Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014658.1 Kokia drynarioides strain JFW-HI SEQ_129697, 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: 241069
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Warning! 30 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:513 original size:13 final size:13
Alignment explanation
Indices: 491--523 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
481 AGACTATATC
491 TTAA-ATATAATA
1 TTAATATATAATA
503 TTAATATATAATA
1 TTAATATATAATA
516 TT-ATATAT
1 TTAATATAT
524 TTAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATATATAATA
Found at i:12256 original size:4 final size:4
Alignment explanation
Indices: 12240--12279 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
12230 GACCCTCTAG
* * *
12240 CGCT CGTT CGCT CGCT CGCT CGCT CGCT CCCT CCCT CGCT
1 CGCT CGCT CGCT CGCT CGCT CGCT CGCT CGCT CGCT CGCT
12280 GGCTGGCTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.53, G:0.20, T:0.28
Consensus pattern (4 bp):
CGCT
Found at i:17111 original size:22 final size:20
Alignment explanation
Indices: 17073--17113 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
17063 GTTGAAGCGG
*
17073 TTTAATATTTTTTTTAATTT
1 TTTAAAATTTTTTTTAATTT
17093 TTTAAAATTATTTATTTAATT
1 TTTAAAATT-TTT-TTTAATT
17114 ATTATTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTAAAATTTTTTTTAATTT
Found at i:22186 original size:21 final size:20
Alignment explanation
Indices: 22160--22203 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
22150 AAAGAACAAG
22160 AATAAAGTGAAAGAATGAGAA
1 AATAAAGTGAAAGAATGA-AA
* *
22181 AATAAATTGAAAGGATGAAA
1 AATAAAGTGAAAGAATGAAA
22201 AAT
1 AAT
22204 GATGAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.18
Consensus pattern (20 bp):
AATAAAGTGAAAGAATGAAA
Found at i:26145 original size:5 final size:5
Alignment explanation
Indices: 26135--26164 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
26125 TTGCTTACTA
26135 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
26165 TCTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:26170 original size:5 final size:5
Alignment explanation
Indices: 26162--26187 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26152 TTTAATTTAA
26162 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
26188 ACATGCCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:33153 original size:2 final size:2
Alignment explanation
Indices: 33146--33174 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33136 CCATCTTTTA
33146 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33175 TTTAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33198 original size:11 final size:12
Alignment explanation
Indices: 33144--33201 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
33134 TTCCATCTTT
*
33144 TAATA-TATATA
1 TAATATTATAAA
*
33155 TATATATATATATA
1 TA-ATAT-TATAAA
*
33169 TAATATTTTAAA
1 TAATATTATAAA
33181 TAATATTATAAA
1 TAATATTATAAA
33193 -AATATTATA
1 TAATATTATA
33202 TCAGTTTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 11 0.27
12 18 0.44
13 4 0.10
14 8 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATATTATAAA
Found at i:37468 original size:2 final size:2
Alignment explanation
Indices: 37461--37486 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37451 ATAGTTGTGA
37461 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
37487 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37824 original size:29 final size:29
Alignment explanation
Indices: 37768--37822 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
37758 TTTGGTTTTT
*
37768 TTTTTTTACTGTTTTGGTTGTTGTTTTAG
1 TTTTTTTACTATTTTGGTTGTTGTTTTAG
*
37797 TTTTTTTACTATTTTGG-TGTTTTTTT
1 TTTTTTTACTATTTTGGTTGTTGTTTT
37823 TACTGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.07, C:0.04, G:0.16, T:0.73
Consensus pattern (29 bp):
TTTTTTTACTATTTTGGTTGTTGTTTTAG
Found at i:37831 original size:29 final size:29
Alignment explanation
Indices: 37770--37832 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
37760 TGGTTTTTTT
* * *
37770 TTTTTACTGTTTTGGTTGTTGTTTTAGTT
1 TTTTTACTATTTTGGTTGTTGTTTTACTG
*
37799 TTTTTACTATTTTGG-TGTTTTTTTTACTG
1 TTTTTACTATTTTGGTTG-TTGTTTTACTG
37828 TTTTT
1 TTTTT
37833 GTGTTGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.71
Consensus pattern (29 bp):
TTTTTACTATTTTGGTTGTTGTTTTACTG
Found at i:37843 original size:12 final size:12
Alignment explanation
Indices: 37826--37878 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
37816 TTTTTTTTAC
37826 TGTTTTTG-TGT
1 TGTTTTTGCTGT
37837 TGTTTTTGCTGT
1 TGTTTTTGCTGT
* *
37849 TATTTTTGTTGT
1 TGTTTTTGCTGT
* *
37861 TGTTTTTGTTGC
1 TGTTTTTGCTGT
37873 TGTTTT
1 TGTTTT
37879 ACTACTGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
11 8 0.22
12 29 0.78
ACGTcount: A:0.02, C:0.04, G:0.23, T:0.72
Consensus pattern (12 bp):
TGTTTTTGCTGT
Found at i:37848 original size:20 final size:20
Alignment explanation
Indices: 37799--37861 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
37789 TGTTTTAGTT
* * *
37799 TTTTTACTATTTTGGTGTTT
1 TTTTTACTGTTTTTGTGTTG
37819 TTTTTACTGTTTTTGTGTTG
1 TTTTTACTGTTTTTGTGTTG
* *
37839 TTTTTGCTGTTATTTTTGTTG
1 TTTTTACTGTT-TTTGTGTTG
37860 TT
1 TT
37862 GTTTTTGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 27 0.73
21 10 0.27
ACGTcount: A:0.06, C:0.05, G:0.17, T:0.71
Consensus pattern (20 bp):
TTTTTACTGTTTTTGTGTTG
Found at i:37878 original size:24 final size:23
Alignment explanation
Indices: 37814--37878 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 23
37804 ACTATTTTGG
* *
37814 TGTTTTTTTTACTGTTTTTGTGT
1 TGTTTTTGTTGCTGTTTTTGTGT
* * *
37837 TGTTTTTGCTGTTATTTTTGTTGT
1 TGTTTTTGTTGCTGTTTTTG-TGT
37861 TGTTTTTGTTGCTGTTTT
1 TGTTTTTGTTGCTGTTTT
37879 ACTACTGTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.03, C:0.05, G:0.20, T:0.72
Consensus pattern (23 bp):
TGTTTTTGTTGCTGTTTTTGTGT
Found at i:37922 original size:21 final size:21
Alignment explanation
Indices: 37884--37930 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
37874 GTTTTACTAC
*
37884 TGTTTTGATTGTTATTTT-TG
1 TGTTTGGATTGTTATTTTATG
37904 TTGTTTGGA-TGTTATTTTTATG
1 -TGTTTGGATTGTTA-TTTTATG
37926 TGTTT
1 TGTTT
37931 TTACTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.11, C:0.00, G:0.21, T:0.68
Consensus pattern (21 bp):
TGTTTGGATTGTTATTTTATG
Found at i:39441 original size:29 final size:29
Alignment explanation
Indices: 39405--39463 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
39395 ATTTTCTAAG
39405 AAACGCTCAATATCTCAATTATGTTTTCT
1 AAACGCTCAATATCTCAATTATGTTTTCT
39434 AAACGCTCAATATCTCAATTATGTTTTCT
1 AAACGCTCAATATCTCAATTATGTTTTCT
39463 A
1 A
39464 GTTTGGTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (29 bp):
AAACGCTCAATATCTCAATTATGTTTTCT
Found at i:43936 original size:38 final size:38
Alignment explanation
Indices: 43864--43941 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 38
43854 TATCAATTTG
* * *
43864 AAAAAAAATAGTTTAAGTATCACTTATAATAAAAA-AT
1 AAAAAAAAAAGTTTAAGTATCACTTAGAAAAAAAACAT
*
43901 AAAAAAAAAAGTTTCAA-TATCAAGTTAGAAAAAAAACAT
1 AAAAAAAAAAGTTT-AAGTATC-ACTTAGAAAAAAAACAT
43940 AA
1 AA
43942 TTTAAGTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
37 17 0.50
38 13 0.38
39 4 0.12
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.24
Consensus pattern (38 bp):
AAAAAAAAAAGTTTAAGTATCACTTAGAAAAAAAACAT
Found at i:46965 original size:65 final size:65
Alignment explanation
Indices: 46889--47022 Score: 250
Period size: 65 Copynumber: 2.1 Consensus size: 65
46879 GGACATGGGT
46889 ATAAAACAAGTTGGGCATGAAAATCACCAGTTTAACTCATATTTAATTACTTGACTTTCATGAAA
1 ATAAAACAAGTTGGGCATGAAAATCACCAGTTTAACTCATATTTAATTACTTGACTTTCATGAAA
* *
46954 ATAAAAGAAGTTGGGCATGAAAATCACCGGTTTAACTCATATTTAATTACTTGACTTTCATGAAA
1 ATAAAACAAGTTGGGCATGAAAATCACCAGTTTAACTCATATTTAATTACTTGACTTTCATGAAA
47019 ATAA
1 ATAA
47023 CAAATATTAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (65 bp):
ATAAAACAAGTTGGGCATGAAAATCACCAGTTTAACTCATATTTAATTACTTGACTTTCATGAAA
Found at i:53085 original size:5 final size:5
Alignment explanation
Indices: 53063--53095 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
53053 CCTACCATAT
53063 AAAT- AAATA AATATA AAATA AAATA AAATA AAA
1 AAATA AAATA AA-ATA AAATA AAATA AAATA AAA
53096 ATCTTTCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:57941 original size:30 final size:30
Alignment explanation
Indices: 57905--58094 Score: 145
Period size: 30 Copynumber: 6.4 Consensus size: 30
57895 AAAAATTTTA
*
57905 GGTTAAAATGTAAAATTTGGAAAGTTTAGG
1 GGTTAAAATGTAAATTTTGGAAAGTTTAGG
* * ** * *
57935 GGTTAAAATGTGATTTTTATAAAATTTA-T
1 GGTTAAAATGTAAATTTTGGAAAGTTTAGG
* * **
57964 GGTCAAAAT-CAAATTTCTAAAAAGTTT-GAG
1 GGTTAAAATGTAAATTT-TGGAAAGTTTAG-G
* * *
57994 GGTAAAAAAGT-AATTTTGGAAAAATTTAGG
1 GGTTAAAATGTAAATTTTGG-AAAGTTTAGG
**
58024 GGTTAAAATGTATTTTTTGGAAAGTTTAGG
1 GGTTAAAATGTAAATTTTGGAAAGTTTAGG
* * *
58054 GGTTAAAATGTAATTTTTGAAAAGTTTAAG
1 GGTTAAAATGTAAATTTTGGAAAGTTTAGG
*
58084 GGTAAAAATGT
1 GGTTAAAATGT
58095 TGTTTTCAAA
Statistics
Matches: 124, Mismatches: 29, Indels: 14
0.74 0.17 0.08
Matches are distributed among these distances:
28 4 0.03
29 17 0.14
30 96 0.77
31 7 0.06
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (30 bp):
GGTTAAAATGTAAATTTTGGAAAGTTTAGG
Found at i:57943 original size:59 final size:59
Alignment explanation
Indices: 57880--58094 Score: 213
Period size: 59 Copynumber: 3.6 Consensus size: 59
57870 CTTTAAGGTC
* *
57880 AAAATGTGATTTTTGAAAAATTTTA-GGTTAAAATGTAAAATTTGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAAAAA-TTTAGGGTTAAAATGTAAATTTTGGAAAGTTTAGGGGTT
* * * * ** *
57939 AAAATGTGATTTTT-ATAAAATTTATGGTCAAAAT-CAAATTTCTAAAAAGTTT-GAGGGTA
