCTAGCACCTCCACCTC
1 CACCTCCACCACCACCAGCTCCTA-CACCTCCACC-C
**
44273013 CACCTCCACCACCACCAGCTCCTATTCCTCCA--C
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * * * **
44273046 CAGCTCCAACACCACCA---CCAATACCGGCA-CC
1 CACCTCCACCACCACCAGCTCCTACACCTCCACCC
* * *
44273077 CA-CTCCAGCACC-TC--CTCCTACACCTCCGCCAACAC
1 CACCTCCACCACCACCAGCTCCTACACCT---CC-ACCC
* *
44273112 CACCTCCACCACC-CCTAGCACCTCCACCTCCACCTC
1 CACCTCCACCACCACC-AGCTCCTACACCTCCACC-C
*
44273148 CACCTCCACCACCACCAGCTCCTACTCCTCCACC
1 CACCTCCACCACCACCAGCTCCTACACCTCCACC
44273182 AGCCCCAACA
Statistics
Matches: 477, Mismatches: 109, Indels: 146
0.65 0.15 0.20
Matches are distributed among these distances:
27 2 0.00
29 12 0.03
30 133 0.28
31 14 0.03
32 8 0.02
33 102 0.21
34 11 0.02
35 16 0.03
36 141 0.30
37 11 0.02
39 27 0.06
ACGTcount: A:0.23, C:0.59, G:0.05, T:0.13
Consensus pattern (35 bp):
CACCTCCACCACCACCAGCTCCTACACCTCCACCC
Found at i:44272663 original size:135 final size:135
Alignment explanation
Indices: 44272488--44273274 Score: 1325
Period size: 135 Copynumber: 5.9 Consensus size: 135
44272478 CCACCTCCAG
* * * *
44272488 CACCTCCACCACCACTAGCTCCTACTCCTCCACCAACCCCACCACCACCACCAATACCTGCACCC
1 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
44272553 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
66 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
44272618 ACCTC
131 ACCTC
*
44272623 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCACCACCACCACCAATACCTGCACCC
1 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
44272688 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
66 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
44272753 ACCTC
131 ACCTC
*
44272758 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCACCACCACCACCAATACCTGCACCC
1 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
* *
44272823 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCA--CCTA-TA---GCACCTCC
66 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
44272882 ACCTC
131 ACCTC
*
44272887 CACCTCCACCACCACCAGCTCC---TCCTCCACCGGCCCCAACACCACCACCAATACCTGCACCC
1 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
* *
44272949 ACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCTACCACCCCTAG------CACCTCC
66 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
44273008 ACCTC
131 ACCTC
* *
44273013 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCTCCAACACCACCACCAATACCGGCACCC
1 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
44273078 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
66 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
44273143 ACCTC
131 ACCTC
*
44273148 CACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
1 CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
* *
44273213 ACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCTTAGCACCTCCACC
66 ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACC
44273275 ACCTCCACCA
Statistics
Matches: 621, Mismatches: 19, Indels: 24
0.94 0.03 0.04
Matches are distributed among these distances:
126 115 0.19
128 4 0.01
129 121 0.19
132 1 0.00
133 4 0.01
135 376 0.61
ACGTcount: A:0.23, C:0.58, G:0.05, T:0.13
Consensus pattern (135 bp):
CACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCC
ACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC
ACCTC
Found at i:44272749 original size:6 final size:6
Alignment explanation
Indices: 44272721--44272773 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
44272711 TCCGCCAACA
* * *
44272721 CCACCT CCACCA CC-CCT AGCACCT CCACCT CCACCT CCACCT CCACCA
1 CCACCT CCACCT CCACCT -CCACCT CCACCT CCACCT CCACCT CCACCT
44272769 CCACC
1 CCACC
44272774 AGCTCCTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 2 0.05
6 35 0.88
7 3 0.08
ACGTcount: A:0.21, C:0.66, G:0.02, T:0.11
Consensus pattern (6 bp):
CCACCT
Found at i:44272802 original size:525 final size:519
Alignment explanation
Indices: 44272104--44273274 Score: 1399
Period size: 525 Copynumber: 2.2 Consensus size: 519
44272094 CTACCTCCAG
* * * * * ** *
44272104 CACCTCCACCAGCTCCTACCCCTCCACCAGCCCCAATACCACCACCAACACCTACACCCGTTCCG
1 CACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCCACTCCA
* *
44272169 GCACCTCCTCCTGCACCTCCGCCAACACCACCTCCAGCA--CCT-CCACCTCCACTAACTCCTAC
66 GCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCAC---CTCCTAC
* * * * *
44272231 TCCTCCACCAGCACCTCCGCCAACACCACCTCCTACACCTCCACCACTACCACCACCT-CCTCCT
128 -CCTCCACCACCACCACCACCAACACCACCTCCTACACCTCCACCACCACCACCA-ATACCTCC-
* * * *
44272295 ACACCTCTACCACCA-CTAGCTCCTACTCCTCCACCAACCCCAACACCACCACC-A-A-CACCTG
190 AC-CCACT-CCACCACCT-CCTCCTACACCTCCACCAACACCAACACCACCACCTATAGCACCT-
* * *
44272356 CACCCACTCCAGCACCTCCACCAACACCACCTCCAGCATCTCCACC-ACCCCTAGCACCTCCACC
251 C-CAC-CT-C--CACCTCCACCAACACCACCTCC-GC--CTCCACCGACCCC-AACACCACCACC
* * * * *
44272420 ACCCCCAGC-CCCAACACCACCACCAACACCTGCACC-CACTCCAGCACCTCCACTA-A-C-ACC
307 AACACCAGCACCC-ACACCACCACCAACACCTGCACCTC-CGCCAACACCACCACTACACCTACC
* * *
44272480 ACCTCCA-GCACCTCCACCACCACTAGCTCCTACTCCTCCACCAACCCCACCACCACCACCAATA
370 ACCTCCACCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAATA
*
44272544 CCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACC
435 CCGGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACC
44272609 TCCACCTCCACCTCCACCTC
500 TCCACCTCCACCTCCACCTC
* *
44272629 CACCACCACCAGCTCCTATTCCTCCACCAGCCCCACCACCACCACCAATACCTGCACCCACTCCA
1 CACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCCACTCCA
*
44272694 GCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCC-A-CCT
66 GCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCCTACCCT
* * * *
44272757 CCACCTCCACCACCACCAGCTCCTATTCCTCC-ACCAGCC-CCACCACCACCACCAATACCTGCA
131 CCACCACCACCACCACCAACACC-A--CCTCCTA-CA-CCTCCACCACCACCACCAATACCTCCA
* * * *
44272820 CCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCTATAGCACCTCCACC
191 CCCACTCCACCACCTCCTCCTACACCTCCACCAACACCAACACCACCACCTATAGCACCTCCACC
* * * * * *
44272885 TCCACCTCCACCACCACCAGCTCCTCCTCCACCGGCCCCAACACCACCACCAATACCTGCACCCA
256 TCCACCTCCACCAACACCACCTCCGCCTCCACCGACCCCAACACCACCACCAACACCAGCACCCA
* * ** * * *
44272950 CTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCTACCACCCCTAGCACCTCCACCTCCA
321 CACCACCACCAACACCTGCACCTCCGCCAACACCACCACTA-CA--CCTACCACCTCCA-C-CCA
* * *
44273015 CCTCCACCACCACCAGCTCCTATTCCTCCACCAGCTCCAACACCACCACCAATACCGGCACCCAC
381 CCTCCACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAATACCGGCACCCAC
44273080 TCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCCAC
446 TCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCCAC
44273145 CTCCACCTC
511 CTCCACCTC
44273154 CACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCCACTCCA
1 CACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCCACTCCA
*
44273219 GCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCTTAGCACCTCCACC
66 GCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACC
44273275 ACCTCCACCA
Statistics
Matches: 559, Mismatches: 62, Indels: 50
0.83 0.09 0.07
Matches are distributed among these distances:
516 53 0.09
517 8 0.01
518 2 0.00
519 20 0.04
521 2 0.00
522 65 0.12
523 10 0.02
524 7 0.01
525 378 0.68
526 2 0.00
527 3 0.01
528 9 0.02
ACGTcount: A:0.24, C:0.58, G:0.05, T:0.13
Consensus pattern (519 bp):
CACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCCACTCCA
GCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCCTACCCT
CCACCACCACCACCACCAACACCACCTCCTACACCTCCACCACCACCACCAATACCTCCACCCAC
TCCACCACCTCCTCCTACACCTCCACCAACACCAACACCACCACCTATAGCACCTCCACCTCCAC
CTCCACCAACACCACCTCCGCCTCCACCGACCCCAACACCACCACCAACACCAGCACCCACACCA
CCACCAACACCTGCACCTCCGCCAACACCACCACTACACCTACCACCTCCACCCACCTCCACCAC
CACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAATACCGGCACCCACTCCAGCACCT
CCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTC
Found at i:44272911 original size:30 final size:30
Alignment explanation
Indices: 44272856--44273035 Score: 78
Period size: 30 Copynumber: 5.8 Consensus size: 30
44272846 TCCGCCAACA
* *
44272856 CCACCTCCACCACCTA-TAGCACCTCCACCT
1 CCACCTCCACCACC-ACCAGCTCCTCCACCT
* *
44272886 CCACCTCCACCACCACCAGCTCCTCCTCCA
1 CCACCTCCACCACCACCAGCTCCTCCACCT
* * * *
44272916 CCGGCCCCAACACCACCACCA-ATACCTGCACCCACT
1 CC-ACCTC--CACCACCACCAGCT-CCT-C-CAC-CT
* * * * ** * * * *
44272952 CCAGCACCTCCTCCTGCACCTCCGCCAACA
1 CCACCTCCACCACCACCAGCTCCTCCACCT
* *
44272982 CCACCTCTACCACC-CCTAGCACCTCCACCT
1 CCACCTCCACCACCACC-AGCTCCTCCACCT
44273012 CCACCTCCACCACCACCAGCTCCT
1 CCACCTCCACCACCACCAGCTCCT
44273036 ATTCCTCCAC
Statistics
Matches: 105, Mismatches: 34, Indels: 22
0.65 0.21 0.14
Matches are distributed among these distances:
29 2 0.02
30 63 0.60
31 6 0.06
32 2 0.02
33 23 0.22
34 2 0.02
35 4 0.04
36 3 0.03
ACGTcount: A:0.22, C:0.59, G:0.06, T:0.13
Consensus pattern (30 bp):
CCACCTCCACCACCACCAGCTCCTCCACCT
Found at i:44273063 original size:18 final size:18
Alignment explanation
Indices: 44273019--44273065 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
44273009 CCTCCACCTC
*
44273019 CACCACCACCAGCTCCTA
1 CACCACCACCAGCTCCAA
** *
44273037 TTCCTCCACCAGCTCCAA
1 CACCACCACCAGCTCCAA
44273055 CACCACCACCA
1 CACCACCACCA
44273066 ATACCGGCAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.55, G:0.04, T:0.13
Consensus pattern (18 bp):
CACCACCACCAGCTCCAA
Found at i:44273125 original size:390 final size:387
Alignment explanation
Indices: 44272479--44273323 Score: 1388
Period size: 390 Copynumber: 2.1 Consensus size: 387
44272469 CCACTAACAC
* * * *
44272479 CACCTCCAGCACCTCCACCACCACTAGCTCCTACTCCTCCACCAACCCCACCACCACCACCAATA
1 CACCTCCACCACCTCCACCACCACCAGCT-C--CTCCTCCACC-GCCCCAACACCACCACCAATA
44272544 CCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACC
62 CCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAG----
*
44272609 TCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCACCACCACCAC
123 -CCACCTCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCAC
*
44272674 CAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTA
187 CAATACCGGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTA
* *
44272739 GCACCTCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCACCACC
252 GCACCTCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACC
44272804 ACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCA-
317 ACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCAC
44272868 CCTATAG
382 CCT-TAG
44272875 CACCTCCACCTCCACCTCCACCACCACCAGCTCCTCCTCCACCGGCCCCAACACCACCACCAATA
1 CACCTCCA---CCACCTCCACCACCACCAGCTCCTCCTCCACC-GCCCCAACACCACCACCAATA
* *
44272940 CCTGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCTACCACCCCTAG-CAC
62 CCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCCAC
*
44273004 CTCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCTCCAACACCACCACCAATA
127 CTCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATA
44273069 CCGGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACC
192 CCGGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACC
44273134 TCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCAC
257 TCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCAC
*
44273199 CAATACCTGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCTTA
322 CAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCTTA
44273264 G
387 G
* ** * *
44273265 CACCTCCACCACCTCCACCACCAACTCCTACTCCTCCACCGCCTCCAACACCTCCACCA
1 CACCTCCACCACCTCCACCACCACCAGCTCCTCCTCCACCGCC-CCAACACCACCACCA
44273324 GCTCCTACTC
Statistics
Matches: 426, Mismatches: 18, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
386 3 0.01
387 42 0.10
390 262 0.62
391 3 0.01
396 96 0.23
398 1 0.00
399 19 0.04
ACGTcount: A:0.23, C:0.58, G:0.05, T:0.13
Consensus pattern (387 bp):
CACCTCCACCACCTCCACCACCACCAGCTCCTCCTCCACCGCCCCAACACCACCACCAATACCTG
CACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCCACCTCC
ACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCGG
CACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCA
CCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAAT
ACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCTTAG
Found at i:44273135 original size:18 final size:18
Alignment explanation
Indices: 44273111--44273163 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
44273101 TCCGCCAACA
44273111 CCACCTCCACCACC-CCT
1 CCACCTCCACCACCACCT
* *
44273128 AGCACCTCCACCTCCACCT
1 -CCACCTCCACCACCACCT
44273147 CCACCTCCACCACCACC
1 CCACCTCCACCACCACC
44273164 AGCTCCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 27 0.90
19 3 0.10
ACGTcount: A:0.21, C:0.66, G:0.02, T:0.11
Consensus pattern (18 bp):
CCACCTCCACCACCACCT
Found at i:44273139 original size:6 final size:6
Alignment explanation
Indices: 44273111--44273163 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
44273101 TCCGCCAACA
* * *
44273111 CCACCT CCACCA CC-CCT AGCACCT CCACCT CCACCT CCACCT CCACCA
1 CCACCT CCACCT CCACCT -CCACCT CCACCT CCACCT CCACCT CCACCT
44273159 CCACC
1 CCACC
44273164 AGCTCCTACT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 2 0.05
6 35 0.88
7 3 0.08
ACGTcount: A:0.21, C:0.66, G:0.02, T:0.11
Consensus pattern (6 bp):
CCACCT
Found at i:44273178 original size:60 final size:60
Alignment explanation
Indices: 44273114--44273637 Score: 335
Period size: 60 Copynumber: 8.8 Consensus size: 60
44273104 GCCAACACCA
*
44273114 CCTCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACT
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACT
* *** * * * **
44273174 CCTCCACCAGCCCC-AACACCACCACCAATACCTGCACC-CACTCCAGCACCTCCTCCTGCACCT
1 CCTCCACCA-CCCCTAGCACCACCACCTCCACCTCCACCTC-CACCACCACCAGCTCCT--A-CT
* * * * * * * *
44273237 CCGCCAACACCACCT-CCACCACC-CTTAGCACCTCCACCACCTCCACCACCAACTCCTACT
1 CCTCCACCACC-CCTAGCACCACCACCT-CCACCTCCACCTCCACCACCACCAGCTCCTACT
* * * * * * * *
44273297 CCTCCACCGCCTCC-A--A-CACCTCCACCAGCTCCTA-CTCCTCCACCA--A-CCCCGACA
1 CCTCCACCACC-CCTAGCACCACCACCTCCACCTCC-ACCTCCACCACCACCAGCTCCTACT
* * * * ** * * * *
44273351 CCACCACTACCACCTA-CTCC-CACTCCAGCACCTCCTCCTACACCACCACCAACACC-A--
1 CCTCCACCACC-CCTAGCACCAC-CACCTCCACCTCCACCTCCACCACCACCAGCTCCTACT
* * * * *
44273408 CCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACT
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACT
* * ** * * *
44273468 CCTCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCA
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACT
* * * * *
44273528 CCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACT
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACT
* *
44273588 CCTCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACC
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCACCACC
44273638 TCCACCTCCA
Statistics
Matches: 359, Mismatches: 80, Indels: 50
0.73 0.16 0.10
Matches are distributed among these distances:
54 15 0.04
55 2 0.01
56 5 0.01
57 77 0.21
58 5 0.01
59 3 0.01
60 202 0.56
61 5 0.01
62 4 0.01
63 40 0.11
64 1 0.00
ACGTcount: A:0.21, C:0.60, G:0.04, T:0.15
Consensus pattern (60 bp):
CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACT
Found at i:44273198 original size:18 final size:18
Alignment explanation
Indices: 44273154--44273200 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
44273144 CCTCCACCTC
* *
44273154 CACCACCACCAGCTCCTA
1 CACCACCACCAGCCCCAA
* *
44273172 CTCCTCCACCAGCCCCAA
1 CACCACCACCAGCCCCAA
44273190 CACCACCACCA
1 CACCACCACCA
44273201 ATACCTGCAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.60, G:0.04, T:0.09
Consensus pattern (18 bp):
CACCACCACCAGCCCCAA
Found at i:44273301 original size:159 final size:159
Alignment explanation
Indices: 44273138--44273432 Score: 437
Period size: 159 Copynumber: 1.9 Consensus size: 159
44273128 AGCACCTCCA
* ** * *
44273138 CCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAAT
1 CCTCCACCGCCACCAACACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAAC
* * * * *
44273203 ACCTGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCTTAGCAC
66 ACCTACACCCACTCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCAC
*
44273268 CTCCACCACCTCCACCACCAACTCCTACT
131 CACCACCACCTCCACCACCAACTCCTACT
* * * * *
44273297 CCTCCACCGCCTCCAACACCTCCACCAGCTCCTACTCCTCCACCAACCCCGACACCACCACTACC
1 CCTCCACCGCCACCAACACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAAC
*
44273362 ACCTACTCCCACTCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCAC
66 ACCTACACCCACTCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCAC
44273427 CACCAC
131 CACCAC
44273433 TTGCACCTCC
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
159 119 1.00
ACGTcount: A:0.24, C:0.59, G:0.04, T:0.13
Consensus pattern (159 bp):
CCTCCACCGCCACCAACACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAAC
ACCTACACCCACTCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCAC
CACCACCACCTCCACCACCAACTCCTACT
Found at i:44273417 original size:390 final size:387
Alignment explanation
Indices: 44272479--44273418 Score: 1189
Period size: 390 Copynumber: 2.4 Consensus size: 387
44272469 CCACTAACAC
* * ** *
44272479 CACCTCCA-GCACCTCCACCACCACTAGCTCCTACTCCTCCACCAACCCCACCACCACCACCAAT
1 CACCTCCACCCACCTCCACCACCA--A-CACCTACTCCTCCACCGGCCCCAACACCACCACCAAT
* * * * * * *
44272543 ACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCAC-CTCCACCACCCCTAGCA
63 ACCTCCACCAACCCCAGCACCACCTACTCCACCTACGCCAACACCACGCT--ACCACCCCTAGCA
** * *
44272607 CCTCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCACCACCACC
126 ---CCA---CCACCAACACCACCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACC
*
44272672 ACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCC
185 ACCAATACCGGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCC
* *
44272737 TAGCACCTCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCCCCACCA
250 TAGCACCTCCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACA
44272802 CCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACC
315 CCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACC
44272867 ACCTATAG
380 ACCTATAG
* * *
44272875 CACCTCCACCTCCACCTCCACCACCACCAGCTCCTCCTCCACCGGCCCCAACACCACCACCAATA
1 CACCTCCA-C-CCACCTCCACCACCAACACCTACTCCTCCACCGGCCCCAACACCACCACCAATA
* * * * * * * *
44272940 CCTGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCTACCACCCCTAGCACC
64 CCTCCACCAACCCCAGCACCACCTACTCCACCTACGCCAACACCA-CGCTACCACCCCTAGCACC
* ** * *
44273005 TCCACCTCCACCTCCACCACCACCAGCTCCTATTCCTCCACCAGCTCCAACACCACCACCAATAC
128 ACCACCAACACCACCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATAC
44273070 CGGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCT
193 CGGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCT
44273135 CCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACC
258 CCACCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACC
*
44273200 AATACCTGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCT-TA
323 AATACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCA-CCTATA
44273264 G
387 G
* *
44273265 CACCTCCA-CCACCTCCACCACCAACTCCTACTCCTCCACC-GCCTCCAACACCTCCACCAGCTC
1 CACCTCCACCCACCTCCACCACCAACACCTACTCCTCCACCGGCC-CCAACACCACCACCA----
* * * * *
44273328 CTACTCCTCCACCAACCCC-GACACCACC-ACTACCACCTACTCCCACTCCA-GC-ACCTCCTCC
61 ATA--CCTCCACCAACCCCAG-CACCACCTACT-CCACCTACGCCAACACCACGCTACCACC-CC
*
44273389 TA-CACCACCACCAACACCACCTCCACCACC
121 TAGCACCACCACCAACACCACCACCACCACC
44273419 CCTAGCACCA
Statistics
Matches: 489, Mismatches: 39, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
386 3 0.01
387 42 0.09
390 285 0.58
391 10 0.02
392 3 0.01
393 32 0.07
396 97 0.20
397 1 0.00
398 2 0.00
399 14 0.03
ACGTcount: A:0.24, C:0.59, G:0.05, T:0.13
Consensus pattern (387 bp):
CACCTCCACCCACCTCCACCACCAACACCTACTCCTCCACCGGCCCCAACACCACCACCAATACC
TCCACCAACCCCAGCACCACCTACTCCACCTACGCCAACACCACGCTACCACCCCTAGCACCACC
ACCAACACCACCACCACCACCAGCTCCTATTCCTCCACCAGCCCCAACACCACCACCAATACCGG
CACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCA
CCTCCACCTCCACCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAAT
ACCTGCACCCACTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCTATAG
Found at i:44273496 original size:159 final size:156
Alignment explanation
Indices: 44273150--44273499 Score: 373
Period size: 159 Copynumber: 2.2 Consensus size: 156
44273140 TCCACCTCCA
* * * * * *
44273150 CCTCCACCACCACCAGCTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCCAC
1 CCTCCACCACCACCAGCACCTCCACCTCCACCAACCCCAACACCACCACCAACACCTACACCCAC
* * * * *
44273215 TCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCTTAGCACCTCCACCACCTC
66 TCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCACCACCACCACCTC
* *
44273280 CACCACCAACTCCTACTCCTCCACCG
131 CACCACCAACCCCCACTCCTCCACCG
* * * * * * * *
44273306 CCTCCAACACCTCCACCAGCTCCTACTCCTCCACCAACCCCGACACCACCACTACCACCTACTCC
1 CCT-C--CACCACCACCAGCACCTCCACCTCCACCAACCCCAACACCACCACCAACACCTACACC
44273371 CACTCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCACCACCACTTG
63 CACTCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCACCACCAC---
** * *
44273436 CACCTCCACTTCC-ACCCCCACCTGCTCCTA-CT
125 CACCTCCACCACCAACCCCCA-CTCCTCC-ACCG
44273468 CCTCCACCACC-CCTAGCACCTCCACCTCCACC
1 CCTCCACCACCACC-AGCACCTCCACCTCCACC
44273500 TCCACCTCCA
Statistics
Matches: 162, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
156 3 0.02
157 1 0.01
158 2 0.01
159 128 0.79
161 6 0.04
162 21 0.13
163 1 0.01
ACGTcount: A:0.23, C:0.59, G:0.04, T:0.14
Consensus pattern (156 bp):
CCTCCACCACCACCAGCACCTCCACCTCCACCAACCCCAACACCACCACCAACACCTACACCCAC
TCCAGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTAGCACCACCACCACCTC
CACCACCAACCCCCACTCCTCCACCG
Found at i:44273535 original size:120 final size:120
Alignment explanation
Indices: 44273405--44273649 Score: 490
Period size: 120 Copynumber: 2.0 Consensus size: 120
44273395 ACCACCAACA
44273405 CCACCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACTCC
1 CCACCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACTCC
44273470 TCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCACCT
66 TCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCACCT
44273525 CCACCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACTCC
1 CCACCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACTCC
44273590 TCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCACCT
66 TCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCACCT
44273645 CCACC
1 CCACC
44273650 ACCTCCAATT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 125 1.00
ACGTcount: A:0.18, C:0.62, G:0.03, T:0.16
Consensus pattern (120 bp):
CCACCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACTCC
TCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCACCT
Found at i:44273638 original size:60 final size:60
Alignment explanation
Indices: 44273408--44273638 Score: 336
Period size: 60 Copynumber: 3.9 Consensus size: 60
44273398 ACCAACACCA
* * *
44273408 CCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACT
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCCCCACCTGCTCCTACT
* * * * * *
44273468 CCTCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCACCTCCA
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCCCCACCTGCTCCTACT
* * *
44273528 CCTCCACCACCCCTAGCACCACCACTTGCACCTCCACTTCCACCCCCACCTGCTCCTACT
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCCCCACCTGCTCCTACT
* *
44273588 CCTCCACCACCCCTAGCACCTCCACCTCCACCTCCACCTCCACCTCCACCT
1 CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCCCCACCT
44273639 CCACCTCCAC
Statistics
Matches: 148, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 148 1.00
ACGTcount: A:0.18, C:0.61, G:0.03, T:0.17
Consensus pattern (60 bp):
CCTCCACCACCCCTAGCACCACCACCTCCACCTCCACCTCCACCCCCACCTGCTCCTACT
Found at i:44275441 original size:77 final size:77
Alignment explanation
Indices: 44275296--44275453 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 77
44275286 TAATAATACA
44275296 AGGGAAAATATTTGGTACACTACTAATGGAGTCTAAAAACTCCACAAGTAGGGTTAGGGGGTTGA
1 AGGGAAAATATTTGGTACACTACTAATGGAGTCTAAAAACTCCACAAGTAGGGTTAGGGGGTTGA
44275361 CAAGTATCTTAT
66 CAAGTATCTTAT
*
