Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold117
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: 3231771
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 68836 characters in sequence are not A, C, G, or T
File 1 of 18
Found at i:6241 original size:30 final size:30
Alignment explanation
Indices: 6181--6478 Score: 326
Period size: 30 Copynumber: 9.7 Consensus size: 30
6171 TCTCGCTTCC
*
6181 CAAAGTCCATGACTCAGTGGCATCTTTTTTTT
1 CAAAGTCCACGACTCAGTGGCATC--TTTTTT
* *
6213 CAAAGTCCACAACTCAGTGGCATTTTTTTCTT
1 CAAAGTCCACGACTCAGTGGCA-TCTTTT-TT
* * * *
6245 CGATGTCCACGACTCAGTGGCATCTCTTTC
1 CAAAGTCCACGACTCAGTGGCATCTTTTTT
*
6275 CAAAGTCCACGACTCAATGGCATCTTTTCTT
1 CAAAGTCCACGACTCAGTGGCATCTTTT-TT
** * *
6306 CAAAGTCCATAACTTAGTGGCATCTCTTTT
1 CAAAGTCCACGACTCAGTGGCATCTTTTTT
* * * *
6336 CTAAGTCCATGACTCAGTGGCATCTCTTTC
1 CAAAGTCCACGACTCAGTGGCATCTTTTTT
6366 CAAAGTCCACGACTCAGTGGCATCTTTTCTT
1 CAAAGTCCACGACTCAGTGGCATCTTTT-TT
* *
6397 CAAAGTCCACAACTCAGTGGCATCTCTTTT
1 CAAAGTCCACGACTCAGTGGCATCTTTTTT
* * **
6427 CTAAGTCTACGACTCAGTGGCATCTTTTCC
1 CAAAGTCCACGACTCAGTGGCATCTTTTTT
* *
6457 CAAAGTCCACAACTCCGTGGCA
1 CAAAGTCCACGACTCAGTGGCA
6479 CCTTGTTCTT
Statistics
Matches: 223, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
30 122 0.55
31 59 0.26
32 41 0.18
33 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (30 bp):
CAAAGTCCACGACTCAGTGGCATCTTTTTT
Found at i:6328 original size:61 final size:61
Alignment explanation
Indices: 6181--6488 Score: 329
Period size: 61 Copynumber: 5.0 Consensus size: 61
6171 TCTCGCTTCC
* * * *
6181 CAAAGTCCATGACTCAGTGGCATCTTTTTTTTCAAAGTCCACAACTCAGTGGCATTTTTTTCTT
1 CAAAGTCCACGACTCAGTGGCATC--TCTTTCCAAAGTCCACAACTCAGTGGCA-TCTTTTCTT
* * * *
6245 CGATGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAATGGCATCTTTTCTT
1 CAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACAACTCAGTGGCATCTTTTCTT
** * * * **
6306 CAAAGTCCATAACTTAGTGGCATCTCTTTTCTAAGTCCATGACTCAGTGGCATCTCTTTC--
1 CAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACAACTCAGTGGCATCT-TTTCTT
*
6366 CAAAGTCCACGACTCAGTGGCATCT-TTTCTTCAAAGTCCACAACTCAGTGGCATCTCTT-TT
1 CAAAGTCCACGACTCAGTGGCATCTCTTTC--CAAAGTCCACAACTCAGTGGCATCTTTTCTT
* * * *
6427 CTAAGTCTACGACTCAGTGGCATCT-TTTCCCAAAGTCCACAACTCCGTGGCACCTTGTTCTT
1 CAAAGTCCACGACTCAGTGGCATCTCTTT-CCAAAGTCCACAACTCAGTGGCATCTT-TTCTT
6489 TTTAAAGCCC
Statistics
Matches: 206, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.01
60 47 0.23
61 104 0.50
62 31 0.15
64 21 0.10
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (61 bp):
CAAAGTCCACGACTCAGTGGCATCTCTTTCCAAAGTCCACAACTCAGTGGCATCTTTTCTT
Found at i:6373 original size:91 final size:91
Alignment explanation
Indices: 6180--6488 Score: 442
Period size: 91 Copynumber: 3.4 Consensus size: 91
6170 ATCTCGCTTC
* * *
6180 CCAAAGTCCATGACTCAGTGGCATCTTTTTTTTCAAAGTCCACAACTCAGTGGCAT-TTTTTTCT
1 CCAAAGTCCACGACTCAGTGGCATC-TTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTC-
*
6244 TCGATGTCCACGACTCAGTGGCATCTCTTT
64 T--AAGTCCACGACTCAGTGGCATCTCTTT
* * *
6274 CCAAAGTCCACGACTCAATGGCATCTTTTCTTCAAAGTCCATAACTTAGTGGCATCTCTTTTCTA
1 CCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTA
*
6339 AGTCCATGACTCAGTGGCATCTCTTT
66 AGTCCACGACTCAGTGGCATCTCTTT
6365 CCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTA
1 CCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTA
*
6430 AGTCTACGACTCAGTGGCATCT-TTT
66 AGTCCACGACTCAGTGGCATCTCTTT
* * *
6455 CCCAAAGTCCACAACTCCGTGGCACCTTGTTCTT
1 -CCAAAGTCCACGACTCAGTGGCATCTT-TTCTT
6489 TTTAAAGCCC
Statistics
Matches: 196, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
90 3 0.02
91 131 0.67
92 5 0.03
93 28 0.14
94 29 0.15
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (91 bp):
CCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTA
AGTCCACGACTCAGTGGCATCTCTTT
Found at i:6537 original size:68 final size:66
Alignment explanation
Indices: 6459--6980 Score: 368
Period size: 60 Copynumber: 8.2 Consensus size: 66
6449 TCTTTTCCCA
* * * *
6459 AAGTCCACAACTCCGTGGCACCTTGTTCTTTTTAAAGCCCATAACTTCATGGCACTCTTTCTCCC
1 AAGTCCACAACTCCATGGCACCTT-TTCTTTTTAAAGCCCACAACTTCGTGGCACTCTTT-TCCT
6524 TTT
64 TTT
* * * *
6527 AAGTCCACAACTCCGTGGCACC----C-TTCT-AAGTCCACAACTTTGTGGCAC-CTTGTTCCTT
1 AAGTCCACAACTCCATGGCACCTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTCTT-TTCCTT
6585 TT
65 TT
* * *
6587 AAGTCCACGACTCCATGGCACCTTTCTCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTTCCT
1 AAGTCCACAACTCCATGGCACCTTT-TCTTTTTAAAGCCCACAACTTCGTGGCAC-TCTTTTCCT
6652 TTT
64 TTT
* * * * *
6655 AAGTCCACAACTCTATGGCACC----C--TTTCAAGTCCACAACTCCGTGG--CTCATGGTTCCT
1 AAGTCCACAACTCCATGGCACCTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTC-T-TTTCCT
6712 TTT
64 TTT
* * * *
6715 AAGTCCACAACTCTATGGCA-C----CTTTTT-AAGTCCACAACTCCGTGG--CTCATGGTTCCT
1 AAGTCCACAACTCCATGGCACCTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTC-T-TTTCCT
6772 TTT
64 TTT
* ** * * * *
6775 AAGTTCACAACTCTGTGGCACCTTTTCTTTTT-AAGTCCACGACTCCGTGGCACCCTTTTCCGTT
1 AAGTCCACAACTCCATGGCACCTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTCTTTTCC-TT
6839 TT
65 TT
* * * * * *
6841 AAGTCCACAACTCCGTGGCACCTCTTTCTTTCTAAAGCCCATAACTCCGTGACACTCTTTTTTCT
1 AAGTCCACAACTCCATGGCACCT-TTTCTTTTTAAAGCCCACAACTTCGTGGCACTC-TTTTCCT
6906 TTT
64 TTT
** * * *
6909 AAGTCCACAACTCTGTGGCACC----C-TTTT-AAGTCCACAACTCCGTGGCAC-CTTGTTCCTA
1 AAGTCCACAACTCCATGGCACCTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTCTT-TTCCTT
6967 TT
65 TT
6969 AAGTCCACAACT
1 AAGTCCACAACT
6981 TTGTGGTACG
Statistics
Matches: 388, Mismatches: 40, Indels: 60
0.80 0.08 0.12
Matches are distributed among these distances:
58 1 0.00
59 6 0.02
60 127 0.33
61 60 0.15
62 6 0.02
63 3 0.01
65 28 0.07
66 29 0.07
67 28 0.07
68 93 0.24
69 7 0.02
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (66 bp):
AAGTCCACAACTCCATGGCACCTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTCTTTTCCTTT
T
Found at i:6546 original size:34 final size:32
Alignment explanation
Indices: 6368--7070 Score: 441
Period size: 34 Copynumber: 22.0 Consensus size: 32
6358 TCTCTTTCCA
* * * **
6368 AAGTCCACGACTCAGTGGCATCTTTT-CTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * *
6399 AAGTCCACAACTCAGTGGCATCTCTT--TTCT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * **
6429 AAGTCTACGACTCAGTGGCATCTTTTCC--CA
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
6459 AAGTCCACAACTCCGTGGCACCTTGTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* * * * *
6492 AAAGCCCATAACTTCATGGCACTCTTTCTCCCTTT
1 -AAGTCCACAACTCCGTGGCAC-CTTT-TCCTTTT
*
6527 AAGTCCACAACTCCGTGGCA-C----CCTTCT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
**
6554 AAGTCCACAACTTTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* * *
6587 AAGTCCACGACTCCATGGCACCTTTCTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTT-TCCTTTT
* *
6620 AAAGCCCACAACTCCGTGGCACTTTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCAC--CTTTTCCTTTT
** *
6655 AAGTCCACAACTCTATGGCA-C----CCTTTC
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
6682 AAGTCCACAACTCCGTGGCTCATGGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCT-TTTCCTTTT
**
6715 AAGTCCACAACTCTATGGCACC---T--TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
6742 AAGTCCACAACTCCGTGGCTCATGGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCT-TTTCCTTTT
* * *
6775 AAGTTCACAACTCTGTGGCACCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
6807 AAGTCCACGACTCCGTGGCACCCTTTTCCGTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCC-TTTT
6841 AAGTCCACAACTCCGTGGCACCTCTTT-CTTTCT
1 AAGTCCACAACTCCGTGGCACCT-TTTCCTTT-T
* * * *
6874 AAAGCCCATAACTCCGTGACACTCTTTTTTCTTTT
1 -AAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTT
*
6909 AAGTCCACAACTCTGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
6936 AAGTCCACAACTCCGTGGCACCTTGTTCCTATT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
** * * *
6969 AAGTCCACAACTTTGTGGTACGTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
** * **
7001 AAGTCCATGATTCTATGGCACCCATTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTT-CCTTTT
* *
7036 AAGCCCACACCTCCGTGGCATCCCTTTATCCTTTT
1 AAGTCCACAACTCCGTGGCA--CCTTT-TCCTTTT
7071 TCTCACCTTC
Statistics
Matches: 524, Mismatches: 99, Indels: 94
0.73 0.14 0.13
Matches are distributed among these distances:
27 90 0.17
28 2 0.00
29 1 0.00
30 47 0.09
31 28 0.05
32 50 0.10
33 115 0.22
34 133 0.25
35 46 0.09
36 12 0.02
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:6557 original size:27 final size:26
Alignment explanation
Indices: 6521--6760 Score: 84
Period size: 27 Copynumber: 8.0 Consensus size: 26
6511 CACTCTTTCT
6521 CCCTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTAAGTCCACAACTCCGTGGCA
**
6547 CCCTTCTAAGTCCACAACTTTGTGGCA
1 CCCTT-TAAGTCCACAACTCCGTGGCA
* *
6574 CCTTGTTCCTTTTAAGTCCACGACTCCATGGCA
1 -C-----CC-TTTAAGTCCACAACTCCGTGGCA
*
6607 CCTTTCTCTTTTTAAAGCCCACAACTCCGTGGCA
1 -C---C-C--TTT-AAGTCCACAACTCCGTGGCA
**
6641 CTTTTTTTCCTTTTAAGTCCACAACTCTATGGCA
1 C-------CC-TTTAAGTCCACAACTCCGTGGCA
6675 CCCTTTCAAGTCCACAACTCCGTGGCTCA
1 CCCTTT-AAGTCCACAACTCCGTGG--CA
* **
6704 TGGTTCCTTTTAAGTCCACAACTCTATGGCA
1 -----CCCTTTAAGTCCACAACTCCGTGGCA
*
6735 CCTTTTTAAGTCCACAACTCCGTGGC
1 CC-CTTTAAGTCCACAACTCCGTGGC
6761 TCATGGTTCC
Statistics
Matches: 170, Mismatches: 20, Indels: 47
0.72 0.08 0.20
Matches are distributed among these distances:
26 10 0.06
27 58 0.34
28 1 0.01
29 2 0.01
31 5 0.03
32 1 0.01
33 42 0.25
34 42 0.25
35 4 0.02
36 1 0.01
37 4 0.02
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (26 bp):
CCCTTTAAGTCCACAACTCCGTGGCA
Found at i:6600 original size:60 final size:60
Alignment explanation
Indices: 6524--6986 Score: 442
Period size: 60 Copynumber: 7.3 Consensus size: 60
6514 TCTTTCTCCC
* * **
6524 TTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCCACAACTTTGTGGCACCTTGTTCCT
1 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
* ** * * *
6584 TTTAAGTCCACGACTCCATGGCACCTTTCTCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTT
1 TTTAAGTCCACAACTCTGTGGCA-C---C-C-TTTT-AAGTCCACAACTCCGTGGCAC-CTTGTT
6649 CCT
58 CCT
* * * * *
6652 TTTAAGTCCACAACTCTATGGCACCCTTTCAAGTCCACAACTCCGTGGCTCATGGTTCCT
1 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
* * * * *
6712 TTTAAGTCCACAACTCTATGGCACCTTTTTAAGTCCACAACTCCGTGGCTCATGGTTCCT
1 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
* *
6772 TTTAAGTTCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTT-TTCC
1 TTTAAGTCCACAACTCTGTGGCACC----C-TTTTAAGTCCACAACTCCGTGGCA-CCTTGTTCC
6836 GT
60 -T
* * * * *
6838 TTTAAGTCCACAACTCCGTGGCACCTCTTTCTTTCTAAAGCCCATAACTCCGTGACACTCTTTTT
1 TTTAAGTCCACAACTCTGTGGCA-C-C---CTTT-T-AAGTCCACAACTCCGTGGCAC-CTTGTT
*
6903 TCT
58 CCT
6906 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
