Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 1 of 59
Found at i:30 original size:6 final size:6
Alignment explanation
Indices: 12--54 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
2 ACCCCTAACC
* *
12 CCTAAA CCCTAAA CCTAAA CCTAAA CCAAAA CCAAAA CC-AAA C
1 CCTAAA -CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA C
55 AAAAAAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 4 0.11
6 25 0.71
7 6 0.17
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.09
Consensus pattern (6 bp):
CCTAAA
Found at i:7225 original size:7 final size:7
Alignment explanation
Indices: 7215--7460 Score: 164
Period size: 7 Copynumber: 35.4 Consensus size: 7
7205 ATAAAAAAAA
7215 AAACCCT
1 AAACCCT
7222 AAACCCT
1 AAACCCT
*
7229 AAACCTT
1 AAACCCT
7236 AAACCCT
1 AAACCCT
*
7243 AAATCCT
1 AAACCCT
* * *
7250 GACCCCA
1 AAACCCT
7257 AAACCCT
1 AAACCCT
7264 AAACCCT
1 AAACCCT
* * *
7271 GACCCCA
1 AAACCCT
7278 AAACCCT
1 AAACCCT
7285 AAA-CCT
1 AAACCCT
*** *
7291 TGGCCCC
1 AAACCCT
*
7298 GAACCCT
1 AAACCCT
* * *
7305 GACCCCG
1 AAACCCT
7312 AAACCCT
1 AAACCCT
*
7319 AACCCCT
1 AAACCCT
7326 AAACCCT
1 AAACCCT
* *
7333 GATCCCT
1 AAACCCT
*
7340 -GACCCTT
1 AAACCC-T
* *
7347 GAACACT
1 AAACCCT
7354 AAACCCT
1 AAACCCT
7361 -AACCCT
1 AAACCCT
*
7367 AACCCCT
1 AAACCCT
7374 -AACCCT
1 AAACCCT
* *
7380 GACCCCT
1 AAACCCT
*
7387 AACCCCT
1 AAACCCT
7394 AAACCCCT
1 AAA-CCCT
7402 -AACCCT
1 AAACCCT
7408 AAAACCCCT
1 -AAA-CCCT
7417 -AACCCT
1 AAACCCT
7423 AAACCCT
1 AAACCCT
7430 AAACCCCT
1 AAA-CCCT
7438 -AACCCT
1 AAACCCT
7444 AAACCCT
1 AAACCCT
7451 AAACCCT
1 AAACCCT
7458 AAA
1 AAA
7461 TAATTAAAGA
Statistics
Matches: 183, Mismatches: 44, Indels: 24
0.73 0.18 0.10
Matches are distributed among these distances:
6 29 0.16
7 137 0.75
8 13 0.07
9 4 0.02
ACGTcount: A:0.35, C:0.46, G:0.04, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:7603 original size:10 final size:10
Alignment explanation
Indices: 7558--7603 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
7548 AAGGATCTTT
7558 AAAATGCTTA
1 AAAATGCTTA
*
7568 AAAATCCATTA
1 AAAATGC-TTA
* *
7579 ACAAGGCTTA
1 AAAATGCTTA
7589 AAAATGCTTA
1 AAAATGCTTA
7599 AAAAT
1 AAAAT
7604 AATTCAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (10 bp):
AAAATGCTTA
Found at i:7624 original size:12 final size:13
Alignment explanation
Indices: 7609--7637 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7599 AAAATAATTC
7609 AAAAAT-CTTTTA
1 AAAAATGCTTTTA
7621 AAAAATGCTTTTA
1 AAAAATGCTTTTA
7634 AAAA
1 AAAA
7638 GTTTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (13 bp):
AAAAATGCTTTTA
Found at i:7653 original size:10 final size:10
Alignment explanation
Indices: 7640--8079 Score: 87
Period size: 10 Copynumber: 41.7 Consensus size: 10
7630 TTTAAAAAGT
7640 TTAAAAATCC
1 TTAAAAATCC
*
7650 TTAAAATTCC
1 TTAAAAATCC
*
7660 TTGAAAAGTCC
1 TT-AAAAATCC
*
7671 TTTAAAATCC
1 TTAAAAATCC
* * *
7681 TTTGAAATTCA
1 -TTAAAAATCC
* *
7692 TGAAAAAAACC
1 T-TAAAAATCC
* *
7703 TTAAAATTGC
1 TTAAAAATCC
* **
7713 TTCAAAAGAC
1 TTAAAAATCC
*
7723 TTCAAAAATCTT
1 TT-AAAAATC-C
*
7735 TTAAAAATGC
1 TTAAAAATCC
7745 TTCATAAAAT-C
1 TT-A-AAAATCC
* *
7756 TCAAAATTCC
1 TTAAAAATCC
** *
7766 TTGAAATTTCA
1 TT-AAAAATCC
* *
7777 TAAAAAAAACC
1 T-TAAAAATCC
7788 TTAAAAATCC
1 TTAAAAATCC
**
7798 TTTGAAATCC
1 TTAAAAATCC
* * *
7808 ATGAAAAAAACA
1 -T-TAAAAATCC
**
7820 TTAAAAATGG
1 TTAAAAATCC
* *
7830 TTCAAAATAC
1 TTAAAAATCC
*
7840 TTCAAGAATCC
1 TT-AAAAATCC
*
7851 TTCAAAAATGCT
1 TT-AAAAAT-CC
*
7863 TTAACAAA-CT
1 TTAA-AAATCC
*
7873 TTAAAAATTC
1 TTAAAAATCC
* * *
7883 TTCAAATTTC
1 TTAAAAATCC
**
7893 TTGAAACCTCC
1 TT-AAAAATCC
7904 TTAAAAATCC
1 TTAAAAATCC
* *
7914 ATGAAAAAAT-T
1 -T-TAAAAATCC
*
7925 TTAAAAATGC
1 TTAAAAATCC
* *
7935 TTCAAAATACT
1 TTAAAAAT-CC
*
7946 TTAAAAATCT
1 TTAAAAATCC
*
7956 TTAAAAAATGCT
1 TT-AAAAAT-CC
*
7968 TTAAAAAACC
1 TTAAAAATCC
*
7978 TTAAAATTCC
1 TTAAAAATCC
* *
7988 TTGAAATTCC
1 TTAAAAATCC
7998 TTAAAAACTCC
1 TTAAAAA-TCC
*
8009 TTGAAAATCC
1 TTAAAAATCC
**
8019 TTTGAAATCC
1 TTAAAAATCC
*
8029 ATTAAAAAAAACC
1 -TT--AAAAATCC
* *
8042 TTGAAAATGC
1 TTAAAAATCC
8052 TT-AAAATGACC
1 TTAAAAAT--CC
*
8063 TTAAACATCC
1 TTAAAAATCC
8073 TTAAAAA
1 TTAAAAA
8080 GAGTAAAAAA
Statistics
Matches: 306, Mismatches: 94, Indels: 60
0.67 0.20 0.13
Matches are distributed among these distances:
9 18 0.06
10 148 0.48
11 102 0.33
12 33 0.11
13 5 0.02
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (10 bp):
TTAAAAATCC
Found at i:7666 original size:21 final size:22
Alignment explanation
Indices: 7642--7687 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
7632 TAAAAAGTTT
7642 AAAAATCC-TTAAAATTCC-TTG
1 AAAAATCCTTTAAAA-TCCTTTG
*
7663 AAAAGTCCTTTAAAATCCTTTG
1 AAAAATCCTTTAAAATCCTTTG
7685 AAA
1 AAA
7688 TTCATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (22 bp):
AAAAATCCTTTAAAATCCTTTG
Found at i:7707 original size:117 final size:113
Alignment explanation
Indices: 7585--8058 Score: 439
Period size: 117 Copynumber: 4.2 Consensus size: 113
7575 ATTAACAAGG
* * *
7585 CTTAAAAATGCTTAAAAATAATTCAAAAATCTTTTAAAAAATGCTTTTAAAAAGTTTAAAAATCC
1 CTTAAAAATGCTTCAAAATACTTCAAAAATC-TTTAAAAAATGC-TTTAAAAACTTTAAAAATCC
* *
7650 TTAAAATTCCTTGAAAAGTCCTTTAAAATCCTTTGAAATTCATGAAAAAAAC
64 TTAAAATTCCTT-AAAAATCC-TTAAAATCCTTTGAAATCCATGAAAAAAAC
* * * * * *
7702 CTTAAAATTGCTTCAAAAGACTTCAAAAATCTTTTAAAAATGCTTCATAAAA-TCTCAAAATTCC
1 CTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAATGCTTTA-AAAACT-TTAAAAATCC
* * * *
7766 TTGAAATTTCATAAAAAAAACCTTAAAAATCCTTTGAAATCCATGAAAAAAAC
64 TT-AAAATTCCT-TAAAAATCCTT-AAAATCCTTTGAAATCCATGAAAAAAAC
* * * * * *
7819 ATTAAAAATGGTTCAAAATACTTCAAGAATCCTTCAAAAATGCTTTAACAAACTTTAAAAATTCT
1 CTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAATGCTTTAA-AAACTTTAAAAATCCT
* * * ** *
7884 TCAAATTTCTT-GAAA-CC------TCCTTAAAAATCCATG-AAAAAAT
65 TAAAATTCCTTAAAAATCCTTAAAATCCTTTGAAATCCATGAAAAAAAC
* * * *
7924 TTTAAAAATGCTTCAAAATACTTTAAAAATCTTTAAAAAATGCTTTAAAAAACCTTAAAATTCCT
1 CTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAATGCTTT-AAAAACTTTAAAAATCCT
* *
7989 TGAAATTCCTTAAAAACTCCTTGAAAATCCTTTGAAATCCATTAAAAAAAAC
65 TAAAATTCCTTAAAAA-TCCTT-AAAATCCTTTGAAATCCA-TGAAAAAAAC
*
8041 CTTGAAAATGCTT-AAAAT
1 CTTAAAAATGCTTCAAAAT
8059 GACCTTAAAC
Statistics
Matches: 285, Mismatches: 52, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
105 68 0.24
106 19 0.07
108 2 0.01
113 2 0.01
114 3 0.01
115 16 0.06
116 39 0.14
117 135 0.47
118 1 0.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (113 bp):
CTTAAAAATGCTTCAAAATACTTCAAAAATCTTTAAAAAATGCTTTAAAAACTTTAAAAATCCTT
AAAATTCCTTAAAAATCCTTAAAATCCTTTGAAATCCATGAAAAAAAC
Found at i:7795 original size:33 final size:33
Alignment explanation
Indices: 7758--7827 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
7748 ATAAAATCTC
* *
7758 AAAATTCC-TTGAAATTTCATAAAAAAAACCTTA
1 AAAATTCCTTTGAAA-TCCATAAAAAAAACATTA
*
7791 AAAA-TCCTTTGAAATCCATGAAAAAAACATTA
1 AAAATTCCTTTGAAATCCATAAAAAAAACATTA
7823 AAAAT
1 AAAAT
7828 GGTTCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.27
Consensus pattern (33 bp):
AAAATTCCTTTGAAATCCATAAAAAAAACATTA
Found at i:7941 original size:11 final size:11
Alignment explanation
Indices: 7924--7974 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
7914 ATGAAAAAAT
7924 TTTAAAAATGC
1 TTTAAAAATGC
* *
7935 -TTCAAAATAC
1 TTTAAAAATGC
7945 TTTAAAAAT-C
1 TTTAAAAATGC
7955 TTTAAAAAATGC
1 TTT-AAAAATGC
7967 TTTAAAAA
1 TTTAAAAA
7975 ACCTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 12 0.35
11 18 0.53
12 4 0.12
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (11 bp):
TTTAAAAATGC
Found at i:7943 original size:105 final size:106
Alignment explanation
Indices: 7786--8018 Score: 292
Period size: 105 Copynumber: 2.2 Consensus size: 106
7776 ATAAAAAAAA
** * *
7786 CCTTAAAAA-TCCTTTGAAATCCATGAAAAAAACATTAAAAATGGTTCAAAATACTTCAAGAATC
1 CCTTAAAAACTCCTTAAAAATCCATGAAAAAAACATTAAAAATGCTTCAAAATACTTCAAAAATC
* * *
7850 CTTCAAAAATGCTTTAACAAACTTTAAAAATT-CTTCAAATT
66 CTTAAAAAATGCTTTAAAAAACCTT-AAAATTCCTTCAAATT
* * * ** *
7891 TCTTGAAACCTCCTTAAAAATCCATG-AAAAAATTTTAAAAATGCTTCAAAATACTTTAAAAATC
1 CCTTAAAAACTCCTTAAAAATCCATGAAAAAAACATTAAAAATGCTTCAAAATACTTCAAAAATC
* *
7955 TTTAAAAAATGCTTTAAAAAACCTTAAAATTCCTTGAAATT
66 CTTAAAAAATGCTTTAAAAAACCTTAAAATTCCTTCAAATT
*
7996 CCTTAAAAACTCCTTGAAAATCC
1 CCTTAAAAACTCCTTAAAAATCC
8019 TTTGAAATCC
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
104 6 0.06
105 87 0.81
106 14 0.13
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (106 bp):
CCTTAAAAACTCCTTAAAAATCCATGAAAAAAACATTAAAAATGCTTCAAAATACTTCAAAAATC
CTTAAAAAATGCTTTAAAAAACCTTAAAATTCCTTCAAATT
Found at i:7963 original size:22 final size:22
Alignment explanation
Indices: 7938--7983 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
7928 AAAATGCTTC
* *
7938 AAAATACTTTAAAAATCTTTAA
1 AAAATACTTTAAAAAACCTTAA
*
7960 AAAATGCTTTAAAAAACCTTAA
1 AAAATACTTTAAAAAACCTTAA
7982 AA
1 AA
7984 TTCCTTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATACTTTAAAAAACCTTAA
Found at i:7968 original size:32 final size:30
Alignment explanation
Indices: 7918--7983 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
7908 AAATCCATGA
* *
7918 AAAAATTTTAAAAATGCTTCAAAATACTTT
1 AAAAATTTTAAAAATGCTTCAAAAAACCTT
*
7948 AAAAATCTTTAAAAAATGCTTTAAAAAACCTT
1 AAAAAT-TTT-AAAAATGCTTCAAAAAACCTT
7980 AAAA
1 AAAA
7984 TTCCTTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 6 0.19
31 3 0.10
32 22 0.71
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAATTTTAAAAATGCTTCAAAAAACCTT
Found at i:7969 original size:12 final size:11
Alignment explanation
Indices: 7917--7975 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
7907 AAAATCCATG
7917 AAAAAAT-TTT
1 AAAAAATCTTT
*
7927 -AAAAATGCTTC
1 AAAAAAT-CTTT
*
7938 AAAATA-CTTT
1 AAAAAATCTTT
7948 -AAAAATCTTT
1 AAAAAATCTTT
7958 AAAAAATGCTTT
1 AAAAAAT-CTTT
7970 AAAAAA
1 AAAAAA
7976 CCTTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
9 10 0.26
10 7 0.18
11 8 0.21
12 14 0.36
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.32
Consensus pattern (11 bp):
AAAAAATCTTT
Found at i:8009 original size:21 final size:20
Alignment explanation
Indices: 7971--8020 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
7961 AAATGCTTTA
* *
7971 AAAAACCTTAAAATTCCTTG
1 AAAATCCTTAAAACTCCTTG
*
7991 AAATTCCTTAAAAACTCCTTG
1 AAAATCCTT-AAAACTCCTTG
8012 AAAATCCTT
1 AAAATCCTT
8021 TGAAATCCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAATCCTTAAAACTCCTTG
Found at i:8015 original size:11 final size:11
Alignment explanation
Indices: 7976--8025 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
7966 CTTTAAAAAA
7976 CCTT-AAAATT
1 CCTTGAAAATT
7986 CCTTG-AAATT
1 CCTTGAAAATT
* *
7996 CCTTAAAAACT
1 CCTTGAAAATT
8007 CCTTGAAAA-T
1 CCTTGAAAATT
8017 CCTTTGAAA
1 CC-TTGAAA
8026 TCCATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 16 0.47
11 18 0.53
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (11 bp):
CCTTGAAAATT
