Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 18 of 47
Found at i:2674481 original size:13 final size:13
Alignment explanation
Indices: 2674463--2674488 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2674453 TACAGCAAGT
2674463 ATGTATCGATACA
1 ATGTATCGATACA
2674476 ATGTATCGATACA
1 ATGTATCGATACA
2674489 CAAAAAATTG
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:2678572 original size:15 final size:15
Alignment explanation
Indices: 2678552--2678582 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2678542 ATAAAATGTC
*
2678552 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2678567 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2678582 C
1 C
2678583 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2680662 original size:19 final size:20
Alignment explanation
Indices: 2680586--2680661 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 20
2680576 ATGTCCAAAA
*
2680586 TGTATCGATACATGTTT-TT
1 TGTATCGATACATCTTTCTT
*
2680605 GTGTATCGATACATCTGGAATTCTA
1 -TGTATCGATACATCT----TTCTT
2680630 TGTATCGATACAT-TTTCTT
1 TGTATCGATACATCTTTCTT
2680649 TGTATCGATACAT
1 TGTATCGATACAT
2680662 TGTATCGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 17 0.35
20 14 0.29
23 1 0.02
24 15 0.31
25 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATCTTTCTT
Found at i:2680666 original size:13 final size:13
Alignment explanation
Indices: 2680648--2680686 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2680638 TACATTTTCT
2680648 TTGTATCGATACA
1 TTGTATCGATACA
2680661 TTGTATCGATACA
1 TTGTATCGATACA
*
2680674 CTGTATCGATACA
1 TTGTATCGATACA
2680687 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2683131 original size:20 final size:20
Alignment explanation
Indices: 2683108--2683180 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2683098 ACAATTCAAA
2683108 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2683128 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2683149 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2683169 GTATCGATACAT
1 GTATCGATACAT
2683181 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2683159 original size:41 final size:42
Alignment explanation
Indices: 2683108--2683202 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
2683098 ACAATTCAAA
*
2683108 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2683149 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2683191 GTATCGATACAT
1 GTATCGATACAT
2683203 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:2683259 original size:13 final size:13
Alignment explanation
Indices: 2683241--2683266 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2683231 TACAGCAAGT
2683241 ATGTATCGATACA
1 ATGTATCGATACA
2683254 ATGTATCGATACA
1 ATGTATCGATACA
2683267 CAAAAAATTG
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:2691159 original size:22 final size:23
Alignment explanation
Indices: 2691131--2691186 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
2691121 TGGACATGTT
2691131 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
2691153 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
2691176 AAAAATGCATG
1 AAAAATGCATG
2691187 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:2692144 original size:20 final size:20
Alignment explanation
Indices: 2692097--2692171 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
2692087 AAAAAGACAT
*
2692097 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2692116 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2692137 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
2692157 AATGCATCGATACAT
1 AATGTATCGATACAT
2692172 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2692166 original size:40 final size:39
Alignment explanation
Indices: 2692094--2692171 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
2692084 GGTAAAAAGA
* * *
2692094 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATACATCGATACATT
* *
2692133 CATACATGTATCGATATATTGAAAAATGCATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATACATCGATACAT
2692172 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATACATCGATACATT
Found at i:2693300 original size:25 final size:25
Alignment explanation
Indices: 2693271--2693321 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2693261 GATATGCTAG
2693271 AAACTCAAAGAGTATTCTTTGATAA
1 AAACTCAAAGAGTATTCTTTGATAA
2693296 AAACTCAAAGAGTATTCTTTGATAA
1 AAACTCAAAGAGTATTCTTTGATAA
2693321 A
1 A
2693322 GATAGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (25 bp):
AAACTCAAAGAGTATTCTTTGATAA
Found at i:2693899 original size:13 final size:13
Alignment explanation
Indices: 2693867--2693899 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2693857 GTAGAAATCG
2693867 AAAAAAA-TAATA
1 AAAAAAATTAATA
2693879 AAAAAAATTAATA
1 AAAAAAATTAATA
2693892 AAAAAAAT
1 AAAAAAAT
2693900 CATGAAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAAAATTAATA
Found at i:2694551 original size:16 final size:17
Alignment explanation
Indices: 2694517--2694557 Score: 66
Period size: 16 Copynumber: 2.4 Consensus size: 17
2694507 TGACAGTAAC
2694517 GTGAAAGAGCACGGCAAT
1 GTGAAAGAGCAC-GCAAT
2694535 GTGAAAGAGCA-GCAAT
1 GTGAAAGAGCACGCAAT
2694551 GTGAAAG
1 GTGAAAG
2694558 CAGCCAGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 12 0.52
18 11 0.48
ACGTcount: A:0.41, C:0.12, G:0.34, T:0.12
Consensus pattern (17 bp):
GTGAAAGAGCACGCAAT
Found at i:2694756 original size:47 final size:47
Alignment explanation
Indices: 2694692--2694856 Score: 158
Period size: 47 Copynumber: 3.6 Consensus size: 47
2694682 CCACGGCAGT
* * * *
2694692 AGCAGCTTTCATGAGCAACCGGCAGCAACTCTAGCTTCCATGGCAGC
1 AGCAGCTTCCACGAGCAACCGACAGCAACTCTAGCTTCCATGGCAAC
* * * * ***
2694739 AGCAGCTTCCACAAGCAATCGGCAGCAACTCCA-CGAGCA---CAAC
1 AGCAGCTTCCACGAGCAACCGACAGCAACTCTAGCTTCCATGGCAAC
* * * *
2694782 AGCAGCTTCCACGAGCAACCGATAGCAACTCTAGCTTCCATAGTAAT
1 AGCAGCTTCCACGAGCAACCGACAGCAACTCTAGCTTCCATGGCAAC
*
2694829 AGTAGCTTCCACGAGCAACCGACAGCAA
1 AGCAGCTTCCACGAGCAACCGACAGCAA
2694857 TTCCACGAGT
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
43 31 0.33
44 3 0.03
46 3 0.03
47 56 0.60
ACGTcount: A:0.32, C:0.33, G:0.20, T:0.16
Consensus pattern (47 bp):
AGCAGCTTCCACGAGCAACCGACAGCAACTCTAGCTTCCATGGCAAC
Found at i:2694765 original size:23 final size:22
Alignment explanation
Indices: 2694735--2694800 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
2694725 GCTTCCATGG
*
2694735 CAGCAGCAGCTTCCACAAGCAA
1 CAGCAGCAGCTTCCACGAGCAA
* *
2694757 TCGGCAGCAAC-TCCACGAGC-A
1 -CAGCAGCAGCTTCCACGAGCAA
*
2694778 CAACAGCAGCTTCCACGAGCAA
1 CAGCAGCAGCTTCCACGAGCAA
2694800 C
1 C
2694801 CGATAGCAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
22 10 0.29
23 8 0.23
ACGTcount: A:0.33, C:0.38, G:0.20, T:0.09
Consensus pattern (22 bp):
CAGCAGCAGCTTCCACGAGCAA
Found at i:2694798 original size:90 final size:90
Alignment explanation
Indices: 2694692--2694865 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 90
2694682 CCACGGCAGT
* * * * *
2694692 AGCAGCTTTCATGAGCAACCGGCAGCAACTCTAGCTTCCATGGCAGCAGCAGCTTCCACAAGCAA
1 AGCAGCTTCCACGAGCAACCGACAGCAACTCTAGCTTCCATAGCAACAGCAGCTTCCACAAGCAA
* *
2694757 TCGGCAGCAACTCCACGAGCACAAC
66 CCGACAGCAACTCCACGAGCACAAC
* * * * *
2694782 AGCAGCTTCCACGAGCAACCGATAGCAACTCTAGCTTCCATAGTAATAGTAGCTTCCACGAGCAA
1 AGCAGCTTCCACGAGCAACCGACAGCAACTCTAGCTTCCATAGCAACAGCAGCTTCCACAAGCAA
*
2694847 CCGACAGCAATTCCACGAG
66 CCGACAGCAACTCCACGAG
2694866 TAACCAGCAG
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (90 bp):
AGCAGCTTCCACGAGCAACCGACAGCAACTCTAGCTTCCATAGCAACAGCAGCTTCCACAAGCAA
CCGACAGCAACTCCACGAGCACAAC
Found at i:2694863 original size:22 final size:22
Alignment explanation
Indices: 2694835--2694889 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2694825 TAATAGTAGC
2694835 TTCCACGAGCAACC-GACAGCAA
1 TTCCACGAGCAACCAG-CAGCAA
*
2694857 TTCCACGAGTAACCAGCAGCAA
1 TTCCACGAGCAACCAGCAGCAA
* *
2694879 CTCCATGAGCA
1 TTCCACGAGCA
2694890 TGACAACAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.13
Consensus pattern (22 bp):
TTCCACGAGCAACCAGCAGCAA
Found at i:2697281 original size:13 final size:13
Alignment explanation
Indices: 2697260--2697294 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2697250 ATAGAGAAGG
2697260 GAACATTTATGTT
1 GAACATTTATGTT
*
2697273 GAACTTTTATGTT
1 GAACATTTATGTT
*
2697286 GTACATTTA
1 GAACATTTA
2697295 GATGTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (13 bp):
GAACATTTATGTT
Found at i:2700447 original size:13 final size:13
Alignment explanation
Indices: 2700426--2700462 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2700416 AATGTTCTAA
2700426 GTATCGATACATT
1 GTATCGATACATT
*
2700439 GTATTGATACATT
1 GTATCGATACATT
2700452 GTATCGATACA
1 GTATCGATACA
2700463 AGGTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2712238 original size:30 final size:29
Alignment explanation
Indices: 2712170--2712253 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 29
2712160 TCTCATCCCA
* * *
2712170 AAAGCTCATGACTTTGTGGCATCCTTCTC
1 AAAGCCCACGACTTAGTGGCATCCTTCTC
*
2712199 AAAGTCCACGACTTAGTGGCATCTCTTCTC
1 AAAGCCCACGACTTAGTGGCATC-CTTCTC
* * *
2712229 TAAGCCCACGACTCAATGGCATCCT
1 AAAGCCCACGACTTAGTGGCATCCT
2712254 GTTCTTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 21 0.46
30 25 0.54
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (29 bp):
AAAGCCCACGACTTAGTGGCATCCTTCTC
Found at i:2712416 original size:66 final size:62
Alignment explanation
Indices: 2712245--2712809 Score: 384
Period size: 66 Copynumber: 8.8 Consensus size: 62
2712235 CACGACTCAA
* * * **
2712245 TGGCATCCTGTTCTTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTAATCAAAGTCCACAACTC
1 TGGCA-CCTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-TTTTCT--TTTAAGTCCACAACTC
*
2712310 A
62 G
** * *
2712311 TGGCACCTTGTTCCCTTTTTAAGTCCACAACTCTATGGCACCATTTCTTATTAAGTCCATAACTT
1 TGGCACCTT-TT-CC-TTTTAAGTCCACAACTCCGTGGCACCTTTTCTT-TTAAGTCCACAAC-T
2712376 CG
61 CG
* * **
2712378 TGGCACCTTTTTCTTTTCAAAGCCCACAACTTTGTGGCACCTTGTTCCCTTTTTAAGTCCACAAC
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCCGTGGCACCTT-TT--C-TTTTAAGTCCACAAC
2712443 TCCG
60 T-CG
* * * * *
2712447 TGGTACCTTTTCCTTGTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCT
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-TTTTCTTTT--AAGTCCACAACTC-
2712512 G
62 G
* * *
2712513 TGGCACCCTTTCTCCTTTTAAGTTCACAACGCCATGGCACC----CTTTTAAGTCCACAACTCCG
1 TGGCA-CCTTT-TCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTAAGTCCACAACT-CG
* *
2712574 TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCT
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCCGTGGCACCTTTT-CTTTTAAGTCCACAACTC-
2712639 G
62 G
* * * *
2712640 TGGCACTTTTTTCCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTC
1 TGGCAC-CTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-TTTTCTTTT--AAGTCCACAACT-
2712705 CG
61 CG
* * ** * * *
2712707 TAGCACCCTTTTACCTTTTAAGTCCATAACTCTATGACACC----CTTTTAAGTTCACAACTCAA
1 TGGCA-CCTTTT-CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTAAGTCCACAACTC-G
* *
2712768 TGGCA-C----CCTTTTAAGTCCACAACTTCGTGGCA-CTTTTTTTTT
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTT
2712810 CCAAAAGCCT
Statistics
Matches: 402, Mismatches: 58, Indels: 87
0.73 0.11 0.16
Matches are distributed among these distances:
53 1 0.00
54 21 0.05
57 4 0.01
59 7 0.02
60 6 0.01
61 48 0.12
62 1 0.00
63 10 0.02
64 8 0.02
65 33 0.08
66 82 0.20
67 74 0.18
68 76 0.19
69 29 0.07
70 2 0.00
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (62 bp):
TGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTAAGTCCACAACTCG
Found at i:2712444 original size:101 final size:97
Alignment explanation
Indices: 2712229--2712764 Score: 593
Period size: 101 Copynumber: 5.4 Consensus size: 97
2712219 ATCTCTTCTC
* * * **
2712229 TAAGCCCACGACTCAATGGCATCCTGTTCTTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTAA
1 TAAGTCCACAACTCTATGGCA-CCT-TTC-TTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTT
* *
2712294 TCAAAGTCCACAACT-CATGGCACCTTGTTCCCTTTT
63 TCAAAGCCCACAACTCCGTGGCACCTT-TTCCC-TTT
*
2712330 TAAGTCCACAACTCTATGGCACCATTTCTTATTAAGTCCATAACTTCGTGGCACCTTTTTCTTTT
