Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001206.1 Hibiscus syriacus cultivar Beakdansim tig00002385_pilon, whole genome shotgun sequence
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: 142942
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1327 original size:20 final size:20
Alignment explanation
Indices: 1302--1341 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1292 GAAATATTAA
1302 TAATATAAAGCAAAATTTAT
1 TAATATAAAGCAAAATTTAT
1322 TAATATAAAGCAAAATTTAT
1 TAATATAAAGCAAAATTTAT
1342 GTAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
TAATATAAAGCAAAATTTAT
Found at i:1351 original size:20 final size:20
Alignment explanation
Indices: 1302--1351 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1292 GAAATATTAA
*
1302 TAATATAAAGCAAAATTTAT
1 TAATAAAAAGCAAAATTTAT
*
1322 TAATATAAAGCAAAATTTAT
1 TAATAAAAAGCAAAATTTAT
1342 GTAA-AAAAAG
1 -TAATAAAAAG
1352 ATAGTTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (20 bp):
TAATAAAAAGCAAAATTTAT
Found at i:7853 original size:19 final size:19
Alignment explanation
Indices: 7831--7869 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7821 GTTTACAATC
* *
7831 AATTCTAAAGTTTTTATTT
1 AATTATAAACTTTTTATTT
*
7850 AATTATAGACTTTTTATTT
1 AATTATAAACTTTTTATTT
7869 A
1 A
7870 TTTTGTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (19 bp):
AATTATAAACTTTTTATTT
Found at i:7902 original size:24 final size:25
Alignment explanation
Indices: 7860--7936 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 25
7850 AATTATAGAC
* *
7860 TTTTTATTTATTTTGTTTCTTATTTT
1 TTTTTATTTA-ATTCTTTCTTATTTT
*
7886 TTTTTATTTAATT-TTTC-AATTTT
1 TTTTTATTTAATTCTTTCTTATTTT
*
7909 TTTATTATTTAGTTCTTT-TTATTTT
1 TTT-TTATTTAATTCTTTCTTATTTT
7934 TTT
1 TTT
7937 AGTTGTATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
23 8 0.18
24 13 0.30
25 13 0.30
26 10 0.23
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.78
Consensus pattern (25 bp):
TTTTTATTTAATTCTTTCTTATTTT
Found at i:7909 original size:45 final size:46
Alignment explanation
Indices: 7841--7937 Score: 108
Period size: 45 Copynumber: 2.1 Consensus size: 46
7831 AATTCTAAAG
* * *
7841 TTTTTATTTAATTATAGACTTTTTAT-TTATTTTGTTTCTTATT-TT
1 TTTTTATTTAATTATACAATTTTTATATTATTTAG-TTCTTATTATT
* * * *
7886 TTTTTATTTAATTTTTCAATTTTTTTATTATTTAGTTCTTTTTATT
1 TTTTTATTTAATTATACAATTTTTATATTATTTAGTTCTTATTATT
7932 TTTTTA
1 TTTTTA
7938 GTTGTATAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 28 0.65
46 15 0.35
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (46 bp):
TTTTTATTTAATTATACAATTTTTATATTATTTAGTTCTTATTATT
Found at i:7947 original size:26 final size:24
Alignment explanation
Indices: 7875--7959 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
7865 ATTTATTTTG
* *
7875 TTTCTTATTTTTTT-TTATTTAAT
1 TTTCTTATTTTTTTATTATATAGT
* *
7898 TTT-TCAATTTTTTTATTATTTAGT
1 TTTCT-TATTTTTTTATTATATAGT
* *
7922 TCTTTTTATTTTTTTAGTTGTATAGT
1 T-TTCTTATTTTTTTA-TTATATAGT
7948 TTTCTTATTTTT
1 TTTCTTATTTTT
7960 AGTTTGTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
22 1 0.02
23 11 0.22
24 9 0.18
25 21 0.41
26 9 0.18
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (24 bp):
TTTCTTATTTTTTTATTATATAGT
Found at i:18446 original size:31 final size:31
Alignment explanation
Indices: 18411--18518 Score: 144
Period size: 31 Copynumber: 3.5 Consensus size: 31
18401 TTGAAAAAAA
*
18411 AAGTTTTGGTCACTTACCTTATTGTATTATT
1 AAGTTTTGGTCACTTACGTTATTGTATTATT
* *
18442 AAGTTTTGGTCACTTACGTTATTATGTTATT
1 AAGTTTTGGTCACTTACGTTATTGTATTATT
* * *
18473 AAGTTTTGGTCACTTATGTTATCGTTTTATT
1 AAGTTTTGGTCACTTACGTTATTGTATTATT
* *
18504 AAGCTTTGATCACTT
1 AAGTTTTGGTCACTT
18519 GGGCATTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (31 bp):
AAGTTTTGGTCACTTACGTTATTGTATTATT
Found at i:19813 original size:51 final size:47
Alignment explanation
Indices: 19731--19842 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 47
19721 AGTAACTACT
*
19731 TAATAAAATAATAATAAACTAAAAATGATGTTTTGATTATATCCTAATTTC
1 TAATAAAATAATAATAAACTAAAAATAATGTTTT-A--A-ATCCTAATTTC
* * *
19782 TAATAAAATAGTAATAAACTAAAGATAATGTTTTAAATCTTAATTTC
1 TAATAAAATAATAATAAACTAAAAATAATGTTTTAAATCCTAATTTC
19829 TAATAAAATAATAA
1 TAATAAAATAATAA
19843 ATCATAATGC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 23 0.41
48 1 0.02
50 1 0.02
51 31 0.55
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (47 bp):
TAATAAAATAATAATAAACTAAAAATAATGTTTTAAATCCTAATTTC
Found at i:22491 original size:14 final size:14
Alignment explanation
Indices: 22472--22511 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
22462 TTTTTTGGAT
22472 ATTTTTTCTTTTCG
1 ATTTTTTCTTTTCG
22486 ATTTTTTCTTTTCG
1 ATTTTTTCTTTTCG
*
22500 CTTTTTTCTTTT
1 ATTTTTTCTTTT
22512 TTTCCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (14 bp):
ATTTTTTCTTTTCG
Found at i:22534 original size:14 final size:14
Alignment explanation
Indices: 22473--22534 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
22463 TTTTTGGATA
**
22473 TTTTTTCTTTTCGA
1 TTTTTTCTTTTCTT
22487 TTTTTTCTTTTCGCTT
1 TTTTTTCTTTT--CTT
* *
22503 TTTTCTTTTTTTCCT
1 TTTT-TTCTTTTCTT
22518 TTTTTTCTTTTCTT
1 TTTTTTCTTTTCTT
22532 TTT
1 TTT
22535 GAGAAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 22 0.56
15 6 0.15
16 5 0.13
17 6 0.15
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTTCTTTTCTT
Found at i:27789 original size:83 final size:82
Alignment explanation
Indices: 27682--28026 Score: 388
Period size: 82 Copynumber: 4.2 Consensus size: 82
27672 TTTAGCGGTA
* * ** ** *
27682 TTTTTATACAAATGTCGTAATAGGGTTTATCTATAGTGGTATTTTTTCAACAAACACCACAACAG
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGG-CGTTTTTCAACAAATGCCGCAACAG
27747 AGTAGTACTTTAGCGAAG
65 AGTAGTACTTTAGCGAAG
* * * *
27765 TTTTTATACAAATGCCGTAATAGGGTTTATCTATAGTAGTGTTTTTTCAACAAATGTCGCAACAG
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCG-TTTTTCAACAAATGCCGCAACAG
* *
27830 AGAAGTACTTTAGCGGTA-
65 AGTAGTACTTTAGC-GAAG
* * * *
27848 TTTTTATACAAACGCCGTAACAGGGTTCATCTATAGCGGCGTTGTTCAACAAATGCCGCAACAGA
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCGTTTTTCAACAAATGCCGCAACAGA
**
27913 GTAGTA-TTGTAGCGGTG
66 GTAGTACTT-TAGCGAAG
* * * * *
27930 TTTTTACACAAATGCCATAATAGGGTTCATCTATAGTGGCGTTTTTCAATAAATGCTGCAAGAGA
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCGTTTTTCAACAAATGCCGCAACAGA
* *
27995 GGAGTACTTTAGCGACG
66 GTAGTACTTTAGCGAAG
* *
28012 TTTGTATAAAAATGC
1 TTTTTATACAAATGC
28027 TACTATAGGA
Statistics
Matches: 221, Mismatches: 36, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
81 3 0.01
82 110 0.50
83 106 0.48
84 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (82 bp):
TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCGTTTTTCAACAAATGCCGCAACAGA
GTAGTACTTTAGCGAAG
Found at i:27885 original size:41 final size:40
Alignment explanation
Indices: 27764--27985 Score: 130
Period size: 41 Copynumber: 5.4 Consensus size: 40
27754 CTTTAGCGAA
* * **
27764 GTTTTTATACAAATGCCGTAATAGGGTTTATCTATAGTAGT
1 GTTTTTA-ACAAATGCCGTAACAGGGTTCATCTATAGCGGT
* * *
27805 GTTTTTTCAACAAATGTCGCAACAGAGAAG-T-A-CTTTAGCGGT
1 G-TTTTT-AACAAATGCCGTAACAG-G--GTTCATCTATAGCGGT
* * *
27847 ATTTTTATACAAACGCCGTAACAGGGTTCATCTATAGCGGC
1 GTTTTTA-ACAAATGCCGTAACAGGGTTCATCTATAGCGGT
* * * *
27888 GTTGTTCAACAAATGCCGCAACAGAGTAGT-AT-TGTAGCGGT
1 GTT-TTTAACAAATGCCGTAACAGGGT--TCATCTATAGCGGT
* * * *
27929 GTTTTTACACAAATGCCATAATAGGGTTCATCTATAGTGGC
1 GTTTTTA-ACAAATGCCGTAACAGGGTTCATCTATAGCGGT
*
27970 GTTTTTCAATAAATGC
1 GTTTTT-AACAAATGC
27986 TGCAAGAGAG
Statistics
Matches: 137, Mismatches: 28, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 8 0.06
41 89 0.65
42 31 0.23
43 4 0.03
44 1 0.01
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (40 bp):
GTTTTTAACAAATGCCGTAACAGGGTTCATCTATAGCGGT
Found at i:27934 original size:82 final size:82
Alignment explanation
Indices: 27670--28008 Score: 412
Period size: 83 Copynumber: 4.1 Consensus size: 82
27660 CAAAATGGTA
* * **
27670 ACTTTAGCGGTATTTTTATACAAATGTCGTAATAGGGTTTATCTATAGTGGTATTTTTTCAACAA
1 ACTTTAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGG-CGTTTTTCAACAA
** *
27735 ACACCACAACAGAGTAGT
65 ATGCCGCAACAGAGTAGT
* * * *
27753 ACTTTAGC-GAAGTTTTTATACAAATGCCGTAATAGGGTTTATCTATAGTAGTGTTTTTTCAACA
1 ACTTTAGCGGTA-TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCG-TTTTTCAACA