Found at i:8264 original size:10 final size:10
Alignment explanation
Indices: 8230--8826 Score: 109
Period size: 10 Copynumber: 57.4 Consensus size: 10
8220 AAGGATATTG
*
8230 AAAATGCTTA
1 AAAATCCTTA
*
8240 AAAATCCATGAA
1 AAAATCC-T-TA
*
8252 AAAAGCCTTA
1 AAAATCCTTA
* *
8262 AAAATACTTC
1 AAAATCCTTA
**
8272 AAAAGGCTTCA
1 AAAATCCTT-A
*
8283 AAAATCTTTTA
1 AAAATC-CTTA
*
8294 AAAATGCTTTAA
1 AAAAT-CCTT-A
8306 AAAAT-CTTA
1 AAAATCCTTA
*
8315 AAATTCCTTA
1 AAAATCCTTA
8325 AAAATCCTTTAA
1 AAAATCC-TT-A
*
8337 AAAAACCTTA
1 AAAATCCTTA
*
8347 AAAATGCTT-
1 AAAATCCTTA
*
8356 TAAATGACCTTA
1 AAAAT--CCTTA
* *
8368 AACATCCTTC
1 AAAATCCTTA
* *
8378 AAAAGCAC-GA
1 AAAATC-CTTA
**
8388 AAAAAACTTAA
1 AAAATCCTT-A
*
8399 AAAAACCTTA
1 AAAATCCTTA
*
8409 AAAATGCTT-
1 AAAATCCTTA
* *
8418 AAAATTCGTA
1 AAAATCCTTA
**
8428 ATAAATAATTAA
1 A-AAATCCTT-A
8440 AAAAT--TT-
1 AAAATCCTTA
8447 AAAATCCTTTA
1 AAAATCC-TTA
*
8458 AAAAT-ATTA
1 AAAATCCTTA
* *
8467 AAAATCAATCA
1 AAAATC-CTTA
** ** *
8478 AATTTAATGA
1 AAAATCCTTA
*
8488 AAAATCTATTA
1 AAAATC-CTTA
8499 AAAA-CCTTA
1 AAAATCCTTA
* * *
8508 CATATGCTTA
1 AAAATCCTTA
* *
8518 AAAGGTTCTTA
1 AAA-ATCCTTA
*
8529 AAAATGCTTA
1 AAAATCCTTA
*
8539 AAAAT-TTATGAA
1 AAAATCCT-T--A
*
8551 AAAAGCCTTA
1 AAAATCCTTA
* *
8561 AAAATGCTTC
1 AAAATCCTTA
*
8571 AAAATACCTCA
1 AAAAT-CCTTA
*
8582 AAAATCTTTA
1 AAAATCCTTA
*
8592 AAAATGCTTTA
1 AAAAT-CCTTA
* *
8603 AAAAACTTTA
1 AAAATCCTTA
*
8613 AAAATCATTA
1 AAAATCCTTA
8623 AAAATCCTTGA
1 AAAATCCTT-A
8634 AAAATCCTTA
1 AAAATCCTTA
* * *
8644 GAAATCTTTT
1 AAAATCCTTA
*
8654 AAAATCCATGAA
1 AAAATCC-T-TA
* *
8666 AAAAACCTTT
1 AAAATCCTTA
** *
8676 AAAATGTTTC
1 AAAATCCTTA
**
8686 AAAAGACTTCA
1 AAAATCCTT-A
** *
8697 AAACATTTTTT
1 AAA-ATCCTTA
*
8708 AAAATGCTTTA
1 AAAAT-CCTTA
*
8719 AAAAACCTTA
1 AAAATCCTTA
* *
8729 AAATTTCTTA
1 AAAATCCTTA
* *
8739 AAATTCTTTA
1 AAAATCCTTA
*
8749 AAAACTCTTTA
1 AAAA-TCCTTA
* *
8760 AAAATCGTTT
1 AAAATCCTTA
* *
8770 GAAATCCATGA
1 AAAATCC-TTA
8781 AAAATACCTTA
1 AAAAT-CCTTA
*
8792 AAAATGCTT-
1 AAAATCCTTA
8801 AAAATGACCTTA
1 AAAAT--CCTTA
* *
8813 AACATCCTTG
1 AAAATCCTTA
8823 AAAA
1 AAAA
8827 GAGCAAAAAA
Statistics
Matches: 423, Mismatches: 119, Indels: 90
0.67 0.19 0.14
Matches are distributed among these distances:
7 5 0.01
9 38 0.09
10 197 0.47
11 133 0.31
12 49 0.12
13 1 0.00
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (10 bp):
AAAATCCTTA
Found at i:8296 original size:11 final size:10
Alignment explanation
Indices: 8259--8359 Score: 60
Period size: 11 Copynumber: 9.5 Consensus size: 10
8249 GAAAAAAGCC
8259 TTAAAAATACT
1 TTAAAAAT-CT
* **
8270 TCAAAAGGCT
1 TTAAAAATCT
*
8280 TCAAAAATCTT
1 TTAAAAATC-T
8291 TTAAAAATGCT
1 TTAAAAAT-CT
8302 TTAAAAAATC-
1 TT-AAAAATCT
* *
8312 TTAAAATTCC
1 TTAAAAATCT
8322 TTAAAAATCCT
1 TTAAAAAT-CT
* *
8333 TTAAAAAAACC
1 TT-AAAAATCT
8344 TTAAAAATGCT
1 TTAAAAAT-CT
8355 TTAAA
1 TTAAA
8360 TGACCTTAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
9 6 0.09
10 23 0.33
11 29 0.41
12 12 0.17
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.33
Consensus pattern (10 bp):
TTAAAAATCT
Found at i:8303 original size:12 final size:11
Alignment explanation
Indices: 8282--8359 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 11
8272 AAAAGGCTTC
*
8282 AAAAATCTTTT
1 AAAAATCTTTA
8293 AAAAATGCTTTA
1 AAAAAT-CTTTA
8305 AAAAATC-TT-
1 AAAAATCTTTA
* *
8314 AAAATTCCTT-
1 AAAAATCTTTA
8324 AAAAATCCTTTA
1 AAAAAT-CTTTA
* *
8336 AAAAAACCTT-
1 AAAAATCTTTA
8346 AAAAATGCTTTA
1 AAAAAT-CTTTA
8358 AA
1 AA
8360 TGACCTTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
9 6 0.11
10 14 0.26
11 16 0.30
12 17 0.32
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAAATCTTTA
Found at i:8367 original size:43 final size:41
Alignment explanation
Indices: 8230--8381 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 41
8220 AAGGATATTG
* *
8230 AAAATG-CTTAAAAATCCATGAAAAAAGCCTTAAAAATACTT
1 AAAATGCCTTAAAAATCCTTTAAAAAAGCCTTAAAAAT-CTT
* * * *
8271 CAAAA-GGCTTCAAAAATCTTTTAAAAATGCTTTAAAAAATCTT
1 -AAAATGCCTT-AAAAATCCTTTAAAAAAGCCTT-AAAAATCTT
* *
8314 AAAATTCCTTAAAAATCCTTTAAAAAAACCTTAAAAATGCTT
1 AAAATGCCTTAAAAATCCTTTAAAAAAGCCTTAAAAAT-CTT
* * *
8356 TAAATGACCTTAAACATCCTTCAAAA
1 AAAATG-CCTTAAAAATCCTTTAAAA
8382 GCACGAAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 7 0.08
42 36 0.40
43 40 0.45
44 6 0.07
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.29
Consensus pattern (41 bp):
AAAATGCCTTAAAAATCCTTTAAAAAAGCCTTAAAAATCTT
Found at i:8574 original size:21 final size:20
Alignment explanation
Indices: 8550--8657 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 20
8540 AAATTTATGA
*
8550 AAAAAGCCTTAAAAATGCTTC
1 AAAAAGCCTTAAAAAT-CTTT
*
8571 AAAATA-CCTCAAAAATCTTT
1 AAAA-AGCCTTAAAAATCTTT
* *
8591 AAAAATGCTTTAAAAAACTTT
1 AAAAA-GCCTTAAAAATCTTT
* * *
8612 AAAAATCATTAAAAATCCTTG
1 AAAAAGCCTTAAAAAT-CTTT
* *
8633 AAAAATCCTTAGAAATCTTT
1 AAAAAGCCTTAAAAATCTTT
*
8653 TAAAA
1 AAAAA
8658 TCCATGAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
19 1 0.01
20 22 0.31
21 46 0.66
22 1 0.01
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAAAGCCTTAAAAATCTTT
Found at i:8585 original size:32 final size:31
Alignment explanation
Indices: 8525--8638 Score: 86
Period size: 31 Copynumber: 3.6 Consensus size: 31
8515 TTAAAAGGTT
** *
8525 CTTAAAAATGCTTAAAAATTTATGAAAAAAGC
1 CTTAAAAATGCTTAAAAATACAT-CAAAAAGC
* * *
8557 CTTAAAAATGCTTCAAAATACCTCAAAAATC
1 CTTAAAAATGCTTAAAAATACATCAAAAAGC
* * * *
8588 TTTAAAAATGCTTTAAAAA-ACTTTAAAAATC
1 CTTAAAAATGC-TTAAAAATACATCAAAAAGC
* *
8619 ATTAAAAATCCTTGAAAAAT
1 CTTAAAAATGCTT-AAAAAT
8639 CCTTAGAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
30 2 0.03
31 40 0.60
32 25 0.37
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (31 bp):
CTTAAAAATGCTTAAAAATACATCAAAAAGC
Found at i:8659 original size:31 final size:31
Alignment explanation
Indices: 8558--8689 Score: 120
Period size: 31 Copynumber: 4.2 Consensus size: 31
8548 GAAAAAAGCC
* * * *
8558 TTAAAAATGCTTCAAAATACCTCAAAAATCT
1 TTAAAAATCCTTGAAAAAACCTTAAAAATCT
* * * *
8589 TTAAAAATGCTTTAAAAAACTTTAAAAATCA
1 TTAAAAATCCTTGAAAAAACCTTAAAAATCT
* *
8620 TTAAAAATCCTTGAAAAATCCTTAGAAATCT
1 TTAAAAATCCTTGAAAAAACCTTAAAAATCT
* * * *
8651 TTTAAAATCCATGAAAAAAACCTTTAAAATGT
1 TTAAAAATCCTTG-AAAAAACCTTAAAAATCT
*
8683 TTCAAAA
1 TTAAAAA
8690 GACTTCAAAA
Statistics
Matches: 82, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
31 62 0.76
32 20 0.24
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (31 bp):
TTAAAAATCCTTGAAAAAACCTTAAAAATCT
Found at i:8716 original size:299 final size:298
Alignment explanation
Indices: 8023--8679 Score: 767
Period size: 299 Copynumber: 2.2 Consensus size: 298
8013 AAATCCTTTG
* * * * * * * * *
8023 AAATCCATTAAAAAAAACCTTGAAAATGCTTAAAATGACCTTAAACATCCTTAAAAAGAGTAAAA
1 AAATCC-TTTAAAAAAACCTTAAAAATGCTTTAAAT-ACCTAAAAAAACCTT-CAAA-AG-CACA
* * *
8088 AAAAAACTTGAAAAAA-CTTAAAAAATGCTTAAAATTCGTAATAAGCAATTAATGAAATTTAAAA
61 AAAAAACTTAAAAAAACCTT-AAAAATGCTTAAAATTCGTAATAAACAATTAATAAAATTTAAAA
* * * *
8152 TCTTTAAAAAATATCAAACATATCTCAAATTTCATTAAAAATCTCTTGAAAACCTTAAATATGCT
125 TCTTTAAAAAATATCAAACATATCTCAAATTTAATGAAAAATCTATTAAAAACCTTAAATATGCT
* * *
8217 TAAAAGGATATTGAAAATGCTTAAAAATCCATGAAAAAAGCCTTAAAAATACTTCAAAAGGCTTC
190 TAAAAGGATATTAAAAATGCTTAAAAATCCATGAAAAAAGCCTTAAAAATACTTCAAAAGACCTC
* *
8282 AAAAATCTTTTAAAAATGCTTTAAAAAATCTTAAAATTCCTTAA
255 AAAAATCTTTTAAAAATGCTTTAAAAAATCTTAAAAATCATTAA
* * *
8326 AAATCCTTTAAAAAAACCTTAAAAATGCTTTAAATGACCTTAAACATCCTTCAAAAGCACGAAAA
1 AAATCCTTTAAAAAAACCTTAAAAATGCTTTAAAT-ACCTAAAAAAACCTTCAAAAGCAC-AAAA
*
8391 AAACTTAAAAAAACCTTAAAAATGCTTAAAATTCGTAATAAATAATTAA-AAAATTTAAAATCCT
64 AAACTTAAAAAAACCTTAAAAATGCTTAAAATTCGTAATAAACAATTAATAAAATTTAAAAT-CT
* *
8455 TT-AAAAATATTAAA-A-ATCAATCAAATTTAATGAAAAATCTATTAAAAACCTTACATATGCTT
128 TTAAAAAATATCAAACATATC--TCAAATTTAATGAAAAATCTATTAAAAACCTTAAATATGCTT
* * ** * *
8517 AAAAGGTTCTTAAAAATGCTTAAAAATTTATGAAAAAAGCCTTAAAAATGCTTCAAAATACCTCA
191 AAAAGGATATTAAAAATGCTTAAAAATCCATGAAAAAAGCCTTAAAAATACTTCAAAAGACCTCA
8582 AAAATC-TTTAAAAATGCTTTAAAAAA-CTTTAAAAATCATTAA
256 AAAATCTTTTAAAAATGCTTTAAAAAATC-TTAAAAATCATTAA
* * * *
8624 AAATCC-TTGAAAAATCCTTAGAAAT-CTTTTAAA-ATCCATGAAAAAAACCTTTAAAA
1 AAATCCTTTAAAAAAACCTTAAAAATGC-TTTAAATA-CC-T-AAAAAAACCTTCAAAA
8680 TGTTTCAAAA
Statistics
Matches: 310, Mismatches: 34, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
295 1 0.00
296 3 0.01
297 27 0.09
298 51 0.16
299 122 0.39
300 52 0.17
301 6 0.02
302 42 0.14
303 6 0.02
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (298 bp):
AAATCCTTTAAAAAAACCTTAAAAATGCTTTAAATACCTAAAAAAACCTTCAAAAGCACAAAAAA
ACTTAAAAAAACCTTAAAAATGCTTAAAATTCGTAATAAACAATTAATAAAATTTAAAATCTTTA
AAAAATATCAAACATATCTCAAATTTAATGAAAAATCTATTAAAAACCTTAAATATGCTTAAAAG
GATATTAAAAATGCTTAAAAATCCATGAAAAAAGCCTTAAAAATACTTCAAAAGACCTCAAAAAT
CTTTTAAAAATGCTTTAAAAAATCTTAAAAATCATTAA
Found at i:8721 original size:116 final size:115
Alignment explanation
Indices: 8546--8810 Score: 329
Period size: 116 Copynumber: 2.3 Consensus size: 115
8536 TTAAAAATTT
* * *
8546 ATGAAAAAAGCCTTAAAAATGCTTCAAAATACCTCAAAAATCTTTAAAAATGCTTTAAAAAACTT
1 ATGAAAAAAACCTTAAAAATGCTTCAAAAGACCTCAAAAATCTTTAAAAATGCTTTAAAAAACCT
* *
8611 TAAAA-ATCATTAAAAATCCTTGAAAAA-TCCTTAGAAATCTTTTAAAATCC
66 TAAAATATC-TT-AAAATCCTTGAAAAACTCCTTAAAAATCGTTTAAAATCC
* * * * *
8661 ATGAAAAAAACCTTTAAAATGTTTCAAAAGACTTCAAAACATTTTTTAAAATGCTTTAAAAAACC
1 ATGAAAAAAACCTTAAAAATGCTTCAAAAGACCTCAAAA-ATCTTTAAAAATGCTTTAAAAAACC
* * * * *
8726 TTAAAATTTCTTAAAATTCTTTAAAAACTCTTTAAAAATCGTTTGAAATCC
65 TTAAAATATCTTAAAATCCTTGAAAAACTCCTTAAAAATCGTTTAAAATCC
*
8777 ATGAAAAATACCTTAAAAATGCTT-AAAATGACCT
1 ATGAAAAAAACCTTAAAAATGCTTCAAAA-GACCT
8811 TAAACATCCT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
115 51 0.40
116 74 0.58
117 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.32
Consensus pattern (115 bp):
ATGAAAAAAACCTTAAAAATGCTTCAAAAGACCTCAAAAATCTTTAAAAATGCTTTAAAAAACCT
TAAAATATCTTAAAATCCTTGAAAAACTCCTTAAAAATCGTTTAAAATCC
Found at i:9161 original size:32 final size:31
Alignment explanation
Indices: 9125--9225 Score: 121
Period size: 32 Copynumber: 3.2 Consensus size: 31
9115 GAAAAAACCC
* *
9125 TTAAAATTGCTTCAAAAGACTTCAAAAATCTT
1 TTAAAAATGCTTCAAAAAACTTCAAAAATC-T
*
9157 TTAAAAATGCTTCAAAATACTTCAAAAATCCT
1 TTAAAAATGCTTCAAAAAACTTCAAAAAT-CT
* * * *
9189 TAAAAAATGCTTTAAAAAACTTTAAAAATCA
1 TTAAAAATGCTTCAAAAAACTTCAAAAATCT
9220 TTAAAA
1 TTAAAA
9226 TTTCTTGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
31 6 0.10
32 53 0.88
33 1 0.02
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (31 bp):
TTAAAAATGCTTCAAAAAACTTCAAAAATCT
Found at i:9184 original size:11 final size:11
Alignment explanation
Indices: 9134--9217 Score: 59
Period size: 11 Copynumber: 7.9 Consensus size: 11
9124 CTTAAAATTG
*
9134 CTTC-AAAAGA
1 CTTCAAAAATA
9144 CTTCAAAAAT-
1 CTTCAAAAATA
* *
9154 CTTTTAAAAATG
1 C-TTCAAAAATA
9166 CTTC-AAAATA
1 CTTCAAAAATA
*
9176 CTTCAAAAATC
1 CTTCAAAAATA
* *
9187 CTTAAAAAATG