1 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
* *
6966 ATTAAGTCCACAACTTTGTGG
1 TTTAAGTCCACAACTCTGTGG
6987 TACGTTTTCT
Statistics
Matches: 342, Mismatches: 40, Indels: 42
0.81 0.09 0.10
Matches are distributed among these distances:
60 134 0.39
61 38 0.11
62 4 0.01
63 5 0.01
64 2 0.01
65 27 0.08
66 31 0.09
67 27 0.08
68 71 0.21
69 3 0.01
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (60 bp):
TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
Found at i:6600 original size:128 final size:126
Alignment explanation
Indices: 6377--7062 Score: 619
Period size: 128 Copynumber: 5.4 Consensus size: 126
6367 AAAGTCCACG
* ** * * * *
6377 ACTCAGTGGCA-TCTTTT-CTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCTACGAC
1 ACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCA-C-CCTTT-TAAGTCCACAAC
* * **
6440 TCAGTGGCATCTT-TTCC--CAAAGTCCACAACTCCGTGGCACCTTGTTCTTTTTAAAGCCCATA
63 TCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCTTTTTAAAGCCCATA
* * * * * *
6502 ACTTCATGGCACTCTTTCTCCCTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCCACAACTT
1 ACTCCGTGGCACTCTTT-TCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTC
* * * *
6567 TGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCATGGCACCTTTCTCTTTTTAAAGCCCACA
65 CGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT-TCTTTTTAAAGCCCATA
* * *
6630 ACTCCGTGGCACTTTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCTTTCAAGTCCACAACTC
1 ACTCCGTGGCAC-TCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTC
* * * ** * *
6695 CGTGGCTCATGGTTCCTTTTAAGTCCACAACTCTATGGCA-C----CTTTTT-AAGTCCACA
65 CGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAAGCCCATA
* *
6751 ACTCCGTGG--CTCATGGTTCCTTTTAAGTTCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCA
1 ACTCCGTGGCACTC-T-TTTCCTTTTAAGTCCACAACTCTGTGGCACC----C-TTTTAAGTCCA
* *
6814 CGACTCCGTGGCACCCTT-TTCCGTTTTAAGTCCACAACTCCGTGGCACCTCTTTCTTTCTAAAG
59 CAACTCCGTGGCA-CCTTGTTCC-TTTTAAGTCCACAACTCCGTGGCACCT-TTTCTTTTTAAAG
6878 CCCATA
121 CCCATA
* *
6884 ACTCCGTGACACTCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTC
1 ACTCCGTGGCACTC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTC
* ** * * * *
6949 CGTGGCACCTTGTTCCTATTAAGTCCACAACTTTGTGGTACGTTTTCTTTTT-AAGTCCATG
65 CGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAAGCCCATA
* ** * * * *
7010 ATTCTATGGCACCCATTTTCCCTTTTAAGCCCACACCTCCGTGGCATCCCTTT
1 ACTCCGTGGCACTC-TTTT-CCTTTTAAGTCCACAACTCTGTGGCA-CCCTTT
7063 ATCCTTTTTC
Statistics
Matches: 459, Mismatches: 73, Indels: 55
0.78 0.12 0.09
Matches are distributed among these distances:
118 1 0.00
119 2 0.00
120 28 0.06
121 17 0.04
122 6 0.01
124 1 0.00
125 53 0.12
126 56 0.12
127 35 0.08
128 176 0.38
129 31 0.07
130 1 0.00
132 5 0.01
133 15 0.03
134 28 0.06
135 4 0.01
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (126 bp):
ACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCC
GTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAAGCCCATA
Found at i:6935 original size:27 final size:27
Alignment explanation
Indices: 6904--6957 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6894 ACTCTTTTTT
*
6904 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
6931 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
6958 TTGTTCCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:7186 original size:39 final size:39
Alignment explanation
Indices: 7128--7556 Score: 282
Period size: 39 Copynumber: 10.0 Consensus size: 39
7118 ACTTTGTCTT
* *
7128 CAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
7167 CAAGCCCAATATCGCTGGCCTTGAATTAGCATATTTGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
*
7206 CCTTATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 -C--------AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* *
7254 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA
*
7299 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 -C---AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
7342 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTG------GCA
*
7387 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 -C---AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * * * * *
7430 CCAGCCCAATATTGTTGGCCTTGAATCAACATATTAGCACCTTGTCTT
1 CAAGCCCAATGTCGCTGGCCTTGAAT---C-----AGCACATTGGC-A
**
7478 CAAGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
7517 TAAGCCCAATGTCGCTGGCCTTGAATCAGTATATTGGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
7556 C
1 C
7557 TTTGTATTTT
Statistics
Matches: 306, Mismatches: 46, Indels: 76
0.71 0.11 0.18
Matches are distributed among these distances:
39 152 0.50
40 10 0.03
42 3 0.01
43 4 0.01
45 5 0.02
46 2 0.01
47 10 0.03
48 55 0.18
49 65 0.21
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (39 bp):
CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:7234 original size:87 final size:87
Alignment explanation
Indices: 7080--7604 Score: 762
Period size: 87 Copynumber: 6.0 Consensus size: 87
7070 TTCTCACCTT
* * * * * *
7080 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTCAAGCCCAATGTCGTTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
7145 GCCTTGAATCAACACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
7167 CAAGCCCAATATCGCTGGCCTTGAATTAGCATATTTGCACCTTATTTTTAAGACCAATGTCGCTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
7232 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
7254 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
7319 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
*
7342 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCATCTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
7407 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * * * * * * * **
7430 CCAGCCCAATATTGTTGGCCTTGAATCAACATATTAGCACCTTGTCTTCAAGCCCAATGTCATTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
7495 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * * * * * *
7517 TAAGCCCAATGTCGCTGGCCTTGAATCAGTATATTGGCACTTTGTATTTTAGACCAATGTCGCTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
* *
7582 ACCTTGAATCAGCATATTGGCA
66 GCCTTGAATCAGCACATTGGCA
7604 C
1 C
7605 CTTCATCTTG
Statistics
Matches: 394, Mismatches: 43, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 227 0.58
88 167 0.42
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (87 bp):
CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:7331 original size:49 final size:49
Alignment explanation
Indices: 7259--7897 Score: 477
Period size: 49 Copynumber: 13.6 Consensus size: 49
7249 TGGCACAAGC
*
7259 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
7308 CCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
7347 CCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
7396 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--C----AGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * * * * * *
7435 CCAATATTGTTGGCCTTGAATCAACATATTAGCACCTT-GTCTTCAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
** * *
7483 CCAATGTCATTGGCCTTGAATCAGCACATTGG------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * *
7522 CCAATGTCGCTGGCCTTGAATCAGTATATTGGCACTTTGTAT-TTT-AGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTTTAAGA
* *
7570 CCAATGTCGCTGACCTTGAATCAGCATATTGGCACCTTCATCTTGAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * ** * *
7619 CCGATGTCGTTGGCCTTGAATCAGCACATCAGCACCTCAACCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCT---TCATCTTTAAGA
* * *
7671 CCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * *
7720 CCAATGTCGTTGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * * * * * *
7769 CCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTCAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGA
** * * * * *
7821 CCAATGTCGCT-GCCTTGTCTCAACACATTGGCA--TTCTTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
7867 CTAATGTCGCTGGCCATGAATCAGCATATTG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTG
7898 TCATTCTTTA
Statistics
Matches: 462, Mismatches: 88, Indels: 82
0.73 0.14 0.13
Matches are distributed among these distances:
39 94 0.20
42 1 0.00
43 3 0.01
44 1 0.00
45 3 0.01
46 14 0.03
47 16 0.03
48 70 0.15
49 189 0.41
50 2 0.00
51 18 0.04
52 51 0.11
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
Found at i:7351 original size:88 final size:88
Alignment explanation
Indices: 7080--7802 Score: 754
Period size: 87 Copynumber: 8.0 Consensus size: 88
7070 TTCTCACCTT
* ** * * *
7080 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCTTCAAGCCCAATGTCGTT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
*
7144 GGCCTTGAATCAACACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* * *
7167 CAAGCCCAATATCGCTGGCCTTGAATTAGCATATTTGCACCTT-ATTTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
7231 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
7254 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
7319 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
*
7342 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCATCTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
7407 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* * * * * * * * **
7430 CCAGCCCAATATTGTTGGCCTTGAATCAACATATTAGCACCTT-GTCTTCAAGCCCAATGTCATT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
7494 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* * * * *
7517 TAAGCCCAATGTCGCTGGCCTTGAATCAGTATATTGGCACTTTGTAT-TTT-AGACCAATGTCGC
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTTTAAGACCAATGTCGC
* *
7580 TGACCTTGAATCAGCATATTGGCACCTTCA
65 TGGCCTTGAATCAGCACATTGG------CA
* * * * * ** * *
7610 TCTTGAAGACCGATGTCGTTGGCCTTGAATCAGCACATCAGCACCTCAACCATCTTTAAGTCCAA
1 -C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT---TCATCTTTAAGACCAA
* *
7675 TGTCGCTGGCCTTGAATCAACATATTGGCACCTTTA
59 TGTCGCTGGCCTTGAATCAGCACATTGG---C---A
** * * * * * *
7711 TCTTTAAAACCAATGTCGTTGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGTCCGATAT
1 -C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
* *
7776 CGTTGGCCTTGAATCAGCATATTGGCA
62 CGCTGGCCTTGAATCAGCACATTGGCA
7803 TCTTTAACAT
Statistics
Matches: 547, Mismatches: 67, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
87 218 0.40
88 172 0.31
89 1 0.00
92 1 0.00
93 2 0.00
95 1 0.00
97 33 0.06
98 41 0.07
99 2 0.00
100 3 0.01
101 73 0.13
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (88 bp):
CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCA
Found at i:7375 original size:175 final size:174
Alignment explanation
Indices: 7080--7604 Score: 793
Period size: 175 Copynumber: 3.0 Consensus size: 174
7070 TTCTCACCTT
* *
7080 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTCAAGCCCAATGTCGTTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCCAATGTCGTTG
* *
7145 GCCTTGAATCAACACATTGGCACAAGCCCAATATCGCTGGCCTTGAATTAGCATATTTGCACCTT