* *
27817 AATGTCGCAACAGAGAAGT
64 AATGCCGCAACAGAGTAGT
* * * *
27836 ACTTTAGCGGTATTTTTATACAAACGCCGTAACAGGGTTCATCTATAGCGGCGTTGTTCAACAAA
1 ACTTTAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCGTTTTTCAACAAA
27901 TGCCGCAACAGAGTAGT
66 TGCCGCAACAGAGTAGT
* * * *
27918 A-TTGTAGCGGTGTTTTTACACAAATGCCATAATAGGGTTCATCTATAGTGGCGTTTTTCAATAA
1 ACTT-TAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCGTTTTTCAACAA
* * *
27982 ATGCTGCAAGAGAGGAGT
65 ATGCCGCAACAGAGTAGT
28000 ACTTTAGCG
1 ACTTTAGCG
28009 ACGTTTGTAT
Statistics
Matches: 220, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
81 2 0.01
82 102 0.46
83 114 0.52
84 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (82 bp):
ACTTTAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCGTTTTTCAACAAA
TGCCGCAACAGAGTAGT
Found at i:28838 original size:40 final size:40
Alignment explanation
Indices: 28783--28932 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
28773 CGCTAAAAGT
*
28783 TCGTACTTTAGTGGCATTTTTCTGAAAACACTGCGAAATC
1 TCGTACTCTAGTGGCATTTTTCTGAAAACACTGCGAAATC
* ** *
28823 TCGTACTCTACTGGCATTTTATGCGTTATTGGGGAAATGAC-GCTAAAAGT-
1 TCGTACTCTAGTGGCATTTT-T-C-----T---GAAAACACTGC-GAAA-TC
*
28873 TCGTACTTTAGTGGCATTTTTCTGAAAACACTGCGAAATC
1 TCGTACTCTAGTGGCATTTTTCTGAAAACACTGCGAAATC
*
28913 TCGTACTCTATTGGCATTTT
1 TCGTACTCTAGTGGCATTTT
28933 ATTAAAACGC
Statistics
Matches: 84, Mismatches: 12, Indels: 28
0.68 0.10 0.23
Matches are distributed among these distances:
39 1 0.01
40 45 0.54
41 3 0.04
42 1 0.01
43 1 0.01
47 1 0.01
48 1 0.01
49 3 0.04
50 27 0.32
51 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (40 bp):
TCGTACTCTAGTGGCATTTTTCTGAAAACACTGCGAAATC
Found at i:28908 original size:90 final size:90
Alignment explanation
Indices: 28755--28934 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
28745 ACATATAGCG
28755 GCGTTATTGGGGAAATGACGCTAAAAGTTCGTACTTTAGTGGCATTTTTCTGAAAACACTGCGAA
1 GCGTTATTGGGGAAATGACGCTAAAAGTTCGTACTTTAGTGGCATTTTTCTGAAAACACTGCGAA
28820 ATCTCGTACTCTACTGGCATTTTAT
66 ATCTCGTACTCTACTGGCATTTTAT
28845 GCGTTATTGGGGAAATGACGCTAAAAGTTCGTACTTTAGTGGCATTTTTCTGAAAACACTGCGAA
1 GCGTTATTGGGGAAATGACGCTAAAAGTTCGTACTTTAGTGGCATTTTTCTGAAAACACTGCGAA
*
28910 ATCTCGTACTCTATTGGCATTTTAT
66 ATCTCGTACTCTACTGGCATTTTAT
28935 TAAAACGCCA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (90 bp):
GCGTTATTGGGGAAATGACGCTAAAAGTTCGTACTTTAGTGGCATTTTTCTGAAAACACTGCGAA
ATCTCGTACTCTACTGGCATTTTAT
Found at i:38144 original size:3 final size:3
Alignment explanation
Indices: 38138--38163 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38128 CTTCTTCTTC
38138 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
38164 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:41216 original size:15 final size:15
Alignment explanation
Indices: 41196--41240 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
41186 AAAGATTTTT
*
41196 TATATAATAAATTTC
1 TATATAATAAATCTC
*
41211 TATATAATGAATCTC
1 TATATAATAAATCTC
*
41226 TAAAATAATAAATCT
1 T-ATATAATAAATCT
41241 AAATTAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (15 bp):
TATATAATAAATCTC
Found at i:42065 original size:73 final size:73
Alignment explanation
Indices: 41979--42142 Score: 283
Period size: 73 Copynumber: 2.2 Consensus size: 73
41969 TTTATTACAA
* *
41979 GTAAGATAAATAAACTTTATTTGTTACTGTTTTCAATCTTACAATAAGATTCTTTCTTTTATATT
1 GTAACATAAATAAACTTTATTTGTTACTGTTTCCAATCTTACAATAAGATTCTTTCTTTTATATT
42044 CCTCTTAT
66 CCTCTTAT
* *
42052 GTAATATAAATAAACTTTATTTGTTATTGTTTCCAATCTTACAATAAGATTCTTTCTTTTATATT
1 GTAACATAAATAAACTTTATTTGTTACTGTTTCCAATCTTACAATAAGATTCTTTCTTTTATATT
42117 CCTCTTAT
66 CCTCTTAT
*
42125 GTAACATAAGTAAACTTT
1 GTAACATAAATAAACTTT
42143 CTATTATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 86 1.00
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (73 bp):
GTAACATAAATAAACTTTATTTGTTACTGTTTCCAATCTTACAATAAGATTCTTTCTTTTATATT
CCTCTTAT
Found at i:42143 original size:36 final size:36
Alignment explanation
Indices: 42030--42149 Score: 91
Period size: 36 Copynumber: 3.3 Consensus size: 36
42020 CAATAAGATT
* *
42030 CTTTCTTTTATATTCCTCTTATGTAATATAAATAAA
1 CTTTCTTTTATATTCCTCTTATGTAACATAAGTAAA
* ** ** * * **
42066 CTTTATTTGT-TATTGTTTCCAATCTTACAATAAG-ATT
1 CTTTCTTT-TATATT-CCTCTTATGTAAC-ATAAGTAAA
42103 CTTTCTTTTATATTCCTCTTATGTAACATAAGTAAA
1 CTTTCTTTTATATTCCTCTTATGTAACATAAGTAAA
*
42139 CTTTCTATTAT
1 CTTTCTTTTAT
42150 TTTTATCATA
Statistics
Matches: 58, Mismatches: 21, Indels: 10
0.65 0.24 0.11
Matches are distributed among these distances:
35 5 0.09
36 30 0.52
37 19 0.33
38 4 0.07
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (36 bp):
CTTTCTTTTATATTCCTCTTATGTAACATAAGTAAA
Found at i:43042 original size:36 final size:35
Alignment explanation
Indices: 42993--43060 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
42983 AATTTTCCCC
* * *
42993 CAAACATAGCTATTAATAGGGATATTATATTTTTTT
1 CAAACATAACTATTAAGAGGAATATTAT-TTTTTTT
*
43029 CAAATATAACTATTAAGAGGAATATTATTTTT
1 CAAACATAACTATTAAGAGGAATATTATTTTT
43061 CTAGCACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 24 0.86
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (35 bp):
CAAACATAACTATTAAGAGGAATATTATTTTTTTT
Found at i:44095 original size:31 final size:31
Alignment explanation
Indices: 44057--44126 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
44047 TTAATGTCTG
44057 GGCACCTAAAATGGTAAC-GAAAAAAACGTTA
1 GGCACCTAAAATGGTAACAG-AAAAAACGTTA
*
44088 GGCACCTAAAATGGTAACAGAGAAAACGTTA
1 GGCACCTAAAATGGTAACAGAAAAAACGTTA
*
44119 GACACCTA
1 GGCACCTA
44127 TTTTTAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.16
Consensus pattern (31 bp):
GGCACCTAAAATGGTAACAGAAAAAACGTTA
Found at i:48085 original size:12 final size:13
Alignment explanation
Indices: 48064--48182 Score: 103
Period size: 12 Copynumber: 9.8 Consensus size: 13
48054 ATCAAAATAT
48064 AATCCAGGTCAAG
1 AATCCAGGTCAAG
*
48077 TAT-CAGGTCAA-
1 AATCCAGGTCAAG
48088 AATCCAGGTCAA-
1 AATCCAGGTCAAG
48100 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
48113 TATTC-GATC-AG
1 AATCCAGGTCAAG
48124 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
48137 TATCC-GATC-AG
1 AATCCAGGTCAAG
48148 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
48161 TATCC-GATC-AG
1 AATCCAGGTCAAG
48172 AATCCAGGTCA
1 AATCCAGGTCA
48183 GGTATTATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
11 19 0.23
12 46 0.56
13 17 0.21
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:48107 original size:24 final size:24
Alignment explanation
Indices: 48100--48187 Score: 158
Period size: 24 Copynumber: 3.7 Consensus size: 24
48090 TCCAGGTCAA
*
48100 AATCCAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
48124 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
48148 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
48172 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
48188 TATAATAGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:52047 original size:2 final size:2
Alignment explanation
Indices: 52040--52072 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52030 TCTTTTTAAA
52040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52073 CCCCCATCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52303 original size:12 final size:12
Alignment explanation
Indices: 52286--52370 Score: 52
Period size: 12 Copynumber: 7.1 Consensus size: 12
52276 AAACATAATC
52286 CAGGTCAAGTAT
1 CAGGTCAAGTAT
*
52298 CAGGTCAA-AAT
1 CAGGTCAAGTAT
52309 CCAGGTCAAGTATT
1 -CAGGTCAAGTA-T
* *
52323 C-GATC-AGAAT
1 CAGGTCAAGTAT
52333 CCAGGTCAAGTAT
1 -CAGGTCAAGTAT
* * *
52346 CCGATC-AGAATT
1 CAGGTCAAGTA-T
52358 CAGGTCAAGTAT
1 CAGGTCAAGTAT
52370 C
1 C
52371 CGATCAGCAT
Statistics
Matches: 53, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
10 1 0.02
11 9 0.17
12 33 0.62
13 9 0.17
14 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (12 bp):
CAGGTCAAGTAT
Found at i:52309 original size:24 final size:24
Alignment explanation
Indices: 52282--52393 Score: 161
Period size: 24 Copynumber: 4.7 Consensus size: 24
52272 ATCAAAACAT
* * *
52282 AATCCAGGTCAAGTATCAGGTCAA
1 AATCCAGGTCAAGTATCCGATCAG
*
52306 AATCCAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
52330 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