1 CTTCAAAAATA
*
9198 CTTTAAAAA-A
1 CTTCAAAAATA
*
9208 CTTTAAAAAT
1 CTTCAAAAAT
9218 CATTAAAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
10 23 0.38
11 36 0.60
12 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (11 bp):
CTTCAAAAATA
Found at i:9193 original size:10 final size:10
Alignment explanation
Indices: 9157--9249 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
9147 CAAAAATCTT
*
9157 TTAAAAATGC
1 TTAAAAATCC
* *
9167 TTCAAAATAC
1 TTAAAAATCC
9177 TTCAAAAATCC
1 TT-AAAAATCC
*
9188 TTAAAAAATGCT
1 TT-AAAAAT-CC
* *
9200 TTAAAAAACT
1 TTAAAAATCC
*
9210 TTAAAAATCA
1 TTAAAAATCC
* *
9220 TTAAAATTTC
1 TTAAAAATCC
*
9230 TTGAAAACTCC
1 TT-AAAAATCC
9241 TTAAAAATC
1 TTAAAAATC
9250 TATGAAAAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
10 35 0.54
11 27 0.42
12 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (10 bp):
TTAAAAATCC
Found at i:9340 original size:21 final size:20
Alignment explanation
Indices: 9308--9350 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
9298 CAAAAATGCT
* *
9308 TTAAAAAACCTTGGAATTCC
1 TTAAAAAACCTTGAAAATCC
*
9328 TTAAAAACTCCTTGAAAATCC
1 TTAAAAA-ACCTTGAAAATCC
9349 TT
1 TT
9351 TGAAATCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (20 bp):
TTAAAAAACCTTGAAAATCC
Found at i:9350 original size:108 final size:109
Alignment explanation
Indices: 9157--9369 Score: 277
Period size: 108 Copynumber: 2.0 Consensus size: 109
9147 CAAAAATCTT
*
9157 TTAAAAATGCTTCAAAATACTTCAAAAATCCTTAAAAAATGCTTTAAAAAACTTTAAAAATCATT
1 TTAAAAATGCTTCAAAATACTTCAAAAATCCTTAAAAAATGCTTTAAAAAACCTTAAAAATCATT
* * *
9222 AAAATTTCTTGAAAACTCCTTAAAAATCTA-TGAAAAAAAAAAC
66 AAAACTCCTTGAAAACTCCTTAAAAATCAATTGAAAAAAAAAAC
* * * * ** * *
9265 TTAAAAATTCTTCAAAATATTTCAAAAATCTTTCAAAAATGCTTTAAAAAACCTTGGAATTCCTT
1 TTAAAAATGCTTCAAAATACTTCAAAAATCCTTAAAAAATGCTTTAAAAAACCTTAAAAATCATT
**
9330 AAAAACTCCTTGAAAA-TCCTTTGAAATCAATTGAAAAAAA
66 -AAAACTCCTTGAAAACTCCTTAAAAATCAATTGAAAAAAA
9370 CCTTGAAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
108 67 0.75
109 22 0.25
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.31
Consensus pattern (109 bp):
TTAAAAATGCTTCAAAATACTTCAAAAATCCTTAAAAAATGCTTTAAAAAACCTTAAAAATCATT
AAAACTCCTTGAAAACTCCTTAAAAATCAATTGAAAAAAAAAAC
Found at i:9611 original size:12 final size:13
Alignment explanation
Indices: 9594--9622 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9584 AAAAGAGTTC
9594 AAAAAT-CTTTAA
1 AAAAATGCTTTAA
9606 AAAAATGCTTTAA
1 AAAAATGCTTTAA
9619 AAAA
1 AAAA
9623 CCTTGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAAATGCTTTAA
Found at i:9647 original size:21 final size:20
Alignment explanation
Indices: 9615--9657 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
9605 AAAAAATGCT
*
9615 TTAAAAAACCTTGAAATTCC
1 TTAAAAAACCTTGAAAATCC
*
9635 TTAAAAACTCCTTGAAAATCC
1 TTAAAAA-ACCTTGAAAATCC
9656 TT
1 TT
9658 TGAAATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (20 bp):
TTAAAAAACCTTGAAAATCC
Found at i:9913 original size:11 final size:11
Alignment explanation
Indices: 9897--9956 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
9887 GAAAAAAGCC
9897 TTAAAAATAC-
1 TTAAAAATACT
* *
9907 TTCAAAAGACT
1 TTAAAAATACT
9918 TTAAAAAT-CT
1 TTAAAAATACT
*
9928 TTAAAAAATGCT
1 TT-AAAAATACT
9940 TTAAAAA-ACCT
1 TTAAAAATA-CT
9951 TTAAAA
1 TTAAAA
9957 TCCTTGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 12 0.29
11 25 0.61
12 4 0.10
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (11 bp):
TTAAAAATACT
Found at i:9929 original size:10 final size:10
Alignment explanation
Indices: 9897--9956 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 10
9887 GAAAAAAGCC
9897 TTAAAAATACT
1 TTAAAAAT-CT
*
9908 TCAAAAGA-CT
1 TTAAAA-ATCT
9918 TTAAAAATCT
1 TTAAAAATCT
9928 TTAAAAAATGCT
1 TT-AAAAAT-CT
*
9940 TTAAAAAACCT
1 TT-AAAAATCT
9951 TTAAAA
1 TTAAAA
9957 TCCTTGAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
9 1 0.02
10 15 0.36
11 15 0.36
12 11 0.26
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (10 bp):
TTAAAAATCT
Found at i:9941 original size:12 final size:11
Alignment explanation
Indices: 9916--9956 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
9906 CTTCAAAAGA
9916 CTTT-AAAAAT
1 CTTTAAAAAAT
9926 CTTTAAAAAAT
1 CTTTAAAAAAT
*
9937 GCTTTAAAAAAC
1 -CTTTAAAAAAT
9949 CTTTAAAA
1 CTTTAAAA
9957 TCCTTGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 4 0.14
11 14 0.50
12 10 0.36
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.34
Consensus pattern (11 bp):
CTTTAAAAAAT
Found at i:10154 original size:19 final size:19
Alignment explanation
Indices: 10121--10174 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
10111 AAAGAAATTT
* *
10121 AAAATCCTTTAAAAACATC
1 AAAAACCTTAAAAAACATC
* *
10140 AAAAACCTTAAAAAAACTTG
1 AAAAACCTT-AAAAAACATC
10160 AACAAACCTTAAAAA
1 AA-AAACCTTAAAAA
10175 TGCTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 14 0.48
21 7 0.24
ACGTcount: A:0.59, C:0.19, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAACCTTAAAAAACATC
Found at i:10618 original size:64 final size:64
Alignment explanation
Indices: 10466--10617 Score: 281
Period size: 64 Copynumber: 2.4 Consensus size: 64
10456 CTTATTATGA
*
10466 ATTTTAAGCATTTTTGAAGGTTTTTTCAAGTCTTTTTTGCCTCTTTTTAAGGGTGTTTAAGGTC
1 ATTTTAAGCATTTTTGAAGGTTTTTTCAAGTCTTTTTTGCCTCTTTTTAAGGGTGTTTAAGGAC
10530 ATTTTAAGCATTTTTGAAGGTTTTTTCAAGTCTTTTTTGCCTCTTTTTAAGGGTGTTTAAGGAC
1 ATTTTAAGCATTTTTGAAGGTTTTTTCAAGTCTTTTTTGCCTCTTTTTAAGGGTGTTTAAGGAC
10594 ATTTTAAGCA-TTTT-AAGGTTTTTT
1 ATTTTAAGCATTTTTGAAGGTTTTTT
10618 TCATGGATTT
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
62 10 0.11
63 4 0.05
64 73 0.84
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (64 bp):
ATTTTAAGCATTTTTGAAGGTTTTTTCAAGTCTTTTTTGCCTCTTTTTAAGGGTGTTTAAGGAC
Found at i:10647 original size:9 final size:10
Alignment explanation
Indices: 10573--10893 Score: 89
Period size: 11 Copynumber: 30.7 Consensus size: 10
10563 TTTTTGCCTC
*
10573 TTTTTAAGGG
1 TTTTTAAGGA
*
10583 TGTTTAAGGA
1 TTTTTAAGGA
* *
10593 CATTTTAAGCA
1 -TTTTTAAGGA
*
10604 -TTTTAAGGTT
1 TTTTTAAGG-A
*
10614 TTTTTCATGGA
1 TTTTT-AAGGA
**
10625 TTTCAAAGGA
1 TTTTTAAGGA
*
10635 TTTTTAAGGTT
1 TTTTTAAGG-A
10646 TTTTTAAGGA
1 TTTTTAAGGA
* *
10656 ATTCTAAGGA
1 TTTTTAAGGA
*
10666 TTTTTGAAGCA
1 TTTTT-AAGGA
*
10677 TTTTTAAAAGA
1 TTTTT-AAGGA
*
10688 TTTTTAAAG-
1 TTTTTAAGGA
*
10697 TCTTTTGAAGCA
1 T-TTTT-AAGGA
*
10709 TTTTTAAGGTT
1 TTTTTAAGG-A
*
10720 TTTTTCATGGA
1 TTTTT-AAGGA
*
10731 -TTTCAATGGA
1 TTTTTAA-GGA
* *
10741 TTTTGAAAGA
1 TTTTTAAGGA
* *
10751 GTTGTCAAGGA
1 -TTTTTAAGGA
* *
10762 ATTTTAACGA
1 TTTTTAAGGA
*
10772 TTTTTAAAG-
1 TTTTTAAGGA
*
10781 TTTTTAAAAGCA
1 TTTTT--AAGGA
*
10793 TTTTTGAAAGA
1 TTTTT-AAGGA
*
10804 TTTTTGAAGTA
1 TTTTT-AAGGA
* *
10815 TTTTGAAGCA
1 TTTTTAAGGA
**
10825 TTTTTAAAGTT
1 TTTTT-AAGGA
10836 TTTTTAATGGA
1 TTTTTAA-GGA
*
10847 TTTTTAA-GC
1 TTTTTAAGGA
10856 TTTCTTAA-GA
1 TTT-TTAAGGA
*
10866 TCCTTTTAAGCA
1 T--TTTTAAGGA
*
10878 TATTTAAGG-
1 TTTTTAAGGA
10887 TTTTTAA
1 TTTTTAA
10894 AAGATTTTTC
Statistics
Matches: 225, Mismatches: 63, Indels: 47
0.67 0.19 0.14
Matches are distributed among these distances:
9 24 0.11
10 84 0.37
11 101 0.45
12 16 0.07
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.48
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:10648 original size:31 final size:32
Alignment explanation
Indices: 10604--10670 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
10594 ATTTTAAGCA
* *
10604 TTTTAAGGTTTTTTTCATGGATTTCAAAGGAT
1 TTTTAAGGTTTTTTTCAAGGAATTCAAAGGAT
*
10636 TTTTAAGGTTTTTTT-AAGGAATTCTAAGGAT
1 TTTTAAGGTTTTTTTCAAGGAATTCAAAGGAT
10667 TTTT
1 TTTT
10671 GAAGCATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 17 0.53
32 15 0.47
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.52
Consensus pattern (32 bp):
TTTTAAGGTTTTTTTCAAGGAATTCAAAGGAT
Found at i:10654 original size:21 final size:21
Alignment explanation
Indices: 10630--10854 Score: 75
Period size: 21 Copynumber: 10.6 Consensus size: 21
10620 ATGGATTTCA
* *
10630 AAGGATTTTTAAGGTTTTTTT
1 AAGGATTTTTAAGGATTTTTG
* *
10651 AAGGAATTCTAAGGATTTTTG
1 AAGGATTTTTAAGGATTTTTG
* * *
10672 AAGCATTTTTAAAAGATTTTTA
1 AAGGATTTTT-AAGGATTTTTG
** * *
10694 AAGTCTTTTGAAGCATTTTT-
1 AAGGATTTTTAAGGATTTTTG
* * *
10714 AAGGTTTTTTTCATGGA--TTTC
1 AAGG-ATTTTT-AAGGATTTTTG
* * * * *
10735 AATGGATTTTGAAAGAGTTGTC
1 AA-GGATTTTTAAGGATTTTTG
* *
10757 AAGGAATTTTAACGATTTTT-
1 AAGGATTTTTAAGGATTTTTG
* *
10777 AAAG-TTTTTAAAAGCATTTTTG
1 AAGGATTTTT--AAGGATTTTTG
* *
10799 AAAGATTTTTGAAGTA-TTTTG
1 AAGGATTTTT-AAGGATTTTTG
* * * *
10820 AAGCATTTTTAAAGTTTTTTT
1 AAGGATTTTTAAGGATTTTTG
10841 AATGGATTTTTAAG
1 AA-GGATTTTTAAG
10855 CTTTCTTAAG
Statistics
Matches: 148, Mismatches: 43, Indels: 25
0.69 0.20 0.12
Matches are distributed among these distances:
19 4 0.03
20 14 0.09
21 82 0.55
22 43 0.29
23 5 0.03
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.47
Consensus pattern (21 bp):
AAGGATTTTTAAGGATTTTTG
Found at i:10681 original size:32 final size:32
Alignment explanation
Indices: 10630--10717 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
10620 ATGGATTTCA
**
10630 AAGGATTTTT-AAGGTTTTTTTAAGGAATTCT
1 AAGGATTTTTGAAGCATTTTTTAAGGAATTCT
* * * *
10661 AAGGATTTTTGAAGCATTTTTAAAAGATTTTT
1 AAGGATTTTTGAAGCATTTTTTAAGGAATTCT
*
10693 AAAG-TCTTTTGAAGCA-TTTTTAAGG
1 AAGGAT-TTTTGAAGCATTTTTTAAGG
10718 TTTTTTTCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 18 0.39
32 28 0.61
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (32 bp):
AAGGATTTTTGAAGCATTTTTTAAGGAATTCT
Found at i:10736 original size:106 final size:106
Alignment explanation
Indices: 10595--10818 Score: 287
Period size: 106 Copynumber: 2.1 Consensus size: 106
10585 TTTAAGGACA
* * ** * *
10595 TTTT-AAGCA-TTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAGGTTTTTTTAAGGAAT
1 TTTTGAAGCATTTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTGAAAGAGTTGTCAAGGAAT
* *
10658 TCTAAGGATTTTTGAAGCATTTTTAAAAG-ATTTTT-AAAG-T
66 TCTAACGATTTTTAAAG--TTTTTAAAAGCATTTTTGAAAGAT
*
10698 CTTTTGAAGCATTTTTAAGGTTTTTTTCATGGATTTCAATGGATTTTGAAAGAGTTGTCAAGGAA
1 -TTTTGAAGCATTTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTGAAAGAGTTGTCAAGGAA
*
10763 TTTTAACGATTTTTAAAGTTTTTAAAAGCATTTTTGAAAGAT
65 TTCTAACGATTTTTAAAGTTTTTAAAAGCATTTTTGAAAGAT
*
10805 TTTTGAAGTATTTT
1 TTTTGAAGCATTTT
10819 GAAGCATTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
104 14 0.13
105 11 0.11
106 78 0.75
107 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (106 bp):
TTTTGAAGCATTTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTGAAAGAGTTGTCAAGGAAT
TCTAACGATTTTTAAAGTTTTTAAAAGCATTTTTGAAAGAT
Found at i:10767 original size:53 final size:53
Alignment explanation
Indices: 10603--10768 Score: 154
Period size: 53 Copynumber: 3.1 Consensus size: 53
10593 CATTTTAAGC
* * *
10603 ATTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAGGTTTTTTTAAGGA
1 ATTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAAGTCTTTTCAAGGA
* * * * * * * * *
10656 ATTCTAAGG-ATTTTTGAAGCATTTTTAAAAGATTTTTAAAGTCTTTTGAAGCA
1 ATTTTAAGGTTTTTTTCATGGA-TTTCAAAGGATTTTTAAAGTCTTTTCAAGGA
* * * ** *
10709 TTTTTAAGGTTTTTTTCATGGATTTCAATGGATTTTGAAAGAGTTGTCAAGGA
1 ATTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAAGTCTTTTCAAGGA
10762 ATTTTAA
1 ATTTTAA
10769 CGATTTTTAA
Statistics
Matches: 84, Mismatches: 27, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
52 8 0.10
53 68 0.81
54 8 0.10
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (53 bp):
ATTTTAAGGTTTTTTTCATGGATTTCAAAGGATTTTTAAAGTCTTTTCAAGGA
Found at i:10806 original size:11 final size:11
Alignment explanation
Indices: 10770--10838 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 11
10760 GAATTTTAAC
10770 GATTTTT-AAA
1 GATTTTTGAAA
*
10780 G-TTTTTAAAA
1 GATTTTTGAAA
10790 GCATTTTTGAAA
1 G-ATTTTTGAAA
10802 GATTTTTG-AA
1 GATTTTTGAAA
10812 G-TATTTTG-AA
1 GAT-TTTTGAAA
10822 GCATTTTT-AAA
1 G-ATTTTTGAAA
10833 G-TTTTT
1 GATTTTT
10839 TTAATGGATT
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
9 11 0.22
10 16 0.31
11 14 0.27
12 10 0.20
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (11 bp):
GATTTTTGAAA
Found at i:10806 original size:32 final size:31
Alignment explanation
Indices: 10763--10839 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
10753 TGTCAAGGAA
*
10763 TTTTAACGATTTTTAAAGT-TTTTAAAAGCAT
1 TTTTAAAGATTTTTAAAGTATTTT-AAAGCAT
* *
10794 TTTTGAAAGATTTTTGAAGTATTTTGAAGCAT
1 TTTT-AAAGATTTTTAAAGTATTTTAAAGCAT
*
10826 TTTTAAAGTTTTTT
1 TTTTAAAGATTTTT
10840 TAATGGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 13 0.32
32 23 0.57
33 4 0.10
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (31 bp):
TTTTAAAGATTTTTAAAGTATTTTAAAGCAT
Found at i:11078 original size:21 final size:21
Alignment explanation
Indices: 11010--11072 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
11000 TTTTTTGGCA
*
11010 CATTTTAAGGATATTTAAGGT
1 CATTTTAAGCATATTTAAGGT
* * *
11031 CATTTTAACCATTTTTAAGAT
1 CATTTTAAGCATATTTAAGGT
*
11052 CCTTTTAAGCATATTTAAGGT
1 CATTTTAAGCATATTTAAGGT
11073 TTTTTTCCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (21 bp):
CATTTTAAGCATATTTAAGGT
Found at i:11104 original size:10 final size:10
Alignment explanation
Indices: 11091--11323 Score: 75
Period size: 10 Copynumber: 22.2 Consensus size: 10
11081 TTACATTTCA
11091 AAAGATTTTT
1 AAAGATTTTT
*
11101 AAAGAGTTTT
1 AAAGATTTTT
11111 AAATG-TATTTT
1 AAA-GAT-TTTT
* * *
11122 AAGGAATTTC
1 AAAGATTTTT
* *
11132 AAGGTTTTTT
1 AAAGATTTTT
11142 AAAGCATTTTTT
1 AAAG-A-TTTTT
11154 AAAGATTTTT
1 AAAGATTTTT
*
11164 GAAG-TCTTTT
1 AAAGAT-TTTT
*
11174 GAAGCA-TTTT
1 AAAG-ATTTTT
*
11184 AAAGGTTTTCTT
1 AAA-GATTT-TT
** *
11196 CATGGA-TTTC
1 -AAAGATTTTT
11206 AAAGGATTTTT
1 AAA-GATTTTT
11217 -AAGAAGTTTTT
1 AAAG-A-TTTTT
*
11228 AAGGATTTTT
1 AAAGATTTTT
*
11238 AAAGTTTTTT
1 AAAGATTTTT
*
11248 AAAACATTTTT
1 -AAAGATTTTT
11259 AAAGATTTTT
1 AAAGATTTTT
*
11269 -TAGATATTTT
1 AAAGAT-TTTT
*
11279 GAAGCATTTTT
1 AAAG-ATTTTT
** *
11290 AGGGCTTTTTT
1 AAAG-ATTTTT
11301 CAAAGATTTTT
1 -AAAGATTTTT
11312 -AAGCATTTTT
1 AAAG-ATTTTT
11322 AA
1 AA
11324 GAACCTTTTC
Statistics
Matches: 164, Mismatches: 35, Indels: 47
0.67 0.14 0.19
Matches are distributed among these distances:
9 10 0.06
10 86 0.52
11 49 0.30
12 18 0.11
13 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (10 bp):
AAAGATTTTT
Found at i:11189 original size:53 final size:51
Alignment explanation
Indices: 11091--11351 Score: 162
Period size: 53 Copynumber: 5.0 Consensus size: 51
11081 TTACATTTCA
* * * * *
11091 AAAG-ATTTTTAAAGAGTTTTAAATGTATTTTAAGGAATTTCAAGGTTTTTT
1 AAAGCATTTTTAAAGATTTTTGAA-GTATTTTAAGCATTTTAAAGGTTTTTT
*
11142 AAAGCATTTTTTAAAGATTTTTGAAGTCTTTTGAAGCATTTTAAAGGTTTTCTT
1 AAAGCA-TTTTTAAAGATTTTTGAAGTATTTT-AAGCATTTTAAAGGTTTT-TT
* * * * *
11196 CATGGA-TTTCAAAGGATTTTTAAGAAGT-TTTTAAGGATTTTTAAA-GTTTTTT
1 AAAGCATTTTTAAA-GATTTTT--GAAGTATTTTAAGCA-TTTTAAAGGTTTTTT
* * * *
11248 AAAACATTTTTAAAGATTTTT-TAGATATTTTGAAGCATTTTTAGGGCTTTTTT
1 AAAGCATTTTTAAAGATTTTTGAAG-TATTTT-AAGCATTTTAAAGG-TTTTTT
* *
11301 CAAAG-ATTTTT-AAGCATTTTT-AAGAACCTTTTCAGCATATTT-AAGGTTTTT
1 -AAAGCATTTTTAAAG-ATTTTTGAAGTA--TTTTAAGCAT-TTTAAAGGTTTTT
11352 AAGAGATTTT
Statistics
Matches: 166, Mismatches: 25, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
49 2 0.01
50 1 0.01
51 13 0.08
52 38 0.23
53 81 0.49
54 26 0.16
55 5 0.03
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (51 bp):
AAAGCATTTTTAAAGATTTTTGAAGTATTTTAAGCATTTTAAAGGTTTTTT
Found at i:11228 original size:11 final size:10
Alignment explanation
Indices: 11211--11362 Score: 51
Period size: 11 Copynumber: 14.6 Consensus size: 10
11201 ATTTCAAAGG
11211 ATTTTTAAGA
1 ATTTTTAAGA
*
11221 AGTTTTTAAGG
1 A-TTTTTAAGA
11232 ATTTTTAA-A
1 ATTTTTAAGA
* *
11241 GTTTTTTAAAA
1 -ATTTTTAAGA
11252 CATTTTTAA-A
1 -ATTTTTAAGA
*
11262 GATTTTTTAGA
1 -ATTTTTAAGA
* *
11273 TATTTTGAAGC
1 -ATTTTTAAGA
* *
11284 ATTTTTAGGGC
1 ATTTTTA-AGA
*
11295 TTTTTTCAA-A
1 ATTTTT-AAGA
*
11305 GATTTTTAAGC
1 -ATTTTTAAGA
11316 ATTTTTAAGA
1 ATTTTTAAGA
* * *
11326 ACCTTTTCAGC
1 A-TTTTTAAGA
*
11337 ATATTTAAG-
1 ATTTTTAAGA
*
11346 GTTTTTAAGA
1 ATTTTTAAGA
11356 GATTTTT
1 -ATTTTT
11363 CATTAAATTT
Statistics
Matches: 103, Mismatches: 28, Indels: 21
0.68 0.18 0.14
Matches are distributed among these distances:
9 7 0.07
10 46 0.45
11 49 0.48
12 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (10 bp):
ATTTTTAAGA
Found at i:11231 original size:21 final size:19
Alignment explanation
Indices: 11207--11323 Score: 65
Period size: 21 Copynumber: 5.6 Consensus size: 19
11197 ATGGATTTCA
11207 AAGGATTTTTAAGAAGTTTTT
1 AAGGATTTTT-A-AAGTTTTT
11228 AAGGATTTTTAAAGTTTTTT
1 AAGGATTTTTAAAG-TTTTT
**
11248 AAAACATTTTTAAAGATTTTT
1 -AAGGATTTTTAAAG-TTTTT
* *
11269 TA-GATATTTTGAAGCATTTTT
1 AAGGAT-TTTTAAAG--TTTTT
* *
11290 AGGGCTTTTTTCAAAGATTTTT
1 AAGG-ATTTTT-AAAG-TTTTT
*
11312 AAGCATTTTTAA
1 AAGGATTTTTAA
11324 GAACCTTTTC
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
19 5 0.07
20 16 0.21
21 38 0.50
22 13 0.17
23 4 0.05
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (19 bp):
AAGGATTTTTAAAGTTTTT
Found at i:11324 original size:10 final size:9
Alignment explanation
Indices: 11210--11325 Score: 52
Period size: 11 Copynumber: 11.2 Consensus size: 9
11200 GATTTCAAAG
11210 GATTTTTAA
1 GATTTTTAA
11219 GAAGTTTTTAA
1 G-A-TTTTTAA
11230 GGATTTTTAAA
1 -GATTTTT-AA
*
11241 GTTTTTTAAAA
1 GATTTTT--AA
*
11252 CATTTTTAAA
1 GATTTTT-AA
*
11262 GATTTTTTA
1 GATTTTTAA
11271 GATATTTTGAA
1 GAT-TTTT-AA
*
11282 GCATTTTTAGG
1 G-ATTTTTA-A
*
11293 GCTTTTTTCAAA
1 G-ATTTTT--AA
11305 GATTTTTAA
1 GATTTTTAA
11314 GCATTTTTAA
1 G-ATTTTTAA
11324 GA
1 GA
11326 ACCTTTTCAG
Statistics
Matches: 85, Mismatches: 10, Indels: 24
0.71 0.08 0.20
Matches are distributed among these distances:
9 9 0.11
10 35 0.41
11 36 0.42
12 4 0.05
13 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (9 bp):
GATTTTTAA
Found at i:11344 original size:105 final size:106
Alignment explanation
Indices: 11118--11351 Score: 251
Period size: 105 Copynumber: 2.2 Consensus size: 106
11108 TTTAAATGTA
* * * *
11118 TTTTAAGGA-ATTTCAAGGTTTTTTAAAGCATTTTTTAAAGATTTTTGAAGTCTTTTGAAGCATT
1 TTTTAAGCATATTT-AAAGTTTTTTAAAACATTTTTTAAAGATTTTTGAAGTATTTTGAAGCATT
** * **
11182 TTAAAGGTTTTCTTCATGGATTTCAAAGGATTTTTAAGAAGT
65 TTAAAGGTTTTCTTCAAAGATTTCAAAGCATTTTTAAGAACC
* * *
11224 TTTTAAGGATTTTTAAAGTTTTTTAAAACA-TTTTTAAAGATTTTT-TAGATATTTTGAAGCATT
1 TTTTAAGCATATTTAAAGTTTTTTAAAACATTTTTTAAAGATTTTTGAAG-TATTTTGAAGCATT
* * **
11287 TTTAGGGCTTTT-TTCAAAGATTTTTAAGCATTTTTAAGAACC
65 TTAAAGG-TTTTCTTCAAAGATTTCAAAGCATTTTTAAGAACC
* *
11329 TTTTCAGCATATTTAAGGTTTTT
1 TTTTAAGCATATTTAAAGTTTTT
11352 AAGAGATTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
104 2 0.02
105 75 0.70
106 27 0.25
107 3 0.03
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.49
Consensus pattern (106 bp):
TTTTAAGCATATTTAAAGTTTTTTAAAACATTTTTTAAAGATTTTTGAAGTATTTTGAAGCATTT
TAAAGGTTTTCTTCAAAGATTTCAAAGCATTTTTAAGAACC
Found at i:11515 original size:10 final size:10
Alignment explanation
Indices: 11470--11569 Score: 51
Period size: 10 Copynumber: 9.6 Consensus size: 10
11460 TTTTTTTGCT
11470 ATTTTTAAGG
1 ATTTTTAAGG
*
11480 ATGTTTAAGG
1 ATTTTTAAGG
*
11490 -TCATTTTAAGC
1 AT--TTTTAAGG
11501 ATTTTTAAGGG
1 ATTTTTAA-GG
*
11512 TTTTTTTAATGG
1 -ATTTTTAA-GG
*
11524 ATTTTAAAGG
1 ATTTTTAAGG
* *
11534 GTTTTTAAAG
1 ATTTTTAAGG
*
11544 AGTTTTGAAGG
1 A-TTTTTAAGG
* *
11555 AATTTCAA-G
1 ATTTTTAAGG
11564 ATTTTT
1 ATTTTT
11570 TAAAGCATTT
Statistics
Matches: 66, Mismatches: 18, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
9 6 0.09
10 29 0.44
11 21 0.32
12 10 0.15
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:11517 original size:21 final size:21
Alignment explanation
Indices: 11471--11539 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
11461 TTTTTTGCTA
*
11471 TTTTTAAGGATGTTTAA-GGT
1 TTTTTAAGGATTTTTAAGGGT
* *
11491 CATTTTAAGCATTTTTAAGGGTT
1 -TTTTTAAGGATTTTTAAGGG-T
*
11514 TTTTTAATGGATTTTAAAGGGT
1 TTTTTAA-GGATTTTTAAGGGT
11536 TTTT
1 TTTT
11540 AAAGAGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 14 0.36
22 13 0.33
23 12 0.31
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.52
Consensus pattern (21 bp):
TTTTTAAGGATTTTTAAGGGT
Found at i:11533 original size:23 final size:22
Alignment explanation
Indices: 11493--11539 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
11483 TTTAAGGTCA
*
11493 TTTTAAGCATTTTTAAGGGTTT
1 TTTTAAGCATTTTAAAGGGTTT
*
11515 TTTTAATGGATTTTAAAGGGTTT
1 TTTTAA-GCATTTTAAAGGGTTT
11538 TT
1 TT
11540 AAAGAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.55
Consensus pattern (22 bp):
TTTTAAGCATTTTAAAGGGTTT
Found at i:11775 original size:10 final size:10
Alignment explanation
Indices: 11762--11840 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
11752 ATTTTAAGCA
11762 TTTTTTAAGG
1 TTTTTTAAGG
*
11772 TTTTTTCAAGT
1 TTTTTT-AAGG
* *
11783 TTTTTTTAGC
1 TTTTTTAAGG
11793 TCTTTTTAAGG
1 T-TTTTTAAGG
* *
11804 ATGTTTAAGG
1 TTTTTTAAGG
* *
11814 TCATTTTAAGC
1 T-TTTTTAAGG
*
11825 ATTTTTAAGG
1 TTTTTTAAGG
11835 TTTTTT
1 TTTTTT
11841 TCAAGGATTT
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
10 29 0.57
11 22 0.43
ACGTcount: A:0.20, C:0.06, G:0.15, T:0.58
Consensus pattern (10 bp):
TTTTTTAAGG
Found at i:11776 original size:11 final size:11
Alignment explanation
Indices: 11762--11846 Score: 50
Period size: 11 Copynumber: 7.9 Consensus size: 11
11752 ATTTTAAGCA
11762 TTTTTTAAGGT
1 TTTTTTAAGGT
*
11773 TTTTTCAA-GT
1 TTTTTTAAGGT
* *
11783 TTTTTTTAGCT
1 TTTTTTAAGGT
*
11794 CTTTTTAAGG-
1 TTTTTTAAGGT
* *
11804 ATGTTTAAGGT
1 TTTTTTAAGGT
** *
11815 CATTTTAA-GC
1 TTTTTTAAGGT
*
11825 ATTTTTAAGGT
1 TTTTTTAAGGT
11836 TTTTTTCAAGG
1 TTTTTT-AAGG
11847 ATTTCAAAGG
Statistics
Matches: 53, Mismatches: 17, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
10 23 0.43
11 26 0.49
12 4 0.08