44275373 AGGGAAAATATTTGGTACACTACTAATGGAGTCTAAAAAGCTCTACAAGTAGGGTTAGGGGGTT-
1 AGGGAAAATATTTGGTACACTACTAATGGAGTCTAAAAA-CTCCACAAGTAGGGTTAGGGGGTTG
*
44275437 ACAAGTGTCTTAT
65 ACAAGTATCTTAT
44275450 AGGG
1 AGGG
44275454 GTATAGTAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
77 55 0.71
78 23 0.29
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (77 bp):
AGGGAAAATATTTGGTACACTACTAATGGAGTCTAAAAACTCCACAAGTAGGGTTAGGGGGTTGA
CAAGTATCTTAT
Found at i:44275482 original size:15 final size:16
Alignment explanation
Indices: 44275462--44275491 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44275452 GGGTATAGTA
44275462 AAATATTT-AAAAAAT
1 AAATATTTGAAAAAAT
44275477 AAATATTTGAAAAAA
1 AAATATTTGAAAAAA
44275492 GAGGCACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAATATTTGAAAAAAT
Found at i:44276244 original size:31 final size:31
Alignment explanation
Indices: 44276209--44276273 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
44276199 AACAGTCCAG
*
44276209 TGACTTAAATAAAAACTTTCCAATAGTTCAA
1 TGACTTAAATAAAAACTTTCCAATAGCTCAA
* **
44276240 TGACTTAAATGAAAACTTTTGAATAGCTCAA
1 TGACTTAAATAAAAACTTTCCAATAGCTCAA
44276271 TGA
1 TGA
44276274 TCATTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCCAATAGCTCAA
Found at i:44277101 original size:21 final size:21
Alignment explanation
Indices: 44277075--44277119 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
44277065 TTCACTCGAC
44277075 TGGTCGGCTCAATCAAGGATA
1 TGGTCGGCTCAATCAAGGATA
*
44277096 TGGTCGGCTCAATCGAGGATA
1 TGGTCGGCTCAATCAAGGATA
44277117 TGG
1 TGG
44277120 ATTTTGTACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (21 bp):
TGGTCGGCTCAATCAAGGATA
Found at i:44283165 original size:18 final size:18
Alignment explanation
Indices: 44283142--44283188 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
44283132 TAATAGGTAA
* *
44283142 TGTAGTACGACATAAATT
1 TGTAGTACAAAATAAATT
44283160 TGTAGTACAAAATAAATT
1 TGTAGTACAAAATAAATT
44283178 TGTAGTACAAA
1 TGTAGTACAAA
44283189 TGTATCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.32
Consensus pattern (18 bp):
TGTAGTACAAAATAAATT
Found at i:44286493 original size:16 final size:17
Alignment explanation
Indices: 44286424--44286511 Score: 50
Period size: 16 Copynumber: 5.5 Consensus size: 17
44286414 AAGTAATTAC
44286424 ATAATAATAAT-ATATA
1 ATAATAATAATAATATA
*
44286440 ATAA-AACAA-AATATA
1 ATAATAATAATAATATA
* *
44286455 TTTAA-AAT-TTAA-ATA
1 -ATAATAATAATAATATA
44286470 AGTAA-ATATAATAATATA
1 A-TAATA-ATAATAATATA
44286488 ATAATAAT-A-AATGATA
1 ATAATAATAATAAT-ATA
44286504 ATAATAAT
1 ATAATAAT
44286512 CATCATAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
15 19 0.33
16 25 0.44
17 8 0.14
18 5 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATATA
Found at i:44288032 original size:44 final size:45
Alignment explanation
Indices: 44287984--44288130 Score: 142
Period size: 44 Copynumber: 3.4 Consensus size: 45
44287974 GACCTACCGT
* * ** * *
44287984 AACTTCAGAGG-TATAGGATTCATATTTTTAATCCGCTCCACTGC
1 AACTTCAGAGGAGATAGGATTAATAGCTTCAATCCACTCCACTGC
* *
44288028 AACTTTA-AGGAGATAGGATTAATAGCTTCAATCTACTCCACTGC
1 AACTTCAGAGGAGATAGGATTAATAGCTTCAATCCACTCCACTGC
* ** *
44288072 AACTTCAG-GGAGATAAGATTGGTATCTTCAA-CCTACTCCACTGC
1 AACTTCAGAGGAGATAGGATTAATAGCTTCAATCC-ACTCCACTGC
44288116 AACTTCAG-GGAGATA
1 AACTTCAGAGGAGATA
44288131 AGGTTGGTTA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
43 4 0.05
44 82 0.95
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (45 bp):
AACTTCAGAGGAGATAGGATTAATAGCTTCAATCCACTCCACTGC
Found at i:44288131 original size:44 final size:44
Alignment explanation
Indices: 44288019--44288178 Score: 185
Period size: 44 Copynumber: 3.6 Consensus size: 44
44288009 TTTTAATCCG
* * * ** *
44288019 CTCCACTGCAACTTTAAGGAGATAGGATTAATAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTA
*
44288063 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTA
* * * *
44288107 CTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCGTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAATCTA
* * *
44288152 TTCTACTGAAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
44288179 CTTGTCTTTG
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 67 0.68
45 32 0.32
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTA
Found at i:44288334 original size:132 final size:132
Alignment explanation
Indices: 44288185--44288533 Score: 502
Period size: 132 Copynumber: 2.6 Consensus size: 132
44288175 AAGACTTGTC
* * * * * *
44288185 TTTGATCTGCTCTACTACTACTTAGGGGGACATGATCTATAATCTTCAACCTACTCCACTGCTGC
1 TTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
** * *
44288250 TCAATGAGAT-AGGACTGGTGGCTTAAATCTACTTCCCTACTATCTTGGAAAGATAAGATTCGCC
66 TCAGGGAGATAAGG-CTGGTGGCTTAAATCTACTTCCCTACTACCTTGGAAAGATAAGATTCACC
44288314 GTA
130 GTA
* *
44288317 TTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCAACTTACTCCACTACTGC
1 TTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
* * * *
44288382 TCAGGGAGATAATGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCG
66 TCAGGGAGATAAGGCTGGTGGCTTAAATCTACTTCCCTACTACCTTGGAAAGATAAGATTCACCG
*
44288447 TC
131 TA
* * *
44288449 TTTGATCTGTTCCACTACTGCTTAAGGAGATAGGATTTACAATCTTCAACCTACTCCACTGCTGC
1 TTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
44288514 TCAGGGAGATAAGGCTGGTG
66 TCAGGGAGATAAGGCTGGTG
44288534 TTTCAGATCT
Statistics
Matches: 192, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 190 0.99
133 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TTTGATCTGCTCCACTACTGCTTAAGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
TCAGGGAGATAAGGCTGGTGGCTTAAATCTACTTCCCTACTACCTTGGAAAGATAAGATTCACCG
TA
Found at i:44300610 original size:16 final size:16
Alignment explanation
Indices: 44300586--44300620 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44300576 TTTTATAATG
*
44300586 AAATACCATGTAGTCA
1 AAATACCATGCAGTCA
*
44300602 AAATGCCATGCAGTCA
1 AAATACCATGCAGTCA
44300618 AAA
1 AAA
44300621 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (16 bp):
AAATACCATGCAGTCA
Found at i:44302044 original size:11 final size:11
Alignment explanation
Indices: 44302028--44302062 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
44302018 TAAATAAGTA
44302028 AATATAATAAT
1 AATATAATAAT
44302039 AATATAATAAT
1 AATATAATAAT
*
44302050 AA-ATGATAAT
1 AATATAATAAT
44302060 AAT
1 AAT
44302063 CATCATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
AATATAATAAT
Found at i:44302060 original size:13 final size:12
Alignment explanation
Indices: 44301981--44302062 Score: 69
Period size: 13 Copynumber: 6.7 Consensus size: 12
44301971 AAGTAATTAC
*
44301981 ATAATAAAAATAT
1 ATAATAATAA-AT
*
44301994 ATAATAAAAAAT
1 ATAATAATAAAT
* *
44302006 ATATTTA-AAAT
1 ATAATAATAAAT
*
44302017 TTAAATAAGTAAAT
1 AT-AATAA-TAAAT
44302031 ATAATAAT-AAT
1 ATAATAATAAAT
44302042 ATAATAATAAAT
1 ATAATAATAAAT
44302054 GATAATAAT
1 -ATAATAAT
44302063 CATCATCATA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
11 16 0.28
12 14 0.24
13 23 0.40
14 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:44310264 original size:50 final size:50
Alignment explanation
Indices: 44310205--44310368 Score: 240
Period size: 50 Copynumber: 3.3 Consensus size: 50
44310195 ATACATGTAT
44310205 GCTCATACGAGCT-ATGAATCGGTATGCTCTCATGAGCTGTGAATCGGTAA
1 GCTCATACGAGCTGA-GAATCGGTATGCTCTCATGAGCTGTGAATCGGTAA
*
44310255 GCTCATACGAGCTGAAAATCGGTATGCTCTCATGAGCTGTGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTATGCTCTCATGAGCTGTGAATCGGTAA
* * * * **
44310305 GCTCATATGAGCTGAGAATCGGTAAGCTGTCACGAGCTGCAAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTATGCTCTCATGAGCTGTGAATCGGTAA
*
44310355 GCTCATACAAGCTG
1 GCTCATACGAGCTG
44310369 TGGTGTGTCC
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
50 102 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCGGTATGCTCTCATGAGCTGTGAATCGGTAA
Found at i:44310324 original size:75 final size:75
Alignment explanation
Indices: 44310213--44310358 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 75
44310203 ATGCTCATAC
* *
44310213 GAGCTATGAATCGGTATGCTCTCATGAGCTGTGAATCGGTAAGCTCAT-ACGAGCTGAAAATCGG
1 GAGCTATGAATCGGTAAGCTCTCATGAGCTGAGAATCGGTAAGCT-ATCACGAGCTGAAAATCGG
*
44310277 TATGCTCTCAT
65 TAAGCTCTCAT
* * *
44310288 GAGCTGTGAATCGGTAAGCTCAT-ATGAGCTGAGAATCGGTAAGCTGTCACGAGCTGCAAATCGG
1 GAGCTATGAATCGGTAAGCTC-TCATGAGCTGAGAATCGGTAAGCTATCACGAGCTGAAAATCGG
44310352 TAAGCTC
65 TAAGCTC
44310359 ATACAAGCTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
74 1 0.02
75 61 0.97
76 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (75 bp):
GAGCTATGAATCGGTAAGCTCTCATGAGCTGAGAATCGGTAAGCTATCACGAGCTGAAAATCGGT
AAGCTCTCAT
Found at i:44310367 original size:25 final size:24
Alignment explanation
Indices: 44310205--44310368 Score: 129
Period size: 25 Copynumber: 6.6 Consensus size: 24
44310195 ATACATGTAT
*
44310205 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA--AATCGGTAA
* *
44310230 GCTC-TCATGAGCTGTGAATCGGTAA
1 GCTCAT-ACGAGCTG-AAATCGGTAA
*
44310255 GCTCATACGAGCTGAAAATCGGTAT
1 GCTCATACGAGCTG-AAATCGGTAA
* *
44310280 GCTC-TCATGAGCTGTGAATCGGTAA
1 GCTCAT-ACGAGCTG-AAATCGGTAA
*
44310305 GCTCATATGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGA-AATCGGTAA
*
44310330 GCT-GTCACGAGCTGCAAATCGGTAA
1 GCTCAT-ACGAGCTG-AAATCGGTAA
*
44310355 GCTCATACAAGCTG
1 GCTCATACGAGCTG
44310369 TGGTGTGTCC
Statistics
Matches: 113, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
24 3 0.03
25 106 0.94
26 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGTAA
Found at i:44310368 original size:75 final size:75
Alignment explanation
Indices: 44310205--44310370 Score: 205
Period size: 75 Copynumber: 2.2 Consensus size: 75
44310195 ATACATGTAT
* * * *
44310205 GCTCATACGAGCTATGAATCGGTATGCTCTCATGAGCTGTGAATCGGTAAGCTCATACGAGCTGA
1 GCTCATACAAGCTGTGAATCGGTAAGCTCTCATGAGCTGAGAATCGGTAAGCTCATACGAGCTGA
*
44310270 AAATCGGTAT
66 AAATCGGTAA
*
44310280 GCTC-T-CATGAGCTGTGAATCGGTAAGCTCAT-ATGAGCTGAGAATCGGTAAGCT-GTCACGAG
1 GCTCATACA--AGCTGTGAATCGGTAAGCTC-TCATGAGCTGAGAATCGGTAAGCTCAT-ACGAG
*
44310341 CTGCAAATCGGTAA
62 CTGAAAATCGGTAA
44310355 GCTCATACAAGCTGTG
1 GCTCATACAAGCTGTG
44310371 GTGTGTCCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
73 1 0.01
74 2 0.03
75 71 0.91
76 2 0.03
77 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (75 bp):
GCTCATACAAGCTGTGAATCGGTAAGCTCTCATGAGCTGAGAATCGGTAAGCTCATACGAGCTGA
AAATCGGTAA
Found at i:44311482 original size:13 final size:13
Alignment explanation
Indices: 44311464--44311499 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
44311454 GTAAACAGTA
44311464 AAATTTCTTA-ACG
1 AAATTT-TTATACG
44311477 AAATTTTTATACG
1 AAATTTTTATACG
44311490 AAATTTTTAT
1 AAATTTTTAT
44311500 CATACTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (13 bp):
AAATTTTTATACG
Found at i:44313176 original size:21 final size:21
Alignment explanation
Indices: 44313152--44313197 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
44313142 TAATTTAGCC
*
44313152 ATTTTTTATTTTTATTTTAAT
1 ATTTTTTATTTTTAATTTAAT
*
44313173 ATTTTTTGTTTTTAATTTAAT
1 ATTTTTTATTTTTAATTTAAT
44313194 -TTTT
1 ATTTT
44313198 ACATTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTTTATTTTTAATTTAAT
Found at i:44315643 original size:59 final size:58
Alignment explanation
Indices: 44315541--44315651 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 58
44315531 AAAGTAATAC
* * * * *
44315541 TTAAATATTAATTTGGTAAAAATAAGGCTTAGTAATTGCAATATGTAAGTAAATGGTAA
1 TTAAATATTAATTAGGTAAAAATAAAGCTTAATAATTACAATATATAA-TAAATGGTAA
*
44315600 TTAAATATTAATTAGGTAAAAATAAAG-TTAAATAATTATAATATATAATAAA
1 TTAAATATTAATTAGGTAAAAATAAAGCTT-AATAATTACAATATATAATAAA
44315652 AATTGAGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 6 0.13
59 39 0.87
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (58 bp):
TTAAATATTAATTAGGTAAAAATAAAGCTTAATAATTACAATATATAATAAATGGTAA
Found at i:44316160 original size:21 final size:21
Alignment explanation
Indices: 44316134--44316174 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
