Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold297
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: 150802
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
File 1 of 2
Found at i:10557 original size:20 final size:22
Alignment explanation
Indices: 10522--10562 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
10512 TGGACATGTT
10522 AAAATGCATGGAACAT-GGCTC
1 AAAATGCATGGAACATAGGCTC
10543 AAAATGCAT-GAACATAGGCT
1 AAAATGCATGGAACATAGGCT
10563 GTTTAGCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (22 bp):
AAAATGCATGGAACATAGGCTC
Found at i:11500 original size:52 final size:50
Alignment explanation
Indices: 11439--11603 Score: 179
Period size: 52 Copynumber: 3.2 Consensus size: 50
11429 TTAGCTAGAC
* * *
11439 GTATCGATACATTGAAGAATGTATCGATACATTTGGTTCAAAAACCTAAAAT
1 GTATCGATACAATGAAGAATGTATCGATACATTCGG-ACAAAAACC-AAAAT
* *
11491 GTATCGATACAATGAAGAATGTATC-ATTACATTCGGGCAAAAAACCGAGAAT
1 GTATCGATACAATGAAGAATGTATCGA-TACATTCGGAC-AAAAACC-AAAAT
* * * * * *
11543 GTGTCGATACAAAGAAAAATGTATCGATACATTCAGACTAAATCCAAAAT
1 GTATCGATACAATGAAGAATGTATCGATACATTCGGACAAAAACCAAAAT
11593 GTATCGATACA
1 GTATCGATACA
11604 TTTTTTCCAA
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
50 14 0.15
51 7 0.07
52 74 0.77
53 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (50 bp):
GTATCGATACAATGAAGAATGTATCGATACATTCGGACAAAAACCAAAAT
Found at i:11684 original size:20 final size:21
Alignment explanation
Indices: 11661--11714 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
11651 CATTTCAATC
11661 ATGTATCGATACATTCACTT-
1 ATGTATCGATACATTCACTTG
11681 ATGTATCGATACATTCACTTG
1 ATGTATCGATACATTCACTTG
* *
11702 TTGTATCAATACA
1 ATGTATCGATACA
11715 AATTGTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTTG
Found at i:14849 original size:156 final size:156
Alignment explanation
Indices: 14593--14980 Score: 466
Period size: 156 Copynumber: 2.5 Consensus size: 156
14583 TCCTAAAACC
* * *
14593 CGAAAACAATC-AAAATAATGAACCTATTCC-TAATGTGTA-CTTCAATATGGAAGTATCCTAGT
1 CGAAATCAATCTAAAATAATGAACCTA-TCCTTAATGTGTACCTTCAACATGAAAGTATCC-AGT
* * ** * * * **
14655 AATCACATAGGATTTAGTTCTAATACAAAATTTTCAAAATGCCCTTAAGGTATACTTTCGACATT
64 AATCACATAGGACTTAGCTCTAATACAAAATTACCAAAATACCCTTAAGGTATACCTTCAACAGG
*
14720 AAAGTATCCTAATAACCTTAAAAGA-TT
129 AAAGTATCCCAATAACCTTAAAAGACTT
* **
14747 CGAAATCAATCTAAAATAATAAACCTATCCTTAATGTGTACCTTTGACATGAAAGTATTCCAGTA
1 CGAAATCAATCTAAAATAATGAACCTATCCTTAATGTGTACCTTCAACATGAAAGTA-TCCAGTA
* * *
14812 ATCACATAGGACTTAGCTCTAATGCAAAATTACCAAAATACCTTTAAGGTATACCTTCAATAGGA
65 ATCACATAGGACTTAGCTCTAATACAAAATTACCAAAATACCCTTAAGGTATACCTTCAACAGGA
*
14877 AAGTATCCCGATAACCTTAAAAGACTT
130 AAGTATCCCAATAACCTTAAAAGACTT
* *
14904 -GAAAAT-AGTCTAAAATAATGAACCTAT-CTCTAATGTGTACCTTCAACATGAAAGTATCTCAA
1 CG-AAATCAATCTAAAATAATGAACCTATCCT-TAATGTGTACCTTCAACATGAAAGTATC-CAG
*
14966 TAATGACATAGGACT
63 TAATCACATAGGACT
14981 CGATTCTAAA
Statistics
Matches: 200, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
154 13 0.06
155 27 0.14
156 151 0.75
157 9 0.05
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (156 bp):
CGAAATCAATCTAAAATAATGAACCTATCCTTAATGTGTACCTTCAACATGAAAGTATCCAGTAA
TCACATAGGACTTAGCTCTAATACAAAATTACCAAAATACCCTTAAGGTATACCTTCAACAGGAA
AGTATCCCAATAACCTTAAAAGACTT
Found at i:16602 original size:19 final size:18
Alignment explanation
Indices: 16580--16626 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
16570 AAACGATATA
16580 TATAAAAAAATTCAAAACT
1 TATAAAAAAATT-AAAACT
*
16599 TATAAAATAAATTAAAATT
1 TATAAAA-AAATTAAAACT
*
16618 TTTAAAAAA
1 TATAAAAAA
16627 TGATTTAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.72
20 5 0.20
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (18 bp):
TATAAAAAAATTAAAACT
Found at i:21858 original size:22 final size:24
Alignment explanation
Indices: 21814--21861 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
21804 ATTTTTAACG
*
21814 TATTAAAATTTATTATTATTTTTA
1 TATTAAAAATTATTATTATTTTTA
21838 TATTAAAAATTA-TA-TATTTTTA
1 TATTAAAAATTATTATTATTTTTA
21860 TA
1 TA
21862 ATTTTGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.43
23 2 0.09
24 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTAAAAATTATTATTATTTTTA
Found at i:22514 original size:19 final size:20
Alignment explanation
Indices: 22490--22535 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
22480 TGACATTTAT
*
22490 ATTTTTT-ATTTTAAATAAA
1 ATTTTTTAACTTTAAATAAA
**
22509 ATTTTTTAACTTTACTTAAA
1 ATTTTTTAACTTTAAATAAA
22529 ATTTTTT
1 ATTTTTT
22536 TTAATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTTAACTTTAAATAAA
Found at i:23425 original size:19 final size:19
Alignment explanation
Indices: 23403--23442 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23393 TTTTAAAAAT
* *
23403 ATTTTTTATATTAATAATA
1 ATTTATTATAATAATAATA
23422 ATTTATTATAATAATAATA
1 ATTTATTATAATAATAATA
23441 AT
1 AT
23443 ATAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTATTATAATAATAATA
Found at i:24307 original size:22 final size:21
Alignment explanation
Indices: 24281--24323 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
24271 ATATTGTAGT
24281 TTCATAATCATA-AAATATTTAA
1 TTCATAAT-ATATAAAT-TTTAA
*
24303 TTCATTATATATAAATTTTAA
1 TTCATAATATATAAATTTTAA
24324 AATATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCATAATATATAAATTTTAA
Found at i:24785 original size:20 final size:20
Alignment explanation
Indices: 24720--24819 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 20
24710 AGTTAAATTT
*
24720 ATATAAAATAATTATTAATAT-
1 ATATAAAAT-A-TATAAATATA
24741 AT-TAAAATTTATATAAATATATA
1 ATATAAAA--TATAT-AA-ATATA
* *
24764 ATATATAAA-ATATGATTATA
1 ATATA-AAATATATAAATATA
24784 ATATAAAATATATAAATATA
1 ATATAAAATATATAAATATA
* *
24804 ATA-GATATATATAAAT
1 ATATAAAATATATAAAT
24820 GATCAAATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
19 14 0.22
20 29 0.45
21 5 0.08
22 9 0.14
23 2 0.03
24 2 0.03
25 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATAAAATATATAAATATA
Found at i:25117 original size:12 final size:12
Alignment explanation
Indices: 25100--25124 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25090 TATTGAGTAA
25100 TAATTATTTATT
1 TAATTATTTATT
25112 TAATTATTTATT
1 TAATTATTTATT
25124 T
1 T
25125 TTAAATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:25901 original size:30 final size:28
Alignment explanation
Indices: 25858--25967 Score: 105
Period size: 30 Copynumber: 3.8 Consensus size: 28
25848 AAACTAATGT
*
25858 TTAATATATAAAAATTTATATATATATA
1 TTAACATATAAAAATTTATATATATATA
* * * *
25886 TTAAAAGTAATAAAAAATAATATAAATATA
1 TTAACA-T-ATAAAAATTTATATATATATA
*
25916 -TATACATATAAAAATATATATATATAATTA
1 TTA-ACATATAAAAATTTATATATAT-A-TA
*
25946 TTAACATATAAAATTTTATATA
1 TTAACATATAAAAATTTATATA
25968 AATTTATAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
28 19 0.29
29 5 0.08
30 39 0.60
31 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (28 bp):
TTAACATATAAAAATTTATATATATATA
Found at i:25924 original size:8 final size:8
Alignment explanation
Indices: 25900--25985 Score: 50
Period size: 8 Copynumber: 10.4 Consensus size: 8
25890 AAGTAATAAA
25900 AAATAATAT
1 AAAT-ATAT
25909 AAATATAT
1 AAATATAT
* *
25917 ATACATAT
1 AAATATAT
*
25925 AAAAATAT
1 AAATATAT
*
25933 ATATATAT
1 AAATATAT
*
25941 AATTAT-T
1 AAATATAT
25948 AACATATA-
1 AA-ATATAT
25956 AAATTTTATAT
1 AAA---TATAT
*
25967 AAATTTAT
1 AAATATAT
*
25975 AATTATAT
1 AAATATAT
25983 AAA
1 AAA
25986 AAAAATCAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
7 4 0.07
8 43 0.74
9 4 0.07
10 4 0.07
11 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
AAATATAT
Found at i:25924 original size:16 final size:16
Alignment explanation
Indices: 25905--25957 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
25895 ATAAAAAATA
25905 ATATAAATATATATAC
1 ATATAAATATATATAC
* *
25921 ATATAAAAATATATAT
1 ATATAAATATATATAC
*
25937 ATATAATTAT-TA-AC
1 ATATAAATATATATAC
25951 ATATAAA
1 ATATAAA
25958 ATTTTATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 7 0.23
15 2 0.06
16 22 0.71
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAATATATATAC
Found at i:26564 original size:32 final size:32
Alignment explanation
Indices: 26502--26564 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
26492 TAAAAATTTA
*
26502 TTAAAAAATTATTTTCTTAATTATTTTTAATT
1 TTAAAAAATTATTTTCTTAATTATTATTAATT
*
26534 TTAAATAATATATTTT-TT-ATTATTAATTAAT
1 TTAAAAAAT-TATTTTCTTAATTATT-ATTAAT
26565 AAAAAGACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 6 0.22
32 15 0.56
33 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (32 bp):
TTAAAAAATTATTTTCTTAATTATTATTAATT
Found at i:28715 original size:13 final size:13
Alignment explanation
Indices: 28697--28722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28687 ACATATTATT
28697 TAATATCGATACA
1 TAATATCGATACA
28710 TAATATCGATACA
1 TAATATCGATACA
28723 CCTTAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TAATATCGATACA
Found at i:30681 original size:17 final size:17
Alignment explanation
Indices: 30659--30693 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
30649 AATTAATATA
*
30659 TGCTAATTATTTGAATT
1 TGCTAAATATTTGAATT
30676 TGCTAAATATTTGAATT
1 TGCTAAATATTTGAATT
30693 T
1 T
30694 ATTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (17 bp):
TGCTAAATATTTGAATT
Found at i:30699 original size:17 final size:18
Alignment explanation
Indices: 30663--30705 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
30653 AATATATGCT
*
30663 AATTATTTGAATTTGCTA
1 AATTATTTGAATTTACTA
*
30681 AA-TATTTGAATTTATTA
1 AATTATTTGAATTTACTA
30698 AATTATTT
1 AATTATTT
30706 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (18 bp):
AATTATTTGAATTTACTA
Found at i:33494 original size:17 final size:17
Alignment explanation
Indices: 33472--33505 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33462 GTGGATTTGA
*
33472 AATAAAATCGATAATTT
1 AATAAAAGCGATAATTT
*
33489 AATAAAAGGGATAATTT
1 AATAAAAGCGATAATTT
33506 TTTTTTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (17 bp):
AATAAAAGCGATAATTT
Found at i:34838 original size:71 final size:70
Alignment explanation
Indices: 34700--34839 Score: 235
Period size: 71 Copynumber: 2.0 Consensus size: 70
34690 AAACAAAAGT
* *
34700 AAGGATGAGCTTTCTAAGTAGTGCTATGGATAGAGGGGGGTTTGCTGAAAAAGATGAGTGAAAAA
1 AAGGATGAGCTTTCTAAGTAGTGCTATGGATAAAGGGGAGTTTGCTGAAAAAGATGAGTGAAAAA
34765 TGAAG
66 TGAAG
* *
34770 AAGGATGAGCTTTCTAAGTAGTGCTATGGATAAAAGGGGAGTTTGTTGAAAACGATGAGTGAAAA
1 AAGGATGAGCTTTCTAAGTAGTGCTATGGAT-AAAGGGGAGTTTGCTGAAAAAGATGAGTGAAAA
34835 ATGAA
65 ATGAA
34840 AGTTTTTGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 31 0.48
71 34 0.52
ACGTcount: A:0.37, C:0.06, G:0.32, T:0.25
Consensus pattern (70 bp):
AAGGATGAGCTTTCTAAGTAGTGCTATGGATAAAGGGGAGTTTGCTGAAAAAGATGAGTGAAAAA
TGAAG
Found at i:35997 original size:50 final size:50
Alignment explanation
Indices: 35911--36268 Score: 287
Period size: 50 Copynumber: 7.2 Consensus size: 50
35901 ACTTTTCTTG
** * * *
35911 TAGGGCTTAACCTCCCTACCAAGTGCCAA-TTAGTGTGGACTTGGACTTTA
1 TAGGGCTTAACCTCCCTATTAGGTGCCAACTT-GTGTGGACTTTGACTCTA
** * *
35961 TAGGGCTTAACCTCTTTATTAGGTGCAAACTTGTGTGGACTTCGACTCTA
1 TAGGGCTTAACCTCCCTATTAGGTGCCAACTTGTGTGGACTTTGACTCTA
* * * *
36011 TAGGACTTAACCTCCCTATTAGGTGTCAGCTTGGGTGGACTTTGACTCTA
1 TAGGGCTTAACCTCCCTATTAGGTGCCAACTTGTGTGGACTTTGACTCTA
* * * * *** * *
36061 TAGGGCTTAAGCTCCTTATCAGGTGCCAGCGAATATGGAATTTGACTCTA
1 TAGGGCTTAACCTCCCTATTAGGTGCCAACTTGTGTGGACTTTGACTCTA
* * * *
36111 TAGGACTTAACCT-CCTATTAGGTGCCAA-TTAATGTGGACTTAGACTTTA
1 TAGGGCTTAACCTCCCTATTAGGTGCCAACTT-GTGTGGACTTTGACTCTA
* * * ** *
36160 TAGGGCTTAACCTCCCTATCAGGTG-CTAGTAATGTAGACTTTGACTCTA
1 TAGGGCTTAACCTCCCTATTAGGTGCCAACTTGTGTGGACTTTGACTCTA
* * * ** * *
36209 T-GGGATTTAACCTCCC-ATTAGATGCCAGCTAATATAGACTTTGACTCTA
1 TAGGG-CTTAACCTCCCTATTAGGTGCCAACTTGTGTGGACTTTGACTCTA
*
36258 TAGGACTTAAC
1 TAGGGCTTAAC
36269 ATTCCTATCT
Statistics
Matches: 247, Mismatches: 54, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
48 9 0.04
49 92 0.37
50 144 0.58
51 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
TAGGGCTTAACCTCCCTATTAGGTGCCAACTTGTGTGGACTTTGACTCTA
Found at i:36108 original size:100 final size:100
Alignment explanation
Indices: 35911--36268 Score: 357
Period size: 100 Copynumber: 3.6 Consensus size: 100
35901 ACTTTTCTTG
* ** * * * *
35911 TAGGGCTTAACCTCCCTACCAAGTGCCA-ATTAGTGTGGACTTGGACTTTATAGGGCTTAACCTC
1 TAGGACTTAACCTCCCTATTAGGTGCCAGCTTA-TGTGGACTTTGACTCTATAGGGCTTAACCTC
* * * ** *
35975 TTTATTAGGTGCAAACTTGTGTGGACTTCGACTCTA
65 CTTATCAGGTGCAAGCTAATGTGGACTTTGACTCTA
* ** *
36011 TAGGACTTAACCTCCCTATTAGGTGTCAGCTTGGGTGGACTTTGACTCTATAGGGCTTAAGCTCC
1 TAGGACTTAACCTCCCTATTAGGTGCCAGCTTATGTGGACTTTGACTCTATAGGGCTTAACCTCC
* * * *
36076 TTATCAGGTGCCAGCGAATATGGAATTTGACTCTA
66 TTATCAGGTGCAAGCTAATGTGGACTTTGACTCTA
* * *
36111 TAGGACTTAACCT-CCTATTAGGTGCCA-ATTAATGTGGACTTAGACTTTATAGGGCTTAACCTC