ACGTcount: A:0.21, C:0.07, G:0.16, T:0.55
Consensus pattern (11 bp):
TTTTTTAAGGT
Found at i:11786 original size:21 final size:21
Alignment explanation
Indices: 11753--11850 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
11743 TTATTACGAA
11753 TTTTAAGCATTTTTTAAGGT-T
1 TTTTAAGCA-TTTTTAAGGTCT
** * *
11774 TTTTCAAGTTTTTTTTAGCTCT
1 TTTT-AAGCATTTTTAAGGTCT
* * *
11796 TTTTAAGGATGTTTAAGGTCA
1 TTTTAAGCATTTTTAAGGTCT
*
11817 TTTTAAGCATTTTTAAGGTTT
1 TTTTAAGCATTTTTAAGGTCT
*
11838 TTTTCAAGGATTT
1 TTTT-AAGCATTT
11851 CAAAGGATTT
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
21 44 0.75
22 15 0.25
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.55
Consensus pattern (21 bp):
TTTTAAGCATTTTTAAGGTCT
Found at i:11976 original size:117 final size:115
Alignment explanation
Indices: 11817--12029 Score: 284
Period size: 117 Copynumber: 1.8 Consensus size: 115
11807 TTTAAGGTCA
* *
11817 TTTTAAGCATTTTTAAGGTTTTTTTCAAGGATTTCAAAGGATTTTT-AAGATGTTTTTAAAGAAT
1 TTTTAAGCATATTTAAGGTTTTTTTCAAGGATTTCAAAGGATTTTTAAAGA-GTTTTCAAAGAAT
* * **
11881 TTTATGGAATTTCAAGGTTTTTTAAAGCATTTAAAAAAAATTTTTGAAGTC
65 TTTAAGGAATTTAAAACTTTTTTAAAGCATTTAAAAAAAATTTTTGAAGTC
* * * * *
11932 TTTTAAAGCATATTTAAGGTTTTTTTTTATGGATTTCAGAGGATTTTTAAAGAGTTTTCAAGGAT
1 TTTT-AAGCATATTTAAGG-TTTTTTTCAAGGATTTCAAAGGATTTTTAAAGAGTTTTCAAAGAA
*
11997 TTTTAAGGATTTTAAAACTTTTTTAAAGCATTT
64 TTTTAAGGAATTTAAAACTTTTTTAAAGCATTT
12030 TTTTAAAGAT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
115 4 0.05
116 13 0.16
117 62 0.75
118 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.47
Consensus pattern (115 bp):
TTTTAAGCATATTTAAGGTTTTTTTCAAGGATTTCAAAGGATTTTTAAAGAGTTTTCAAAGAATT
TTAAGGAATTTAAAACTTTTTTAAAGCATTTAAAAAAAATTTTTGAAGTC
Found at i:12033 original size:13 final size:12
Alignment explanation
Indices: 12006--12043 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
11996 TTTTTAAGGA
*
12006 TTTTAAA-ACTT
1 TTTTAAAGATTT
12017 TTTTAAAGCATTT
1 TTTTAAAG-ATTT
12030 TTTTAAAGATTT
1 TTTTAAAGATTT
12042 TT
1 TT
12044 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 7 0.29
12 6 0.25
13 11 0.46
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (12 bp):
TTTTAAAGATTT
Found at i:12042 original size:10 final size:10
Alignment explanation
Indices: 11973--12043 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
11963 GATTTCAGAG
11973 GATTTTTAAA
1 GATTTTTAAA
* *
11983 GAGTTTTCAAG
1 GA-TTTTTAAA
*
11994 GATTTTTAAG
1 GATTTTTAAA
*
12004 GATTTTAAAA
1 GATTTTTAAA
**
12014 CTTTTTTAAA
1 GATTTTTAAA
12024 GCATTTTTTTAAA
1 G-A--TTTTTAAA
12037 GATTTTT
1 GATTTTT
12044 GAGGTATTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
10 29 0.62
11 8 0.17
12 1 0.02
13 9 0.19
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (10 bp):
GATTTTTAAA
Found at i:12226 original size:11 final size:10
Alignment explanation
Indices: 12205--12239 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
12195 TTATTACGAA
12205 TTTTAAGTTT
1 TTTTAAGTTT
12215 TTTTAAGATTT
1 TTTTAAG-TTT
*
12226 TTTCAAGTTT
1 TTTTAAGTTT
12236 TTTT
1 TTTT
12240 TTGCTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (10 bp):
TTTTAAGTTT
Found at i:12291 original size:21 final size:23
Alignment explanation
Indices: 12267--12312 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
12257 TTTAAGGCCA
12267 TTTTAA-TCATTTTAA-AGATTT
1 TTTTAATTCATTTTAATAGATTT
* *
12288 TTTTAATTGATTTTAATGGATTT
1 TTTTAATTCATTTTAATAGATTT
12311 TT
1 TT
12313 AAGGAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 7 0.33
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTTAATTCATTTTAATAGATTT
Found at i:12301 original size:11 final size:11
Alignment explanation
Indices: 12287--12335 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
12277 TTTAAAGATT
*
12287 TTTTTAATTGA
1 TTTTTAATGGA
12298 -TTTTAATGGA
1 TTTTTAATGGA
12308 TTTTTAA-GGA
1 TTTTTAATGGA
12318 GTTTTTAA-GGA
1 -TTTTTAATGGA
*
12329 ATTTTAA
1 TTTTTAA
12336 GAAAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 18 0.53
11 16 0.47
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (11 bp):
TTTTTAATGGA
Found at i:12384 original size:21 final size:21
Alignment explanation
Indices: 12349--12407 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
12339 AATTTAAGAT
12349 TTTTTAAAACGTTTTTTAAAG-A
1 TTTTT-AAA-GTTTTTTAAAGTA
*
12371 TTTTTAAAGTTTTTTGAAGTA
1 TTTTTAAAGTTTTTTAAAGTA
*
12392 TTTTTAAGGCTTTTTT
1 TTTTTAAAG-TTTTTT
12408 CGTGGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.30
21 12 0.36
22 11 0.33
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (21 bp):
TTTTTAAAGTTTTTTAAAGTA
Found at i:12427 original size:21 final size:20
Alignment explanation
Indices: 12392--12458 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
12382 TTTTGAAGTA
*
12392 TTTTTAAGGCTTTTTTCGTGGT
1 TTTTTAA-GCATTTTT-GTGGT
* *
12414 TTTTTAAGCATTTTTAAT-AT
1 TTTTTAAGCATTTTT-GTGGT
*
12434 TCTTTTAAGCATATTTGTGGT
1 T-TTTTAAGCATTTTTGTGGT
12455 TTTT
1 TTTT
12459 AAGAGATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 6 0.17
21 23 0.64
22 7 0.19
ACGTcount: A:0.18, C:0.07, G:0.15, T:0.60
Consensus pattern (20 bp):
TTTTTAAGCATTTTTGTGGT
Found at i:12735 original size:31 final size:31
Alignment explanation
Indices: 12658--12727 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
12648 TTTTTTAGGG
*
12658 AATTTTAAAGAATTTT-AAGGTCTTTTGAAGC
1 AATTTTAAAGATTTTTGAA-GTCTTTTGAAGC
*
12689 ATTTTTAAAGATTTTTGAAGTCTTTTGAAGC
1 AATTTTAAAGATTTTTGAAGTCTTTTGAAGC
12720 AATTTTAA
1 AATTTTAA
12728 GGGTTTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (31 bp):
AATTTTAAAGATTTTTGAAGTCTTTTGAAGC
Found at i:12812 original size:32 final size:31
Alignment explanation
Indices: 12775--12845 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 31
12765 TTTCAAGGAA
*
12775 TTTTAAGGATTCTAAAACTTTTTTGAAGCATT
1 TTTTAAGGATTCTAAAACTATTTTGAAGCA-T
* * ** *
12807 TTTTAAAGATTTTTCAAGTATTTTGAAGCAT
1 TTTTAAGGATTCTAAAACTATTTTGAAGCAT
12838 TTTTAAGG
1 TTTTAAGG
12846 CTTTTTTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTTAAGGATTCTAAAACTATTTTGAAGCAT
Found at i:12852 original size:32 final size:31
Alignment explanation
Indices: 12795--12878 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 31
12785 TCTAAAACTT
*
12795 TTTTGAAGCATTTTTTAAAGATTTTTCAA-GTA
1 TTTTGAAGCA-TTTTTAAAGATTTTT-AATGGA
* *
12827 TTTTGAAGCATTTTTAAGGCTTTTTTAATGGA
1 TTTTGAAGCATTTTTAAAG-ATTTTTAATGGA
*
12859 TTTTTAAGCA-TTTTAAAGAT
1 TTTTGAAGCATTTTTAAAGAT
12879 CCTTTTAAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 1 0.02
31 17 0.39
32 26 0.59
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (31 bp):
TTTTGAAGCATTTTTAAAGATTTTTAATGGA
Found at i:13063 original size:20 final size:20
Alignment explanation
Indices: 13027--13070 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
13017 TTTTTGCTCT
*
13027 TTTTGAGGATGTTTAAGGTCA
1 TTTTGAGCATGTTTAAGG-CA
13048 TTTTGAGCAT-TTTAAGGCA
1 TTTTGAGCATGTTTAAGGCA
13067 TTTT
1 TTTT
13071 TCATGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 7 0.32
21 9 0.41
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.48
Consensus pattern (20 bp):
TTTTGAGCATGTTTAAGGCA
Found at i:13071 original size:20 final size:22
Alignment explanation
Indices: 13026--13071 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
13016 TTTTTTGCTC
*
13026 TTTTTGAGGATGTTTAAGGTCA
1 TTTTTGAGCATGTTTAAGGTCA
13048 -TTTTGAGCAT-TTTAAGG-CA
1 TTTTTGAGCATGTTTAAGGTCA
13067 TTTTT
1 TTTTT
13072 CATGGATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 2 0.09
20 11 0.50
21 9 0.41
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.50
Consensus pattern (22 bp):
TTTTTGAGCATGTTTAAGGTCA
Found at i:13167 original size:21 final size:20
Alignment explanation
Indices: 13086--13168 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
13076 GATTTCAAGG
*
13086 GATTTTTAAGGAGTTTTTAAA
1 GATTTTTAAGCA-TTTTTAAA
* * *
13107 GAATTTTAAGGA-ATTTAAA
1 GATTTTTAAGCATTTTTAAA
*
13126 GGTTTTTTAAAGCATTCTTTAAA
1 -GATTTTT-AAGCATT-TTTAAA
13149 GATTTTTGAAGCATTTTTAA
1 GATTTTT-AAGCATTTTTAA
13169 TGTTTTTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.12
20 5 0.10
21 20 0.40
22 13 0.26
23 6 0.12
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.46
Consensus pattern (20 bp):
GATTTTTAAGCATTTTTAAA
Found at i:13228 original size:10 final size:10
Alignment explanation
Indices: 13057--13228 Score: 87
Period size: 11 Copynumber: 16.4 Consensus size: 10
13047 ATTTTGAGCA
13057 TTTTAAGGCAT
1 TTTTAAGG-AT
*
13068 TTTTCATGGA-
1 TTTT-AAGGAT
*
13078 TTTCAAGGGAT
1 TTTTAA-GGAT
13089 TTTTAAGGAGT
1 TTTTAAGGA-T
* *
13100 TTTTAAAGAA
1 TTTTAAGGAT
*
13110 TTTTAAGGAA
1 TTTTAAGGAT
* *
13120 TTTAAAGGTT
1 TTTTAAGGAT
*
13130 TTTTAAAGCAT
1 TTTT-AAGGAT
*
13141 TCTTTAAAGAT
1 T-TTTAAGGAT
*
13152 TTTTGAAGCAT
1 TTTT-AAGGAT
**
13163 TTTTAATGTTT
1 TTTTAA-GGAT
*
13174 TTTTCATGGAT
1 TTTT-AAGGAT
** *
13185 TTCGAAGCAT
1 TTTTAAGGAT
13195 TTTTAAGGAGT
1 TTTTAAGGA-T
*
13206 TTTCAAGGAT
1 TTTTAAGGAT
13216 TTTTAAGG-T
1 TTTTAAGGAT
13225 TTTT
1 TTTT
13229 GAAAGCATTG
Statistics
Matches: 120, Mismatches: 31, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
9 6 0.05
10 51 0.43
11 56 0.47
12 7 0.06
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (10 bp):
TTTTAAGGAT
Found at i:13249 original size:32 final size:34
Alignment explanation
Indices: 13204--13269 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 34
13194 TTTTTAAGGA
13204 GTTTTCAAGGATTTTT-AAGGT-TTTTGAAAGCATT
1 GTTTTCAAGGATTTTTGAA-GTATTTTGAAA-CATT
13238 GTTTT-AA-GATTTTTGAAGTATTTTGAAACATT
1 GTTTTCAAGGATTTTTGAAGTATTTTGAAACATT
13270 ATTATGGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
32 13 0.43
33 12 0.40
34 5 0.17
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (34 bp):
GTTTTCAAGGATTTTTGAAGTATTTTGAAACATT
Found at i:13262 original size:106 final size:105
Alignment explanation
Indices: 13067--13307 Score: 267
Period size: 106 Copynumber: 2.3 Consensus size: 105
13057 TTTTAAGGCA
* * *
13067 TTTTTCATGGATTTCAAGGGATTTTTAAGGAGTTTTTAAAGAATTTTAAGGAATTTAAAGGTTTT
1 TTTTTCATGGATTTCAA-GCATTTTTAAGGAGTTTTCAAAGAATTTTAAGGAATTTAAAGATTTT
* * *
13132 TTAAAGCATTCTTTAAAGATTTTTGAAGCATTTTTAAT-GTT
65 TTAAAGCATTCTTTAAAGATTTTTGAAACATTATT-ATGGCT
* * **
13173 TTTTTCATGGATTTCGAAGCATTTTTAAGGAGTTTTCAAGGATTTTTAAGGTTTTTGAAAGCATT
1 TTTTTCATGGATTTC-AAGCATTTTTAAGGAGTTTTCAAAGAATTTTAAGGAATTT-AAAG-ATT
*
13238 GTTTT-AAG-ATT-TTTGAAG-TATTTTGAAACATTATTATGGCT
63 -TTTTAAAGCATTCTTTAAAGAT-TTTTGAAACATTATTATGGCT
*
13279 TTTTTCATGGATTTTTAAGCATTTTTAAG
1 TTTTTCATGGA-TTTCAAGCATTTTTAAG
13308 ATCCTTTTAA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
105 3 0.03
106 92 0.79
107 12 0.10
108 5 0.04
109 4 0.03
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (105 bp):
TTTTTCATGGATTTCAAGCATTTTTAAGGAGTTTTCAAAGAATTTTAAGGAATTTAAAGATTTTT
TAAAGCATTCTTTAAAGATTTTTGAAACATTATTATGGCT
Found at i:13485 original size:21 final size:21
Alignment explanation
Indices: 13459--13498 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13449 TTTTGTCTCT