66 GCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTTGCACCTT
7210 ATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
131 ATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
7254 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTCAAGCCCAATGTCGTT
7319 GGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATA-TTGTCACC
65 GGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTTG-CACC
*
7383 TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
129 TT-ATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * * * *
7430 CCAGCCCAATATTGTTGGCCTTGAATCAACATATTAGCACCTTGTCTTCAAGCCCAATGTCATTG
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCCAATGTCGTTG
* * * * *
7495 GCCTTGAATCAGCACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGTATATTGGCACTTT
66 GCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTTGCACCTT
* * *
7560 GTATTTT-AGACCAATGTCGCTGACCTTGAATCAGCATATTGGCA
131 AT-TTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
7604 C
1 C
7605 CTTCATCTTG
Statistics
Matches: 318, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
174 81 0.25
175 154 0.48
176 83 0.26
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (174 bp):
CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCCAATGTCGTTG
GCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTTGCACCTT
ATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:7792 original size:150 final size:149
Alignment explanation
Indices: 7517--7794 Score: 432
Period size: 150 Copynumber: 1.9 Consensus size: 149
7507 CACATTGGCA
** * *
7517 TAAGCCCAATGTCGCTGGCCTTGAATCAGTATATTGGCACTTTGTATTTTAGACCAATGTCGCTG
1 TAAGCCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTGTATTTTAAACCAATGTCGCTG
* *
7582 ACCTTGAATCAGCATATTGGCACCTTCATCTTGAAGACCGATGTCGTTGGCCTTGAATCAGCACA
66 ACCTTGAATCAGCAGATTGGCACCTTCATCTTGAAGACCGATATCGTTGGCCTTGAATCAGCACA
7647 TCAGCACCTCAACCATCTT
131 TCAGCACCTCAACCATCTT
* *
7666 TAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTT-TATCTTTAAAACCAATGTCGT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTGTAT-TTT-AAACCAATGTCGC
* * *
7730 TGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
64 TGACCTTGAATCAGCAGATTGGCACCTTCATCTTGAAGACCGATATCGTTGGCCTTGAATCAGCA
7795 TATTGGCATC
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
148 3 0.03
149 42 0.36
150 71 0.61
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (149 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTGTATTTTAAACCAATGTCGCTG
ACCTTGAATCAGCAGATTGGCACCTTCATCTTGAAGACCGATATCGTTGGCCTTGAATCAGCACA
TCAGCACCTCAACCATCTT
Found at i:7867 original size:98 final size:97
Alignment explanation
Indices: 7522--7907 Score: 326
Period size: 101 Copynumber: 3.9 Consensus size: 97
7512 TGGCATAAGC
** * ** * * * *
7522 CCAATGTCGCTGGCCTTGAATCAGTATATTGGCACTTTGTATTTTAGACCAATGTCGCTGACCTT
1 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTT
* * * * *
7587 GAATCAGCATATTGGCACCTTCATCTTGAAGA
66 GAATCAGCATATTGGCATCTTTAACTTTAAAA
* * * ** *
7619 CCGATGTCGTTGGCCTTGAATCAGCACATCAGCACCTCAACCATCTTTAAGTCCAATGTCGCTGG
1 CCAATGTCGCTGGCCTTGAATCAACACATTGGCA-CT---TCATCTTTAAGTCCAATGTCGCTGG
* * *
7684 CCTTGAATCAACATATTGGCACCTTTATCTTTAAAA
62 CCTTGAATCAGCATATTGGCATCTTTAACTTTAAAA
* * * * * *
7720 CCAATGTCGTTGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAACACATTGGCA-CTTCATCTTTAAGTCCAATGTCGCTGGCCT
* **
7785 TGAATCAGCATATTGGCATCTTTAACATTCCTCAGC
65 TGAATCAGCATATTGGCATCTTTAAC-TT--TAAAA
** * * * *
7821 CCAATGTCGCT-GCCTTGTCTCAACACATTGGCA-TTCTTCTTCAAGTCTAATGTCGCTGGCCAT
1 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTT
*
7884 GAATCAGCATATTGTCATTCTTTA
66 GAATCAGCATATTGGCA-TCTTTA
7908 CATCTTTGAG
Statistics
Matches: 237, Mismatches: 44, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
97 28 0.12
98 88 0.37
99 8 0.03
100 18 0.08
101 95 0.40
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (97 bp):
CCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTCATCTTTAAGTCCAATGTCGCTGGCCTT
GAATCAGCATATTGGCATCTTTAACTTTAAAA
Found at i:7914 original size:150 final size:149
Alignment explanation
Indices: 7517--7897 Score: 421
Period size: 150 Copynumber: 2.6 Consensus size: 149
7507 CACATTGGCA
** * * * ** *
7517 TAAGCCCAATGTCGCTGGCCTTGAATCAGTATATTGGCACTTTGTATTTTAGACCAATGTCGCTG
1 TAAGCCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTTATCTTCAAAACCAATGTCGCTG
* * *
7582 ACCTTGAATCAGCATATTGGCACCTTCATCTTGAAGACCGATGTCGTTGGCCTTGAATCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATATCGTTGGCCTTGAATCAGCACA
*
7647 TCAGCACCTCAACCATCTT
131 TCAGCACCTCAACCATCTC
* * * *
7666 TAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAAACCAATGTCGTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAACACATTGGCA-CTTTATCTTCAAAACCAATGTCGCT
* * *
7731 GGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCAT
65 GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATATCGTTGGCCTTGAATCAGCAC
** * *
7796 ATTGGCATCTTTAA-CAT-TCC
130 ATCAGCA-CCTCAACCATCT-C
* ** ** *
7816 TCAGCCCAATGTCGCT-GCCTTGTCTCAACACATTGGCA-TTCT-TCTTCAAGTCTAATGTCGCT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTT-TATCTTCAAAACCAATGTCGCT
*
7878 GGCCATGAATCAGCATATTG
65 GGCCTTGAATCAGCATATTG
7898 TCATTCTTTA
Statistics
Matches: 197, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
147 35 0.18
148 1 0.01
149 56 0.28
150 101 0.51
151 4 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (149 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTTATCTTCAAAACCAATGTCGCTG
GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATATCGTTGGCCTTGAATCAGCACA
TCAGCACCTCAACCATCTC
Found at i:12723 original size:13 final size:13
Alignment explanation
Indices: 12705--12730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12695 TACACCAAGT
12705 ATGTATCGATACA
1 ATGTATCGATACA
12718 ATGTATCGATACA
1 ATGTATCGATACA
12731 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:13252 original size:34 final size:35
Alignment explanation
Indices: 13189--13255 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
13179 CTAAGTGATT
13189 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
13225 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
13256 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:16381 original size:13 final size:13
Alignment explanation
Indices: 16363--16387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16353 TTTTTCAGAT
16363 TGTATCGATACAA
1 TGTATCGATACAA
16376 TGTATCGATACA
1 TGTATCGATACA
16388 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18136 original size:13 final size:13
Alignment explanation
Indices: 18118--18143 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18108 TACACCAAGT
18118 ATGTATCGATACA
1 ATGTATCGATACA
18131 ATGTATCGATACA
1 ATGTATCGATACA
18144 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18665 original size:34 final size:35
Alignment explanation
Indices: 18602--18668 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
18592 CTAAGTGATT
18602 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
18638 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
18669 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:20578 original size:21 final size:21
Alignment explanation
Indices: 20554--20611 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
20544 TTTATTAGTT
*
20554 AACTCA-TCATTTTCATTTTGC
1 AACTCATTCATTTTC-TTTTCC
20575 AACTCATTTC-TTTTCTTTTCC
1 AACTCA-TTCATTTTCTTTTCC
20596 AACTCATTCATTTTCT
1 AACTCATTCATTTTCT
20612 CCTCTAGTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.09
21 23 0.70
22 5 0.15
23 2 0.06
ACGTcount: A:0.21, C:0.26, G:0.02, T:0.52
Consensus pattern (21 bp):
AACTCATTCATTTTCTTTTCC
Found at i:21106 original size:21 final size:21
Alignment explanation
Indices: 21052--21107 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
21042 AGCCATTTCT
* *
21052 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCACCCTCTTGA
21073 TCATCTTCATCACCCTCTTGA
1 TCATCTTCATCACCCTCTTGA
21094 TCATCTTCATCACC
1 TCATCTTCATCACC
21108 ATCATCTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.36, G:0.04, T:0.39
Consensus pattern (21 bp):
TCATCTTCATCACCCTCTTGA
Found at i:24737 original size:19 final size:19
Alignment explanation
Indices: 24713--24780 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 19
24703 AATTCAACAA
*
24713 TTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
*
24732 TTTGTATTGATAC--AA--
1 TTTGTATCGATACATAAGT
24747 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
24764 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
24781 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 28 0.67
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:24757 original size:32 final size:32
Alignment explanation
Indices: 24715--24777 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
24705 TTCAACAATT
* * *
24715 TGTATTGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
24747 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
24778 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:24838 original size:13 final size:13
Alignment explanation
Indices: 24820--24845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24810 CATTTTTCTG
24820 TGTATCGATACAT
1 TGTATCGATACAT
24833 TGTATCGATACAT
1 TGTATCGATACAT
24846 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:24842 original size:33 final size:33
Alignment explanation
Indices: 24800--24866 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
24790 GCCAAGAAAA
***
24800 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
24833 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
24866 T
1 T
24867 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:27339 original size:54 final size:50
Alignment explanation
Indices: 27215--27603 Score: 200
Period size: 51 Copynumber: 7.4 Consensus size: 50
27205 CTCAATTCTC
* * * * *
27215 CACAATCGGGAATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
* *
27265 CTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC---AAAACA-CAAATTTT
* * * ***
27320 CACAATCGGGGATACTCCAACCCCG-TTAATCATCAGGGATACTCC--AACCCTGTTATTT
1 CACAATCGGGGATACTCCAACTCCGATT--T--T-----AT-TTCCAAAACACAAAT-TTT
* * * * ** *
27378 C-CGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CAAATTTT
* * * * *
27426 CATAATCGGGGATACTCCAAC-CCAGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACAC-AAATTTT
* * * *
27477 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTT
1 -CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-AAATTTT
* *
27529 C-CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 CAC---AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACA-CAAATTTT
*
27583 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
27604 CTCGTTATCT
Statistics
Matches: 265, Mismatches: 41, Indels: 64
0.72 0.11 0.17