1 AAAATGTAATTTTTGA-AAAATTTAGGGTTAAAATGTAAATTT-TGGAAAGTTTAG-GGGTT
* * **
57998 AAAAAGTAATTTTGGAAAAATTTAGGGGTTAAAATGTATTTTTTGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAAAAATTTA-GGGTTAAAATGTAAATTTTGGAAAGTTTAGGGGTT
* *
58058 AAAATGTAATTTTTGAAAAGTTTAAGGGTAAAAATGT
1 AAAATGTAATTTTTGAAAAATTT-AGGGTTAAAATGT
58095 TGTTTTCAAA
Statistics
Matches: 126, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
58 11 0.09
59 57 0.45
60 52 0.41
61 6 0.05
ACGTcount: A:0.40, C:0.01, G:0.20, T:0.38
Consensus pattern (59 bp):
AAAATGTAATTTTTGAAAAATTTAGGGTTAAAATGTAAATTTTGGAAAGTTTAGGGGTT
Found at i:58129 original size:119 final size:117
Alignment explanation
Indices: 57880--58169 Score: 275
Period size: 119 Copynumber: 2.4 Consensus size: 117
57870 CTTTAAGGTC
* **
57880 AAAATGTGATTTTTGAAAAATTTTA-GGTTAAAATGTAAAATTTGGAAAGTTTAGGGGTTAAAAT
1 AAAATGTGA-TTTTGAAAAAGTTTAGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAAT
* * * * * *
57944 GTGATTTTTATAAAATTTATGGTCAAAATCAAATTTCTAAAAAGTTTGAGGGT
65 GTAATTTTTATAAAATTTAGGGTAAAAATCAAATTTCAAAAAAATTTGAGAGT
* * *
57997 AAAAAAGTAATTTTGGAAAAA-TTTAGGGGTTAAAATGTATTTTTTGGAAAGTTTAGGGGTTAAA
1 -AAAATGTGATTTT-GAAAAAGTTTA-GGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAA
* **** *
58061 ATGTAATTTTTGA-AAAGTTTAAGGGTAAAAATGTTGTTTTCAAAAAAATTTTAGAGT
63 ATGTAATTTTT-ATAAAATTT-AGGGTAAAAAT-CAAATTTCAAAAAAATTTGAGAGT
* * *
58118 -CAATGTGATTTTCAAAAAGTTTAAGGGTTAAAATCG-AATTTTTAGAAAGTTT
1 AAAATGTGATTTTGAAAAAGTTT-AGGGTTAAAAT-GTAATTTTTGGAAAGTTT
58170 TGGAGTCAAA
Statistics
Matches: 140, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
117 8 0.06
118 18 0.13
119 86 0.61
120 12 0.09
121 16 0.11
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (117 bp):
AAAATGTGATTTTGAAAAAGTTTAGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATG
TAATTTTTATAAAATTTAGGGTAAAAATCAAATTTCAAAAAAATTTGAGAGT
Found at i:60161 original size:49 final size:49
Alignment explanation
Indices: 60102--60238 Score: 141
Period size: 49 Copynumber: 2.8 Consensus size: 49
60092 CATTGTGGCT
* **
60102 TCAATCTTTCCCGTT-ATATTTTTAAGGTATTAGGTTCGCCATTACGACC
1 TCAACCTTTCCC-TTCATATTTTTAAGGTACCAGGTTCGCCATTACGACC
* * * * * * *
60151 TCAACTTTTCCCTTCATATCTTCATGGTACCGGGTTCGTCGTTACGACC
1 TCAACCTTTCCCTTCATATTTTTAAGGTACCAGGTTCGCCATTACGACC
* *
60200 TCAACCTTTCCCTTCACATCTTTTAAGGTACCGGGTTCG
1 TCAACCTTTCCCTTCATAT-TTTTAAGGTACCAGGTTCG
60239 TTGTCGCGGC
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
48 2 0.03
49 53 0.75
50 16 0.23
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (49 bp):
TCAACCTTTCCCTTCATATTTTTAAGGTACCAGGTTCGCCATTACGACC
Found at i:60308 original size:49 final size:49
Alignment explanation
Indices: 60149--60755 Score: 261
Period size: 49 Copynumber: 12.3 Consensus size: 49
60139 GCCATTACGA
* * * * *
60149 CCTCAACTTTTCCCTTCATATCTTCATGGTACCGGGTTCGTCGTTACGA
1 CCTCAACCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTCGTTGCGG
* * * *
60198 CCTCAACCTTTCCCTTCACATCTTT-TAAGGTACCGGGTTCGTTGTCGCGG
1 CCTCAACCTTTCCCTTCATAT-TTTCT-TGGTACCGGGTTCGTCGTTGCGG
** * * *
60248 CCTCATTCTTTCCCTTCATATTTTCTTGATACTGAGTTCGTCGTTGCGG
1 CCTCAACCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTCGTTGCGG
* * * * * *
60297 CCTTAACCTTTCCCTTCATATCTTCATGGTACCAGGTTCGCCGTTGTGG
1 CCTCAACCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTCGTTGCGG
** * * * * ** ** ** *
60346 TATCAACCTTTCCCATCATATCTTCTAAGGTACTGAATTCACCGCCGCGA
1 CCTCAACCTTTCCCTTCATATTTTCT-TGGTACCGGGTTCGTCGTTGCGG
* * * * * ** * * *
60396 CCTCAATCC-TTCCTTTCAAATCTTCATGGTATCGAATTCTTCGTTACGA
1 CCTCAA-CCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTCGTTGCGG
* * * * * * * **
60445 CTTCAATCATTCCCTTCAAATCTTCATGGTATCGGGTTCCCCGTTGCGG
1 CCTCAACCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTCGTTGCGG
* * * * * * *** * *
60494 CCTCAACCTTT-CCATCACATCTTCTAAGGTACTGGATTTACCGTCGCGA
1 CCTCAACCTTTCCCTTCATATTTTCT-TGGTACCGGGTTCGTCGTTGCGG
* * * *
60543 CCTCAATCTTTCCCTTCAAATTTTCATGGTATCGGGTTCG-CTGTTGCGG
1 CCTCAACCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTC-GTTGCGG
* * * * * * * * * *
60592 CCTCAACCTTTCCCATCACATCTTCTAAGGTATCAGGTTTGCCGTTTCGA
1 CCTCAACCTTTCCCTTCATATTTTCT-TGGTACCGGGTTCGTCGTTGCGG
* * * * * *
60642 CATCAACCTTTCCCTTCATATTTTCATGGTATCGGGTTCGCCATTGCGA
1 CCTCAACCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTCGTTGCGG
* * * * * * * * **
60691 TCTTAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCGCCGTTGTAG
1 CCTCAACCTTTCCCTTCATATTTTCT-TGGTACCGGGTTCGTCGTTGCGG
60741 CCTCAATCC-TTCCCT
1 CCTCAA-CCTTTCCCT
60756 GTCAAACCTG
Statistics
Matches: 414, Mismatches: 131, Indels: 25
0.73 0.23 0.04
Matches are distributed among these distances:
48 13 0.03
49 255 0.62
50 141 0.34
51 5 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.36
Consensus pattern (49 bp):
CCTCAACCTTTCCCTTCATATTTTCTTGGTACCGGGTTCGTCGTTGCGG
Found at i:60352 original size:148 final size:148
Alignment explanation
Indices: 60157--60655 Score: 511
Period size: 148 Copynumber: 3.4 Consensus size: 148
60147 GACCTCAACT
* * * * *
60157 TTTCCCTTCATATCTTCATGGTACCGGGTTCGTCGTTACGACCTCAACCTTTCCCTTCACATCTT
1 TTTCCCTTCATATCTTCATGGTACCAGGTTCGCCGTTGCGACATCAACCTTTCCCATCACATCTT
* * *** * * * * *
60222 TTAAGGTACCGGGTTCGTTGTCGCGGCCTCATTCTTTCCCTTCATATTTTCTTGATA-CTGAGTT
66 CTAAGGTACCGGATTCACCGTCGCGACCTCAATCTTTCCCTTCAAATTTTCATGGTATC-GAGTT
60286 CGTCGTTGCGGCCTTAACC
130 CGTCGTTGCGGCCTTAACC
* ** *
60305 TTTCCCTTCATATCTTCATGGTACCAGGTTCGCCGTTGTGGTATCAACCTTTCCCATCATATCTT
1 TTTCCCTTCATATCTTCATGGTACCAGGTTCGCCGTTGCGACATCAACCTTTCCCATCACATCTT
* * * * * * *
60370 CTAAGGTACTGAATTCACCGCCGCGACCTCAATCCTTCCTTTCAAATCTTCATGGTATCGAATTC
66 CTAAGGTACCGGATTCACCGTCGCGACCTCAATCTTTCCCTTCAAATTTTCATGGTATCGAGTTC
* * * *
60435 TTCGTTAC-GACTTCAATC
131 GTCGTTGCGGCCTT-AACC
* * * * * * *
60453 ATTCCCTTCAAATCTTCATGGTATCGGGTTCCCCGTTGCGGCCTCAACCTTT-CCATCACATCTT
1 TTTCCCTTCATATCTTCATGGTACCAGGTTCGCCGTTGCGACATCAACCTTTCCCATCACATCTT
* * *
60517 CTAAGGTACTGGATTTACCGTCGCGACCTCAATCTTTCCCTTCAAATTTTCATGGTATCGGGTTC
66 CTAAGGTACCGGATTCACCGTCGCGACCTCAATCTTTCCCTTCAAATTTTCATGGTATCGAGTTC
*
60582 G-CTGTTGCGGCCTCAACC
131 GTC-GTTGCGGCCTTAACC
* * * * * *
60600 TTTCCCATCACATCTTCTAAGGTATCAGGTTTGCCGTTTCGACATCAACCTTTCCC
1 TTTCCCTTCATATCTTC-ATGGTACCAGGTTCGCCGTTGCGACATCAACCTTTCCC
60656 TTCATATTTT
Statistics
Matches: 283, Mismatches: 62, Indels: 11
0.79 0.17 0.03
Matches are distributed among these distances:
146 1 0.00
147 93 0.33
148 186 0.66
149 3 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (148 bp):
TTTCCCTTCATATCTTCATGGTACCAGGTTCGCCGTTGCGACATCAACCTTTCCCATCACATCTT
CTAAGGTACCGGATTCACCGTCGCGACCTCAATCTTTCCCTTCAAATTTTCATGGTATCGAGTTC
GTCGTTGCGGCCTTAACC
Found at i:60736 original size:99 final size:99
Alignment explanation
Indices: 60136--60736 Score: 471
Period size: 99 Copynumber: 6.1 Consensus size: 99
60126 AGGTATTAGG
* * * * *
60136 TTCGCCATTACGACCTCAACTTTTCCCTTCATATCTTCATGGTACCGGGTTCGTCGTTACGACCT
1 TTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGACCT
* * *
60201 CAACCTTTCCCTTCACATCTTTTAAGGTACCGGG
66 CAACCTTTCCCATCACATCTTCTAAGGTACCGGA
** ** * ** * * * * * *
60235 TTCGTTGTCGCGGCCTCATTCTTTCCCTTCATATTTTCTTGATA-CTGAGTTCGTCGTTGCGGCC
1 TTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTATC-GGGTTCGCCGTTGCGACC
* * * *
60299 TTAACCTTTCCCTTCATATCTTC-ATGGTACCAGG-
65 TCAACCTTTCCCATCACATCTTCTAAGGTACC-GGA
** *** * * ** * **
60333 TTCGCCGTTGTGGTATCAACCTTTCCCATCATATCTTCTAAGGTA-CTGAATTCACCGCCGCGAC
1 TTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTC-ATGGTATC-GGGTTCGCCGTTGCGAC
** * * * *
60397 CTCAATCC-TTCCTTTCAAATCTTC-ATGGTATCGAA
64 CTCAA-CCTTTCCCATCACATCTTCTAAGGTACCGGA
** * * * * * *
60432 TTCTTCGTTACGACTTCAATCATTCCCTTCAAATCTTCATGGTATCGGGTTCCCCGTTGCGGCCT
1 TTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGACCT
*
60497 CAACCTTT-CCATCACATCTTCTAAGGTACTGGA
66 CAACCTTTCCCATCACATCTTCTAAGGTACCGGA
** ** * * * * *
60530 TTTACCGTCGCGACCTCAATCTTTCCCTTCAAATTTTCATGGTATCGGGTTCGCTGTTGCGGCCT
1 TTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGACCT
*
60595 CAACCTTTCCCATCACATCTTCTAAGGTATCAGG-
66 CAACCTTTCCCATCACATCTTCTAAGGTA-CCGGA
* * * * * *
60629 TTTGCCGTTTCGACATCAACCTTTCCCTTCATATTTTCATGGTATCGGGTTCGCCATTGCGATCT
1 TTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGACCT
*
60694 TAACCTTTCCCATCACATCTTCTAAGGTACCGGA
66 CAACCTTTCCCATCACATCTTCTAAGGTACCGGA
60728 TTCGCCGTT
1 TTCGCCGTT
60737 GTAGCCTCAA
Statistics
Matches: 399, Mismatches: 92, Indels: 22
0.78 0.18 0.04
Matches are distributed among these distances:
97 12 0.03
98 133 0.33
99 249 0.62
100 5 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (99 bp):
TTCGCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGACCT
CAACCTTTCCCATCACATCTTCTAAGGTACCGGA
Found at i:62334 original size:18 final size:18
Alignment explanation
Indices: 62311--62347 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
62301 GTGACGTTGG
62311 CGTAAGAAGCAACTTCTA
1 CGTAAGAAGCAACTTCTA
62329 CGTAAGAAGCAACTTCTA
1 CGTAAGAAGCAACTTCTA
62347 C
1 C
62348 CTATTTGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (18 bp):
CGTAAGAAGCAACTTCTA
Found at i:69411 original size:30 final size:30
Alignment explanation
Indices: 69376--69727 Score: 154
Period size: 30 Copynumber: 11.8 Consensus size: 30
69366 CGGAGAATTT
69376 GGGGTTAAAATGTGATTTTTAAAAAGTTTA
1 GGGGTTAAAATGTGATTTTTAAAAAGTTTA
** *
69406 GGGGTTAAAATGTG-GCTTTAGAAAGGTTTTA
1 GGGGTTAAAATGTGATTTTTA-AAAAG-TTTA
* * *
69437 -AGGTCAAAATGTGATTTTAGAAAAAGTTT-
1 GGGGTTAAAATGTGATTTT-TAAAAAGTTTA
* ** * *
69466 -GGGTCAAAACATAATTTTTAGAATA-TTTA
1 GGGGTTAAAATGTGATTTTTA-AAAAGTTTA
*
69495 GGGGTTAAAATATGATTTTTGAAAAA-TTTA
1 GGGGTTAAAATGTGATTTTT-AAAAAGTTTA
* * *