1 TAGGACTTAACCTCCCTATTAGGTGCCAGCTT-ATGTGGACTTTGACTCTATAGGGCTTAACCTC
* * *
36174 CCTATCAGGTGCTAG-TAATGTAGACTTTGACTCTA
65 CTTATCAGGTGCAAGCTAATGTGGACTTTGACTCTA
* * * * * * *
36209 TGGGATTTAACCTCCC-ATTAGATGCCAGCTAATATAGACTTTGACTCTATAGGACTTAAC
1 TAGGACTTAACCTCCCTATTAGGTGCCAGCTTATGTGGACTTTGACTCTATAGGGCTTAAC
36269 ATTCCTATCT
Statistics
Matches: 210, Mismatches: 44, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
98 63 0.30
99 56 0.27
100 89 0.42
101 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (100 bp):
TAGGACTTAACCTCCCTATTAGGTGCCAGCTTATGTGGACTTTGACTCTATAGGGCTTAACCTCC
TTATCAGGTGCAAGCTAATGTGGACTTTGACTCTA
Found at i:36603 original size:13 final size:13
Alignment explanation
Indices: 36585--36611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36575 ACATGCTGTT
36585 TTGTATTGATACA
1 TTGTATTGATACA
36598 TTGTATTGATACA
1 TTGTATTGATACA
36611 T
1 T
36612 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:36718 original size:13 final size:13
Alignment explanation
Indices: 36697--36727 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36687 CGATACATGG
*
36697 TACAATGTATCGA
1 TACATTGTATCGA
36710 TACATTGTATCGA
1 TACATTGTATCGA
36723 TACAT
1 TACAT
36728 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:36723 original size:33 final size:32
Alignment explanation
Indices: 36681--36747 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
36671 CTATCACTAT
36681 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
36714 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
36747 T
1 T
36748 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:46439 original size:50 final size:51
Alignment explanation
Indices: 46374--46571 Score: 170
Period size: 50 Copynumber: 3.9 Consensus size: 51
46364 CTTAATCTTC
* * *
46374 CTATCAGGTGCTAGCTAATATGGACTTTGACTTTATAGGGCTTAACCTCCT
1 CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCTCCT
* * * * *
46425 -TATAAGGTGTTAGCTAATGTGGACGTTGACTCTATAAGACTTAACCT-TT
1 CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCTCCT
* * * *
46474 CTATTATGTGTTAGCTAGTATAGG-CTTTGACTCTATAGGGCTTCACCTCC-
1 CTATAAGGTGTTAGCTAATAT-GGACTTTGACTCTATAGGGCTTAACCTCCT
* * ** ** * * *
46524 CTATCATGTGCAAAATAGTATGGACTTTGACTCTATAAGACTTAACCT
1 CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCT
46572 TCCTACTAAG
Statistics
Matches: 118, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 3 0.03
50 113 0.96
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (51 bp):
CTATAAGGTGTTAGCTAATATGGACTTTGACTCTATAGGGCTTAACCTCCT
Found at i:46705 original size:53 final size:53
Alignment explanation
Indices: 46647--46769 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 53
46637 GGCTTGTGCT
* * * *
46647 AATTAGCCAAAATTAACATACCAGCATCATTGGGCTTACACTTGGTATATGCC
1 AATTAGCCAAAACTAACATACCAACATCATTAGGCTTACACTTGGTACATGCC
* * * * **
46700 AATTAGCTAAAACTAGCTTACCAATATCATTAGGCTTATTCTTGGTACATGCC
1 AATTAGCCAAAACTAACATACCAACATCATTAGGCTTACACTTGGTACATGCC
* *
46753 AATTAGCCCATACTAAC
1 AATTAGCCAAAACTAAC
46770 CTATTGACAT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (53 bp):
AATTAGCCAAAACTAACATACCAACATCATTAGGCTTACACTTGGTACATGCC
Found at i:46876 original size:53 final size:54
Alignment explanation
Indices: 46764--46898 Score: 141
Period size: 53 Copynumber: 2.5 Consensus size: 54
46754 ATTAGCCCAT
* * * * * * *
46764 ACTAACCTATTGAC-ATTATTGGGAGTTAATCTTGATAAGGGCTAATTGGCTGGA
1 ACTAGCCTATTGACTGTTATTGGG-CTTAATCTTGATAAAGGCCAATTAGCTAGA
* *
46818 GCTAGCCTATT-AGC-GTTATTGGGCTTAATCTTGATAAAGGCCAATTAGTTAGA
1 ACTAGCCTATTGA-CTGTTATTGGGCTTAATCTTGATAAAGGCCAATTAGCTAGA
*
46871 ACTAGCCTATTGACTGTCATTGGGCTTA
1 ACTAGCCTATTGACTGTTATTGGGCTTA
46899 CTCATGGATT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
53 36 0.54
54 31 0.46
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (54 bp):
ACTAGCCTATTGACTGTTATTGGGCTTAATCTTGATAAAGGCCAATTAGCTAGA
Found at i:47845 original size:13 final size:13
Alignment explanation
Indices: 47826--47887 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
47816 AACTCACTCA
47826 GTATCGATACAGTT
1 GTATCGATACA-TT
*
47840 -TATCGATATATT
1 GTATCGATACATT
47852 GTATCGATACAGTT
1 GTATCGATACA-TT
*
47866 -TATCGATATATT
1 GTATCGATACATT
47878 GTATCGATAC
1 GTATCGATAC
47888 TTGGTGAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.10
13 35 0.85
14 2 0.05
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:47856 original size:26 final size:26
Alignment explanation
Indices: 47826--47887 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
47816 AACTCACTCA
47826 GTATCGATACAGTTTATCGATATATT
1 GTATCGATACAGTTTATCGATATATT
47852 GTATCGATACAGTTTATCGATATATT
1 GTATCGATACAGTTTATCGATATATT
47878 GTATCGATAC
1 GTATCGATAC
47888 TTGGTGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (26 bp):
GTATCGATACAGTTTATCGATATATT
Found at i:49503 original size:12 final size:12
Alignment explanation
Indices: 49488--49512 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49478 TCAATCATCA
49488 ATGATGATGAAG
1 ATGATGATGAAG
49500 ATGATGATGAAG
1 ATGATGATGAAG
49512 A
1 A
49513 AGTTGACTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:54137 original size:20 final size:21
Alignment explanation
Indices: 54109--54147 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
54099 TTCAAATTTC
*
54109 ATCTTTTTC-ACATCAAAACT
1 ATCTGTTTCTACATCAAAACT
*
54129 ATCTGTTTCTTCATCAAAA
1 ATCTGTTTCTACATCAAAA
54148 TCATCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (21 bp):
ATCTGTTTCTACATCAAAACT
Found at i:55697 original size:19 final size:18
Alignment explanation
Indices: 55667--55712 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
55657 CTTGTTCATG
*
55667 AATTTCTTTGATAAATGA
1 AATTTGTTTGATAAATGA
*
55685 AATTATGTTTGATGAATGA
1 AATT-TGTTTGATAAATGA
55704 AATTTGTTT
1 AATTTGTTT
55713 ATCATGCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (18 bp):
AATTTGTTTGATAAATGA
Found at i:55929 original size:21 final size:21
Alignment explanation
Indices: 55904--55947 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
55894 GGAGTAGTTA
*
55904 TTAAAATGGAGAAGTATGAGT
1 TTAAAAGGGAGAAGTATGAGT
55925 TTAAAAGGGAGAAGTATGAGT
1 TTAAAAGGGAGAAGTATGAGT
55946 TT
1 TT
55948 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (21 bp):
TTAAAAGGGAGAAGTATGAGT
Found at i:61148 original size:13 final size:13
Alignment explanation
Indices: 61126--61215 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
61116 GGCAGTAGCT
*
61126 TTGTAGCGATACA
1 TTGTATCGATACA
61139 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
61155 CTTATGTATCGATACA
1 --T-TGTATCGATACA
*
61171 TTATATCGATACAACA
1 TTGTATCGAT---ACA
61187 CTTATGTATCGATACA
1 --T-TGTATCGATACA
61203 TTGTATCGATACA
1 TTGTATCGATACA
61216 ACACTTATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 29 0.47
14 2 0.03
16 12 0.19
18 2 0.03
19 17 0.27
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:61164 original size:19 final size:19
Alignment explanation
Indices: 61140--61234 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
61130 AGCGATACAT
61140 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
61159 TGTATCGAT---ACA-TTA
1 TGTATCGATACAACACTTA
61174 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
61191 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
61204 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
61223 TGTATCGATACA
1 TGTATCGATACA
61235 GTTACTGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 16 0.25
14 1 0.02
15 3 0.05
16 12 0.19
17 3 0.05
18 1 0.02
19 28 0.44
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:61178 original size:32 final size:32
Alignment explanation
Indices: 61127--61234 Score: 198
Period size: 32 Copynumber: 3.4 Consensus size: 32
61117 GCAGTAGCTT
*
61127 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
61159 TGTATCGATACATTATATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
61191 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
61223 TGTATCGATACA
1 TGTATCGATACA
61235 GTTACTGTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:64673 original size:13 final size:13
Alignment explanation
Indices: 64655--64680 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64645 TACAGCAAGT
64655 ATGTATCGATACA
1 ATGTATCGATACA
64668 ATGTATCGATACA
1 ATGTATCGATACA
64681 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:65722 original size:13 final size:13
Alignment explanation
Indices: 65704--65729 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65694 ATAATCACCC
65704 TGTATCGATACAA
1 TGTATCGATACAA
65717 TGTATCGATACAA
1 TGTATCGATACAA
65730 GGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:65944 original size:8 final size:8
Alignment explanation
Indices: 65931--65959 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
65921 CATTATTCAA
65931 CACAAAAT
1 CACAAAAT
65939 CACAAAAT
1 CACAAAAT
65947 CACAAAAT
1 CACAAAAT
65955 CACAA
1 CACAA
65960 GATTTAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.28, G:0.00, T:0.10
Consensus pattern (8 bp):
CACAAAAT
Found at i:67836 original size:15 final size:15
Alignment explanation
Indices: 67816--67846 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67806 ATTTCGTTTG
*
67816 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
67831 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
67846 G
1 G
67847 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:71483 original size:13 final size:13
Alignment explanation
Indices: 71465--71490 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71455 TACAGCAAGT
71465 ATGTATCGATACA
1 ATGTATCGATACA
71478 ATGTATCGATACA
1 ATGTATCGATACA
71491 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72547 original size:154 final size:155
Alignment explanation
Indices: 72332--72643 Score: 369
Period size: 154 Copynumber: 2.0 Consensus size: 155
72322 ATTTTGGTAG
* * * **
72332 TTTTTTAGAACCAAGTTTGATATAGTCAATGGGATTCTTTTATGCCAAAGGTGTGCATTTAGGAT
1 TTTTTTAGAACCAAGTCTGATATAGTCAATAGGATGCTTTTATGCCAAAAATGTGCATTTAGGAT
* * * * *
72397 A-CGTTCACTC-TTTATGATCATTTTCGAGTCCTTTAAGGTTACCGGGATACTTTTATGTTGAAG
66 AGC-TTCACCCTTTTATGATCATTTTCGAATCCTTTAAGGTTACCGGGATACTTTCACGTTGAAA
72460 GTATACCTTAAGGGA-ATCTTAGTAAT
130 GTATA-CTTAAGGGATATCTTAGTAAT
* * * * *
72486 TTTTTTAGAATCGAGTCTGATATAGTCACTATGATGCTTTTATGCCAAAAATGTGCGTTTAGGAT
1 TTTTTTAGAACCAAGTCTGATATAGTCAATAGGATGCTTTTATGCCAAAAATGTGCATTTAGGAT
* * * * * *
72551 AGCTTCACCCTTTTATGATCGTTTTTGAATCCTTTAGGGTTATCTGGATAGTTTCACGTTGAAAG
66 AGCTTCACCCTTTTATGATCATTTTCGAATCCTTTAAGGTTACCGGGATACTTTCACGTTGAAAG
* * *
72616 TATACTTTAGGGATATTTTGGTAAT
131 TATACTTAAGGGATATCTTAGTAAT
72641 TTT
1 TTT
72644 GCATTAAAAC
Statistics
Matches: 131, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
154 70 0.53
155 61 0.47
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (155 bp):
TTTTTTAGAACCAAGTCTGATATAGTCAATAGGATGCTTTTATGCCAAAAATGTGCATTTAGGAT
AGCTTCACCCTTTTATGATCATTTTCGAATCCTTTAAGGTTACCGGGATACTTTCACGTTGAAAG
TATACTTAAGGGATATCTTAGTAAT
Found at i:75704 original size:13 final size:13
Alignment explanation
Indices: 75686--75711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75676 AGCCCAACGG
75686 CTATAATTTCAAA
1 CTATAATTTCAAA
75699 CTATAATTTCAAA
1 CTATAATTTCAAA
75712 TCCATGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
CTATAATTTCAAA
Found at i:76144 original size:36 final size:33
Alignment explanation
Indices: 76095--76187 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 33
76085 CCAAGTGATT
76095 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGG
1 GAGAGGTTCTATCTTAGCCTTTGAAAAA-ATAGG
*
76129 GAGTGAGGTTCTATCTTAG-CTCGTGAAAAAATAGG
1 GA--GAGGTTCTATCTTAGCCT-TTGAAAAAATAGG
*
76164 GAG-GTTTCTATCTTAGCC-TTGAAA
1 GAGAGGTTCTATCTTAGCCTTTGAAA
76188 GATAGTGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
31 5 0.10
32 12 0.23
33 2 0.04
34 2 0.04
35 9 0.17
36 22 0.42
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAAATAGG
Found at i:77324 original size:21 final size:21
Alignment explanation
Indices: 77298--77353 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
77288 TCAAGATGAT
77298 GATGATGAAGATGATCAAGAG
1 GATGATGAAGATGATCAAGAG
77319 GATGATGAAGATGATCAAGAG
1 GATGATGAAGATGATCAAGAG
* *
77340 GTTGATGAAAATGA
1 GATGATGAAGATGA
77354 AGAAATGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.32, T:0.21
Consensus pattern (21 bp):
GATGATGAAGATGATCAAGAG
Found at i:77801 original size:21 final size:21
Alignment explanation
Indices: 77777--77834 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
77767 GAACTAGAGG
*
77777 AGAAAATGAATGAGTTGGAA-A
1 AGAAAAT-AATGAGTTGCAAGA
*
77798 AGAAAATTAATGAGTAGCAAGA
1 AGAAAA-TAATGAGTTGCAAGA
*
77820 TGAAAATAATGAGTT
1 AGAAAATAATGAGTT
77835 AACTAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.22
Consensus pattern (21 bp):
AGAAAATAATGAGTTGCAAGA
Found at i:79136 original size:13 final size:13
Alignment explanation
Indices: 79114--79170 Score: 78