Matches are distributed among these distances:
46 3 0.01
47 2 0.01
48 6 0.02
49 3 0.01
50 4 0.02
51 64 0.24
52 62 0.23
53 34 0.13
54 40 0.15
55 29 0.11
56 1 0.00
57 5 0.02
58 7 0.03
62 2 0.01
63 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
Found at i:27410 original size:31 final size:28
Alignment explanation
Indices: 27327--27399 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 28
27317 TTTCACAATC
*
27327 GGGGATACTCCAACCCCGTTA-ATCATC-A
1 GGGGATACTCCAACCCCGTTATTTC--CGA
*
27355 -GGGATACTCCAACCCTGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
27382 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
27400 ACTTTATTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:27561 original size:53 final size:53
Alignment explanation
Indices: 27213--27604 Score: 249
Period size: 52 Copynumber: 7.5 Consensus size: 53
27203 TTCTCAATTC
* * * * * *
27213 TCCACAATCGGGAATATTCCAACTCCGATTTTATTTTC-AAGACACTAA-TTT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTT
* * * * *
27264 TCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAAACACCAAATTT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAAACACTAATTTT
* * * * *
27319 T-CACAATCGGGGATACTCCAACCCCG--TTAATCAT-CAGGGATACTCCAACCCT-GTTATT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTAT-TTCCA---A-A----AACACTAATT-TT
* * * * *
27377 TCC--GA--GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTT
* * * *
27425 T-CATAATCGGGGATACTCCAACCCAGGTTTTA-TTGCTAAAACACTAATTTT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTT
* * *
27476 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTT
* * * *
27528 TCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT
1 TCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTT
* *
27582 T-CACAATCGAGGATACTCCAACC
1 TCCATAATCGGGGATACTCCAACC
27605 TCGTTATCTC
Statistics
Matches: 266, Mismatches: 47, Indels: 55
0.72 0.13 0.15
Matches are distributed among these distances:
47 1 0.00
48 6 0.02
49 3 0.01
50 4 0.02
51 65 0.24
52 69 0.26
53 37 0.14
54 43 0.16
55 22 0.08
56 1 0.00
57 7 0.03
58 7 0.03
59 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTT
Found at i:27596 original size:105 final size:103
Alignment explanation
Indices: 27384--27604 Score: 275
Period size: 105 Copynumber: 2.1 Consensus size: 103
27374 ATTTCCGAGG
* * *
27384 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCATAATCGGGGATACTCCAACCC
* * * * *
27449 AGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGG
66 AGATTTTATTCCAAAAACACCAATTTTTCCACAATCGA
** * *
27487 GGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCCTTTAATCGGGGATACTCCAAC
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTT-C-ATAATCGGGGATACTCCAAC
*
27552 TCC-GATTTTATTTCCAAAAATACCAATTTTT-CACAATCGA
64 -CCAGATTTTA-TTCCAAAAACACCAATTTTTCCACAATCGA
27592 GGATACTCCAACC
1 GGATACTCCAACC
27605 TCGTTATCTC
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
103 36 0.36
104 1 0.01
105 46 0.46
106 18 0.18
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (103 bp):
GGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCATAATCGGGGATACTCCAACCC
AGATTTTATTCCAAAAACACCAATTTTTCCACAATCGA
Found at i:27623 original size:28 final size:28
Alignment explanation
Indices: 27587--27663 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
27577 ATTTTTCACA
* *
27587 ATCGAGGATACTCCAACCTCGTTA-TCTC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
27615 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
27643 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
27664 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 42 0.95
29 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:27695 original size:264 final size:262
Alignment explanation
Indices: 27213--27712 Score: 777
Period size: 264 Copynumber: 1.9 Consensus size: 262
27203 TTCTCAATTC
* * *
27213 TCCACAATCGGGAATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGAATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
* *
27278 TACTCCAACTCTGATTTTATTTCCAAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCC
* *
27343 CGTTAATCATCAGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
130 CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* *
27408 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCAGGTTTTATTGCTAAAACACTAAT
195 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCAGGTTTTATTGCTAAAACACTAAT
27473 TTT
260 TTT
* * *
27476 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCCTTTAATCGGG
1 TCCACAATCGGGAATACTCCAACCCCGATTTTATTTTCAAAACACTAA-TTTT-CTATAATCGGG
* *
27541 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTTTCACAATCGAGGATACTCCAACC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACC
* * * * *
27605 TCGTTATCTCATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAACCCCGGCTTTA
129 CCGTTA-ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTA
*
27670 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCC
193 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCC
27713 CGTTATTTTC
Statistics
Matches: 214, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
263 83 0.39
264 96 0.45
265 35 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (262 bp):
TCCACAATCGGGAATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTC
CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCAGGTTTTATTGCTAAAACACTAATT
TT
Found at i:30124 original size:48 final size:49
Alignment explanation
Indices: 30050--30142 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
30040 GTATCGATAC
*
30050 AATGTATCAATACAAATTTTATTGTATCGATACAATCTA-AAAAACCCA
1 AATGTATCAATACAAATTTTAATGTATCGATACAATCTAGAAAAACCCA
* * *
30098 AATGTATCGATAC-ATTTTTCAATGTATCGATACATTCTAGAAAAA
1 AATGTATCAATACAAATTTT-AATGTATCGATACAATCTAGAAAAA
30143 TCCAGAAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 5 0.13
48 29 0.74
49 5 0.13
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (49 bp):
AATGTATCAATACAAATTTTAATGTATCGATACAATCTAGAAAAACCCA
Found at i:31171 original size:21 final size:20
Alignment explanation
Indices: 31147--31190 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
31137 ATGCAAATTT
31147 TTATTTT-TCTTAGTTAACTCA
1 TTATTTTATCTT-G-TAACTCA
31168 TTATTTTCATCTTGTAACTCA
1 TTATTTT-ATCTTGTAACTCA
31189 TT
1 TT
31191 TATCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 16 0.76
22 1 0.05
23 4 0.19
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATTTTATCTTGTAACTCA
Found at i:31715 original size:19 final size:19
Alignment explanation
Indices: 31691--31794 Score: 157
Period size: 19 Copynumber: 5.8 Consensus size: 19
31681 TTTCAACGAT
31691 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
31710 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
31729 TTGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
31748 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
31762 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
31780 TTGTATCGATACATA
1 TTGTATCGATACATA
31795 TGAAGCTACT
Statistics
Matches: 77, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
13 11 0.14
15 2 0.03
17 2 0.03
19 62 0.81
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:31767 original size:13 final size:13
Alignment explanation
Indices: 31749--31773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31739 ACATAAGTGT
31749 TGTATCGATACAA
1 TGTATCGATACAA
31762 TGTATCGATACA
1 TGTATCGATACA
31774 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:31925 original size:52 final size:52
Alignment explanation
Indices: 31869--31994 Score: 225
Period size: 52 Copynumber: 2.4 Consensus size: 52
31859 CACTGATCTT
* *
31869 TGTATCGATACACACAGGCAAATTTGCCCAGATGTATCGATACATTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
31921 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
31973 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATACAGGCAAA
31995 ATTTCATATT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:34127 original size:24 final size:26
Alignment explanation
Indices: 34100--34153 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
34090 TCAAAATTTT
34100 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
34124 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
34151 ATT
1 ATT
34154 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:36424 original size:80 final size:80
Alignment explanation
Indices: 36254--36415 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
36244 GGTTCTGATG
* *
36254 GAAAATTAAAACTTTGAAACAAGTGTGATAAAAATAAATCGAATAATGAAGAGAGTAAAGGTAAG
1 GAAAATTAAAACTTTGAAACAAGTGTGATAAAAACAAATCGAATAATGAAGAGAATAAAGGTAAG
36319 AGAGATCAAACACGA
66 AGAGATCAAACACGA
36334 GAAAATTAAAACTTTGAAACAAGTGTGATAAAAACAAATCGAATAATGAAGAGAATAAAGGTAAG
1 GAAAATTAAAACTTTGAAACAAGTGTGATAAAAACAAATCGAATAATGAAGAGAATAAAGGTAAG
36399 AGAGATCAAACACGA
66 AGAGATCAAACACGA
36414 GA
1 GA
36416 TTTATAAAAG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.54, C:0.08, G:0.20, T:0.18
Consensus pattern (80 bp):
GAAAATTAAAACTTTGAAACAAGTGTGATAAAAACAAATCGAATAATGAAGAGAATAAAGGTAAG
AGAGATCAAACACGA
Found at i:36571 original size:36 final size:35
Alignment explanation
Indices: 36519--36604 Score: 113
Period size: 34 Copynumber: 2.5 Consensus size: 35
36509 GTTACCTTTG
* *
36519 AGGCTAAGGTATAACCTTACAACCCTATCTTTTCA-T
1 AGGCTAAGATAGAACCTT-C-ACCCTATCTTTTCACT
*
36555 AGGCTAAGATAGAACCTTCTCCCTATCTTTTCACT
1 AGGCTAAGATAGAACCTTCACCCTATCTTTTCACT
36590 A-GCTAAGATAGAACC
1 AGGCTAAGATAGAACC
36605 CCTTCCTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
34 27 0.59
35 3 0.07
36 16 0.35
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (35 bp):
AGGCTAAGATAGAACCTTCACCCTATCTTTTCACT
Found at i:36584 original size:34 final size:35
Alignment explanation
Indices: 36541--36707 Score: 154
Period size: 34 Copynumber: 4.9 Consensus size: 35
36531 AACCTTACAA
* *
36541 CCCTATCTTTTCATAGGCTAAGATAGAACCTTC-T
1 CCCTATCTTTTCATAAGCTAAGATAGAACCTCCTT
36575 CCCTATCTTTTCACT-AGCTAAGATAGAACC-CCTT
1 CCCTATCTTTTCA-TAAGCTAAGATAGAACCTCCTT
* * * *
36609 CCTTATCTTTTTCAAAAGCTTAGAT-TAA--TCC-T
1 CCCTATC-TTTTCATAAGCTAAGATAGAACCTCCTT
*
36641 CCCTATCTTTTCACAAGCTAAGATAGAACCT-CTT
1 CCCTATCTTTTCATAAGCTAAGATAGAACCTCCTT
* *
36675 CCCTATCTTTT-TTAGAGGCTAAGATATAACCTC
1 CCCTATCTTTTCATA-A-GCTAAGATAGAACCTC
36708 TCAATCACTT
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
31 15 0.14
32 9 0.08
33 5 0.05
34 50 0.46
35 29 0.27
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.36
Consensus pattern (35 bp):
CCCTATCTTTTCATAAGCTAAGATAGAACCTCCTT
Found at i:38135 original size:40 final size:40
Alignment explanation
Indices: 38065--38141 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
38055 AATATTAACG
* *
38065 TAATAATATAATTTAAAAAATATCAATATAATGATAATCC
1 TAATAATATAATTAAAAAAATATCAATATAATAATAATCC
* *
38105 TAATAATATTATTAAAAAAATAAT-ATTATAATAATAA