69525 -TGGTTAAAATAAT-ATTTTTAGAAAGTTTA
1 GGGGTTAAAAT-GTGATTTTTAAAAAGTTTA
* * * ** *
69554 -GGGATAAAATATAATTTTGGAAAAGTTTG
1 GGGGTTAAAATGTGATTTTTAAAAAGTTTA
* * * ** * *
69583 GGGGTTAATATGTAATTTATGGAAATTTTG
1 GGGGTTAAAATGTGATTTTTAAAAAGTTTA
* * ** **
69613 GGGGTAAAAATGTTATTTGCAAAAAAAATTA
1 GGGGTTAAAATGTGATTT-TTAAAAAGTTTA
* **
69644 -AGGTTAAAATGTGATTTTTGGAAAGTTT-
1 GGGGTTAAAATGTGATTTTTAAAAAGTTTA
*
69672 GAGGGTCAAAAT-TGAATTTTTAGAAAA-TTTA
1 G-GGGTTAAAATGTG-ATTTTTA-AAAAGTTTA
* *
69703 GGGGTTAAAATCGAGTTTTTTAAAA
1 GGGGTTAAAAT-GTGATTTTTAAAA
69728 TAAAATAGGG
Statistics
Matches: 242, Mismatches: 60, Indels: 40
0.71 0.18 0.12
Matches are distributed among these distances:
28 10 0.04
29 67 0.28
30 137 0.57
31 26 0.11
32 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTGATTTTTAAAAAGTTTA
Found at i:69519 original size:59 final size:58
Alignment explanation
Indices: 69442--69584 Score: 150
Period size: 59 Copynumber: 2.5 Consensus size: 58
69432 TTTTAAGGTC
* * *
69442 AAAATGTGATTTTAGAAAAAGTTTGGGTCAAAAC-ATAATTTTTAGAATA-TTTAGGGGTT
1 AAAATATGATTTTTGAAAAAGTTTGGGTCAAAACAAT-ATTTTTAGAA-AGTTTA-GGGAT
* * *
69501 AAAATATGATTTTTGAAAAA-TTTATGGTTAAAATAATATTTTTAGAAAGTTTAGGGAT
1 AAAATATGATTTTTGAAAAAGTTT-GGGTCAAAACAATATTTTTAGAAAGTTTAGGGAT
* *
69559 AAAATAT-AATTTTGGAAAAGTTTGGG
1 AAAATATGATTTTTGAAAAAGTTTGGG
69585 GGTTAATATG
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
57 12 0.17
58 18 0.25
59 39 0.55
60 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.19, T:0.38
Consensus pattern (58 bp):
AAAATATGATTTTTGAAAAAGTTTGGGTCAAAACAATATTTTTAGAAAGTTTAGGGAT
Found at i:70391 original size:15 final size:14
Alignment explanation
Indices: 70371--70404 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
70361 ATATATATAT
70371 ATATATTGAAAAGAA
1 ATATATT-AAAAGAA
70386 ATATA-TAAAAGAA
1 ATATATTAAAAGAA
70399 ATATAT
1 ATATAT
70405 GTATATCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.67
14 1 0.06
15 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (14 bp):
ATATATTAAAAGAA
Found at i:72676 original size:12 final size:12
Alignment explanation
Indices: 72659--72694 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
72649 TGCTAGTGAT
72659 GAAGAAGGAGAA
1 GAAGAAGGAGAA
72671 GAAGAAGGAGAA
1 GAAGAAGGAGAA
* *
72683 GGAGAAGAAGAA
1 GAAGAAGGAGAA
72695 ATAGCAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAAGAAGGAGAA
Found at i:72705 original size:18 final size:18
Alignment explanation
Indices: 72661--72695 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72651 CTAGTGATGA
*
72661 AGAAGGAGAAGAAGAAGG
1 AGAAGGAGAAGAAGAAAG
72679 AGAAGGAGAAGAAGAAA
1 AGAAGGAGAAGAAGAAA
72696 TAGCAAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (18 bp):
AGAAGGAGAAGAAGAAAG
Found at i:72870 original size:2 final size:2
Alignment explanation
Indices: 72865--72901 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
72855 AGAAGGTGGG
72865 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
72902 CGCAATGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:77838 original size:19 final size:18
Alignment explanation
Indices: 77814--77865 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
77804 AGCAAATAAT
77814 TAATTTTTTTAACAATTTA
1 TAATTTTTTTAA-AATTTA
* *
77833 TAATTTTTTT-GAATTTT
1 TAATTTTTTTAAAATTTA
77850 TAATTTTTTTAAAATT
1 TAATTTTTTTAAAATT
77866 AATTAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.52
18 4 0.14
19 10 0.34
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TAATTTTTTTAAAATTTA
Found at i:77871 original size:19 final size:19
Alignment explanation
Indices: 77810--77873 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
77800 TGTTAGCAAA
77810 TAATTAATTTTTTTAACAAT
1 TAATTAATTTTTTTAA-AAT
* *
77830 TTA-TAATTTTTTT-GAAT
1 TAATTAATTTTTTTAAAAT
*
77847 T-TTTAATTTTTTTAAAAT
1 TAATTAATTTTTTTAAAAT
77865 TAATTAATT
1 TAATTAATT
77874 GTTGATATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 14 0.39
18 4 0.11
19 16 0.44
20 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TAATTAATTTTTTTAAAAT
Found at i:78664 original size:23 final size:23
Alignment explanation
Indices: 78620--78664 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78610 TTAAAAAGGT
* *
78620 AAAATAACATTTTTATTATCGTA
1 AAAATAACAATTTAATTATCGTA
78643 AAAATATACAATTTAATT-TCGT
1 AAAATA-ACAATTTAATTATCGT
78665 CCCCCCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (23 bp):
AAAATAACAATTTAATTATCGTA
Found at i:79863 original size:12 final size:12
Alignment explanation
Indices: 79848--79873 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
79838 ATACACTTAA
79848 AAATATTAAAAC
1 AAATATTAAAAC
79860 AAATATTAAAAC
1 AAATATTAAAAC
79872 AA
1 AA
79874 CAAACAAATT
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:79896 original size:41 final size:40
Alignment explanation
Indices: 79850--79928 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
79840 ACACTTAAAA
**
79850 ATATTAAAACAAATATTAAAACAACAAACAAATTAGAAACG
1 ATATTAAAACAAATAGAAAAACAACAAACAAATT-GAAACG
* * *
79891 ATATTAAAATAATTCGAAAAACAACAAACAAATTGAAA
1 ATATTAAAACAAATAGAAAAACAACAAACAAATTGAAA
79929 ATATAATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.20
Consensus pattern (40 bp):
ATATTAAAACAAATAGAAAAACAACAAACAAATTGAAACG
Found at i:80625 original size:24 final size:23
Alignment explanation
Indices: 80586--80631 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
80576 TATTACAAGC
80586 AAAAAAAATTAGTATTAAAAATA
1 AAAAAAAATTAGTATTAAAAATA
* *
80609 AAAATAAAATTATTATTATAAAT
1 AAAA-AAAATTAGTATTAAAAAT
80632 TCGGGCCGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAAAAATTAGTATTAAAAATA
Found at i:90161 original size:45 final size:45
Alignment explanation
Indices: 90097--90182 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
90087 CAACATAAGA
*
90097 ACTGAAAACATGCTTGAATTTGTAAATTTAGCTAAAACCACACCG
1 ACTGAAAACATACTTGAATTTGTAAATTTAGCTAAAACCACACCG
90142 ACTGAAAACATACTTGAATTTGTAAATTTAGCTAAAACCAC
1 ACTGAAAACATACTTGAATTTGTAAATTTAGCTAAAACCAC
90183 GCTATTAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (45 bp):
ACTGAAAACATACTTGAATTTGTAAATTTAGCTAAAACCACACCG
Found at i:93841 original size:28 final size:28
Alignment explanation
Indices: 93786--93841 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
93776 ATATAAATTT
* * *
93786 AAAAAATATAAAAATTATTATAACTATA
1 AAAAAACATAAAAATTATTAAAAATATA
93814 AAAAAACATAAAAATTA-TAAAATATATA
1 AAAAAACATAAAAATTATTAAAA-ATATA
93842 TCGAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAAACATAAAAATTATTAAAAATATA
Found at i:97670 original size:53 final size:53
Alignment explanation
Indices: 97611--97906 Score: 347
Period size: 53 Copynumber: 5.7 Consensus size: 53
97601 CTTGTGTCAA
* *
97611 AGATTAAAGGTCCGATGACTATGTGTCATCATGAGTTATATGAATCCTAGTAC
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
* * *
97664 GGATTAAAGGTTCGATGACTATGTGTCATTGTGAGTTATATGAATCCTATTAC
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
97717 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCC---T--
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
* *
97765 --ATTAAAGATCCGATGACTATGTGTCATCGTGAGTTAAATGAATCCTATTAC
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
* ** * * * ** *
97816 AGATTAAGGGTTTGATGACTTTGTGTCATCGTGAGATACACAAATCC-ATTAT
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
* * * * *
97868 GGATTAAAGGTTCGATGACTCTATGTCATCATGAGTTAT
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTAT
97907 CAAATGCGAA
Statistics
Matches: 208, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
46 43 0.21
49 1 0.00
50 1 0.00
52 35 0.17
53 128 0.62
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (53 bp):
AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
Found at i:97786 original size:46 final size:46
Alignment explanation
Indices: 97719--97819 Score: 175
Period size: 46 Copynumber: 2.2 Consensus size: 46
97709 CCTATTACAG
* *
97719 ATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCT
1 ATTAAAGATCCGATGACTATGTGTCATCGTGAGTTAAATGAATCCT
97765 ATTAAAGATCCGATGACTATGTGTCATCGTGAGTTAAATGAATCCT
1 ATTAAAGATCCGATGACTATGTGTCATCGTGAGTTAAATGAATCCT
*
97811 ATTACAGAT
1 ATTAAAGAT
97820 TAAGGGTTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (46 bp):
ATTAAAGATCCGATGACTATGTGTCATCGTGAGTTAAATGAATCCT
Found at i:97817 original size:99 final size:101
Alignment explanation
Indices: 97611--97850 Score: 340
Period size: 99 Copynumber: 2.3 Consensus size: 101
97601 CTTGTGTCAA
* * *
97611 AGATTAAAGGTCCGATGACTATGTGTCATCATGAGTTATATGAATCCTAGTACGGATTAAAGGTT
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCC-A-T---GATTAAAGATC
* *
97676 CGATGACTATGTGTCATTGTGAGTTATATGAATCCTATTAC
61 CGATGACTATGTGTCATCGTGAGTTAAATGAATCCTATTAC
97717 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCC-T-ATTAAAGATCCGATG
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCATGATTAAAGATCCGATG
97780 ACTATGTGTCATCGTGAGTTAAATGAATCCTATTAC
66 ACTATGTGTCATCGTGAGTTAAATGAATCCTATTAC
* ** *
97816 AGATTAAGGGTTTGATGACTTTGTGTCATCGTGAG
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAG
97851 ATACACAAAT
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
99 78 0.62
103 1 0.01
106 46 0.37
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (101 bp):
AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCATGATTAAAGATCCGATG
ACTATGTGTCATCGTGAGTTAAATGAATCCTATTAC
Found at i:99476 original size:35 final size:35
Alignment explanation
Indices: 99416--99497 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 35
99406 TAATATAGAG
*
99416 ATGAATTAAA-TTCTTGATTAATTATAATATGTCA
1 ATGAATTAAATTTCTTGATTAATTATAATATGACA
** * *
99450 ATGAATTGAAATTTC-TGATTGTTTATATTATGAGA
1 ATGAATT-AAATTTCTTGATTAATTATAATATGACA
99485 ATG-ATTAAATTTC
