Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 139 of 195
Found at i:23408101 original size:42 final size:42
Alignment explanation
Indices: 23408054--23408166 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
23408044 TTTGATCAAG
*
23408054 GCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATAAGCAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATAAGCAAA
* * * * * *
23408096 GCTCCTCTAAACAGAGGCTCGACGACTTTGAAACTAAGTAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATAAGCAAA
*
23408138 GCTCCTCTAAGCAGAGGCTTAACAACTTT
1 GCTCCTCTAAGCAGAGGCTCAACAACTTT
23408167 TTTTTAAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATAAGCAAA
Found at i:23408238 original size:42 final size:42
Alignment explanation
Indices: 23408192--23408310 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 42
23408182 TCTTCTAATC
*
23408192 AGAGGCTGAACGACTTTTTG-AAAGTAAATTGCTCCTTTGAAT
1 AGAGGCTCAACGAC-TTTTGAAAAGTAAATTGCTCCTTTGAAT
23408234 AGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCTTT-AATT
1 AGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCTTTGAA-T
* * * *
23408276 AAAGGCATC-ACAAC-TTTGAAAAATAGATTGCTCCT
1 AGAGGC-TCAACGACTTTTGAAAAGTAAATTGCTCCT
23408311 CTAAACAGAG
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
41 26 0.38
42 41 0.59
43 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (42 bp):
AGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCTTTGAAT
Found at i:23408330 original size:41 final size:41
Alignment explanation
Indices: 23408249--23408349 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 41
23408239 CTCAACGACT
* * **
23408249 TTTGAAAAGTAAATTGCTCCTTTAATTAAAGGCATCACAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAAAGGCATCACAAC
* * * *
23408290 TTTGAAAAATAGATTGCTCCTCTAAACAGAGGTATTACAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAAAGGCATCACAAC
**
23408331 TTCAAAAAATAAATTGCTC
1 TTTGAAAAATAAATTGCTC
23408350 ATTCACAATC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (41 bp):
TTTGAAAAATAAATTGCTCCTCTAAACAAAGGCATCACAAC
Found at i:23409367 original size:12 final size:13
Alignment explanation
Indices: 23409347--23409394 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
23409337 TCCTTTTTCA
*
23409347 TTCACTTTTTCTT
1 TTCATTTTTTCTT
23409360 TTC-TTTTTTCTT
1 TTCATTTTTTCTT
*
23409372 TTCATTTTCAT-TT
1 TTCATTTT-TTCTT
23409385 TTCATTTTTT
1 TTCATTTTTT
23409395 TATTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 12 0.40
13 17 0.57
14 1 0.03
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (13 bp):
TTCATTTTTTCTT
Found at i:23409386 original size:30 final size:31
Alignment explanation
Indices: 23409340--23409409 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
23409330 TGAGTCTTCC
23409340 TTTTTCA--TTCACTTTTTC-TTTTCTTT-TT
1 TTTTTCATTTTCACTTTTTCATTTT-TTTATT
23409368 TCTTTTCATTTTCA-TTTTTCATTTTTTTATT
1 T-TTTTCATTTTCACTTTTTCATTTTTTTATT
*
23409399 TTTTTTATTTT
1 TTTTTCATTTT
23409410 TTTTTAATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
28 1 0.03
29 6 0.17
30 18 0.50
31 11 0.31
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTTTCATTTTCACTTTTTCATTTTTTTATT
Found at i:23409415 original size:10 final size:9
Alignment explanation
Indices: 23409389--23409413 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23409379 TCATTTTTCA
23409389 TTTTTTTAT
1 TTTTTTTAT
23409398 TTTTTTTAT
1 TTTTTTTAT
23409407 TTTTTTT
1 TTTTTTT