52354 AATTCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
* *
52378 CATCCAGGTCATGTAT
1 AATCCAGGTCAAGTAT
52394 TATAATAGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 79 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:53554 original size:18 final size:18
Alignment explanation
Indices: 53531--53566 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53521 CTTCCATCCG
*
53531 ATCTTATTATTTAATTTA
1 ATCTTATCATTTAATTTA
*
53549 ATCTTATCATTTACTTTA
1 ATCTTATCATTTAATTTA
53567 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (18 bp):
ATCTTATCATTTAATTTA
Found at i:57948 original size:30 final size:30
Alignment explanation
Indices: 57910--57976 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
57900 GCGTCCGTTA
*
57910 ATAA-ATTGGCATAATTATATATTTGGTCC
1 ATAATATTGGCATAATTATACATTTGGTCC
57939 ATAATATTGGCATAATTATACATTTGGTCC
1 ATAATATTGGCATAATTATACATTTGGTCC
*
57969 TTAATATT
1 ATAATATT
57977 TACATATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 4 0.11
30 31 0.89
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (30 bp):
ATAATATTGGCATAATTATACATTTGGTCC
Found at i:58547 original size:94 final size:93
Alignment explanation
Indices: 58352--58659 Score: 365
Period size: 94 Copynumber: 3.4 Consensus size: 93
58342 TTTTTCTTTA
* ** *
58352 ACCGTTAATCGAACTGAAATTTATTTGGAAATTATTAACCGAAACAAATTAATTGATTTTTTTCT
1 ACCGTTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCGATATTTTTCT
*
58417 TTAACATTAATCGAACCGAAATTATTTG
66 TTAACATTAATCCAACCGAAATTATTTG
* *
58445 ACCGTTAATCAAACTGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATATTTTTC
1 ACCGTTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCG-ATATTTTTC
58510 TTTAACATTAATCCAACCGAAATTATTTG
65 TTTAACATTAATCCAACCGAAATTATTTG
* * *
58539 ATCGTTAATCGAACCGAAATTTATTTGAAAATTTTTAA-C----CAAA-T------TA-TTTTCT
1 ACCGTTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCGATATTTTTCT
**
58591 TTAACCATTAATTGAACC-AACATTATTTG
66 TTAA-CATTAATCCAACCGAA-ATTATTTG
**
58620 ACCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACC
1 ACCGTTAATCGAACTGAAATTTATTTGAAAATTATTAACC
58660 TAATTAACCG
Statistics
Matches: 195, Mismatches: 16, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
80 12 0.06
81 56 0.29
82 1 0.01
88 1 0.01
89 4 0.02
93 51 0.26
94 70 0.36
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (93 bp):
ACCGTTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCGATATTTTTCT
TTAACATTAATCCAACCGAAATTATTTG
Found at i:58627 original size:81 final size:80
Alignment explanation
Indices: 58492--58665 Score: 244
Period size: 81 Copynumber: 2.2 Consensus size: 80
58482 ACCGAACCAA
* * *
58492 ATTAACCGAA-TATTTTTCTTTAACATTAATCCAACCGAAATTATTTGATCGTTAATCGAACCGA
1 ATTAACCAAATTA-TTTTCTTTAACATTAATCCAACCGAAATTATTTGACCGTTAATCGAACCCA
58556 AATTTATTTGAAAATT
65 AATTTATTTGAAAATT
* **
58572 TTTAACCAAATTATTTTCTTTAACCATTAATTGAACC-AACATTATTTGACCGTTAATCGAACCC
1 ATTAACCAAATTATTTTCTTTAA-CATTAATCCAACCGAA-ATTATTTGACCGTTAATCGAACCC
58636 AAATTTATTTGAAAATT
64 AAATTTATTTGAAAATT
*
58653 ATTAACCTAATTA
1 ATTAACCAAATTA
58666 ACCGAATAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
80 20 0.24
81 63 0.76
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (80 bp):
ATTAACCAAATTATTTTCTTTAACATTAATCCAACCGAAATTATTTGACCGTTAATCGAACCCAA
ATTTATTTGAAAATT
Found at i:58885 original size:157 final size:156
Alignment explanation
Indices: 58646--58969 Score: 461
Period size: 159 Copynumber: 2.1 Consensus size: 156
58636 AAATTTATTT
* * * *
58646 GAAAATTATTAACCTAATTAACCGAATAAAATAATTTTTTTTCTTTAACCGTTAATCGAATAGAA
1 GAAATTTATTAACCGAATTAACCGAATAAAATAATTTTTTTTCCTTAACCGTTAATCGAACAGAA
* * *
58711 ATTTATTTAAAAATTATTAACCGAACCAAATCAAC-CATTTTTTTCTTTAACTATTAATCGAACC
66 ATTTATTTAAAAATTATTAACCAAACCAAATCAACAAATTTTTTTCTTTAACCATTAATCGAACC
58775 GAAATTATTTGACCGTTAATCGAACC
131 GAAATTATTTGACCGTTAATCGAACC
* *
58801 GAAATTTATTAATCGAATTAACCGAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAACCG
1 GAAATTTATTAACCGAATTAACCGAATAAAAT-AATT-TTTTTTCCTTAACCGTTAATCGAACAG
* * *** *
58866 AAATTTATTTGAAAATTATTAATCAAATTGAATTAACAGAATTTTTTTCTTTAACCATTAATCGA
64 AAATTTATTTAAAAATTATTAACCAAACCAAATCAACA-AATTTTTTTCTTTAACCATTAATCGA
*
58931 ACCGAAATTATTTGACCGTTAATTGAACC
128 ACCGAAATTATTTGACCGTTAATCGAACC
*
58960 AAAATTTATT
1 GAAATTTATT
58970 TGAAATTATT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
155 29 0.20
156 4 0.03
157 54 0.36
159 61 0.41
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (156 bp):
GAAATTTATTAACCGAATTAACCGAATAAAATAATTTTTTTTCCTTAACCGTTAATCGAACAGAA
ATTTATTTAAAAATTATTAACCAAACCAAATCAACAAATTTTTTTCTTTAACCATTAATCGAACC
GAAATTATTTGACCGTTAATCGAACC
Found at i:58981 original size:80 final size:81
Alignment explanation
Indices: 58897--59063 Score: 291
Period size: 80 Copynumber: 2.1 Consensus size: 81
58887 ATCAAATTGA
*
58897 ATTAACAGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATTGAACCAA
1 ATTAACAGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAA
58962 AATTTATTTG-AAATT
66 AATTTATTTGAAAATT
* * *
58977 ATTAACTGATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACTGTTAATCGAACCAA
1 ATTAACAGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAA
59042 AATTTATTTGAAAATT
66 AATTTATTTGAAAATT
59058 ATTAAC
1 ATTAAC
59064 CGATTAACGG
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 71 0.87
81 11 0.13
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (81 bp):
ATTAACAGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAA
AATTTATTTGAAAATT
Found at i:61034 original size:3 final size:3
Alignment explanation
Indices: 61022--61083 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
61012 GATTTTTTTT
* * *
61022 TTA TTT TTA TTA TTA -TA TTTA TTTA TTA CTA CTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TT-A
*
61069 ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
61084 CATTGCAGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.80
4 8 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:61046 original size:16 final size:15
Alignment explanation
Indices: 61023--61083 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
61013 ATTTTTTTTT
61023 TATTT-TTATTATTA
1 TATTTATTATTATTA
*
61037 TATTTATTTATTACTA
1 TATTTA-TTATTATTA
61053 CTA-TTATTATTATTA
1 -TATTTATTATTATTA
*
61068 AATATTATTATTATTA
1 TAT-TTATTATTATTA
61084 CATTGCAGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.15
15 8 0.21
16 23 0.59
17 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTATTATTATTA
Found at i:65020 original size:27 final size:26
Alignment explanation
Indices: 64989--65048 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
64979 CATTCACATA
*
64989 TTTACATTTGCATTTAAATTTTCTTTT
1 TTTACATTTGCATTTAAATTTTC-ATT
* * *
65016 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGCATTTAAATTTTCATT
65042 TTTACAT
1 TTTACAT
65049 AATTACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTACATTTGCATTTAAATTTTCATT
Found at i:71790 original size:22 final size:22
Alignment explanation
Indices: 71760--71816 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
71750 ATCTACACTG
71760 TTTTCAAAGATGATAAATTCTC
1 TTTTCAAAGATGATAAATTCTC
* *
71782 TTTTTAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAAATTCTC
71804 TTTTCAAAGATGA
1 TTTTCAAAGATGA
71817 AAGCTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (22 bp):
TTTTCAAAGATGATAAATTCTC
Found at i:72581 original size:2 final size:2
Alignment explanation
Indices: 72574--72649 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
72564 ACTAAAGTTA
72574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
72616 AT AT AT AT AT AT AT 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
72650 CATGCACGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:74563 original size:106 final size:106
Alignment explanation
Indices: 74375--75109 Score: 1106
Period size: 106 Copynumber: 7.0 Consensus size: 106
74365 TGTTTTGAGG
* * * * *
74375 CCAATATCCTCCGGTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAGCCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* * * *
74440 CGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
* * *
74481 CCAATATCCTTCGCTGTGAAGTTGAAATTGGATCCGAAATTGGGAAATTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
74546 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