1 ATGAATTAAATTTC
99498 GAAACTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 7 0.17
34 10 0.24
35 21 0.51
36 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (35 bp):
ATGAATTAAATTTCTTGATTAATTATAATATGACA
Found at i:112909 original size:21 final size:20
Alignment explanation
Indices: 112870--112919 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
112860 TTCCTTTTTC
*
112870 TCATAAAAAAGAAAGATAAT
1 TCATAAAAAAGAAAGATAAA
*
112890 TC-TAAAAAATATAAGAATAAA
1 TCATAAAAAAGA-AAG-ATAAA
112911 TCATAAAAA
1 TCATAAAAA
112920 TTCAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
20 5 0.20
21 6 0.24
22 6 0.24
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (20 bp):
TCATAAAAAAGAAAGATAAA
Found at i:113162 original size:18 final size:16
Alignment explanation
Indices: 113137--113172 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
113127 AAATCAAAAT
113137 AATATATAAAAATTAAA
1 AATATATAAAAA-TAAA
113154 AATATTATAAAAATAAA
1 AATA-TATAAAAATAAA
113171 AA
1 AA
113173 AAGCATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATATAAAAATAAA
Found at i:113173 original size:18 final size:17
Alignment explanation
Indices: 113125--113173 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
113115 TAAATTTTAA
113125 AAAAATCAAAATAATATAT
1 AAAAAT-AAAA-AATATAT
*
113144 AAAAATTAAAAATATTAT
1 AAAAATAAAAAATA-TAT
113162 AAAAATAAAAAA
1 AAAAATAAAAAA
113174 AGCATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 17 0.63
19 6 0.22
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATAAAAAATATAT
Found at i:113174 original size:20 final size:18
Alignment explanation
Indices: 113125--113174 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
113115 TAAATTTTAA
*
113125 AAAAATCAAAATAATATAT
1 AAAAAT-AAAAAAATATAT
*
113144 AAAAAT-TAAAAATATTAT
1 AAAAATAAAAAAATA-TAT
113162 AAAAATAAAAAAA
1 AAAAATAAAAAAA
113175 GCATTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATAAAAAAATATAT
Found at i:113389 original size:17 final size:17
Alignment explanation
Indices: 113361--113403 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
113351 TATTTTAGTA
113361 AATTT-TAT-TTTTTAT
1 AATTTATATATTTTTAT
*
113376 AATTTATATATTTTTCT
1 AATTTATATATTTTTAT
*
113393 AAATTATATAT
1 AATTTATATAT
113404 ATATTTCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 3 0.12
17 16 0.67
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTATATATTTTTAT
Found at i:113402 original size:19 final size:18
Alignment explanation
Indices: 113366--113416 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
113356 TAGTAAATTT
113366 TATTTTT-TATAATTTATA
1 TATTTTTCTA-AATTTATA
113384 TATTTTTCTAAATTATATA
1 TATTTTTCTAAATT-TATA
* *
113403 TATATTTCTGAATT
1 TATTTTTCTAAATT
113417 GTTATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTTTTCTAAATTTATA
Found at i:113424 original size:20 final size:19
Alignment explanation
Indices: 113378--113429 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
113368 TTTTTTATAA
*
113378 TTTATATATTTTTCTAAAT
1 TTTATATATATTTCTAAAT
* *
113397 TATATATATATTTCTGAAT
1 TTTATATATATTTCTAAAT
113416 TGTTATATATATTT
1 T-TTATATATATTT
113430 GTTTCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTATATATATTTCTAAAT
Found at i:113744 original size:24 final size:22
Alignment explanation
Indices: 113703--113762 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
113693 TAAATTTAAT
* * *
113703 TATATATGTCAAATAAATAATCA
1 TATATATATTAAATAAATAA-AA
*
113726 TATTGTATATTAAATAAATAAAA
1 TA-TATATATTAAATAAATAAAA
113749 TATATATATTAAAT
1 TATATATATTAAAT
113763 TTATATTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 11 0.35
23 5 0.16
24 15 0.48
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (22 bp):
TATATATATTAAATAAATAAAA
Found at i:113807 original size:20 final size:19
Alignment explanation
Indices: 113775--113825 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
113765 ATATTTATGT
113775 TAAATAATAAATTTATTAA
1 TAAATAATAAATTTATTAA
*
113794 TAAATAATTAAATTTATTCA
1 TAAATAA-TAAATTTATTAA
* *
113814 CAAAAAATAAAT
1 TAAATAATAAAT
113826 AATTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAATAAATTTATTAA
Found at i:124313 original size:36 final size:34
Alignment explanation
Indices: 124239--124314 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 34
124229 TGCTTCTAAA
** *
124239 ATAATATAAAAAATAACAATAAAATAAGAGTTAT
1 ATAATATAAAAAATAACAATAAAATAAGAGCAAC
124273 ATAATATCCAAAAAATAACAATAAAAT-AGTAGCAAC
1 ATAATAT--AAAAAATAACAATAAAATAAG-AGCAAC
124309 ATAATA
1 ATAATA
124315 GTGAAATGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 7 0.19
35 2 0.06
36 27 0.75
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (34 bp):
ATAATATAAAAAATAACAATAAAATAAGAGCAAC
Found at i:130852 original size:27 final size:27
Alignment explanation
Indices: 130821--130946 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
130811 CCTTCCTTAT
* *
130821 CTTCCTCCTTATCTGCCTCTGAAACAA
1 CTTCCTCCCTATCTTCCTCTGAAACAA
* * *
130848 CTTCCTCCCTATCTCCCTCTGGAACAG
1 CTTCCTCCCTATCTTCCTCTGAAACAA
* *
130875 CTTCCTCTCTATC-TCCTTCCGAAACAA
1 CTTCCTCCCTATCTTCC-TCTGAAACAA
*
130902 CTTCCTCCCTATCTTCCT-TCG-AACAG
1 CTTCCTCCCTATCTTCCTCT-GAAACAA
130928 CTTCCTCCCTATCTTCCTC
1 CTTCCTCCCTATCTTCCTC
130947 CCTATCTCCC
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
26 24 0.29
27 56 0.67
28 3 0.04
ACGTcount: A:0.17, C:0.43, G:0.06, T:0.34
Consensus pattern (27 bp):
CTTCCTCCCTATCTTCCTCTGAAACAA
Found at i:130888 original size:54 final size:51
Alignment explanation
Indices: 130821--130947 Score: 164
Period size: 54 Copynumber: 2.4 Consensus size: 51
130811 CCTTCCTTAT
* *
130821 CTTCCTCCTTATCTGCCTCTGAAACAACTTCCTCCCTATCTCCCTCTGGAACAG
1 CTTCCTCC-TATCT-CCTCCGAAACAACTTCCTCCCTATCTCCCT-TCGAACAG
*
130875 CTTCCTCTCTATCTCCTTCCGAAACAACTTCCTCCCTATCTTCCTTCGAACAG
1 CTTCCTC-CTATCTCC-TCCGAAACAACTTCCTCCCTATCTCCCTTCGAACAG
130928 CTTCCTCCCTATCTTCCTCC
1 CTTCCT-CCTATC-TCCTCC
130948 CTATCTCCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
53 23 0.35
54 42 0.64
55 1 0.02
ACGTcount: A:0.17, C:0.43, G:0.06, T:0.34
Consensus pattern (51 bp):
CTTCCTCCTATCTCCTCCGAAACAACTTCCTCCCTATCTCCCTTCGAACAG
Found at i:130945 original size:12 final size:12
Alignment explanation
Indices: 130928--130958 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
130918 CTTCGAACAG
130928 CTTCCTCCCTAT
1 CTTCCTCCCTAT
130940 CTTCCTCCCTAT
1 CTTCCTCCCTAT
*
130952 CTCCCTC
1 CTTCCTC
130959 TGGAACAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.55, G:0.00, T:0.39
Consensus pattern (12 bp):
CTTCCTCCCTAT
Found at i:130952 original size:65 final size:66
Alignment explanation
Indices: 130875--131007 Score: 164
Period size: 65 Copynumber: 2.0 Consensus size: 66
130865 TCTGGAACAG
* * *
130875 CTTCCTCTCTATCTCCTTCCGAAACA-ACTTCCTCCCTATCT-TC-CTTCGAACAGCTTCCTCCC
1 CTTCCTCCCTATCTCCCTCCGAAACAGA-TTCCTCCCTATCTCTCTC-TCGAACAACTTCCTCCC
130937 TAT
64 TAT
* * * *
130940 CTTCCTCCCTATCTCCCTCTGGAACAGATTCCTCTCTATCTCTCTCTGGAACAACTTCCTCCCTA
1 CTTCCTCCCTATCTCCCTCCGAAACAGATTCCTCCCTATCTCTCTCTCGAACAACTTCCTCCCTA
131005 T
66 T
131006 CT
1 CT
131008 CCCTTTGGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
65 34 0.59
66 23 0.40
67 1 0.02
ACGTcount: A:0.17, C:0.42, G:0.06, T:0.35
Consensus pattern (66 bp):
CTTCCTCCCTATCTCCCTCCGAAACAGATTCCTCCCTATCTCTCTCTCGAACAACTTCCTCCCTA
T
Found at i:130971 original size:27 final size:27
Alignment explanation
Indices: 130941--131031 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 27
130931 CCTCCCTATC
130941 TTCCTCCCTATCTCCCTCTGGAACAGA
1 TTCCTCCCTATCTCCCTCTGGAACAGA
* *
130968 TTCCTCTCTATCTCTCTCTGGAACA-A
1 TTCCTCCCTATCTCCCTCTGGAACAGA
* *
130994 CTTCCTCCCTATCTCCCTTTGGAACAGC
1 -TTCCTCCCTATCTCCCTCTGGAACAGA
131022 TTCCTTCCCT
1 TTCC-TCCCT
131032 CCCTCTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 1 0.02
27 49 0.89
28 5 0.09
ACGTcount: A:0.15, C:0.41, G:0.09, T:0.35
Consensus pattern (27 bp):
TTCCTCCCTATCTCCCTCTGGAACAGA
Found at i:130972 original size:92 final size:94
Alignment explanation
Indices: 130848--131031 Score: 293
Period size: 92 Copynumber: 2.0 Consensus size: 94
130838 TCTGAAACAA
*
130848 CTTCCTCCCTATCTCCCTCTGGAACAGCTTCCTCTCTATCTC-CTTCCGAAACAACTTCCTCCCT
1 CTTCCTCCCTATCTCCCTCTGGAACAGATTCCTCTCTATCTCTC-TCCGAAACAACTTCCTCCCT
*
130912 ATCTTCC-TTCGAACAGCTTCC-TCCCTAT
65 ATCTCCCTTTCGAACAGCTTCCTTCCCTAT
* *
130940 CTTCCTCCCTATCTCCCTCTGGAACAGATTCCTCTCTATCTCTCTCTGGAACAACTTCCTCCCTA
1 CTTCCTCCCTATCTCCCTCTGGAACAGATTCCTCTCTATCTCTCTCCGAAACAACTTCCTCCCTA
*
131005 TCTCCCTTTGGAACAGCTTCCTTCCCT
66 TCTCCCTTTCGAACAGCTTCCTTCCCT
131032 CCCTCTAAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
92 65 0.77
93 14 0.17
94 5 0.06
ACGTcount: A:0.16, C:0.42, G:0.08, T:0.34
Consensus pattern (94 bp):
CTTCCTCCCTATCTCCCTCTGGAACAGATTCCTCTCTATCTCTCTCCGAAACAACTTCCTCCCTA
TCTCCCTTTCGAACAGCTTCCTTCCCTAT
Found at i:130979 original size:39 final size:38
Alignment explanation
Indices: 130902--130980 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
130892 TCCGAAACAA
* *
130902 CTTCCTCCCTATCTTCCTTCGAACAGCTTCCTCCCTAT
1 CTTCCTCCCTATCTCCCTTCGAACAGATTCCTCCCTAT
* *
130940 CTTCCTCCCTATCTCCCTCTGGAACAGATTCCTCTCTAT
1 CTTCCTCCCTATCTCCCT-TCGAACAGATTCCTCCCTAT
130979 CT
1 CT
130981 CTCTCTGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 17 0.47
39 19 0.53
ACGTcount: A:0.14, C:0.43, G:0.06, T:0.37
Consensus pattern (38 bp):
CTTCCTCCCTATCTCCCTTCGAACAGATTCCTCCCTAT
Found at i:131882 original size:8 final size:8
Alignment explanation
Indices: 131862--131895 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
131852 TGACACAATA
131862 TACATT-T
1 TACATTGT
131869 TAACATTGT
1 T-ACATTGT
131878 TACATTGT
1 TACATTGT
131886 TACATTGT
1 TACATTGT
131894 TA
1 TA