23409414 TAATTCAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:23421177 original size:30 final size:29
Alignment explanation
Indices: 23421143--23421251 Score: 84
Period size: 29 Copynumber: 3.7 Consensus size: 29
23421133 TTTTTTAGAA
23421143 AACTTATTT-TTAAGAAAAATTGATACTTTC
1 AACTT-TTTCTTAA-AAAAATTGATACTTTC
* * *
23421173 AACTTTTTCTTAAAAATATT--T-TTTTGA
1 AACTTTTTCTTAAAAAAATTGATACTTT-C
*
23421200 AGACTTATTT-TCAAGAAAAATTGATACTTTC
1 A-ACTT-TTTCTTAA-AAAAATTGATACTTTC
23421231 AACTTTTTCTTAAAAATAATT
1 AACTTTTTCTTAAAAA-AATT
23421252 TTTTTGGAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
26 3 0.05
27 2 0.03
28 7 0.11
29 24 0.39
30 20 0.33
31 2 0.03
32 3 0.05
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.46
Consensus pattern (29 bp):
AACTTTTTCTTAAAAAAATTGATACTTTC
Found at i:23421274 original size:58 final size:58
Alignment explanation
Indices: 23421039--23421276 Score: 282
Period size: 58 Copynumber: 4.1 Consensus size: 58
23421029 TCGTACAAGG
** * * *
23421039 AAAATTGATACTTTCAACTTTTTCAAAAAAAAAAACTTTTTTTAAAAAATTATTTTCAAAG-
1 AAAATTGATACTTTCAACTTTTTC--TTAAAAATA-TTTTTTTGAAAACTTATTTT-AAAGA
* ** * *
23421100 AAAATTAATACTTTCAACTTTTTCTCGAAAATATTTTTTAGAAAACTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTGAAAACTTATTTTAAAGA
* *
23421158 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTGAAGACTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTGAAAACTTATTTTAAAGA
* **
23421216 AAAATTGATACTTTCAACTTTTTCTTAAAAATAATTTTTTTGGAATTTTA-TTTAAAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAAT-ATTTTTTTGAAAACTTATTTTAAAGA
23421274 AAA
1 AAA
23421277 TAAAGAAAAT
Statistics
Matches: 155, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.02
58 111 0.72
59 18 0.12
61 23 0.15
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTGAAAACTTATTTTAAAGA
Found at i:23421297 original size:10 final size:10
Alignment explanation
Indices: 23421273--23421390 Score: 71
Period size: 10 Copynumber: 10.9 Consensus size: 10
23421263 TTATTTAAAG
*
23421273 AAAAT-AAAG
1 AAAATAAAAT
23421282 AAAATAAAAT
1 AAAATAAAAT
23421292 AAAATAAAAT
1 AAAATAAAAT
23421302 AAGAAATACTAAAT
1 -A-AAATA--AAAT
** *
23421316 AATTCTAATAT
1 AA-AATAAAAT
23421327 AATCAAT-AAAT
1 AA--AATAAAAT
23421338 AATAATAATAAT
1 AA-AATAA-AAT
23421350 AATAATAATAA-
1 AA-AATAA-AAT
23421361 ATAAATAAAAT
1 A-AAATAAAAT
23421372 AAAATAAAAT
1 AAAATAAAAT
23421382 AAAATAAAA
1 AAAATAAAA
23421391 ACTTTAGAAC
Statistics
Matches: 89, Mismatches: 9, Indels: 21
0.75 0.08 0.18
Matches are distributed among these distances:
9 5 0.06
10 36 0.40
11 19 0.21
12 22 0.25
13 3 0.03
14 4 0.04
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.25
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:23421343 original size:3 final size:3
Alignment explanation
Indices: 23421321--23421388 Score: 65
Period size: 3 Copynumber: 23.0 Consensus size: 3
23421311 TAAATAATTC
23421321 TAA T-A TAA TCAA TAAA TAA TAA TAA TAA TAA TAA TAA TAAA TAAA TAA
1 TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA
23421369 -AA TAA -AA TAA -AA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
23421389 AAACTTTAGA
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
2 10 0.18
3 34 0.60
4 13 0.23
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:23421353 original size:19 final size:19
Alignment explanation
Indices: 23421321--23421388 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
23421311 TAAATAATTC
23421321 TAAT-ATAATCAATAAATAA
1 TAATAATAAT-AATAAATAA