44316124 TCAAAATGGC
*
44316134 ATAATTTTGCCTTTTAACTTA
1 ATAATTTTGACTTTTAACTTA
44316155 ATAATTTTGACTTTTAACTT
1 ATAATTTTGACTTTTAACTT
44316175 TAGAAGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.54
Consensus pattern (21 bp):
ATAATTTTGACTTTTAACTTA
Found at i:44317400 original size:4 final size:4
Alignment explanation
Indices: 44317391--44317417 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
44317381 ACAGACACGA
44317391 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
44317418 AACCTTCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:44324436 original size:107 final size:101
Alignment explanation
Indices: 44324208--44324469 Score: 269
Period size: 107 Copynumber: 2.6 Consensus size: 101
44324198 GTTCTTTTTG
* * *** * ** *
44324208 TGCCATAGTCCAACTATAGTCTTACA--CATGCATTGCCATGGCCCTGCCATGGTCTTACATTTG
1 TGCCATAGCCCAACTATAGTCTTACATTTAAATATTGCCATGGTCCAACCATGGTCTTACATTTA
* *
44324271 TAGTGCCATAACCTAGTTATGGTCTTATCATTAGAA
66 TAGTGCCATAACCCAGTTATGGTCTTATCATTAAAA
* * *
44324307 TGTCATAGCCCAACTATAGTCTTACACATGTATATATATATTGTCATGGTCTAACCATGGTCTTA
1 TGCCATAGCCCAACTATAGTCTT--ACAT-T-TA-A-ATATTGCCATGGTCCAACCATGGTCTTA
* *
44324372 CCTTTAT-GATGCCATAACCCAGTTATGGTCTTTTCATTAAAA
60 CATTTATAG-TGCCATAACCCAGTTATGGTCTTATCATTAAAA
* * *
44324414 TGCCATAGCCTAGCTATGGTCTTACATTTAAATATTGCCATGGTCCAACCATGGTC
1 TGCCATAGCCCAACTATAGTCTTACATTTAAATATTGCCATGGTCCAACCATGGTC
44324470 ATATCCGTCA
Statistics
Matches: 132, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
99 21 0.16
101 26 0.20
102 1 0.01
103 2 0.02
104 1 0.01
105 5 0.04
106 1 0.01
107 75 0.57
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (101 bp):
TGCCATAGCCCAACTATAGTCTTACATTTAAATATTGCCATGGTCCAACCATGGTCTTACATTTA
TAGTGCCATAACCCAGTTATGGTCTTATCATTAAAA
Found at i:44324445 original size:33 final size:33
Alignment explanation
Indices: 44324363--44324454 Score: 87
Period size: 33 Copynumber: 2.7 Consensus size: 33
44324353 TGGTCTAACC
* ** *
44324363 ATGGTCTTACCTTTATGATGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
* * *
44324396 ATGGTCTTTTCA-TTAAAATGCCATAGCCTAGCT
1 ATGGTC-TTACATTTAAAATGCCATAACCCAGCT
44324429 ATGGTCTTACATTTAAATATTGCCAT
1 ATGGTCTTACATTTAAA-A-TGCCAT
44324455 GGTCCAACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 4 0.09
33 33 0.70
34 4 0.09
35 6 0.13
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAACCCAGCT
Found at i:44331717 original size:8 final size:8
Alignment explanation
Indices: 44331704--44331730 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
44331694 TATCAACAAT
44331704 AATCTATA
1 AATCTATA
44331712 AATCTATA
1 AATCTATA
44331720 AATCTATA
1 AATCTATA
44331728 AAT
1 AAT
44331731 TAAATTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
AATCTATA
Found at i:44337577 original size:21 final size:21
Alignment explanation
Indices: 44337553--44337680 Score: 73
Period size: 21 Copynumber: 6.1 Consensus size: 21
44337543 AACAGAAACC
*
44337553 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGTTGAACGGAAGCT
* * * *
44337574 CATAAGAGCTGAATGGAAACC
1 CATAAGAGTTGAACGGAAGCT
* *
44337595 CATTAAG-GTTAAACAGAAGCT
1 CA-TAAGAGTTGAACGGAAGCT
* * * *
44337616 CAAAAGAGTTGAACAGAAACCC
1 CATAAGAGTTGAAC-GGAAGCT
* * *
44337638 CTTAAG-GTTAAACGGAAACT
1 CATAAGAGTTGAACGGAAGCT
* *
44337658 CATATGAGTT-AACAGAAGCT
1 CATAAGAGTTGAACGGAAGCT
44337678 CAT
1 CAT
44337681 GAGTGCTAAA
Statistics
Matches: 76, Mismatches: 27, Indels: 9
0.68 0.24 0.08
Matches are distributed among these distances:
20 22 0.29
21 43 0.57
22 11 0.14
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (21 bp):
CATAAGAGTTGAACGGAAGCT
Found at i:44337578 original size:42 final size:41
Alignment explanation
Indices: 44337526--44337674 Score: 138
Period size: 42 Copynumber: 3.6 Consensus size: 41
44337516 AGGCTACACA
* * * *
44337526 GAAGCACATAAGTGATAAACAGAAACCCATAAGGGTTGAACG
1 GAAGCTCATAAGAGATGAACAGAAACCCATAA-GGTTAAACG
* ** *
44337568 GAAGCTCATAAGAGCTGAATGGAAACCCATTAAGGTTAAACA
1 GAAGCTCATAAGAGATGAACAGAAACCCA-TAAGGTTAAACG
* * *
44337610 GAAGCTCAAAAGAGTTGAACAGAAACCCCTTAAGGTTAAACG
1 GAAGCTCATAAGAGATGAACAGAAA-CCCATAAGGTTAAACG
* * *
44337652 GAAACTCATATGAG-TTAACAGAA
1 GAAGCTCATAAGAGATGAACAGAA
44337675 GCTCATGAGT
Statistics
Matches: 87, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
41 8 0.09
42 73 0.84
43 6 0.07
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (41 bp):
GAAGCTCATAAGAGATGAACAGAAACCCATAAGGTTAAACG
Found at i:44338969 original size:13 final size:13
Alignment explanation
Indices: 44338951--44338978 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44338941 TACCTCATTT
44338951 ATATCATCAAAGC
1 ATATCATCAAAGC
44338964 ATATCATCAAAGC
1 ATATCATCAAAGC
44338977 AT
1 AT
44338979 CATTCAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (13 bp):
ATATCATCAAAGC
Found at i:44339446 original size:14 final size:13
Alignment explanation
Indices: 44339427--44339457 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
44339417 TTCTTTCCCT
44339427 TTTCTTTCTTTATC
1 TTTCTTTCTTT-TC
44339441 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
44339454 TTTC
1 TTTC
44339458 AAATTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:44341645 original size:50 final size:50
Alignment explanation
Indices: 44341546--44341784 Score: 250
Period size: 50 Copynumber: 4.7 Consensus size: 50
44341536 AAAGAGATCT
*
44341546 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGGTCC
*
44341602 CATGTAAGACCATATCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
** * * * **
44341652 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
* * * **
44341702 CATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGA--A-ACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCAAGATGAGAGGTCC
*
44341751 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
44341785 TGTTATTATC
Statistics
Matches: 158, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
49 35 0.22
50 83 0.53
52 3 0.02
53 2 0.01
56 35 0.22
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
Found at i:44341728 original size:100 final size:101
Alignment explanation
Indices: 44341549--44341777 Score: 277
Period size: 100 Copynumber: 2.2 Consensus size: 101
44341539 GAGATCTCAT
* **
44341549 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCA
* ** *
44341614 TATCTGGGACATGGCATTGGCA-CCAAGATGAGAGGTCCCCC
63 TATCTGGGACATGGCATTGGCAGACAAGA--A-ACATCCCAC
*
44341655 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
* *
44341717 CTGGGATATGGCATTGGCAGTACAAGAAACATCCCAT
66 CTGGGACATGGCATTGGCAG-ACAAGAAACATCCCAC
44341754 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
44341778 TTTGGCATGT
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
99 29 0.26
100 44 0.40
101 2 0.02
102 5 0.05
105 1 0.01
106 30 0.27
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (101 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
CTGGGACATGGCATTGGCAGACAAGAAACATCCCAC
Found at i:44347488 original size:27 final size:27
Alignment explanation
Indices: 44347438--44347489 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
44347428 ACTCTATATG
* *
44347438 AATTATTTATATATTAATTCCCCTATT
1 AATTATTTATATAGTAAATCCCCTATT
44347465 AATTATTTATA-AGTAAATCTCCCTA
1 AATTATTTATATAGTAAATC-CCCTA
44347490 GATACAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (27 bp):
AATTATTTATATAGTAAATCCCCTATT
Found at i:44348808 original size:42 final size:42
Alignment explanation
Indices: 44348683--44348882 Score: 255
Period size: 42 Copynumber: 4.8 Consensus size: 42
44348673 ACTGGCACTT
* * * *
44348683 AGCCTGCTAGACTTAAAGCCTGAT-TCAG-TACACCGACACTT-
1 AGCCTGCTAGACGTAAAGTCTGATAT-TGTTTCACCGACA-TTA
* * * *
44348724 AGCCTGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGACATTA
44348765 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGACATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGACATTA
* * *
44348807 AGCCTGCTAGACGTAAACTCTGAAATTATTTCACCGACATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGACATTA
44348849 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCAC
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCAC
44348883 TGGCAATAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
40 3 0.02
41 49 0.36
42 86 0.62
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGACATTA
Found at i:44355476 original size:21 final size:21
Alignment explanation
Indices: 44355424--44355480 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
44355414 TACTGATACG
*
44355424 CCCGAGTCACCCGATTCCACA
1 CCCGAGTCACCTGATTCCACA
*
44355445 CCCGAATCACCTGATTCCACA
1 CCCGAGTCACCTGATTCCACA
*
44355466 CCCGAGGCACCTGAT
1 CCCGAGTCACCTGAT
44355481 GATGACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.44, G:0.16, T:0.16
Consensus pattern (21 bp):
CCCGAGTCACCTGATTCCACA
Found at i:44357368 original size:16 final size:16
Alignment explanation
Indices: 44357349--44357386 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44357339 CTTATTACAT
*
44357349 TATAAT-GTTATATGGA
1 TATAATGGTTATGT-GA
44357365 TATAATGGTTATGTGA
1 TATAATGGTTATGTGA
44357381 TATAAT
1 TATAAT
44357387 TATATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TATAATGGTTATGTGA
Found at i:44363036 original size:14 final size:13
Alignment explanation
Indices: 44362993--44363033 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
44362983 AGGGTCTGTT
44362993 TGTTTTACTGAAAA
1 TGTTTT-CTGAAAA
*
44363007 TAGTTTTCGGAAAA
1 T-GTTTTCTGAAAA
44363021 TGTTTTCTGAAAA
1 TGTTTTCTGAAAA
44363034 ATGACCTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.46
14 8 0.33
15 5 0.21
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (13 bp):
TGTTTTCTGAAAA
Found at i:44363096 original size:31 final size:32
Alignment explanation
Indices: 44363058--44363131 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
44363048 TGGAAAAGTT
* *
44363058 AATATTTTTTGGTGTTTGGAT-AAGTC-TATAA
1 AATATTTTCTGGTATTTGGATGAA-TCGTATAA
*
44363089 AATATTTTCTGTTATTTGGATGAATCTGTATAA
1 AATATTTTCTGGTATTTGGATGAATC-GTATAA
44363122 AATATTTTCT
1 AATATTTTCT
44363132 ATTGTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 20 0.54
32 2 0.05
33 15 0.41
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (32 bp):
AATATTTTCTGGTATTTGGATGAATCGTATAA
Found at i:44363553 original size:15 final size:15
Alignment explanation
Indices: 44363533--44363600 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
44363523 ACACTACAAA
44363533 ATATTTATTATTGAT
1 ATATTTATTATTGAT
*
44363548 ATATTTATAATTGTAAT
1 ATATTTATTATTG--AT
* *
44363565 AAGTATTTATTATTAAA
1 -A-TATTTATTATTGAT
*
44363582 ATA-TTAATATTGA-
1 ATATTTATTATTGAT
44363595 ATATTT
1 ATATTT
44363601 TTAATAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
13 3 0.07
14 10 0.24
15 14 0.33
16 1 0.02
17 3 0.07
18 1 0.02
19 10 0.24
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATATTTATTATTGAT
Found at i:44366533 original size:19 final size:20
Alignment explanation
Indices: 44366509--44366548 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
44366499 AGAATTGATA
44366509 ATTTTTCTTA-ATGTT-TTTT
1 ATTTTT-TTATATGTTCTTTT
44366528 ATTTTTTTATATGTTCTTTT
1 ATTTTTTTATATGTTCTTTT
44366548 A
1 A
44366549 AAGAATGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 11 0.58
20 5 0.26
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTTTTTATATGTTCTTTT
Found at i:44370143 original size:5 final size:5
Alignment explanation
Indices: 44370133--44370168 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
44370123 TGAACATGTG
44370133 CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
44370169 TTTGTACTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:44372277 original size:57 final size:57
Alignment explanation
Indices: 44372209--44372324 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
44372199 ATTTGAAATG
44372209 GTATATTATAGTAGTAGAAAGCGACTAATTTGAAAAGTAAATAAAGTATGACGTGAA
1 GTATATTATAGTAGTAGAAAGCGACTAATTTGAAAAGTAAATAAAGTATGACGTGAA
44372266 GTATATTATAGTAGTAGAAAGCGACTAATTTGAAAAGTAAATAAAGTATGACGTGAA