* * *
74587 CCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGAA---G-TTG-T--CAGCCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* * * *
74645 CGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
* * * * * *
74686 CCAATATCCTTAGCCGTGAAGTTGAAATTGGATCCGAAATTGGGAAATTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
74751 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
* * *
74792 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
74857 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
* *
74898 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTCGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
74963 CGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
75004 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* *
75069 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
75110 GGCACGATAT
Statistics
Matches: 571, Mismatches: 51, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
99 84 0.15
101 1 0.00
102 4 0.01
103 3 0.01
104 1 0.00
106 478 0.84
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (106 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGT
Found at i:75427 original size:37 final size:36
Alignment explanation
Indices: 75346--75711 Score: 196
Period size: 37 Copynumber: 10.4 Consensus size: 36
75336 GCAAATTGTG
*
75346 TTGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGA-CAAACT
* *
75383 TAG-TTCAAAAAGAAACTGTCTCAAGGGAGACAAACT
1 TTGTTTC-AAGAGAAACTGTCTCAAGGGAGACAAACT
* * * *
75419 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
** * * * *
75455 TCATTTCAAGGGAAA-TGTTTTCAA---TG-----TT
1 TTGTTTCAAGAGAAACTG-TCTCAAGGGAGACAAACT
* *
75483 TATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACT
* * * *
75521 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
** * * *
75557 TCATTTCAAGGGAAA-TGTTTTC----GATG-----TT
1 TTGTTTCAAGAGAAACTG-TCTCAAGGGA-GACAAACT
*
75585 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACT
* *
75623 TTGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACT
* * * *
75660 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
* * *
75696 GTGTTTTAAGAAAAAC
1 TTGTTTCAAGAGAAAC
75712 AATCTTGAGT
Statistics
Matches: 251, Mismatches: 50, Indels: 57
0.70 0.14 0.16
Matches are distributed among these distances:
28 4 0.02
29 29 0.12
30 4 0.02
32 4 0.02
33 4 0.02
35 2 0.01
36 86 0.34
37 112 0.45
38 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
Found at i:75568 original size:102 final size:102
Alignment explanation
Indices: 75393--75657 Score: 469
Period size: 102 Copynumber: 2.6 Consensus size: 102
75383 TAGTTCAAAA
*
75393 AGAAACTGTCTCAAGGGAGAC-AAACTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
75457 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTTAAG
66 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
75494 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
75559 ATTTCAAGGGAAATGTTTTCGATGTTTATGTTTCAAG
66 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
** *
75596 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
75658 CTTAGTTCCA
Statistics
Matches: 157, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
101 21 0.13
102 136 0.87
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (102 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
Found at i:76903 original size:15 final size:17
Alignment explanation
Indices: 76885--76929 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
76875 TCTTTTTGAT
76885 TTTTGCTCTT-TTTC-C
1 TTTTGCTCTTGTTTCTC
*
76900 TTTTGTTCTTGTTTCTC
1 TTTTGCTCTTGTTTCTC
*
76917 TTTTTCT-TTGTTT
1 TTTTGCTCTTGTTT
76930 TTTTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 9 0.36
16 10 0.40
17 6 0.24
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTTGCTCTTGTTTCTC
Found at i:76944 original size:8 final size:7
Alignment explanation
Indices: 76871--76962 Score: 55
Period size: 7 Copynumber: 12.7 Consensus size: 7
76861 TTTTTGTCCA
76871 TTTTTCT
1 TTTTTCT
**
76878 TTTTGAT
1 TTTTTCT
76885 TTTTGCTCT
1 TTTT--TCT
*
76894 TTTTCCT
1 TTTTTCT
76901 TTTGTTCT
1 TTT-TTCT
*
76909 TGTTTCT
1 TTTTTCT
76916 CTTTTTC-
1 -TTTTTCT
*
76923 TTTGT-T
1 TTTTTCT
76929 TTTTT-T
1 TTTTTCT
*
76935 TTTTACT
1 TTTTTCT
76942 TTTTTGCT
1 TTTTT-CT
76950 TCTTTTCT
1 T-TTTTCT
76958 TTTTT
1 TTTTT
76963 GTTCTTGATT
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
6 13 0.20
7 27 0.42
8 16 0.25
9 9 0.14
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:76967 original size:15 final size:16
Alignment explanation
Indices: 76927--76968 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
76917 TTTTTCTTTG
76927 TTTTTT-TT-TTTTAC
1 TTTTTTGTTCTTTTAC
76941 TTTTTTGCTTCTTTT-C
1 TTTTTTG-TTCTTTTAC
76957 TTTTTTGTTCTT
1 TTTTTTGTTCTT
76969 GATTAGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.24
15 5 0.20
16 10 0.40
17 4 0.16
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTTTTGTTCTTTTAC
Found at i:80067 original size:15 final size:15
Alignment explanation
Indices: 80034--80070 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
80024 ATGTTAAGAG
80034 TGAA-AAAAATAAAA
1 TGAATAAAAATAAAA
*
80048 -AAATAAAAATAAAA
1 TGAATAAAAATAAAA
80062 TGAATAAAA
1 TGAATAAAA
80071 TCATTTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 2 0.11
14 10 0.53
15 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (15 bp):
TGAATAAAAATAAAA
Found at i:82078 original size:168 final size:167
Alignment explanation
Indices: 81761--82093 Score: 542
Period size: 168 Copynumber: 2.0 Consensus size: 167
81751 CCACAAAAAT
*
81761 TAGCATTATCTTGAGATTGGAGCATGTTTCCCAATCAACATGTTATTTCAAAAAAAAAATGAGAA
1 TAGCATTATCTTGAGATTGGAGCATGTTACCCAATCAACATGTTATTTCAAAAAAAAAATGAGAA
**
81826 AACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGA
66 AACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGA
81891 TTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCAA
131 TTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCAA
* * *** *
81928 TAGCTTTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTTTGAAAAATAATGAGA
1 TAGCATTATCTTGAGATTGGAGCATGTTACCCAATCAACATGTTA-TTTCAAAAAAAAAATGAGA
* *
81993 AAATGATTTTCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAAC
65 AAACGATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAAC
82058 GATTTCCTTAG-TTTTTTTACTTAGTAAACTATTTCC
129 GATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCC
82094 CACATCTGTA
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
167 42 0.27
168 71 0.46
169 40 0.26
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (167 bp):
TAGCATTATCTTGAGATTGGAGCATGTTACCCAATCAACATGTTATTTCAAAAAAAAAATGAGAA
AACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGA
TTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCAA
Found at i:82200 original size:76 final size:76
Alignment explanation
Indices: 82096--82327 Score: 349
Period size: 76 Copynumber: 3.1 Consensus size: 76
82086 CTATTTCCCA
* * *
82096 CATCTGTAAGTCCTGCAGTGCATTATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
82161 AGCCTCAGGGT
66 AGCCTCAGGGT
* * *
82172 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATATTTCCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
82237 AGCCTTAGGGT
66 AGCCTCAGGGT
* * *
82248 CATCTGTAAGTCATACAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
82313 AGTCTTC-GGGT
66 AG-CCTCAGGGT
82324 CATC
1 CATC
82328 CATAAGACCT
Statistics
Matches: 140, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
76 138 0.99
77 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTCAGGGT
Found at i:83003 original size:123 final size:122
Alignment explanation
Indices: 82477--83052 Score: 425
Period size: 123 Copynumber: 4.7 Consensus size: 122
82467 ATGGATTAAT
* *
82477 ATTTCCAGAAGAGTTCATAATGAGAAGAACCCATCTGAAGAAGGAATAAGAAGTTCATAATGAGA
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
* * * * * *
82542 AGAACTTGTTCAACCTTTTGCTTGACTCCATTTC-CAAAAAGAGATAGAGCAGCA-GAGC
65 AGAACTTGTTCAACCTTTTGCTTGACT-C-TATCACAAAAGGAGATAGATCAACATCAAC
** *
82600 TATTTCCAGGTGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAG
1 -ATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* ** * * * * **
82665 AAGAACTTGTTCAACC--TTGCCTTGATTC-AT-ATCTTATGGA-ATTGAATGAAAGAAGAACCC
64 AAGAACTTGTTCAACCTTTTG-CTTGACTCTATCA-CAAAAGGAGATAG-AT-CAACATCAA--C