23421340 TAATAATAATAAT-AATAA
1 TAATAATAATAATAAATAA
23421358 TAAATAAATAA-AATAAAATAA
1 T-AAT-AATAATAAT-AAATAA
23421379 -AATAA-AATAA
1 TAATAATAATAA
23421389 AAACTTTAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
17 2 0.05
18 10 0.23
19 16 0.37
20 10 0.23
21 5 0.12
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATAATAATAATAAATAA
Found at i:23422050 original size:4 final size:4
Alignment explanation
Indices: 23422043--23422210 Score: 58
Period size: 4 Copynumber: 43.8 Consensus size: 4
23422033 ACAAAGAAAA
* * * * *
23422043 AAAT AAAT AAAA AAAT AAAG ATAAT ATAT TAAT AGAT AAAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * *
23422090 -AAT -AAT AGAT AAAT -AAT -AAT AAAAT ATAT ATAT CAAC AGAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
*
23422135 AAA- AAAT AAA- AAAT ATATAT TAAT AAAT AGTAAT -AAT AAAT AAGAT
1 AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT A--AAT AAAT AAAT AA-AT
*
23422181 ACA- AAA- AAAT AAA- AAAT AAA- AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
23422211 ATAGACTTAT
Statistics
Matches: 125, Mismatches: 24, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
3 41 0.33
4 68 0.54
5 11 0.09
6 5 0.04
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:23422076 original size:17 final size:17
Alignment explanation
Indices: 23422056--23422121 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
23422046 TAAATAAAAA
*
23422056 AATAAAGATAATATATT
1 AATAAAGATAATATAAT
23422073 AAT--AGATAAATAATAAT
1 AATAAAGAT-AAT-ATAAT
23422090 AATAATAGATAA-ATAAT
1 AATAA-AGATAATATAAT
23422107 AATAAA-ATATATATA
1 AATAAAGATA-ATATA
23422122 TCAACAGATA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
15 7 0.17
16 5 0.12
17 23 0.56
19 2 0.05
20 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AATAAAGATAATATAAT
Found at i:23422097 original size:20 final size:20
Alignment explanation
Indices: 23422063--23422115 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
23422053 AAAAATAAAG
*
23422063 ATAAT-ATATTAATAGATAA
1 ATAATAATAATAATAGATAA
23422082 ATAATAATAATAATAGATAA
1 ATAATAATAATAATAGATAA
23422102 ATAATAATAA-AATA
1 ATAATAATAATAATA
23422116 TATATATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 9 0.28
20 23 0.72
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
ATAATAATAATAATAGATAA
Found at i:23422104 original size:14 final size:13
Alignment explanation
Indices: 23422044--23422177 Score: 67
Period size: 14 Copynumber: 9.7 Consensus size: 13
23422034 CAAAGAAAAA
*
23422044 AATAAATAA-AAA
1 AATAAATAATAAT
*
23422056 AATAAA-GATAAT
1 AATAAATAATAAT
*
23422068 ATATTAATAGATAAAT
1 A-ATAAATA-AT-AAT
23422084 AAT-AATAATAAT
1 AATAAATAATAAT
23422096 AGATAAATAATAAT
1 A-ATAAATAATAAT
* *
23422110 AAAATATATATATCAAC
1 --AATAAATA-AT-AAT
*
23422127 AGATAAATAAAAAAT
1 A-ATAAAT-AATAAT
* *
23422142 AAAAAATATATATT
1 AATAAATA-ATAAT
*
23422156 AATAAATAGTAAT
1 AATAAATAATAAT
23422169 AATAAATAA
1 AATAAATAA
23422178 GATACAAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
11 1 0.01
12 13 0.14
13 20 0.22
14 28 0.30
15 14 0.15
16 13 0.14
17 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:23422119 original size:49 final size:51
Alignment explanation
Indices: 23422039--23422161 Score: 134
Period size: 49 Copynumber: 2.5 Consensus size: 51
23422029 AGAAACAAAG
*
23422039 AAAAA-AATAAATAAA-AA-AATAAAGATAATATAT-T-AATAGATAAATA
1 AAAAATAATAAATAAATAATAATAAAGATAATATATATCAACAGATAAATA
*