131896 AATTCTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 1 0.04
8 22 0.88
9 2 0.08
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (8 bp):
TACATTGT
Found at i:132740 original size:15 final size:17
Alignment explanation
Indices: 132704--132741 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
132694 TTTTTATAGA
*
132704 AGTCAACAACATATCGC
1 AGTCAACAACATATCAC
132721 AGTCAACAACAT-T-AC
1 AGTCAACAACATATCAC
132736 AGTCAA
1 AGTCAA
132742 ACATTCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 1 0.05
17 12 0.60
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.18
Consensus pattern (17 bp):
AGTCAACAACATATCAC
Found at i:142311 original size:2 final size:2
Alignment explanation
Indices: 142304--142353 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
142294 AAATCATTAA
* *
142304 AT AT AT AT AT AT AT AT AC AT AT AT GT 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
*
142346 GT AT AT AT
1 AT AT AT AT
142354 CGACTGAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:142325 original size:18 final size:18
Alignment explanation
Indices: 142273--142353 Score: 90
Period size: 18 Copynumber: 4.4 Consensus size: 18
142263 TTAAATTATA
* *
142273 TATATATACACAAATATG
1 TATATATATACATATATG
* * *
142291 TATAAATCATTAAATATATA
1 TATATAT-A-TACATATATG
142311 TATATATATACATATATG
1 TATATATATACATATATG
*
142329 TATATATATATATATATG
1 TATATATATACATATATG
142347 TATATAT
1 TATATAT
142354 CGACTGAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
18 38 0.73
19 2 0.04
20 12 0.23
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (18 bp):
TATATATATACATATATG
Found at i:142831 original size:18 final size:17
Alignment explanation
Indices: 142808--142851 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
142798 GCAAAGGCAG
*
142808 ATAAAAACTAAAAGAAA
1 ATAAAAACTAAAAAAAA
142825 ATCAAAATA-TAAAAAAAA
1 AT-AAAA-ACTAAAAAAAA
142843 ATAAAAACT
1 ATAAAAACT
142852 GAATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.04
17 7 0.30
18 14 0.61
19 1 0.04
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (17 bp):
ATAAAAACTAAAAAAAA
Found at i:142848 original size:23 final size:23
Alignment explanation
Indices: 142808--142863 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
142798 GCAAAGGCAG
*
142808 ATAAAAACTAAAAGAAAATCAAAAT
1 ATAAAAA--AAAAGAAAAACAAAAT
* **
142833 ATAAAAAAAAATAAAAACTGAAT
1 ATAAAAAAAAAGAAAAACAAAAT
142856 ATAAAAAA
1 ATAAAAAA
142864 TTAAAGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.74
25 7 0.26
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (23 bp):
ATAAAAAAAAAGAAAAACAAAAT
Found at i:143120 original size:10 final size:10
Alignment explanation
Indices: 143092--143131 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
143082 AAAAGGGAAG
143092 ATAAAAAAAA
1 ATAAAAAAAA
**
143102 ATAGCAAAAA
1 ATAAAAAAAA
143112 ATAAAAAAAA
1 ATAAAAAAAA
143122 ACTAAAAAAA
1 A-TAAAAAAA
143132 TTATAGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (10 bp):
ATAAAAAAAA
Found at i:144283 original size:20 final size:20
Alignment explanation
Indices: 144223--144271 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
144213 ATTACTTTTG
*
144223 TTTATTTATTTTT-AT-A-A
1 TTTAATTATTTTTAATAATA
144240 TTTAATTATTTTTAATAATA
1 TTTAATTATTTTTAATAATA
144260 TTTAATTATTTT
1 TTTAATTATTTT
144272 ATATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 12 0.43
18 2 0.07
19 1 0.04
20 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTATTTTTAATAATA
Found at i:145775 original size:15 final size:15
Alignment explanation
Indices: 145752--145804 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
145742 GCCCATCATT
*
145752 ACCATCCACGCAAGC
1 ACCACCCACGCAAGC
145767 ACCACCCACGCAAGC
1 ACCACCCACGCAAGC
* * *
145782 ATCGCCCATGCAAGC
1 ACCACCCACGCAAGC
*
145797 ACCGCCCA
1 ACCACCCA
145805 TGCAGCAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.30, C:0.49, G:0.15, T:0.06
Consensus pattern (15 bp):
ACCACCCACGCAAGC
Found at i:145805 original size:15 final size:15
Alignment explanation
Indices: 145761--145808 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
145751 TACCATCCAC
* *
145761 GCAAGCACCACCCAC
1 GCAAGCACCGCCCAT
*
145776 GCAAGCATCGCCCAT
1 GCAAGCACCGCCCAT
145791 GCAAGCACCGCCCAT
1 GCAAGCACCGCCCAT
145806 GCA
1 GCA
145809 GCAAGTTACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.29, C:0.46, G:0.19, T:0.06
Consensus pattern (15 bp):
GCAAGCACCGCCCAT
Found at i:146910 original size:7 final size:7
Alignment explanation
Indices: 146863--146918 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
146853 ATGACTATTT
146863 AAAAATA
1 AAAAATA
*
146870 AATAATA
1 AAAAATA
*
146877 AATAATTA
1 AA-AAATA
146885 TAAAAATA
1 -AAAAATA
146893 AAACAGA-A
1 AAA-A-ATA
146901 AAAAATA
1 AAAAATA
146908 AAAAATA
1 AAAAATA
146915 AAAA
1 AAAA
146919 TTCTTTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 1 0.03
7 24 0.60
8 12 0.30
9 3 0.08
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:147116 original size:142 final size:142
Alignment explanation
Indices: 146866--147259 Score: 595
Period size: 142 Copynumber: 2.8 Consensus size: 142
146856 ACTATTTAAA
146866 AATAAATAA-TAAATAA-TT--ATAAAAATAAAACAGAAAAAAATAAAAAATAAA--AATTCTTT
1 AATAAATAATTAAATAATTTGAATAAAAATAAAACAG-AAAAAATAAAAAA-AAATTAATTCTTT
* * * * *
146925 CAATATGTTATGGGTTTTTTTCCCTAAAAAATATAAAATAAATACTAAAATTGTAATTTAACAAT
64 CAATTTATTAT-GGATTTTTTACCTAAAATATATAAAATAAATACTAAAATTGTAATTTAACAAT
146990 AAATAATAAATTTTC
128 AAATAATAAATTTTC
*
147005 AGTAAATAATTAAATAATTTGAATAAAAATAAAACAGAAAAAATAAAAAAAAATTAATTCTTTCA
1 AATAAATAATTAAATAATTTGAATAAAAATAAAACAGAAAAAATAAAAAAAAATTAATTCTTTCA
*
147070 ATTTATTATGGATTTTTTGCCTAAAATATATAAAATAAATACTAAAATTGTAATTTAACAATAAA
66 ATTTATTATGGATTTTTTACCTAAAATATATAAAATAAATACTAAAATTGTAATTTAACAATAAA
147135 TAATAAATTTTC
131 TAATAAATTTTC
* *
147147 AATAAATAATTAAATAATTTGAATAAAAATAAAACAGAAAAAATTAAAATAAATTTAATTCTTTC
1 AATAAATAATTAAATAATTTGAATAAAAATAAAACAGAAAAAA-TAAAAAAAAATTAATTCTTTC
* *
147212 AATTTTTTAT-GAGTTTTTTACCTAAAATATATAAAATAAATATTAAAA
65 AATTTATTATGGA-TTTTTTACCTAAAATATATAAAATAAATACTAAAA
147260 CTCTAATCTT
Statistics
Matches: 235, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
139 8 0.03
140 7 0.03
141 5 0.02
142 122 0.52
143 93 0.40
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (142 bp):
AATAAATAATTAAATAATTTGAATAAAAATAAAACAGAAAAAATAAAAAAAAATTAATTCTTTCA
ATTTATTATGGATTTTTTACCTAAAATATATAAAATAAATACTAAAATTGTAATTTAACAATAAA
TAATAAATTTTC
Found at i:147149 original size:18 final size:19
Alignment explanation
Indices: 147128--147179 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
147118 TGTAATTTAA
147128 CAATAAATAATAAAT-TTT
1 CAATAAATAATAAATATTT
147146 CAATAAATAATTAAATAATTT
1 CAATAAATAA-TAAAT-ATTT
*
147167 GAATAAA-AATAAA
1 CAATAAATAATAAA
147180 ACAGAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.33
19 9 0.30
20 2 0.07
21 9 0.30
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (19 bp):
CAATAAATAATAAATATTT
Found at i:147320 original size:21 final size:21
Alignment explanation
Indices: 147257--147321 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
147247 ATAAATATTA
*
147257 AAACTCTAATCTTAAAAACAT
1 AAACTCTAATCTTAAAAACCT
* *
147278 AAACCCTAA-CCTAAAAATCCT
1 AAACTCTAATCTTAAAAA-CCT
* *
147299 AAACTCTAATTTTAAAACCCT
1 AAACTCTAATCTTAAAAACCT
147320 AA
1 AA
147322 GGCCCAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 7 0.20
21 23 0.66
22 5 0.14
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (21 bp):
AAACTCTAATCTTAAAAACCT
Found at i:151789 original size:32 final size:33
Alignment explanation
Indices: 151728--151800 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
151718 CTATTTACTT
* * ** *
151728 AAAATAAATAATTTTAGTCAAAATGAAATTAGG
1 AAAATAAATAAATTTAATCAAAACAAAATTAAG
*
151761 AAAATAAA-AAATTTAATCAAAACAAAATTAAT
1 AAAATAAATAAATTTAATCAAAACAAAATTAAG
151793 AAAATAAA
1 AAAATAAA
151801 CAACTTTGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 26 0.76
33 8 0.24
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.26
Consensus pattern (33 bp):
AAAATAAATAAATTTAATCAAAACAAAATTAAG
Found at i:152614 original size:19 final size:20
Alignment explanation
Indices: 152590--152628 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
152580 GTAACCAAGT
152590 CTAA-TTTATTTATTCACAA
1 CTAATTTTATTTATTCACAA
152609 CTAATTTTTATTTATTCACA
1 CTAA-TTTTATTTATTCACA
152629 TGATTTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
CTAATTTTATTTATTCACAA
Found at i:155296 original size:13 final size:13
Alignment explanation
Indices: 155278--155318 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
155268 TATTTCCTTC
155278 CTTTTTCCCTTTT
1 CTTTTTCCCTTTT
*
155291 CTTTTT-CTTTTT
1 CTTTTTCCCTTTT
*
155303 TTTTTTCCC-TTT
1 CTTTTTCCCTTTT
155315 CTTT
1 CTTT
155319 CTTTGCTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTCCCTTTT
Found at i:155545 original size:25 final size:23
Alignment explanation
Indices: 155489--155547 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
155479 ACTTTCTCTC
155489 TTTTATTTTGGGTTTGGTGGTTG
1 TTTTATTTTGGGTTTGGTGGTTG
155512 TTTGGTATTTTGGGTTTGGGTAAGGTT-
1 TTT--TATTTTGGGTTT-GGT--GGTTG
155539 TTTTATTTT
1 TTTTATTTT
155548 AGGTGGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 3 0.10
25 18 0.58
26 3 0.10
27 3 0.10
28 4 0.13
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.61
Consensus pattern (23 bp):
TTTTATTTTGGGTTTGGTGGTTG
Found at i:163493 original size:36 final size:36
Alignment explanation
Indices: 163452--163524 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
163442 CATACTTACT
* *
163452 AAAAAATAACTCATTTTGCCACATGCTTGCTAAAAA
1 AAAAAAAAACTCACTTTGCCACATGCTTGCTAAAAA
* **