Period size: 13 Copynumber: 4.4 Consensus size: 13
79104 AAATTTATCA
* *
79114 ATACATTGTATTG
1 ATACAATGTATAG
79127 ATACAATGTATAG
1 ATACAATGTATAG
* *
79140 ATACATTGTATTG
1 ATACAATGTATAG
79153 ATACAATGTATAG
1 ATACAATGTATAG
79166 ATACA
1 ATACA
79171 TTGCTTCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (13 bp):
ATACAATGTATAG
Found at i:79150 original size:26 final size:26
Alignment explanation
Indices: 79114--79173 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
79104 AAATTTATCA
79114 ATACATTGTATTGATACAATGTATAG
1 ATACATTGTATTGATACAATGTATAG
79140 ATACATTGTATTGATACAATGTATAG
1 ATACATTGTATTGATACAATGTATAG
79166 ATACATTG
1 ATACATTG
79174 CTTCAATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (26 bp):
ATACATTGTATTGATACAATGTATAG
Found at i:80957 original size:13 final size:13
Alignment explanation
Indices: 80939--80963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80929 ATTTTGCTTG
80939 GTATCGATACATT
1 GTATCGATACATT
80952 GTATCGATACAT
1 GTATCGATACAT
80964 AAACTGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:81548 original size:32 final size:36
Alignment explanation
Indices: 81469--81551 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 36
81459 GTGATTAAGA
**
81469 AGTTT-TATCTTAGCCTTTGAAAAAGATAGGGAGAG
1 AGTTTCTATCTTAGCCCGTGAAAAAGATAGGGAGAG
*
81504 AGGTTCTATCTTAGCCCGTG-AAAAGATA-GG-GAG
1 AGTTTCTATCTTAGCCCGTGAAAAAGATAGGGAGAG
81537 -GTTTCTATCTTAGCC
1 AGTTTCTATCTTAGCC
81552 TTGAAAGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
32 14 0.33
33 3 0.07
34 2 0.05
35 12 0.28
36 12 0.28
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (36 bp):
AGTTTCTATCTTAGCCCGTGAAAAAGATAGGGAGAG
Found at i:83906 original size:8 final size:8
Alignment explanation
Indices: 83883--83934 Score: 63
Period size: 8 Copynumber: 6.8 Consensus size: 8
83873 AAAGTAGTGT
83883 AAAAAA-A
1 AAAAAACA
*
83890 ACAAAACA
1 AAAAAACA
*
83898 AAAATACA
1 AAAAAACA
*
83906 AAAAAATA
1 AAAAAACA
83914 AAAAAAC-
1 AAAAAACA
83921 AAAAAACA
1 AAAAAACA
83929 AAAAAA
1 AAAAAA
83935 TCGAATGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 12 0.32
8 25 0.68
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.04
Consensus pattern (8 bp):
AAAAAACA
Found at i:83916 original size:7 final size:7
Alignment explanation
Indices: 83883--83933 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
83873 AAAGTAGTGT
83883 AAAAAA-
1 AAAAAAC
83889 AACAAAAC
1 AA-AAAAC
83897 AAAAATAC
1 AAAAA-AC
*
83905 AAAAAAATA
1 -AAAAAA-C
83914 AAAAAAC
1 AAAAAAC
83921 AAAAAAC
1 AAAAAAC
83928 AAAAAA
1 AAAAAA
83934 ATCGAATGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 2 0.05
7 20 0.53
8 11 0.29
9 5 0.13
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (7 bp):
AAAAAAC
Found at i:83916 original size:16 final size:16
Alignment explanation
Indices: 83883--83934 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
83873 AAAGTAGTGT
*
83883 AAAAAA-AACAAAACA
1 AAAAAACAAAAAAACA
* *
83898 AAAATACAAAAAAATA
1 AAAAAACAAAAAAACA
83914 AAAAAAC-AAAAAACA
1 AAAAAACAAAAAAACA
83929 AAAAAA
1 AAAAAA
83935 TCGAATGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.04
Consensus pattern (16 bp):
AAAAAACAAAAAAACA
Found at i:83918 original size:23 final size:23
Alignment explanation
Indices: 83883--83935 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
83873 AAAGTAGTGT
*
83883 AAAAAA-AACAAAACAAAAATACA
1 AAAAAATAAAAAAACAAAAA-ACA
83906 AAAAAATAAAAAAACAAAAAACA
1 AAAAAATAAAAAAACAAAAAACA
83929 AAAAAAT
1 AAAAAAT
83936 CGAATGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (23 bp):
AAAAAATAAAAAAACAAAAAACA
Found at i:86358 original size:65 final size:65
Alignment explanation
Indices: 86269--86419 Score: 173
Period size: 65 Copynumber: 2.3 Consensus size: 65
86259 CCTTTTCATA
* * * * *
86269 AACCTTTATCAACTTAGTTTTCATCCTAATCAGCAT-TAGTAGACTATTCTAGTTTCGCCCT-GA
1 AACCTTTTTCGACTTAGGTTTCATCCTAATCA-CATATAGTAGACTATTCTAGTTTCACCATAG-
*
86332 TT
64 TC
* * *
86334 AACCCTTTTT-GACTTAGGTTTCATCCTAGTCACCTATAGTTGACTATTCTAGTTTCACCATAGT
1 AA-CCTTTTTCGACTTAGGTTTCATCCTAATCACATATAGTAGACTATTCTAGTTTCACCATAGT
86398 C
65 C
86399 AACCTTTTTCGACTTAGGTTT
1 AACCTTTTTCGACTTAGGTTT
86420 TGTCTAAGTC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
64 9 0.12
65 57 0.78
66 7 0.10
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (65 bp):
AACCTTTTTCGACTTAGGTTTCATCCTAATCACATATAGTAGACTATTCTAGTTTCACCATAGTC
Found at i:86716 original size:66 final size:65
Alignment explanation
Indices: 86440--87126 Score: 361
Period size: 66 Copynumber: 10.6 Consensus size: 65
86430 ACCTCTAGCT
* * * ** * * *
86440 AACTCCTTTTTGACTTAGGTTTTGCCTTGGTCACCTTTTGTTGGTTTATATGGTTTTATCCTAGT
1 AACTTCTTTTTGACTTAGGTTTTGCCTTAGTCACC-TTTATTGGTTCGTATGGTTTCATCCTGGC
*
86505 T
65 C
* * * * * * **
86506 AGC-TCTTTTTTGACTTA-GTTTTCACCTTAGTCACTTTTTGTTGTTTCGTATAGTTTCATCCCC
1 AACTTC-TTTTTGACTTAGGTTTT-GCCTTAGTCAC-CTTTATTGGTTCGTATGGTTTCATCCTG
*
86569 ACC
63 GCC
* * * * *
86572 AA-TTC--CTT---TTAGGTTCTACCTTGGTCACTCTTTATTGGTTC-TATGGTTTCATCTTGGC
1 AACTTCTTTTTGACTTAGGTTTTGCCTTAGTCAC-CTTTATTGGTTCGTATGGTTTCATCCTGGC
86630 C
65 C
* * * ** *
86631 AACGTT-TTTTTGACTTAGGTTTTGCCTTGGTCACCCTTTTTTGGTTCATATGGTTTTGTCCTAG
1 AAC-TTCTTTTTGACTTAGGTTTTGCCTTAGTCA-CCTTTATTGGTTCGTATGGTTTCATCCTGG
86695 CC
64 CC
* **** * * * * *
86697 AACTTCTTTTAGACTTAGGTTTCAATTTAGTCACCCTTTGTTGGTACATATGGTTTTATTCTGGC
1 AACTTCTTTTTGACTTAGGTTTTGCCTTAGTCA-CCTTTATTGGTTCGTATGGTTTCATCCTGGC
86762 C
65 C
* * * * * *
86763 AA-GTCTTTTTCGACATAGG--TT-CCACTAGATTACCTTTTGTTGGTTCGTATGGTTTTAT-CT
1 AACTTCTTTTT-GACTTAGGTTTTGCC-TTAG-TCACC-TTTATTGGTTCGTATGGTTTCATCCT
*
86823 CAGCC
62 -GGCC
* * * * * *
86828 AACTT-TTTTCGACTTAGGTTTTGCCCTAGTCACCTTTTGTTGATTCGTATGATTTCATCCTTGC
1 AACTTCTTTTTGACTTAGGTTTTGCCTTAGTCACC-TTTATTGGTTCGTATGGTTTCATCCTGGC
*
86892 A
65 C
* * * * * * * ** *
86893 AACTCCTTTTTGTCTTAAGTTTTACCCTAGTCACCCTTTATTGGTTTGTATGATTTTGT-CTCAG
1 AACTTCTTTTTGACTTAGGTTTTGCCTTAGTCA-CCTTTATTGGTTCGTATGGTTTCATCCT-GG
86957 CC
64 CC
* * ** *
86959 AACTTCTTTTT-AATTAGGTTTCGCCTTAGTCAAGTTTAATTGGTTCATATGGTTTCATCCTGGC
1 AACTTCTTTTTGACTTAGGTTTTGCCTTAGTCACCTTT-ATTGGTTCGTATGGTTTCATCCTGGC
87023 C
65 C
* * ** * * *
87024 AACTCCTTTTTTGACTTGGGTTCAGACC-TGGTCACCTTTAGATGGTTTGTATGGTTTCATCCTG
1 AACTTC-TTTTTGACTTAGGTTTTG-CCTTAGTCACCTTTA-TTGGTTCGTATGGTTTCATCCTG
87088 GCC
63 GCC
*
87091 AACTTCTTTTTGACTTAGGTTCCT-CCTTAGTCACCT
1 AACTTCTTTTTGACTTAGGTT-TTGCCTTAGTCACCT
87127 CAACTTAGGT
Statistics
Matches: 477, Mismatches: 108, Indels: 72
0.73 0.16 0.11
Matches are distributed among these distances:
59 15 0.03
60 23 0.05
61 6 0.01
62 2 0.00
63 2 0.00
64 18 0.04
65 147 0.31
66 213 0.45
67 49 0.10
68 2 0.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (65 bp):
AACTTCTTTTTGACTTAGGTTTTGCCTTAGTCACCTTTATTGGTTCGTATGGTTTCATCCTGGCC
Found at i:86902 original size:131 final size:130
Alignment explanation
Indices: 86447--87126 Score: 383
Period size: 131 Copynumber: 5.2 Consensus size: 130
86437 GCTAACTCCT
* * * * * ** * *
86447 TTTTGACTTAGGTTTTGCCTTGGTCACCTTTTGTTGGTTTATATGGTTTTATCCTAGTTAGCTCT
1 TTTTGACTTAGGTTTCGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTCATCCTGGCCAACTCC
* * * * * * ** *
86512 TTTTTGAC-TTAGTTTTCACCTTAGTCACTTTTTGTTGTTTCGTATAGTTTCATCCCCA-CCAA-
66 TTTTTGACATAAGTGTT-ACCCTAGTCACCTTTT-TTGGTTCGTATGGTTTTGT-CTCAGCCAAC
86574 TTC
128 TTC
* * * * *
86577 -CTT---TTAGG-TTCTACCTTGGTCA-CTCTTTATTGGTTC-TATGGTTTCATCTTGGCCAACG
1 TTTTGACTTAGGTTTC-GCCTTAGTCACCT-TTTGTTGGTTCATATGGTTTCATCCTGGCCAAC-
* * * * * * * *
86635 T-TTTTTTGACTTAGGTTTTGCCTTGGTCACCCTTTTTTGGTTCATATGGTTTTGTC-CTAGCCA
63 TCCTTTTTGACATAAGTGTTACCCTAGTCA-CCTTTTTTGGTTCGTATGGTTTTGTCTC-AGCCA
86698 ACTTC
126 ACTTC
*** * * * * *
86703 TTTTAGACTTAGGTTTCAATTTAGTCACCCTTTGTTGGTACATATGGTTTTATTCTGGCCAAGT-
1 TTTT-GACTTAGGTTTCGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTCATCCTGGCCAACTC
* *
86767 CTTTTTCGACAT-AG-GTT-CCACTAGATTACCTTTTGTTGGTTCGTATGGTTTTATCTCAGCCA
65 CTTTTT-GACATAAGTGTTACC-CTAG-TCACCTTTT-TTGGTTCGTATGGTTTTGTCTCAGCCA
86829 ACTT-
126 ACTTC
* * * * * * *
86833 TTTTCGACTTAGGTTTTGCCCTAGTCACCTTTTGTTGATTCGTATGATTTCATCCTTGCAAACTC
1 TTTT-GACTTAGGTTTCGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTCATCCTGGCCAACTC
* * * * * *
86898 CTTTTTGTCTTAAGTTTTACCCTAGTCACCCTTTATTGGTTTGTATGATTTTGTCTCAGCCAACT
65 CTTTTTGACATAAGTGTTACCCTAGTCA-CCTTTTTTGGTTCGTATGGTTTTGTCTCAGCCAACT
86963 TC
129 TC
* * ** **
86965 TTTTTAATTAGGTTTCGCCTTAGTCAAGTTTAATTGGTTCATATGGTTTCATCCTGGCCAACTCC
1 TTTTGACTTAGGTTTCGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTCATCCTGGCCAACTCC
* * * * ** * ** *
87030 TTTTTTGAC-T-TGGGTTCAGACCTGGTCACCTTTAGATGGTTTGTATGGTTTCATC-CTGGCCA
66 -TTTTTGACATAAGTGTT-A-CCCTAGTCACCTTT-TTTGGTTCGTATGGTTTTGTCTC-AGCCA
87092 ACTTC
126 ACTTC
* *
87097 TTTTTGACTTAGGTTCCTCCTTAGTCACCT
1 -TTTTGACTTAGGTTTCGCCTTAGTCACCT
87127 CAACTTAGGT
Statistics
Matches: 421, Mismatches: 96, Indels: 63
0.73 0.17 0.11
Matches are distributed among these distances:
123 1 0.00
124 2 0.00
125 54 0.13
126 38 0.09
127 2 0.00
129 4 0.01
130 64 0.15
131 151 0.36
132 80 0.19
133 25 0.06
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (130 bp):
TTTTGACTTAGGTTTCGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTCATCCTGGCCAACTCC
TTTTTGACATAAGTGTTACCCTAGTCACCTTTTTTGGTTCGTATGGTTTTGTCTCAGCCAACTTC
Found at i:87271 original size:66 final size:66
Alignment explanation
Indices: 87143--87324 Score: 165
Period size: 66 Copynumber: 2.8 Consensus size: 66
87133 AGGTTCTGCC
* * *
87143 CTAATCACCCCTTGTTAGTTCATATGGTTTCAGTCTAGCCAACTCCTTTTCAACTCAAGTTTTTC
1 CTAATCACCCTTTGTTGGTTCATATAGTTTCAGTCTAGCCAACTCCTTTTCAACTCAAG-TTTTC
87208 CT
65 CT
* * ** * * * *
87210 -TAGTCACCCTTTGTTGGTTCATATAGTTTCA-TCTTGGCCAACTCCTTTTTGAGTTAGGTTTTG
1 CTAATCACCCTTTGTTGGTTCATATAGTTTCAGTC-TAGCCAACTCCTTTTCAACTCAAGTTTTC
87273 CT
65 CT
* ** *
87275 CTAATCAACCTTTGTTGGTTTGTAT-GTTTTCATTCCTA-CCAACTCCTTTT
1 CTAATCACCCTTTGTTGGTTCATATAG-TTTCAGT-CTAGCCAACTCCTTTT
87325 TAATTTAAGT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
65 9 0.10
66 82 0.87
67 2 0.02
68 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (66 bp):
CTAATCACCCTTTGTTGGTTCATATAGTTTCAGTCTAGCCAACTCCTTTTCAACTCAAGTTTTCC
T
Found at i:87720 original size:66 final size:65
Alignment explanation
Indices: 87631--87998 Score: 222
Period size: 66 Copynumber: 5.6 Consensus size: 65
87621 TTTTTGTTTT
* * * * * *
87631 GTATGGTTTTGTCCT-ATCGAACTCTTTTTTGACTTAAGTTTTGTCATAGTCACCCTTAGTTGGT
1 GTATGGTTTTATCCTGA-CCAACTCTTTTTTGACCTAGGTTTTG-CCTAGTCACCCTTTGTTGGT
*
87695 TT
64 TC
* * * * * * *
87697 GTATGGTTTTATCCTGGCCAACTCCTTTTCGACCTAGGTTCTGCCTTGTCACCTTTTGTTGGCTC
1 GTATGGTTTTATCCTGACCAACTCTTTTTTGACCTAGGTTTTGCCTAGTCACCCTTTGTTGGTTC
* * * * *
87762 ATATGATTTCATCCTGACCAACT-TTTTTTGGCCTAGGTTTTGCCCTAGTCATCCTTTGTTGGTT
1 GTATGGTTTTATCCTGACCAACTCTTTTTTGACCTAGGTTTTG-CCTAGTCACCCTTTGTTGGTT
87826 C
65 C
* * * ** * * * ** * * * *
87827 GTATGGTTTTGTCCCGACTAACTCCATTTCGACTTAAGTTTCACTTTAGTCACTCATTGTTGATT
1 GTATGGTTTTATCCTGACCAACTCTTTTTTGACCTAGGTTTTGC-CTAGTCACCCTTTGTTGGTT
87892 C
65 C
* * * * * * * * * * *
87893 GTATGGTTTCATCTTGGCTAACTCCTTTTTGACTTAGGTTCTGCCTTGCTTACCTTTTATTGGTT
1 GTATGGTTTTATCCTGACCAACTCTTTTTTGACCTAGGTTTTGCCTAG-TCACCCTTTGTTGGTT
87958 C
65 C
* * * * *
87959 GTATAGTTTTGT-C-GGCTAACTCTTTTTTGACTTAGGTTTT
1 GTATGGTTTTATCCTGACCAACTCTTTTTTGACCTAGGTTTT
87999 CCCGAGTTCT
Statistics
Matches: 227, Mismatches: 70, Indels: 12
0.73 0.23 0.04
Matches are distributed among these distances:
64 40 0.18
65 73 0.32
66 114 0.50
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (65 bp):
GTATGGTTTTATCCTGACCAACTCTTTTTTGACCTAGGTTTTGCCTAGTCACCCTTTGTTGGTTC
Found at i:88384 original size:65 final size:66
Alignment explanation
Indices: 88301--88452 Score: 157
Period size: 65 Copynumber: 2.3 Consensus size: 66
88291 CCCTCTCAAT
* ** * * * *
88301 CTTTGTTTGTTCATATGGTTTCATAT-GAACTA-CTTCTTTTTTGACTTAGGTTTTGCCCTAGTC
1 CTTTGTTGGTTCGCATGGTTTCATATCG-ACGAGC-TCTTTTTCGACTTAGGTTTCGCCCTAATC
*
88364 ATC
64 ACC
* * * *
88367 TTTTGTTGGTT-GCATGGTTTCATCTCGGCGAGCTCTTTTTCGACTTAGGTTTCGCCTTAATCAC
1 CTTTGTTGGTTCGCATGGTTTCATATCGACGAGCTCTTTTTCGACTTAGGTTTCGCCCTAATCAC
88431 C
66 C
88432 CTTTGTTGGTTCGCATGGTTT
1 CTTTGTTGGTTCGCATGGTTT
88453 TGACTTGACT
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
65 50 0.71
66 20 0.29
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (66 bp):
CTTTGTTGGTTCGCATGGTTTCATATCGACGAGCTCTTTTTCGACTTAGGTTTCGCCCTAATCAC
C
Found at i:88848 original size:66 final size:66
Alignment explanation
Indices: 88724--89178 Score: 265
Period size: 66 Copynumber: 7.0 Consensus size: 66
88714 TTAGTCATCT
* * ** *
88724 TTTG-TTGTTTCATATAGTTTCGTCCTA-CTAA-TTCCTTTTTGACTCAAATTCTGTCTTGGTCA
1 TTTGTTTG-TTCATATAGTTTCATCCTAGCTAACTT-CTTTTTGACTTAGGTTCTGCCTTGGTCA
88786 CCC
64 CCC
*
88789 TTTGTTTGTTCATATAGTTTCA-CCTCAGCTAGCTTCTTTTTGACTTAGGTTCTGCCTTGGTCA-
1 TTTGTTTGTTCATATAGTTTCATCCT-AGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCAC
88852 -C
65 CC
* * ** * * ** * * * * *
88853 ATTGTTGGTTTGTATAGTTTTACCCCGGCAAAC-TCTTTATAGACTTAGGTTTTGTGC-TAGTCA
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTT-TTGACTTAGGTTCTG-CCTTGGTCA
88916 CCC
64 CCC
* * * * * * **
88919 TTTGTTTGTT-TTATGGTTTAAT-CTTGACCAA-TTCTTTTTCAACTTAGGTTCCACCTTGGTCA
1 TTTGTTTGTTCATATAGTTTCATCCTAG-CTAACTTCTTTTT-GACTTAGGTTCTGCCTTGGTCA
88981 CCC
64 CCC
* * * * * * *
88984 TTTGTTGGTTCATATAGTTTCATCCTGGCCAACTTTTTTTTGATTTAGGTTCTGCCCTAGTCACC
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCACC
89049 C
66 C
* * * * * * * *
89050 TTT-ATTGCTTCGTATGGTTTCATCCTAGCTAAC-TCCTTTTGGCTTAGGTTTTACCTTAG-CAC
1 TTTGTTTG-TTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCA-
89112 CCC
64 CCC
* * * * * * * *
89115 TTCGTTAGTTGATATGGTTTCATCCCAACTAACATT-TTTTTGACTTAGGTTCTACCCTGGTCAC
1 TTTGTTTGTTCATATAGTTTCATCCTAGCTAAC-TTCTTTTTGACTTAGGTTCTGCCTTGGTCAC
89179 TTTTTGTAGG
Statistics
Matches: 296, Mismatches: 72, Indels: 43
0.72 0.18 0.10
Matches are distributed among these distances:
63 5 0.02
64 49 0.17
65 110 0.37
66 117 0.40
67 15 0.05
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (66 bp):
TTTGTTTGTTCATATAGTTTCATCCTAGCTAACTTCTTTTTGACTTAGGTTCTGCCTTGGTCACC
C
Found at i:89487 original size:66 final size:67
Alignment explanation
Indices: 89358--89494 Score: 159
Period size: 66 Copynumber: 2.1 Consensus size: 67
89348 TAATCAGCTC
*** * * * *
89358 TTTTTTGACTTAGGTTTCGTTCTGGTCAACCTTTTATTGGTTCGTACAGTTTTATCCTGGCTAAC
1 TTTTTTGACTTAGGTTTCACCCTAGTCAACCCTTTATTGGTTCGTACAGTTTTACCCTAGCTAAC
89423 TT
66 TT
* * ** *
89425 TTTTTTGACTTAGGTTTTACCCTAGTC-ACCCTTTATTGGTTTGTATGGTTTTGCCCTAGCTAAC
1 TTTTTTGACTTAGGTTTCACCCTAGTCAACCCTTTATTGGTTCGTACAGTTTTACCCTAGCTAAC
89489 TT
66 TT
89491 TTTT
1 TTTT
89495 CAACTTAAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
66 36 0.62
67 22 0.38
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.50
Consensus pattern (67 bp):
TTTTTTGACTTAGGTTTCACCCTAGTCAACCCTTTATTGGTTCGTACAGTTTTACCCTAGCTAAC
TT
Found at i:89530 original size:65 final size:65
Alignment explanation
Indices: 89390--89571 Score: 157
Period size: 65 Copynumber: 2.8 Consensus size: 65
89380 TGGTCAACCT
* ** * ** ** * *
89390 TTTATTGGTTCGTACAGTTTTATCCTGGCTAACTTTTTTTTGACTTAGGTTTTACCCTAGTCACC
1 TTTATTGGTTCATATGGTTTTACCCAAGCTAAC-TTTTTTCAACTTAAGTTTGACCCTAGTCACC
89455 C
65 C
** * * * * *
89456 TTTATTGGTTTGTATGGTTTTGCCCTAGCTAACTTTTTTCAACTTAAGTTTGACCCTGGTGACCT
1 TTTATTGGTTCATATGGTTTTACCCAAGCTAACTTTTTTCAACTTAAGTTTGACCCTAGTCACCC
* * * *
89521 TTTGTTGGTTCATATGGTTTTATCCAAGCTATCTCCTTTTCAACTTAAGTT
1 TTTATTGGTTCATATGGTTTTACCCAAGCTAACT-TTTTTCAACTTAAGTT
89572 CCGTCTTGGT
Statistics
Matches: 94, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
65 52 0.55
66 42 0.45
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (65 bp):
TTTATTGGTTCATATGGTTTTACCCAAGCTAACTTTTTTCAACTTAAGTTTGACCCTAGTCACCC
Found at i:89591 original size:66 final size:65
Alignment explanation
Indices: 89443--89605 Score: 157
Period size: 66 Copynumber: 2.5 Consensus size: 65
89433 CTTAGGTTTT
* * ** * * * *
89443 ACCCTAGTCACCCTTTATTGGTTTGTATGGTTTTGCCCTAGCTAACTTTTTTCAACTTAAGTTTG
1 ACCCTGGTCACCCTTTGTTGGTTCATATGGTTTTACCCAAGCTAACTCTTTTCAACTTAAGTTCG
* * * *
89508 ACCCTGGTGACCTTTTGTTGGTTCATATGGTTTTATCCAAGCTATCTCCTTTTCAACTTAAGTTC
1 ACCCTGGTCACCCTTTGTTGGTTCATATGGTTTTACCCAAGCTAACT-CTTTTCAACTTAAGTT-
89573 CG
64 CG
* * **
89575 -TCTTGGTCACCCTTTGTTGAATCATATGGTT
1 ACCCTGGTCACCCTTTGTTGGTTCATATGGTT
89606 CCTTTTCGAC
Statistics
Matches: 78, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
65 37 0.47
66 40 0.51
67 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.44
Consensus pattern (65 bp):
ACCCTGGTCACCCTTTGTTGGTTCATATGGTTTTACCCAAGCTAACTCTTTTCAACTTAAGTTCG
Found at i:90037 original size:66 final size:65
Alignment explanation
Indices: 89944--90388 Score: 322
Period size: 66 Copynumber: 6.7 Consensus size: 65
89934 TTTTATCCCA
* * * **
89944 GCCAACTCCCTTTTTGACTTAAGTTCTGCCCTAGTCACCCTTAGTTGATTTGTATGGTTTCATCT
1 GCCAACT-CCTTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCATATGGTTTCATCT
90009 T
65 T
* * * * * ** *
90010 GGGCAACTCCTTTTTGACTTAGGTTCTGCCCTGGTTATCTTTTGTTCATTTTTATGGTTTTATCT
1 -GCCAACTCCTTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCATATGGTTTCATCT
90075 T
65 T
* * * * * * * *
90076 AGCTAAGTCCTTTTTAACATAGGTTCTGCCCTGGTCACCCTTTGTTGGTTCCTATGGTTTCATCT
1 -GCCAACTCCTTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCATATGGTTTCATCT
90141 T
65 T
* *** *
90142 GACTAACT-CTTTCCCAACTTAGGTTCTGCCCTAGTCACCATTTTTGTTGGTTCATATGGTTTCA
1 G-CCAACTCCTTT-TTGACTTAGGTTCTGCCCTAGTCACC--TTTTGTTGATTCATATGGTTTCA
**
90206 TCCC
62 TCTT
* * * * * * *
90210 GTCCAACACCTTTTTGACTTAGGTTCTACTCTGGTCACCTTTTATTTATTCATTTGGTTTCATCC
1 G-CCAACTCCTTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCATATGGTTTCAT-C
*
90275 TA
64 TT
* * * * * *
90277 GCCAACTTCTTTTT-AGCTTAGGTTTTGCCCTAGTCACCATTTGTT-AGCTCCTATGGATTT-AA
1 GCCAACTCCTTTTTGA-CTTAGGTTCTGCCCTAGTCACCTTTTGTTGA-TTCATATGG-TTTCAT
*
90339 CTCG
63 CT-T
* * * *
90343 GCCAACTCCTTTTTGACTAAGGTTCTACCTTGGTCACCTTTTGTTG
1 GCCAACTCCTTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTG
90389 GTCATACTGT
Statistics
Matches: 298, Mismatches: 68, Indels: 24
0.76 0.17 0.06
Matches are distributed among these distances:
65 9 0.03
66 225 0.76
67 12 0.04
68 48 0.16
69 4 0.01
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (65 bp):
GCCAACTCCTTTTTGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGATTCATATGGTTTCATCTT
Found at i:90268 original size:134 final size:131
Alignment explanation
Indices: 90084--90384 Score: 302
Period size: 134 Copynumber: 2.3 Consensus size: 131
90074 TTAGCTAAGT
* * * * * * * * *
90084 CCTTTTTAACATAGGTTCTGCCCTGGTCACCCTTTGTTGGTTCCTATGGTTTCAT-CTTGACTAA
1 CCTTTTTGACTTAGGTTCT-ACCTGGTCACCTTTTATTGATTCATATGGTTTCATCCTAG-CCAA
* * *
90148 C-TCTTTCCCAACTTAGGTTCTGCCCTAGTCACCATTTTTGTTGGTTCATATGG-TTTCATCCCG
64 CTTCTTT-CCAACTTAGGTTCTGCCCTAGTCACCA--TTTGTTAGCTCATATGGATTT-AACCCG
*
90211 TCCAACA
125 GCCAACA
* *
90218 CCTTTTTGACTTAGGTTCTACTCTGGTCACCTTTTATTTATTCATTTGGTTTCATCCTAGCCAAC
1 CCTTTTTGACTTAGGTTCTAC-CTGGTCACCTTTTATTGATTCATATGGTTTCATCCTAGCCAAC
** * * * *
90283 TTCTTTTTAGCTTAGGTTTTGCCCTAGTCACCATTTGTTAGCTCCTATGGATTTAACTCGGCCAA
65 TTCTTTCCAACTTAGGTTCTGCCCTAGTCACCATTTGTTAGCTCATATGGATTTAACCCGGCCAA
*
90348 CT
130 CA
*
90350 CCTTTTTGACTAAGGTTCTACCTTGGTCACCTTTT
1 CCTTTTTGACTTAGGTTCTACC-TGGTCACCTTTT
90385 GTTGGTCATA
Statistics
Matches: 139, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
131 1 0.01
132 55 0.40
133 4 0.03
134 71 0.51
135 8 0.06
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.43
Consensus pattern (131 bp):
CCTTTTTGACTTAGGTTCTACCTGGTCACCTTTTATTGATTCATATGGTTTCATCCTAGCCAACT
TCTTTCCAACTTAGGTTCTGCCCTAGTCACCATTTGTTAGCTCATATGGATTTAACCCGGCCAAC
A
Found at i:90368 original size:200 final size:198
Alignment explanation
Indices: 89944--90394 Score: 444
Period size: 200 Copynumber: 2.3 Consensus size: 198
89934 TTTTATCCCA
* * * **
89944 GCCAACTCCCTTTTTGACTTAA-GTTCTGCCCTAGTCACCCTTAGTTGATTTGTATGGTTTCATC
1 GCCAACT-CCTTTTTGAC-TAAGGTTCTGCCCTAGTCACCTTTTGTTGGTTCATATGGTTTCATC
** * * * * * * * *
90008 TTGGGCAACTCCTTTTTGACTTAGGTTCTGCCCTGGTTATCTTTTGTTCATTTTTATGGTTTTAT
64 CCGGCCAACACCTTTTTGACTTAGGTTCTACCCTGGTCACCTTTTATTCATTATTATGGTTTCAT
* * * * * * *
90073 CTTAGCTAAGTCCTTTTTAACATAGGTTCTGCCCTGGTCACCCTTTGTTGGTTCCTATGGTTTCA
129 CCTAGCCAACTCCTTTTTAACATAGGTTCTGCCCTAGTCACCATTTGTTAGCTCCTATGGTTTCA
* *
90138 TCTTG
194 ACTCG
* * *** *
90143 ACTAACT-CTTTCCCAACTTAGGTTCTGCCCTAGTCACCATTTTTGTTGGTTCATATGGTTTCAT
1 GCCAACTCCTTT-TTGACTAAGGTTCTGCCCTAGTCACC--TTTTGTTGGTTCATATGGTTTCAT
* * *
90207 CCCGTCCAACACCTTTTTGACTTAGGTTCTACTCTGGTCACCTTTTATTTATTCATT-TGGTTTC
63 CCCGGCCAACACCTTTTTGACTTAGGTTCTACCCTGGTCACCTTTTATTCATT-ATTATGGTTTC
* * * *
90271 ATCCTAGCCAACTTCTTTTTAGCTTAGGTTTTGCCCTAGTCACCATTTGTTAGCTCCTATGGATT
127 ATCCTAGCCAACTCCTTTTTAACATAGGTTCTGCCCTAGTCACCATTTGTTAGCTCCTATGG-TT
90336 T-AACTCG
191 TCAACTCG
* * *
90343 GCCAACTCCTTTTTGACTAAGGTTCTACCTTGGTCACCTTTTGTTGG-TCATA
1 GCCAACTCCTTTTTGACTAAGGTTCTGCCCTAGTCACCTTTTGTTGGTTCATA
90395 CTGTTTTGTC
Statistics
Matches: 199, Mismatches: 46, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
197 11 0.06
198 28 0.14
199 5 0.03
200 146 0.73
201 9 0.05
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (198 bp):
GCCAACTCCTTTTTGACTAAGGTTCTGCCCTAGTCACCTTTTGTTGGTTCATATGGTTTCATCCC
GGCCAACACCTTTTTGACTTAGGTTCTACCCTGGTCACCTTTTATTCATTATTATGGTTTCATCC
TAGCCAACTCCTTTTTAACATAGGTTCTGCCCTAGTCACCATTTGTTAGCTCCTATGGTTTCAAC
TCG
Found at i:91328 original size:66 final size:65
Alignment explanation
Indices: 91169--91328 Score: 160
Period size: 65 Copynumber: 2.4 Consensus size: 65
91159 TGTTTATTTA
** * **
91169 TATGGTTTTATCTTAGCCAACTCCTTTTTGACTTAGGTTCTGCCTTGGCACCTTATGTTGGTTGG
1 TATGGTTTTATCTCGGCCAACTCCTTTTTGACTTAGGTTCTACCCGGGCACCTTATGTTGGTTGG
* * * * * * *
91234 CATCGTTTTATTTCGGCTAACTCTTTTTTGACTTAGGTTTTACCCGGGTCTCTCTT-TGTTGGTT
1 TATGGTTTTATCTCGGCCAACTCCTTTTTGACTTAGGTTCTACCCGGG-CAC-CTTATGTTGGTT
*
91298 TG
64 GG
* *
91300 TATGGTTTTGTCTCGGCCAACACCTTTTT
1 TATGGTTTTATCTCGGCCAACTCCTTTTT
91329 TATTTAGCTT
Statistics
Matches: 73, Mismatches: 20, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
65 37 0.51
66 33 0.45
67 3 0.04
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (65 bp):
TATGGTTTTATCTCGGCCAACTCCTTTTTGACTTAGGTTCTACCCGGGCACCTTATGTTGGTTGG
Found at i:91822 original size:65 final size:65
Alignment explanation
Indices: 91421--92136 Score: 240
Period size: 65 Copynumber: 10.9 Consensus size: 65
91411 TATTAATTCG
* * * * * **
91421 TATGGTTTCATCCTT-GCCAACTT-TTTTTGACTTAGCTTCCACTCTGCTCACTTTTTGTTGGTT
1 TATGGTTTCAT-CTTCACCAACTTCTTTTTGACTTAG-GTCTACCCTGGTCACCCTTTGTTGGTT
*
91484 TA
64 CA
* * * * * * *
91486 TATGGTTT--TCTCCTAGCAA-TATATTTTTCGATTTAGGTTCTGCCCTGGTCACCCTTAGTTGA
1 TATGGTTTCATCTTC-ACCAACT-TCTTTTT-GACTTAGG-TCTACCCTGGTCACCCTTTGTTGG
91548 TTCA
62 TTCA
* * * * *
91552 TATGGTTTTATC-T-AGCTAAC-TCTTTCTCGACTTAGGCTCTACCCTAGTCACCCTTAGTTGGT
1 TATGGTTTCATCTTCA-CCAACTTCTTT-TTGACTTAGG-TCTACCCTGGTCACCCTTTGTTGGT
91614 TCA
63 TCA
** * * * * *
91617 TATGGTTTTGTCCTCACCAACTTCATTTTGACTTAAGTTCCT-CTCTCGTCACCCTTTGTTGGTT
1 TATGGTTTCATCTTCACCAACTTCTTTTTGACTT-AGGT-CTACCCTGGTCACCCTTTGTTGGTT
**
91681 TG
64 CA
* * ** * *
91683 TATGGTTTCATCTTCACCAA-TTCCTTTTTGACTTTGGTTTA--GGGGTCCCCCTTTTATTGGTT
1 TATGGTTTCATCTTCACCAACTT-CTTTTTGACTTAGGTCTACCCTGGTCACCC-TTTGTTGGTT
91745 C-
64 CA
* * * * *
91746 TATGGTTTCATCTTGACTAACTTCTTTTTGACCTAGGTCTACCCTGGTCACCCTTTGTAGGTTCG
1 TATGGTTTCATCTTCACCAACTTCTTTTTGACTTAGGTCTACCCTGGTCACCCTTTGTTGGTTCA
** * ** * *
91811 TATGGTTTCATC-TCGGTGTCAA-TTCCTTTTTGACTTAAGT-TACATTATAGTCATCCTTTGTT
1 TATGGTTTCATCTTC---ACCAACTT-CTTTTTGACTTAGGTCTAC--CCTGGTCACCCTTTGTT
*
91873 GGATT-G
60 GG-TTCA
* ** * * * * * *
91879 TATGGTTTCCTCATGGA-TAAC-TCCTTTTGACTTATGT-TATGCTCTGCTCACCTTTTGTTGGT
1 TATGGTTTCATC-TTCACCAACTTCTTTTTGACTTAGGTCTA--CCCTGGTCACCCTTTGTTGGT
91941 TCA
63 TCA
* * * * * *
91944 CATGGTTTTATC-TCAACTAA-TTCTTTTTTTGACTTAGGTTCTATCCTAGTCACCCTTAGTTGG
1 TATGGTTTCATCTTC-ACCAACTTC--TTTTTGACTTAGG-TCTACCCTGGTCACCCTTTGTTGG
*
92007 TTCG
62 TTCA
* ** * ** * * *
92011 TATGGTTTCATC-CCAAAAAACAT-TTTTCAACTTAGGTTCCACCCTAGTCACCCTTTATTGGTT
1 TATGGTTTCATCTTC-ACCAACTTCTTTTTGACTTAGG-TCTACCCTGGTCACCCTTTGTTGGTT
**
92074 TT
64 CA
* * * * * * *
92076 TATGGTCTCGTC-TCAAACAACTTCTTTTCGACTTAGGTTCTACCTTAGTCACTCTTTGTTG
1 TATGGTTTCATCTTC-ACCAACTTCTTTTTGACTTAGG-TCTACCCTGGTCACCCTTTGTTG
92137 CATTGTACAG
Statistics
Matches: 487, Mismatches: 119, Indels: 89
0.70 0.17 0.13
Matches are distributed among these distances:
62 2 0.00
63 41 0.08
64 29 0.06
65 179 0.37
66 134 0.28
67 68 0.14
68 30 0.06
69 4 0.01
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (65 bp):
TATGGTTTCATCTTCACCAACTTCTTTTTGACTTAGGTCTACCCTGGTCACCCTTTGTTGGTTCA
Found at i:92372 original size:66 final size:66
Alignment explanation
Indices: 92166--92606 Score: 308
Period size: 66 Copynumber: 6.7 Consensus size: 66
92156 AGCAAATTCT
* * * * ** ** * *
92166 TTTTTGACTTAGGTTTTGCCTTAGTCATTCTTTTATTGGTTCATTTGATTTCATCTCAGCCAACA
1 TTTTTGACTTAGGTTTTGCCTTAGTCA-CCTTTTGTTGGTTCATATGGTTTTGTCTTGGCTAACT
**
92231 AT
65 CC
** ** * *
92233 TTTTTGACTTAGGTTTCACCCAAGTCACC--TT-TT-GTT-ATATGGTTCTGTCTTGGCTAATTC
1 TTTTTGACTTAGGTTTTGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTTGTCTTGGCTAACTC
92293 C
66 C
* * * *
92294 TTTCTGACTTAGGTTTTGCCTTGGTCACCTTTTGTTAGTTCATATGGTTTTGTTTTGGCTAACTC
1 TTTTTGACTTAGGTTTTGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTTGTCTTGGCTAACTC
*
92359 T
66 C
** * * *
92360 TTTTTGGGTTAGGTTTTG-CTCTAGTTACTTTTTGTTGGTTCATATGGTTTTGTCTTAGCTAACT
1 TTTTTGACTTAGGTTTTGCCT-TAGTCACCTTTTGTTGGTTCATATGGTTTTGTCTTGGCTAACT
92424 CC
65 CC
* * * * * * ** *
92426 TTTTCGACTTA-TTTTTCGCTTTAGTCACCCTTTATTAGTTCATATGGTTTCATCTTGGCCAACT