*
13459 TTTTAAGGATGTTTAAGGTCA
1 TTTTAAGCATGTTTAAGGTCA
*
13480 TTTTAAGCATTTTTAAGGT
1 TTTTAAGCATGTTTAAGGT
13499 TTTTTCCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (21 bp):
TTTTAAGCATGTTTAAGGTCA
Found at i:13502 original size:10 final size:10
Alignment explanation
Indices: 13458--13790 Score: 63
Period size: 10 Copynumber: 31.7 Consensus size: 10
13448 TTTTTGTCTC
13458 TTTTTAAGGA
1 TTTTTAAGGA
*
13468 TGTTTAAGG-
1 TTTTTAAGGA
*
13477 TCATTTTAAGCA
1 T--TTTTAAGGA
*
13489 TTTTTAAGGT
1 TTTTTAAGGA
**
13499 TTTTTCCTTGGA
1 TTTTT--AAGGA
**
13511 TTTCAAAGGA
1 TTTTTAAGGA
*
13521 TTTTTAAGTA
1 TTTTTAAGGA
13531 GTTTTTAAGGA
1 -TTTTTAAGGA
* *
13542 ATTTTATGG-
1 TTTTTAAGGA
*
13551 TGTTTTAAAGCA
1 T-TTTT-AAGGA
13563 TTTTTTAAAGG-
1 -TTTTT-AAGGA
13574 TTTTTGAA-G-
1 TTTTT-AAGGA
* *
13583 TTATTGGAAGCA
1 TT-TT-TAAGGA
* *
13595 TTTTCAAGGTT
1 TTTTTAAGG-A
*
13606 TTTTTCATGGA
1 TTTTT-AAGGA
*
13617 -TTTCAATGGA
1 TTTTTAA-GGA
* *
13627 TTTTGAAAGA
1 TTTTTAAGGA
*
13637 GTTTTCAAGGA
1 -TTTTTAAGGA
*
13648 ATTTTAAGGA
1 TTTTTAAGGA
*
13658 TTTTTAAAG-
1 TTTTTAAGGA
* *
13667 TTGTTGACAGCA
1 TT-TTTA-AGGA
*
13679 TTTTTTAAAGA
1 -TTTTTAAGGA
*
13690 TTTTTGAAGTA
1 TTTTT-AAGGA
*
13701 TTTTTAAGCA
1 TTTTTAAGGA
*
13711 TTTTTAAGGCT
1 TTTTTAAGG-A
*
13722 TTTTTCATGGA
1 TTTTT-AAGGA
**
13733 TTTTTAAACA
1 TTTTTAAGGA
*
13743 TTTTTAA-TA
1 TTTTTAAGGA
**
13752 TCCTTTTAAACA
1 T--TTTTAAGGA
*
13764 TATTTAAGG-
1 TTTTTAAGGA
13773 TTTTTAAGAGA
1 TTTTTAAG-GA
13784 TTTTTAA
1 TTTTTAA
13791 CAAAATTTGA
Statistics
Matches: 229, Mismatches: 63, Indels: 61
0.65 0.18 0.17
Matches are distributed among these distances:
9 16 0.07
10 113 0.49
11 70 0.31
12 27 0.12
13 3 0.01
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:13570 original size:106 final size:106
Alignment explanation
Indices: 13458--13666 Score: 255
Period size: 106 Copynumber: 2.0 Consensus size: 106
13448 TTTTTGTCTC
** * *
13458 TTTTT-AAGGATGTTT-AAGGTCATTTTAAGCATTTTTAAGGTTTTTTCCTTGGATTTCAAAGGA
1 TTTTTAAAGG-TGTTTGAA-GTCATTGGAAGCATTTTCAAGGTTTTTTCCATGGATTTCAAAGGA
* * *
13521 TTTT-TAAGTAGTTTTTAAGGAATTTTATGG-TGTTTTAAAGCAT
64 TTTTGAAAG-AGTTTTCAAGGAATTTTAAGGAT-TTTTAAAGCAT
* * * *
13564 TTTTTAAAGGTTTTTGAAGTTATTGGAAGCATTTTCAAGGTTTTTTTCATGGATTTCAATGGATT
1 TTTTTAAAGGTGTTTGAAGTCATTGGAAGCATTTTCAAGGTTTTTTCCATGGATTTCAAAGGATT
13629 TTGAAAGAGTTTTCAAGGAATTTTAAGGATTTTTAAAG
66 TTGAAAGAGTTTTCAAGGAATTTTAAGGATTTTTAAAG
13667 TTGTTGACAG
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
106 78 0.89
107 10 0.11
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (106 bp):
TTTTTAAAGGTGTTTGAAGTCATTGGAAGCATTTTCAAGGTTTTTTCCATGGATTTCAAAGGATT
TTGAAAGAGTTTTCAAGGAATTTTAAGGATTTTTAAAGCAT
Found at i:13642 original size:31 final size:31
Alignment explanation
Indices: 13607--13666 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
13597 TTCAAGGTTT
*
13607 TTTTCATGG-ATTTCAATGGATTTTGAAAGAG
1 TTTTCAAGGAATTTCAA-GGATTTTGAAAGAG
* *
13638 TTTTCAAGGAATTTTAAGGATTTTTAAAG
1 TTTTCAAGGAATTTCAAGGATTTTGAAAG
13667 TTGTTGACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (31 bp):
TTTTCAAGGAATTTCAAGGATTTTGAAAGAG
Found at i:13685 original size:22 final size:22
Alignment explanation
Indices: 13658--13705 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13648 ATTTTAAGGA
13658 TTTTTAAAG-TTGTTGACAGCAT
1 TTTTTAAAGATTGTTGA-AGCAT
* *
13680 TTTTTAAAGATTTTTGAAGTAT
1 TTTTTAAAGATTGTTGAAGCAT
13702 TTTT
1 TTTT
13706 AAGCATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (22 bp):
TTTTTAAAGATTGTTGAAGCAT
Found at i:13704 original size:106 final size:104
Alignment explanation
Indices: 13480--13704 Score: 233
Period size: 106 Copynumber: 2.1 Consensus size: 104
13470 TTTAAGGTCA
* * * *
13480 TTTT-AAGCATTTTTAAGGTTTTTTCCTTGGATTTCAAAGGATTTTTAAGTAGTTTTTAAGGAAT
1 TTTTGAAGCATTTTCAAGGTTTTTTCCATGGATTTCAAAGGATTTTAAAGTAGTTTTCAAGGAAT
* * * *
13544 TTTATGGTGTTTTAAAGCATTTTTTAAAGGTTTTTGAAGT
66 TTTAAGGTGTTTTAAAG-ATTGTTGAAAGGTTTTTAAAGT
* * *
13584 TATTGGAAGCATTTTCAAGGTTTTTTTCATGGATTTCAATGGATTTTGAAAG-AGTTTTCAAGGA
1 T-TTTGAAGCATTTTCAAGGTTTTTTCCATGGATTTCAAAGGATTTT-AAAGTAGTTTTCAAGGA
* *
13648 ATTTTAAGGAT-TTTTAAAG-TTGTTGACAGCATTTTTTAAAGAT
64 ATTTTAAGG-TGTTTTAAAGATTGTTGAAAG--GTTTTTAAAG-T
*
13691 TTTTGAAGTATTTT
1 TTTTGAAGCATTTT
13705 TAAGCATTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
104 8 0.08
105 2 0.02
106 83 0.84
107 6 0.06
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.48
Consensus pattern (104 bp):
TTTTGAAGCATTTTCAAGGTTTTTTCCATGGATTTCAAAGGATTTTAAAGTAGTTTTCAAGGAAT
TTTAAGGTGTTTTAAAGATTGTTGAAAGGTTTTTAAAGT
Found at i:13985 original size:21 final size:20
Alignment explanation
Indices: 13960--14004 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
13950 ATAGATTTCA
13960 AAGGATTTTCAAGGAGTTTTT
1 AAGGATTTTCAAGGA-TTTTT
* *
13981 AAGGAATTTCAAGGAATTTT
1 AAGGATTTTCAAGGATTTTT
14001 AAGG
1 AAGG
14005 TTTGTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (20 bp):
AAGGATTTTCAAGGATTTTT
Found at i:14064 original size:22 final size:22
Alignment explanation
Indices: 14039--14086 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
14029 TTTTGAAGTC
* *
14039 TTTTGAAGTATTTTTAAGGC-TT
1 TTTTCAAGGATTTTTAA-GCATT
*
14061 TTTTCATGGATTTTTAAGCATT
1 TTTTCAAGGATTTTTAAGCATT
14083 TTTT
1 TTTT
14087 AAATCCTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (22 bp):
TTTTCAAGGATTTTTAAGCATT
Found at i:14124 original size:52 final size:53
Alignment explanation
Indices: 14051--14166 Score: 173
Period size: 52 Copynumber: 2.2 Consensus size: 53
14041 TTGAAGTATT
* *
14051 TTTAAGGCTTTTTTCATGGATTTTTAAGCATTTTTTA-AATCC-TTTAACCATA
1 TTTAAGGTTTTTTTCACGGATTTTTAAGCA-TTTTTAGAATCCTTTTAACCATA
* *
14103 TTTAAGGTTTTTTTCACGGATTTTTAAGCATTTTTAGGATCCTTTTAAGCATA
1 TTTAAGGTTTTTTTCACGGATTTTTAAGCATTTTTAGAATCCTTTTAACCATA
14156 TTTAAGGTTTT
1 TTTAAGGTTTT
14167 GAAGAAATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
51 6 0.10
52 32 0.55
53 20 0.34
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (53 bp):
TTTAAGGTTTTTTTCACGGATTTTTAAGCATTTTTAGAATCCTTTTAACCATA
Found at i:14451 original size:31 final size:31
Alignment explanation
Indices: 14416--14475 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
14406 TTCAAGGTTT
*
14416 TTTTCATGG-ATTTCAATGGATTTTGAAAGAG
1 TTTTCAAGGAATTTCAA-GGATTTTGAAAGAG
* *
14447 TTTTCAAGGAATTTTAAGGATTTTTAAAG
1 TTTTCAAGGAATTTCAAGGATTTTGAAAG
14476 TTGTTGATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (31 bp):
TTTTCAAGGAATTTCAAGGATTTTGAAAGAG
Found at i:14686 original size:195 final size:195
Alignment explanation
Indices: 14423--14805 Score: 556
Period size: 195 Copynumber: 2.0 Consensus size: 195
14413 TTTTTTTCAT
* * * ** * *
14423 GGATTTCAATGGATTTTGAAAGAGTTTTCAAGGAATTTTAAGGATTTTTAAAGTTGTTGATAGCA
1 GGATTTCAAAGGATTTTCAAAGAGTTTTCAAGAAATTACAAGGAATTTTAAAGTTGTTGAAAGCA
* * * * *
14488 TTTTTTTAAGATTTTTTATGTGTTTTGAAGAATTTTTAAGGCTTTTTTCATGGATTTTTAAA-CA
66 TTTTTTAAAGATTTTTGAAGTCTTTTGAAGAATTTTTAAGGCTTTTTTCATAGA-TTTTAAAGCA
14552 TTTCTAATATCCTTTTAAACATATTTAAGGTTTTTAACAGATTTTTAACGAAATTTGAATTTTAA
130 TTTCTAATATCCTTTTAAACATATTTAAGGTTTTTAACAGATTTTTAACGAAATTTGAATTTTAA
14617 A
195 A
* * *
14618 GGATTTCAAAGGATTTTC-AAGAAGTTTTTAAGAAATTACAAGGAATTTTAAGGGTT-TTTAAAG
1 GGATTTCAAAGGATTTTCAAAG-AGTTTTCAAGAAATTACAAGGAATTTTAA-AGTTGTTGAAAG
*
14681 CATTTTTTAAAGATTTTTGAAGTCTTTTGAAGTATTTTTAAGGCTTTTTTCATAGATTTTAAAGC
64 CATTTTTTAAAGATTTTTGAAGTCTTTTGAAGAATTTTTAAGGCTTTTTTCATAGATTTTAAAGC
* *
14746 ATTTTTAATATCCTTTTAAACATATTTAAGGTTTTTAAGAGATTTTTAACGAAATTTGAA
129 ATTTCTAATATCCTTTTAAACATATTTAAGGTTTTTAACAGATTTTTAACGAAATTTGAA
14806 AGATTTTTTA
Statistics
Matches: 167, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
194 10 0.06
195 154 0.92
196 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (195 bp):
GGATTTCAAAGGATTTTCAAAGAGTTTTCAAGAAATTACAAGGAATTTTAAAGTTGTTGAAAGCA
TTTTTTAAAGATTTTTGAAGTCTTTTGAAGAATTTTTAAGGCTTTTTTCATAGATTTTAAAGCAT
TTCTAATATCCTTTTAAACATATTTAAGGTTTTTAACAGATTTTTAACGAAATTTGAATTTTAAA
Found at i:14697 original size:10 final size:10
Alignment explanation
Indices: 14672--14832 Score: 53
Period size: 11 Copynumber: 15.4 Consensus size: 10
14662 ATTTTAAGGG
14672 TTTTTAAAGCA
1 TTTTTAAAG-A
14683 TTTTTTAAAGA
1 -TTTTTAAAGA
*
14694 TTTTTGAAG-
1 TTTTTAAAGA
*
14703 TCTTTTGAAGTA
1 T-TTTTAAAG-A
* *
14715 TTTTTAAGGCT
1 TTTTTAAAG-A
*
14726 TTTTTCATAGA
1 TTTTT-AAAGA
14737 -TTTTAAAGCA
1 TTTTTAAAG-A
*
14747 TTTTT-AATA
1 TTTTTAAAGA
*
14756 TCCTTTTAAACA
1 T--TTTTAAAGA
* *
14768 TATTT-AAGG
1 TTTTTAAAGA
14777 TTTTTAAGAGA
1 TTTTTAA-AGA
*
14788 TTTTTAACGAA
1 TTTTTAAAG-A
* *
14799 ATTTGAAAGA
1 TTTTTAAAGA
* *
14809 TTTTTTATG-
1 TTTTTAAAGA
14818 TTTTTAAAGCA
1 TTTTTAAAG-A
14829 TTTT
1 TTTT
14833 AAATTTCTTT
Statistics
Matches: 109, Mismatches: 26, Indels: 29
0.66 0.16 0.18
Matches are distributed among these distances:
9 19 0.17
10 34 0.31
11 40 0.37
12 16 0.15
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (10 bp):
TTTTTAAAGA
Found at i:14697 original size:22 final size:21
Alignment explanation
Indices: 14663--14753 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
14653 TTACAAGGAA
* *
14663 TTTTAAGGGTTTTTAAAGCATT
1 TTTTAAAGATTTTTAAAGC-TT
* *
14685 TTTTAAAGATTTTTGAAG-TC
1 TTTTAAAGATTTTTAAAGCTT
* *
14705 TTTTGAAGTATTTTTAAGGCTT
1 TTTTAAAG-ATTTTTAAAGCTT
* *
14727 TTTTCATAGA-TTTTAAAGCAT
1 TTTT-AAAGATTTTTAAAGCTT
14748 TTTTAA
1 TTTTAA
14754 TATCCTTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
20 9 0.17
21 21 0.40
22 21 0.40
23 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTTAAAGATTTTTAAAGCTT
Found at i:14947 original size:11 final size:10
Alignment explanation
Indices: 14902--15116 Score: 63
Period size: 10 Copynumber: 21.5 Consensus size: 10
14892 TTTTATACTT
14902 TTTTTAAGGA
1 TTTTTAAGGA
*
14912 TGTTTAAGG-
1 TTTTTAAGGA
*
14921 TCATTTNAAGGA
1 T--TTTTAAGGA
14933 TTTTTAAGGA
1 TTTTTAAGGA
* * *
14943 GTTTTAAAGT
1 TTTTTAAGGA
*
14953 TTTTTAAAGCA
1 TTTTT-AAGGA
*
14964 TTTTTCAAAGA
1 TTTTT-AAGGA
*
14975 TTTTTGAAGTA
1 TTTTT-AAGGA
* * *
14986 CTTTGAAGCA
1 TTTTTAAGGA
14996 TTTTTAAGG-
1 TTTTTAAGGA
*
15005 TTTTT----T
1 TTTTTAAGGA
15011 TTTTTATA-GA
1 TTTTTA-AGGA
*
15021 TTTTTAAGCA
1 TTTTTAAGGA
*
15031 -TTTTAAGCA
1 TTTTTAAGGA
*
15040 TTTTTTAGG-
1 TTTTTAAGGA
* *
15049 TTTCGGTCATGGA
1 TTT---TTAAGGA
**
15062 TTTCAAAGGA
1 TTTTTAAGGA
15072 TTTTTAAGGA
1 TTTTTAAGGA
15082 GTTTTTAAGGA
1 -TTTTTAAGGA
* * *
15093 ATCTAAAGGA
1 TTTTTAAGGA
*
15103 ATTTTAA-GA
1 TTTTTAAGGA
15112 TTTTT
1 TTTTT
15117 TAAAATATTT
Statistics
Matches: 148, Mismatches: 41, Indels: 33
0.67 0.18 0.15
Matches are distributed among these distances:
6 5 0.03
9 25 0.17
10 74 0.50
11 37 0.25
12 4 0.03
13 3 0.02
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:15138 original size:22 final size:22
Alignment explanation
Indices: 15104--15149 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
15094 TCTAAAGGAA
15104 TTTTAAGATTTTTTAAAATATT
1 TTTTAAGATTTTTTAAAATATT
*
15126 TTTTAAAGA-TTTTTAAAATCTT