163488 AAAAAAAAACTCCCTTTGTGACATGCTTGCTAAAAA
1 AAAAAAAAACTCACTTTGCCACATGCTTGCTAAAAA
163524 A
1 A
163525 TTACTCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (36 bp):
AAAAAAAAACTCACTTTGCCACATGCTTGCTAAAAA
Found at i:164042 original size:26 final size:26
Alignment explanation
Indices: 164002--164065 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
163992 CCAAACACTT
*
164002 TTAAATAAA-CAATTAATAGAA-TAAA
1 TTAATTAAATCAATTAATAGAACT-AA
*
164027 TTGATTAAATCAATTAATAGAACTAA
1 TTAATTAAATCAATTAATAGAACTAA
*
164053 TTAATCAAATCAA
1 TTAATTAAATCAA
164066 CCATAGCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 7 0.21
26 25 0.76
27 1 0.03
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (26 bp):
TTAATTAAATCAATTAATAGAACTAA
Found at i:164265 original size:20 final size:21
Alignment explanation
Indices: 164231--164269 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
164221 GCTTTAAAAT
164231 TAACTTTTATTTTTGAAATCG
1 TAACTTTTATTTTTGAAATCG
164252 TAACTTTT-TTTTTGAAAT
1 TAACTTTTATTTTTGAAAT
164270 ATAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (21 bp):
TAACTTTTATTTTTGAAATCG
Found at i:165087 original size:29 final size:29
Alignment explanation
Indices: 165048--165145 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 29
165038 GAAATAATAC
*
165048 AGATATAGTTATAGACACAATCATGTCAG
1 AGATATAGTTATAGATACAATCATGTCAG
* * *
165077 AGATACAGTTATAGATACAGTCGA-ATCAG
1 AGATATAGTTATAGATACAATC-ATGTCAG
* * * *
165106 AGATATAATTACAGATGCAATCATGTCAT
1 AGATATAGTTATAGATACAATCATGTCAG
165135 AGATATAGTTA
1 AGATATAGTTA
165146 CGGATGCAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.02
29 53 0.96
30 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (29 bp):
AGATATAGTTATAGATACAATCATGTCAG
Found at i:165965 original size:41 final size:41
Alignment explanation
Indices: 165856--165969 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 41
165846 AGAACATCAT
* * * * *
165856 ACACACACCTTGACACACGCTCATGTGTCAGTACGTGTGCC
1 ACACACACCTTGACACAAGCCCATGTGCCAGCACGTATGCC
* * *
165897 ACACACACCCTGACACACA-CCTATGTGCCAGCCCGTATGCC
1 ACACACACCTTGACACA-AGCCCATGTGCCAGCACGTATGCC
* *
165938 ACATACACCTTGACACAAGCCCGTGTGCCAGC
1 ACACACACCTTGACACAAGCCCATGTGCCAGC
165970 TCGTGTGTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
40 1 0.02
41 58 0.98
ACGTcount: A:0.26, C:0.39, G:0.18, T:0.18
Consensus pattern (41 bp):
ACACACACCTTGACACAAGCCCATGTGCCAGCACGTATGCC
Found at i:167173 original size:6 final size:6
Alignment explanation
Indices: 167162--167248 Score: 69
Period size: 6 Copynumber: 15.2 Consensus size: 6
167152 GGGCCCAACA
* * * *
167162 AAATTT AAATTT -ATTTT AAAATT AAGTTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
167208 --TTTT GAAATTT AAATTT --ATTAT AAATTT AAATTT AAATTT A
1 AAATTT -AAATTT AAATTT AAATT-T AAATTT AAATTT AAATTT A
167249 TTTAAATAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
4 6 0.09
5 9 0.14
6 43 0.67
7 6 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (6 bp):
AAATTT
Found at i:167191 original size:17 final size:17
Alignment explanation
Indices: 167162--167242 Score: 119
Period size: 17 Copynumber: 4.8 Consensus size: 17
167152 GGGCCCAACA
167162 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTTT
* *
167179 AAAATTAAGTTTATTTT
1 AAATTTAAATTTATTTT
167196 AAATTTAAATTT-TTTT
1 AAATTTAAATTTATTTT
*
167212 GAAATTTAAATTTATTAT
1 -AAATTTAAATTTATTTT
167230 AAATTTAAATTTA
1 AAATTTAAATTTA
167243 AATTTATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
16 4 0.07
17 50 0.88
18 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AAATTTAAATTTATTTT
Found at i:167239 original size:23 final size:22
Alignment explanation
Indices: 167213--167255 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
167203 AATTTTTTTG
167213 AAATTTAAATTTATTATAAATTT
1 AAATTTAAATTTATT-TAAATTT
167236 AAATTTAAATTTATTTAAAT
1 AAATTTAAATTTATTTAAAT
167256 AATGTCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTTAAATTTATTTAAATTT
Found at i:179641 original size:115 final size:115
Alignment explanation
Indices: 179488--179819 Score: 369
Period size: 116 Copynumber: 2.9 Consensus size: 115
179478 CAAACCCACG
* * *
179488 CTCGATGTGAGCAAATCCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAATAA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAACAA
*
179553 TAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTATACCAACTCAGGA
66 TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGA
* * * * * * *
179603 CTCGATGTGATCAAGTCTTCGAATCCTATCTTCCTGATGAGATACAGAGAAGC-GGATTGAAACA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGG-TCGAAACA
*** * * * * * * ** *
179667 AGTAAGGCGATCATCTTCTTGATGAGAAACAAAGAAAAATACCAACTTAGGA
65 A-TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGA
* * * * * *
179719 CTCGATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGGTACTAAGAAGTAGATCGAAGCAA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAACAA
*
179784 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGT
66 TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGT
179820 GAACCGAATT
Statistics
Matches: 166, Mismatches: 48, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
114 2 0.01
115 76 0.46
116 87 0.52
117 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (115 bp):
CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAACAA
TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGA
Found at i:179740 original size:116 final size:116
Alignment explanation
Indices: 179396--179811 Score: 365
Period size: 116 Copynumber: 3.6 Consensus size: 116
179386 CCAAATTCGT
* * *
179396 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
* * * * *
179461 TAAGAAGAAGACCACATCAAACCCACG-CTCGATGTGAGCAAATCCTCGAACCCCAG
66 AAAGAA-AA-A-TAC--C-AACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
* ** * ** * * *
179517 CTTCCTGATGAGATACTGAGAAGCAGG-TCAAAATAA-TAAAATGGTTAGCTTCCTGATAAGATA
1 CTTCCTGATGAGATACAGAGAAGC-GGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATA
* ** * * * * *
179580 CAGAGAAGTATACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTAT
65 CAAAGAAAAATACCAACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
* * * *
179632 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAGGCGATCATCTTCTTGATGAGAAAC
1 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
* *
179697 AAAGAAAAATACCAACTTAGGACTCGATGCGAGCAAATCTTCGAACCCCAG
66 AAAGAAAAATACCAACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
* ** * * ** * *
179748 CTTCCTGATGAGGTACTA-AGAAGTAGATCGAAGCAA-TAAAATGGTTAGCTTCCTGATGAGATA
1 CTTCCTGATGAGATAC-AGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATA
179811 C
65 C
179812 TGAGAAGTGA
Statistics
Matches: 229, Mismatches: 61, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
114 8 0.03
115 73 0.32
116 89 0.39
117 3 0.01
118 1 0.00
120 25 0.11
121 29 0.13
122 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (116 bp):
CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
AAAGAAAAATACCAACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
Found at i:179803 original size:231 final size:235
Alignment explanation
Indices: 179395--179819 Score: 599
Period size: 231 Copynumber: 1.8 Consensus size: 235
179385 ACCAAATTCG
* * * *
179395 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGATCATCTTCCTGATGAGAAA
* *
179460 CTAAGAAGAAGACCACATCAAACCCACGCTCGATGTGAGCAAATCCTCGAACCCCAGCTTCCTGA
66 CAAAGAAGAAGACCACA-CAAACCCACGCTCGATGCGAGCAAATCCTCGAACCCCAGCTTCCTGA
* * *
179525 TGAGATACTGAGAAGCAGGTCAAAATAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTA
130 TGAGATACTAAGAAGCAGATCAAAACAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTA
179590 TACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTA
195 TACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTA
* *
179631 TCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAGGCGATCATCTTCTTGATGAGAAA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGATCATCTTCCTGATGAGAAA
* ** * *
179696 CAAAGAA-AA-A-TAC-C-AACTTAGGACTCGATGCGAGCAAATCTTCGAACCCCAGCTTCCTGA
66 CAAAGAAGAAGACCACACAAACCCACG-CTCGATGCGAGCAAATCCTCGAACCCCAGCTTCCTGA
* * * * * *
179756 TGAGGTACTAAGAAGTAGATCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGT
130 TGAGATACTAAGAAGCAGATCAAAACAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGT
179820 GAACCGAATT
Statistics
Matches: 166, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
230 5 0.03
231 91 0.55
233 2 0.01
234 1 0.01
235 2 0.01
236 65 0.39
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (235 bp):
TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGATCATCTTCCTGATGAGAAA
CAAAGAAGAAGACCACACAAACCCACGCTCGATGCGAGCAAATCCTCGAACCCCAGCTTCCTGAT
GAGATACTAAGAAGCAGATCAAAACAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTAT
ACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTA
Found at i:180504 original size:17 final size:16
Alignment explanation
Indices: 180474--180527 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
180464 TGGGTCGAAC
180474 AAAATTTAAATTTACTTT
1 AAAA-TTAAATTTA-TTT
*
180492 AAAATTAAGTTTATTTT
1 AAAATTAAATTTA-TTT
*
180509 AAATTTAAATTTATTT
1 AAAATTAAATTTATTT
180525 AAA
1 AAA
180528 TAATGTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 6 0.19
17 22 0.69
18 4 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AAAATTAAATTTATTT
Found at i:182444 original size:29 final size:28
Alignment explanation
Indices: 182400--182591 Score: 176
Period size: 29 Copynumber: 6.6 Consensus size: 28
182390 CCCTAAACCG
*
182400 TCCAAAAATTCCATTTTCACCCCCGAACT
1 TCCAAAAATTCCATTTT-ACCCTCGAACT
*
182429 TCCAAAAATTCAATTTTGA-CCTCGAAACT
1 TCCAAAAATTCCATTTT-ACCCTCG-AACT
*
182458 TCCAAAAATTCTATTTTTACCCTCGAACT
1 TCCAAAAATTCCA-TTTTACCCTCGAACT
*