1 TTTTTGACTTAGGTTTT-GCCTTAGTCACCTTTTGTTGGTTCATATGGTTTTGTCTTGGCTAACT
92490 CC
65 CC
* ** ** * * * *
92492 TTTTTGACTTAGGTTTCAT-CC-TAGTCACCCTTTGTTGGTTTGTATGGTTTCATTTTGACCAAT
1 TTTTTGACTTAGGTTT--TGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTTGTCTTGGCTAAC
*
92555 TCT
64 TCC
* * *
92558 TTTTTGATTTAGGTTTCGCCTAAGTC-CTCTTTTGTTGGTTCATATGGTT
1 TTTTTGACTTAGGTTTTGCCTTAGTCAC-CTTTTGTTGGTTCATATGGTT
92607 GTATCCTAGC
Statistics
Matches: 292, Mismatches: 68, Indels: 29
0.75 0.17 0.07
Matches are distributed among these distances:
61 36 0.12
62 3 0.01
63 4 0.01
64 4 0.01
65 12 0.04
66 204 0.70
67 28 0.10
69 1 0.00
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.50
Consensus pattern (66 bp):
TTTTTGACTTAGGTTTTGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTTGTCTTGGCTAACTC
C
Found at i:92575 original size:132 final size:132
Alignment explanation
Indices: 92093--92606 Score: 361
Period size: 132 Copynumber: 3.9 Consensus size: 132
92083 TCGTCTCAAA
* * * ** * ** *
92093 CAACTTCTTTTCGACTTAGG-TTCTACCTTAGTCACTCTTTGTTGCATTGTACAGTTTCATTCTA
1 CAACTCCTTTTTGACTTAGGTTTCTACC-TAGTCACCCTTTGTTGGTTTATATGGTTTCATTTTA
* * * * * * *
92157 GCAAATTCTTTTTTGACTTAGGTTTTGCCTTAGTCATTCTTTTATTGGTTCATTTGATTTCATCT
65 GCTAATTCCTTTTTGACTTAGGTTTCGCCTTAGTCA-CCTTTTATTAGTTCATATGGTTTCATCT
**
92222 CAGC
129 TGGC
*** *
92226 CAACAATTTTTTGACTTAGGTTTC-ACCCAAGTCA-CC-TT-TT-G-TTATATGG-TTC-TGTCT
1 CAACTCCTTTTTGACTTAGGTTTCTA-CCTAGTCACCCTTTGTTGGTTTATATGGTTTCAT-T-T
* * * * * ** *
92283 TGGCTAATTCCTTTCTGACTTAGGTTTTGCCTTGGTCACCTTTTGTTAGTTCATATGGTTTTGTT
63 TAGCTAATTCCTTTTTGACTTAGGTTTCGCCTTAGTCACCTTTTATTAGTTCATATGGTTTCATC
92348 TTGGC
128 TTGGC
* * ** * * ** * ** *
92353 TAACTCTTTTTTGGGTTAGGTTT-TGCTCTAGTTACTTTTTGTTGGTTCATATGGTTTTGTCTTA
1 CAACTCCTTTTTGACTTAGGTTTCTAC-CTAGTCACCCTTTGTTGGTTTATATGGTTTCATTTTA
* * ** * *
92417 GCTAACTCCTTTTCGACTTATTTTTCGCTTTAGTCACCCTTTATTAGTTCATATGGTTTCATCTT
65 GCTAATTCCTTTTTGACTTAGGTTTCGCCTTAGTCACCTTTTATTAGTTCATATGGTTTCATCTT
92482 GGC
130 GGC
*
92485 CAACTCCTTTTTGACTTAGGTTTC-ATCCTAGTCACCCTTTGTTGGTTTGTATGGTTTCATTTT-
1 CAACTCCTTTTTGACTTAGGTTTCTA-CCTAGTCACCCTTTGTTGGTTTATATGGTTTCATTTTA
* * * * * *
92548 GACCAATTCTTTTTTGATTTAGGTTTCGCCTAAGTC-CTCTTTTGTTGGTTCATATGGTT
65 G-CTAATTCCTTTTTGACTTAGGTTTCGCCTTAGTCAC-CTTTTATTAGTTCATATGGTT
92607 GTATCCTAGC
Statistics
Matches: 286, Mismatches: 78, Indels: 35
0.72 0.20 0.09
Matches are distributed among these distances:
126 2 0.01
127 49 0.17
128 38 0.13
129 2 0.01
130 4 0.01
131 5 0.02
132 155 0.54
133 25 0.09
134 6 0.02
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (132 bp):
CAACTCCTTTTTGACTTAGGTTTCTACCTAGTCACCCTTTGTTGGTTTATATGGTTTCATTTTAG
CTAATTCCTTTTTGACTTAGGTTTCGCCTTAGTCACCTTTTATTAGTTCATATGGTTTCATCTTG
GC
Found at i:93004 original size:63 final size:64
Alignment explanation
Indices: 92836--93010 Score: 144
Period size: 63 Copynumber: 2.7 Consensus size: 64
92826 TTACTGCCCT
* * * * * *
92836 AGTCACCCTTAGTTAGTTCATATGGTTTCATCTGGCTAA-TTCTTTTTCAACTTAGGTTCTACCC
1 AGTCACCCTTTGTTGGTGCATATGGTTTCATCTGACCAACTTC-TTTTCAACTTAGGTTCTA-CA
*
92900 T
64 A
* * * **
92901 AGTCACCCTTTGTTGATTG-GTATAGTTTTTTCCT-ATCCAACTTCTTTTCAACTTAGGTT-TA-
1 AGTCACCCTTTGTTG-GTGCATATGGTTTCAT-CTGA-CCAACTTCTTTTCAACTTAGGTTCTAC
92962 AA
63 AA
*
92964 AGTCACCCTTTGTTGGTGCATATGGTTTCATCTTGACCAACTCCTTT
1 AGTCACCCTTTGTTGGTGCATATGGTTTCATC-TGACCAACTTCTTT
93011 CCATTTAAGT
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
62 3 0.04
63 34 0.40
64 1 0.01
65 23 0.27
66 21 0.25
67 3 0.04
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.43
Consensus pattern (64 bp):
AGTCACCCTTTGTTGGTGCATATGGTTTCATCTGACCAACTTCTTTTCAACTTAGGTTCTACAA
Found at i:93988 original size:17 final size:18
Alignment explanation
Indices: 93953--93992 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
93943 TAATTTTTCT
* *
93953 ATTAATATTTTTAATAAA
1 ATTAAAATTTTTAAGAAA
93971 ATTAAAATTTTT-AGAAA
1 ATTAAAATTTTTAAGAAA
93988 ATTAA
1 ATTAA
93993 GGCAATGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTAAGAAA
Found at i:98572 original size:146 final size:144
Alignment explanation
Indices: 98355--98805 Score: 573
Period size: 143 Copynumber: 3.1 Consensus size: 144
98345 CATCATGCTT
* *
98355 TTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTTATGTGGGCTTTGAAGAAAAAGAAAAGGT
1 TTTGAGGACTG-AAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGT
* * * * *
98420 ATCCTACTCTTTTAGGATTAAAAAAGATAAATGATGCCACCAGCTTGTGCAGGGTTTGAAGAAAA
65 GTCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTG--GGCTTTGAAGAAAA
* **
98485 AAAAAGG-TGTCTTGTTC
128 AAAAAGGCT-TCCTACTC
* *
98502 TTTGAGGACTGAAAAGATAAATGATGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGAAAAGATG
1 TTTGAGGACTGAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGTG
* * *
98567 TCCTACTCTTTAAAGACTGAAAAAGATAGATGATGCCACCAGCTTGTGGGCCTTGAAG-AAAAAA
66 TCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTGGGCTTTGAAGAAAAAAA
98631 AAGGCTTCCTACTC
131 AAGGCTTCCTACTC
* * *
98645 TTTGAGGACTGAAAAGATAAATGATGCCATCAGTTTGTGTGGGCTTTGAAGAAAAAGAAAAGGCG
1 TTTGAGGACTGAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGTG
* * * * *
98710 TCTTGCACTTTGAAGATTGAAAAAGATAAATGATGCCACTAGCTTGTGTGAGCTTTGAAGAAAAA
66 TCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTG-G-GCTTTGAAG-AAAA
* * *
98775 AATAAAGGCATCGTGCTC
128 AA-AAAGGCTTCCTACTC
*
98793 TTTGAGGGCTGAA
1 TTTGAGGACTGAA
98806 GTAGATAATG
Statistics
Matches: 266, Mismatches: 32, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
143 116 0.44
144 10 0.04
145 8 0.03
146 92 0.35
147 16 0.06
148 24 0.09
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (144 bp):
TTTGAGGACTGAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAGGTG
TCCTACTCTTTAAAGATTGAAAAAGATAAATGATGCCACCAGCTTGTGGGCTTTGAAGAAAAAAA
AAGGCTTCCTACTC
Found at i:98816 original size:74 final size:74
Alignment explanation
Indices: 98339--98805 Score: 502
Period size: 74 Copynumber: 6.4 Consensus size: 74
98329 TTGAGGTAGG
* * * *
98339 AAAAA-GCATCATGCTTTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTTATGTGGGCTTT
1 AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
98403 GAAGAAAAA
66 GAAGAAAAA
* * * * * * *
98412 GAAAAGGTATCCTACTCTTTTAGGATTAAAAAAGATAAATGATGCCACCAGCTTGTGCAGGG-TT
1 AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTG-TGGGCTT
98476 TGAAG-AAAA
65 TGAAGAAAAA
** * * *
98485 AAAAAGGTGTCTTGTTCTTTGAGGACTG-AAAAGATAAATGATGCCACCAACTTGTGTGGGCTTT
1 AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
98549 GAAGAAAAA
66 GAAGAAAAA
* *** * * * * *
98558 GAAAAGATGTCCTACTCTTTAAAGACTGAAAAAGATAGATGATGCCACCAGC-T-TGTGGGCCTT
1 AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
98621 GAAG--AAA
66 GAAGAAAAA
* * * *
98628 AAAAAGGCTTCCTACTCTTTGAGGACTG-AAAAGATAAATGATGCCATCAGTTTGTGTGGGCTTT
1 AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
98692 GAAGAAAAA
66 GAAGAAAAA
* * * * * * * *
98701 GAAAAGGCGTCTTGCACTTTGAAGATTGAAAAAGATAAATGATGCCACTAGCTTGTGTGAGCTTT
1 AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
98766 GAAGAAAAA
66 GAAGAAAAA
* *
98775 AATAAAGGCATCGTGCTCTTTGAGGGCTGAA
1 AA-AAAGGCATCCTGCTCTTTGAGGACTGAA
98806 GTAGATAATG
Statistics
Matches: 324, Mismatches: 59, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
69 20 0.06
70 26 0.08
71 16 0.05
72 47 0.15
73 78 0.24
74 112 0.35
75 25 0.08
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (74 bp):
AAAAAGGCATCCTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTT
GAAGAAAAA
Found at i:104660 original size:79 final size:79
Alignment explanation
Indices: 104521--104788 Score: 276
Period size: 79 Copynumber: 3.4 Consensus size: 79
104511 TAGAGATAAC
* * * *
104521 AACGGGGCTGGAGTAT-CCTCGATTAT-GAAAAATTGGTGTTCTGAAAATAAAATCGGGGTTAGA
1 AACGGGGTTGGAGTATCCCT-GATTATAG-AAAATCGGTGTTTTAAAAATAAAATCGGGGTTAGA
104584 GTATCCCCTCAGAAAT
64 GTATCCCCTCAGAAAT
* *
104600 AACAGGGTTGGAGCATCCCTGATTATAGAAAATCGGTGTTTTAAAAATAAAATCGGGGTTAGAGT
1 AACGGGGTTGGAGTATCCCTGATTATAGAAAATCGGTGTTTTAAAAATAAAATCGGGGTTAGAGT
*
104665 ATCCCCT-TGAAAAT
66 ATCCCCTCAG-AAAT
* * * ** * * *** *
104679 AACGGGGTTAGAGTATCCCCGATTATGGAAAATCGAAGCTTTAGAAATAAGGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCTGATTATAGAAAATCGGTGTTTTAAAAATAAAATCGGGGTTAGAGT
104744 AT-CCCTGCCA-AAAT
66 ATCCCCT--CAGAAAT
*
104758 AACGGGGTTGGAGTATCCCTAATTATGAGAA
1 AACGGGGTTGGAGTATCCCTGATTAT-AGAA
104789 TCAATATTTT
Statistics
Matches: 157, Mismatches: 25, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
78 5 0.03
79 145 0.92
80 7 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCTGATTATAGAAAATCGGTGTTTTAAAAATAAAATCGGGGTTAGAGT
ATCCCCTCAGAAAT
Found at i:104827 original size:78 final size:77
Alignment explanation
Indices: 104565--104903 Score: 241
Period size: 79 Copynumber: 4.3 Consensus size: 77
104555 GGTGTTCTGA
** * * * * *
104565 AAATAAAATCGGGGTTAGAGTATCCC-CTCAGAAATAACAGGGTTGGAGCATCCCTGATTATAGA
1 AAATAAAGCCGGGGTTGGAGTATCCCTC-CA-AAATAACGGGGTTAGAGTATCCCTAATTAT-GA
**** *
104629 AAATCGGTGTTTTAA
63 AAATCGAAACTTTAG
** * ** **
104644 AAATAAAATCGGGGTTAGAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCCCGATTATGGAA
1 AAATAAAGCCGGGGTTGGAGTAT-CCCTCCAAAATAACGGGGTTAGAGTATCCCTAATTAT-GAA
*
104709 AATCGAAGCTTTAG
64 AATCGAAACTTTAG
* * *
104723 AAATAAGGCCGGGGTTGGAGTATCCCTGCCAAAATAACGGGGTTGGAGTATCCCTAATTATGAGA
1 AAATAAAGCCGGGGTTGGAGTATCCCT-CCAAAATAACGGGGTTAGAGTATCCCTAATTATGAAA
*
104788 ATC-AATATTTTAG
65 ATCGAA-ACTTTAG
* * * * * * * *
104801 AAATAAAGCCGGTGTTGGAGTGTCCCTCGAAAATCACGGGATTTGAGTGTCCCTTATTATGAAAA
1 AAATAAAGCCGGGGTTGGAGTATCCCTCCAAAATAACGGGGTTAGAGTATCCCTAATTATG-AAA
* *** *
104866 ATTGATGTTTTGG
65 ATCGAAACTTTAG
* *
104879 AAATAAAACCAGGGTTGGAGTATCC
1 AAATAAAGCCGGGGTTGGAGTATCC
104904 TCGAGATAAA
Statistics
Matches: 213, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
77 30 0.14
78 69 0.32
79 110 0.52
80 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (77 bp):
AAATAAAGCCGGGGTTGGAGTATCCCTCCAAAATAACGGGGTTAGAGTATCCCTAATTATGAAAA
TCGAAACTTTAG
Found at i:104896 original size:156 final size:158
Alignment explanation
Indices: 104531--104903 Score: 394
Period size: 158 Copynumber: 2.4 Consensus size: 158
104521 AACGGGGCTG
* * * * * *
104531 GAGTATCCTCGATTATGAAAAATTGGTGTTCTGAAAATAAAATCGGGGTTAGAGTATCCCCTCAG
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
* ** * *
104596 AAATAACAGGGTTGGAGCATCCCTGATTATAGAAAATCGGTGTTTTAAAAATAAAATCGGGGTTA
66 AAATAACAGGGTTGGAGCATCCCTAATTATAGAAAATCAATATTTTAAAAATAAAACCGGGGTTA
* *
104661 GAGTATCCCCTTGAAAATAACGGGGTTA
131 GAGTATCCCCTCGAAAATAACGGGATTA
* * * * * **
104689 GAGTATCCCCGATTATGGAAAATCGAAGCTTTAGAAATAAGGCCGGGGTTGGAGTAT-CCCTGCC
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCT--C
* * * * * *
104753 A-AAATAACGGGGTTGGAGTATCCCTAATTAT-GAGAATCAATATTTTAGAAATAAAGCCGGTGT
64 AGAAATAACAGGGTTGGAGCATCCCTAATTATAGAAAATCAATATTTTAAAAATAAAACCGGGGT
* * * *
104816 TGGAGTGT-CCCTCGAAAATCACGGGATTT
129 TAGAGTATCCCCTCGAAAATAACGGGATTA
* ** *
104845 GAGTGTCCCTTATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTATCC
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCC
104904 TCGAGATAAA
Statistics
Matches: 171, Mismatches: 41, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
156 63 0.37
157 35 0.20
158 71 0.42
159 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (158 bp):
GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
AAATAACAGGGTTGGAGCATCCCTAATTATAGAAAATCAATATTTTAAAAATAAAACCGGGGTTA
GAGTATCCCCTCGAAAATAACGGGATTA
Found at i:106784 original size:21 final size:22
Alignment explanation
Indices: 106758--106805 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
106748 TTTTCTAAGG
106758 GTTTTTT-CTGCTGAAAATTTT
1 GTTTTTTGCTGCTGAAAATTTT
*
106779 GTTTTTTGCTGCTGGAAATTTT
1 GTTTTTTGCTGCTGAAAATTTT
106801 GTTTT
1 GTTTT
106806 CTGCCCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (22 bp):
GTTTTTTGCTGCTGAAAATTTT
Found at i:115336 original size:52 final size:52
Alignment explanation
Indices: 115251--115375 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
115241 ATATGAAAAG
*
115251 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
115303 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
115355 TTGCCTACATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
115376 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:115476 original size:19 final size:20
Alignment explanation
Indices: 115452--115504 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
115442 TAGCTTAAAT
115452 TGTATCGATACAAAAC-TTA
1 TGTATCGATACAAAACTTTA
*
115471 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTTA
115491 TGTATCGATACAAA
1 TGTATCGATACAAA
115505 TCGTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAACTTTA
Found at i:116412 original size:67 final size:66
Alignment explanation
Indices: 116300--116479 Score: 288
Period size: 67 Copynumber: 2.7 Consensus size: 66
116290 ACGATGAAGG