* ** * ** * * * * *
82725 CTCTT-TTGAAGA-TCAACATTTTCAGAAGGAGT--TC--ATA-ATG-AGAAGAA-CTCATCTGA
1 AT-TTCCAGAAGAGT--TCATAATGAGAAGAACTCATCTGA-AGAGGAAGAAGAAGTTCA--T-A
* * * * * * *
82781 AAGAGAGGAATTTGTTCAACCTTTTGTTTGACTCTATCGCAGAAGGAGATAGATCAGCATC-A-
59 ATGAGAAGAACTTGTTCAACCTTTTGCTTGACTCTATCACAAAAGGAGATAGATCAACATCAAC
*
82843 ATTTCCAGAAGGAGTTCATAATGAGAAGAACACATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
1 ATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
* *
82908 AGAACTTGTTCAACCTTTTGCATGACGCTATCACAAAAGGAGATAGATCAACATCAAC
65 AGAACTTGTTCAACCTTTTGCTTGACTCTATCACAAAAGGAGATAGATCAACATCAAC
*
82966 ATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAT
1 ATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAG
* * *
83030 AAGAATTTCTTCAACTTTTTGCT
64 AAGAACTTGTTCAACCTTTTGCT
83053 AAATCACATT
Statistics
Matches: 345, Mismatches: 72, Indels: 71
0.71 0.15 0.15
Matches are distributed among these distances:
117 2 0.01
118 17 0.05
119 9 0.03
120 11 0.03
121 80 0.23
122 22 0.06
123 105 0.30
124 66 0.19
125 33 0.10
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (122 bp):
ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACCTTTTGCTTGACTCTATCACAAAAGGAGATAGATCAACATCAAC
Found at i:93994 original size:2 final size:2
Alignment explanation
Indices: 93987--94015 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93977 GTGTTGTACG
93987 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 T
94016 GAAATTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97241 original size:3 final size:3
Alignment explanation
Indices: 97233--97344 Score: 196
Period size: 3 Copynumber: 38.7 Consensus size: 3
97223 AGTGGAAAGA
97233 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97281 AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97326 AAT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
97345 AGCGTGGCCA
Statistics
Matches: 105, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
2 8 0.08
3 97 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:98398 original size:21 final size:21
Alignment explanation
Indices: 98374--98430 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
98364 AAATCGATGA
*
98374 GCTCGAAATATAACCCT-AAAG
1 GCTCGAAATATAA-ACTGAAAG
*
98395 GCTCGACATATAAACTGAAAG
1 GCTCGAAATATAAACTGAAAG
* *
98416 GCTCGACATGTAAAC
1 GCTCGAAATATAAAC
98431 CAACGAGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (21 bp):
GCTCGAAATATAAACTGAAAG
Found at i:100348 original size:8 final size:8
Alignment explanation
Indices: 100335--100365 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
100325 CAAATATCAA
100335 ATTCAAAC
1 ATTCAAAC
100343 ATTCAAAC
1 ATTCAAAC
100351 ATTCAAAC
1 ATTCAAAC
*
100359 ATCCAAA
1 ATTCAAA
100366 ATATATCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (8 bp):
ATTCAAAC
Found at i:102803 original size:18 final size:18
Alignment explanation
Indices: 102757--102792 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
102747 TATATTCTAG
*
102757 AACTATATCTCCTTTAGT
1 AACTGTATCTCCTTTAGT
102775 AACTGTATCTCCTTTAGT
1 AACTGTATCTCCTTTAGT
102793 GACATGATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.44
Consensus pattern (18 bp):
AACTGTATCTCCTTTAGT
Found at i:106432 original size:117 final size:118
Alignment explanation
Indices: 106224--106439 Score: 308
Period size: 117 Copynumber: 1.8 Consensus size: 118
106214 AACTTTCAAA
* * *
106224 TCGAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAATAT
1 TCGAAAATTTCTTTTTCAAAACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAATAT
106289 TTCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAGAAGAAGTTTGTTTAAT
66 TTCATTTTGATTTTCAAAATCCATTTTAGCTTTCTAGAAGAAGTTTGTTTAAT
* * * * *
106341 TCGAAAATTTCTTTTTCAAAATTTTCAGATTTTATTTTTGAAAGCTCTAACTCATTTTTCAATAT
1 TCGAAAATTTCTTTTTCAAAACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAATAT
* * * * *
106406 TTCTTTTTGTTTTTCCAAGTCTATTTTAGCTTTC
66 TTCATTTTGATTTTCAAAATCCATTTTAGCTTTC
106440 AAAAGAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
117 81 0.95
118 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (118 bp):
TCGAAAATTTCTTTTTCAAAACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAATAT
TTCATTTTGATTTTCAAAATCCATTTTAGCTTTCTAGAAGAAGTTTGTTTAAT
Found at i:114291 original size:2 final size:2
Alignment explanation
Indices: 114284--114361 Score: 50
Period size: 2 Copynumber: 44.0 Consensus size: 2
114274 TCGCCCCGAT
*
114284 TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA T- TA -A T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
114321 TA TA TA TA -A TA TT TT TA TA TA T- TT TA TA T- TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
114358 TA TA
1 TA TA
114362 AAATATTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
1 10 0.16
2 52 0.84
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:114328 original size:35 final size:35
Alignment explanation
Indices: 114282--114367 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 35
114272 TCTCGCCCCG
114282 ATTATATATAT-ATATATATATAATATTTTATATTA
1 ATTATATATATAATATATATAT-ATATTTTATATTA
* *
114317 ATTATATATATAATATTTTTATATATTTTATATTA
1 ATTATATATATAATATATATATATATTTTATATTA
*
114352 ATTATATATAAAATAT
1 ATTATATATATAATAT
114368 TTTCGGGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 39 0.83
36 8 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTATATATATAATATATATATATATTTTATATTA
Found at i:119069 original size:83 final size:84
Alignment explanation
Indices: 118951--119120 Score: 227
Period size: 83 Copynumber: 2.0 Consensus size: 84
118941 TTTTATTGAT
* * * * *
118951 AGATAGCCCTTCTTGCCTTGGGCTATGCTGTAAATGATGTGCC-TAAGAGCTAAGCGTAGTCGAA
1 AGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCAT-AGAGCTAAGCGTAGTCGAA
*
119015 CTCGAAGGTC-TTTGTTGGC
65 CTCAAAGGTCTTTTGTTGGC
* * * *
119034 AGATAACCCTTCTCGACTTGAGTTATGCTGCAAATGATGTGCCATTGAGCTGAGCGTAGTCGAAT
1 AGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCATAGAGCTAAGCGTAGTCGAAC
119099 TCAAAGGTCTTTTGTTGGC
66 TCAAAGGTCTTTTGTTGGC
119118 AGA
1 AGA
119121 CACTCATTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
83 62 0.83
84 13 0.17
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (84 bp):
AGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCATAGAGCTAAGCGTAGTCGAAC
TCAAAGGTCTTTTGTTGGC
Found at i:119650 original size:105 final size:105
Alignment explanation
Indices: 119311--119972 Score: 1101
Period size: 105 Copynumber: 6.3 Consensus size: 105
119301 TATTGTTCCA
* * ** * * *
119311 AGTCCACTATCCTCCGCCGTGAAGTTGAAATTGGCTATGGAACTG-GAAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAA-TGTTTGTTGACAA
119375 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
119417 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAAC
119482 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
119523 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
*
119588 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
119628 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
119693 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
119733 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAAC
119798 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
119839 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
119904 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
119944 AGTCCAATATCCTTCGTCGTGAAGTTGAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAA
119973 CTTGCGTTGT
Statistics
Matches: 529, Mismatches: 24, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
105 284 0.54
106 244 0.46
107 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:119790 original size:211 final size:210
Alignment explanation
Indices: 119311--119972 Score: 1117
Period size: 211 Copynumber: 3.1 Consensus size: 210
119301 TATTGTTCCA
* * * * * * *
119311 AGTCCACTATCCTCCGCCGTGAAGTTGAAATTGGCTATGGAACTGGAAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGG-GAATTGTTTGTTGACAAC
119376 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
119441 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGGGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
119506 GAACTTGCGTTGTCTGG
194 GAACTTGCGTTGTCTGG
* * * * *
119523 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
* *