1 TAAGTCCACAACTCTATGGCACC-TTTCTT-TTAAGTCCACAACTTCGTGGCACCTTTTTCTTTT
**
2712395 CAAAGCCCACAACTTTGTGGCACCTTGTTCCCTTTT
64 CAAAGCCCACAACTCCGTGGCACCTT-TTCCC-TTT
** * *
2712431 TAAGTCCACAACTCCGTGGTACCTTTTCCTTGTAAGTCCACAACTTCGTGGCACCTTTTTCTTTT
1 TAAGTCCACAACTCTATGGCACC-TTT-CTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTT
* * *
2712496 CAAAGCCCATAACTCTGTGGCACCCTTTCTCCTTT
64 CAAAGCCCACAACTCCGTGGCACCTTTTC-CCTTT
* * * *
2712531 TAAGTTCACAACGCCATGGCACC---CTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCA
1 TAAGTCCACAACTCTATGGCACCTTTCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCA
2712593 AAGCCCACAACTCCGTGGCACCTTTT-CCTTT
66 AAGCCCACAACTCCGTGGCACCTTTTCCCTTT
* * * * *
2712624 TAAGTCCACAACTCTGTGGCACTTTTTTCCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTT
1 TAAGTCCACAACTCTATGGCAC--CTTT-CTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTT
* *
2712689 TCAAAGCCCACAACTCCGTAGCACCCTTTTACCTTT
63 TCAAAGCCCACAACTCCGTGGCA-CCTTTTCCCTTT
* * *
2712725 TAAGTCCATAACTCTATGACACC---CTTTTAAGTTCACAACT
1 TAAGTCCACAACTCTATGGCACCTTTCTTTTAAGTCCACAACT
2712765 CAATGGCACC
Statistics
Matches: 381, Mismatches: 41, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
93 23 0.06
95 75 0.20
99 58 0.15
100 80 0.21
101 142 0.37
102 3 0.01
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (97 bp):
TAAGTCCACAACTCTATGGCACCTTTCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCA
AAGCCCACAACTCCGTGGCACCTTTTCCCTTT
Found at i:2712567 original size:27 final size:27
Alignment explanation
Indices: 2712526--2712585 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
2712516 CACCCTTTCT
*
2712526 CCTTTTAAGTTCACAACGCCATGGCAC
1 CCTTTTAAGTCCACAACGCCATGGCAC
* *
2712553 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACGCCATGGCAC
*
2712580 CTTTTT
1 CCTTTT
2712586 CTTTTCAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACGCCATGGCAC
Found at i:2712715 original size:194 final size:196
Alignment explanation
Indices: 2712262--2712779 Score: 663
Period size: 194 Copynumber: 2.6 Consensus size: 196
2712252 CTGTTCTTTT
** * * *
2712262 TAAGTCCACAACTTCGTGGCACCTTTTTCTAATCAAAGTCCACAACT-CATGGCACCTTGTTC-C
1 TAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCT-TTCTC
* *
2712325 CTTTTTAAGTCCACAACTCTATGGCACCATTTCTTATTAAGTCCATAACTTCGTGGCACCTTTTT
65 C-TTTTAAGTCCACAACTCTATGGCACC----CTT-TTAAGTCCACAACTCCGTGGCACCTTTTT
** *
2712390 CTTTTCAAAGCCCACAACTTTGTGGCACCTTGTTCCCTTTTTAAGTCCACAACTCCGTGGTACCT
124 CTTTTCAAAGCCCACAACTCCGTGGCACCTTGTTCCCTTTTTAAGTCCACAACTCCGTGGCACCT
2712455 TTTCCTTG
189 TTTCCTTG
* *
2712463 TAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCTGTGGCACCCTTTCTCC
1 TAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTCTCC
* * *
2712528 TTTTAAGTTCACAACGCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCA
66 TTTTAAGTCCACAACTCTATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCA
* *
2712593 AAGCCCACAACTCCGTGGCACCTT-TT-CC-TTTTAAGTCCACAACTCTGTGGCACTTTTTTCCT
131 AAGCCCACAACTCCGTGGCACCTTGTTCCCTTTTTAAGTCCACAACTCCGTGGCAC-CTTTTCCT
2712655 T-
195 TG
* * *
2712656 TCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCCTTT-TA
1 T-AAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTCT-
* * * ** *
2712720 CCTTTTAAGTCCATAACTCTATGACACCCTTTTAAGTTCACAACTCAATGGCACCCTTTT
64 CCTTTTAAGTCCACAACTCTATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
2712780 AAGTCCACAA
Statistics
Matches: 281, Mismatches: 31, Indels: 17
0.85 0.09 0.05
Matches are distributed among these distances:
193 25 0.09
194 116 0.41
195 2 0.01
196 56 0.20
197 3 0.01
201 69 0.25
202 10 0.04
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (196 bp):
TAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTCTCC
TTTTAAGTCCACAACTCTATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCA
AAGCCCACAACTCCGTGGCACCTTGTTCCCTTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTT
G
Found at i:2712738 original size:34 final size:32
Alignment explanation
Indices: 2712245--2712738 Score: 408
Period size: 34 Copynumber: 14.9 Consensus size: 32
2712235 CACGACTCAA
* * *
2712245 TGGCATCCTGTTCTTTTTAAGTCCACAACTTCG
1 TGGCA-CCTTTTCCTTTTAAGTCCACAACTCCG
* ** *
2712278 TGGCACCTTTTTCTAATCAAAGTCCACAACT-CA
1 TGGCACCTTTTCCT--TTTAAGTCCACAACTCCG
**
2712311 TGGCACCTTGTTCCCTTTTTAAGTCCACAACTCTA
1 TGGCACCTT-TT-CC-TTTTAAGTCCACAACTCCG
* * *
2712346 TGGCACCATTT-CTTATTAAGTCCATAACTTCG
1 TGGCACCTTTTCCTT-TTAAGTCCACAACTCCG
* * **
2712378 TGGCACCTTTTTCTTTTCAAAGCCCACAACTTTG
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCCG
2712412 TGGCACCTTGTTCCCTTTTTAAGTCCACAACTCCG
1 TGGCACCTT-TT-CC-TTTTAAGTCCACAACTCCG
* * *
2712447 TGGTACCTTTTCCTTGTAAGTCCACAACTTCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCCG
* * * *
2712479 TGGCACCTTTTTCTTTTCAAAGCCCATAACTCTG
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCCG
* * *
2712513 TGGCACCCTTTCTCCTTTTAAGTTCACAACGCCA
1 TGGCA-CCTTT-TCCTTTTAAGTCCACAACTCCG
2712547 TGGCA-C----CCTTTTAAGTCCACAACTCCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCCG
* *
2712574 TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCG
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCCG
*
2712608 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCCG
* * *
2712640 TGGCACTTTTTTCCTTTCAAGTCCACAACTCCA
1 TGGCAC-CTTTTCCTTTTAAGTCCACAACTCCG
* *
2712673 TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCG
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCCG
* *
2712707 TAGCACCCTTTTACCTTTTAAGTCCATAACTC
1 TGGCA-CCTTTT-CCTTTTAAGTCCACAACTC
2712739 TATGACACCC
Statistics
Matches: 371, Mismatches: 61, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
27 23 0.06
28 1 0.00
31 2 0.01
32 96 0.26
33 48 0.13
34 141 0.38
35 43 0.12
36 13 0.04
37 4 0.01
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (32 bp):
TGGCACCTTTTCCTTTTAAGTCCACAACTCCG
Found at i:2712748 original size:34 final size:32
Alignment explanation
Indices: 2712229--2712779 Score: 331
Period size: 34 Copynumber: 16.8 Consensus size: 32
2712219 ATCTCTTCTC
* * * * *
2712229 TAAGCCCACGACTCAATGGCATCCTGTTCTTTT
1 TAAGTCCACAACTCTATGGCA-CCTTTTCCTTT
* * *
2712262 TAAGTCCACAACT-TCGTGGCACCTTTTTCTAATC
1 TAAGTCCACAACTCT-ATGGCACCTTTTCCT--TT
*
2712296 AAAGTCCACAACTC-ATGGCACCTTGTTCCCTTTT
1 TAAGTCCACAACTCTATGGCACCTT-TT-CC-TTT
*
2712330 TAAGTCCACAACTCTATGGCACCATTT-CTTAT
1 TAAGTCCACAACTCTATGGCACCTTTTCCTT-T
* * *
2712362 TAAGTCCATAACT-TCGTGGCACCTTTTTCTTT
1 TAAGTCCACAACTCT-ATGGCACCTTTTCCTTT
* * *
2712394 TCAAAGCCCACAACTTTGTGGCACCTTGTTCCCTTTT
1 T--AAGTCCACAACTCTATGGCACCTT-TT-CC-TTT
** * *
2712431 TAAGTCCACAACTCCGTGGTACCTTTTCCTTG
1 TAAGTCCACAACTCTATGGCACCTTTTCCTTT
* *
2712463 TAAGTCCACAACT-TCGTGGCACCTTTTTCTTT
1 TAAGTCCACAACTCT-ATGGCACCTTTTCCTTT
* * *
2712495 TCAAAGCCCATAACTCTGTGGCACCCTTTCTCCTTT
1 T--AAGTCCACAACTCTATGGCA-CCTTT-TCCTTT
* * *
2712531 TAAGTTCACAACGCCATGGCA-C----CCTTT
1 TAAGTCCACAACTCTATGGCACCTTTTCCTTT
** *
2712558 TAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 TAAGTCCACAACTCTATGGCACCTTTTCCTTT
* **
2712590 TCAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
1 T--AAGTCCACAACTCTATGGCACCTTTTCCTTT
* *
2712624 TAAGTCCACAACTCTGTGGCACTTTTTTCCTTT
1 TAAGTCCACAACTCTATGGCAC-CTTTTCCTTT
* * *
2712657 CAAGTCCACAACTCCATGGCACCTTTTTCTTT
1 TAAGTCCACAACTCTATGGCACCTTTTCCTTT
* ** *
2712689 TCAAAGCCCACAACTCCGTAGCACCCTTTTACCTTT
1 T--AAGTCCACAACTCTATGGCA-CCTTTT-CCTTT
* *
2712725 TAAGTCCATAACTCTATGACA-C----CCTTT
1 TAAGTCCACAACTCTATGGCACCTTTTCCTTT
* *
2712752 TAAGTTCACAACTCAATGGCACCCTTTT
1 TAAGTCCACAACTCTATGGCA-CCTTTT
2712780 AAGTCCACAA
Statistics
Matches: 410, Mismatches: 67, Indels: 82
0.73 0.12 0.15
Matches are distributed among these distances:
27 45 0.11
28 1 0.00
29 1 0.00
31 3 0.01
32 96 0.23
33 58 0.14
34 144 0.35
35 45 0.11
36 13 0.03
37 4 0.01
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (32 bp):
TAAGTCCACAACTCTATGGCACCTTTTCCTTT
Found at i:2712806 original size:27 final size:27
Alignment explanation
Indices: 2712720--2712791 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
2712710 CACCCTTTTA
* * *
2712720 CCTTTTAAGTCCATAACTCTATGACAC
1 CCTTTTAAGTCCACAACTCAATGGCAC
*
2712747 CCTTTTAAGTTCACAACTCAATGGCAC
1 CCTTTTAAGTCCACAACTCAATGGCAC
2712774 CCTTTTAAGTCCACAACT
1 CCTTTTAAGTCCACAACT
2712792 TCGTGGCACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCAATGGCAC
Found at i:2712817 original size:122 final size:121
Alignment explanation
Indices: 2712652--2712877 Score: 289
Period size: 122 Copynumber: 1.9 Consensus size: 121
2712642 GCACTTTTTT
2712652 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCCTT
1 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCA-CCTT
** *
2712717 TTACCTT-TTAAG-TCCATAACTCTATGACACCCTTTTAAGTTCACAACTCAATGGCAC
65 TT--CTTCCAAAGCCCCATAACTCTATGACACCCTTTTAAGTTCACAACTCAATGGCAC
* * * * * *
2712774 CCTTTTAAGTCCACAACTTCGTGGCA-CTTTTT-TTTTCCAAAAGCCTACAACTCCGTGGTACCT
1 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTT-C-AAAGCCCACAACTCCGTAGCACCT
*
2712837 TTTCTTCCAAAGCCCCATAACTCTATGCCACCCTTTTAAGT
64 TTTCTTCCAAAGCCCCATAACTCTATGACACCCTTTTAAGT
2712878 CCATGACTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
119 3 0.03
120 7 0.08
121 39 0.43
122 41 0.46
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.33
Consensus pattern (121 bp):
CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCTTT
TCTTCCAAAGCCCCATAACTCTATGACACCCTTTTAAGTTCACAACTCAATGGCAC
Found at i:2712896 original size:121 final size:121
Alignment explanation
Indices: 2712652--2712880 Score: 286
Period size: 121 Copynumber: 1.9 Consensus size: 121
2712642 GCACTTTTTT
2712652 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCCTT
1 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCCTT
** * *
2712717 TTACCTTTTAAGTCCATAACTCTATGACACCCTTTTAAGTTCACAACTCAATGGCAC
66 TTA-CTTCAAAGCCCATAACTCTATGACACCCTTTTAAGTCCACAACTCAATGGCAC
* * * * * *
2712774 CCTTTTAAGTCCACAACTTCGTGGCA-CTTTTT-TTTTCCAAAAGCCTACAACTCCGTGGTA-CC
1 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTT-C-AAAGCCCACAACTCCGTAGCACCC
*
2712836 TTTT-CTTCCAAAGCCCCATAACTCTATGCCACCCTTTTAAGTCCA
64 TTTTACTT-CAAAG-CCCATAACTCTATGACACCCTTTTAAGTCCA
2712881 TGACTTTGTG
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
119 3 0.03
120 7 0.08
121 41 0.45
122 41 0.45
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.32
Consensus pattern (121 bp):
CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCCTT
TTACTTCAAAGCCCATAACTCTATGACACCCTTTTAAGTCCACAACTCAATGGCAC
Found at i:2713033 original size:43 final size:44
Alignment explanation
Indices: 2712963--2713240 Score: 206
Period size: 43 Copynumber: 6.0 Consensus size: 44
2712953 CATCTACTTA
* * *
2712963 TAAGCCCAATGTCGTTGGCCTTAAATCAGCACATT-GCCACCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCCACCTT
*
2713006 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTACCATGTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGG--CC---ACC---TT
* *
2713058 TAAGCCCAACT-TCGCTGGCCTTGAATCAGCACATTGG-CACCTT
1 TAAGTCCAA-TATCGTTGGCCTTGAATCAGCACATTGGCCACCTT
*
2713101 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCATTTGTCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGC-CA-----C--CTT
* * * *
2713153 TAAGTACAATGTCGTTGGCCTTGACTCAGCACATTAG-CACCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCCACCTT
* * * * * * *
2713196 TAAATCTAATATTGCTGGCCTTGAATTAGTATATTGG-CACCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCCACCTT
2713239 TA
1 TA
2713241 CCATCTTTAA
Statistics
Matches: 189, Mismatches: 26, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
42 1 0.01
43 102 0.54
44 1 0.01
45 3 0.02
46 5 0.03
49 4 0.02
50 3 0.02
52 69 0.37
53 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (44 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCCACCTT
Found at i:2713082 original size:52 final size:52
Alignment explanation
Indices: 2713004--2713287 Score: 174
Period size: 52 Copynumber: 5.8 Consensus size: 52
2712994 CATTGCCACC
* * *
2713004 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTACCATG
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATG
2713056 TTTAAGCCCAACT-TCGCTGGCCTTGAATCAGCACATTGGCACCTTTA--A-G
1 TTTAAGCCCAA-TATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATG
* * * * ** *
2713105 --T----CCAATATCGTTGGCCTTGAATCAGCATATTGGCGCATTTGTCATC
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATG
** * * * *
2713151 TTTAAGTACAATGTCGTTGGCCTTGACTCAGCACATTAGCACCTTT---A--
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATG
* * * * * * *
2713198 ---AA-TCTAATATTGCTGGCCTTGAATTAGTATATTGGCACCTTTACCATC
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATG
* * * * *
2713246 TTTAAGTCCAATGTCGTTGGCCTTGAATTAGCACCTTGGCAC
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
2713288 TCTCTTCATC
Statistics
Matches: 179, Mismatches: 33, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
42 1 0.01
43 63 0.35
44 2 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 2 0.01
50 1 0.01
51 2 0.01
52 103 0.58
53 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (52 bp):
TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATG
Found at i:2713126 original size:95 final size:95
Alignment explanation
Indices: 2712963--2713287 Score: 445
Period size: 95 Copynumber: 3.4 Consensus size: 95
2712953 CATCTACTTA
* *
2712963 TAAGCCCAATGTCGTTGGCCTTAAATCAGCACATTGCCACCTTTAAGTCCAATATCGTTGGCCTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTT
*
2713028 GAATCAGCATATTGGCACCTTTACCATGTT
66 GAATCAGCATATTGGCACCTTTACCATCTT
*
2713058 TAAGCCCAACT-TCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCT
1 TAAGCCCAA-TGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCT
* * **
2713122 TGAATCAGCATATTGGCGCATTTGTCATCTT
65 TGAATCAGCATATTGGCACCTTTACCATCTT
** * * * * * *
2713153 TAAGTACAATGTCGTTGGCCTTGACTCAGCACATTAGCACCTTTAAATCTAATATTGCTGGCCTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTT
* *
2713218 GAATTAGTATATTGGCACCTTTACCATCTT
66 GAATCAGCATATTGGCACCTTTACCATCTT
* * *
2713248 TAAGTCCAATGTCGTTGGCCTTGAATTAGCACCTTGGCAC
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGCAC
2713288 TCTCTTCATC
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
94 1 0.00
95 198 0.99
96 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (95 bp):
TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTT
GAATCAGCATATTGGCACCTTTACCATCTT
Found at i:2719521 original size:16 final size:16
Alignment explanation
Indices: 2719500--2719530 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2719490 TTGATTGGAG
2719500 GGTTCTAAAGGGTTTA
1 GGTTCTAAAGGGTTTA
*
2719516 GGTTCTAAATGGTTT
1 GGTTCTAAAGGGTTT
2719531 TGACACAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (16 bp):
GGTTCTAAAGGGTTTA
Found at i:2723110 original size:30 final size:29
Alignment explanation
Indices: 2723031--2723114 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 29
2723021 TCTCATCCCA
* *
2723031 AAAGCTCACGACTCTGTGGCATCCTTCTC
1 AAAGCCCACGACTCAGTGGCATCCTTCTC
* * *
2723060 AAAGTCCACAACTTAGTGGCATCTCTTCTC
1 AAAGCCCACGACTCAGTGGCATC-CTTCTC
* *
2723090 TAAGCCCACGACTCAATGGCATCCT
1 AAAGCCCACGACTCAGTGGCATCCT
2723115 GTTCTTTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
29 20 0.45
30 24 0.55
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
AAAGCCCACGACTCAGTGGCATCCTTCTC
Found at i:2723164 original size:34 final size:33
Alignment explanation
Indices: 2723116--2723937 Score: 593
Period size: 34 Copynumber: 25.1 Consensus size: 33
2723106 TGGCATCCTG
*
2723116 TTCTTTTTAAGTCCACAACTTCGTGGCACCTTT
1 TTCTTTTCAAGTCCACAACTTCGTGGCACCTTT
** *
2723149 TTCTAATCAATGTCCACAAC-TCATGGCACCTTGT
1 TTCTTTTCAA-GTCCACAACTTCGTGGCACCTT-T
* * * *
2723183 TCCCTTTTTAAGTCCACAAC-TCTATGGCACC-AT
1 T-TCTTTTCAAGTCCACAACTTC-GTGGCACCTTT
*
2723216 TTCTTATT-AAGTCCATAACTTCGTGGCACCTTT
1 TTCTT-TTCAAGTCCACAACTTCGTGGCACCTTT
* *
2723249 TTCTTTTCAAAGCCCACAACTTTGTGGCACCTTGT
1 TTCTTTTC-AAGTCCACAACTTCGTGGCACCTT-T
* * *
2723284 TCCCTTTTTAAGTCCACAAC-TCTGTGGTACCTTT
1 T-TCTTTTCAAGTCCACAACTTC-GTGGCACCTTT
* *
2723318 TCCTTGT-AAGTCCACAACTTCGTGGCACCTTT
1 TTCTTTTCAAGTCCACAACTTCGTGGCACCTTT
* *
2723350 TTCTTTTCAAAGCCCATAAC-TCTGTGGCACCCTTT
1 TTCTTTTC-AAGTCCACAACTTC-GTGGCA-CCTTT
* * **
2723385 CTCCTTTT-AAGTTCACAACGCCGTGGCACC---
1 -TTCTTTTCAAGTCCACAACTTCGTGGCACCTTT
*
2723415 --CTTTT-AAGTCCACAACTCCGTGGCACCTTT
1 TTCTTTTCAAGTCCACAACTTCGTGGCACCTTT
* * *
2723445 CTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
1 TTCTTTTC-AAGTCCACAACTTCGTGGCACCTTT
* *
2723479 TCCTTTT-AAGTCCATAAC-TCTGTGGCACCTTT
1 TTCTTTTCAAGTCCACAACTTC-GTGGCACCTTT
* *
2723511 TTCTTTTCAAAGTCCACAACTCCGTGGCACTTTT
1 TTCTTTTC-AAGTCCACAACTTCGTGGCACCTTT
*
2723545 TTCTTTTCAAAGCCCACAA-TTCCGTGGCACCCTTT
1 TTCTTTTC-AAGTCCACAACTT-CGTGGCA-CCTTT
* *
2723580 TCCCTTTT-AAGTCTACAAC-TCTGTGGCACC---
1 T-TCTTTTCAAGTCCACAACTTC-GTGGCACCTTT
** *
2723610 --CTTTT-AAGTTTACAACTTCATGGCATCCTTT
1 TTCTTTTCAAGTCCACAACTTCGTGGCA-CCTTT
* * *
2723641 TTCCTTTCAAGTCCACAACTCCATGGCACCTTT
1 TTCTTTTCAAGTCCACAACTTCGTGGCACCTTT
* * *
2723674 TTCTTTTCAAAGCCCACAACTCCATGGCACCTTT
1 TTCTTTTC-AAGTCCACAACTTCGTGGCACCTTT
* *
2723708 TCCTTTT-AAGTCCACAAC-TCTGTGGCACTTTT
1 TTCTTTTCAAGTCCACAACTTC-GTGGCACCTTT
2723740 TTCTTTTCAAAGTCCACAAC-TCTGTGGCA-CTTT
1 TTCTTTTC-AAGTCCACAACTTC-GTGGCACCTTT
*
2723773 TTCTTTTTAAAGTCCACAACATT-GTGGCACCTTT
1 TTC-TTTTCAAGTCCACAAC-TTCGTGGCACCTTT
* *
2723807 TTCCCTTTT-AAGTCTACAACTCCGTGGCACC---
1 TT--CTTTTCAAGTCCACAACTTCGTGGCACCTTT
** *
2723838 --CTTTT-AAGTTTACAACTTCATGGCATCCTTT
1 TTCTTTTCAAGTCCACAACTTCGTGGCA-CCTTT
* * *
2723869 TTCCTTTCAAGTCCACAACTCCATGGCACCTTT
1 TTCTTTTCAAGTCCACAACTTCGTGGCACCTTT
* * *
2723902 TTCTTTTCAAAGCCCATAACTCCGTGGCACCTTT
1 TTCTTTTC-AAGTCCACAACTTCGTGGCACCTTT
2723936 TT
1 TT
2723938 ACCTTTTAAG
Statistics
Matches: 648, Mismatches: 79, Indels: 123
0.76 0.09 0.14
Matches are distributed among these distances:
27 67 0.10
28 6 0.01
31 2 0.00
32 104 0.16
33 101 0.16
34 300 0.46
35 51 0.08
36 17 0.03
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.37
Consensus pattern (33 bp):
TTCTTTTCAAGTCCACAACTTCGTGGCACCTTT
Found at i:2723428 original size:27 final size:27
Alignment explanation
Indices: 2723387--2723441 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
2723377 CACCCTTTCT
*
2723387 CCTTTTAAGTTCACAACGCCGTGGCAC
1 CCTTTTAAGTCCACAACGCCGTGGCAC
*
2723414 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACGCCGTGGCAC
2723441 C
1 C
2723442 TTTCTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.25
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACGCCGTGGCAC
Found at i:2723505 original size:228 final size:221
Alignment explanation
Indices: 2723192--2723949 Score: 850
Period size: 228 Copynumber: 3.3 Consensus size: 221
2723182 TTCCCTTTTT
* * * * * *
2723192 AAGTCCACAACTCTATGGCACCATTTCT-TATT--AAGTCCATAACTTCGTGGCACCTTTTTCTT
1 AAGTCCACAACTCCATGGCACC-TTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTT
* * * * * *
2723254 TTCAAAGCCCACAACTTTGTGGCACCTTGTTCCCTTTT-TAAGTCCACAACTCTGTGGTACCTTT
65 TT--AAGTCCACAACTCTGTGGCACCTT-TT-TCTTTTCAAAGTCCACAACTCTGTGGCACTTTT
* * * *
2723318 TCCTTGT-AAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCTGTGGCACCC
126 TCCTTTTAAAGTCCACAACTTCGTGGCACCTTTTTCTTTT--AAGTCTACAACTCTGTGGCA---
* ** * *
2723382 TTTCTCCTTTTAAGTTCACAACGCCGTGGCA-C-CCTTTT
186 ---C-CCTTTTAAGTTTACAACTTCATGGCACCTCCTTTC
*
2723420 AAGTCCACAACTCCGTGGCACCTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
1 AAGTCCACAACTCCATGGCACCTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
* * *
2723485 TAAGTCCATAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTTTTTTCTT
66 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACTTTTTCCTT
* *
2723550 TTCAAAGCCCACAA-TTCCGTGGCACCCTTTTCCCTTTTAAGTCTACAACTCTGTGGCACCCTTT
131 TT-AAAGTCCACAACTT-CGTGGCA-CCTTTT-TCTTTTAAGTCTACAACTCTGTGGCACCCTTT
2723614 TAAGTTTACAACTTCATGGCATCCTTTTTCCTTTC
192 TAAGTTTACAACTTCATGGCA-CC----TCCTTTC
* *
2723649 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTCCTTT
1 AAGTCCACAACTCCATGGCACCTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
* *
2723714 TAAGTCCACAACTCTGTGGCACTTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACTTTTTCTTT
66 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACTTTTTCCTT
*
2723779 TTAAAGTCCACAACATT-GTGGCACCTTTTTCCCTTTTAAGTCTACAACTCCGTGGCACCCTTTT
131 TTAAAGTCCACAAC-TTCGTGGCACCTTTTT--CTTTTAAGTCTACAACTCTGTGGCACCCTTTT
2723843 AAGTTTACAACTTCATGGCATCCTTTTTCCTTTC
193 AAGTTTACAACTTCATGGCA-CC----TCCTTTC
* *
2723877 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAACTCCGTGGCACCTTTTTACCT
1 AAGTCCACAACTCCATGGCACCTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACC-TTTT-CCT
2723942 TTTAAGTC
64 TTTAAGTC
2723950 AACTCTATGA
Statistics
Matches: 468, Mismatches: 40, Indels: 42
0.85 0.07 0.08
Matches are distributed among these distances:
222 22 0.05
223 1 0.00
224 1 0.00
226 5 0.01
227 40 0.09
228 181 0.39
229 166 0.35
230 47 0.10
231 5 0.01
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (221 bp):
AAGTCCACAACTCCATGGCACCTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
TAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACTTTTTCCTT
TTAAAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAGTCTACAACTCTGTGGCACCCTTTTAAG
TTTACAACTTCATGGCACCTCCTTTC
Found at i:2723579 original size:195 final size:192
Alignment explanation
Indices: 2723120--2723937 Score: 769
Period size: 195 Copynumber: 4.2 Consensus size: 192
2723110 ATCCTGTTCT
* ** * * * *
2723120 TTTTAAGTCCACAACTTCGTGGCACCTTTTTCTAATCAATGTCCACAACT-CATGGCACCTTGTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCT-TT
* * *
2723184 C-CCTTTTTAAGTCCACAACTCTATGGCACCATTTCTTATTAAGTCCATAACTTCGTGGCACCTT
65 CTCC-TTTTAAGTCCACAACTCTGTGGCACC----CTT-TTAAGTCCACAACTCCGTGGCACCTT
* *** ** *
2723248 TTTCTTTTCAAAGCCCACAACTTTGTGGCACCTTGTTCCCTTTTTAAGTCCACAACTCTGTGGTA
124 TCTCTTTTC-AAGCCCACAACTCCATGGCACCTT-TT-CC-TTTTAAGTCCACAACTCCATGGCA
*
2723313 CCTTTTCC
185 CCTTTTTC
* * * *
2723321 TTGTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCTGTGGCACCCTTTC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTC
* * *
2723386 TCCTTTTAAGTTCACAACGCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTCTCTTT
66 TCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTCTCTTT
* * **
2723451 TCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCATAACTCTGTGGCACCTTTTTC
131 TC-AAGCCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTC
* *
2723514 TTTTCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTCAAAGCCCACAATTCCGTGGCACCCTT
1 TTTT--AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTT
* ** * * *
2723579 T-TCCCTTTTAAGTCTACAACTCTGTGGCACCCTTTTAAGTTTACAACTTCATGGCATCCTTTTT
64 TCT-CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTCT
* * * *
2723643 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTTT
127 CTTTTCAAGCCCACAACTCCATGGCACCTTTTCCTTTT--AAGTCCACAACTCCATGGCACCTTT
*
2723708 TCC
190 TTC
* * * * *
2723711 TTTTAAGTCCACAACTCTGTGGCACTTTTTTCTTTTCAAAGTCCACAACTCTGTGGCA--CTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTC
* *
2723774 TCTTTTTAAAGTCCACAACAT-TGTGGCACCTTTTTCCCTTTTAAGTCTACAACTCCGTGGCA-C
66 TCCTTTT-AAGTCCACAAC-TCTGTGGCA-------CCCTTTTAAGTCCACAACTCCGTGGCACC
*** * *
2723837 ---C-CTTTT-AAGTTTACAACTTCATGGCATCCTTTTTCCTTTCAAGTCCACAACTCCATGGCA
122 TTTCTCTTTTCAAGCCCACAACTCCATGGCA-CC-TTTTCCTTTTAAGTCCACAACTCCATGGCA
2723897 CCTTTTTC
185 CCTTTTTC
* *
2723905 TTTTCAAAGCCCATAACTCCGTGGCACCTTTTT
1 TTTT--AAGTCCACAACTCCGTGGCACCTTTTT
2723938 ACCTTTTAAG
Statistics
Matches: 528, Mismatches: 67, Indels: 49
0.82 0.10 0.08
Matches are distributed among these distances:
193 41 0.08
194 68 0.13
195 188 0.36
196 97 0.18
197 30 0.06
199 1 0.00
201 93 0.18
202 10 0.02
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.37
Consensus pattern (192 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTC
TCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTCTCTTT
TCAAGCCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTC
Found at i:2723633 original size:27 final size:27
Alignment explanation
Indices: 2723581--2723641 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
2723571 GCACCCTTTT
*
2723581 CCCTTTTAAGTCTACAACTCTGTGGCA
1 CCCTTTTAAGTCTACAACTCTATGGCA
*
2723608 CCCTTTTAAGTTTACAACT-TCATGGCA