* * * * *
116300 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAGGATGAAGATGAGAAAAGTGATAAA
1 TGCCAATATGTTGATTCATGGCCAACGATATTGG-CTTAAAGATGAAGATGAGAAAAGTGATAAA
116365 GA
65 GA
116367 TGCCAATATGTTGATTCATGGCCAACGATATTAGGCTTAAAGATGAAGATGAGAAAAGTGATAAA
1 TGCCAATATGTTGATTCATGGCCAACGATATT-GGCTTAAAGATGAAGATGAGAAAAGTGATAAA
116432 GA
65 GA
116434 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGA
1 TGCCAATATGTTGATTCATGGCCAACGATATT-GGCTTAAAGATGA
116480 GAAAAGGATG
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
67 104 0.98
68 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (66 bp):
TGCCAATATGTTGATTCATGGCCAACGATATTGGCTTAAAGATGAAGATGAGAAAAGTGATAAAG
A
Found at i:116531 original size:54 final size:52
Alignment explanation
Indices: 116469--117211 Score: 335
Period size: 43 Copynumber: 15.9 Consensus size: 52
116459 CGATATTGGG
* *
116469 CTTAAAGATGAGAAAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAA
1 CTTAAAGATG-GAAAAGG-TGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
116523 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* *
116575 C-T-----T---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * * *
116618 CTTAAAGA---AGAAGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* *
116667 CTT----A-GG----GGTGCCAATGTGCTGATTCAAGGCCAGCTACATT-AGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGA-A
* * * *
116710 CTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
116759 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
116802 CTTAAAGA---AGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
116851 C-T-----T---AAAGGTGCCAATATGCTGATTCAAGGCTAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
116894 CTTAAAGA---AGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * *
116943 C-T-----T---AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * *
116986 CTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
117035 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
117078 CTTAAAGAT---AAAGGTGCCAATATGCTGATTC-AAGCCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAG-CCAGCTACATTGAA
* * *
117127 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* *
117170 CTTAAAGAT-G--ATGGTGCCAATATGCTGATTCAAGGCCAGCTA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTA
117212 TATTAGGCTT
Statistics
Matches: 571, Mismatches: 62, Indels: 117
0.76 0.08 0.16
Matches are distributed among these distances:
43 256 0.45
44 8 0.01
45 1 0.00
46 1 0.00
47 2 0.00
48 7 0.01
49 247 0.43
51 1 0.00
52 31 0.05
53 7 0.01
54 10 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
Found at i:116570 original size:22 final size:22
Alignment explanation
Indices: 116545--116610 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
116535 AAAGGTGCCA
116545 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
*
116567 ATAT--TGGACTTAAAGGTGCCA---
1 ATATGCT-GA-TTCAA-G-GCCAGCT
116588 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
116610 A
1 A
116611 CATTGGACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 18
0.62 0.04 0.34
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 10 0.30
22 11 0.33
23 2 0.06
24 4 0.12
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
ATATGCTGATTCAAGGCCAGCT
Found at i:116603 original size:21 final size:21
Alignment explanation
Indices: 116536--116603 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
116526 AAAGATGGAA
116536 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
116557 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
116579 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
116600 AAGG
1 AAGG
116604 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.29
22 6 0.18
23 5 0.15
24 4 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:116667 original size:92 final size:92
Alignment explanation
Indices: 116482--117215 Score: 1211
Period size: 92 Copynumber: 7.9 Consensus size: 92
116472 AAAGATGAGA
* * * *
116482 AAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
*
116547 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
116578 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
116643 TGATTCAAGGCCAACGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
** * *
116670 AGGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
116735 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
116762 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
116827 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
116854 AAAGGTGCCAATATGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
116919 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
116946 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATG
117010 CTGATTCAAGGCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
117038 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATG
*
117102 CTGATTCAAGCCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
* *
117130 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
117195 TGATTCAAGGCCAGCTATATT
66 TGATTCAAGGCCAGCGATATT
117216 AGGCTTAGAA
Statistics
Matches: 604, Mismatches: 32, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
92 559 0.93
93 1 0.00
95 39 0.06
96 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:117301 original size:32 final size:33
Alignment explanation
Indices: 117222--117414 Score: 311
Period size: 32 Copynumber: 5.9 Consensus size: 33
117212 TATTAGGCTT
117222 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
117255 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
117288 AG-GGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
117320 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
117353 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
117384 AGAAGGGTTGCCACCGACTTGTGTGGTCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
117415 TGAAAAGGAG
Statistics
Matches: 149, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
31 3 0.02
32 84 0.56
33 62 0.42
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:117307 original size:65 final size:64
Alignment explanation
Indices: 117220--117414 Score: 313
Period size: 65 Copynumber: 3.0 Consensus size: 64
117210 TATATTAGGC
*
117220 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCT
* *
117284 TTAGAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGG-TTGCCACCGACTTGTGTGGGCT
*
117349 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGTCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCT
117413 TT
1 TT
117415 TGAAAAGGAG
Statistics
Matches: 122, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
64 35 0.29
65 87 0.71
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.30
Consensus pattern (64 bp):
TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCT
Found at i:117533 original size:31 final size:32
Alignment explanation
Indices: 117430--118174 Score: 316
Period size: 31 Copynumber: 22.6 Consensus size: 32
117420 AGGAGAAAGA
* * * *
117430 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
1 TGCCACGGAGTTGTGGGCTT-TAGAGAAGAAGG
* * *
117463 TGCCACGGAGTCGTGGGCTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT---AGAGAAGAAG-G
*
117499 TGCCACGGAGTTATGGGCTTT-GAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAAGAAGG
* * *
117530 TGCCACGGAGTCGCGGACTTT-GA-AAGAAAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAAG-AAGG
* * * * *
117561 TGTCACGGAGTCGT-GGATTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTT-AGA-GAAGAAGG
* * * * *
117594 TGCCATGGGGTTGTGGACTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT---AGAGAAGAAG-G
*
117630 TGCCACGGAGTTGTGGGCTTT-GAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAAGAAGG
* * * *
117661 TGCCACGGAGTCGT-GGATTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTT-AGA-GAAGAAGG
* * * *
117694 TGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT---AGAGAAGAAG-G
*
117730 TGCCACGGAGTTGTGGGCTTT-GAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAAGAAGG
* * * * * *
117761 TGCCACGGAATCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTTAGA-GAAGAAGG
* * *
117794 TGCCACAGAGTTGTGGACTTTA-A-AAGGGAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAA-GAAGG
* * * * * *
117825 TGCCTCGGAGTCGTGGACTTAAAAGGAAAAAGGG
1 TGCCACGGAGTTGTGGGCTTTAGA-GAAGAA-GG
* * * *
117859 TGCCACGGTGTTGTGGGCTTAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAAGAAGG
* * * *
117891 TGGCACGGAGTTGTGGAC-TGAGAAGAAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAG-AG-AAGAAG-G
*
117925 TGCCACGGAG-TGTGGGCTTTAAAAGGGTAA-AAGAG
1 TGCCACGGAGTTGTGGGCTTT---AGAG-AAGAAG-G
* * *
117960 TGCCACGGAATTGTGAGCTTT-GAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAAGAAGG
** * * * * *
117991 TGCCACATAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTTAGA-GAAGAAGG
* *
118024 TGCCACGGAGTTGTGGACTTTA-A-AAGGGAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAA-GAAGG
* ** * * *
118055 TGCCACGGAGTCGTGGAATTAAAAGGAAAAAGGG
1 TGCCACGGAGTTGTGGGCTTTAGA-GAAGAA-GG
* * * * *
118089 TGTCACGGTGTTGTGGGCTTAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAGAGAAGAAGG
* * *
118121 TGCCACTGAGTTGTGGAC-TTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAG-A-GAAGAAG-G
118155 TGCCACGGAGTTGTGGGCTT
1 TGCCACGGAGTTGTGGGCTT
118175 AAAAAGGGAT
Statistics
Matches: 542, Mismatches: 123, Indels: 92
0.72 0.16 0.12
Matches are distributed among these distances:
30 16 0.03
31 132 0.24
32 67 0.12
33 131 0.24
34 85 0.16
35 34 0.06
36 75 0.14
37 2 0.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (32 bp):
TGCCACGGAGTTGTGGGCTTTAGAGAAGAAGG
Found at i:117534 original size:100 final size:96
Alignment explanation
Indices: 117425--118215 Score: 554
Period size: 100 Copynumber: 8.0 Consensus size: 96
117415 TGAAAAGGAG
*
117425 AAAGATGCCACGGAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTCGTGGGCTTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A-AAGGTGCCACGGAGTCGTGGGCTTTAAAA-G
* *
117490 GAAAAAGAGTGCCACGGAGTTATGGGCTTTGAGAA
63 GAAAAAG-GTGCCACGGAGTTGTGGACTTTGAGAA
* * * ** * *
117525 GAAGGTGCCACGGAGTCGCGGACTTTGAAAGAAAGGTGTCACGGAGTCGT-GGATTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAGGTGCCACGGAGTCGTGGGCTTTAAAAGGAA
* * * *
117589 CAAGGTGCCATGGGGTTGTGGACTTTAAAAGGGAA
66 AAAGGTGCCACGGAGTTGTGGACTTT----GAGAA
* * *
117624 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AAGGTGCCACGGAGTCGT-GGATTTAAAAGG
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAGGTGCCACGGAGTCGTGGGCTTTAAAAGG
* * *
117687 AACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAA
64 AAAAAGGTGCCACGGAGTTGTGGACTTT----GAGAA
* * * *
117724 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AAGGTGCCACGGAATCGTGGAC-TTAAAAGG
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAGGTGCCACGGAGTCGTGGGCTTTAAAAGG
* *
117787 AACAAGGTGCCACAGAGTTGTGGACTTT-A-AA
64 AAAAAGGTGCCACGGAGTTGTGGACTTTGAGAA
* * * * * *
117818 AGGGAGGTGCCTCGGAGTCGTGGACTTAAAAGGAAAAAGGGTGCCACGGTGTTGTGGGC-TTAAA
1 A--AAGGTGCCACGGAGTTGTGGACTTAAAA--AGAAA-GGTGCCACGGAGTCGTGGGCTTTAAA
* **
117882 A-GAAAAAGGTGGCACGGAGTTGTGGACTGAGAAGAAA
61 AGGAAAAAGGTGCCACGGAGTTGTGGACTTTG-AG-AA
* * * * *
117919 AAAGAGTGCCACGGAG-TGTGGGCTTTAAAAGGGTAAAAGAGTGCCACGGAATTGTGAGCTTTGA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAA-AG--AAAG-GTGCCACGGAGTCGTGGGCTTT-A
** * **
117983 AAA-G---AAGGTGCCACATAGTCGTGGACTTAAAAGGAA
59 AAAGGAAAAAGGTGCCACGGAGTTGTGGACTT-TGA-GAA
* * ** **
118019 CAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAGGTGCCACGGAGTCGT-GGAATTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAGGTGCCACGGAGTCGTGGGCTTTAAAAGGAA
* * * **
118083 AAAGGGTGTCACGGTGTTGTGGGCTTAAAAGAA
66 AAA-GGTGCCACGGAGTTGTGGACTT-TGAGAA
* * *
118116 AAAGGTGCCACTGAGTTGTGGACTTAGAAGGAA-AAAGAGTGCCACGGAGTTGTGGGCTTAAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTA-AA--AAGAAAG-GTGCCACGGAGTCGTGGGCTTTAAAA
* * * *
118180 GGGATAAGATGCCACAGAGTTGTGGACTTTG-GAA
62 GGAAAAAGGTGCCACGGAGTTGTGGACTTTGAGAA
118214 AA
1 AA
118216 TATGCCACCG
Statistics
Matches: 561, Mismatches: 93, Indels: 76
0.77 0.13 0.10
Matches are distributed among these distances:
93 4 0.01
94 12 0.02
95 47 0.08
96 12 0.02
97 63 0.11
98 67 0.12
99 35 0.06
100 271 0.48
101 43 0.08
102 2 0.00
103 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (96 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAGGTGCCACGGAGTCGTGGGCTTTAAAAGGAA
AAAGGTGCCACGGAGTTGTGGACTTTGAGAA
Found at i:117577 original size:131 final size:130
Alignment explanation
Indices: 117417--118170 Score: 667
Period size: 131 Copynumber: 5.7 Consensus size: 130
117407 TGGTCTTTTG
* * * *
117417 AAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTCGTGGGCT
1 AAAAGGA-AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-
* * *
117482 TTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAGAAGAAGGTGCCACGGAGTCGCGGA
64 TTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGACTTTGAGAAGAAGGTGCCACGGAGTCGTGGA
117547 CTTT