1 TAATAATATAATTAAAAAAAT-ATCAATATAATAATAA
38142 CAGTAAGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (40 bp):
TAATAATATAATTAAAAAAATATCAATATAATAATAATCC
Found at i:38329 original size:29 final size:29
Alignment explanation
Indices: 38297--38363 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
38287 TTTTCATGAA
38297 TTAAAATTATAGTATATCGATAATTTATT
1 TTAAAATTATAGTATATCGATAATTTATT
* * *
38326 TT-AAATTAATATTATTTTGATAATTTATT
1 TTAAAATT-ATAGTATATCGATAATTTATT
*
38355 TAAAAATTA
1 TTAAAATTA
38364 AAAACACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 5 0.16
29 22 0.69
30 5 0.16
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TTAAAATTATAGTATATCGATAATTTATT
Found at i:40649 original size:16 final size:16
Alignment explanation
Indices: 40621--40655 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
40611 TAAAAATTTT
40621 AAAATAAAAAAATA-A
1 AAAATAAAAAAATACA
40636 AAAATAAAAGAAATACA
1 AAAATAAAA-AAATACA
40653 AAA
1 AAA
40656 GGTTATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAATAAAAAAATACA
Found at i:40693 original size:6 final size:6
Alignment explanation
Indices: 40676--40706 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
40666 TTAAATGAAA
*
40676 TAATTT TGATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT TAATTT T
40707 TTATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:40919 original size:25 final size:27
Alignment explanation
Indices: 40876--40927 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
40866 ATAAAATTAA
40876 AATTTTTATAATAATAATTAATTATCT
1 AATTTTTATAATAATAATTAATTATCT
* *
40903 AATTTTT-TTATAA-AATTATTTATCT
1 AATTTTTATAATAATAATTAATTATCT
40928 TTTTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 11 0.48
26 5 0.22
27 7 0.30
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
AATTTTTATAATAATAATTAATTATCT
Found at i:41115 original size:3 final size:3
Alignment explanation
Indices: 41101--41138 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
41091 GAGGATAATT
*
41101 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
41139 GGTGATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:41417 original size:15 final size:15
Alignment explanation
Indices: 41390--41418 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41380 TTTCATTTCC
41390 TTTCCTTTCTTTTTT
1 TTTCCTTTCTTTTTT
41405 TTTCCTTT-TTTTTT
1 TTTCCTTTCTTTTTT
41419 CTTTGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCCTTTCTTTTTT
Found at i:41808 original size:39 final size:38
Alignment explanation
Indices: 41738--41838 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 38
41728 AATTTAAAAA
** *
41738 TATTTTAAAAAATAATCTAAAAATATATGATGTTAGTAG
1 TATTTTAAAAAA-AATAAAAAAATATATGATGTAAGTAG
* * *
41777 TATTTTAAGAAAAATAAAAAAATTATTTGATGTAAGTAT
1 TATTTTAAAAAAAATAAAAAAA-TATATGATGTAAGTAG
*
41816 TTTTTTCAAAATAAAATAAAAAA
1 TATTTT-AAAA-AAAATAAAAAA
41839 TGATGTCACA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 8 0.16
39 29 0.57
40 3 0.06
41 11 0.22
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (38 bp):
TATTTTAAAAAAAATAAAAAAATATATGATGTAAGTAG
Found at i:44308 original size:10 final size:10
Alignment explanation
Indices: 44293--44327 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
44283 GGTCCGCCGG
44293 CAAAAAATTC
1 CAAAAAATTC
*
44303 CAAAAATTTC
1 CAAAAAATTC
*
44313 AAAAAAATTC
1 CAAAAAATTC
44323 CAAAA
1 CAAAA
44328 TGGATGCCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (10 bp):
CAAAAAATTC
Found at i:44476 original size:15 final size:14
Alignment explanation
Indices: 44447--44481 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
44437 AATATAATAA
44447 ATATATTAAATTATT
1 ATAT-TTAAATTATT
44462 ATATTTAAATATATT
1 ATATTTAAAT-TATT
44477 ATATT
1 ATATT
44482 ATATTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATTTAAATTATT
Found at i:44492 original size:9 final size:9
Alignment explanation
Indices: 44457--44542 Score: 50
Period size: 10 Copynumber: 9.0 Consensus size: 9
44447 ATATATTAAA
44457 TTATTATAT
1 TTATTATAT
*
44466 TTAAATATAT
1 TT-ATTATAT
44476 TATATTATAT
1 T-TATTATAT
44486 TTATTATACT
1 TTATTATA-T
*
44496 ATTTTTAATAT
1 -TTATT-ATAT
*
44507 TTATTA-AA
1 TTATTATAT
* *
44515 ATATTTTAT
1 TTATTATAT
44524 TTATTTTATAT
1 TTA--TTATAT
44535 TT-TTATAT
1 TTATTATAT
44543 GATGTTTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 17
0.69 0.12 0.20
Matches are distributed among these distances:
8 11 0.19
9 13 0.22
10 19 0.32
11 13 0.22
12 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
TTATTATAT
Found at i:44508 original size:21 final size:21
Alignment explanation
Indices: 44482--44521 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44472 ATATTATATT
* *
44482 ATATTTATTATACTATTTTTA
1 ATATTTATTAAAATATTTTTA
44503 ATATTTATTAAAATATTTT
1 ATATTTATTAAAATATTTT
44522 ATTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTTATTAAAATATTTTTA
Found at i:44528 original size:21 final size:21
Alignment explanation
Indices: 44457--44529 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
44447 ATATATTAAA
*
44457 TTATTATATTTAAATATATTATAT
1 TTATT-TA-TTAAA-ATATTTTAT
* *
44481 TATATTTATTATACTATTTT-T
1 T-TATTTATTAAAATATTTTAT
*
44502 AATATTTATTAAAATATTTTAT
1 -TTATTTATTAAAATATTTTAT
44524 TTATTT
1 TTATTT
44530 TATATTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
21 22 0.56
22 6 0.15
23 4 0.10
24 3 0.08
25 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTATTAAAATATTTTAT
Found at i:44552 original size:38 final size:38
Alignment explanation
Indices: 44477--44558 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
44467 TAAATATATT
*
44477 ATATTATATTTATTATACTATTTTTAATATTTATTAAA
1 ATATTATATTTATTATACTATTTTTAATATGTATTAAA
* *
44515 ATATTTTATTTATTTTA-TATTTTTATATGATGT-TTAAA
1 ATATTATATTTATTATACTATTTTTA-AT-ATGTATTAAA
44553 AT-TTAT
1 ATATTAT
44559 GATGATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
37 11 0.29
38 24 0.63
39 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (38 bp):
ATATTATATTTATTATACTATTTTTAATATGTATTAAA
Found at i:44568 original size:18 final size:18
Alignment explanation
Indices: 44536--44571 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
44526 ATTTTATATT
44536 TTTATATGATGTTTAAAA
1 TTTATATGATGTTTAAAA
44554 TTTATGATGAT-TTTAAAA
1 TTTAT-ATGATGTTTAAAA
44572 GAAATAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTATATGATGTTTAAAA
Found at i:45064 original size:14 final size:14
Alignment explanation
Indices: 45014--45067 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
45004 ATTTTTAATA
*
45014 AAAATAAAAAATTAT
1 AAAATAAAAAA-AAT
* *
45029 AAAGATAAAATAATT
1 AAA-ATAAAAAAAAT
45044 AAAAATAAAAAAAAT
1 -AAAATAAAAAAAAT
45059 AAAATAAAA
1 AAAATAAAA
45068 GCCCAATCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.28
15 13 0.41
16 10 0.31
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:48286 original size:22 final size:22
Alignment explanation
Indices: 48239--48280 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
48229 TTTAACCTAA
*
48239 TTAATAATAATTTATTATATTT
1 TTAAAAATAATTTATTATATTT
48261 TTAAAAAT-ATTT-TTATATTT
1 TTAAAAATAATTTATTATATTT
48281 ATTTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAAAAATAATTTATTATATTT
Found at i:48306 original size:28 final size:29
Alignment explanation
Indices: 48248--48307 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
48238 ATTAATAATA
**
48248 ATTTATTATATTTTTAAAAATATTTTTAT
1 ATTTATTATATTTTTAAAAATATTTAGAT
*
48277 ATTTATT-TAATTTTTAAAAGT-TTTAGAT
1 ATTTATTAT-ATTTTTAAAAATATTTAGAT
48305 ATT
1 ATT
48308 AAATGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
ATTTATTATATTTTTAAAAATATTTAGAT
Found at i:48560 original size:2 final size:2
Alignment explanation
Indices: 48553--48578 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48543 TATTAATTAA
48553 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
48579 GATAGTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51106 original size:19 final size:17
Alignment explanation
Indices: 51069--51105 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
51059 AATTAACTTT
51069 TATTTCATGATATTATA
1 TATTTCATGATATTATA
* *
51086 TATTTCTTGATATAATA
1 TATTTCATGATATTATA
51103 TAT
1 TAT
51106 AAGTGAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
TATTTCATGATATTATA
Found at i:54697 original size:14 final size:14
Alignment explanation
Indices: 54678--54704 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54668 TTGGGCGAAC
54678 TTCAGACCAATTTG
1 TTCAGACCAATTTG
54692 TTCAGACCAATTT
1 TTCAGACCAATTT
54705 TGTGAGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (14 bp):
TTCAGACCAATTTG
Found at i:58823 original size:12 final size:10
Alignment explanation
Indices: 58805--58909 Score: 63
Period size: 11 Copynumber: 9.6 Consensus size: 10
58795 TAGGCCATCT
58805 TTTTTTCTTAC
1 TTTTTTCTT-C
*
58816 TTTCTTTCTTTT
1 TTT-TTTC-TTC
58828 TTCTTTTCCTTTC
1 TT-TTTT-C-TTC
58841 TTTTTTCTTC
1 TTTTTTCTTC
58851 TTTTTTTCTTTC
1 -TTTTTTC-TTC
58863 TTTTTTC--C
1 TTTTTTCTTC
58871 TTTATTTCTTC
1 TTT-TTTCTTC
*
58882 TTTTTT-TCC
1 TTTTTTCTTC
58891 TTTTCTCTCTTTC
1 TTTT-T-TC-TTC
58904 TTTTTT
1 TTTTTT
58910 GGTTTAAAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
8 4 0.05
9 10 0.13
10 7 0.09
11 24 0.31
12 17 0.22
13 15 0.19
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:58827 original size:20 final size:19
Alignment explanation
Indices: 58802--58909 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
58792 TCCTAGGCCA
58802 TCTTTTTTTCTTACTTTCTT
1 TCTTTTTTTCTTA-TTTCTT
*
58822 TC-TTTTTTCTT-TTCCTT
1 TCTTTTTTTCTTATTTCTT
*
58839 TCTTTTTTCTTCTTTTTTTCTT
1 TC-TTTTT-TTC-TTATTTCTT
*
58861 TCTTTTTTCCTTTATTTC-T
1 TCTTTTTTTC-TTATTTCTT
*
58880 TCTTTTTTTCCTTTTCTCTCTT
1 TCTTTTTTT-CTTAT-T-TCTT
58902 TCTTTTTT
1 TCTTTTTT
58910 GGTTTAAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
17 7 0.10
19 25 0.34
20 16 0.22
21 9 0.12
22 16 0.22
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
TCTTTTTTTCTTATTTCTT
Found at i:58832 original size:11 final size:11
Alignment explanation
Indices: 58805--58888 Score: 73
Period size: 12 Copynumber: 7.4 Consensus size: 11
58795 TAGGCCATCT
*
58805 TTTTTTCTTAC
1 TTTTTTCTTTC
*
58816 TTTCTTTCTTTT
1 TTT-TTTCTTTC
58828 TTCTTTTCCTTTC
1 TT-TTTT-CTTTC
58841 TTTTTTC-TTC
1 TTTTTTCTTTC
58851 TTTTTTTCTTTC
1 -TTTTTTCTTTC
*
58863 TTTTTTCCTTTA
1 TTTTTT-CTTTC
*
58875 TTTCTTCTTT-
1 TTTTTTCTTTC
58885 TTTT
1 TTTT
58889 CCTTTTCTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
10 6 0.10
11 21 0.34
12 27 0.44
13 7 0.11
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:58856 original size:28 final size:29
Alignment explanation
Indices: 58816--58909 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 29
58806 TTTTTCTTAC
58816 TTTCTT-TCTTTTTTCTTT-TCCTTTCTTT
1 TTTCTTCT-TTTTTTCTTTCTCCTTTCTTT
**
58844 TTTCTTCTTTTTTTCTTTCTTTTTTCCTTT