182487 TCCAAAAATTCCATCTTTACCCTCGAACC
1 TCCAAAAATTCCAT-TTTACCCTCGAACT
* * *
182516 TCTAAAATTTCCATTTTTGA-CCTCAAAACT
1 TCCAAAAATTCCA-TTTT-ACCCTC-GAACT
*
182546 TTCAAAAATTACCATTTTACCCTC-AGA-T
1 TCCAAAAATT-CCATTTTACCCTCGA-ACT
*
182574 GTCCAAAAACTCCATTTT
1 -TCCAAAAATTCCATTTT
182592 CGACCTCGAA
Statistics
Matches: 137, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
28 14 0.10
29 91 0.66
30 29 0.21
31 3 0.02
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (28 bp):
TCCAAAAATTCCATTTTACCCTCGAACT
Found at i:182532 original size:58 final size:58
Alignment explanation
Indices: 182394--182591 Score: 197
Period size: 58 Copynumber: 3.4 Consensus size: 58
182384 GAAGGTCCCT
* * *
182394 AAACCGTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATTCAATTTTGA-CCTCG
1 AAACC-TCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTT-ACCCTCG
* *
182453 AAACTTCCAAAAATTCTATTTTTACCCTCGAACTTCCAAAAATTCCATCTTTACCCTCG
1 AAACCTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCAT-TTTACCCTCG
* * * *
182512 -AACCTCTAAAATTTCCATTTTTGA-CCTCAAAACTTTCAAAAATTACCATTTTACCCTC-
1 AAACCTCCAAAAATTCCATTTTT-ACCCTC-GAACTTCCAAAAATT-CCATTTTACCCTCG
* ** *
182570 AGATGTCCAAAAACTCCATTTT
1 AAACCTCCAAAAATTCCATTTT
182592 CGACCTCGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 62 0.53
59 50 0.43
60 4 0.03
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (58 bp):
AAACCTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTACCCTCG
Found at i:182579 original size:88 final size:88
Alignment explanation
Indices: 182399--182592 Score: 236
Period size: 88 Copynumber: 2.2 Consensus size: 88
182389 TCCCTAAACC
* *
182399 GTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATTCAATTTTGACCTCGAAACTTCCAAA
1 GTCCAAAAATTCCATTTTCACCCCCGAACCTCCAAAAATTCAATTTTGACCTCAAAACTTCCAAA
*
182464 AATTCTATTTTTACCCTCGAACT
66 AATTCCATTTTTACCCTCGAACT
* * * * *
182487 -TCCAAAAATTCCATCTTT-ACCCTCGAACCTCTAAAATTTCCATTTTTGACCTCAAAACTTTCA
1 GTCCAAAAATTCCAT-TTTCACCCCCGAACCTCCAAAAATT-CAATTTTGACCTCAAAACTTCCA
182550 AAAATTACCA-TTTTACCCTC-AGA-T
64 AAAATT-CCATTTTTACCCTCGA-ACT
*
182574 GTCCAAAAACTCCATTTTC
1 GTCCAAAAATTCCATTTTC
182593 GACCTCGAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
87 36 0.40
88 53 0.58
89 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (88 bp):
GTCCAAAAATTCCATTTTCACCCCCGAACCTCCAAAAATTCAATTTTGACCTCAAAACTTCCAAA
AATTCCATTTTTACCCTCGAACT
Found at i:184944 original size:29 final size:29
Alignment explanation
Indices: 184863--184994 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 29
184853 ATAGAAATAA
* * *
184863 TACAGATACAGTCATATCAGAGATACAGT
1 TACAGATGCAGTCATGTCACAGATACAGT
** * * * *
184892 TACAGATATAATCGA-ATAAGAGATACAGT
1 TACAGATGCAGTC-ATGTCACAGATACAGT
*
184921 TACAGATGCAGTCATGTCACAGATATAGT
1 TACAGATGCAGTCATGTCACAGATACAGT
* ** *
184950 TACGGATGCAAACATGAT-ACAGATACATT
1 TACAGATGCAGTCATG-TCACAGATACAGT
* *
184979 TATAGATGCAGACATG
1 TACAGATGCAGTCATG
184995 ATACCCCCAT
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.01
29 79 0.96
30 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (29 bp):
TACAGATGCAGTCATGTCACAGATACAGT
Found at i:184995 original size:29 final size:29
Alignment explanation
Indices: 184912--184998 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
184902 ATCGAATAAG
*
184912 AGATACAGTTACAGATGCAGTCATG-TCAC
1 AGATACAGTTACAGATGCAGACATGAT-AC
* * *
184941 AGATATAGTTACGGATGCAAACATGATAC
1 AGATACAGTTACAGATGCAGACATGATAC
* *
184970 AGATACATTTATAGATGCAGACATGATAC
1 AGATACAGTTACAGATGCAGACATGATAC
184999 CCCCATCCGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
29 47 0.98
30 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (29 bp):
AGATACAGTTACAGATGCAGACATGATAC
Found at i:185367 original size:12 final size:13
Alignment explanation
Indices: 185350--185381 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
185340 TTACATGTGA
185350 AAATAATA-AAAT
1 AAATAATATAAAT
185362 AAATAA-ATAAAT
1 AAATAATATAAAT
185374 AAATAATA
1 AAATAATA
185382 CATTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 16 0.89
13 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAATATAAAT
Found at i:186371 original size:30 final size:30
Alignment explanation
Indices: 186331--186393 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
186321 GTTTTGGTTT
*
186331 TTTACCAAAATAAAATATAAAAAATATTTA
1 TTTACCAAAATAAAATACAAAAAATATTTA
* * *
186361 TTTACTAAAATAATATACAAAAATTATTTA
1 TTTACCAAAATAAAATACAAAAAATATTTA
186391 TTT
1 TTT
186394 TATTTGACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTACCAAAATAAAATACAAAAAATATTTA
Found at i:186396 original size:35 final size:36
Alignment explanation
Indices: 186357--186429 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
186347 ATAAAAAATA
* *
186357 TTTATTT-ACTAAAATAATA-TACAAAAATTATTTAT
1 TTTATTTGACTAAAATAATATTA-AAAAACTATTAAT
*
186392 TTTATTTGACTAAAGTAATATTAAAAAACTATTAAT
1 TTTATTTGACTAAAATAATATTAAAAAACTATTAAT
186428 TT
1 TT
186430 AATAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 7 0.21
36 24 0.73
37 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTATTTGACTAAAATAATATTAAAAAACTATTAAT
Found at i:186563 original size:3 final size:3
Alignment explanation
Indices: 186555--186602 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
186545 TCATTTAAAT
186555 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
186603 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:191524 original size:115 final size:115
Alignment explanation
Indices: 191371--191702 Score: 369
Period size: 116 Copynumber: 2.9 Consensus size: 115
191361 CAAACCCACG
* * *
191371 CTCGATGTGAGCAAATCCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAATAA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAACAA
*
191436 TAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTATACCAACTCAGGA
66 TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGA
* * * * * * *
191486 CTCGATGTGATCAAGTCTTCGAATCCTATCTTCCTGATGAGATACAGAGAAGC-GGATTGAAACA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGG-TCGAAACA
*** * * * * * * ** *
191550 AGTAAGGCGATCATCTTCTTGATGAGAAACAAAGAAAAATACCAACTTAGGA
65 A-TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGA
* * * * * *
191602 CTCGATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGGTACTAAGAAGTAGATCGAAGCAA
1 CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAACAA
*
191667 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGT
66 TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGT
191703 GAACCGAATT
Statistics
Matches: 166, Mismatches: 48, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
114 2 0.01
115 76 0.46
116 87 0.52
117 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (115 bp):
CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAACAA
TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGA
Found at i:191623 original size:116 final size:116
Alignment explanation
Indices: 191279--191694 Score: 365
Period size: 116 Copynumber: 3.6 Consensus size: 116
191269 CCAAATTCGT
* * *
191279 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
* * * * *
191344 TAAGAAGAAGACCACATCAAACCCACG-CTCGATGTGAGCAAATCCTCGAACCCCAG
66 AAAGAA-AA-A-TAC--C-AACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
* ** * ** * * *
191400 CTTCCTGATGAGATACTGAGAAGCAGG-TCAAAATAA-TAAAATGGTTAGCTTCCTGATAAGATA
1 CTTCCTGATGAGATACAGAGAAGC-GGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATA
* ** * * * * *
191463 CAGAGAAGTATACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTAT
65 CAAAGAAAAATACCAACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
* * * *
191515 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAGGCGATCATCTTCTTGATGAGAAAC
1 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
* *
191580 AAAGAAAAATACCAACTTAGGACTCGATGCGAGCAAATCTTCGAACCCCAG
66 AAAGAAAAATACCAACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
* ** * * ** * *
191631 CTTCCTGATGAGGTACTA-AGAAGTAGATCGAAGCAA-TAAAATGGTTAGCTTCCTGATGAGATA
1 CTTCCTGATGAGATAC-AGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATA
191694 C
65 C
191695 TGAGAAGTGA
Statistics
Matches: 229, Mismatches: 61, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
114 8 0.03
115 73 0.32
116 89 0.39
117 3 0.01
118 1 0.00
120 25 0.11
121 29 0.13
122 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (116 bp):
CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
AAAGAAAAATACCAACTCAGGACTCGATGTGAGCAAATCTTCGAACCCCAG
Found at i:191686 original size:231 final size:235
Alignment explanation
Indices: 191278--191702 Score: 599
Period size: 231 Copynumber: 1.8 Consensus size: 235
191268 ACCAAATTCG
* * * *
191278 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGATCATCTTCCTGATGAGAAA
* *
191343 CTAAGAAGAAGACCACATCAAACCCACGCTCGATGTGAGCAAATCCTCGAACCCCAGCTTCCTGA
66 CAAAGAAGAAGACCACA-CAAACCCACGCTCGATGCGAGCAAATCCTCGAACCCCAGCTTCCTGA
* * *
191408 TGAGATACTGAGAAGCAGGTCAAAATAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTA
130 TGAGATACTAAGAAGCAGATCAAAACAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTA
191473 TACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTA
195 TACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTA
* *
191514 TCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTAAGGCGATCATCTTCTTGATGAGAAA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGATCATCTTCCTGATGAGAAA
* ** * *
191579 CAAAGAA-AA-A-TAC-C-AACTTAGGACTCGATGCGAGCAAATCTTCGAACCCCAGCTTCCTGA
66 CAAAGAAGAAGACCACACAAACCCACG-CTCGATGCGAGCAAATCCTCGAACCCCAGCTTCCTGA
* * * * * *
191639 TGAGGTACTAAGAAGTAGATCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGT
130 TGAGATACTAAGAAGCAGATCAAAACAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGT
191703 GAACCGAATT
Statistics
Matches: 166, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
230 5 0.03
231 91 0.55
233 2 0.01
234 1 0.01
235 2 0.01
236 65 0.39
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (235 bp):
TCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGATCATCTTCCTGATGAGAAA
CAAAGAAGAAGACCACACAAACCCACGCTCGATGCGAGCAAATCCTCGAACCCCAGCTTCCTGAT
GAGATACTAAGAAGCAGATCAAAACAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTAT
ACCAACTCAGGACTCGATGTGATCAAGTCTTCGAATCCTA
Found at i:192387 original size:17 final size:16
Alignment explanation
Indices: 192357--192410 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
192347 TGGGTCGAAC
192357 AAAATTTAAATTTACTTT
1 AAAA-TTAAATTTA-TTT
*
192375 AAAATTAAGTTTATTTT
1 AAAATTAAATTTA-TTT
*
192392 AAATTTAAATTTATTT
1 AAAATTAAATTTATTT
192408 AAA
1 AAA
192411 TAATGTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 6 0.19
17 22 0.69
18 4 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AAAATTAAATTTATTT
Found at i:194327 original size:29 final size:28
Alignment explanation
Indices: 194283--194474 Score: 176
Period size: 29 Copynumber: 6.6 Consensus size: 28
194273 CCCTAAACCG
*
194283 TCCAAAAATTCCATTTTCACCCCCGAACT
1 TCCAAAAATTCCATTTT-ACCCTCGAACT
*
194312 TCCAAAAATTCAATTTTGA-CCTCGAAACT
1 TCCAAAAATTCCATTTT-ACCCTCG-AACT
*
194341 TCCAAAAATTCTATTTTTACCCTCGAACT
1 TCCAAAAATTCCA-TTTTACCCTCGAACT
*
194370 TCCAAAAATTCCATCTTTACCCTCGAACC
1 TCCAAAAATTCCAT-TTTACCCTCGAACT
* * *
194399 TCTAAAATTTCCATTTTTGA-CCTCAAAACT
1 TCCAAAAATTCCA-TTTT-ACCCTC-GAACT
*
194429 TTCAAAAATTACCATTTTACCCTC-AGA-T
1 TCCAAAAATT-CCATTTTACCCTCGA-ACT
*
194457 GTCCAAAAACTCCATTTT
1 -TCCAAAAATTCCATTTT
194475 CGACCTCGAA
Statistics
Matches: 137, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
28 14 0.10
29 91 0.66
30 29 0.21
31 3 0.02
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (28 bp):
TCCAAAAATTCCATTTTACCCTCGAACT
Found at i:194415 original size:58 final size:58
Alignment explanation
Indices: 194277--194474 Score: 197
Period size: 58 Copynumber: 3.4 Consensus size: 58
194267 GAAGGTCCCT
* * *
194277 AAACCGTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATTCAATTTTGA-CCTCG
1 AAACC-TCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTT-ACCCTCG
* *
194336 AAACTTCCAAAAATTCTATTTTTACCCTCGAACTTCCAAAAATTCCATCTTTACCCTCG
1 AAACCTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCAT-TTTACCCTCG
* * * *
194395 -AACCTCTAAAATTTCCATTTTTGA-CCTCAAAACTTTCAAAAATTACCATTTTACCCTC-
1 AAACCTCCAAAAATTCCATTTTT-ACCCTC-GAACTTCCAAAAATT-CCATTTTACCCTCG
* ** *
194453 AGATGTCCAAAAACTCCATTTT
1 AAACCTCCAAAAATTCCATTTT
194475 CGACCTCGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 62 0.53
59 50 0.43
60 4 0.03
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (58 bp):
AAACCTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTACCCTCG
Found at i:194462 original size:88 final size:88
Alignment explanation
Indices: 194282--194475 Score: 236
Period size: 88 Copynumber: 2.2 Consensus size: 88
194272 TCCCTAAACC
* *
194282 GTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATTCAATTTTGACCTCGAAACTTCCAAA
1 GTCCAAAAATTCCATTTTCACCCCCGAACCTCCAAAAATTCAATTTTGACCTCAAAACTTCCAAA
*
194347 AATTCTATTTTTACCCTCGAACT
66 AATTCCATTTTTACCCTCGAACT
* * * * *
194370 -TCCAAAAATTCCATCTTT-ACCCTCGAACCTCTAAAATTTCCATTTTTGACCTCAAAACTTTCA
1 GTCCAAAAATTCCAT-TTTCACCCCCGAACCTCCAAAAATT-CAATTTTGACCTCAAAACTTCCA
194433 AAAATTACCA-TTTTACCCTC-AGA-T
64 AAAATT-CCATTTTTACCCTCGA-ACT
*
194457 GTCCAAAAACTCCATTTTC
1 GTCCAAAAATTCCATTTTC
194476 GACCTCGAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
87 36 0.40
88 53 0.58
89 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (88 bp):
GTCCAAAAATTCCATTTTCACCCCCGAACCTCCAAAAATTCAATTTTGACCTCAAAACTTCCAAA
AATTCCATTTTTACCCTCGAACT
Found at i:196827 original size:29 final size:29
Alignment explanation
Indices: 196746--196877 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 29
196736 ATAGAAATAA
* * *
196746 TACAGATACAGTCATATCAGAGATACAGT
1 TACAGATGCAGTCATGTCACAGATACAGT
** * * * *
196775 TACAGATATAATCGA-ATAAGAGATACAGT
1 TACAGATGCAGTC-ATGTCACAGATACAGT
*
196804 TACAGATGCAGTCATGTCACAGATATAGT
1 TACAGATGCAGTCATGTCACAGATACAGT
* ** *
196833 TACGGATGCAAACATGAT-ACAGATACATT
1 TACAGATGCAGTCATG-TCACAGATACAGT
* *
196862 TATAGATGCAGACATG
1 TACAGATGCAGTCATG
196878 ATACCCCCAT
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.01
29 79 0.96
30 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (29 bp):
TACAGATGCAGTCATGTCACAGATACAGT
Found at i:196878 original size:29 final size:29
Alignment explanation
Indices: 196795--196881 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
196785 ATCGAATAAG
*
196795 AGATACAGTTACAGATGCAGTCATG-TCAC
1 AGATACAGTTACAGATGCAGACATGAT-AC
* * *
196824 AGATATAGTTACGGATGCAAACATGATAC
1 AGATACAGTTACAGATGCAGACATGATAC
* *
196853 AGATACATTTATAGATGCAGACATGATAC
1 AGATACAGTTACAGATGCAGACATGATAC
196882 CCCCATCCGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
29 47 0.98
30 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (29 bp):
AGATACAGTTACAGATGCAGACATGATAC
Found at i:197250 original size:12 final size:13
Alignment explanation
Indices: 197233--197264 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
197223 TTACATGTGA
197233 AAATAATA-AAAT
1 AAATAATATAAAT
197245 AAATAA-ATAAAT
1 AAATAATATAAAT
197257 AAATAATA
1 AAATAATA
197265 CATTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 16 0.89
13 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAATATAAAT
Found at i:198254 original size:30 final size:30
Alignment explanation
Indices: 198214--198276 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
198204 GTTTTGGTTT
*
198214 TTTACCAAAATAAAATATAAAAAATATTTA
1 TTTACCAAAATAAAATACAAAAAATATTTA
* * *
198244 TTTACTAAAATAATATACAAAAATTATTTA
1 TTTACCAAAATAAAATACAAAAAATATTTA
198274 TTT
1 TTT
198277 TATTTGACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTACCAAAATAAAATACAAAAAATATTTA
Found at i:198279 original size:35 final size:36
Alignment explanation
Indices: 198240--198312 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
198230 ATAAAAAATA
* *
198240 TTTATTT-ACTAAAATAATA-TACAAAAATTATTTAT
1 TTTATTTGACTAAAATAATATTA-AAAAACTATTAAT
*
198275 TTTATTTGACTAAAGTAATATTAAAAAACTATTAAT
1 TTTATTTGACTAAAATAATATTAAAAAACTATTAAT
198311 TT
1 TT
198313 AATAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 7 0.21
36 24 0.73
37 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTATTTGACTAAAATAATATTAAAAAACTATTAAT
Found at i:198446 original size:3 final size:3
Alignment explanation
Indices: 198438--198491 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
198428 TCATTTAAAT
198438 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
198486 ATA ATA
1 ATA ATA
198492 GTGGTGCCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:198599 original size:18 final size:18
Alignment explanation
Indices: 198576--198637 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 18
198566 AGTTTAGGTG
198576 ATTAATGTTAAGTTTGAT
1 ATTAATGTTAAGTTTGAT
*
198594 ATTAATTTGTTATAAATTT-AT
1 ATTAA--TG-T-TAAGTTTGAT
198615 -TTAATGTTAAGTTTGAT
1 ATTAATGTTAAGTTTGAT
198632 ATTAAT
1 ATTAAT
198638 TTGTTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
16 6 0.17
17 3 0.08
18 12 0.33
20 6 0.17
21 3 0.08
22 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTAATGTTAAGTTTGAT
Found at i:198628 original size:38 final size:38
Alignment explanation
Indices: 198577--198654 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
198567 GTTTAGGTGA
198577 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
1 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
198615 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
1 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
198653 TT
1 TT
198655 TAGTATGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (38 bp):
TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
Found at i:199344 original size:12 final size:12
Alignment explanation
Indices: 199329--199353 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
199319 CGAATGACGA
199329 TGAAAATCCAGT
1 TGAAAATCCAGT
199341 TGAAAATCCAGT
1 TGAAAATCCAGT
199353 T
1 T
199354 ACACATATTG
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TGAAAATCCAGT
Found at i:202530 original size:3 final size:3
Alignment explanation
Indices: 202522--202569 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
202512 NNNNNNNNNN
202522 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
202570 GTGGTGCCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:202677 original size:18 final size:18
Alignment explanation
Indices: 202654--202715 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 18
202644 AGTTTAGGTG
202654 ATTAATGTTAAGTTTGAT
1 ATTAATGTTAAGTTTGAT
*
202672 ATTAATTTGTTATAAATTT-AT
1 ATTAA--TG-T-TAAGTTTGAT
202693 -TTAATGTTAAGTTTGAT
1 ATTAATGTTAAGTTTGAT
202710 ATTAAT
1 ATTAAT
202716 TTGTTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
16 6 0.17
17 3 0.08
18 12 0.33
20 6 0.17
21 3 0.08
22 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTAATGTTAAGTTTGAT
Found at i:202706 original size:38 final size:38
Alignment explanation
Indices: 202655--202732 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
202645 GTTTAGGTGA
202655 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
1 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
202693 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
1 TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
202731 TT
1 TT
202733 TAGTATGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (38 bp):
TTAATGTTAAGTTTGATATTAATTTGTTATAAATTTAT
Done.