23422085 ATAATAATAATAGATAAATAATAATAAA-AT-ATATATATCAACAGATAAATA
1 A-AA-AATAATAAATAAATAATAATAAAGATAATATATATCAACAGATAAATA
* * *
23422136 AAAAATAAAAAATATATATTAATAAA
1 AAAAATAATAAATAAATAATAATAAA
23422162 TAGTAATAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
46 1 0.02
47 2 0.03
48 2 0.03
49 34 0.53
50 7 0.11
51 18 0.28
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (51 bp):
AAAAATAATAAATAAATAATAATAAAGATAATATATATCAACAGATAAATA
Found at i:23422205 original size:17 final size:18
Alignment explanation
Indices: 23422169--23422211 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23422159 AAATAGTAAT
*
23422169 AATAAATAAGATACAAAAA
1 AATAAA-AAGATAAAAAAA
23422188 AATAAAAA-ATAAAAAAA
1 AATAAAAAGATAAAAAAA
23422205 AATAAAA
1 AATAAAA
23422212 TAGACTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.65
18 2 0.09
19 6 0.26
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (18 bp):
AATAAAAAGATAAAAAAA
Found at i:23422350 original size:35 final size:35
Alignment explanation
Indices: 23422311--23422382 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
23422301 AAAAAAATGA
23422311 AATAAGGGAAAGGGAATAAAAAATGTGTAGGATGG
1 AATAAGGGAAAGGGAATAAAAAATGTGTAGGATGG
23422346 AATAAGGGAAAGGGAATAAAAAATGTGTAGGATGG
1 AATAAGGGAAAGGGAATAAAAAATGTGTAGGATGG
23422381 AA
1 AA
23422383 GGAAAGAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (35 bp):
AATAAGGGAAAGGGAATAAAAAATGTGTAGGATGG
Found at i:23427292 original size:32 final size:30
Alignment explanation
Indices: 23427208--23427313 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 30
23427198 ATTTCGTATC
*
23427208 ATTTTAAAAAATTAACTAAAAATTTCTATATT
1 ATTTT-AAAAATTAA-TAAAAAATTCTATATT
** * *
23427240 GGTTTAGAAAATTGAATAAAAAACTCCATATT
1 ATTTTA-AAAATT-AATAAAAAATTCTATATT
* *
23427272 ATTTTAAAATATTAAGTAAAAAATTTTATATC
1 ATTTTAAAA-ATTAA-TAAAAAATTCTATATT
23427304 ATTTTAAAAA
1 ATTTTAAAAA
23427314 ATAGATTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
31 7 0.12
32 50 0.85
33 2 0.03
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.40
Consensus pattern (30 bp):
ATTTTAAAAATTAATAAAAAATTCTATATT
Found at i:23429711 original size:59 final size:54
Alignment explanation
Indices: 23429601--23429714 Score: 138
Period size: 59 Copynumber: 2.0 Consensus size: 54
23429591 TTTGTCGAAC
* * * * *
23429601 TGGAGACACATTCTTTCTAAGCTAAGCGTTGGAATAACCTGTTGGAACTAAGGA
1 TGGAGACACATTCTTTCTAAGCTAACCGTTGAAACAACCTATTAGAACTAAGGA
23429655 TGGAGACACATTCTTTCTTTTTAAGCTAATCCGTTGAAACAACCTATTAGAACTAAGGA
1 TGGAGACACATTCTTTC----TAAGCTAA-CCGTTGAAACAACCTATTAGAACTAAGGA
23429714 T
1 T
23429715 TACTATGTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
54 17 0.34
58 8 0.16
59 25 0.50
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (54 bp):
TGGAGACACATTCTTTCTAAGCTAACCGTTGAAACAACCTATTAGAACTAAGGA
Found at i:23433075 original size:16 final size:16
Alignment explanation
Indices: 23433031--23433078 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
23433021 TTTATTATAA
* *
23433031 TAATTTAATATCTAGT
1 TAATTTAATATGTAAT
23433047 TAAGTTT--TATGTAAT
1 TAA-TTTAATATGTAAT
23433062 TAATTTAATATGTAAT
1 TAATTTAATATGTAAT
23433078 T
1 T
23433079 TAATAGGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 12 0.44
17 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (16 bp):
TAATTTAATATGTAAT
Found at i:23433302 original size:26 final size:27
Alignment explanation
Indices: 23433259--23433313 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