1 CCCTTTTAAGTCTACAACTCT-ATGGCA
*
2723635 TCCTTTT
1 CCCTTTT
2723642 TCCTTTCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.39
Consensus pattern (27 bp):
CCCTTTTAAGTCTACAACTCTATGGCA
Found at i:2723641 original size:61 final size:61
Alignment explanation
Indices: 2723287--2723808 Score: 288
Period size: 66 Copynumber: 8.1 Consensus size: 61
2723277 ACCTTGTTCC
* * ** * *
2723287 CTTTTTAAGTCCACAACTCTGTGGTACCTTTTCCTTGTAAGTCCACAACT-TCGTGGCACCTTTT
1 CTTTTAAAGCCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCT-GTGGCACC----
2723351 T
61 T
* ** * * *
2723352 CTTTTCAAAGCCCATAACTCTGTGGCACCCTTTCTCCTTTTAAGTTCACAACGCCGTGGCACC-
1 CTTTT-AAAGCCCACAACTCCATGGCA-CCTTT-TCCTTTTAAGTCCACAACTCTGTGGCACCT
* * * *
2723415 CTTTT-AAGTCCACAACTCCGTGGCACC-TTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 CTTTTAAAGCCCACAACTCCATGGCACCTTTTC-CTTTT--AAGTCCACAACTCTGTGGCACC--
2723478 TT
61 -T
* * ** * *
2723480 CCTTTT-AAGTCCATAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTTT
1 -CTTTTAAAGCCCACAACTCCATGGCACCTTTTCCTTTT--AAGTCCACAACTCTGTGGCAC---
*
2723544 TTT
60 -CT
* * *
2723547 CTTTTCAAAGCCCACAATTCCGTGGCACCCTTTTCCCTTTTAAGTCTACAACTCTGTGGCACC-
1 CTTTT-AAAGCCCACAACTCCATGGCA-CCTTTT-CCTTTTAAGTCCACAACTCTGTGGCACCT
*** * * **
2723610 CTTTT-AAGTTTACAACTTCATGGCATCCTTTTTCCTTTCAAGTCCACAACTCCATGGCACCTTT
1 CTTTTAAAGCCCACAACTCCATGGCA-CC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACC---
2723674 TT
61 -T
*
2723676 CTTTTCAAAGCCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCTGTGGCACTTTTT
1 CTTTT-AAAGCCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCTGTGGCAC----C
2723741 T
61 T
* ** * *
2723742 CTTTTCAAAGTCCACAACTCTGTGGCACTTTTTCTTTTTAAAGTCCACAACAT-TGTGGCACCT
1 CTTTT-AAAGCCCACAACTCCATGGCACCTTTTCCTTTT-AAGTCCACAAC-TCTGTGGCACCT
2723805 -TTTT
1 CTTTT
2723809 CCCTTTTAAG
Statistics
Matches: 370, Mismatches: 52, Indels: 73
0.75 0.11 0.15
Matches are distributed among these distances:
58 2 0.01
59 7 0.02
60 2 0.01
61 76 0.21
62 8 0.02
63 11 0.03
65 5 0.01
66 142 0.38
67 30 0.08
68 76 0.21
69 6 0.02
70 5 0.01
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (61 bp):
CTTTTAAAGCCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCT
Found at i:2723656 original size:229 final size:228
Alignment explanation
Indices: 2723414--2723949 Score: 905
Period size: 228 Copynumber: 2.3 Consensus size: 228
2723404 GCCGTGGCAC
* * *
2723414 CCTTTTAAGTCCACAACTCCGTGGCACCTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
1 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
*
2723479 TCCTTTTAAGTCCATAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTTT
66 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC-TT
*
2723544 TTTCTTTTCAAAGCCCAC-A-ATTCCGTGGCACCCTTTTCCCTTTTAAGTCTACAACTCTGTGGC
130 TTTCTTTTCAAAGCCCACAACATT--GTGGCACCCTTTTCCCTTTTAAGTCTACAACTCCGTGGC
2723607 ACCCTTTTAAGTTTACAACTTCATGGCATCCTTTTT
193 ACCCTTTTAAGTTTACAACTTCATGGCATCCTTTTT
*
2723643 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTTT
1 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
* *
2723708 TCCTTTTAAGTCCACAACTCTGTGGCACTTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACTTT
66 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTTT
* * *
2723773 TTCTTTTTAAAGTCCACAACATTGTGGCACCTTTTTCCCTTTTAAGTCTACAACTCCGTGGCACC
131 TTCTTTTCAAAGCCCACAACATTGTGGCACCCTTTTCCCTTTTAAGTCTACAACTCCGTGGCACC
2723838 CTTTTAAGTTTACAACTTCATGGCATCCTTTTT
196 CTTTTAAGTTTACAACTTCATGGCATCCTTTTT
*
2723871 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAACTCCGTGGCACCTTT
1 CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACC-TT
2723936 TTACCTTTTAAGTC
65 TT-CCTTTTAAGTC
2723950 AACTCTATGA
Statistics
Matches: 290, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
228 151 0.52
229 125 0.43
230 14 0.05
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (228 bp):
CCTTTCAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTTT
TTCTTTTCAAAGCCCACAACATTGTGGCACCCTTTTCCCTTTTAAGTCTACAACTCCGTGGCACC
CTTTTAAGTTTACAACTTCATGGCATCCTTTTT
Found at i:2723659 original size:129 final size:127
Alignment explanation
Indices: 2723124--2723735 Score: 408
Period size: 129 Copynumber: 4.7 Consensus size: 127
2723114 TGTTCTTTTT
* * ** * *
2723124 AAGTCCACAACTTCGTGGCACCTTTTTCTAATCAATGTCCACAACT-CATGGCACCTTGTTCCCT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTT-TT-CC-
* ** * * *
2723188 TTTTAAGTCCACAACTCTATGGCACCATTTCTTATTAAGTCCATAACTTCGTGGCACCTTTTTCT
63 TTTTAAGTCCACAACTCTGTGGCACC----CTT-TTAAGTTTACAACTTCATGGCACCTTTTTCC
2723253 TTTCA
123 TTTCA
* *** * * * ** *
2723258 AAGCCCACAACTTTGTGGCACCTTGTTCCCTTTT-TAAGTCCACAACTCTGTGGTACCTTTTCCT
1 AAGTCCACAACTCCATGGCACCTT-TT-TCTTTTCAAAGCCCACAACTCCATGGCACCTTTTCCT
* *** * *
2723322 TGTAAGTCCACAACT-TCGTGGCACCTTTTTCTTTTCAAAGCCCATAAC-TCTGTGGCACCCTTT
64 TTTAAGTCCACAACTCT-GTGGCACC-----CTTTT--AAGTTTACAACTTC-ATGGCA-CCTTT
* *
2723385 CTCCTTT-T
119 TTCCTTTCA
* * * * *
2723393 AAGTTCACAACGCCGTGGCACC-----CTTTT--AAGTCCACAACTCCGTGGCACC-TTTCTCTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTC-CTT
* * ** * *
2723450 TTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCATAAC-TCTGTGGCACCTTTTTC
65 TT--AAGTCCACAACTCTGTGGCA-C----CCTTTTAAGTTTACAACTTC-ATGGCACCTTTTTC
*
2723514 TTTTCA
122 CTTTCA
* * * *
2723520 AAGTCCACAACTCCGTGGCACTTTTTTCTTTTCAAAGCCCACAATTCCGTGGCACCCTTTTCCCT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCA-CCTTTT-CCT
*
2723585 TTTAAGTCTACAACTCTGTGGCACCCTTTTAAGTTTACAACTTCATGGCATCCTTTTTCCTTTC-
64 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTTTACAACTTCATGGCA-CCTTTTTCCTTTCA
2723649 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTCCTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTCCTTT
2723714 TAAGTCCACAACTCTGTGGCAC
66 TAAGTCCACAACTCTGTGGCAC
2723736 TTTTTTCTTT
Statistics
Matches: 398, Mismatches: 49, Indels: 69
0.77 0.09 0.13
Matches are distributed among these distances:
126 14 0.04
127 88 0.22
128 11 0.03
129 91 0.23
130 15 0.04
132 6 0.02
133 25 0.06
134 68 0.17
135 50 0.13
136 29 0.07
137 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (127 bp):
AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTCCTTT
TAAGTCCACAACTCTGTGGCACCCTTTTAAGTTTACAACTTCATGGCACCTTTTTCCTTTCA
Found at i:2723851 original size:27 final size:27
Alignment explanation
Indices: 2723809--2723869 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
2723799 GCACCTTTTT
*
2723809 CCCTTTTAAGTCTACAACTCCGTGGCA
1 CCCTTTTAAGTCTACAACTCCATGGCA
* *
2723836 CCCTTTTAAGTTTACAACTTCATGGCA
1 CCCTTTTAAGTCTACAACTCCATGGCA
*
2723863 TCCTTTT
1 CCCTTTT
2723870 TCCTTTCAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (27 bp):
CCCTTTTAAGTCTACAACTCCATGGCA
Found at i:2723971 original size:24 final size:24
Alignment explanation
Indices: 2723939--2724000 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 24
2723929 CACCTTTTTA
*
2723939 CCTTTTAAGTCAACTCTATGACAC
1 CCTTTTAAGTCAACTCAATGACAC
*
2723963 CCTTTTAAGTTCACAACTCAATGGCAC
1 CCTTTTAAG-T--CAACTCAATGACAC
2723990 CCTTTTAAGTC
1 CCTTTTAAGTC
2724001 CACAACTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 10 0.30
25 1 0.03
26 1 0.03
27 21 0.64
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (24 bp):
CCTTTTAAGTCAACTCAATGACAC
Found at i:2723990 original size:27 final size:27
Alignment explanation
Indices: 2723949--2724007 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
2723939 CCTTTTAAGT
* *
2723949 CAACTCTATGACACCCTTTTAAGTTCA
1 CAACTCAATGACACCCTTTTAAGTCCA
*
2723976 CAACTCAATGGCACCCTTTTAAGTCCA
1 CAACTCAATGACACCCTTTTAAGTCCA
2724003 CAACT
1 CAACT
2724008 TCGTGTAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (27 bp):
CAACTCAATGACACCCTTTTAAGTCCA
Found at i:2724351 original size:33 final size:33
Alignment explanation
Indices: 2724314--2724378 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2724304 TTCAACGATT
2724314 TGTATCGATACATAAAATGTTGTATCGATACAC
1 TGTATCGATACATAAAATGTTGTATCGATACAC
*** *
2724347 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
2724379 ATTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAC
Found at i:2724352 original size:13 final size:13
Alignment explanation
Indices: 2724334--2724358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2724324 CATAAAATGT
2724334 TGTATCGATACAC
1 TGTATCGATACAC
2724347 TGTATCGATACA
1 TGTATCGATACA
2724359 TATTTTTTTG
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2724439 original size:13 final size:13
Alignment explanation
Indices: 2724421--2724445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2724411 ATTACTAAAA
2724421 TGTATCGATACAT
1 TGTATCGATACAT
2724434 TGTATCGATACA
1 TGTATCGATACA
2724446 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2724510 original size:52 final size:52
Alignment explanation
Indices: 2724454--2724578 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
2724444 CACTGATCTT
*
2724454 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2724506 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2724558 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2724579 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2727899 original size:43 final size:43
Alignment explanation
Indices: 2727842--2728104 Score: 193
Period size: 43 Copynumber: 5.7 Consensus size: 43
2727832 CCGATGTCGT
* *
2727842 TGGCCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGC
* * * *
2727885 TGGCCTTTAATCAGCATATTGGCACCTTTACCATTTTTAAGCCCAACATCGC
1 TGGCCTTGAATCAGCACATTGG---C---ACC---TTTAAGTCCAATATCGC
2727937 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGC
* * * *
2727980 TGGCCTTGAATCAGCATATTCGCGCATTTGTCATCTTTAAGTACAATGTCGT
1 TGGCCTTGAATCAGCACATT-G-GCA-----C--CTTTAAGTCCAATATCGC
* * * * *
2728032 TGGCCTTGACTCAGCACATTAGCACCTTTAAATCTAATATTGC
1 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGC
* * * *
2728075 TGGCCCTGAATTAGTATATTGGCACCTTTA
1 TGGCCTTGAATCAGCACATTGGCACCTTTA
2728105 CCATCTTTAA
Statistics
Matches: 174, Mismatches: 28, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
43 90 0.52
44 1 0.01
45 4 0.02
46 4 0.02
49 4 0.02
50 4 0.02
52 67 0.39
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (43 bp):
TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGC
Found at i:2727914 original size:21 final size:21
Alignment explanation
Indices: 2727845--2727914 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
2727835 ATGTCGTTGG
* *
2727845 CCTTAAATCAGCACATTGGCA
1 CCTTTAATCAGCATATTGGCA
** *
2727866 CCTTTAAGTCCAATATCGTTGG--
1 CCTTTAA-T-CAGCAT-ATTGGCA
2727888 CCTTTAATCAGCATATTGGCA
1 CCTTTAATCAGCATATTGGCA
2727909 CCTTTA
1 CCTTTA
2727915 CCATTTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 13 0.36
22 8 0.22
23 3 0.08
24 4 0.11
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (21 bp):
CCTTTAATCAGCATATTGGCA
Found at i:2727949 original size:52 final size:52
Alignment explanation
Indices: 2727868--2727966 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
2727858 CATTGGCACC
* * * * *
2727868 TTTAAGTCCAATATCGTTGGCCTTTAATCAGCATATTGGCACCTTTACCATT
1 TTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATT
2727920 TTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
2727967 AGTCCAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (52 bp):
TTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATT
Found at i:2727992 original size:95 final size:95
Alignment explanation
Indices: 2727835--2728156 Score: 419
Period size: 95 Copynumber: 3.4 Consensus size: 95
2727825 TATAAGCCCG
* * *
2727835 ATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTTAATCAGC
1 ATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* *
2727900 ATATTGGCACCTTTACCATTTTTAAGCCCA
66 ATATTGGCACCTTTACCATCTTTAAGTCCA
** *
2727930 ACATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 ATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * ** *
2727995 ATATTCGCGCATTTGTCATCTTTAAGTACA
66 ATATTGGCACCTTTACCATCTTTAAGTCCA
* * * * * * * *
2728025 ATGTCGTTGGCCTTGACTCAGCACATTAGCACCTTTAAATCTAATATTGCTGGCCCTGAATTAGT
1 ATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
2728090 ATATTGGCACCTTTACCATCTTTAAGTCCA
66 ATATTGGCACCTTTACCATCTTTAAGTCCA
* *