1 TTTT-AAGATTTTTTAAAATATT
15148 TT
1 TT
15150 GAAGCAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTTAAGATTTTTTAAAATATT
Found at i:15169 original size:84 final size:84
Alignment explanation
Indices: 15074--15237 Score: 206
Period size: 84 Copynumber: 2.0 Consensus size: 84
15064 TCAAAGGATT
* * * *
15074 TTTAAGGAGTTTTTAAGGAATCTAAAGGAATTTT--AAGATTTTTTAAAATATTTTTTAAAGATT
1 TTTAAGGAGTTTTCAAAGAATCTAAAGG-ATTTTGAAAG-TTTTTTAAAACATTTTTAAAAGATT
15137 TTTAAAATCTTTTGAAGCAAC
64 TTTAAAATCTTTTGAAGCAAC
* * *
15158 TTTAAGTAGTTTTCAAAGAATTTGAAGGATTTTGAAAGTTTTTTAAAACATTTTTAAAAGATTTT
1 TTTAAGGAGTTTTCAAAGAATCTAAAGGATTTTGAAAGTTTTTTAAAACATTTTTAAAAGATTTT
* * *
15223 TGAAGTGTTTTGAAG
66 TAAAATCTTTTGAAG
15238 TATTTTTAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 5 0.07
84 60 0.88
85 3 0.04
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.45
Consensus pattern (84 bp):
TTTAAGGAGTTTTCAAAGAATCTAAAGGATTTTGAAAGTTTTTTAAAACATTTTTAAAAGATTTT
TAAAATCTTTTGAAGCAAC
Found at i:15254 original size:21 final size:20
Alignment explanation
Indices: 15230--15279 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
15220 TTTTGAAGTG
* *
15230 TTTTGAAGTATTTTTAAGACT
1 TTTTGAAGAATTTTTAAG-CA
* *
15251 TTTTCATGAATTTTTAAGCA
1 TTTTGAAGAATTTTTAAGCA
15271 TTTTGAAGA
1 TTTTGAAGA
15280 TCCTTTTAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (20 bp):
TTTTGAAGAATTTTTAAGCA
Found at i:15652 original size:20 final size:22
Alignment explanation
Indices: 15627--15675 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
15617 TTTGAAGGAA
*
15627 TTTTAAAGA-ATTCT-AAAGTT
1 TTTTAAAGACATTCTAAAAGAT
*
15647 TTTTAAA-ACATTTTAAAAGAT
1 TTTTAAAGACATTCTAAAAGAT
15668 TTTTAAAG
1 TTTTAAAG
15676 TCTTTCGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 11 0.46
21 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (22 bp):
TTTTAAAGACATTCTAAAAGAT
Found at i:15900 original size:21 final size:21
Alignment explanation
Indices: 15876--15972 Score: 65
Period size: 21 Copynumber: 4.7 Consensus size: 21
15866 TTTGAGGATG
*
15876 TTTAAGGTCATTTTAAGCATT
1 TTTAAGGTCATTTTAAGAATT
* * *
15897 TTTAAAGTTATTTTAATGAATA
1 TTTAAGGTCATTTTAA-GAATT
* *
15919 TTAAAGG-AATTTTAAGGAATT
1 TTTAAGGTCATTTTAA-GAATT
* **
15940 TTTAA-GTAATTTTAAGGTTT
1 TTTAAGGTCATTTTAAGAATT
*
15960 TTTAAAG-CATTTT
1 TTTAAGGTCATTTT
15973 TAAAGATTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 14 0.23
21 38 0.63
22 8 0.13
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (21 bp):
TTTAAGGTCATTTTAAGAATT
Found at i:16197 original size:11 final size:10
Alignment explanation
Indices: 15864--16287 Score: 110
Period size: 10 Copynumber: 40.4 Consensus size: 10
15854 TTTTTTGCCC
*
15864 TTTTTGAGGA
1 TTTTTAAGGA
*
15874 TGTTTAAGG-
1 TTTTTAAGGA
*
15883 TCATTTTAAGCA
1 T--TTTTAAGGA
* *
15895 TTTTTAAAGT
1 TTTTTAAGGA
*
15905 TATTTTAATGAA
1 T-TTTTAA-GGA
* *
15917 TATTAAAGGA
1 TTTTTAAGGA
*
15927 ATTTTAAGGAA
1 TTTTTAAGG-A
*
15938 TTTTTAAGTA
1 TTTTTAAGGA
* *
15948 ATTTTAAGGT
1 TTTTTAAGGA
*
15958 TTTTTAAAGCA
1 TTTTT-AAGGA
*
15969 TTTTTAAAGA
1 TTTTTAAGGA
15979 TTTTTGAA--A
1 TTTTT-AAGGA
*
15988 TCTTTTGAAGCA
1 T-TTTT-AAGGA
*
16000 TTTTTAAGGTT
1 TTTTTAAGG-A
*
16011 TTTTTCATGGA
1 TTTTT-AAGGA
**
16022 TTTCAAAGGA
1 TTTTTAAGGA
16032 TTTTTAAGGAA
1 TTTTTAAGG-A
*
16043 TTTTCAAGGA
1 TTTTTAAGGA
*
16053 ATTTT-AGGTA
1 TTTTTAAGG-A
*
16063 TTTTTAAAG-
1 TTTTTAAGGA
*
16072 TTTTGTAAAGCA
1 TTTT-T-AAGGA
*
16084 TTTTTTAAAGA
1 -TTTTTAAGGA
*
16095 TTTTTGAAGTA
1 TTTTT-AAGGA
** * *
16106 CATTGAAGCA
1 TTTTTAAGGA
*
16116 TTTTTAAGGTTTT
1 TTTTTAAGG---A
16129 TTTTTATA-GA
1 TTTTTA-AGGA
*
16139 TTTTTAAGCA
1 TTTTTAAGGA
16149 TTTTTAAGG-
1 TTTTTAAGGA
*
16158 TTTTGGTCATGGA
1 TTTT--T-AAGGA
**
16171 TTTCAAAGGA
1 TTTTTAAGGA
16181 TTTTTAAGGA
1 TTTTTAAGGA
*
16191 GTTTTTAACGA
1 -TTTTTAAGGA
*
16202 ATTTTAAGGA
1 TTTTTAAGGA
* *
16212 ATTTTAA-CA
1 TTTTTAAGGA
*
16221 TTTTTTAAAGA
1 -TTTTTAAGGA
*
16232 TTTTTAAAG-
1 TTTTTAAGGA
*
16241 TCTTTTGAAGCA
1 T-TTTT-AAGGA
* *
16253 ATTTTAAGTA
1 TTTTTAAGGA
* *
16263 GGTTTCAAGGA
1 -TTTTTAAGGA
*
16274 ATTTTAAGGA
1 TTTTTAAGGA
16284 TTTT
1 TTTT
16288 GAAAGTTTTT
Statistics
Matches: 297, Mismatches: 80, Indels: 74
0.66 0.18 0.16
Matches are distributed among these distances:
9 17 0.06
10 163 0.55
11 91 0.31
12 11 0.04
13 14 0.05
14 1 0.00
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:16360 original size:84 final size:85
Alignment explanation
Indices: 16217--16372 Score: 217
Period size: 84 Copynumber: 1.8 Consensus size: 85
16207 AAGGAATTTT
* *
16217 AACATTTTTTAAAGATTTTTAAAGTCTTTTGAAGCAATTTTAAGTAGGTTTCAAGGAA-TTTTAA
1 AACATTTTTTAAAGATTTTTAAAGTCTTTTGAAGCAATTTTAAGTACGTTTCAACGAATTTTTAA
*
16281 GGATTTTGAAAGTTTTTTAA
66 GCATTTTGAAAGTTTTTTAA
* * * * *
16301 AACATTTTTTAAAGATTTTTGAAGTGTTTTGAAGTAATTTTAAG-ACTTTTCTCACGAATTTTTA
1 AACATTTTTTAAAGATTTTTAAAGTCTTTTGAAGCAATTTTAAGTACGTTTC-AACGAATTTTTA
16365 AGCATTTT
65 AGCATTTT
16373 AAAAATCCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 5 0.08
84 45 0.73
85 12 0.19
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (85 bp):
AACATTTTTTAAAGATTTTTAAAGTCTTTTGAAGCAATTTTAAGTACGTTTCAACGAATTTTTAA
GCATTTTGAAAGTTTTTTAA
Found at i:16910 original size:10 final size:10
Alignment explanation
Indices: 16897--17019 Score: 54
Period size: 10 Copynumber: 11.8 Consensus size: 10
16887 TTAAAACATT
16897 TTTTTAAAGA
1 TTTTTAAAGA
16907 TTTTTAAAG-
1 TTTTTAAAGA
*
16916 TCTTTTGAAGCA
1 T-TTTTAAAG-A
*
16928 ATTTT-AAGTA
1 TTTTTAAAG-A
* *
16938 GTTTTCAAGGA
1 -TTTTTAAAGA
* *
16949 ATTTTAAGGA
1 TTTTTAAAGA
* *
16959 TTTTGAAAGT
1 TTTTTAAAGA
*
16969 TTTTTAGAACA
1 TTTTTA-AAGA
16980 TTTTTTAAAGA
1 -TTTTTAAAGA
*
16991 TTTTTGAAG-
1 TTTTTAAAGA
*
17000 TGTTTTGAAGTA
1 T-TTTTAAAG-A
17012 TTTTTAAA
1 TTTTTAAA
17020 ACTTTTTTCA
Statistics
Matches: 85, Mismatches: 18, Indels: 19
0.70 0.15 0.16
Matches are distributed among these distances:
9 2 0.02
10 55 0.65
11 19 0.22
12 9 0.11
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (10 bp):
TTTTTAAAGA
Found at i:16912 original size:85 final size:84
Alignment explanation
Indices: 16843--17009 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 84
16833 TTTGTGATGC
*
16843 ATTTCAA-AAGATTTTTAAGGAATCTTAAGGAGTTTT--AAGATTTTTTAAAACATTTTTTTAAA
1 ATTTCAAGAAG-TTTTCAAGGAATCTTAAGGA-TTTTGAAAG-TTTTTTAAAACA-TTTTTTAAA
16905 GATTTTTAAAGTCTTTTGAAGCA
62 GATTTTTAAAGTCTTTTGAAGCA
* * * *
16928 ATTTTAAGTAGTTTTCAAGGAATTTTAAGGATTTTGAAAGTTTTTTAGAACATTTTTTAAAGATT
1 ATTTCAAGAAGTTTTCAAGGAATCTTAAGGATTTTGAAAGTTTTTTAAAACATTTTTTAAAGATT
* *
16993 TTTGAAGTGTTTTGAAG
66 TTTAAAGTCTTTTGAAG
17010 TATTTTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
84 32 0.44
85 35 0.49
86 5 0.07
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (84 bp):
ATTTCAAGAAGTTTTCAAGGAATCTTAAGGATTTTGAAAGTTTTTTAAAACATTTTTTAAAGATT
TTTAAAGTCTTTTGAAGCA
Found at i:16942 original size:21 final size:20
Alignment explanation
Indices: 16918--16965 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
16908 TTTTAAAGTC
*
16918 TTTTGAAGCAATTTTAAGTA
1 TTTTGAAGCAATTTTAAGGA
* *
16938 GTTTTCAAGGAATTTTAAGGA
1 -TTTTGAAGCAATTTTAAGGA
16959 TTTTGAA
1 TTTTGAA
16966 AGTTTTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (20 bp):
TTTTGAAGCAATTTTAAGGA
Found at i:17028 original size:85 final size:85
Alignment explanation
Indices: 16853--17053 Score: 225
Period size: 84 Copynumber: 2.4 Consensus size: 85
16843 ATTTCAAAAG
*
16853 ATTTTT-AAGGAATCTTAAGGAGTTTT-AAGATTTTTTAAAACATTTTTTTAAAGATTTTTAAAG
1 ATTTTTCAAGGAATTTTAAGGA-TTTTAAAGATTTTTTAAAACATTTTTTTAAAGATTTTTAAAG
*
16916 TCTTTTGAAGCAATTTTAAGT
65 TCTTTTGAAGCAATTTTAACT
* * *
16937 AGTTTTCAAGGAATTTTAAGGATTTTGAAAG-TTTTTTAGAACA-TTTTTTAAAGATTTTTGAAG
1 ATTTTTCAAGGAATTTTAAGGATTTT-AAAGATTTTTTAAAACATTTTTTTAAAGATTTTTAAAG
* * *
17000 TGTTTTGAAGTATTTTTAAAACT
65 TCTTTTGAAGCAATTTT--AACT
* *
17023 -TTTTTC-ATGAATTTTTAAGCATTTTAAAGAT
1 ATTTTTCAAGGAA-TTTTAAGGATTTTAAAGAT
17054 CCTTTTAAGT
Statistics
Matches: 99, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
84 50 0.51
85 43 0.43
86 6 0.06
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTTTTCAAGGAATTTTAAGGATTTTAAAGATTTTTTAAAACATTTTTTTAAAGATTTTTAAAGT
CTTTTGAAGCAATTTTAACT
Found at i:17284 original size:21 final size:21
Alignment explanation
Indices: 17257--17321 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
17247 TTTATAGATG
17257 TTAAAGGATTTTTAAGGAGTTT
1 TTAAAGGATTTTTAAGGA-TTT
* *
17279 TT-AAGGAATTTTAAGGTTTT
1 TTAAAGGATTTTTAAGGATTT
* *
17299 TTAAAGCATTTTTAAAGATTT
1 TTAAAGGATTTTTAAGGATTT
17320 TT
1 TT
17322 CATGTCTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.14
21 29 0.81
22 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (21 bp):
TTAAAGGATTTTTAAGGATTT
Found at i:17300 original size:10 final size:10
Alignment explanation
Indices: 17260--17554 Score: 78
Period size: 10 Copynumber: 28.0 Consensus size: 10
17250 ATAGATGTTA
17260 AAGGATTTTT
1 AAGGATTTTT
17270 AAGGAGTTTTT
1 AAGGA-TTTTT
*
17281 AAGGAATTTT
1 AAGGATTTTT
*
17291 AAGGTTTTTT
1 AAGGATTTTT
*
17301 AAAGCATTTTT
1 -AAGGATTTTT
*
17312 AAAGATTTTT
1 AAGGATTTTT
* *
17322 CATG-TCTTTT
1 AAGGAT-TTTT
*
17332 GAAGCATTTTT
1 -AAGGATTTTT
17343 AAGGATTGTTTT
1 AAGGA-T-TTTT
* **
17355 CATGGATTTCAA
1 -AAGGATTT-TT
17367 AAGG-TTTTT
1 AAGGATTTTT
* *
17376 AAGGAGTTGTC
1 AAGGA-TTTTT
* *
17387 AAAGAATTTT
1 AAGGATTTTT
* *
17397 AAAGATTTTA
1 AAGGATTTTT
***
17407 AAACTTTTTT
1 AAGGATTTTT
*
17417 AAAGCATTTTTT
1 -AAGGA-TTTTT
*
17429 AAAGATTTTT
1 AAGGATTTTT
*
17439 GAAGTATTTTGT
1 -AAGGATTTT-T
*
17451 -AGCATTTTT
1 AAGGATTTTT
**
17460 AACGCTTTTTTTT
1 AA-G--GATTTTT
*
17473 AATAGATTTTT
1 AA-GGATTTTT
*
17484 AAGCATTTTT
1 AAGGATTTTT
17494 AAGG-TTTTGGT
1 AAGGATTTT--T
* **
17505 CATGGATTTCA
1 -AAGGATTTTT
17516 AAGGATTTTT
1 AAGGATTTTT
* *
17526 AAGGAATCTT
1 AAGGATTTTT
*
17536 AAGGAATTTT
1 AAGGATTTTT
17546 AA-GATTTTT
1 AAGGATTTTT
17555 TAAAACATTG
Statistics
Matches: 206, Mismatches: 56, Indels: 47
0.67 0.18 0.15
Matches are distributed among these distances:
9 16 0.08
10 103 0.50
11 58 0.28
12 15 0.07
13 14 0.07
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (10 bp):
AAGGATTTTT
Found at i:17311 original size:31 final size:31
Alignment explanation
Indices: 17276--17347 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
17266 TTTTAAGGAG
*
17276 TTTTTAAGGAATTTTAAGGTTTTTTAAAGCA
1 TTTTTAAGGAATTTTAAGGTCTTTTAAAGCA
* * * * *
17307 TTTTTAAAGATTTTTCATGTCTTTTGAAGCA
1 TTTTTAAGGAATTTTAAGGTCTTTTAAAGCA
17338 TTTTTAAGGA
1 TTTTTAAGGA
17348 TTGTTTTCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (31 bp):
TTTTTAAGGAATTTTAAGGTCTTTTAAAGCA
Found at i:17428 original size:12 final size:12
Alignment explanation
Indices: 17402--17438 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
17392 ATTTTAAAGA
*
17402 TTTTAAAAC-TT
1 TTTTAAAGCATT
17413 TTTTAAAGCATT
1 TTTTAAAGCATT
17425 TTTTAAAG-ATT
1 TTTTAAAGCATT
17436 TTT
1 TTT
17439 GAAGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (12 bp):
TTTTAAAGCATT