23433249 TATTATAAAA
*
23433259 ATTTTGGTCAATTATGGTAGAAAGTGT
1 ATTTTGGTCAATTATGGTAGAAAGGGT
* *
23433286 ATTTTTGT-AATTATGGTAGGAAGGGT
1 ATTTTGGTCAATTATGGTAGAAAGGGT
23433312 AT
1 AT
23433314 CATAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (27 bp):
ATTTTGGTCAATTATGGTAGAAAGGGT
Found at i:23433380 original size:61 final size:62
Alignment explanation
Indices: 23433223--23433448 Score: 178
Period size: 62 Copynumber: 3.7 Consensus size: 62
23433213 ATCATAAGAA
* * * **
23433223 CATTTTCATAATTATGGTTAA-AGAGGTATTATAAAAATTTTGGTCAATTATGGTAGAAAGTG
1 CATTTTCATAATTAT-GATAAGAGAGGTATCATAATAATTTTAATCAATTATGGTAGAAAGTG
* ** * *
23433285 TATTTTTGTAATTATGGTAGGA-AGGGTATCATAATAATTTTAATCAATTATGGTAGAATA-T-
1 CATTTTCATAATTATGATAAGAGA-GGTATCATAATAATTTTAATCAATTATGGTAGAA-AGTG
* * *
23433346 CATTTTCATAATTATGATAAGAGAGGTATGATAATAATTTTAA-CTAGTTATGATAGAAGAGAT-
1 CATTTTCATAATTATGATAAGAGAGGTATCATAATAATTTTAATC-AATTATGGTAGAA-AG-TG
* * * * * *
23433409 -ATTTTTATAATTATAATAAAATAGATATTATAATAATTTT
1 CATTTTCATAATTATGATAAGAGAGGTATCATAATAATTTT
23433449 GACAAATTAT
Statistics
Matches: 133, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
60 1 0.01
61 51 0.38
62 79 0.59
63 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.41
Consensus pattern (62 bp):
CATTTTCATAATTATGATAAGAGAGGTATCATAATAATTTTAATCAATTATGGTAGAAAGTG
Found at i:23433457 original size:36 final size:36
Alignment explanation
Indices: 23433417--23433489 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
23433407 ATATTTTTAT
*
23433417 AATTATAATAAAAT-AGATATTATAATAATTTTGACA
1 AATTATAA-AAAATAAGATATTATAATAATTATGACA
* * *
23433453 AATTATAACAAATAAGATATTTTCATAATTATGACA
1 AATTATAAAAAATAAGATATTATAATAATTATGACA
23433489 A
1 A
23433490 GAGAAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.37
Consensus pattern (36 bp):
AATTATAAAAAATAAGATATTATAATAATTATGACA
Found at i:23434599 original size:5 final size:5
Alignment explanation
Indices: 23434589--23434618 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
23434579 AATAATCATA
23434589 TTATT TTATT TTATT TTATT TTACTT TTAT
1 TTATT TTATT TTATT TTATT TTA-TT TTAT
23434619 ATTTTTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:23442684 original size:68 final size:66
Alignment explanation
Indices: 23442606--23442758 Score: 146
Period size: 68 Copynumber: 2.3 Consensus size: 66
23442596 ATTTTAAGCA
* ** ** *
23442606 TATCATTTAAATTTTAAAAAT-TTTAAAAATACCACTTAATTAACTTAAAATTTTTATTAATCAT
1 TATCAATTAAATTTTAAAAATAAATAAAAAT--CA-TTAATTAACTTAAAACATATATTAATCAT
23442670 GTAT
63 GTAT
* * * * *
23442674 TATCAATTAAAATATTTAAATATAAATAAAAATCATTTATTGATTTATAACATATATTAATCATG
1 TATCAATT-AAAT-TTTAAAAATAAATAAAAATCATTAATTAACTTAAAACATATATTAATCATG
23442739 TAT
64 TAT
*
23442742 TATCAATTAAAATTTAA
1 TATCAATTAAATTTTAA
23442759 CCTAAAAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
66 5 0.07
67 3 0.04
68 41 0.59
69 6 0.09
70 8 0.11
71 7 0.10
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (66 bp):
TATCAATTAAATTTTAAAAATAAATAAAAATCATTAATTAACTTAAAACATATATTAATCATGTA
T
Found at i:23448978 original size:22 final size:22
Alignment explanation
Indices: 23448952--23448995 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23448942 TGTATATTTA
*
23448952 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
23448974 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
23448996 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:23460727 original size:6 final size:6
Alignment explanation