1 GTATATTATAGTAGTAGAAAGCGACTAATTTGAAAAGTAAATAAAGTATGACGTGAA
44372323 GT
1 GT
44372325 TTTGAATGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (57 bp):
GTATATTATAGTAGTAGAAAGCGACTAATTTGAAAAGTAAATAAAGTATGACGTGAA
Found at i:44375777 original size:11 final size:11
Alignment explanation
Indices: 44375761--44375802 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
44375751 TTGTCACTTC
*
44375761 TTTTTTTTCCT
1 TTTTTTTTCAT
44375772 TTTTTTTTCGAT
1 TTTTTTTTC-AT
*
44375784 TTTTTTTTAAT
1 TTTTTTTTCAT
44375795 TTTTTTTT
1 TTTTTTTT
44375803 GAATTTCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCAT
Found at i:44375807 original size:12 final size:12
Alignment explanation
Indices: 44375771--44375808 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
44375761 TTTTTTTTCC
44375771 TTTTTTTTTCG-A
1 TTTTTTTTT-GAA
44375783 TTTTTTTTT-AA
1 TTTTTTTTTGAA
44375794 TTTTTTTTTGAA
1 TTTTTTTTTGAA
44375806 TTT
1 TTT
44375809 CTTCTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:44375902 original size:12 final size:13
Alignment explanation
Indices: 44375885--44375915 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44375875 CAACTCAAAA
44375885 TTTTTTTT-GATT
1 TTTTTTTTGGATT
44375897 TTTTTTTTGGATT
1 TTTTTTTTGGATT
44375910 TTTTTT
1 TTTTTT
44375916 CGTTACGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGGATT
Found at i:44377613 original size:13 final size:13
Alignment explanation
Indices: 44377595--44377645 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
44377585 AGTTCTTCAT
*
44377595 TGCTTTTAAGAAG
1 TGCTTTTGAGAAG
44377608 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
44377621 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
44377634 TGCTTTTGAGAA
1 TGCTTTTGAGAA
44377646 ATTTGAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:44377632 original size:26 final size:26
Alignment explanation
Indices: 44377595--44377645 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
44377585 AGTTCTTCAT
44377595 TGCTTTTAAGAAGTGCTTTTGAGAAG
1 TGCTTTTAAGAAGTGCTTTTGAGAAG
*
44377621 TGCTTTTCAGAAGTGCTTTTGAGAA
1 TGCTTTTAAGAAGTGCTTTTGAGAA
44377646 ATTTGAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (26 bp):
TGCTTTTAAGAAGTGCTTTTGAGAAG
Found at i:44378111 original size:14 final size:14
Alignment explanation
Indices: 44378092--44378143 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
44378082 TATTTTTGTT
44378092 CCAATAATTGTTTG
1 CCAATAATTGTTTG
44378106 CCAATAATTGTTT-
1 CCAATAATTGTTTG
44378119 -CAA-AATTGTTTG
1 CCAATAATTGTTTG
44378131 CCAATAATTGTTT
1 CCAATAATTGTTT
44378144 CAAAATGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 8 0.23
12 3 0.09
13 3 0.09
14 21 0.60
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (14 bp):
CCAATAATTGTTTG
Found at i:44378129 original size:25 final size:25
Alignment explanation
Indices: 44378087--44378149 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
44378077 TGTCATATTT
*
44378087 TTGTTCCAATAATTGTTTGCCAATAA
1 TTGTTTCAA-AATTGTTTGCCAATAA
44378113 TTGTTTCAAAATTGTTTGCCAATAA
1 TTGTTTCAAAATTGTTTGCCAATAA
44378138 TTGTTTCAAAAT
1 TTGTTTCAAAAT
44378150 GGTATGAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 28 0.78
26 8 0.22
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (25 bp):
TTGTTTCAAAATTGTTTGCCAATAA
Found at i:44380235 original size:41 final size:41
Alignment explanation
Indices: 44380190--44380274 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
44380180 GCTCCAAGGC
*
44380190 CAAAGAACCAGCAAAGGGCAGAGGGTAGGGAAATTGAAAAT
1 CAAAGAACCAGCAAAGGGCAGAGGGCAGGGAAATTGAAAAT
*
44380231 CAAAGAACCAGCAAAGGGCAGAGGGCAGTGAAATTGAAAAT
1 CAAAGAACCAGCAAAGGGCAGAGGGCAGGGAAATTGAAAAT
44380272 CAA
1 CAA
44380275 TCCCAGACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.29, T:0.09
Consensus pattern (41 bp):
CAAAGAACCAGCAAAGGGCAGAGGGCAGGGAAATTGAAAAT
Found at i:44380379 original size:23 final size:23
Alignment explanation
Indices: 44380349--44380395 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
44380339 AGGGCAGAGA
44380349 AACAAAGAACAAGCAAAGGGCAG
1 AACAAAGAACAAGCAAAGGGCAG
* *
44380372 AACAAAGAACCAGCAGAGGGCAG
1 AACAAAGAACAAGCAAAGGGCAG
44380395 A
1 A
44380396 GATGAGGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.28, T:0.00
Consensus pattern (23 bp):
AACAAAGAACAAGCAAAGGGCAG
Found at i:44380896 original size:62 final size:59
Alignment explanation
Indices: 44380822--44380937 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 59
44380812 CCGGTACCAT
*
44380822 AAAAAATAAATTTAAAA-ATAATTTTTAATTTTTAATTTGAATATTTATTATTTATTTGTATC
1 AAAAAATAAATTTAAAATAT-A-TTTTAA-CTTTAATTT-AATATTTATTATTTATTTGTATC
* * * *
44380884 AAAAAATTAATTTTAAATATATTTTAACTTTAATTTACTTTTTATTATTTATTT
1 AAAAAATAAATTTAAAATATATTTTAACTTTAATTTAATATTTATTATTTATTT
44380938 TTGATTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
59 16 0.33
60 8 0.17
61 6 0.12
62 16 0.33
63 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (59 bp):
AAAAAATAAATTTAAAATATATTTTAACTTTAATTTAATATTTATTATTTATTTGTATC
Found at i:44384479 original size:21 final size:20
Alignment explanation
Indices: 44384455--44384496 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44384445 TTTCATTGAT
44384455 TAAATTAGAGAAAAATAAATA
1 TAAATTAGA-AAAAATAAATA
**
44384476 TAAATTTTAAAAAATAAATA
1 TAAATTAGAAAAAATAAATA
44384496 T
1 T
44384497 TAACAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
TAAATTAGAAAAAATAAATA
Found at i:44385943 original size:15 final size:15
Alignment explanation
Indices: 44385925--44385994 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
44385915 GGACGAAATG
44385925 ATTATTTAAAATTTT
1 ATTATTTAAAATTTT
** *
44385940 ATTAGGTCAAATTTT
1 ATTATTTAAAATTTT
* ** *
44385955 GTTATGAAAAAATTATAG
1 ATTAT-TTAAAATT-T-T
44385973 ATTATTTAAAATTTT
1 ATTATTTAAAATTTT
44385988 ATTATTT
1 ATTATTT
44385995 TTAAGGGAGT
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
15 22 0.56
16 6 0.15
17 7 0.18
18 4 0.10
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (15 bp):
ATTATTTAAAATTTT
Found at i:44390925 original size:22 final size:21
Alignment explanation
Indices: 44390899--44390947 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
44390889 TTTAAAAAAT
44390899 AAATAACATAG-AAAACAATTTA
1 AAATAACAT-GTAAAA-AATTTA
* *
44390921 AAATAATATGTAAAAAGTTTA
1 AAATAACATGTAAAAAATTTA
44390942 AAATAA
1 AAATAA
44390948 ATAATATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (21 bp):
AAATAACATGTAAAAAATTTA
Found at i:44391158 original size:27 final size:26
Alignment explanation
Indices: 44391117--44391185 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
44391107 TTAACATAGT
* *
44391117 TTAAAATACAGAATATATAAAAAAAAC
1 TTAAAATAAATAATATAT-AAAAAAAC
* ** *
44391144 TTAAAATAAATAATA-ATAGAACGAT
1 TTAAAATAAATAATATATAAAAAAAC
44391169 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
44391186 AAGTTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 19 0.54
26 3 0.09
27 13 0.37
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAAAAAC
Found at i:44391199 original size:21 final size:23
Alignment explanation
Indices: 44391144--44391207 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 23
44391134 TAAAAAAAAC
44391144 TTAAAATAAATAATAATAGAACGAT
1 TTAAAATAAATAAT-ATA-AACGAT
44391169 TTAAAATAAATAATATAAA-G-T
1 TTAAAATAAATAATATAAACGAT
44391190 TTAAAATAAATAA-ATAAA
1 TTAAAATAAATAATATAAA
44391208 TACATTGCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.13
21 14 0.36
22 1 0.03
23 2 0.05
24 3 0.08
25 14 0.36
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
TTAAAATAAATAATATAAACGAT
Found at i:44393032 original size:129 final size:127
Alignment explanation
Indices: 44392804--44393108 Score: 457
Period size: 129 Copynumber: 2.4 Consensus size: 127
44392794 ATGATTCATC
* * * *
44392804 GTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTTTGTCTGCTGCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTACTCCACTACT
* * *
44392869 GCTTAGAGAGATAAGACTTGATGTGATCTGCTCCACTACTACTTAGGGTGATAAGATCTGTG
66 GCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAAGGAGATAAGATCTGTG
* *
44392931 GTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTTTTTTCTGTCTACTCCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTTCTTT-TGTCTACTCCACTA
* * *
44392996 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTATTTAAGGAGATAAGATTTGTG
64 CTGCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAAGGAGATAAGATCTGTG
* * *
44393060 GTTTTAATCCGCTCCACTTCAACTTCAGGGAGATATGATTGATTTCTTT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTT
44393109 CAAATTGATT
Statistics
Matches: 159, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
127 39 0.25
128 12 0.08
129 108 0.68
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (127 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTACTCCACTACT
GCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAAGGAGATAAGATCTGTG
Found at i:44393188 original size:50 final size:49
Alignment explanation
Indices: 44393134--44393507 Score: 270
Period size: 50 Copynumber: 7.6 Consensus size: 49
44393124 GTCGGGGAAC
* * *
44393134 AAGATTCGTCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCACTGCCAGGGAAGT
* ** * * ** *
44393184 AAGATTC-CCGTTG-CGACTTCAATCTTTTTAATTGCAGTATCGGGGAAGT
1 AAGATTCGCCGTTGTAG-CTTCAATC-TTTCCACTGCACTGCCAGGGAAGT
* * *
44393233 AAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCATTGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCACTGCCAGGGAAGT
** ** * * *
44393283 AAGATTTACCGTTGCGGCTTCAATCTTT-AACTGCGA-TGTCAGGGAAAT
1 AAGATTCGCCGTTGTAGCTTCAATCTTTCCACTGC-ACTGCCAGGGAAGT
* * * * *
44393331 AAGATTCACTGTCGTAGCTTCAATCTATTCCACTGCACCGCCAGGGGAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCACTGCCAGGGAAGT
* ** ** * * * *
44393381 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATC-TTTCCACTGCACTGCCAGGGAAGT
* * * *
44393431 AAGATTCGTCGTTATAGCTTCAATCTGTTCCACTGCACCGCCAGGGGAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCACTGCCAGGGAAGT
* **
44393481 AAGATTCGCCATTGCGGCTTCAATCTT
1 AAGATTCGCCGTTGTAGCTTCAATCTT
44393508 CTTTGCTGTA
Statistics
Matches: 243, Mismatches: 70, Indels: 23
0.72 0.21 0.07
Matches are distributed among these distances:
48 37 0.15
49 42 0.17
50 162 0.67
51 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (49 bp):
AAGATTCGCCGTTGTAGCTTCAATCTTTCCACTGCACTGCCAGGGAAGT
Found at i:44393465 original size:100 final size:100
Alignment explanation
Indices: 44393116--44393507 Score: 515
Period size: 100 Copynumber: 4.0 Consensus size: 100
44393106 TTTCAAATTG
* * *
44393116 ATTGCAATGTCGGGGAA-CAAGATTCGTCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGG
1 ATTGCAATGTCAGGGAAGCAAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGG
*
44393180 AAGTAAGATTC-CCGTTGCGACTTCAATCTTTTTA
66 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTA
* * * * * * **
44393214 ATTGCAGTATCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCATTGCCAGGG
1 ATTGCAATGTCAGGGAAGCAAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGG
*
44393279 AAGTAAGATTTACCGTTGCGGCTTCAATC--TTTA
66 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTA
* * ** * *
44393312 ACTGCGATGTCAGGGAAATAAGATTC-ACTGTCGTAGCTTCAATCTATTCCACTGCACCGCCAGG
1 ATTGCAATGTCAGGGAAGCAAGATTCGTC-GTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
*
44393376 GGAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTA
65 GAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTA
**
44393412 ATTGCAATGTCAGGGAAGCAAGATTCGTCGTTATAGCTTCAATCTGTTCCACTGCACCGCCAGGG
1 ATTGCAATGTCAGGGAAGCAAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGG
* * *
44393477 GAGTAAGATTCGCCATTGCGGCTTCAATCTT
66 AAGTAAGATTCACCGTTGCGGCTTCAATCTT
44393508 CTTTGCTGTA
Statistics
Matches: 254, Mismatches: 34, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
97 1 0.00
98 98 0.39
99 50 0.20
100 104 0.41
101 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (100 bp):
ATTGCAATGTCAGGGAAGCAAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGGG
AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTA
Found at i:44393476 original size:198 final size:197
Alignment explanation
Indices: 44393147--44393507 Score: 551
Period size: 198 Copynumber: 1.8 Consensus size: 197
44393137 ATTCGTCGTT
* *
44393147 GTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTAAGATTCCCGTTGCGACTTCAATCTTTT
1 GTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCCCGTTGCGACTTCAATCTTTT
* * * * **
44393212 TAATTGCAGTATCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCATTGCCAG
66 TAATTGCAATATCAGGGAAGCAAGATTCGCCGTCATAGCTTCAATCTGCTCCACTGCACCGCCAG
* *
44393277 GGAAGTAAGATTTACCGTTGCGGCTTCAATCTTTAACTGCGATGTCAGGGAAATAAGATTCACTG
131 GGAAGTAAGATTCACCATTGCGGCTTCAATCTTTAACTGCGATGTCAGGGAAATAAGATTCACTG
44393342 TC
196 TC
* *
44393344 GTAGCTTCAATCTATTCCACTGCACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTC-CCGTTGCGACTTCAATCTTT
* * * *
44393409 TTAATTGCAATGTCAGGGAAGCAAGATTCGTCGTTATAGCTTCAATCTGTTCCACTGCACCGCCA
65 TTAATTGCAATATCAGGGAAGCAAGATTCGCCGTCATAGCTTCAATCTGCTCCACTGCACCGCCA
* *
44393474 GGGGAGTAAGATTCGCCATTGCGGCTTCAATCTT
130 GGGAAGTAAGATTCACCATTGCGGCTTCAATCTT
44393508 CTTTGCTGTA
Statistics
Matches: 145, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
197 41 0.28
198 104 0.72
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (197 bp):
GTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCCCGTTGCGACTTCAATCTTTT
TAATTGCAATATCAGGGAAGCAAGATTCGCCGTCATAGCTTCAATCTGCTCCACTGCACCGCCAG
GGAAGTAAGATTCACCATTGCGGCTTCAATCTTTAACTGCGATGTCAGGGAAATAAGATTCACTG
TC
Found at i:44393595 original size:45 final size:45
Alignment explanation
Indices: 44393562--44394023 Score: 580
Period size: 45 Copynumber: 10.3 Consensus size: 45
44393552 GCAGGAAAGT
* * *
44393562 AAGATCTGTTATCTTCAGTCTACTTCACTGTCAATACAGAAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
* * * * *
44393607 AAGA-CTTGCTATATT-TGATCTACTTCGCTGCCAATACCGGAAGAT
1 AAGATC-TGCTATCTTCAG-TCTACTTCACTGCCAATACAGGAAGAC
*
44393652 AAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
* *
44393697 AAGA-CTTGCTATCTT-TGATCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCACTGCCAATACAGGAAGAC
*
44393742 CAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
* * **
44393787 AAGATCTACTATCTTTAGTCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
**
44393832 AAGATCTGCTATCTTCAGTCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
* **
44393877 AAGA-CTTGCTATCTT-TGATCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCACTGCCAATACAGGAAGAC
* * *
44393922 AAGATCTGCTATCTTTAGTCTACTTCGCTGCCAATATAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
44393967 AAGA-CTTGCTATCTTC-GATCTACTTCACTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCACTGCCAATACAGGAAGAC
44394012 AAGATCTGCTAT
1 AAGATCTGCTAT
44394024 AATGACTTCA
Statistics
Matches: 368, Mismatches: 34, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
44 8 0.02
45 353 0.96
46 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGAC
Found at i:44393687 original size:90 final size:90
Alignment explanation
Indices: 44393562--44394023 Score: 730
Period size: 90 Copynumber: 5.1 Consensus size: 90
44393552 GCAGGAAAGT
* * * *
44393562 AAGATCTGTTATCTTCAGTCTACTTCACTGTCAATACAGAAAGACAAGACTTGCTATATTTGATC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGACAAGACTTGCTATCTTTGATC
* *
44393627 TACTTCGCTGCCAATACCGGAAGAT
66 TACTTCGCTGCCAATACAGGAAGAC
*
44393652 AAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGGAAGACAAGACTTGCTATCTTTGATC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGACAAGACTTGCTATCTTTGATC
44393717 TACTTCGCTGCCAATACAGGAAGAC
66 TACTTCGCTGCCAATACAGGAAGAC
* *
44393742 CAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGACAAGA-TCTACTATCTTT-AG
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGACAAGACT-TGCTATCTTTGA-
*
44393805 TCTACTTTGCTGCCAATACAGGAAGAC
64 TCTACTTCGCTGCCAATACAGGAAGAC
**
44393832 AAGATCTGCTATCTTCAGTCTACTTTGCTGCCAATACAGGAAGACAAGACTTGCTATCTTTGATC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGACAAGACTTGCTATCTTTGATC
*
44393897 TACTTTGCTGCCAATACAGGAAGAC
66 TACTTCGCTGCCAATACAGGAAGAC
* * * *
44393922 AAGATCTGCTATCTTTAGTCTACTTCGCTGCCAATATAGGAAGACAAGACTTGCTATCTTCGATC
1 AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGACAAGACTTGCTATCTTTGATC
*
44393987 TACTTCACTGCCAATACAGGAAGAC
66 TACTTCGCTGCCAATACAGGAAGAC
44394012 AAGATCTGCTAT
1 AAGATCTGCTAT
44394024 AATGACTTCA
Statistics
Matches: 347, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
89 2 0.01
90 343 0.99
91 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (90 bp):
AAGATCTGCTATCTTCAGTCTACTTCACTGCCAATACAGGAAGACAAGACTTGCTATCTTTGATC
TACTTCGCTGCCAATACAGGAAGAC
Found at i:44394225 original size:15 final size:15
Alignment explanation
Indices: 44394185--44394225 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
44394175 TAACTAGATG
44394185 TGTATGAATGATATT
1 TGTATGAATGATATT
*
44394200 TGCATTGAATGATATT
1 TGTA-TGAATGATATT
44394216 TGTATGAATG
1 TGTATGAATG
44394226 TAGAATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (15 bp):
TGTATGAATGATATT
Found at i:44394956 original size:5 final size:5
Alignment explanation
Indices: 44394946--44394980 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
44394936 TTGGCCTCTC
*
44394946 CTTTT CTTTT CTTTT CTTTT CTTTT CATTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
44394981 TTCAAGTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:44398913 original size:22 final size:21
Alignment explanation
Indices: 44398887--44398935 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
44398877 TTTAAAAAAT
44398887 AAATAACATAG-AAAACAATTTA
1 AAATAACAT-GTAAAA-AATTTA
* *
44398909 AAATAATATGTAAAAAGTTTA
1 AAATAACATGTAAAAAATTTA
44398930 AAATAA
1 AAATAA
44398936 ATAATATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (21 bp):
AAATAACATGTAAAAAATTTA
Found at i:44399139 original size:27 final size:26
Alignment explanation
Indices: 44399098--44399166 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
44399088 TTAACATAGT
* *
44399098 TTAAAATACAGAATATATAAAAAAAAC
1 TTAAAATAAATAATATAT-AAAAAAAC
* ** *
44399125 TTAAAATAAATAATA-ATAGAACGAT
1 TTAAAATAAATAATATATAAAAAAAC
44399150 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
44399167 AAGTTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 19 0.54
26 3 0.09
27 13 0.37
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAAAAAC
Found at i:44399164 original size:22 final size:21
Alignment explanation
Indices: 44399132--44399182 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
44399122 AACTTAAAAT
*
44399132 AAAT-AATAATAGAACGATTTA
1 AAATAAATAATAGAAAG-TTTA
*
44399153 AAATAAATAATATAAAGTTTA
1 AAATAAATAATAGAAAGTTTA
44399174 AAATAAATA
1 AAATAAATA
44399183 CATTGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATAAATAATAGAAAGTTTA
Found at i:44399180 original size:21 final size:25
Alignment explanation
Indices: 44399125--44399182 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
44399115 TAAAAAAAAC
44399125 TTAAAATAAATAATAATAGAACGAT
1 TTAAAATAAATAATAATAGAACGAT
44399150 TTAAAATAAATAAT-ATA-AA-G-T
1 TTAAAATAAATAATAATAGAACGAT
44399171 TTAAAATAAATA
1 TTAAAATAAATA
44399183 CATTGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.39
22 1 0.03
23 2 0.06
24 3 0.09
25 14 0.42
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (25 bp):
TTAAAATAAATAATAATAGAACGAT
Found at i:44401054 original size:23 final size:23
Alignment explanation
Indices: 44401023--44401072 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
44401013 ATATTTATTG
*
44401023 TTAATATATTTAAAG-ATATTTT
1 TTAATATATTTAAAGAATATTAT
*
44401045 TTAATAATATTTGAAGAATATTAT
1 TTAAT-ATATTTAAAGAATATTAT
44401069 TTAA
1 TTAA
44401073 ACTTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
TTAATATATTTAAAGAATATTAT
Found at i:44402220 original size:32 final size:34
Alignment explanation
Indices: 44402158--44402220 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
44402148 GCTTATTTAC
* *
44402158 AATATTGTGTTAAAATCATTAATTATAAATAAAA
1 AATATTGTGTTAAAATCACTAATTACAAATAAAA
*
44402192 AATATT-TTTTAAAAT-ACTAATTACAAATA
1 AATATTGTGTTAAAATCACTAATTACAAATA
44402221 TTTAATGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 12 0.46
33 8 0.31
34 6 0.23
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (34 bp):
AATATTGTGTTAAAATCACTAATTACAAATAAAA
Found at i:44402448 original size:26 final size:26
Alignment explanation
Indices: 44402419--44402471 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
44402409 TAAATCAAAT
* *
44402419 TTTTCAAAA-TCACTTTTTAACAGCAA
1 TTTTCAAAAGT-ACTTTTCAAAAGCAA
44402445 TTTTCAAAAGTACTTTTCAAAAGCAA
1 TTTTCAAAAGTACTTTTCAAAAGCAA
44402471 T
1 T
44402472 AAAAAACTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (26 bp):
TTTTCAAAAGTACTTTTCAAAAGCAA
Found at i:44402959 original size:137 final size:137
Alignment explanation
Indices: 44402791--44403106 Score: 524
Period size: 137 Copynumber: 2.3 Consensus size: 137
44402781 CTCACATTTA
* *
44402791 TATTTTTTAGTTCATGTTGCTTCAACCTTTTTTTTAATTAATATTTTTAACATATTAACTCATTT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTTTTAATTAATATTTTTAACATATTAACTCATTT
* * * *
44402856 GATTAAATGGTTAGATAATTGTGATTACATCCTTGAGTCTCAAGTTCTATTATTTTTATAAGCAT
66 GATTAAATAGTTAGATAATTGCGATTACATCCTTAAGTCTCAAGTTCCATTATTTTTATAAGCAT
44402921 ATTAATG
131 ATTAATG
44402928 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTTTTAATTAATATTTTTAACATATTAACTCATTT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTTTTAATTAATATTTTTAACATATTAACTCATTT
*
44402993 GATTAAATAGTTAGATAATTGCGATTACATCTTTAAGTCTCAAGTTCCATTATTTTTATAAGCAT
66 GATTAAATAGTTAGATAATTGCGATTACATCCTTAAGTCTCAAGTTCCATTATTTTTATAAGCAT
44403058 ATTAATG
131 ATTAATG
* *
44403065 TATTTTTTTTTATTTCATGTTGTTTCAAGTTTTTTTTTAATT
1 TA---TTTTTTATTTCATGTTGCTTCAAGCTTTTTTTTAATT
44403107 TTTAATTAAT
Statistics
Matches: 167, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
137 132 0.79
140 35 0.21
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (137 bp):
TATTTTTTATTTCATGTTGCTTCAAGCTTTTTTTTAATTAATATTTTTAACATATTAACTCATTT
GATTAAATAGTTAGATAATTGCGATTACATCCTTAAGTCTCAAGTTCCATTATTTTTATAAGCAT
ATTAATG
Found at i:44403122 original size:13 final size:13
Alignment explanation
Indices: 44403104--44403130 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44403094 TTTTTTTTTA
44403104 ATTTTTAATTAAT
1 ATTTTTAATTAAT
44403117 ATTTTTAATTAAT
1 ATTTTTAATTAAT
44403130 A
1 A
44403131 AATATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTAATTAAT
Found at i:44405313 original size:381 final size:377
Alignment explanation
Indices: 44404722--44405479 Score: 1275
Period size: 381 Copynumber: 2.0 Consensus size: 377
44404712 CATGTCCTTC
* * * *
44404722 TCGTCGGAGTCTTCTTCTTCAGTGACAATTGGTTCTTGAGAAGGCTGGTGGTCCTTTTCCTTTCG
1 TCGTCGGAGTCTTCTTCTCCAGTGACAATCGGTTCTTGAAAAGGCAGGTGGTCCTTTTCCTTTCG
44404787 TTTTTCGGGTATTTTGAGGCTGGATTTGGACTTAGGGGTCGAAACCTAAGAGGGGATACCTTTTT
66 TTTTTCGGGTATTTTGAGGCTGGATTTGGACTTAGGGGTCGAAACCTAAGAGGGGATACCTTTTT
* **
44404852 ACCCTCGCCGGCCACCGTGAATGGTGGCACCGACGCCGGCCACCGACGGCCAGCACGGTGGCTAG
131 ACCCTCGCCGGCCACCGTGAACGACGGCACCGACGCCGGCCACCGACGGCCAGCACGGTGGCTAG
* * *
44404917 TGACCGGACTCTTGGCTGGAGAGATGAACGGAGAAGGGGAGAGGGAGAGCATATCAGTTGTTTTT
196 TGACCGGACTCTTGGCCGGAGAGATGAACAGAGAAGGGGAGAGGGAGAGCATATCAATTG-TTTT
44404982 TTTTTTTGTGAGAAGGGAGGAATGATTTTTTTTGAAAAAAAAATTGCCTTTTATAGCCAAACAAA
260 TTTTTTTGTGAGAAGGGAGGAATGA-TTTTTTTG-AAAAAAAATTGCCTTTTATAGCCAAACAAA
44405047 ACGACGCCGTTTTGGTCGGCGTCCTTAAGCCCCAAACGACGTCGTTTTGACCCTG
323 ACGACGCCGTTTTGGTCGGCGTCCTTAAGCCCCAAACGACGTCGTTTTGACCCTG
*
44405102 TCGTCGGAGTCTTCTTCTCCAGTGACAATCGGTTCTTGAAAAGGCAGGTGTTCCTTTTCCTTTCG
1 TCGTCGGAGTCTTCTTCTCCAGTGACAATCGGTTCTTGAAAAGGCAGGTGGTCCTTTTCCTTTCG
* *
44405167 TTTTTCGGGTGTTTTGAGGCTGGATTTGGACTTAGGGGGTTGAAACCTAAGAGGGGATACCTTTT
66 TTTTTCGGGTATTTTGAGGCTGGATTTGGACTTA-GGGGTCGAAACCTAAGAGGGGATACCTTTT
* * *
44405232 TACTCTCGCCGGCCATCGTGAACGACGGCGA-CGACGCCGGCCACCGACGGCCGGCACGGTGGCT
130 TACCCTCGCCGGCCACCGTGAACGACGGC-ACCGACGCCGGCCACCGACGGCCAGCACGGTGGCT