1 TTTCTTCTTTTTTTCTTTCTCCTTT-CTTT
58874 ATTTCTTCTTTTTTTCCTTTTCTCTCTTTCTTT
1 -TTTCTTCTTTTTTT-C-TTTCTC-CTTTCTTT
58907 TTT
1 TTT
58910 GGTTTAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
28 16 0.29
29 5 0.09
30 4 0.07
31 14 0.25
32 4 0.07
33 9 0.16
34 3 0.05
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTCTTCTTTTTTTCTTTCTCCTTTCTTT
Found at i:58859 original size:39 final size:41
Alignment explanation
Indices: 58815--58909 Score: 124
Period size: 39 Copynumber: 2.4 Consensus size: 41
58805 TTTTTTCTTA
* *
58815 CTTTCTTTCTTTTTTCTTTTCCTTTCTT-TTTTCTT-CTTTT
1 CTTTCTTTCTTTTTTCCTTT-ATTTCTTCTTTTCTTCCTTTT
*
58855 -TTTCTTTCTTTTTTCCTTTATTTCTTCTTTTTTTCCTTTT
1 CTTTCTTTCTTTTTTCCTTTATTTCTTCTTTTCTTCCTTTT
*
58895 CTCTCTTTCTTTTTT
1 CTTTCTTTCTTTTTT
58910 GGTTTAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 6 0.12
39 24 0.50
40 5 0.10
41 13 0.27
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (41 bp):
CTTTCTTTCTTTTTTCCTTTATTTCTTCTTTTCTTCCTTTT
Found at i:58879 original size:31 final size:31
Alignment explanation
Indices: 58817--58889 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
58807 TTTTCTTACT
* *
58817 TTCTTTCTTT-TTTCTTTTCCTTTCTTTTTTC
1 TTCTTTTTTTCTTTCTTTT-CTTCCTTTTTTC
58848 TTCTTTTTTTCTTTCTTTT-TTCCTTTATTTC
1 TTCTTTTTTTCTTTCTTTTCTTCCTTT-TTTC
58879 TTCTTTTTTTC
1 TTCTTTTTTTC
58890 CTTTTCTCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 6 0.16
31 24 0.63
32 8 0.21
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (31 bp):
TTCTTTTTTTCTTTCTTTTCTTCCTTTTTTC
Found at i:58889 original size:11 final size:11
Alignment explanation
Indices: 58802--58889 Score: 76
Period size: 11 Copynumber: 7.9 Consensus size: 11
58792 TCCTAGGCCA
58802 TCTTTTTTTCT
1 TCTTTTTTTCT
*
58813 TACTTTCTTTCT
1 T-CTTTTTTTCT
*
58825 TTTTTCTTTTCCT
1 TCTTT-TTTT-CT
58838 T-TCTTTTTTCT
1 TCT-TTTTTTCT
58849 TCTTTTTTTCT
1 TCTTTTTTTCT
58860 T-TCTTTTTTC-
1 TCT-TTTTTTCT
*
58870 -CTTTATTTCT
1 TCTTTTTTTCT
58880 TCTTTTTTTC
1 TCTTTTTTTC
58890 CTTTTCTCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
9 6 0.10
10 2 0.03
11 31 0.49
12 19 0.30
13 5 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:60397 original size:22 final size:21
Alignment explanation
Indices: 60367--60407 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
60357 AGAATTACAG
*
60367 TTTAGCTGAGAGTTCTACTAGT
1 TTTACCTGAG-GTTCTACTAGT
*
60389 TTTACCTGAGTTTCTACTA
1 TTTACCTGAGGTTCTACTA
60408 ATATGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (21 bp):
TTTACCTGAGGTTCTACTAGT
Found at i:71203 original size:85 final size:85
Alignment explanation
Indices: 71012--71457 Score: 423
Period size: 85 Copynumber: 5.2 Consensus size: 85
71002 TCAAGTATCG
* * * * * * * * *
71012 CTTTTTATCCTTTGTTTACTTGACAATTCAATTCC-AGTCGACTTTCT-TATCCTTTGTTTACTT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTTAATCCCGA-TCAACTTT-TGTATCATTTATTTACCT
** * *
71075 ATCAACGTAGTCCCGGGTAAATT
64 ATCGGCTTAGTCCCAGGTAAA-T
* * * * * *
71098 CTTTTTATCCTTTGTTGGCTTGTC-GATTTAA-CCTTGCTCAATTTTTGTATCCTTTATTTGCCT
1 CTTTTTATCCTTTGTTGACTTGTCAG-TTTAATCC-CGATCAACTTTTGTATCATTTATTTACCT
*
71161 ATCGGCTTAGTCCCAAGTAAAT
64 ATCGGCTTAGTCCCAGGTAAAT
* * * * * *
71183 CTTTTTATCCTTTATTGGCTTGTCAGTTTAACCCCGATCAACTTTTATATCCTTTGTTTACCTAT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTTAATCCCGATCAACTTTTGTATCATTTATTTACCTAT
*
71248 CGGCTTAGTCCTAGGTAAAT
66 CGGCTTAGTCCCAGGTAAAT
* *
71268 CTTTTTATCCTTTGTTGACTTGTCAGTTTAATCCCAATCAACTTTTTTATCATTTATTTACCTAT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTTAATCCCGATCAACTTTTGTATCATTTATTTACCTAT
* **
71333 CGACTTAGTCTTAGGTAAAT
66 CGGCTTAGTCCCAGGTAAAT
* * * * * * * * *
71353 CCTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTGGTCAACTTTTGTCTTATTTGTTTACCTGT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTTAATCCCGATCAACTTTTGTATCATTTATTTACCTAT
* *
71418 CAGCTTAGTCCCAGGTAACT
66 CGGCTTAGTCCCAGGTAAAT
*
71438 CTTTTTATCCTCTGTTGACT
1 CTTTTTATCCTTTGTTGACT
71458 AGCTTGCTTG
Statistics
Matches: 300, Mismatches: 54, Indels: 13
0.82 0.15 0.04
Matches are distributed among these distances:
85 237 0.79
86 63 0.21
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (85 bp):
CTTTTTATCCTTTGTTGACTTGTCAGTTTAATCCCGATCAACTTTTGTATCATTTATTTACCTAT
CGGCTTAGTCCCAGGTAAAT
Found at i:72578 original size:166 final size:164
Alignment explanation
Indices: 72327--72872 Score: 425
Period size: 165 Copynumber: 3.3 Consensus size: 164
72317 ATTTTTTAAC
* * ** *
72327 TTTAAAATT-ATTTAAATATTATTATTTAATTATAATTAAATCAGTTTTTCAAAATTCCTTTTAT
1 TTTAAAATTCA-TCAAATATTATTATTTAATCAT-ATTAAATCAGTTTTGAAAAATTCATTTT-T
* * *
72391 TTCATGAGTTTTTCATTTTTCCCTT-AAATTCCTCCT-ATTTTCATAATAC-GAAATTTTTTTCT
63 TTCATGAGTTTTTCATTTTTTCCTTAAAATT-CTCCTGATTTTCA-AATACAG-AATTTTCTACT
** * * *
72453 CCGTATCTTTTTTTGAAAGGATTTTCATTGATTCAAAAAT
125 CCGTAAATGTCTATGAAAGGATTTTCATTGATTCAAAAAT
* *
72493 TTTAATATTCATCAAATATTATTATTTAACTCATATTAAATCAG-TTTGAAAAAATCATTTATTT
1 TTTAAAATTCATCAAATATTATTATTTAA-TCATATTAAATCAGTTTTGAAAAATTCATTT-TTT
* * * * * *
72557 TAATGAGTTTTTCATTTTTTCCTTAAAATTTTCCTGTTTTTGAAATACAGAGTTTTCTACTTCGT
64 TCATGAGTTTTTCATTTTTTCCTTAAAATTCTCCTGATTTTCAAATACAGAATTTTCTACTCCGT
* * * * * *
72622 AAATGTCTATGAGAGGATTTTTATTGGTTTATAATT
129 AAATGTCTATGAAAGGATTTTCATTGATTCAAAAAT
* * * *
72658 TTTAAAATTCATCAAATATCATTATTTAATTCATAGTAAATTAGTTTTGAAAATTTCATTTCTTT
1 TTTAAAATTCATCAAATATTATTATTTAA-TCATATTAAATCAGTTTTGAAAAATTCATTT-TTT
* * * * ** ** * *
72723 TCATAAGTTTTTCA-TTCTTCTTTGAAATTCTTTTG-TTTTCGAAA-ATTGAGTTTTCTACTCCA
64 TCATGAGTTTTTCATTTTTTCCTTAAAATTCTCCTGATTTTC-AAATACAGAATTTTCTACTCCG
* * * ** *
72785 TAAATAT-TTTCAGGGGGATTTTTC-TCGATT--AAAAT
128 TAAATGTCTATGA-AAGGA-TTTTCATTGATTCAAAAAT
* * *
72820 TTTTAAATTCATCAAATATTATTATTAAATTCTTATTAAATCAG-TTTGAAAAA
1 TTTAAAATTCATCAAATATTATTATTTAA-TCATATTAAATCAGTTTTGAAAAA
72873 ATTTAATTTA
Statistics
Matches: 306, Mismatches: 64, Indels: 25
0.77 0.16 0.06
Matches are distributed among these distances:
161 8 0.03
162 41 0.13
163 3 0.01
164 32 0.10
165 142 0.46
166 76 0.25
167 4 0.01
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (164 bp):
TTTAAAATTCATCAAATATTATTATTTAATCATATTAAATCAGTTTTGAAAAATTCATTTTTTTC
ATGAGTTTTTCATTTTTTCCTTAAAATTCTCCTGATTTTCAAATACAGAATTTTCTACTCCGTAA
ATGTCTATGAAAGGATTTTCATTGATTCAAAAAT
Found at i:72670 original size:165 final size:162
Alignment explanation
Indices: 72482--72904 Score: 433
Period size: 165 Copynumber: 2.6 Consensus size: 162
72472 GATTTTCATT
* * *
72482 GATTCAAAAATTTTAATATTCATCAAATATTATTATTTAACTCATATTAAATCAGTTTGAAAAAA
1 GATT-AAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTGAAAAAA
*
72547 TCATTTATTTTAATGAGTTTTTCATTTTTTCCTTAAAATT-TTCCTGTTTTTGAAATACAGAGTT
65 TCATTTATTTT-ATGAGTTTTTCATTTTTTCCTTAAAATTCTT-CTGTTTTCGAAA-ACAGAGTT
* * * * * *
72611 TTCTACTTCGTAAATGTCTATGA-GAGGATTTTTATTG
127 TTCTACTCCATAAATAT-TATCAGGAGGATTTTT-CTC
* * * * * **
72648 GTTTATAATTTTTAAAATTCATCAAATATCATTATTTAATTCATAGTAAATTAGTTTTGAAAATT
1 GATTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAG-TTTGAAAAAA
* * * * * * **
72713 TCATTTCTTTTCATAAGTTTTTCA-TTCTTCTTTGAAATTCTTTTGTTTTCGAAAATTGAGTTTT
65 TCATTTATTTT-ATGAGTTTTTCATTTTTTCCTTAAAATTCTTCTGTTTTCGAAAACAGAGTTTT
* *
72777 CTACTCCATAAATATTTTCAGGGGGATTTTTCTC
129 CTACTCCATAAATATTATCAGGAGGATTTTTCTC
* *
72811 GATTAAAATTTTT-AAATTCATCAAATATTATTATTAAATTCTTATTAAATCAGTTTGAAAAAAT
1 GATTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTGAAAAAA-
* *
72875 TTAATTTATTTTATGAATTTTGT-ATTTTTT
65 -TCATTTATTTTATGAGTTTT-TCATTTTTT
72905 TCATATGATA
Statistics
Matches: 208, Mismatches: 42, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
161 8 0.04
162 43 0.21
163 29 0.14
164 29 0.14
165 65 0.31
166 34 0.16
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (162 bp):
GATTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTGAAAAAAT
CATTTATTTTATGAGTTTTTCATTTTTTCCTTAAAATTCTTCTGTTTTCGAAAACAGAGTTTTCT
ACTCCATAAATATTATCAGGAGGATTTTTCTC
Found at i:74866 original size:156 final size:154
Alignment explanation
Indices: 74529--74903 Score: 425
Period size: 156 Copynumber: 2.4 Consensus size: 154
74519 ATACTTTCAT
* * * * * **
74529 GTCGAAGGTATACCTTAAGGGCATTTTCGTAATTTTTTTAGAATCGAGTCCTAGGTTGTCATCTT
1 GTCGAAGGTATCCCAT-AGGGCATTTTCGTAATTTTTTCAAAATCGAGTCCTAAGTTGTCATCGG
*** * * *
74594 GTTTGCTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCTATCTATAATCCTTTTTAAGTC
65 GCCCGCTTTATGCCAAAAGTGGGTATTTAAGATAGGTTCATCCTATCTATAATCCTTTTTAAGTC
* * * *
74659 CTTTAAGGGTATTGGGCACTTTTAA
130 CTTTAAAGGTATCGAGAACTTTTAA
** * * *
74684 GTCGAATATATCTCTCA-AAGGCATTTTCATAATTTTTTCAAAATCGAGTCTTAAGTTGTCATCG
1 GTCGAAGGTATC-C-CATAGGGCATTTTCGTAATTTTTTCAAAATCGAGTCCTAAGTTGTCATCG
74748 GGCCCGCTTTTATGCCAAAAGTGGGTATTTAAGATAGGTTCATCCCT-TCTATAATCCTTTTTAA
64 GGCCCGC-TTTATGCCAAAAGTGGGTATTTAAGATAGGTTCAT-CCTATCTATAATCCTTTTTAA
74812 GTCCTTTAAAGGTATCGAGAACTTTTAA
127 GTCCTTTAAAGGTATCGAGAACTTTTAA
* * *
74840 GTCGAAGGTATCCCATAGGGTTATTTTCGTAA-TTTTTCTAGAATCAAGTCCT-AGTTTGTCATC
1 GTCGAAGGTATCCCATAGGG-CATTTTCGTAATTTTTTC-AAAATCGAGTCCTAAG-TTGTCATC
74903 G
63 G
74904 AGTCGCTTCT
Statistics
Matches: 182, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
154 2 0.01
155 64 0.35
156 112 0.62
157 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (154 bp):
GTCGAAGGTATCCCATAGGGCATTTTCGTAATTTTTTCAAAATCGAGTCCTAAGTTGTCATCGGG
CCCGCTTTATGCCAAAAGTGGGTATTTAAGATAGGTTCATCCTATCTATAATCCTTTTTAAGTCC
TTTAAAGGTATCGAGAACTTTTAA
Found at i:75777 original size:23 final size:23
Alignment explanation
Indices: 75725--75777 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
75715 GGTTTTCAAC
75725 ATAAAAAAATAATAATATAAAAA
1 ATAAAAAAATAATAATATAAAAA
* **
75748 ATCAAAAAATAATAATA-AATTA
1 ATAAAAAAATAATAATATAAAAA
75770 ATAAAAAA
1 ATAAAAAA
75778 TCAAAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
ATAAAAAAATAATAATATAAAAA
Found at i:75804 original size:29 final size:28
Alignment explanation
Indices: 75732--75815 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 28
75722 AACATAAAAA
*
75732 AATAAT-AATATAAAAAATCAAAAAA-T
1 AATAATAAATAAAAAAAATCAAAAAATT
75758 AATAATAAATTAATAAAAAATCAAAAAATTT
1 AATAATAAA-TAA-AAAAAATCAAAAAA-TT
*
75789 TATCAA-AAATAAAAAAAAT-AATAAAAT
1 AAT-AATAAATAAAAAAAATCAA-AAAAT
75816 AAAACACAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
26 6 0.12
27 2 0.04
28 5 0.10
29 25 0.51
30 3 0.06
31 6 0.12
32 2 0.04
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (28 bp):
AATAATAAATAAAAAAAATCAAAAAATT
Found at i:76091 original size:30 final size:28
Alignment explanation
Indices: 76030--76096 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 28
76020 CATACATAAA
*
76030 CATTTCATGCTTCATGCATGCATATGAT
1 CATTTCATGCTACATGCATGCATATGAT
* *
76058 CATTTCATGCATACATGCATTTCATATGTT
1 CATTTCATGC-TACATGCA-TGCATATGAT
76088 CATTTCATG
1 CATTTCATG