119588 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCATTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* * *
119653 TGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
119718 ACTTGCGTTGTCTGG
196 ACTTGCGTTGTCTGG
* *
119733 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAAC
119798 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
119863 TTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
130 TTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
119928 AACTTGCGTTGTCTGG
195 AACTTGCGTTGTCTGG
119944 AGTCCAATATCCTTCGTCGTGAAGTTGAA
1 AGTCCAATATCCTTCGTCGTGAAGTTGAA
119973 CTTGCGTTGT
Statistics
Matches: 420, Mismatches: 29, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
210 100 0.24
211 284 0.68
212 36 0.09
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (210 bp):
AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTGG
Found at i:119935 original size:316 final size:317
Alignment explanation
Indices: 119328--119972 Score: 1168
Period size: 316 Copynumber: 2.0 Consensus size: 317
119318 TATCCTCCGC
* * *
119328 CGTGAAGTTGAAATTGGCTATGGAACTGGAAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
1 CGTGAAGTTGAAATTGACTATGGAAATCGAAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
119393 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
66 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
119458 ATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
131 ATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
119523 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACC
196 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACC
119588 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCAT
261 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCAT
* *
119645 TGTGAAGTTGAAATTGACTCT-GAAATCGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTC
1 CGTGAAGTTGAAATTGACTATGGAAATCGA-AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
119708 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGA
65 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
119773 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
130 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
119838 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAAC
195 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAAC
* *
119903 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
260 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCAT
119961 CGTGAAGTTGAA
1 CGTGAAGTTGAA
119973 CTTGCGTTGT
Statistics
Matches: 315, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
316 294 0.93
317 21 0.07
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (317 bp):
CGTGAAGTTGAAATTGACTATGGAAATCGAAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
ATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCAT
Found at i:119972 original size:43 final size:43
Alignment explanation
Indices: 119911--120015 Score: 192
Period size: 43 Copynumber: 2.4 Consensus size: 43
119901 ACCAGCGGTC
*
119911 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
119954 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
*
119997 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
120016 ATTGACTCTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
Found at i:119992 original size:148 final size:148
Alignment explanation
Indices: 119806--120120 Score: 551
Period size: 148 Copynumber: 2.1 Consensus size: 148
119796 ACCAGCGGTC
*
119806 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * * * *
119871 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
*
119936 TTGTCTGGAGTCCAATAT
131 TTGTCTGGAGCCCAATAT
119954 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
120019 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
66 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
120084 TTGTCTGGAGCCCAATAT
131 TTGTCTGGAGCCCAATAT
120102 CCTTCG-CTGTGAAGTTGAA
1 CCTTCGTC-GTGAAGTTGAA
120121 ATTGGTTCTG
Statistics
Matches: 159, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
147 1 0.01
148 158 0.99
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (148 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
TTGTCTGGAGCCCAATAT
Found at i:120045 original size:359 final size:359
Alignment explanation
Indices: 119595--120331 Score: 1420
Period size: 359 Copynumber: 2.1 Consensus size: 359
119585 ACCAGCGGTC
119595 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCATTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCATTGTGAAGTTGAAATT
* *
119660 GACTCTGAAATCGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
* *
119725 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTG
131 TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTG
119790 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
196 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
119855 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
261 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
119920 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
326 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
119954 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCATTGTGAAGTTGAAATT
120019 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
66 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
120084 TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTG
131 TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTG
120149 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
196 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
120214 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
261 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
120279 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
326 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
120313 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
120332 ATTGGCTCTG
Statistics
Matches: 372, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
359 372 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (359 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCATTGTGAAGTTGAAATT
GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:120149 original size:254 final size:254
Alignment explanation
Indices: 119700--120226 Score: 921
Period size: 254 Copynumber: 2.1 Consensus size: 254
119690 ACCAGCGGTC
*
119700 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
** * * * *
119765 GGTTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GACTCTGAAATCGAGAAGATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
119830 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTG
131 ATTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTG
119895 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
196 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
119954 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
120019 GACTCTGAAATCGAGAA-ATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GACTCTGAAATCGAGAAGATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
120083 ATTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTT
131 ATTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTT
120148 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
195 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
120208 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
120227 ATTGGCTCTG
Statistics
Matches: 259, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
253 99 0.38
254 160 0.62
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (254 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GACTCTGAAATCGAGAAGATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
ATTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:120187 original size:106 final size:105
Alignment explanation
Indices: 119954--120471 Score: 856
Period size: 106 Copynumber: 4.9 Consensus size: 105
119944 AGTCCAATAT
*
119954 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * * * *
120019 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTC
* * *
120059 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
120124 GGTTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTC
120165 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
120230 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTC
120270 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
120335 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTC
* * *
120376 CCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
120441 GGCTCCGAAATTGGAAAATTGTTTGTTGACA
66 GGCTCTGAAATTGG-GAATTGTTTGTTGACA
120472 GACAACTTTT
Statistics
Matches: 387, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
105 177 0.46
106 208 0.54
107 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTC
Found at i:120453 original size:211 final size:211
Alignment explanation
Indices: 119954--120471 Score: 892
Period size: 211 Copynumber: 2.5 Consensus size: 211
119944 AGTCCAATAT
*
119954 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * * *
120019 GACTCTGAAATCGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
66 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
* *
120084 TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTG
131 TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
120149 TTGACAACCAGCGGTC
196 TTGACAACCAGCGGTC
120165 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
120230 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
* *
120295 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
131 TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
120360 TTGACAACCAGCGGTC
196 TTGACAACCAGCGGTC
* * *
120376 CCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
120441 GGCTCCGAAATTGGAAAATTGTTTGTTGACA
66 GGCTCTGAAATTGGGAAA-TGTTTGTTGACA
120472 GACAACTTTT
Statistics
Matches: 291, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
211 279 0.96
212 12 0.04
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (211 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA
TTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
TTGACAACCAGCGGTC
Found at i:128407 original size:22 final size:22
Alignment explanation
Indices: 128381--128427 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
128371 TATATTTATT
*
128381 TAATTTT-TAAAAGAGGTATTAA
1 TAATTTTGT-AAAGAGATATTAA
128403 TAATTTTGTAAAGAGATATTAA
1 TAATTTTGTAAAGAGATATTAA
128425 TAA
1 TAA
128428 AAACTAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (22 bp):
TAATTTTGTAAAGAGATATTAA
Found at i:130286 original size:29 final size:30
Alignment explanation
Indices: 130231--130299 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
130221 TCATTTGCAC
* * *
130231 AAAAAATTATTTGATTTTTTGATATTTTAT
1 AAAATATTATTTGAATTTTTGATATTTAAT
130261 AAAATATTATTTAGAATTTTT-A-ATTTAAT
1 AAAATATTATTT-GAATTTTTGATATTTAAT
130290 AATAAT-TTAT
1 AA-AATATTAT
130300 ATCGTAACGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 12 0.35
30 15 0.44
31 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
AAAATATTATTTGAATTTTTGATATTTAAT
Found at i:130479 original size:23 final size:23
Alignment explanation
Indices: 130453--130515 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
130443 ATATAACCAC
130453 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
130476 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
130499 TACCTATTACATCATAT
1 TACCTATTACATTATAT
130516 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:130893 original size:430 final size:430
Alignment explanation
Indices: 130093--131146 Score: 2049
Period size: 430 Copynumber: 2.5 Consensus size: 430
130083 TATTACATTA
*
130093 TATTATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
130158 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
130223 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
130288 ATAATAATTTATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
130353 TTAAAACTTACTCAAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTTACTCAAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
130418 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
130483 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAACGCTACCTATTACATCATATTTTTACC
130523 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
130588 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
130653 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
130718 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
130783 TTAAAACTTACTCAAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTTACTCAAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
130848 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
130913 TACATTATATAAACGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAACGCTACCTATTACATCATATTTTTACC
130953 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
131017 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
131081 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131146 A
196 A
131147 CAACATTAAC
Statistics
Matches: 619, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
428 119 0.19
429 52 0.08
430 448 0.72
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTTACTCAAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAACGCTACCTATTACATCATATTTTTACC
Found at i:130909 original size:23 final size:23
Alignment explanation
Indices: 130883--130945 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
130873 ATATAACCAC
130883 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
130906 TACCTATTACATTATATAAACGC
1 TACCTATTACATTATATAAACGA
*
130929 TACCTATTACATCATAT
1 TACCTATTACATTATAT
130946 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:131420 original size:39 final size:39
Alignment explanation
Indices: 131366--131451 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
131356 CAAGTTGTAG
*
131366 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
131405 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
131444 ATTTTGAT
1 ATTTTGAT
131452 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:131732 original size:18 final size:18
Alignment explanation
Indices: 131709--131745 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
131699 CTAAATATAT
131709 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
131727 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
131745 A
1 A
131746 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:132198 original size:21 final size:22
Alignment explanation
Indices: 132173--132245 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
132163 ACACTTTACA
*
132173 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
132196 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
* * *
132219 ATATAAGCGTTACCTATTACATC
1 ATATAAAC-ATACCTATTACATT
132242 ATAT
1 ATAT
132246 GTTTACCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:132209 original size:23 final size:23
Alignment explanation
Indices: 132183--132245 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
132173 ATATAACCAC
132183 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
132206 TACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAACGA
*
132229 TACCTATTACATCATAT
1 TACCTATTACATTATAT
132246 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:132648 original size:25 final size:25
Alignment explanation
Indices: 132591--132656 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
132581 CACTCAAAAG
*
132591 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
132616 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
132641 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
132657 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:135644 original size:182 final size:181
Alignment explanation
Indices: 135122--135610 Score: 836
Period size: 181 Copynumber: 2.7 Consensus size: 181
135112 TTAAAATTAC
* *
135122 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAGACATAAAGTACCGACACAAT
1 CGACAC-TTTTTAAATCGTATCGACACATTTTT-TTCCAATCTGGACATAAAGTACCGACACAAT
* * *
135187 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
64 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
* * *
135252 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
129 ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
135305 CGATACTTTTTAAATCGTATCGACACATTTTTTTCCAATATGGACATAAAGTACCGACACAATAT
1 CGACACTTTTTAAATCGTATCGACACATTTTTTTCCAATCTGGACATAAAGTACCGACACAATAT
135370 TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTTAT
66 TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTTAT
135435 ATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