2728120 ATGTCGTTGGCCTTGAATTAGCACCTTGGCACTCTTT
1 ATGTCGTTGGCCTTGAATCAGCACATTGGCAC-CTTT
2728157 TTATCTTTAT
Statistics
Matches: 191, Mismatches: 35, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
95 187 0.98
96 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (95 bp):
ATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
ATATTGGCACCTTTACCATCTTTAAGTCCA
Found at i:2734504 original size:17 final size:17
Alignment explanation
Indices: 2734482--2734515 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2734472 GATTGATTTG
2734482 AGGGTTCTAAAGGGTTT
1 AGGGTTCTAAAGGGTTT
*
2734499 AGGGTTCTAAATGGTTT
1 AGGGTTCTAAAGGGTTT
2734516 TGACACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.32, T:0.38
Consensus pattern (17 bp):
AGGGTTCTAAAGGGTTT
Found at i:2735789 original size:20 final size:20
Alignment explanation
Indices: 2735763--2735817 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2735753 AAAAAGATAG
*
2735763 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
2735783 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
2735803 AATATATCGATACAT
1 AATGTATCGATACAT
2735818 CTAGGTACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:2736755 original size:28 final size:28
Alignment explanation
Indices: 2736697--2737753 Score: 858
Period size: 28 Copynumber: 35.9 Consensus size: 28
2736687 TTTTTTAAAT
*
2736697 ATGCCACTAACTTGTGTCGGCTTTGAAAGG
1 ATGCCACTGACTTGTG--GGCTTTGAAAGG
*
2736727 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 ATGCCACTGACTTGTGGGCTTTGAAAGG
* *
2736755 GTGCCACTGACTTGTGGGCTTTGAAAAG
1 ATGCCACTGACTTGTGGGCTTTGAAAGG
*
2736783 ATGCCACTGACTTGTGAGCTTTGAAAAGAG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * *
2736813 TTGCCACCGACTCGTGGGCTTTGAAAGG
1 ATGCCACTGACTTGTGGGCTTTGAAAGG
* *
2736841 ATGCCACTAACTTGTGGGCTTTGAAAAAAG
1 ATGCCACTGACTTGTGGGCTTTG--AAAGG
* * * *
2736871 TTACCACCGACTCGTATGGGCTTTGAAAAGAG
1 ATGCCACTGACT--TGTGGGCTTTG-AAAG-G
* * *
2736903 TTGCCACCGACTCGTGGGCTTTGAAAGG
1 ATGCCACTGACTTGTGGGCTTTGAAAGG
2736931 ATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * **
2736961 TTGCCACCGACTCGTGTGGGCTTTGAAAAA
1 ATGCCACTGACT--TGTGGGCTTTGAAAGG
* *
2736991 AGTGCCATTGACTTGTGGGCTTTGAAAAG
1 A-TGCCACTGACTTGTGGGCTTTGAAAGG
* *
2737020 AGTGCCACTAACTTATGGGCTTTGAAAGG
1 A-TGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2737049 ATGCCACTGACTTGTGGTCTTTCAAATCAG
1 ATGCCACTGACTTGTGGGCTTTGAAA--GG
* * *
2737079 TTGCCACCGACTTGTGTGGGCTTTGAAATG
1 ATGCCACTGAC-T-TGTGGGCTTTGAAAGG
*
2737109 ATGCCACTAACTTGTGGGCTTTGAAAAGAG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * *
2737139 TTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 ATGCCACTGACT--TGTGGGCTTTGAAAGG
* *
2737169 AGTGCCACTGATTTATGGGCTTTGAAAGG
1 A-TGCCACTGACTTGTGGGCTTTGAAAGG
* * *
2737198 ATGCCACTAACTTATGGGCTTTGAAAAG
1 ATGCCACTGACTTGTGGGCTTTGAAAGG
2737226 AGTGCCACTGACTTGTGGGCTTTGAAAGG
1 A-TGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
2737255 ATGCCACTAACTTATGAGCTTTCAAATGAG
1 ATGCCACTGACTTGTGGGCTTTGAAA-G-G
* *
2737285 TTGCCACCGACTTGTGTGGGCTTTGAAAGG
1 ATGCCACTGAC-T-TGTGGGCTTTGAAAGG
2737315 ATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * * *
2737345 TTACCACCGACTCGTGTGGGCTTTGAAAAG
1 ATGCCACTGACT--TGTGGGCTTTGAAAGG
* * *
2737375 AGTACCATTAACTTGTGGGCTTTGAAAGG
1 A-TGCCACTGACTTGTGGGCTTTGAAAGG
* *
2737404 ATGCCACTAACCTGTGGGCTTTGCAAA-G
1 ATGCCACTGACTTGTGGGCTTTG-AAAGG
* *
2737432 AGTGCTATTGACTTGTGGGCTTTGAAAGG
1 A-TGCCACTGACTTGTGGGCTTTGAAAGG
* *
2737461 ATGCCACTGACTTATGGGCTTTCAAATGAG
1 ATGCCACTGACTTGTGGGCTTTGAAA-G-G
* * *
2737491 TTGCCACCGACTTGTGTGGGCTTTGAAATG
1 ATGCCACTGAC-T-TGTGGGCTTTGAAAGG
*
2737521 ATGCCACTAACTTGTGGGCTTTGAAAAGAG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * * * *
2737551 TTGTCACCGACTCGTAGGCTTTGAAAGG
1 ATGCCACTGACTTGTGGGCTTTGAAAGG
*
2737579 ATGCCACTAACTTGTGGGCTTTGAAAAGAG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-G
* * * *
2737609 TTACCACCGATTTGTGTGGGCTTTGAAATGG
1 ATGCCACTGA-CT-TGTGGGCTTTGAAA-GG
*
2737640 -TGCCACCGACTTGTGGGCTTTGAAAAGAG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-G
* **
2737669 TTGCCACCAACTTGTGTGGGCTTTGAAAAGAG
1 ATGCCACTGAC-T-TGTGGGCTTTG-AAAG-G
* * ** * * *
2737701 TTACCACCAAATCGTGGGCTTTGAAAAG
1 ATGCCACTGACTTGTGGGCTTTGAAAGG
2737729 ATGCCACTGACTTGTGGGCTTTGAA
1 ATGCCACTGACTTGTGGGCTTTGAA
2737754 GAGATGAACG
Statistics
Matches: 838, Mismatches: 139, Indels: 102
0.78 0.13 0.09
Matches are distributed among these distances:
28 296 0.35
29 166 0.20
30 197 0.24
31 50 0.06
32 129 0.15
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (28 bp):
ATGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:2736954 original size:118 final size:115
Alignment explanation
Indices: 2736697--2737753 Score: 929
Period size: 118 Copynumber: 9.0 Consensus size: 115
2736687 TTTTTTAAAT
* * * *
2736697 ATGCCACTAACTTGTGTCGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG--AAAGGGTGCC
1 ATGCCACTGACTTGTG--GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCC
*
2736760 ACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGAGCTTTGAAAAGAG
64 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-G
* * * * * *
2736813 TTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAAAGTTACCAC
1 ATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCAC
* * * *
2736878 CGACTCGTATGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGG
66 TGACT--TGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGG
* *
2736931 ATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAAAG-TG
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAAAAGATG
* * *
2736995 CCATTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGG
62 CCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * * *
2737049 ATGCCACTGACTTGTGGTCTTTCAAATCAGTTGCCACCGACTTGTGTGGGCTTTG--AAATGATG
1 ATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAAAAAGATG
* * *
2737112 CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
62 CCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAGG
* * * * *
2737169 AGTGCCACTGATTTATGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAGAG-TGCCA
1 A-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCA
* * * * *
2737233 CTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTATGAGCTTTCAAATGAG
65 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-G-G
* * * * *
2737285 TTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACC
1 ATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCC
* * * *
2737350 ACCGACTCGTGTGGGCTTTGAAAAGAGTACCATTAACTTGTGGGCTTTGAAAGG
64 ACTGACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
2737404 ATGCCACTAACCTGTGGGCTTTGCAAA-GAGTGCTATTGACTTGTGGGCTTTG--AAAGGATGCC
1 ATGCCACTGACTTGTGGGCTTTG-AAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAAAGATGCC
* * * * *
2737466 ACTGACTTATGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATG
64 ACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * * * * * *
2737521 ATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGTCACCGACTCGTAGGCTTTG--AAAGGATGCC
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCC
* * * *
2737584 ACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGATTTGTGTGGGCTTTGAAATGG
64 ACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGA-CT-TGTGGGCTTTGAAA-GG
* * ** * * *
2737640 -TGCCACCGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTTA
1 ATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAAAAAGATG
** * *
2737704 CCACCAAATCGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAA
62 CCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
2737754 GAGATGAACG
Statistics
Matches: 778, Mismatches: 122, Indels: 80
0.79 0.12 0.08
Matches are distributed among these distances:
114 59 0.08
115 14 0.02
116 53 0.07
117 136 0.17
118 294 0.38
119 51 0.07
120 77 0.10
121 49 0.06
122 45 0.06
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (115 bp):
ATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAAGATGCCAC
TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:2737135 original size:178 final size:174
Alignment explanation
Indices: 2736697--2737753 Score: 1134
Period size: 178 Copynumber: 6.0 Consensus size: 174
2736687 TTTTTTAAAT
* * * *
2736697 ATGCCACTAACTTGTGTCGGCTTTGAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
1 ATGCCACTGACTTGTG--GGCTTTGAAAGAGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCCA
* *
2736761 CTGACTTGTGGGCTTTGAAAAGA--TGCCACTGACT-TGTGAGCTTTGAAAAGAGTTGCCACCGA
64 CTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTGTGTGGGCTTTGAAAAGAGTTGCCACCGA
* * *
2736823 CTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAAAG
129 CTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTG--AAAGG
* * * * *
2736871 TTACCACCGACTCGTATGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCC
1 ATGCCACTGACT--TGTGGGCTTTG-AAAGAGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCC
* **
2736936 ACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAAAG-TGCCATT
63 ACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACT-GTGTGGGCTTTGAAAAGAGTTGCCACC
*
2737000 GACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGG
127 GACTTGTGGGCTTTGAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
2737049 ATGCCACTGACTTGTGGTCTTTCAAATCAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCC
1 ATGCCACTGACTTGTGGGCTTTGAAA-GAGTTGCCACCGAC-T-TGTGGGCTTTGAAAGGATGCC
* *
2737114 ACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAG-TGCCACT
63 ACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACT-GTGTGGGCTTTGAAAAGAGTTGCCACC
* * * * *
2737178 GATTTATGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAG
127 GACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAGG
* ** * * * *
2737226 AGTGCCACTGACTTGTGGGCTTTGAAAG-GATGCCACTAACTTATGAGCTTTCAAATGAGTTGCC
1 A-TGCCACTGACTTGTGGGCTTTGAAAGAGTTGCCACCGACTTGTGGGCTTTGAAA-G-GATGCC
* * * *
2737290 ACCGACTTGTGTGGGCTTTG-AAAG-GATGCCACTGACT-TGTGGGCTTTGAAAAGAGTTACCAC
63 ACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACCGACTGTGTGGGCTTTGAAAAGAGTTGCCAC
* *
2737352 CGACTCGTGTGGGCTTTGAAAAGAGTACCATTAACTTGTGGGCTTTGAAAGG
126 CGACT--TGTGGGCTTTGAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAGG
* * * **
2737404 ATGCCACTAACCTGTGGGCTTTGCAAAGAG-TGCTATTGACTTGTGGGCTTTGAAAGGATGCCAC
1 ATGCCACTGACTTGTGGGCTTTG-AAAGAGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCCAC
* * * * **
2737468 TGACTTATGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGA--TGCCACTAA
65 TGACTTGTGGGCTTTGAAAAGAGTTGCCACCGAC-TGTGTGGGCTTTGAAAAGAGTTGCCACCGA
* ** * *
2737531 CTTGTGGGCTTTGAAAAGAGTTGTCACCGACTCGTAGGCTTTGAAAGG
129 CTTGTGGGCTTTGAAAAGA--TGCCACTAACTTGTGGGCTTTGAAAGG
* * *
2737579 ATGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGATTTGTGTGGGCTTTGAAATGG-TGC
1 ATGCCACTGACTTGTGGGCTTTG-AAAGAGTTGCCACCGA-CT-TGTGGGCTTTGAAA-GGATGC
* * *
2737643 CACCGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTTACCAC
62 CACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGAC-TGTGTGGGCTTTGAAAAGAGTTGCCAC
* * * *
2737708 CAAATCGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAA
126 CGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAA
2737754 GAGATGAACG
Statistics
Matches: 743, Mismatches: 106, Indels: 64
0.81 0.12 0.07
Matches are distributed among these distances:
174 70 0.09
175 68 0.09
176 140 0.19
177 71 0.10
178 306 0.41
179 27 0.04
180 61 0.08
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (174 bp):
ATGCCACTGACTTGTGGGCTTTGAAAGAGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
GACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTGTGTGGGCTTTGAAAAGAGTTGCCACCGACT
TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAGG
Found at i:2737255 original size:206 final size:205
Alignment explanation
Indices: 2736693--2737753 Score: 1248
Period size: 206 Copynumber: 5.1 Consensus size: 205
2736683 TTTTTTTTTT
* *
2736693 AAAT-ATGCCACTAACTTGTGTCGGCTTTG-AAAG-GGTGCCACTGACT-TGTGGGCTTTG-AAA
1 AAATGATGCCACTAACTTGTG--GGCTTTGAAAAGAGTTGCCACCGACTCTGTGGGCTTTGAAAA
* * * *
2736753 GGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGAGCTTTGAAAAGAGTTGCC
64 GAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAG-TGCC
* * * ** *
2736818 ACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAAAGTTACCACCGACT
128 ACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTCAAATGAGTTGCCACCGACT
* *
2736883 CGTATGGGCTTTG
193 TGTGTGGGCTTTG
* ** * * *
2736896 AAAAGAGTTGCCACCGACTCGTGGGCTTTG-AAAG-GATGCCACTGACT-TGTGGGCTTTGAAAA
1 AAATGA--TGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCTGTGGGCTTTGAAAA
* ** * *
2736958 GAGTTGCCACCGACTCGTGTGGGCTTTGAAAAAAGTGCCATTGACTTGTGGGCTTTGAAAAGAGT
64 GAG-TGCCACTGACT--TGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGT
* * * * *
2737023 GCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGTCTTTCAAATCAGTTGCCACCG
125 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTCAAATGAGTTGCCACCG
2737088 ACTTGTGTGGGCTTTG
190 ACTTGTGTGGGCTTTG
2737104 AAATGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 AAATGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTC-TGTGGGCTTTGAAAAG
* * *
2737169 AGTGCCACTGATTTATGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAGAGTGCCAC
65 AGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
2737234 TGACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGAGCTTTCAAATGAGTTGCCACCGACTTG
130 TGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTCAAATGAGTTGCCACCGACTTG
2737299 TGTGGGCTTTG
195 TGTGGGCTTTG
* * *
2737310 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAG
1 AAATGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTC-TGTGGGCTTTGAAAAG
* * * * * * *
2737375 AGTACCATTAACTTGTGGGCTTTGAAAGGATGCCACTAACCTGTGGGCTTTGCAAAGAGTGCTAT
65 AGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
2737440 TGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTCAAATGAGTTGCCACCGACTTG
130 TGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTCAAATGAGTTGCCACCGACTTG
2737505 TGTGGGCTTTG
195 TGTGGGCTTTG
* * *
2737516 AAATGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGTCACCGACTC-GTAGGCTTTGAAAGGA
1 AAATGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCTGTGGGCTTTGAAAAGA
* * * * ** *
2737580 -TGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGATTTGTGTGGGCTTTGAAATG-GTGC
66 GTGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCA-CTAACT-TGTGGGCTTTGAAAAGAGTGC
* * * * * *
2737643 CACCGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTTACCAC
127 CACTGACTTGTGGGCTTTG-AAAG-GATGCCACTAAC-T-TGTGGGCTTTCAAATGAGTTGCCAC
** *
2737708 C-AAAT-CGTGGGCTTTG
188 CGACTTGTGTGGGCTTTG
* *
2737724 AAAAGATGCCACTGACTTGTGGGCTTTGAA
1 AAATGATGCCACTAACTTGTGGGCTTTGAA
2737754 GAGATGAACG
Statistics
Matches: 749, Mismatches: 89, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
203 23 0.03
204 53 0.07
205 10 0.01
206 399 0.53
207 36 0.05
208 149 0.20
209 39 0.05
210 40 0.05
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (205 bp):
AAATGATGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCTGTGGGCTTTGAAAAGA
GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACT
GACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
GTGGGCTTTG
Found at i:2738978 original size:10 final size:9
Alignment explanation
Indices: 2738965--2739026 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 9
2738955 TTTTTACTAT
2738965 TTTTTCTTAG
1 TTTTT-TTAG
2738975 TTTTTTTA-
1 TTTTTTTAG
*
2738983 TTTTTTTTG
1 TTTTTTTAG
*
2738992 TTTTTTTTTG
1 -TTTTTTTAG
*
2739002 TTTTTTTTTG
1 -TTTTTTTAG
2739012 TTTTTTTA-
1 TTTTTTTAG
2739020 TTTTTTT
1 TTTTTTT
2739027 GGGTATAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
8 14 0.29
9 10 0.21
10 24 0.50
ACGTcount: A:0.05, C:0.02, G:0.06, T:0.87
Consensus pattern (9 bp):
TTTTTTTAG
Found at i:2738979 original size:1 final size:1
Alignment explanation
Indices: 2738975--2739026 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
2738965 TTTTTCTTAG
* * * * *
2738975 TTTTTTTATTTTTTTTGTTTTTTTTTGTTTTTTTTTGTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2739027 GGGTATAAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:2738984 original size:19 final size:17
Alignment explanation
Indices: 2738962--2739026 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 17
2738952 GTTTTTTTAC
2738962 TATTTTTTCTTAGTTTTTT
1 TATTTTTT-TT-GTTTTTT
2738981 TATTTTTTTTGTTTTTTTT
1 TATTTTTTTTG--TTTTTT
*
2739000 TGTTTTTTTTTGTTTTTT
1 T-ATTTTTTTTGTTTTTT
2739018 TATTTTTTT
1 TATTTTTTT
2739027 GGGTATAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 8 0.20
18 9 0.22
19 15 0.37
20 9 0.22
ACGTcount: A:0.06, C:0.02, G:0.06, T:0.86
Consensus pattern (17 bp):
TATTTTTTTTGTTTTTT
Found at i:2752993 original size:20 final size:20
Alignment explanation
Indices: 2752958--2752995 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2752948 GTAAAAAGAC
*
2752958 AGAATGTATCGCTACATTGA
1 AGAATGTATCACTACATTGA
*
2752978 AGAATGTATCATTACATT
1 AGAATGTATCACTACATT
2752996 CATACATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (20 bp):
AGAATGTATCACTACATTGA
Found at i:2754479 original size:19 final size:18
Alignment explanation
Indices: 2754450--2754521 Score: 84
Period size: 19 Copynumber: 4.2 Consensus size: 18
2754440 TTGAAATTCA
2754450 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
2754467 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
2754486 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
2754499 ATAAGTATTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
2754518 ATAA
1 ATAA
2754522 TTAGCTACTG
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.23
15 2 0.04
17 6 0.13
18 1 0.02
19 27 0.57
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:2754493 original size:13 final size:13
Alignment explanation
Indices: 2754475--2754499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2754465 ACATAAGTGT
2754475 TGTATCGATACAA
1 TGTATCGATACAA
2754488 TGTATCGATACA
1 TGTATCGATACA
2754500 TAAGTATTGT
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:2754497 original size:32 final size:32
Alignment explanation
Indices: 2754456--2754518 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2754446 TTCAATAATT
*
2754456 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2754488 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2754519 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2754559 original size:13 final size:13
Alignment explanation
Indices: 2754541--2754566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2754531 GCCAAGGAAA
2754541 TGTATCGATACAT
1 TGTATCGATACAT
2754554 TGTATCGATACAT
1 TGTATCGATACAT
2754567 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:2755116 original size:12 final size:13
Alignment explanation
Indices: 2755101--2755129 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2755091 ATCCCTTAGC
2755101 AAAAAAAC-CAAA
1 AAAAAAACACAAA
2755113 AAAAAAACACAAA
1 AAAAAAACACAAA
2755126 AAAA
1 AAAA
2755130 TACTATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACACAAA
Found at i:2757008 original size:51 final size:50
Alignment explanation
Indices: 2756932--2757320 Score: 218
Period size: 52 Copynumber: 7.4 Consensus size: 50
2756922 AATTCTCCGC
* * *
2756932 AATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTT-TAT
* * * *
2756983 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC----AAAACACTAATTTTT-AT
** * * *
2757038 AATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTC-CAACCCT-ATTATTTCT
1 AATCGGGGATACTCCAACCCCGATT--T--T-----ATTTTCAAAACACTAATT-TTTAT
* * * * *
2757095 GA--GGGGATACTCCAACCCC-TTCTTTATTCTT-AAAATATTGATTTTTCAT
1 AATCGGGGATACTCCAACCCCGAT-TTTATT-TTCAAAACACTAATTTTT-AT
* *
2757144 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACTAATTTTT--AT
* * *
2757196 AATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTT--TAT
* * * * *
2757248 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACTAA--TTTTT-AT
*
2757302 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
2757321 TCGTTATTTC
Statistics
Matches: 261, Mismatches: 43, Indels: 65
0.71 0.12 0.18
Matches are distributed among these distances:
47 2 0.01
48 7 0.03
49 6 0.02
50 1 0.00
51 63 0.24
52 74 0.28
53 13 0.05
54 21 0.08
55 57 0.22
56 2 0.01
57 4 0.02
58 8 0.03
63 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTAT
Found at i:2757215 original size:52 final size:51
Alignment explanation
Indices: 2757097--2757320 Score: 220
Period size: 52 Copynumber: 4.3 Consensus size: 51
2757087 TTATTTCTGA
* * *** *
2757097 GGGGATACTCCAACCCC-TTCTTTATTCTTAAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGAT-TTTATTC-TAAAACACCAATTTTTCCACAATC
*
2757148 GGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATT-CTAAAACACCAATTTTTCCACAATC
* **
2757200 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTA-TTCTAAAACACCAATTTTTCC-ACAATC
* * * *
2757252 GGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTA-TT-CTAAAACACCAA-TTTTTCCACAATC
*
2757306 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2757321 TCGTTATTTC
Statistics
Matches: 146, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
51 42 0.29
52 71 0.49
53 12 0.08
54 16 0.11
55 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTCTAAAACACCAATTTTTCCACAATC
Found at i:2757403 original size:265 final size:262
Alignment explanation
Indices: 2756931--2757429 Score: 730
Period size: 265 Copynumber: 1.9 Consensus size: 262
2756921 CAATTCTCCG
* * * *
2756931 CAATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
*
2756996 CCAACTCCGATTTTATTTCCAAAAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGT
66 CCAACTCCGATTTTATTTCC--AAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGT
* * ** * ** **
2757061 TAATCATCGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCCTTCTTTATTCTT
129 TAATCATCGGGGACACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
*
2757126 AAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTT
194 AAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTT
2757191 TCCA
259 TCCA
* *
2757195 CAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTTAATCGGGGATAC
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATAC
* *
2757260 TCCAGCTCCGATTTTATTTCC-AAAAACACCAATTTTTTTCACAATCGAGGATACTCCAACCTCG
65 TCCAACTCCGATTTTATTTCCAAAAAACACCAA--TTTTTCACAATCGAGGATACTCCAACCCCG
* *
2757324 TTATTTCATCGGGGACACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTC
128 TTA-ATCATCGGGGACACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTC
* *
2757389 CCAAAATATTGATTTCTGATAATTGGGGATACTCCAACCCC
192 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCC
2757430 ATTATTTTCG
Statistics
Matches: 208, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
262 11 0.05
264 74 0.36
265 123 0.59
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (262 bp):
CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTA
ATCATCGGGGACACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAA
AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTC
CA
Found at i:2760942 original size:15 final size:15
Alignment explanation
Indices: 2760908--2760942 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2760898 TCAAATGAAG
*
2760908 TTATTTATTTTTAAA
1 TTATTTATTTTCAAA
*
2760923 ATATTTATTTTCAAA
1 TTATTTATTTTCAAA
2760938 TTATT
1 TTATT
2760943 AATTAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTTATTTTCAAA
Found at i:2769657 original size:31 final size:30
Alignment explanation
Indices: 2769616--2769695 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 30
2769606 GAAATTGATT
2769616 AATTAAAATTATTTTAAAAA-A-TTAAATG
1 AATTAAAATTATTTTAAAAACATTTAAATG
*
2769644 ATTTGAATTAATTA-TTTAAAAACTATTTAAATG
1 AATT-AA--AATTATTTTAAAAAC-ATTTAAATG
2769677 AATTAAAATTATTTTAAAA
1 AATTAAAATTATTTTAAAA
2769696 TTTTAGTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
28 3 0.07
29 2 0.05
30 13 0.30
31 12 0.28
32 3 0.07
33 10 0.23
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (30 bp):
AATTAAAATTATTTTAAAAACATTTAAATG
Found at i:2770369 original size:33 final size:33
Alignment explanation
Indices: 2770332--2770398 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2770322 TTCAATGATT
2770332 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2770365 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2770398 T