76097 GCATTTGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 10 0.29
29 7 0.21
30 17 0.50
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (28 bp):
CATTTCATGCTACATGCATGCATATGAT
Found at i:76436 original size:44 final size:44
Alignment explanation
Indices: 76373--76458 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
76363 CAATAGAGAT
76373 GCTGCAACAAATTAACAAATGGCAACAATGATGGATGAGCACTA
1 GCTGCAACAAATTAACAAATGGCAACAATGATGGATGAGCACTA
*
76417 GCTGCAGCAAATTAACAAATGGCAACAATGATGGATGAGCAC
1 GCTGCAACAAATTAACAAATGGCAACAATGATGGATGAGCAC
76459 CAGCAGCACG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (44 bp):
GCTGCAACAAATTAACAAATGGCAACAATGATGGATGAGCACTA
Found at i:76827 original size:35 final size:36
Alignment explanation
Indices: 76760--76827 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 36
76750 GAACTCAAAG
* * *
76760 AAAAAAACCAGTTTCTAGTAGCATCCAATCCACGAT
1 AAAAAAACCAGCTTCCAGCAGCATCCAATCCACGAT
* *
76796 AAAAAAA-CAGCTTCCAGCAGCCTCCAGTCCAC
1 AAAAAAACCAGCTTCCAGCAGCATCCAATCCAC
76828 AAAAAACCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 20 0.74
36 7 0.26
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.18
Consensus pattern (36 bp):
AAAAAAACCAGCTTCCAGCAGCATCCAATCCACGAT
Found at i:85645 original size:2 final size:2
Alignment explanation
Indices: 85640--85664 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85630 ATATCACTAT
85640 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
85665 TTCTAGGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90361 original size:97 final size:97
Alignment explanation
Indices: 90105--90350 Score: 293
Period size: 97 Copynumber: 2.5 Consensus size: 97
90095 TTTTTGGTTG
* * * * *
90105 AAAAATGAGGCTGGAGTATCC-CTCGAAGGAATGAGGTTGGAGTAT-CTCCAATGATGATAATTT
1 AAAAATAAGGTTGGAGTATCCTCTCGAAAGAATGGGGTTGGAGTATCCT-CAATGATGAAAATTT
* * *
90168 AGGTAAAAATAAGATTTAAATCTTGACGAGTTT
65 AAGCAAAAATAAGATTTAAATCTTGACAAGTTT
* ** * * *
90201 AAAAATAGGGTCAGAGTATCCTCTCAGAAA-AATAGGGTTGGAGTATCCTCGATGATGACAATTT
1 AAAAATAAGGTTGGAGTATCCTCTC-GAAAGAATGGGGTTGGAGTATCCTCAATGATGAAAATTT
90265 AAGCAAAAATAAGATTTAAATCTTGACAAGTTT
65 AAGCAAAAATAAGATTTAAATCTTGACAAGTTT
* *
90298 -AAAATCAAGGTTGGAGTATCCTATCGAAAGAATGGGGTTAGAGTATCCTCAAT
1 AAAAAT-AAGGTTGGAGTATCCTCTCGAAAGAATGGGGTTGGAGTATCCTCAAT
90351 AAATAAAATT
Statistics
Matches: 125, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
96 25 0.20
97 95 0.76
98 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (97 bp):
AAAAATAAGGTTGGAGTATCCTCTCGAAAGAATGGGGTTGGAGTATCCTCAATGATGAAAATTTA
AGCAAAAATAAGATTTAAATCTTGACAAGTTT
Found at i:97099 original size:39 final size:39
Alignment explanation
Indices: 97041--97115 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
97031 CCTACTATTA
*
97041 TTATTATAATATTAATATTTTTTAATAATATTATTAAGG
1 TTATTATAATATCAATATTTTTTAATAATATTATTAAGG
* * *
97080 TTATTATTATATCAGTATTTTTTAATTATATTATTA
1 TTATTATAATATCAATATTTTTTAATAATATTATTA
97116 TGTTGGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (39 bp):
TTATTATAATATCAATATTTTTTAATAATATTATTAAGG
Found at i:97314 original size:37 final size:36
Alignment explanation
Indices: 97273--97388 Score: 114
Period size: 32 Copynumber: 3.2 Consensus size: 36
97263 ATTTGTTTAA
97273 TTTAAAATTTTAGTTTAAGTTGTAATCATCTAATTAT
1 TTTAAAATTTTAGTTT-AGTTGTAATCATCTAATTAT
* * * *
97310 TTTAAAA-TTAAG--GA-TTGTAACCTTCTAATTAT
1 TTTAAAATTTTAGTTTAGTTGTAATCATCTAATTAT
* * *
97342 TTTAAAATTTTAATTTAGATTGTAATCGTTTAATTATT
1 TTTAAAATTTTAGTTTAG-TTGTAATCATCTAATTA-T
97380 TTTAAAATT
1 TTTAAAATT
97389 ATAATTATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
32 23 0.37
33 4 0.06
35 1 0.02
36 4 0.06
37 21 0.33
38 10 0.16
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (36 bp):
TTTAAAATTTTAGTTTAGTTGTAATCATCTAATTAT
Found at i:97542 original size:37 final size:37
Alignment explanation
Indices: 97470--97551 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 37
97460 AATTATAACC
*
97470 TAAATTTTAAAATAATTAGACTATTATAACCTTTAATT
1 TAAATTTAAAAATAATTAGACTATTATAA-CTTTAATT
*
97508 TAAATTTAAAAAATAATTAGGC-ACTTATAA-TTTAATT
1 TAAATTT-AAAAATAATTAGACTA-TTATAACTTTAATT
*
97545 AAAATTT
1 TAAATTT
97552 TAAATTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 13 0.33
38 8 0.21
39 18 0.46
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (37 bp):
TAAATTTAAAAATAATTAGACTATTATAACTTTAATT
Found at i:97559 original size:13 final size:14
Alignment explanation
Indices: 97541--97569 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
97531 CTTATAATTT
97541 AATTAAA-ATTTTA
1 AATTAAATATTTTA
97554 AATTAAATATTTTA
1 AATTAAATATTTTA
97568 AA
1 AA
97570 ATAATAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAATATTTTA
Found at i:97686 original size:16 final size:16
Alignment explanation
Indices: 97665--97700 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
97655 ATATTTATAA
* *
97665 TAATATTATCTTTTCT
1 TAATATAATCTTTTAT
97681 TAATATAATCTTTTAT
1 TAATATAATCTTTTAT
97697 TAAT
1 TAAT
97701 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATATAATCTTTTAT
Found at i:100237 original size:15 final size:14
Alignment explanation
Indices: 100217--100291 Score: 73
Period size: 15 Copynumber: 5.3 Consensus size: 14
100207 TTTTTTTGAT
100217 AAAAAAGAAGAAAA
1 AAAAAAGAAGAAAA
*
100231 GAAAAAAAAAGACAAA
1 -AAAAAAGAAGA-AAA
* *
100247 AAGAAAGGAGAAAA
1 AAAAAAGAAGAAAA
100261 AAAGAAA-AAGAAAA
1 AAA-AAAGAAGAAAA
*
100275 GAAAAA-AAGAAAA
1 AAAAAAGAAGAAAA
100288 AAAA
1 AAAA
100292 TTATATTTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
13 13 0.26
14 13 0.26
15 21 0.42
16 3 0.06
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAGAAAA
Found at i:100264 original size:11 final size:9
Alignment explanation
Indices: 100217--100291 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
100207 TTTTTTTGAT
100217 AAAAAAGAAG
1 AAAAAA-AAG
*
100227 AAAAGAAA-
1 AAAAAAAAG
* *
100235 AAAAAAGAC
1 AAAAAAAAG
100244 AAAAAGAAAGG
1 AAAAA-AAA-G
100255 AGAAAAAAAG
1 A-AAAAAAAG
100265 AAAAAGAAA-
1 AAAAA-AAAG
100274 AGAAAAAAAG
1 A-AAAAAAAG
100284 AAAAAAAA
1 AAAAAAAA
100292 TTATATTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
8 6 0.11
9 22 0.42
10 17 0.32
11 4 0.08
12 4 0.08
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:100265 original size:33 final size:34
Alignment explanation
Indices: 100222--100286 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
100212 TTGATAAAAA
* *
100222 AGAAGAAAAGAAAAA-AAAAGACAAAAAGAAAGG
1 AGAAAAAAAGAAAAAGAAAAGAAAAAAAGAAAGG
100255 AGAAAAAAAGAAAAAGAAAAGAAAAAAAGAAA
1 AGAAAAAAAGAAAAAGAAAAGAAAAAAAGAAA
100287 AAAAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.48
34 15 0.52
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (34 bp):
AGAAAAAAAGAAAAAGAAAAGAAAAAAAGAAAGG
Found at i:100290 original size:8 final size:8
Alignment explanation
Indices: 100217--100290 Score: 60
Period size: 8 Copynumber: 8.8 Consensus size: 8
100207 TTTTTTTGAT
100217 AAAAAAGA
1 AAAAAAGA
*
100225 AGAAAAGAAA
1 A-AAAA-AGA
100235 AAAAAAGA
1 AAAAAAGA
*
100243 CAAAAAG-
1 AAAAAAGA
**
100250 AAAGGAGA
1 AAAAAAGA
100258 AAAAAAGAAA
1 AAAAAAG--A
100268 AAGAAAAGA
1 AA-AAAAGA
100277 AAAAAAGA
1 AAAAAAGA
100285 AAAAAA
1 AAAAAA
100291 ATTATATTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
7 4 0.08
8 26 0.50
9 11 0.21
10 6 0.12
11 5 0.10
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:101257 original size:15 final size:15
Alignment explanation
Indices: 101231--101270 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
101221 AGAAAGATAT
*
101231 AAAGAAATAAAGAAA
1 AAAGAAAAAAAGAAA
**
101246 GGAGAAAAAAAGAAA
1 AAAGAAAAAAAGAAA
101261 AAAGAAAAAA
1 AAAGAAAAAA
101271 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:101735 original size:8 final size:8
Alignment explanation
Indices: 101722--101757 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
101712 AAGGTTGGAA
101722 AAAAAAAG
1 AAAAAAAG
101730 AAAAAAAG
1 AAAAAAAG
101738 -AAAAAAG
1 AAAAAAAG
*
101745 AAAGAAAG
1 AAAAAAAG
101753 AAAAA
1 AAAAA
101758 GAGACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:101743 original size:15 final size:15
Alignment explanation
Indices: 101723--101757 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
101713 AGGTTGGAAA
101723 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
101738 AAAAAAGAAAGAAAG
1 AAAAAAGAAAAAAAG
101753 AAAAA
1 AAAAA
101758 GAGACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:102750 original size:20 final size:19
Alignment explanation
Indices: 102725--102791 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
102715 ATTACAAGCA
102725 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATT-ACC
*
102745 ATGTATCAATAC-A-T---
1 ATGTATCGATACAATTACC
102759 -TGTATCGATACAATATACC
1 ATGTATCGATACAAT-TACC
102778 ATGTATCGATACAA
1 ATGTATCGATACAA
102792 ACAGTGATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
16 1 0.03
18 1 0.03
19 1 0.03
20 24 0.63
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATTACC
Found at i:102768 original size:33 final size:33
Alignment explanation
Indices: 102726--102790 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
102716 TTACAAGCAA
102726 TGTATCGATACAAT-TCACCATGTATCAATACAT
1 TGTATCGATACAATAT-ACCATGTATCAATACAT
*
102759 TGTATCGATACAATATACCATGTATCGATACA
1 TGTATCGATACAATATACCATGTATCAATACA
102791 AACAGTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAATATACCATGTATCAATACAT
Found at i:102845 original size:20 final size:20
Alignment explanation
Indices: 102820--102875 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
102810 CTGCCAGTTT
*
102820 CATGTATCGATATAATTGTC
1 CATGTATCGATACAATTGTC
102840 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
*
102860 TATGTATCGATACAAT
1 CATGTATCGATACAAT
102876 ATATCGATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:111549 original size:33 final size:33
Alignment explanation
Indices: 111506--111570 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
111496 TTACAAGCAA
111506 TGTATCGATACAAT-TCACCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
*
111539 TGTATTGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
111571 AACAGTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:111568 original size:20 final size:19
Alignment explanation
Indices: 111505--111571 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
111495 GTTACAAGCA
111505 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATT-ACC
111525 ATGTATCGATAC-A-T---
1 ATGTATCGATACAATTACC
*
111539 -TGTATTGATACAATGTACC
1 ATGTATCGATACAAT-TACC
111558 ATGTATCGATACAA
1 ATGTATCGATACAA
111572 ACAGTGATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
16 1 0.03
18 1 0.03
19 1 0.03
20 24 0.63
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATTACC
Found at i:111629 original size:20 final size:20
Alignment explanation