135486 CGACACTTTTTAACAAT-GTATCGACACATTTTTTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTT-A-AATCGTATCGACACATTTTTTTCCAATCTGGACATAAAGTACCGACACAAT
135550 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
64 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
135611 GATAGCATTG
Statistics
Matches: 291, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
181 151 0.52
182 132 0.45
183 8 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (181 bp):
CGACACTTTTTAAATCGTATCGACACATTTTTTTCCAATCTGGACATAAAGTACCGACACAATAT
TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTTAT
ATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:137164 original size:12 final size:12
Alignment explanation
Indices: 137149--137203 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
137139 TCGTCATCAT
*
137149 CTTCATCGCCAG
1 CTTCATCGTCAG
*
137161 CTTCATCGTCAT
1 CTTCATCGTCAG
*
137173 CTTCATCGTCAT
1 CTTCATCGTCAG
137185 CTTCATCGTCAG
1 CTTCATCGTCAG
137197 CTTCATC
1 CTTCATC
137204 TTCTGCGACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.16, C:0.36, G:0.11, T:0.36
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:137167 original size:36 final size:36
Alignment explanation
Indices: 137127--137203 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
137117 ATCTTTATCA
*
137127 TCATCATCATCGTCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCGTCATCATCATCTTCATCGCCAGCT
* * * *
137163 TCATCGTCATCTTCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCGTCATCATCATCTTCATCGCCAGCT
137199 TCATC
1 TCATC
137204 TTCTGCGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.36
Consensus pattern (36 bp):
TCATCATCATCGTCATCATCATCTTCATCGCCAGCT
Found at i:137206 original size:6 final size:6
Alignment explanation
Indices: 137115--137206 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
137105 GTTTGGATCA
* * * * * * * * *
137115 TCATCT TTATCA TCATCA TCATCG TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
137163 TCATCG TCATCT TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
137207 TGCGACCGCT
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.18, C:0.34, G:0.09, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:139031 original size:197 final size:198
Alignment explanation
Indices: 138658--139810 Score: 2050
Period size: 197 Copynumber: 5.9 Consensus size: 198
138648 TTTAAATTAG
* *
138658 TATCGACACAAACTAAA--ACGTGTCGGCACATTATTTAGACATA-T-TCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
138719 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATT-TACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
138783 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAC
130 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
138847 AAAAA
194 AAAAA
138852 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
138917 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
138982 CGACACTTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
139046 AAA
196 AAA
139049 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
139114 CTTGTA-TGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGATTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
139178 CGATACTTTTATATATGGATCGACACTTT-TGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-A
131 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
139241 AAA
196 AAA
139244 -ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
139307 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
139372 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
139437 AAA
196 AAA
139440 TATCGACACAAACT-AATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
139504 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
139569 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
139634 AAA
196 AAA
139637 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
139702 CTTGTACCTGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTCTGGG
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTT-TGGG
*
139766 ATTGACACTTTT-TATATGGATCGACACTTTATGGTTGCA-CCTGTT
129 ATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
139811 GGCCATATTG
Statistics
Matches: 927, Mismatches: 17, Indels: 27
0.95 0.02 0.03
Matches are distributed among these distances:
193 13 0.01
194 156 0.17
195 59 0.06
196 177 0.19
197 341 0.37
198 159 0.17
199 22 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
AAA
Found at i:139389 original size:391 final size:395
Alignment explanation
Indices: 138658--139810 Score: 2071
Period size: 391 Copynumber: 2.9 Consensus size: 395
138648 TTTAAATTAG
* *
138658 TATCGACACAAACTAAA--ACGTGTCGGCACATTATTTAGACATA-T-TCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
138719 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATT-TACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
138783 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAC
130 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
138847 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
194 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
* *
138912 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
259 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTT
138977 GGGATCGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
324 GGGATCGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
139042 ACAAAAA
389 ACAAAAA
139049 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
139114 CTTGTA-TGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGATTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
139178 CGATACTTTTATATATGGATCGACACTTT-TGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-A
131 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
139241 AAA-ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGT
196 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
139304 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTTGG
261 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTTGG
*
139369 GATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
326 GATCGACACTTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAA
139434 CAAAAA
390 CAAAAA
139440 TATCGACACAAACT-AATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
139504 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
139569 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
139634 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
* *
139699 AAACTTGTACCTGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTCTG
261 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-TTTCGATGTTTTTG
*
139764 GGATTGACACTTTTTATATGGATCGACACTTTATGGTTGCA-CCTGTT
325 GGATCGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTT
139811 GGCCATATTG
Statistics
Matches: 733, Mismatches: 16, Indels: 23
0.95 0.02 0.03
Matches are distributed among these distances:
390 136 0.19
391 227 0.31
392 72 0.10
393 77 0.11
394 116 0.16
395 79 0.11
396 26 0.04
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (395 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTTGG
GATCGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
AAAAA
Found at i:139975 original size:19 final size:19
Alignment explanation
Indices: 139929--139977 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
139919 TTATATTCAC
*
139929 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
139948 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
139967 ATACAAAATTA
1 ATACAAAATTA
139978 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:141869 original size:21 final size:21
Alignment explanation
Indices: 141843--141884 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
141833 CCCCTTATGC
141843 CTCAAGTGTATCTTCGACTCT
1 CTCAAGTGTATCTTCGACTCT
* *
141864 CTCAAGTTTCTCTTCGACTCT
1 CTCAAGTGTATCTTCGACTCT
141885 TGATTGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCAAGTGTATCTTCGACTCT
Found at i:142660 original size:12 final size:12
Alignment explanation
Indices: 142643--142668 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
142633 GGCAATGCTT
142643 TCCAGTCCTTAC
1 TCCAGTCCTTAC
142655 TCCAGTCCTTAC
1 TCCAGTCCTTAC
142667 TC
1 TC
142669 TGACAGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.42, G:0.08, T:0.35
Consensus pattern (12 bp):
TCCAGTCCTTAC
Done.