*
44405296 AGTGACCGGACTCTTGGCCGGAGAGATGAATAGAGAAGGGGAGAGGGAGAGCATATCAATTGTTT
194 AGTGACCGGACTCTTGGCCGGAGAGATGAACAGAGAAGGGGAGAGGGAGAGCATATCAATTGTTT
* * *
44405361 TTTTTTTTGTGATAAGGGAGGAATGATTTTTTTGAAAAAAAATTGCTTTTTATGGCCAAACAAAA
259 TTTTTTTTGTGAGAAGGGAGGAATGATTTTTTTGAAAAAAAATTGCCTTTTATAGCCAAACAAAA
*
44405426 CGATGCCGTTTTGGTCGGCGTCCTTAAGCCCCAAACGACGTCGTTTTGACCCTG
324 CGACGCCGTTTTGGTCGGCGTCCTTAAGCCCCAAACGACGTCGTTTTGACCCTG
44405480 GATCAGGTCA
Statistics
Matches: 355, Mismatches: 21, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
378 82 0.23
379 8 0.02
380 121 0.34
381 143 0.40
382 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (377 bp):
TCGTCGGAGTCTTCTTCTCCAGTGACAATCGGTTCTTGAAAAGGCAGGTGGTCCTTTTCCTTTCG
TTTTTCGGGTATTTTGAGGCTGGATTTGGACTTAGGGGTCGAAACCTAAGAGGGGATACCTTTTT
ACCCTCGCCGGCCACCGTGAACGACGGCACCGACGCCGGCCACCGACGGCCAGCACGGTGGCTAG
TGACCGGACTCTTGGCCGGAGAGATGAACAGAGAAGGGGAGAGGGAGAGCATATCAATTGTTTTT
TTTTTTGTGAGAAGGGAGGAATGATTTTTTTGAAAAAAAATTGCCTTTTATAGCCAAACAAAACG
ACGCCGTTTTGGTCGGCGTCCTTAAGCCCCAAACGACGTCGTTTTGACCCTG
Found at i:44406463 original size:18 final size:18
Alignment explanation
Indices: 44406436--44406473 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
44406426 TACATAGATC
44406436 TTTATTTTAT-ATTTATT
1 TTTATTTTATAATTTATT
44406453 TTTAGTTTTATAATTTATT
1 TTTA-TTTTATAATTTATT
44406472 TT
1 TT
44406474 CATTATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTTATAATTTATT
Found at i:44406488 original size:18 final size:19
Alignment explanation
Indices: 44406437--44406509 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 19
44406427 ACATAGATCT
*
44406437 TTATTTTATATTTA-TTT-
1 TTATTTGATATTTATTTTC
*
44406454 TTAGTTTTATAATTTATTTTC
1 TTA-TTTGAT-ATTTATTTTC
*
44406475 ATTA-TTGATA-TTATTGTC
1 -TTATTTGATATTTATTTTC
44406493 TTATTTGATATTTATTT
1 TTATTTGATATTTATTT
44406510 ATTTATGTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
17 6 0.13
18 19 0.41
19 11 0.24
20 7 0.15
22 3 0.07
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTTGATATTTATTTTC
Found at i:44407525 original size:27 final size:28
Alignment explanation
Indices: 44407473--44407544 Score: 112
Period size: 27 Copynumber: 2.6 Consensus size: 28
44407463 AAAAATAAAA
44407473 ATTTACCAAAATAT-TATAACTTTTTTTT
1 ATTTACCAAAATATATATAAC-TTTTTTT
*
44407501 ATTTACCAAAAAATATATAA-TTTTTTT
1 ATTTACCAAAATATATATAACTTTTTTT
44407528 ATTTACCAAAATATATA
1 ATTTACCAAAATATATA
44407545 AAAAAACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.56
28 13 0.32
29 5 0.12
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTACCAAAATATATATAACTTTTTTT
Found at i:44407648 original size:27 final size:27
Alignment explanation
Indices: 44407617--44407684 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
44407607 ACGCCAATGG
44407617 CATTGGCGGCACCAAAGGTGCCAAAAC
1 CATTGGCGGCACCAAAGGTGCCAAAAC
* * *
44407644 TATTGGCGGCACCAATGGTGCCAATAC
1 CATTGGCGGCACCAAAGGTGCCAAAAC
44407671 CATTGGCGGCACCA
1 CATTGGCGGCACCA
44407685 CTTAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.16
Consensus pattern (27 bp):
CATTGGCGGCACCAAAGGTGCCAAAAC
Found at i:44407736 original size:4 final size:4
Alignment explanation
Indices: 44407727--44407856 Score: 94
Period size: 4 Copynumber: 32.0 Consensus size: 4
44407717 GAAGGAGAGG
*
44407727 GAAA GAAA GAAA GAAA GCAAA GGAAA GAAA G-AA -AAA GAAG GAAA GAAAA
1 GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAAA GAAA GAAA GAAA G-AAA
* *
44407776 GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA G-AA GAAAA GGAAAA
1 -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -G-AAA
*
44407825 GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAA
1 GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
44407857 AGGAAAGGAG
Statistics
Matches: 105, Mismatches: 8, Indels: 26
0.76 0.06 0.19
Matches are distributed among these distances:
3 18 0.17
4 57 0.54
5 23 0.22
6 7 0.07
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:44407752 original size:14 final size:14
Alignment explanation
Indices: 44407727--44407863 Score: 96
Period size: 14 Copynumber: 10.1 Consensus size: 14
44407717 GAAGGAGAGG
44407727 GAAAG-AAA-GAAA
1 GAAAGAAAAGGAAA
*
44407739 GAAAGCAAAGGAAA
1 GAAAGAAAAGGAAA
* *
44407753 GAAAGAAAAAGAAG
1 GAAAGAAAAGGAAA
44407767 GAAAGAAAAGGAAA
1 GAAAGAAAAGGAAA
*
44407781 GGAGAAGAGAAA-AAAA
1 -GA-AAGA-AAAGGAAA
*
44407797 GAAAG-AAAGAAGAA
1 GAAAGAAAAGGA-AA
44407811 G-AAGAAAAGGAAAA
1 GAAAGAAAAGG-AAA
44407825 GAGAAG-AAA--AAA
1 GA-AAGAAAAGGAAA
*
44407837 GAAAG-AAA-GAAG
1 GAAAGAAAAGGAAA
44407849 GAAAGAAAAGGAAA
1 GAAAGAAAAGGAAA
44407863 G
1 G
44407864 GAGAAGAGAA
Statistics
Matches: 102, Mismatches: 9, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
11 6 0.06
12 20 0.20
13 11 0.11
14 44 0.43
15 8 0.08
16 10 0.10
17 3 0.03
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAGGAAA
Found at i:44407752 original size:18 final size:17
Alignment explanation
Indices: 44407727--44407863 Score: 93
Period size: 18 Copynumber: 7.6 Consensus size: 17
44407717 GAAGGAGAGG
44407727 GAAA-GAAAGAAAGAAA
1 GAAAGGAAAGAAAGAAA
44407743 GCAAAGGAAAGAAAGAAA
1 G-AAAGGAAAGAAAGAAA
*
44407761 AAGAAGGAAAGAAAAGGAAA
1 GA-AAGGAAAG-AAA-GAAA
*
44407781 GGAGAAGAGAAAAAAAGAAA
1 -GA-AAG-GAAAGAAAGAAA
*
44407801 GAAAGAAGAAG-AAGAAAA
1 GAAAGGA-AAGAAAG-AAA
*
44407819 GGAAAAGAGAAGAAA-AAA
1 -GAAAGGA-AAGAAAGAAA
*
44407837 GAAA-GAAAGAAGGAAA
1 GAAAGGAAAGAAAGAAA
44407853 GAAAAGGAAAG
1 G-AAAGGAAAG
44407864 GAGAAGAGAA
Statistics
Matches: 99, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.05
16 7 0.07
17 15 0.15
18 36 0.36
19 14 0.14
20 10 0.10
21 8 0.08
22 4 0.04
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (17 bp):
GAAAGGAAAGAAAGAAA
Found at i:44407813 original size:48 final size:49
Alignment explanation
Indices: 44407772--44407863 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 49
44407762 AGAAGGAAAG
* *
44407772 AAAAGGAAAGGAGAAGAGAAAA-AAAGAAAG--A-AAGAAGAA-G-AAG
1 AAAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAAGAAGAAGAAGGAAAG
*
44407815 AAAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAA-AAGGAAAG
1 AAAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAAG-AAGAAGAAGGAAAG
44407864 GAGAAGAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
43 20 0.51
44 8 0.21
47 2 0.05
48 6 0.15
49 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (49 bp):
AAAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAAGAAGAAGAAGGAAAG
Found at i:44407842 original size:44 final size:43
Alignment explanation
Indices: 44407750--44407883 Score: 166
Period size: 44 Copynumber: 3.1 Consensus size: 43
44407740 AAAGCAAAGG
* * *
44407750 AAAGAAAG-AA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGA
1 AAAGAAAGAAAGAAAGAAGAAAAGAAAAGGAAAAGAGAAGAAA
44407791 AAA-AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAA
1 AAAGAAAGAAAGAAAGAAGAA-AAGAAAAGGAAAAGAGAAGAAA
* * * *
44407834 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAAGAAAGAAAG-AAGAAAAGAAAAGGAAAAGAGAAGAAA
44407878 AAAGAA
1 AAAGAA
44407884 GAAGAGGGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
40 4 0.05
41 5 0.06
42 8 0.10
43 23 0.28
44 36 0.44
45 5 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (43 bp):
AAAGAAAGAAAGAAAGAAGAAAAGAAAAGGAAAAGAGAAGAAA
Found at i:44407873 original size:18 final size:18
Alignment explanation
Indices: 44407731--44407889 Score: 84
Period size: 18 Copynumber: 8.7 Consensus size: 18
44407721 GAGAGGGAAA
*
44407731 GAAAGAAAGAA-AGCAAAG
1 GAAAG-AAGAAGAGAAAAG
44407749 GAAAGAAAGAA-A-AAGAAG
1 GAAAG-AAGAAGAGAA-AAG
44407767 GAAAGAA-AAG-G-AAAG
1 GAAAGAAGAAGAGAAAAG
* * *
44407782 GAGAAG-AGAAAAAAAGAAA
1 GA-AAGAAGAAGAGAA-AAG
44407801 GAAAGAAGAAGAAGAAAAG
1 GAAAGAAGAAG-AGAAAAG
*
44407820 GAAA-AGAGAAGA-AAAAA
1 GAAAGA-AGAAGAGAAAAG
44407837 GAAAGAAAGAAGGAAAGAAAAG
1 GAAAG-AAGAA-G--AGAAAAG
* *
44407859 GAAAGGAGAAGAGAAAAA
1 GAAAGAAGAAGAGAAAAG
*
44407877 AAAAGAAGAAGAG
1 GAAAGAAGAAGAG
44407890 GGAAGGAAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
15 6 0.05
16 8 0.07
17 11 0.10
18 47 0.42
19 21 0.19
20 4 0.04
21 5 0.05
22 9 0.08
ACGTcount: A:0.70, C:0.01, G:0.30, T:0.00
Consensus pattern (18 bp):
GAAAGAAGAAGAGAAAAG
Found at i:44407900 original size:40 final size:40
Alignment explanation
Indices: 44407774--44407919 Score: 129
Period size: 44 Copynumber: 3.6 Consensus size: 40
44407764 AAGGAAAGAA
* * *
44407774 AAGGAAAGGAGAAGAGAAAAAAAGA-AAGAA-AGAAGAA-G
1 AAGGAAAGGAAAAGAGAAAAAAAAAGAAGAAGAG-GGAAGG
* * * *
44407812 AAGAAAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAA
1 AAGGAAAGGAAAAGAGAAAAAAAAAG-AAG-AAG-AGGGAAG-G
*
44407856 AAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGG
1 AAGGAAAGGAAAAGAGAAAAAAAAAGAAGAAGAGGGAAGG
*
44407896 AAGGAAA-AAAAAGAAGAAAAAAAA
1 AAGGAAAGGAAAAG-AGAAAAAAAA
44407920 GTAATTTTAT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
38 21 0.24
39 4 0.05
40 20 0.23
41 8 0.09
42 5 0.06
43 5 0.06
44 23 0.27
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (40 bp):
AAGGAAAGGAAAAGAGAAAAAAAAAGAAGAAGAGGGAAGG
Found at i:44407909 original size:24 final size:26
Alignment explanation
Indices: 44407840--44407912 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
44407830 GAAAAAAGAA
*
44407840 AGAA-AGAAGGAAAGAAAAGGAA-AGG
1 AGAAGAGAAGGAAA-AAAAAGAAGAGG
*
44407865 AGAAGAGAA-AAAAAAAGAAGAAGAGG
1 AGAAGAGAAGGAAAAAA-AAGAAGAGG
44407891 -GAAG-GAAGGAAAAAAAAGAAGA
1 AGAAGAGAAGGAAAAAAAAGAAGA
44407913 AAAAAAAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 13 0.32
25 21 0.51
26 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (26 bp):
AGAAGAGAAGGAAAAAAAAGAAGAGG
Found at i:44407918 original size:82 final size:83
Alignment explanation
Indices: 44407750--44407917 Score: 238
Period size: 82 Copynumber: 2.0 Consensus size: 83
44407740 AAAGCAAAGG
44407750 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAG
1 AAAGAAAG-AAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAG
*
44407815 AAAAGGAAAAGAGAAGAAA
65 AAAAGGAAAAAAGAAGAAA
*
44407834 AAAGAAAG-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAG-AAAAAA-AAAG-AAGAAGAGGGAAG
1 AAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGA-AGAAG
*
44407895 -GAAGGAAAAAAAAGAAGAAA
65 AAAAGG--AAAAAAGAAGAAA
44407915 AAA
1 AAA
44407918 AAGTAATTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
79 11 0.14
80 8 0.10
81 21 0.27
82 30 0.38
84 8 0.10
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (83 bp):
AAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAGA
AAAGGAAAAAAGAAGAAA
Found at i:44408008 original size:28 final size:26
Alignment explanation
Indices: 44407972--44408026 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 26
44407962 TATTTAAAAT
44407972 TTATGTTATTTA-CATTATAGTTATTTTA
1 TTATGTTATTTAGCA-TATA--TATTTTA
*
44408000 TTATTTTATTTAGCATATATATTTTA
1 TTATGTTATTTAGCATATATATTTTA
44408026 T
1 T
44408027 GAAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
28 15 0.60
29 2 0.08
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (26 bp):
TTATGTTATTTAGCATATATATTTTA
Found at i:44409286 original size:319 final size:320
Alignment explanation
Indices: 44408706--44409490 Score: 1313
Period size: 320 Copynumber: 2.5 Consensus size: 320
44408696 TCCCCCTTAG
* * * *
44408706 CACACTAAATTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAAGACTA-AG
1 CACACTAGAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTAT-AAA-ATTAGAA
* ** *
44408770 TTTATGATATTTTTTAAAGTAATAAAATATGGAGAAAAAAATACGAACAAATGACAGAAGTAAAA
64 ATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGACAGAAGTAAGA
* *
44408835 GTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGTACT
129 GTGTATTACTAACTTTTATAAAATTCAGAAACAATTAATACAAAATATTTCAAAGAAAATATACT
* *
44408900 GAAATAATATAAAATAAAAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGA
194 AAAATAATATAAAACAAAAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGA
* *
44408965 AAATAATACGAGCAAAGGGCATGGG-AAGGGTTATTTTTTTACATAAAATTAATTTAAATAA