Indices: 111604--111654 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
111594 CAATTTCATA
*
111604 TATCGATACAATTGTCCATG
1 TATCGATACAATTATCCATG
*
111624 TATCGATACAATTATCTATG
1 TATCGATACAATTATCCATG
111644 TATCGATACAA
1 TATCGATACAA
111655 AGCATAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACAATTATCCATG
Found at i:112061 original size:22 final size:23
Alignment explanation
Indices: 112033--112105 Score: 89
Period size: 22 Copynumber: 3.2 Consensus size: 23
112023 TTTTTGTATC
112033 ATATTATATTTTAATTATATTTT
1 ATATTATATTTTAATTATATTTT
*
112056 A-ATTATTTTTTAA-TATTATGTTT
1 ATATTATATTTTAATTA-TAT-TTT
*
112079 ATATTATGTTTTAATT-TATTTT
1 ATATTATATTTTAATTATATTTT
112101 ATATT
1 ATATT
112106 TTATATAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 2 0.05
22 22 0.50
23 8 0.18
24 11 0.25
25 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (23 bp):
ATATTATATTTTAATTATATTTT
Found at i:112064 original size:9 final size:11
Alignment explanation
Indices: 112035--112101 Score: 75
Period size: 11 Copynumber: 6.0 Consensus size: 11
112025 TTTGTATCAT
112035 ATTATATTTTA
1 ATTATATTTTA
112046 ATTATATTTTA
1 ATTATATTTTA
*
112057 ATTATTTTTTA
1 ATTATATTTTA
112068 A-TATTATGTTTA
1 ATTA-TAT-TTTA
*
112080 TATTATGTTTTA
1 -ATTATATTTTA
112092 ATT-TATTTTA
1 ATTATATTTTA
112102 TATTTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
10 8 0.17
11 27 0.56
12 8 0.17
13 3 0.06
14 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
ATTATATTTTA
Found at i:112072 original size:35 final size:37
Alignment explanation
Indices: 112019--112100 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 37
112009 ACATGTTCAT
*
112019 ATTATTTTTGTATCATATTATATTT-TAATTATATTTTA
1 ATTATTTTTGTA-CATATTATGTTTAT-ATTATATTTTA
*
112057 ATTATTTTT-TA-ATATTATGTTTATATTATGTTTTA
1 ATTATTTTTGTACATATTATGTTTATATTATATTTTA
112092 ATTTATTTT
1 A-TTATTTT
112101 ATATTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 21 0.52
36 8 0.20
37 2 0.05
38 9 0.22
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (37 bp):
ATTATTTTTGTACATATTATGTTTATATTATATTTTA
Found at i:112135 original size:28 final size:26
Alignment explanation
Indices: 112103--112174 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 26
112093 TTTATTTTAT
* *
112103 ATTTTATATAAATTTTTTATATGATTAA
1 ATTTTATATAAATTTTTTAT-TAAAT-A
*
112131 ATTTTAACTTTAAATTTTTTATTAAATA
1 ATTTT-A-TATAAATTTTTTATTAAATA
*
112159 ATTTTAAATAAATTTT
1 ATTTTATATAAATTTT
112175 ATTAATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 8 0.22
27 1 0.03
28 11 0.30
29 4 0.11
30 13 0.35
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (26 bp):
ATTTTATATAAATTTTTTATTAAATA
Found at i:112684 original size:25 final size:24
Alignment explanation
Indices: 112625--112685 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
112615 ATGTTATGTG
*
112625 TATATTATTTTTATATAATGTTTA
1 TATATTATTTTTAAATAATGTTTA
* * *
112649 AATATTTTTTTATAAATATTGTATT-
1 TATATTATTTT-TAAATAATGT-TTA
112674 TATATTATTTTT
1 TATATTATTTTT
112686 TATATCGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 10 0.34
25 17 0.59
26 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (24 bp):
TATATTATTTTTAAATAATGTTTA
Found at i:112909 original size:16 final size:16
Alignment explanation
Indices: 112878--112942 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 16
112868 TTTAATATTT
*
112878 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
112895 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
*
112910 ATAAAATT-TATTTAA
1 ATAAAATTATAATTAA
*
112925 A-AATA-TATAA-TAA
1 ATAAAATTATAATTAA
112938 ATAAA
1 ATAAA
112943 TTTAAAGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.12
14 11 0.28
15 11 0.28
16 7 0.17
17 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:113218 original size:20 final size:20
Alignment explanation
Indices: 113193--113232 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
113183 AGAAAAAAAG
113193 AAAAAAGAAAAAAATTTATA
1 AAAAAAGAAAAAAATTTATA
* *
113213 AAAAAAGGAAAAATTTTATA
1 AAAAAAGAAAAAAATTTATA
113233 TGTTTGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAAAAGAAAAAAATTTATA
Found at i:113225 original size:8 final size:7
Alignment explanation
Indices: 113148--113205 Score: 80
Period size: 7 Copynumber: 7.9 Consensus size: 7
113138 TTTACATGAT
113148 AAAAAAG
1 AAAAAAG
113155 AAAAAAG
1 AAAAAAG
113162 AAAAAAG
1 AAAAAAG
113169 AAAAAAAGG
1 -AAAAAA-G
*
113178 AAAGAAG
1 AAAAAAG
113185 AAAAAAAG
1 -AAAAAAG
113193 AAAAAAG
1 AAAAAAG
113200 AAAAAA
1 AAAAAA
113206 ATTTATAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 28 0.61
8 17 0.37
9 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:113449 original size:28 final size:27
Alignment explanation
Indices: 113418--113476 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
113408 TTATATAATA
113418 TTTATA-AATATTT-TTTTATATTTGTAT
1 TTTATATAATATTTATTTT-TA-TTGTAT
*
113445 GTTTATATCATATTTATTTTTATTGTAT
1 -TTTATATAATATTTATTTTTATTGTAT
113473 TTTA
1 TTTA
113477 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.14
28 12 0.43
29 8 0.29
30 4 0.14
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTATATAATATTTATTTTTATTGTAT
Found at i:113622 original size:21 final size:21
Alignment explanation
Indices: 113598--113639 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
113588 TATTCATATC
113598 ATATTCAT-ATTATTTTTTATT
1 ATATT-ATAATTATTTTTTATT
*
113619 ATATTTTAATTATTTTTTATT
1 ATATTATAATTATTTTTTATT
113640 TATGTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
ATATTATAATTATTTTTTATT
Found at i:113642 original size:11 final size:10
Alignment explanation
Indices: 113605--113639 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
113595 ATCATATTCA
113605 TATTATTTTT
1 TATTATTTTT
113615 TATTATATTTT
1 TATTAT-TTTT
*
113626 AATTATTTTT
1 TATTATTTTT
113636 TATT
1 TATT
113640 TATGTTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTATTTTT
Found at i:114353 original size:15 final size:15
Alignment explanation
Indices: 114313--114374 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
114303 AATTTTAACT
*
114313 TTAAA-TTTAATT-A
1 TTAAATTTTATTTAA
*
114326 TTAAATATT-TTTAA
1 TTAAATTTTATTTAA
*
114340 ATAAATTTTATTT-A
1 TTAAATTTTATTTAA
114354 TTATAATTTTATTTAA
1 TTA-AATTTTATTTAA
114370 TTAAA
1 TTAAA
114375 AATCTTATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
13 7 0.18
14 13 0.33
15 15 0.38
16 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAATTTTATTTAA
Found at i:114579 original size:17 final size:18
Alignment explanation
Indices: 114559--114594 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
114549 TGTTAAAACA
*
114559 AAAAGAAA-GTAAAAAAT
1 AAAAGAAATATAAAAAAT
114576 AAAAGAAATATAAAAAAT
1 AAAAGAAATATAAAAAAT
114594 A
1 A
114595 TAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (18 bp):
AAAAGAAATATAAAAAAT
Found at i:114579 original size:18 final size:19
Alignment explanation
Indices: 114553--114594 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
114543 TGAAAATGTT
* *
114553 AAAACAAAAAGAAA-GTAA
1 AAAATAAAAAGAAATATAA
114571 AAAAT-AAAAGAAATATAA
1 AAAATAAAAAGAAATATAA
114589 AAAATA
1 AAAATA
114595 TAATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATAAAAAGAAATATAA
Found at i:115402 original size:24 final size:23
Alignment explanation
Indices: 115375--115419 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
115365 TTTCTTTGTT
*
115375 TTAGAAAATTTAAAAAAAAAAATC
1 TTAG-AAATTAAAAAAAAAAAATC
*
115399 TTAGGAATTAAAAAAAAAAAA
1 TTAGAAATTAAAAAAAAAAAA
115420 AGAAATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (23 bp):
TTAGAAATTAAAAAAAAAAAATC
Found at i:115750 original size:31 final size:31
Alignment explanation
Indices: 115706--115773 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
115696 TAAATAATTT
*
115706 AAAAATATATGATGTTAGTAGTA-TTTAAAA
1 AAAAATATATGATGTAAGTAGTATTTTAAAA
* *
115736 AAAAACTATTTGATGTAAGTATTATTTTAAAA
1 AAAAA-TATATGATGTAAGTAGTATTTTAAAA
*
115768 TAAAAT
1 AAAAAT
115774 GAAAAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 5 0.16
31 16 0.50
32 11 0.34
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.38
Consensus pattern (31 bp):
AAAAATATATGATGTAAGTAGTATTTTAAAA
Found at i:117621 original size:17 final size:19
Alignment explanation
Indices: 117581--117638 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 19
117571 TGATTGTTAA
117581 ATAAA-ATATGTAATTTAT
1 ATAAATATATGTAATTTAT
*
117599 ATAAATATATTTAATTT-T
1 ATAAATATATGTAATTTAT
* *
117617 A-AAAT-TTTGTAATATAT
1 ATAAATATATGTAATTTAT
117634 ATAAA
1 ATAAA
117639 GGATTATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
18 10 0.30
19 10 0.30
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATAAATATATGTAATTTAT
Found at i:117629 original size:229 final size:226
Alignment explanation
Indices: 117233--117693 Score: 660
Period size: 229 Copynumber: 2.0 Consensus size: 226
117223 GAAACCGACA
* * *
117233 AAGTATTTCAATCTCGCACGTGATATCTCAATTATAAAGATAAGACATACATCATTGAAGCATTC
1 AAGTATTTCAATCTCACACGGGATATCTCAATTATAAAGATAAGACATACATCATTAAAGCATTC
* * *
117298 AACTAGATAAGGATTGCTTAATAATTATTTCATATGGATTTACATGTTTGTTAAATAAAATATAT
66 AACTAGATAAGGATTGCTTAATAATTATTTCATATGAATTTAAATGATTGTTAAATAAAATATAT
*
117363 AATATATATAAATATATTTAATTTTAAAATTTTGTAATATATATAGAGGATTACATCTTAAATTA
131 AATATATATAAATATATTTAATTTTAAAATTTTGTAATATATATAAAGGATTACATCTTAAATTA
*
117428 TATTTAAATATGTATA-GTATATTTA-TATT
196 TATTTAAATATGTATACGTATATTAAGTATT
* * *
117457 AAGTATTTCAATCTCACATGGGATATCTGAATTATAAAGATGAGACATACAATCATTAAAGCATT
1 AAGTATTTCAATCTCACACGGGATATCTCAATTATAAAGATAAGACATAC-ATCATTAAAGCATT
* * *
117522 TAACCAGATAAGATACGGATTG-TCT-ATAATTATTTCATTTGAATTTAAATGATTGTTAAATAA
65 CAA-C---T-AGATAAGGATTGCT-TAATAATTATTTCATATGAATTTAAATGATTGTTAAATAA
* * * *
117585 AATATGTAATTTATATAAATATATTTAATTTTAAAATTTTGTAATATATATAAAGGATTATATTT
124 AATATATAATATATATAAATATATTTAATTTTAAAATTTTGTAATATATATAAAGGATTACATCT
*
117650 TAAATTATATTTAAATATGTATACTTATATTAAGTATT
189 TAAATTATATTTAAATATGTATACGTATATTAAGTATT
117688 AAGTAT
1 AAGTAT
117694 GAATATTTAA
Statistics
Matches: 209, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
224 45 0.22
225 15 0.07
226 1 0.00
229 119 0.57
230 19 0.09
231 10 0.05
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (226 bp):
AAGTATTTCAATCTCACACGGGATATCTCAATTATAAAGATAAGACATACATCATTAAAGCATTC
AACTAGATAAGGATTGCTTAATAATTATTTCATATGAATTTAAATGATTGTTAAATAAAATATAT
AATATATATAAATATATTTAATTTTAAAATTTTGTAATATATATAAAGGATTACATCTTAAATTA
TATTTAAATATGTATACGTATATTAAGTATT
Found at i:118730 original size:13 final size:14
Alignment explanation
Indices: 118712--118744 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
118702 ATTTATTATA
*
118712 TTATTTTTAATA-T
1 TTATTTTAAATATT
118725 TTATTTTAAATATT
1 TTATTTTAAATATT
118739 TTATTT
1 TTATTT
118745 ATTTCGCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTTAAATATT
Done.