1 T
2770399 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2770370 original size:13 final size:13
Alignment explanation
Indices: 2770352--2770376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2770342 CATAAAATGT
2770352 TGTATCGATACAA
1 TGTATCGATACAA
2770365 TGTATCGATACA
1 TGTATCGATACA
2770377 TATTTTTTTG
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:2770459 original size:13 final size:13
Alignment explanation
Indices: 2770441--2770465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2770431 ATTACTCACA
2770441 TGTATCGATACAT
1 TGTATCGATACAT
2770454 TGTATCGATACA
1 TGTATCGATACA
2770466 CTGATTTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2770552 original size:32 final size:35
Alignment explanation
Indices: 2770474--2770555 Score: 107
Period size: 38 Copynumber: 2.3 Consensus size: 35
2770464 CACTGATTTT
*
2770474 TGTATCGATACATGCAGGCAAATTTGCCCAGATGATAA
1 TGTATCGATACATGCAAGCAAATTTGCCCA-ATG--AA
2770512 TGTATCGATACATGCAAGCAAATTTGCCC-A-G-A
1 TGTATCGATACATGCAAGCAAATTTGCCCAATGAA
2770544 TGTATCGATACA
1 TGTATCGATACA
2770556 CTATTAAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
32 13 0.30
35 1 0.02
36 1 0.02
38 28 0.65
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (35 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAATGAA
Found at i:2773751 original size:19 final size:20
Alignment explanation
Indices: 2773703--2773752 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
2773693 ACACCTAGAT
*
2773703 GTATCGATCCATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
2773723 GTATCAATACATATT-CTTG
1 GTATCGATACATATTGCTTA
2773742 GTATCGATACA
1 GTATCGATACA
2773753 CGCTAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:2773848 original size:20 final size:21
Alignment explanation
Indices: 2773804--2773851 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
2773794 CTCACTCAGT
* *
2773804 ATCGATACATACTTGAATTGT
1 ATCGATACATACGTGAATTGC
*
2773825 ATCGATACATA-GTGCATTGC
1 ATCGATACATACGTGAATTGC
2773845 ATCGATA
1 ATCGATA
2773852 TATTAAGCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (21 bp):
ATCGATACATACGTGAATTGC
Found at i:2775841 original size:12 final size:12
Alignment explanation
Indices: 2775824--2775859 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2775814 ATTATATTTT
2775824 CTTTTTCTTCTC
1 CTTTTTCTTCTC
* *
2775836 CTTTTTTTTCTT
1 CTTTTTCTTCTC
2775848 CTTTTTCTTCTC
1 CTTTTTCTTCTC
2775860 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTC
Found at i:2775852 original size:24 final size:23
Alignment explanation
Indices: 2775822--2775867 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
2775812 TGATTATATT
*
2775822 TTCTTTTTCTTCTCCTTTTTTTTC
1 TTCTTTTTCTTCT-CTATTTTTTC
2775846 TTCTTTTTCTTCTCTATTTTTT
1 TTCTTTTTCTTCTCTATTTTTT
2775868 ATTTTAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (23 bp):
TTCTTTTTCTTCTCTATTTTTTC
Found at i:2775865 original size:12 final size:11
Alignment explanation
Indices: 2775823--2775865 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
2775813 GATTATATTT
2775823 TCTTTTTCTTC
1 TCTTTTTCTTC
*
2775834 TCCTTTTTTTTC
1 T-CTTTTTCTTC
2775846 TTCTTTTTCTTC
1 -TCTTTTTCTTC
2775858 TCTATTTT
1 TCT-TTTT
2775866 TTATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 4 0.15
12 22 0.81
13 1 0.04
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTTTTTCTTC
Found at i:2775865 original size:21 final size:21
Alignment explanation
Indices: 2775818--2775865 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2775808 ACGATGATTA
*
2775818 TATTTTCTTTTTCTTCTCCTT
1 TATTTTCTTTTTCTTCTCCTC
* *
2775839 TTTTTTCTTCTTT-TTCTTCTC
1 TATTTTCTT-TTTCTTCTCCTC
2775860 TATTTT
1 TATTTT
2775866 TTATTTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTTTCTTTTTCTTCTCCTC
Found at i:2777943 original size:30 final size:30
Alignment explanation
Indices: 2777878--2777943 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
2777868 AGCAAAATAG
2777878 ATATTTATTTTTAAAGTATAATTGCAATGT
1 ATATTTATTTTTAAAGTATAATTGCAATGT
* *
2777908 CTATTTATTTTTAAA-TATTATT-CAATTTGT
1 ATATTTATTTTTAAAGTATAATTGCAA--TGT
2777938 ATATTT
1 ATATTT
2777944 TAACAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 3 0.10
29 6 0.19
30 22 0.71
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (30 bp):
ATATTTATTTTTAAAGTATAATTGCAATGT
Found at i:2779045 original size:35 final size:36
Alignment explanation
Indices: 2778985--2779073 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 36
2778975 ACTATCTTTC
*
2778985 AAGGCTAAGATAGAA--AC-CTCCTTATCTTTT-CA
1 AAGGCTAAGATAGAATCTCTCTCCTTATCTTTTCCA
** *
2779017 TGGGCTAAGATGGAATCTCTCTCCTTATCTTTTCCA
1 AAGGCTAAGATAGAATCTCTCTCCTTATCTTTTCCA
2779053 AAGGCTAAGATAGAATCTCTC
1 AAGGCTAAGATAGAATCTCTC
2779074 AATCACTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
32 12 0.26
34 1 0.02
35 13 0.28
36 20 0.43
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (36 bp):
AAGGCTAAGATAGAATCTCTCTCCTTATCTTTTCCA
Found at i:2779578 original size:22 final size:23
Alignment explanation
Indices: 2779553--2779619 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
2779543 ATGAGCAGTG
2779553 ATGAACAGTGATGAATA-GATAC
1 ATGAACAGTGATGAATACGATAC
**
2779575 ATGAACAGTGATGAATACTGATGT
1 ATGAACAGTGATGAATAC-GATAC
*
2779599 ATGAACAGTGATGTAT-CGATA
1 ATGAACAGTGATGAATACGATA
2779620 TGTGAATAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 20 0.51
23 1 0.03
24 18 0.46
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (23 bp):
ATGAACAGTGATGAATACGATAC
Found at i:2779630 original size:22 final size:22
Alignment explanation
Indices: 2779554--2779641 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 22
2779544 TGAGCAGTGA
* * **
2779554 TGAACAGTGATGAATAGATACA
1 TGAACAGTGATGTATCGATATG
* * *
2779576 TGAACAGTGATGAATACTGATGTA
1 TGAACAGTGATGTAT-C-GATATG
2779600 TGAACAGTGATGTATCGATATG
1 TGAACAGTGATGTATCGATATG
* *
2779622 TGAATAGTGATTTATCGATA
1 TGAACAGTGATGTATCGATA
2779642 CAAAGTGAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
22 37 0.66
23 1 0.02
24 18 0.32
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATATG
Found at i:2780672 original size:109 final size:108
Alignment explanation
Indices: 2780490--2780709 Score: 381
Period size: 109 Copynumber: 2.0 Consensus size: 108
2780480 AATATGTCCT
2780490 CCAAAATTATAAATTTTCTCCCCTTAATACGTTCTCACCCTTAAACCAATAAACAAAAATCTCTC
1 CCAAAATTATAAATTTTCTCCCCTTAATACGTTCTCACCCTTAAACCAATAAACAAAAATCTCTC
*
2780555 TCCCTTTTTGTTATCAAGTAAGTTGATAAAACTAAATTTATAAC
66 TCCCTTTTTGTTATCAAGTAAGTTGATAAAACCAAATTTAT-AC
*
2780599 CCAAAATTATAAATTTTCTCCTCCTTAATACGTTCTCA-CCTTAAACCAATAAACAAAAATCTTT
1 CCAAAATTATAAATTTTCTCC-CCTTAATACGTTCTCACCCTTAAACCAATAAACAAAAATCTCT
2780663 C-CCCTTTTTTGTTATCAAGTAAGTTGATAAAACCAAATTTATAC
65 CTCCC-TTTTTGTTATCAAGTAAGTTGATAAAACCAAATTTATAC
2780707 CCA
1 CCA
2780710 TAATCTCTCC
Statistics
Matches: 107, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
108 8 0.07
109 83 0.78
110 16 0.15
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (108 bp):
CCAAAATTATAAATTTTCTCCCCTTAATACGTTCTCACCCTTAAACCAATAAACAAAAATCTCTC
TCCCTTTTTGTTATCAAGTAAGTTGATAAAACCAAATTTATAC
Found at i:2781454 original size:13 final size:13
Alignment explanation
Indices: 2781436--2781461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2781426 CATACCAAAG
2781436 CAATGTATCGATA
1 CAATGTATCGATA
2781449 CAATGTATCGATA
1 CAATGTATCGATA
2781462 TAAATTTCTT
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):
CAATGTATCGATA
Found at i:2782096 original size:23 final size:24
Alignment explanation
Indices: 2782051--2782098 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2782041 CAAAGGATTG
***
2782051 AACACAAATTCAATTATGCATAAA
1 AACACAAATTCAATTAAAAATAAA
2782075 AACACAAA-TCAATTAAAAATAAA
1 AACACAAATTCAATTAAAAATAAA
2782098 A
1 A
2782099 TTTTAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.62, C:0.15, G:0.02, T:0.21
Consensus pattern (24 bp):
AACACAAATTCAATTAAAAATAAA
Found at i:2783037 original size:21 final size:21
Alignment explanation
Indices: 2783013--2783055 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2783003 CTTTTCTCCC
* *
2783013 CTAATTCATTTATTTTCTTTT
1 CTAATTCACTTAATTTCTTTT
2783034 CTAATTCACTTAATTTCTTTT
1 CTAATTCACTTAATTTCTTTT
2783055 C
1 C
2783056 AAGAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (21 bp):
CTAATTCACTTAATTTCTTTT
Found at i:2784666 original size:32 final size:32
Alignment explanation
Indices: 2784611--2784708 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
2784601 TTCAACGATT
*
2784611 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
2784644 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2784676 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2784708 T
1 T
2784709 ATAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2784668 original size:19 final size:18
Alignment explanation
Indices: 2784609--2784706 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
2784599 ATTTCAACGA
2784609 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
2784628 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
2784644 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2784660 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2784676 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2784692 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2784707 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 24 0.38
20 11 0.17
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2784681 original size:13 final size:13
Alignment explanation
Indices: 2784663--2784687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2784653 ACATAAGTGT
2784663 TGTATCGATACAA
1 TGTATCGATACAA
2784676 TGTATCGATACA
1 TGTATCGATACA
2784688 TAAGTTTTGT
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:2784765 original size:13 final size:13
Alignment explanation
Indices: 2784747--2784771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2784737 ACATTTCAAA
2784747 TGTATCGATACAT
1 TGTATCGATACAT
2784760 TGTATCGATACA
1 TGTATCGATACA
2784772 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2784909 original size:52 final size:52
Alignment explanation
Indices: 2784780--2784910 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
2784770 CACTGATCTT
*
2784780 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
* *
2784832 TGTATCGATACATGCAGGCAAATTTTCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
2784884 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
2784911 ATATTTCGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:2788254 original size:32 final size:33
Alignment explanation
Indices: 2788208--2788298 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 33
2788198 CAACACTATC
*
2788208 TTTC-AAGGCTAAGATAGAAACCTCCTTATC-T
1 TTTCAAAGGCTAAGATAGAAACCTCCCTATCTT
** *
2788239 TTTCACGGGCTAAGATAGAACCTATCTCCCTATCTT
1 TTTCAAAGGCTAAGATAGAA---ACCTCCCTATCTT
2788275 TTTCAAAGGCTAAGATAG-AACCTC
1 TTTCAAAGGCTAAGATAGAAACCTC
2788299 TCAATCACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
31 4 0.08
32 17 0.35
35 10 0.21
36 17 0.35
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (33 bp):
TTTCAAAGGCTAAGATAGAAACCTCCCTATCTT
Found at i:2788286 original size:36 final size:35
Alignment explanation
Indices: 2788203--2788297 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 35
2788193 CCTTGCAACA
2788203 CTATC-TTTC-AAGGCTAAGATAGAA---ACCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTACCTCC
* ** *
2788233 TTATCTTTTCACGGGCTAAGATAGAACCTATCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTACCTCC
2788268 CTATCTTTTTCAAAGGCTAAGATAGAACCT
1 CTATC-TTTTCAAAGGCTAAGATAGAACCT
2788298 CTCAATCACT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
30 4 0.08
31 4 0.08
32 13 0.25
35 9 0.17
36 22 0.42
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTACCTCC
Found at i:2788794 original size:22 final size:24
Alignment explanation
Indices: 2788765--2788828 Score: 87
Period size: 22 Copynumber: 2.8 Consensus size: 24
2788755 ATAATGTATC
2788765 GATACATGAACAGTGATGAACA-T
1 GATACATGAACAGTGATGAACAGT
*
2788788 -ATACATGAACAGTGATAAACAGT
1 GATACATGAACAGTGATGAACAGT