259 AAATAATACGAACAAAGGGCAGGGGTAAGGGTTATTTTTTTACATAAAATTAATTTAAATAA
44409026 CACACTAGAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAATTAGAAAT
1 CACACTAGAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAATTAGAAAT
* * *
44409091 TATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAGATACGAACAAATGGCAAAAGTAAGAGT
66 TATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGACAGAAGTAAGAGT
44409156 GTATTACTAACTTTTATAAAATTCAGAAACAATTAATACAAAATATTTCAAAGAAAATATACTAA
131 GTATTACTAACTTTTATAAAATTCAGAAACAATTAATACAAAATATTTCAAAGAAAATATACTAA
*
44409221 AATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGAAA
196 AATAATATAAAACAAAAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGAAA
*
44409286 ATAATACGAACAAAGGGCAGGGGTAAGGGTTATTTTTTTACATCAAATTAATTTAAATAA
261 ATAATACGAACAAAGGGCAGGGGTAAGGGTTATTTTTTTACATAAAATTAATTTAAATAA
*
44409346 CACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAAT
1 CACACTAGAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAATTAGAAAT
* * *
44409411 TATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAATAAATGACCGAAGTAAGATT
66 TATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGACAGAAGTAAGAGT
* *
44409476 TTTTTACTAACTTTT
131 GTATTACTAACTTTT
44409491 TTTTCAACTT
Statistics
Matches: 435, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
318 3 0.01
319 210 0.48
320 222 0.51
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (320 bp):
CACACTAGAGTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAATTAGAAAT
TATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGACAGAAGTAAGAGT
GTATTACTAACTTTTATAAAATTCAGAAACAATTAATACAAAATATTTCAAAGAAAATATACTAA
AATAATATAAAACAAAAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGAAA
ATAATACGAACAAAGGGCAGGGGTAAGGGTTATTTTTTTACATAAAATTAATTTAAATAA
Found at i:44415180 original size:106 final size:105
Alignment explanation
Indices: 44414994--44415293 Score: 370
Period size: 106 Copynumber: 2.8 Consensus size: 105
44414984 CTTTTTTCCT
*
44414994 AAAGAAGGCAATATCTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 AAAGAAGGCAATATCTTGCGTTTGG-AAATTCGAG-AAACGTGCCCTAACGTGCTGGGTTTCGAT
* **
44415059 TTCTCGTTCGACCAAATGGCCAAATA-TCTTTTTAAACTTTCA
64 TTCTCGTTCGACCAAATAGCCAAATATTCTTTCGAAA-TTTCA
* * * *
44415101 AAAGAATGCAATATTTTGCGTTTGGAAATTCGAGAATACGGGCCCTAACGTGTTGGGTTTCGATT
1 AAAGAAGGCAATATCTTGCGTTTGGAAATTCGAGAA-ACGTGCCCTAACGTGCTGGGTTTCGATT
* * * * * *
44415166 ACTCGTTTGGCCAAATAGTCGAATATTCTTTCGAAATTTTA
65 TCTCGTTCGACCAAATAGCCAAATATTCTTTCGAAATTTCA
* *
44415207 AAACG-AGGCAATGTCTTGCGTTTAGAAATTCGAGAGAACGTGCCCTAACGTGCTGGGTTTCGAT
1 AAA-GAAGGCAATATCTTGCGTTTGGAAATTCGAGA-AACGTGCCCTAACGTGCTGGGTTTCGAT
* *
44415271 TTCTCGTCCGACTAAATAGCCAA
64 TTCTCGTTCGACCAAATAGCCAA
44415294 CTATCCTCTT
Statistics
Matches: 162, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
105 2 0.01
106 128 0.79
107 32 0.20
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (105 bp):
AAAGAAGGCAATATCTTGCGTTTGGAAATTCGAGAAACGTGCCCTAACGTGCTGGGTTTCGATTT
CTCGTTCGACCAAATAGCCAAATATTCTTTCGAAATTTCA
Found at i:44417443 original size:19 final size:21
Alignment explanation
Indices: 44417419--44417457 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
44417409 ACTAAAACAA
*
44417419 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
44417438 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
44417458 ATCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:44417626 original size:27 final size:25
Alignment explanation
Indices: 44417596--44417696 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 25
44417586 AATACGAATA
*
44417596 GTGCCACCAATCAATATGGCACCATTG
1 GTGCCGCCAATC-AT-TGGCACCATTG
44417623 GTGCCGCCAATGGCATTGGCACCATTG
1 GTGCCGCCAAT--CATTGGCACCATTG
** *
44417650 GTGCCGCCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAAT--CATTGGCACCATTG
44417677 GTGCCGCCAATGCCATTGGC
1 GTGCCGCCAAT--CATTGGC
44417697 GTGACCAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 62 0.95
28 2 0.03
29 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.25
Consensus pattern (25 bp):
GTGCCGCCAATCATTGGCACCATTG
Found at i:44417787 original size:27 final size:28
Alignment explanation
Indices: 44417752--44417822 Score: 119
Period size: 27 Copynumber: 2.6 Consensus size: 28
44417742 TTTGTTTTTT
44417752 TATATATTTTGGTAAATAAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
*
44417779 TATATATTTTAGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
44417807 TA-ATATTTTGGTAAAT
1 TATATATTTTGGTAAAT
44417823 TTTTGTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 36 0.88
28 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAGTTA
Found at i:44418437 original size:3 final size:3
Alignment explanation
Indices: 44418429--44418454 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44418419 TTGAAATTTG
44418429 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
44418455 GTTTGCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:44419408 original size:29 final size:29
Alignment explanation
Indices: 44419365--44419431 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
44419355 CAGTAGAACA
* * *
44419365 CTTCCAGTTGGAAACGTTTATGGAAAACG
1 CTTCCAGCTAGAAACATTTATGGAAAACG
*
44419394 CTTCTAGCTAGAAACATTTATGGAAAACG
1 CTTCCAGCTAGAAACATTTATGGAAAACG
44419423 CTTCCAGCT
1 CTTCCAGCT
44419432 GGACGTGTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (29 bp):
CTTCCAGCTAGAAACATTTATGGAAAACG
Found at i:44423235 original size:10 final size:10
Alignment explanation
Indices: 44423220--44423273 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
44423210 ATTTAAATCC
44423220 TTTCTCTCAA
1 TTTCTCTCAA
44423230 TTTCTCTCCAA
1 TTTCTCT-CAA
44423241 TATTCTCTCAA
1 T-TTCTCTCAA
* *
44423252 ATTCTTCTTAA
1 TTTC-TCTCAA
44423263 TTTCCTCTCAA
1 TTT-CTCTCAA
44423274 ATTCCTCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 10 0.28
11 19 0.53
12 7 0.19
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:44423280 original size:11 final size:11
Alignment explanation
Indices: 44423223--44423281 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
44423213 TAAATCCTTT
*
44423223 CTCTC-AATTT
1 CTCTCAAATTC
44423233 CTCTCCAATATT-
1 CTCT-CAA-ATTC
44423245 CTCTCAAATTC
1 CTCTCAAATTC
* * *
44423256 TTCTTAATTTC
1 CTCTCAAATTC
44423267 CTCTCAAATTC
1 CTCTCAAATTC
44423278 CTCT
1 CTCT
44423282 TAAAAAAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
10 7 0.18
11 24 0.62
12 5 0.13
13 3 0.08
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:44424468 original size:7 final size:7
Alignment explanation
Indices: 44424458--44424489 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
44424448 TTGGTATTTA
44424458 GTATCAT
1 GTATCAT
44424465 GTATCAT
1 GTATCAT
44424472 GTATCAT
1 GTATCAT
*
44424479 GTATTAT
1 GTATCAT
44424486 GTAT
1 GTAT
44424490 ATAACTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (7 bp):
GTATCAT
Found at i:44425023 original size:30 final size:30
Alignment explanation
Indices: 44424982--44425039 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44424972 CGACGATGCA
* *
44424982 GGCCCATCAACAGCGTCCACACAATCACTC
1 GGCCCATCAACAACGCCCACACAATCACTC
* *
44425012 GGCCTATCAACAACGCCCATACAATCAC
1 GGCCCATCAACAACGCCCACACAATCAC
44425040 CAGGCCAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.41, G:0.12, T:0.14
Consensus pattern (30 bp):
GGCCCATCAACAACGCCCACACAATCACTC
Found at i:44426592 original size:372 final size:373
Alignment explanation
Indices: 44425907--44427020 Score: 1849
Period size: 372 Copynumber: 3.0 Consensus size: 373
44425897 TTGTTATGTA
* *
44425907 TTCTAGTCAAACAACGTCAACCCTTTGGTTTGCGATGCAATTTTCTATTCGGTAACAGCTTAAAG
1 TTCTAGTCGAACAACGTCAACCCTTTGGTTTGCGACGCAATTTTCTATTCGGTAACAGCTTAAAG
* * * *
44425972 CGAGCAAGCGATACAGACGGCCACTTACGTTCATCTGAGATCGTTGGGAATACGTGTCTCCAGAT
66 CGAGCAAGCGATACAGACGACCACTTACGTTCATCTGGGACCGGTGGGAATACGTGTCTCCAGAT
*
44426037 GTTGTACATGTTTTCTAATTTGTACACTTCGTCGACATAGCTCATCGGATCCAGACGGAGATTCT
131 GTTGTACATGTTTTCTAATTTGTACACTTCGTCGACATAGCTCATCGGATCCAGACAGAGATTCT
*
44426102 GACAAGCTGCAATTACATGAGCGCATGGATAACGAAGTGCGTCAAACATCCCACAGTCGCTATTC
196 GACAAGCTGCAATTACATGAGCGCATGGATAACGAAGTGCGTCAAACATCCCACAGTCGCTAGTC
* * *
44426167 TTATTTCACAAGTGTACACGATATTACTCGCCGATAACACCTTGGTCCGATCTGTTAAACTCTGT
261 CTATTTCGCAAGTGTACACGATATTGCTCGCCGATAACACCTTGGTCCGATCTGTTAAACTCTGT
*
44426232 CACATGAAACCATAAGTTGTCTCGATCGTGACACACTGTGTGCAG-TG
326 CACACGAAACCATAAGTTGTCTCGATCGTGACACACTGTGTGCAGTTG
44426279 TTCTAGTCGAACAACGTCAACCCTTTGGTTTGCGACGCAATTTTCTATTCGGTAACAGCTTAAAG
1 TTCTAGTCGAACAACGTCAACCCTTTGGTTTGCGACGCAATTTTCTATTCGGTAACAGCTTAAAG
*
44426344 CGAGCAAGCGATACAGACGACCACTTACGTTCATCTGGGACCGGTGGGAATACGTGTCTCCAGAC
66 CGAGCAAGCGATACAGACGACCACTTACGTTCATCTGGGACCGGTGGGAATACGTGTCTCCAGAT
44426409 GTTGTACATGTTTTCTAATTTGTACACTTCGTCGACATAGCTCATCGGATCCAGACAGAGA-TCT
131 GTTGTACATGTTTTCTAATTTGTACACTTCGTCGACATAGCTCATCGGATCCAGACAGAGATTCT
* *
44426473 GAACAAGCTACAATTACACGAGCGCATGGATAACGAAGTGCGTCAAACATCCCACAGTCGCTAGT
196 G-ACAAGCTGCAATTACATGAGCGCATGGATAACGAAGTGCGTCAAACATCCCACAGTCGCTAGT
* * *
44426538 CCTATTTTGCAAGTGTACACGATATTGCCCGTCGATAACACCTTGGTCCGATCTGTTAAACTCTG
260 CCTATTTCGCAAGTGTACACGATATTGCTCGCCGATAACACCTTGGTCCGATCTGTTAAACTCTG
* * *
44426603 TCACACGAAACCATAAGTTGTCTTGATCGTGACACACTCG-ATACAGTTG
325 TCACACGAAACCATAAGTTGTCTCGATCGTGACACACT-GTGTGCAGTTG
* * *
44426652 TTCTAGTCGAACAACGTCAACCCTTTGGTTTGCAACGCAATTCTCTATTTGGTAACAGCTTAAAG
1 TTCTAGTCGAACAACGTCAACCCTTTGGTTTGCGACGCAATTTTCTATTCGGTAACAGCTTAAAG
* *
44426717 TGAGCAAGCGATATAGACGACCACTTACGTTCATCTGGGACCGGTGGGAATACGTGTCTCCAGAT
66 CGAGCAAGCGATACAGACGACCACTTACGTTCATCTGGGACCGGTGGGAATACGTGTCTCCAGAT
* * * * *
44426782 GCTGTACATATTTTCTAATTTATACACATCGTCGACATAGCTCATCGGATCCAGA-TGAAGATTC
131 GTTGTACATGTTTTCTAATTTGTACACTTCGTCGACATAGCTCATCGGATCCAGACAG-AGATTC
*
44426846 TGACAAACTGCAATTACATGAGCGCATGGATAACGAAGTGCGTCAAACATCCCACAGTCGCTAGT
195 TGACAAGCTGCAATTACATGAGCGCATGGATAACGAAGTGCGTCAAACATCCCACAGTCGCTAGT
* *
44426911 CCTATTTCGCAAGTGTACACGATATTGCTCGCCGATAACACCTTGGTCTGATCTGTCAAACTCTG
260 CCTATTTCGCAAGTGTACACGATATTGCTCGCCGATAACACCTTGGTCCGATCTGTTAAACTCTG
* *
44426976 TCACACAAAACCATAAGTTGTCTCAATCGTGACACACTGTGTGCA
325 TCACACGAAACCATAAGTTGTCTCGATCGTGACACACTGTGTGCA
44427021 TGGTGTTCAC
Statistics
Matches: 691, Mismatches: 45, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
371 4 0.01
372 344 0.50
373 339 0.49
374 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (373 bp):
TTCTAGTCGAACAACGTCAACCCTTTGGTTTGCGACGCAATTTTCTATTCGGTAACAGCTTAAAG
CGAGCAAGCGATACAGACGACCACTTACGTTCATCTGGGACCGGTGGGAATACGTGTCTCCAGAT
GTTGTACATGTTTTCTAATTTGTACACTTCGTCGACATAGCTCATCGGATCCAGACAGAGATTCT
GACAAGCTGCAATTACATGAGCGCATGGATAACGAAGTGCGTCAAACATCCCACAGTCGCTAGTC
CTATTTCGCAAGTGTACACGATATTGCTCGCCGATAACACCTTGGTCCGATCTGTTAAACTCTGT
CACACGAAACCATAAGTTGTCTCGATCGTGACACACTGTGTGCAGTTG
Found at i:44429675 original size:125 final size:126
Alignment explanation
Indices: 44429444--44429736 Score: 414
Period size: 125 Copynumber: 2.3 Consensus size: 126
44429434 GGCCAAACAG
* *
44429444 GAGCTACTGTAGCAAAA-ACGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCAT
1 GAGCTACTGTAGCAAAAGA-GCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGCAT
* *
44429508 TCTACTTAAAGCATTTTTAACACTATTTGCTCAAACATGTCTTCTCGAAATTATTTTTTCAA
65 CCTACTTAAAGCATTTTTAACACTATTTGCTCAAACACGTCTTCTCGAAATTATTTTTTCAA
* *
44429570 GAGTTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTA-TTTTGCTGACAATGGATC
1 GAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGCATC
* * * * *
44429634 CTGCTTAAAGCGTTTTTGACATTATTTGCTCAGAA-ACGTCTTCTCGAAATTATTTTTTCAG
66 CTACTTAAAGCATTTTTAACACTATTTGCTCA-AACACGTCTTCTCGAAATTATTTTTTCAA
* * *
44429695 GAGCTACTGTAGTAAAAGAGTGTCCATGTGGGAGCTT-TTTTA
1 GAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTA
44429737 AATTAACAAA
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
124 5 0.03
125 101 0.67
126 43 0.29
127 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGCATC
CTACTTAAAGCATTTTTAACACTATTTGCTCAAACACGTCTTCTCGAAATTATTTTTTCAA
Done.