Found at i:17619 original size:21 final size:21
Alignment explanation
Indices: 17595--17643 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17585 TTTTGATGCA
* *
17595 ATTTTAAGTAGTTTTGAAGGT
1 ATTTTAAGGAGTTTTGAAAGT
*
17616 ATTTTAAGGATTTTTGAAAGT
1 ATTTTAAGGAGTTTTGAAAGT
*
17637 TTTTTAA
1 ATTTTAA
17644 AACATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (21 bp):
ATTTTAAGGAGTTTTGAAAGT
Found at i:18037 original size:21 final size:21
Alignment explanation
Indices: 18013--18064 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
18003 ATGGATTTCA
18013 AAGGATTTTTAAGGGGTTTTG
1 AAGGATTTTTAAGGGGTTTTG
* * **
18034 AAGGAATTTTAATGTTTTTTG
1 AAGGATTTTTAAGGGGTTTTG
*
18055 AAGAATTTTT
1 AAGGATTTTT
18065 TAAAGATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (21 bp):
AAGGATTTTTAAGGGGTTTTG
Found at i:18606 original size:31 final size:32
Alignment explanation
Indices: 18549--18648 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 32
18539 GGTTAAGGCC
* **
18549 ATTTTAAGCATTTTTT-AGGTTTTTTTTAATGA
1 ATTTTAAG-ATTTTTTAAAGTAGTTTTTAATGA
*
18581 ATTTTAA-ATATTTTTAAAG-AGTTTTTAAGGA
1 ATTTTAAGAT-TTTTTAAAGTAGTTTTTAATGA
* *
18612 ATTTTAAGGTTTTTTAAAGTATTTTTTAATGA
1 ATTTTAAGATTTTTTAAAGTAGTTTTTAATGA
*
18644 TTTTT
1 ATTTT
18649 GAACTCTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
30 2 0.04
31 30 0.54
32 24 0.43
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (32 bp):
ATTTTAAGATTTTTTAAAGTAGTTTTTAATGA
Found at i:18626 original size:10 final size:10
Alignment explanation
Indices: 18571--18820 Score: 56
Period size: 10 Copynumber: 23.8 Consensus size: 10
18561 TTTTAGGTTT
*
18571 TTTTTAATGA
1 TTTTTAAGGA
* **
18581 ATTTTAAATA
1 TTTTTAAGGA
*
18591 TTTTTAAAGA
1 TTTTTAAGGA
18601 GTTTTTAAGGA
1 -TTTTTAAGGA
* *
18612 ATTTTAAGGT
1 TTTTTAAGGA
*
18622 TTTTTAAAGTA
1 TTTTT-AAGGA
*
18633 TTTTTTAATGA
1 -TTTTTAAGGA
***
18644 TTTTTGAACTC
1 TTTTT-AAGGA
* *
18655 TTTTGAAGCA
1 TTTTTAAGGA
*
18665 TTTTTAAGGT
1 TTTTTAAGGA
*
18675 TCTTCTTCATGGA
1 T-TT-TT-AAGGA
*
18688 TTTTAAAGGA
1 TTTTTAAGGA
*
18698 TATTTAAGGA
1 TTTTTAAGGA
* *
18708 GTTTTCAAAGAA
1 -TTTT-TAAGGA
*
18720 TTTTGAA-GA
1 TTTTTAAGGA
**
18729 -TTTTAATAA
1 TTTTTAAGGA
*
18738 TTTTTTAAAGTA
1 -TTTTT-AAGGA
*
18750 TTTTTTAAAGA
1 -TTTTTAAGGA
*
18761 TTTTTAAAG-
1 TTTTTAAGGA
*
18770 TCTTTTGAAGTA
1 T-TTTT-AAGGA
* **
18782 TTTTCAAAGTT
1 TTTT-TAAGGA
*
18793 TTTTTATGGA
1 TTTTTAAGGA
*
18803 TTTTTAAGCA
1 TTTTTAAGGA
18813 TTTTTAAG
1 TTTTTAAG
18821 ATCTTTTTAA
Statistics
Matches: 173, Mismatches: 50, Indels: 34
0.67 0.19 0.13
Matches are distributed among these distances:
8 5 0.03
9 3 0.02
10 87 0.50
11 51 0.29
12 23 0.13
13 4 0.02
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:18753 original size:11 final size:11
Alignment explanation
Indices: 18739--18819 Score: 62
Period size: 10 Copynumber: 7.6 Consensus size: 11
18729 TTTTAATAAT
18739 TTTTTAAAGTA
1 TTTTTAAAGTA
18750 TTTTTTAAAG-A
1 -TTTTTAAAGTA
18761 TTTTTAAAGT-
1 TTTTTAAAGTA
* *
18771 CTTTTGAAGTA
1 TTTTTAAAGTA
*
18782 TTTTCAAAGT-
1 TTTTTAAAGTA
* * *
18792 TTTTTTATGGA
1 TTTTTAAAGTA
*
18803 TTTTT-AAGCA
1 TTTTTAAAGTA
18813 TTTTTAA
1 TTTTTAA
18820 GATCTTTTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
10 31 0.57
11 14 0.26
12 9 0.17
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.56
Consensus pattern (11 bp):
TTTTTAAAGTA
Found at i:18754 original size:12 final size:12
Alignment explanation
Indices: 18737--18775 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
18727 GATTTTAATA
18737 ATTTTTTAAAGT
1 ATTTTTTAAAGT
18749 ATTTTTTAAAG-
1 ATTTTTTAAAGT
18760 A-TTTTTAAAGT
1 ATTTTTTAAAGT
*
18771 CTTTT
1 ATTTT
18776 GAAGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
12 14 0.58
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (12 bp):
ATTTTTTAAAGT
Found at i:18764 original size:21 final size:20
Alignment explanation
Indices: 18740--18798 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
18730 TTTAATAATT
18740 TTTTAAAGTATTTTTTAAAGA
1 TTTTAAAGT-TTTTTTAAAGA
* *
18761 TTTTTAAAG-TCTTTTGAAGTA
1 -TTTTAAAGTTTTTTTAAAG-A
18782 TTTTCAAAGTTTTTTTA
1 TTTT-AAAGTTTTTTTA
18799 TGGATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 12 0.40
21 5 0.17
22 13 0.43
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTAAAGTTTTTTTAAAGA
Found at i:18805 original size:21 final size:21
Alignment explanation
Indices: 18739--18809 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
18729 TTTTAATAAT
*
18739 TTTTTAAAGTATTTTTTAAAGA
1 TTTTTAAAGT-TTTTTTAAGGA
* * *
18761 TTTTTAAAGTCTTTTGAAGTA
1 TTTTTAAAGTTTTTTTAAGGA
* *
18782 TTTTCAAAGTTTTTTTATGGA
1 TTTTTAAAGTTTTTTTAAGGA
18803 TTTTTAA
1 TTTTTAA
18810 GCATTTTTAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 29 0.74
22 10 0.26
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (21 bp):
TTTTTAAAGTTTTTTTAAGGA
Found at i:19034 original size:23 final size:22
Alignment explanation
Indices: 18991--19034 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
18981 TTTAAGGCCA
* *
18991 TTTTAAGCATTTTAAAGGTTTT
1 TTTTAAGCATTTCAAAAGTTTT
*
19013 TTTTAATGGATTTCAAAAGTTT
1 TTTTAA-GCATTTCAAAAGTTT
19035 ATTAAGGAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (22 bp):
TTTTAAGCATTTCAAAAGTTTT
Found at i:19156 original size:10 final size:10
Alignment explanation
Indices: 19116--19214 Score: 65
Period size: 10 Copynumber: 9.5 Consensus size: 10
19106 CTTTTAAAGC
19116 ATTTTTAAGG
1 ATTTTTAAGG
* *
19126 TTTTTTCATGG
1 ATTTTT-AAGG
**
19137 ATTTCAAAGG
1 ATTTTTAAGG
19147 ATTTTTAAGG
1 ATTTTTAAGG
* *
19157 AGTTTTCAAGA
1 A-TTTTTAAGG
*
19168 AATTTTAAGG
1 ATTTTTAAGG
19178 ATTTTTAA-G
1 ATTTTTAAGG
*
19187 ATTGTTTAAAGC
1 ATT-TTT-AAGG
*
19199 ATTCTTTAAAG
1 ATT-TTTAAGG
19210 ATTTT
1 ATTTT
19215 AGAAGTCTTT
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
9 4 0.06
10 35 0.53
11 21 0.32
12 6 0.09
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.47
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:19163 original size:31 final size:31
Alignment explanation
Indices: 19108--19186 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
19098 TCTGAACTCT
* ** * *
19108 TTTAAAGCATTTTTAAGGTTTTTTCATG-GA
1 TTTAAAGGATTTTTAAGGAGTTTTCAAGAAA
19138 TTTCAAAGGATTTTTAAGGAGTTTTCAAGAAA
1 TTT-AAAGGATTTTTAAGGAGTTTTCAAGAAA
*
19170 TTTTAAGGATTTTTAAG
1 TTTAAAGGATTTTTAAG
19187 ATTGTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.07
31 34 0.83
32 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.46
Consensus pattern (31 bp):
TTTAAAGGATTTTTAAGGAGTTTTCAAGAAA
Found at i:19172 original size:115 final size:115
Alignment explanation
Indices: 18991--19250 Score: 275
Period size: 115 Copynumber: 2.2 Consensus size: 115
18981 TTTAAGGCCA
*
18991 TTTTAAGCATTTTAAAGGTTTTTTTTAATGGATTTCAAAAGTTTATTAAGGAGTTTATAACGAAT
1 TTTTAAGCATTTTTAAGG-TTTTTTTAATGGATTTCAAAAGTTTATTAAGGAGTTTATAACGAAT
* * * *
19056 TTT-AGGAAATTTTT-AGGTTTTTTCAAGCATTTTTTAAAGAGTTCT-GAACTC
65 TTTAAGG--ATTTTTAAGATTGTTTAAAGCATTCTTTAAAGA-TTCTAGAACTC
* *
19107 TTTTAAAGCATTTTTAAGG-TTTTTTCATGGATTTCAAAGGATTT-TTAAGGAGTTT-TCAA-GA
1 TTTT-AAGCATTTTTAAGGTTTTTTTAATGGATTTCAAAAG-TTTATTAAGGAGTTTAT-AACG-
* *
19168 AATTTTAAGGATTTTTAAGATTGTTTAAAGCATTCTTTAAAGATTTTAGAAGTC
62 AATTTTAAGGATTTTTAAGATTGTTTAAAGCATTCTTTAAAGATTCTAGAACTC
* *
19222 TTTTGAAGTATTTTTGAA-ATTTTTTTAAT
1 TTTT-AAGCATTTTT-AAGGTTTTTTTAAT
19251 TAATTTTTAA
Statistics
Matches: 122, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
114 11 0.09
115 78 0.64
116 20 0.16
117 13 0.11
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (115 bp):
TTTTAAGCATTTTTAAGGTTTTTTTAATGGATTTCAAAAGTTTATTAAGGAGTTTATAACGAATT
TTAAGGATTTTTAAGATTGTTTAAAGCATTCTTTAAAGATTCTAGAACTC
Found at i:19175 original size:21 final size:20
Alignment explanation
Indices: 19149--19187 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
19139 TTCAAAGGAT
19149 TTTTAAGGAGTTTTCAAGAAA
1 TTTTAAGGA-TTTTCAAGAAA
*
19170 TTTTAAGGATTTTTAAGA
1 TTTTAAGGATTTTCAAGA
19188 TTGTTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (20 bp):
TTTTAAGGATTTTCAAGAAA
Found at i:19505 original size:10 final size:10
Alignment explanation
Indices: 19490--19610 Score: 118
Period size: 10 Copynumber: 11.7 Consensus size: 10
19480 TTTTTTACTC
19490 TTTTTAAGGA
1 TTTTTAAGGA
*
19500 TGTTTAAGG-
1 TTTTTAAGGA
19509 TCATTTTAAGGA
1 T--TTTTAAGGA
*
19521 TTTTTAAGAA
1 TTTTTAAGGA
19531 TTTTTTAAAGGA
1 -TTTTT-AAGGA
**
19543 TTTCAAAGGA
1 TTTTTAAGGA
19553 TTTTTAAGGA
1 TTTTTAAGGA
19563 GTTTTTAAGGA
1 -TTTTTAAGGA
*
19574 ATTTTAAGGA
1 TTTTTAAGGA
* *
19584 ATTTTAAGGT
1 TTTTTAAGGA
*
19594 TTTTTAAGGT
1 TTTTTAAGGA
19604 TTTTTAA
1 TTTTTAA
19611 TGCATTTTCT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
9 1 0.01
10 63 0.67
11 25 0.27
12 5 0.05
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:19525 original size:31 final size:30
Alignment explanation
Indices: 19490--19607 Score: 114
Period size: 31 Copynumber: 3.8 Consensus size: 30
19480 TTTTTTACTC
*
19490 TTTTTAAGGA-TGTTTAAGGTCATTTTAAGGA
1 TTTTTAAGGAGTTTTTAAGG--ATTTTAAGGA
* * *
19521 TTTTTAAGAATTTTTTAAAGGATTTCAAAGGA
1 TTTTTAAGGAGTTTTT-AAGGATTT-TAAGGA
19553 TTTTTAAGGAGTTTTTAAGGAATTTTAAGGA
1 TTTTTAAGGAGTTTTTAAGG-ATTTTAAGGA
* * *
19584 ATTTTAAGG-TTTTTTAAGGTTTTT
1 TTTTTAAGGAGTTTTTAAGGATTTT
19608 TAATGCATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
29 4 0.05
30 9 0.12
31 30 0.41
32 27 0.36
33 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (30 bp):
TTTTTAAGGAGTTTTTAAGGATTTTAAGGA
Found at i:19535 original size:72 final size:74
Alignment explanation
Indices: 19385--19535 Score: 198
Period size: 72 Copynumber: 2.1 Consensus size: 74
19375 TTCTAAACAT
* *
19385 TTTTTAAGGTTTTTTCAAGTTTTTTTTGGCTTTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
1 TTTTTAAGGTTTTTTCAAGTTTTTTTTGACTCTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
**
19450 TTTTAAGTG
66 TTTTAAGAA
* ** * * *
19459 TTTTTAGGGTTTTTT-ATTTTTTTTTTTACTCTTTTT-AAGGATGTTTAAGGTCATTTTAAGGAT
1 TTTTTAAGGTTTTTTCAAGTTTTTTTTGACTCTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
19522 TTTTAAGAA
66 TTTTAAGAA
19531 TTTTT
1 TTTTT
19536 TAAAGGATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
72 37 0.55
73 16 0.24
74 14 0.21
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.58
Consensus pattern (74 bp):
TTTTTAAGGTTTTTTCAAGTTTTTTTTGACTCTTTTTAAAAGATGTTTAAGGTCATTTTAAGCAT
TTTTAAGAA
Found at i:19552 original size:32 final size:31
Alignment explanation
Indices: 19511--19600 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 31
19501 GTTTAAGGTC
*
19511 ATTTTAAGGATTTTTAAGAATTTTTTAAAGG-
1 ATTTAAAGGATTTTTAAG-ATTTTTTAAAGGA
*
19542 ATTTCAAAGGATTTTTAAGGAGTTTTT-AAGGA
1 ATTT-AAAGGATTTTTAA-GATTTTTTAAAGGA
* * *
19574 ATTTTAAGGAATTTTAAGGTTTTTTAA
1 ATTTAAAGGATTTTTAAGATTTTTTAA
19601 GGTTTTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
30 6 0.12
31 20 0.41
32 22 0.45
33 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (31 bp):
ATTTAAAGGATTTTTAAGATTTTTTAAAGGA
Done.