127 CTTT
* * * * * * * *
117551 GAAA-G-AAAGGTGTCACGGAGTCGTGGATTTAAAAGGAACAAGGTGCCATGGGGTTGTGGACTT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-T
* *
117614 TAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGA-
65 TAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGACTTTGAGAAGAAGGTGCCACGGAGTCGTGGAC
117678 TTT
128 TTT
* *
117681 AAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGG
1 AAAAGGAA-AAGGTGCCACGGAGTTGTGGAC-TTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGG
* ** * * * ** * * *
117746 GCTTTGAA--AAGAAGGTGCCACGGAATCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTG
62 ACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT-TGA-GAAGAAGGTGCCACGGAGTCGTG
117809 GACTTT
125 GACTTT
* * * * * *
117815 AAAAGG--GAGGTGCCTCGGAGTCGTGGACTTAAAAGGAAAAAGGGTGCCACGGTGTTGTGGGCT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA-GGTGCCACGGAGTTGTGGACT
* ** * *
117878 TAAAA-GAAAAAGGTGGCACGGAGTTGTGGACTGAGAAGAAAAAAGAGTGCCACGGAGT-GTGGG
65 TAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTG-AG-AAGAAG-GTGCCACGGAGTCGTGGA
117941 CTTT
127 CTTT
* * ** *
117945 AAAAGGGTAAAAGAGTGCCACGGAATTGT-GAGCTTTGAAAAG---AAGGTGCCACATAGTCGTG
1 AAAA-GG-AAAAG-GTGCCACGGAGTTGTGGA-C-TTAAAAAGAAAAAGGTGCCACGGAGTTGTG
* * *
118006 GACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGAGGTGCCACGGAGTCGTG
61 GACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAGAA-GAAGGTGCCACGGAGTCGTG
*
118070 GA-ATT
125 GACTTT
* * * *
118075 AAAAGGAAAAAGGGTGTCACGGTGTTGTGGGCTT-AAAAGAAAAAGGTGCCACTGAGTTGTGGAC
1 AAAAGG-AAAA-GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC
*
118139 TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGG
64 TTAAAAGGAAAAAG-GTGCCACGGAGTTGTGG
118171 GCTTAAAAAG
Statistics
Matches: 510, Mismatches: 80, Indels: 63
0.78 0.12 0.10
Matches are distributed among these distances:
127 5 0.01
128 2 0.00
129 50 0.10
130 106 0.21
131 184 0.36
132 28 0.05
133 67 0.13
134 22 0.04
135 24 0.05
136 22 0.04
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.19
Consensus pattern (130 bp):
AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAGAAGAAGGTGCCACGGAGTCGTGGACTTT
Found at i:117612 original size:64 final size:65
Alignment explanation
Indices: 117425--118209 Score: 477
Period size: 64 Copynumber: 11.9 Consensus size: 65
117415 TGAAAAGGAG
* * * * * * *
117425 AAAGATGCCACGGAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTCGTGGGCTTTAAAAGG
1 AAAGGTGCCACGGAGTCGTGGATTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA--
117490 GAA
64 G-A
** * * * * * *
117493 AAAGAGTGCCACGGAGTTATGGGCTTT--GA-GAAGAAGGTGCCACGGAGTCGCGGACTTTGAAA
1 AAAG-GTGCCACGGAGTCGT-GGATTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
117555 G-
64 GA
* * * *
117556 AAAGGTGTCACGGAGTCGTGGATTTAAAAGGAACAAGGTGCCATGGGGTTGTGGACTTTAAAAGG
1 AAAGGTGCCACGGAGTCGTGGATTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA--
117621 GAA
64 G-A
* * *
117624 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G---AAGGTGCCACGGAGTCGTGGA-TTTAAA
1 AAAG-GTGCCACGGAGTCGT-GGATTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAA
117684 AGGA
63 A-GA
* * *
117688 ACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
1 A-AAGGTGCCACGGAGTCGTGGA-TTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGACTTT-A
117753 AAAG-
61 AAAGA
* * * *
117757 -AAGGTGCCACGGAATCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAAAAG-
1 AAAGGTGCCACGGAGTCGTGGATTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGA
** * * * *
117820 GGAGGTGCCTCGGAGTCGTGGACTTAAAAGGAAAAAGGGTGCCACGGTGTTGTGGGC-TTAAAAG
1 AAAGGTGCCACGGAGTCGTGGATTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTTTAAAAG
117884 AA
65 -A
* * * * * * *
117886 AAAGGTGGCACGGAGTTGTGGACTGAGAAGAAAAAAGAGTGCCACGGAG-TGTGGGCTTTAAAAG
1 AAAGGTGCCACGGAGTCGTGGATTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTTAAAA-
117950 GGTA
64 -G-A
* * * ** *
117954 AAAGAGTGCCACGGAATTGTGAGCTTTGAAAA-G---AAGGTGCCACATAGTCGTGGAC-TTAAA
1 AAAG-GTGCCACGGAGTCGTG-GATTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAA
118014 AGGA
63 A-GA
* * * *
118018 ACAAGGTGCCACGGAGTTGTGGACTTTAAAAGG---GAGGTGCCACGGAGTCGTGGA-ATTAAAA
1 A-AAGGTGCCACGGAGTCGTGGA-TTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
118079 GGAA
64 -G-A
* * * ** * *
118083 AAAGGGTGTCACGGTGTTGTGGGCTTAAAA-GAAAAAGGTGCCACTGAGTTGTGGAC-TTAGAAG
1 AAA-GGTGCCACGGAGTCGTGGATTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTA-AAA
118146 GAA
64 G-A
* * * * * * *
118149 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGGGATAAGATGCCACAGAGTTGTGGACTTT
1 AAAG-GTGCCACGGAGTCGT-GGATTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTT
118210 GGAAAATATG
Statistics
Matches: 581, Mismatches: 87, Indels: 97
0.76 0.11 0.13
Matches are distributed among these distances:
61 5 0.01
62 12 0.02
63 22 0.04
64 159 0.27
65 63 0.11
66 113 0.19
67 82 0.14
68 40 0.07
69 58 0.10
70 16 0.03
71 11 0.02
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (65 bp):
AAAGGTGCCACGGAGTCGTGGATTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGA
Found at i:117982 original size:230 final size:230
Alignment explanation
Indices: 117425--118215 Score: 1028
Period size: 230 Copynumber: 3.4 Consensus size: 230
117415 TGAAAAGGAG
* *
117425 AAAGATGCCACGGAGTTGTGGACTTA-AA-AAGAACAAGGTGCCACGGAGTCGTGGGCTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGAA-AA-AAGGTGCCACGGAGTTGTGGGCTTTAAAA
* * * *
117488 GGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAGAAGAAGGTGCCACGGAGTCGCGGACTTTGA
64 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TTAA
* * * * *
117553 AA-G-A-AAGGTGTCACGGAGTCGTGGA-TTTAAAAGGAACAAGGTGCCAT-GGGGTTGTGGACT
128 AAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGG---GAGGTGCC-TCGGAGTCGTGGAC-
* * **
117613 TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA-AA
188 TTAAAA-GGAAAAAGGGTGCCACGGTGTTGTGGGCTTAAAAGAA
* * * * * * * *
117656 GAAGGTGCCACGGAGTCGTGGATTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
*
117721 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAATCGTGGACTTAAAAG
66 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
*
117786 GAACAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGAGGTGCCTCGGAGTCGTGGACTTAAAAGG
131 GAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAGGTGCCTCGGAGTCGTGGACTTAAAAGG
117851 AAAAAGGGTGCCACGGTGTTGTGGGCTTAAAAGAA
196 AAAAAGGGTGCCACGGTGTTGTGGGCTTAAAAGAA
* *
117886 AAAGGTGGCACGGAGTTGTGGACTGAGAAGAAAAAAGAGTGCCACGGAG-TGTGGGCTTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG
* * * **
117950 GGTAAAAGAGTGCCACGGAATTGTGAGCTTTGAAAAGAAGGTGCCACATAGTCGTGGACTTAAAA
65 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA
* *
118015 GGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAGGTGCCACGGAGTCGTGGAATTAAAAG
130 GGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAGGTGCCTCGGAGTCGTGGACTTAAAAG
*
118080 GAAAAAGGGTGTCACGGTGTTGTGGGCTTAAAAGAA
195 GAAAAAGGGTGCCACGGTGTTGTGGGCTTAAAAGAA
* * *
118116 AAAGGTGCCACTGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG
* * *
118181 GG-ATAAGA-TGCCACAGAGTTGTGGACTTTGGAAAA
65 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-GAAAA
118216 TATGCCACCG
Statistics
Matches: 495, Mismatches: 54, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
229 47 0.09
230 268 0.54
231 148 0.30
232 4 0.01
233 19 0.04
234 9 0.02
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (230 bp):
AAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
GAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAGGTGCCTCGGAGTCGTGGACTTAAAAGG
AAAAAGGGTGCCACGGTGTTGTGGGCTTAAAAGAA
Found at i:118231 original size:29 final size:29
Alignment explanation
Indices: 118188--118687 Score: 217
Period size: 29 Copynumber: 16.8 Consensus size: 29
118178 AAGGGATAAG
* * *
118188 ATGCCACAGAGTTGTGGACTTTGGAAAAT
1 ATGCCACTGACTTGTGGGCTTTGGAAAAT
* * *
118217 ATGCCACCGACTTGTGGGCTTCGGAAAAGG
1 ATGCCACTGACTTGTGGGCTTTGGAAAA-T
* * **
118247 GTGCCACTGATTTGTGGGCTTT-GAAGGT
1 ATGCCACTGACTTGTGGGCTTTGGAAAAT
* * * * *
118275 -TGCCATTGATTTGTGGACTTTGAAAAAG
1 ATGCCACTGACTTGTGGGCTTTGGAAAAT
* *
118303 ATGCCACTAACTTGTGGGCTTT-GAAAGGT
1 ATGCCACTGACTTGTGGGCTTTGGAAA-AT
*
118332 -TGCCACTGACTTGTGGGCTTTTGAAAAT
1 ATGCCACTGACTTGTGGGCTTTGGAAAAT
* * * *
118360 GGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAG
1 -ATGCCACTGACTTGTGGGCTT---TGG-AAAAT
* * * ** * * *
118394 AGTGCTACGGAGTTGTGAACTTACAAAAGAAAAAG
1 A-TGCCACTGACTTGTGGGCTT-----TGGAAAAT
* * *
118429 AGTGCCACGGAGTTGTGGACTTTGGAAAAT
1 A-TGCCACTGACTTGTGGGCTTTGGAAAAT
* ** *
118459 ATGCCACCGACTTGTGGGCTTCAGAAAAGG
1 ATGCCACTGACTTGTGGGCTTTGGAAAA-T
* * *
118489 GTGCCACTGATTTGTGGGCTTT--AAAGGT
1 ATGCCACTGACTTGTGGGCTTTGGAAA-AT
* * * *
118517 -TGCCACTGATTTGTGGACTTTGAAAAAG
1 ATGCCACTGACTTGTGGGCTTTGGAAAAT
* *
118545 ATGCCACTAACTTGTGGGCTTT-GAAAGGT
1 ATGCCACTGACTTGTGGGCTTTGGAAA-AT
* *
118574 -TGCCACTGACTTGTGGGCTTTTGAAAAGG
1 ATGCCACTGACTTGTGGGCTTTGGAAAA-T
* * * *
118603 GTGCCACTAACTTGTGGGCTTAAAAGGAAAAAG
1 ATGCCACTGACTTGTGGGCTT---TGG-AAAAT
* * * * *
118636 AGTGCTACGGAGTTGTGGGCTTTGAAAAAG
1 A-TGCCACTGACTTGTGGGCTTTGGAAAAT
118666 ATGCCACTGACTTGTGGGCTTT
1 ATGCCACTGACTTGTGGGCTTT
118688 TGAAGGGTGA
Statistics
Matches: 362, Mismatches: 81, Indels: 56
0.73 0.16 0.11
Matches are distributed among these distances:
27 39 0.11
28 52 0.14
29 113 0.31
30 86 0.24
31 1 0.00
33 3 0.01
34 38 0.10
35 25 0.07
36 5 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATGCCACTGACTTGTGGGCTTTGGAAAAT
Found at i:118284 original size:27 final size:28
Alignment explanation
Indices: 118218--118623 Score: 221
Period size: 30 Copynumber: 13.7 Consensus size: 28
118208 TTGGAAAATA
* * *
118218 TGCCACCGACTTGTGGGCTTCGGAAAAGGG
1 TGCCACTGACTTGTGGGCTT-TG-AAAGGT
*
118248 TGCCACTGATTTGTGGGCTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGT
* * * * *
118275 TGCCATTGATTTGTGGACTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGT
*
118304 TGCCACTAACTTGTGGGCTTTGAAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGT
118332 TGCCACTGACTTGTGGGCTTTTGAAAATGG-
1 TGCCACTGACTTGTGGGC-TTTG-AAA-GGT
* *
118362 TGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAG-
1 TGCCACTGACTTGTGGGCTT----TG--AAAG-GT
* * * ** *
118396 TGCTACGGAGTTGTGAACTTACAAAAGAAAAAGAG-
1 TGCCACTGACTTGTGGGCTT-----TG--AAAG-GT
* * * *
118431 TGCCACGGAGTTGTGGACTTTGGAAA-AT
1 TGCCACTGACTTGTGGGCTTT-GAAAGGT
* * *
118459 ATGCCACCGACTTGTGGGCTTCAGAAAAGGG
1 -TGCCACTGACTTGTGGGCTT-TG-AAAGGT
*
118490 TGCCACTGATTTGTGGGCTTT-AAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGT
* * * *
118517 TGCCACTGATTTGTGGACTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGT
*
118546 TGCCACTAACTTGTGGGCTTTGAAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGT
*
118574 TGCCACTGACTTGTGGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGC-TTTG-AAAGGT
*
118604 TGCCACTAACTTGTGGGCTT
1 TGCCACTGACTTGTGGGCTT
118624 AAAAGGAAAA
Statistics
Matches: 304, Mismatches: 50, Indels: 45
0.76 0.13 0.11
Matches are distributed among these distances:
27 49 0.16
28 42 0.14
29 78 0.26
30 81 0.27
31 3 0.01
33 2 0.01
34 19 0.06
35 30 0.10
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGT
Found at i:118331 original size:57 final size:57
Alignment explanation
Indices: 118218--118687 Score: 311
Period size: 57 Copynumber: 7.9 Consensus size: 57
118208 TTGGAAAATA
* * * * * * *
118218 TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTG-AAGGT
1 TGCCACTGACTTGTGGACTT-TGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
* *
118275 TGCCATTGATTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
* * * *
118332 TGCCACTGACTTGTGGGCTTTTGAAAATGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAG-
1 TGCCACTGACTTGTGGAC-TTTGAAAAAGATGCCACTAACTTGTGGGCTT----TG--AAAG-GT
* * * * * ** * * *
118396 TGCTACGGAGTTGTGAACTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAA-AT
1 TGCCACTGACTTGTGGACTT-----TGAAAAAGA-TGCCACTAACTTGTGGGCTTT-GAAAGGT
* * * * * * *
118459 ATGCCACCGACTTGTGGGCTTCAGAAAAGGGTGCCACTGATTTGTGGGCTTT-AAAGGT
1 -TGCCACTGACTTGTGGACTT-TGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
*
118517 TGCCACTGATTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
* * * *
118574 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAG-
1 TGCCACTGACTTGTGGAC-TTTGAAAAAGATGCCACTAACTTGTGGGCTT----TG--AAAG-GT
* * * * *
118638 TGCTACGGAGTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTT
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTT
118688 TGAAGGGTGA
Statistics
Matches: 324, Mismatches: 61, Indels: 54
0.74 0.14 0.12
Matches are distributed among these distances:
56 51 0.16
57 78 0.24
58 59 0.18
59 18 0.06
60 7 0.02
62 2 0.01
63 30 0.09
64 54 0.17
65 2 0.01
66 1 0.00
68 6 0.02
69 16 0.05
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (57 bp):
TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