**
2788811 GATGTATGAACAGTGATG
1 GATACATGAACAGTGATG
2788829 TATTACAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.57
23 1 0.03
24 14 0.40
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.23
Consensus pattern (24 bp):
GATACATGAACAGTGATGAACAGT
Found at i:2788824 original size:14 final size:13
Alignment explanation
Indices: 2788805--2788844 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
2788795 AACAGTGATA
2788805 AACAGTGATGTAT
1 AACAGTGATGTAT
2788818 GAACAGTGATGTAT
1 -AACAGTGATGTAT
*
2788832 TACAGTGATGTAT
1 AACAGTGATGTAT
2788845 TGATACATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (13 bp):
AACAGTGATGTAT
Found at i:2788838 original size:13 final size:13
Alignment explanation
Indices: 2788806--2788845 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
2788796 ACAGTGATAA
*
2788806 ACAGTGATGTATGA
1 ACAGTGATGTAT-T
2788820 ACAGTGATGTATT
1 ACAGTGATGTATT
2788833 ACAGTGATGTATT
1 ACAGTGATGTATT
2788846 GATACATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (13 bp):
ACAGTGATGTATT
Found at i:2788943 original size:19 final size:19
Alignment explanation
Indices: 2788900--2788954 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2788890 CTTTTAGTTT
**
2788900 TATGTAT-GATACAATTCA
1 TATGTATCGATACAATGAA
2788918 TAGTGTATCGATACAATGAA
1 TA-TGTATCGATACAATGAA
2788938 TATGTATCGATACAATG
1 TATGTATCGATACAATG
2788955 TATCGATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 2 0.06
19 20 0.61
20 11 0.33
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
TATGTATCGATACAATGAA
Found at i:2788957 original size:13 final size:13
Alignment explanation
Indices: 2788939--2788963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2788929 TACAATGAAT
2788939 ATGTATCGATACA
1 ATGTATCGATACA
2788952 ATGTATCGATAC
1 ATGTATCGATAC
2788964 TTAGCAAAAT
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):
ATGTATCGATACA
Found at i:2791875 original size:3 final size:3
Alignment explanation
Indices: 2791869--2791919 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
2791859 TGAAGAAGAA
* *
2791869 GAT GAT GAT GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GGT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2791917 GAT
1 GAT
2791920 TCGGATGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:2792628 original size:30 final size:30
Alignment explanation
Indices: 2792594--2792653 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
2792584 TATGGCGCAT
2792594 CAAAAATTAAATGATATGCGTGAAACTCAA
1 CAAAAATTAAATGATATGCGTGAAACTCAA
2792624 CAAAAATTAAATGATATGCGTGAAACTCAA
1 CAAAAATTAAATGATATGCGTGAAACTCAA
2792654 AGAGCATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (30 bp):
CAAAAATTAAATGATATGCGTGAAACTCAA
Found at i:2794738 original size:61 final size:61
Alignment explanation
Indices: 2794636--2794750 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
2794626 ACAAAAGAGT
* * *
2794636 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGCCTTAAAAGGAAAAAAAG
1 TGCCACGAAGTTGTGGACTTAAAAGAGTGCCACAGACTTGTGGCCTTAAAAGGAAAAAAAG
* *
2794697 TGCCACGAAGTTGTGGGCTTAAAAGAGTGCCAC-GAACTTGTGGGCTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGAGTGCCACAG-ACTTGTGGCCTTAAAAGGA
2794751 TGCTACGAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 1 0.02
61 47 0.98
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (61 bp):
TGCCACGAAGTTGTGGACTTAAAAGAGTGCCACAGACTTGTGGCCTTAAAAGGAAAAAAAG
Found at i:2794777 original size:27 final size:28
Alignment explanation
Indices: 2794628--2794777 Score: 139
Period size: 27 Copynumber: 5.2 Consensus size: 28
2794618 CGAAATACAC
* *
2794628 AAAA-GAGTTGCCACGGAGTTGTGGACTT
1 AAAAGGAG-TGCCACGAAGTTGTGGGCTT
*
2794656 AAAAGG-GTGCCAC-AGAGTTGTGGCCTT
1 AAAAGGAGTGCCACGA-AGTTGTGGGCTT
2794683 AAAAGGAAAAAAAGTGCCACGAAGTTGTGGGCTT
1 AAAAGG------AGTGCCACGAAGTTGTGGGCTT
*
2794717 AAAA-GAGTGCCACGAACTTGTGGGCTT
1 AAAAGGAGTGCCACGAAGTTGTGGGCTT
* *
2794744 AAAAGGA-TGCTACGAAGTTGTGGACTT
1 AAAAGGAGTGCCACGAAGTTGTGGGCTT
2794771 AAAAGGA
1 AAAAGGA
2794778 AAAAGGGGCC
Statistics
Matches: 104, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
27 72 0.69
28 7 0.07
29 1 0.01
33 1 0.01
34 22 0.21
35 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (28 bp):
AAAAGGAGTGCCACGAAGTTGTGGGCTT
Found at i:2794801 original size:33 final size:33
Alignment explanation
Indices: 2794763--2794837 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 33
2794753 CTACGAAGTT
2794763 GTGGACTT-AAAAGGAAAAAGGGGCCACAGAGTC
1 GTGGACTTGAAAA-GAAAAAGGGGCCACAGAGTC
*
2794796 GTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTC
1 GTGGAC-TTGAAAAGAAAAAGGGGCCACAGAGTC
2794830 GTGGACTT
1 GTGGACTT
2794838 TGGGAAGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
33 8 0.21
34 27 0.69
35 4 0.10
ACGTcount: A:0.36, C:0.15, G:0.32, T:0.17
Consensus pattern (33 bp):
GTGGACTTGAAAAGAAAAAGGGGCCACAGAGTC
Found at i:2794890 original size:30 final size:31
Alignment explanation
Indices: 2794785--2795186 Score: 393
Period size: 30 Copynumber: 12.7 Consensus size: 31
2794775 GGAAAAAGGG
* *
2794785 GCCACAGAGTCGTGGACTTTGAAAAGAAAAAGGT
1 GCCACTGAGTCGTGGACTTTG--AAG-AAAAGAT
* * *
2794819 GCCACAGAGTCGTGGACTTTG-GGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGA-T
*
2794850 GCCACTGAGTCGTGGACTTTG-AGACAAGAT
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGAT
* * *
2794880 GCCACCGAGTCATCGACTTTGAAGAAAAGAGAT
1 GCCACTGAGTCGTGGACTTTGAAG-AAA-AGAT
* *
2794913 GCCACTGAGTCATGGACTTTGAAAAGAAAAAGGT
1 GCCACTGAGTCGTGGACTTTG--AAG-AAAAGAT
* * * *
2794947 GCCACAGAGTCGTGGACTTTG-GGAAGATAT
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGAT
* *
2794977 GCCACTAAGTCGTGGACTTTG-AGACAAGAT
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGAT
2795007 GCCACTGAGTCGTGGACTTTGAAGAAAAGAT
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGAT
*
2795038 GCCACTGAGTCGTGGACTTTGAGAAGAAAAAGGT
1 GCCACTGAGTCGTGGACTTT--GAAG-AAAAGAT
* * *
2795072 GCCACAGAGTCGTGGACTTTG-GGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGA-T
* *
2795103 GCCATTGAGTCGTGGACTTTG-AGACAAGAT
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGAT
* *
2795133 GCCATTGAGTCATGGACTTTGAAGAAAAGAGAT
1 GCCACTGAGTCGTGGACTTTGAAG-AAA-AGAT
*
2795166 GGCACTGAGTCGTGGACTTTG
1 GCCACTGAGTCGTGGACTTTG
2795187 GGAAGAGAGA
Statistics
Matches: 311, Mismatches: 43, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
30 96 0.31
31 86 0.28
32 5 0.02
33 49 0.16
34 68 0.22
35 7 0.02
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (31 bp):
GCCACTGAGTCGTGGACTTTGAAGAAAAGAT
Found at i:2794966 original size:97 final size:91
Alignment explanation
Indices: 2794812--2795154 Score: 307
Period size: 95 Copynumber: 3.7 Consensus size: 91
2794802 TTTGAAAAGA
* * * * *
2794812 AAAAGGTGCCACAGAGTCGTGGACTTTG-GGAAGAGATTGCCACTGAGTCGTGGACTTTGAGACA
1 AAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAGA-A
*
2794876 -AGATGCCACCGAGTCATCGACTTTGAAG
64 GAGATGCCACCAAGTCATCGACTTTG-AG
* * *
2794904 AAAAGAGATGCCACTGAGTCATGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTTTGG
1 -AAA-AGATGCCACTGAGTCATGGACTTTG--AAG-AAAAGATGCCACTGAGTCGTGGACTTTGA
* * * *
2794969 GAAGATATGCCACTAAGTCGTGGACTTTGAG
61 GAAGAGATGCCACCAAGTCATCGACTTTGAG
* *
2795000 ACAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGA
1 AAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAG-
* * * *
2795065 AAAAGGTGCCA-CAGAGTCGTGGACTTTGGG
65 ---AGATGCCACCA-AGTCATCGACTTTGAG
* * * * * *
2795095 AAGAGATTGCCATTGAGTCGTGGACTTTG-AGACAAGATGCCATTGAGTCATGGACTTTGA
1 AAAAGA-TGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGA
2795155 AGAAAAGAGA
Statistics
Matches: 210, Mismatches: 28, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
91 30 0.14
92 3 0.01
93 3 0.01
94 47 0.22
95 55 0.26
96 24 0.11
97 44 0.21
98 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (91 bp):
AAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGA
GATGCCACCAAGTCATCGACTTTGAG
Found at i:2800703 original size:20 final size:20
Alignment explanation
Indices: 2800680--2800752 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2800670 ACAATTCAAA
2800680 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2800700 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2800721 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2800741 GTATCGATACAT
1 GTATCGATACAT
2800753 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2800724 original size:21 final size:21
Alignment explanation
Indices: 2800698--2800773 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2800688 ACATGTTGCA
2800698 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2800719 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2800739 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2800760 ATGTATCGATACAT
1 ATGTATCGATACAT
2800774 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2800731 original size:41 final size:41
Alignment explanation
Indices: 2800680--2800773 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2800670 ACAATTCAAA
*
2800680 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2800721 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2800762 GTATCGATACAT
1 GTATCGATACAT
2800774 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2800830 original size:13 final size:13
Alignment explanation
Indices: 2800812--2800837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2800802 TACAGCAAGT
2800812 ATGTATCGATACA
1 ATGTATCGATACA
2800825 ATGTATCGATACA
1 ATGTATCGATACA
2800838 CAAAAAATTG
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:2804913 original size:15 final size:15
Alignment explanation
Indices: 2804893--2804923 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2804883 TAAAAATGTC
*
2804893 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2804908 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2804923 C
1 C
2804924 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2807015 original size:20 final size:21
Alignment explanation
Indices: 2806937--2807014 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
2806927 ATGTCCAAAA
*
2806937 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
2806957 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
2806981 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
2807002 TGTATCGATACAT
1 TGTATCGATACAT
2807015 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:2807019 original size:13 final size:13
Alignment explanation
Indices: 2807001--2807039 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2806991 ACATTTTTTG
2807001 TTGTATCGATACA
1 TTGTATCGATACA
2807014 TTGTATCGATACA
1 TTGTATCGATACA
*
2807027 CTGTATCGATACA
1 TTGTATCGATACA
2807040 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2808868 original size:31 final size:31
Alignment explanation
Indices: 2808833--2808895 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2808823 AATTTTGATA
2808833 TGAATTACTTGATTAAGGGGGAGATTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTT
2808864 TGAATTACTTGATTAAGGGGGAGATTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTT
2808895 T
1 T
2808896 AAACGGGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.46
Consensus pattern (31 bp):
TGAATTACTTGATTAAGGGGGAGATTTTTTT
Found at i:2809536 original size:20 final size:20
Alignment explanation
Indices: 2809513--2809585 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2809503 ACAATTCAAA
2809513 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2809533 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2809554 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2809574 GTATCGATACAT
1 GTATCGATACAT
2809586 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2809557 original size:21 final size:21
Alignment explanation
Indices: 2809531--2809606 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2809521 ACATGTTGCA
2809531 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2809552 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2809572 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2809593 ATGTATCGATACAT
1 ATGTATCGATACAT
2809607 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Done.