Found at i:118364 original size:114 final size:114
Alignment explanation
Indices: 118218--118623 Score: 438
Period size: 114 Copynumber: 3.4 Consensus size: 114
118208 TTGGAAAATA
* * * *
118218 TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCATTG
1 TGCCACCGACTTGTGGGCTTCTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGGTTGCCACTG
118283 ATTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
66 ATTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
* * * *
118332 TGCCACTGACTTGTGGGCTTTTGAAAATGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAG-
1 TGCCACCGACTTGTGGGCTTCTGAAAAGGGTGCCACTAACTTGTGGGCTT----TG---AAG-GT
* * * * * ** * * *
118396 TGCTACGGAGTTGTGAACTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAA-AT
58 TGCCACTGATTTGTGGACTT-----TGAAAAAGA-TGCCACTAACTTGTGGGCTTT-GAAAGGT
* * * *
118459 ATGCCACCGACTTGTGGGCTTCAGAAAAGGGTGCCACTGATTTGTGGGCTTTAAAGGTTGCCACT
1 -TGCCACCGACTTGTGGGCTTCTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGGTTGCCACT
118524 GATTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
65 GATTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
* *
118574 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTT
1 TGCCACCGACTTGTGGGCTTCTGAAAAGGGTGCCACTAACTTGTGGGCTT
118624 AAAAGGAAAA
Statistics
Matches: 233, Mismatches: 41, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
114 93 0.40
115 18 0.08
116 8 0.03
118 1 0.00
120 1 0.00
121 37 0.16
122 1 0.00
126 8 0.03
127 18 0.08
128 48 0.21
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (114 bp):
TGCCACCGACTTGTGGGCTTCTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGGTTGCCACTG
ATTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGT
Found at i:118410 original size:34 final size:35
Alignment explanation
Indices: 118372--118450 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
118362 TGCCACTAAC
* * *
118372 TTGTGGGCTTA-AAAGGAAAAAGAGTGCTACGGAG
1 TTGTGGACTTACAAAAGAAAAAGAGTGCCACGGAG
*
118406 TTGTGAACTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGACTTACAAAAGAAAAAGAGTGCCACGGAG
118441 TTGTGGACTT
1 TTGTGGACTT
118451 TGGAAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 9 0.23
35 30 0.77
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.23
Consensus pattern (35 bp):
TTGTGGACTTACAAAAGAAAAAGAGTGCCACGGAG
Found at i:118543 original size:242 final size:241
Alignment explanation
Indices: 118113--118652 Score: 920
Period size: 242 Copynumber: 2.2 Consensus size: 241
118103 GGGCTTAAAA
* * * * * **
118113 GAAAAAGGTGCCACTGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAA
1 GAAAAAGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAGTGCTACGGAGTTGTGAACTTAAA
* * *
118178 AAGGGATAAGATGCCACAGAGTTGTGGACTTTGGAAAATATGCCACCGACTTGTGGGCTTCGGAA
66 AAGGAAAAAGATGCCACAGAGTTGTGGACTTTGGAAAATATGCCACCGACTTGTGGGCTTCAGAA
* *
118243 AAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCATTGATTTGTGGACTTTGAAAAAGATGCC
131 AAGGGTGCCACTGATTTGTGGGCTTTAAAGGTTGCCACTGATTTGTGGACTTTGAAAAAGATGCC
118308 ACTAACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTT
196 ACTAACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTT
*
118354 GAAAATGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAGTGCTACGGAGTTGTGAACTTACA
1 GAAAAAGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAGTGCTACGGAGTTGTGAACTTA-A
*
118419 AAA-GAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAATATGCCACCGACTTGTGGGCTTCAG
65 AAAGGAAAAAGA-TGCCACAGAGTTGTGGACTTTGGAAAATATGCCACCGACTTGTGGGCTTCAG
118483 AAAAGGGTGCCACTGATTTGTGGGCTTTAAAGGTTGCCACTGATTTGTGGACTTTGAAAAAGATG
129 AAAAGGGTGCCACTGATTTGTGGGCTTTAAAGGTTGCCACTGATTTGTGGACTTTGAAAAAGATG
118548 CCACTAACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTT
194 CCACTAACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTT
*
118596 GAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAGTGCTACGGAGTTGTG
1 GAAAAAGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAGTGCTACGGAGTTGTG
118653 GGCTTTGAAA
Statistics
Matches: 282, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
241 61 0.22
242 221 0.78
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (241 bp):
GAAAAAGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAGTGCTACGGAGTTGTGAACTTAAA
AAGGAAAAAGATGCCACAGAGTTGTGGACTTTGGAAAATATGCCACCGACTTGTGGGCTTCAGAA
AAGGGTGCCACTGATTTGTGGGCTTTAAAGGTTGCCACTGATTTGTGGACTTTGAAAAAGATGCC
ACTAACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTT
Found at i:120146 original size:1 final size:1
Alignment explanation
Indices: 120142--120189 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
120132 GTTGTTGTTG
* * * * *
120142 TTTTTTTTTGTTTTGTTTTTTTTTCTTTTTTTCTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
120190 GTGGAGGATG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.06, G:0.04, T:0.90
Consensus pattern (1 bp):
T
Found at i:120159 original size:15 final size:15
Alignment explanation
Indices: 120133--120170 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
120123 CTTTTTGTTG
120133 TTGTTGTTGTTTTTTT
1 TTGTT-TTGTTTTTTT
120149 TTGTTTTGTTTTTTT
1 TTGTTTTGTTTTTTT
*
120164 TTCTTTT
1 TTGTTTT
120171 TTTCTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (15 bp):
TTGTTTTGTTTTTTT
Found at i:120161 original size:16 final size:16
Alignment explanation
Indices: 120133--120165 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
120123 CTTTTTGTTG
120133 TTGTTGTTGTTTTTTT
1 TTGTTGTTGTTTTTTT
120149 TTGTT-TTGTTTTTTT
1 TTGTTGTTGTTTTTTT
120164 TT
1 TT
120166 CTTTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTGTTGTTGTTTTTTT
Found at i:120170 original size:21 final size:22
Alignment explanation
Indices: 120123--120186 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
120113 CATCCGGACC
* *
120123 CTTTTTGTTGTTGTTGTTGTTTT
1 CTTTTTGTTCTTGTT-TTTTTTT
120146 -TTTTTGTT-TTGTTTTTTTTT
1 CTTTTTGTTCTTGTTTTTTTTT
*
120166 CTTTTT-TTCTTCTTTTTTTTT
1 CTTTTTGTTCTTGTTTTTTTTT
120187 TTTGTGGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 8 0.22
21 21 0.57
22 8 0.22
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (22 bp):
CTTTTTGTTCTTGTTTTTTTTT
Found at i:120170 original size:23 final size:24
Alignment explanation
Indices: 120144--120189 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
120134 TGTTGTTGTT
*
120144 TTTTTTTGTT-TTGTTTTTTTTTC
1 TTTTTTTCTTCTTGTTTTTTTTTC
*
120167 TTTTTTTCTTCTTTTTTTTTTTT
1 TTTTTTTCTTCTTGTTTTTTTTT
120190 GTGGAGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (24 bp):
TTTTTTTCTTCTTGTTTTTTTTTC
Found at i:122249 original size:15 final size:15
Alignment explanation
Indices: 122229--122259 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
122219 ATTTTGTTTG
*
122229 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
122244 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
122259 G
1 G
122260 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:124092 original size:21 final size:21
Alignment explanation
Indices: 124063--124107 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
124053 AAGTTTTCAT
*
124063 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
124083 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
124105 TTT
1 TTT
124108 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:127402 original size:8 final size:9
Alignment explanation
Indices: 127381--127413 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
127371 ACTTATTTGA
127381 AAAAAATAC
1 AAAAAATAC
127390 AAAAAATAC
1 AAAAAATAC
127399 AAAAAATA-
1 AAAAAATAC
127407 AAAAAAT
1 AAAAAAT
127414 GAAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAC
Found at i:127418 original size:9 final size:8
Alignment explanation
Indices: 127380--127420 Score: 55
Period size: 9 Copynumber: 4.8 Consensus size: 8
127370 AACTTATTTG
127380 AAAAAAAT
1 AAAAAAAT
127388 ACAAAAAAT
1 A-AAAAAAT
127397 ACAAAAAAT
1 A-AAAAAAT
127406 AAAAAAAT
1 AAAAAAAT
127414 GAAAAAA
1 -AAAAAA
127421 GAAATGGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:127931 original size:20 final size:20
Alignment explanation
Indices: 127906--127980 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
127896 TTTTACCCAG
127906 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *** *
127926 ATGTATTGATACATGCATGA
1 ATGTATCGATACATTTTTCA
*
127946 ATATATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
127966 ATGTATCGATACATT
1 ATGTATCGATACATT
127981 CTATTTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:135549 original size:2 final size:2
Alignment explanation
Indices: 135544--135595 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
135534 CTAAACGCAA
* *
135544 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
135586 AT TT AT AT AT
1 AT AT AT AT AT
135596 TAAAGAATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:135569 original size:16 final size:16
Alignment explanation
Indices: 135544--135595 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
135534 CTAAACGCAA
*
135544 ATATATATATATATAT
1 ATATACATATATATAT
135560 ATATACATATATATAT
1 ATATACATATATATAT
*
135576 ATATACATATATTTAT
1 ATATACATATATATAT
135592 ATAT
1 ATAT
135596 TAAAGAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATACATATATATAT
Found at i:136122 original size:2 final size:2
Alignment explanation
Indices: 136115--136192 Score: 133
Period size: 2 Copynumber: 40.0 Consensus size: 2
136105 AAAGTTAATG
*
136115 CT CT CT CT CT CT CT CT CG CT CT CT C- CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
136156 CT CT CT CT CT CT CT CT CT C- CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
136193 ATATATATAT
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 70 0.97
ACGTcount: A:0.00, C:0.51, G:0.01, T:0.47
Consensus pattern (2 bp):
CT
Found at i:136197 original size:2 final size:2
Alignment explanation
Indices: 136192--136222 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
136182 TCTCTCTCTC
136192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
136223 TATGATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:136952 original size:21 final size:21
Alignment explanation
Indices: 136928--136969 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
136918 TTTGAATTAA
*
136928 AATA-TAACTTAATAATAATTT
1 AATAGTAA-TTAAAAATAATTT
136949 AATAGTAATTAAAAATAATTT
1 AATAGTAATTAAAAATAATTT
136970 TAAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AATAGTAATTAAAAATAATTT
Found at i:136983 original size:22 final size:21
Alignment explanation
Indices: 136924--136983 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
136914 TGTATTTGAA
*
136924 TTAAAATATAACTTAATAATAAT
1 TTAAAAT-TAAC-TAAAAATAAT
* * *
136947 TTAATAGTAATTAAAAATAATT
1 TTAAAATTAACTAAAAATAA-T
136969 TTAAAATTAACTAAA
1 TTAAAATTAACTAAA
136984 TTCTTATTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 8 0.28
22 16 0.55
23 5 0.17
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAAAATTAACTAAAAATAAT
Found at i:137091 original size:14 final size:13
Alignment explanation
Indices: 137069--137103 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
137059 TTTTTTATTT
137069 AAAAATAATTTAA
1 AAAAATAATTTAA
137082 AAATAATAATTTAA
1 AAA-AATAATTTAA
137096 AAAAATAA
1 AAAAATAA
137104 ATATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATAATTTAA
Found at i:137126 original size:31 final size:29
Alignment explanation
Indices: 137091--137204 Score: 88
Period size: 31 Copynumber: 3.8 Consensus size: 29
137081 AAAATAATAA
137091 TTTAAAAAAATAAATATATTTTTAATCAAAT
1 TTTAAAAAAATAAATATATTTTT-AT-AAAT
**
137122 TTTAAAAGGATAAATAAGTATTTTT-TAAAT
1 TTTAAAAAAATAAAT-A-TATTTTTATAAAT
* * * *
137152 ATTAAAATATATATATATAATTTTTTATAAAA
1 TTTAAAA-AAATAAATAT-A-TTTTTATAAAT
*
137184 TTT-AAAAAATAAATATCTTTT
1 TTTAAAAAAATAAATATATTTT
137205 ACCTCTATCT
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
28 4 0.06
29 1 0.02
30 20 0.30
31 27 0.41
32 7 0.11
33 7 0.11
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTAAAAAAATAAATATATTTTTATAAAT
Found at i:138285 original size:32 final size:32
Alignment explanation
Indices: 138244--138328 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
138234 ATAATAATTT
*
138244 ATAAATTTGATAAATATTAAATAAAATTACTC
1 ATAAATTTGATAAATATTAAACAAAATTACTC
* * * * *
138276 TTAATTTTGATAAATAGTAGACATAATTACTC
1 ATAAATTTGATAAATATTAAACAAAATTACTC
138308 ATAAATTTGAT-AATCATTAAA
1 ATAAATTTGATAAAT-ATTAAA
138329 AATTTTAACC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
31 3 0.07
32 39 0.93
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (32 bp):
ATAAATTTGATAAATATTAAACAAAATTACTC
Found at i:138464 original size:21 final size:21
Alignment explanation
Indices: 138440--138479 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
138430 TATTTAATTT
*
138440 TATTTATTT-TATATTTAAAAG
1 TATTT-TTTATATATATAAAAG
138461 TATTTTTTATATATATAAA
1 TATTTTTTATATATATAAA
138480 TTAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTTTTTATATATATAAAAG
Done.