Indices: 23460705--23460773 Score: 52
Period size: 6 Copynumber: 11.2 Consensus size: 6
23460695 CATGTATAAT
* * *
23460705 AATATA AATATTAA AATATA AATAT- GATATA AATTATA AA-ATA TATTTA
1 AATATA AATA-T-A AATATA AATATA AATATA AA-TATA AATATA AATATA
*
23460754 AATTTTA AATATA AATATA A
1 AA-TATA AATATA AATATA A
23460774 TACGATTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 8 0.16
6 24 0.47
7 14 0.27
8 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (6 bp):
AATATA
Found at i:23460742 original size:18 final size:17
Alignment explanation
Indices: 23460707--23460766 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
23460697 TGTATAATAA
23460707 TATAAATAT-TA-AAA-
1 TATAAATATATATAAAT
23460721 TATAAATATGATATAAAT
1 TATAAATAT-ATATAAAT
*
23460739 TATAAAATATATTTAAAT
1 TAT-AAATATATATAAAT
*
23460757 TTTAAATATA
1 TATAAATATA
23460767 AATATAATAC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 9 0.23
16 2 0.05
17 10 0.26
18 12 0.31
19 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TATAAATATATATAAAT
Found at i:23460748 original size:14 final size:13
Alignment explanation
Indices: 23460699--23460749 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
23460689 AATTTACATG
23460699 TATAATAATATAAA
1 TATAA-AATATAAA
23460713 TATTAAAATATAAA
1 TA-TAAAATATAAA
*
23460727 TAT--GATATAAA
1 TATAAAATATAAA
23460738 TTATAAAATATA
1 -TATAAAATATA
23460750 TTTAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 7 0.23
12 3 0.10
13 1 0.03
14 17 0.55
15 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TATAAAATATAAA
Found at i:23460818 original size:16 final size:15
Alignment explanation
Indices: 23460778--23460830 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
23460768 ATATAATACG
23460778 ATTAATATATGTATTA
1 ATTAATATATGTA-TA
*
23460794 CA-TACTATATGATATA
1 -ATTAATATATG-TATA
23460810 ATTAATATATGTATA
1 ATTAATATATGTATA
23460825 ATTAAT
1 ATTAAT
23460831 TTATTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 11 0.34
16 18 0.56
17 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (15 bp):
ATTAATATATGTATA
Found at i:23461938 original size:5 final size:5
Alignment explanation
Indices: 23461928--23461966 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
23461918 AATTATCTTG
**
23461928 ATTTT ATTTT ATTTT ATTTT ATTTT ATTAA ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
23461967 CCTATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:23462031 original size:24 final size:24
Alignment explanation
Indices: 23461989--23462049 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
23461979 TAAATTTTGA
* *
23461989 TAAAAATATAAAATTAAA-TCTTAT
1 TAAAAATA-AAAATAAAATTATTAT
*
23462013 TAAAAATAAAAATAAAAATTATTTT
1 TAAAAATAAAAAT-AAAATTATTAT
*
23462038 TAATAATAAAAA
1 TAAAAATAAAAA
23462050 AAAGAAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 5 0.16
24 11 0.35
25 15 0.48
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAATAAAAATAAAATTATTAT
Found at i:23462034 original size:22 final size:24
Alignment explanation
Indices: 23461989--23462035 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
23461979 TAAATTTTGA
**
23461989 TAAAAATATAAAATTAAATCTTAT
1 TAAAAATATAAAATTAAAAATTAT
23462013 TAAAAATA-AAAA-TAAAAATTAT
1 TAAAAATATAAAATTAAAAATTAT
23462035 T
1 T
23462036 TTTAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAATATAAAATTAAAAATTAT
Found at i:23463809 original size:16 final size:16
Alignment explanation
Indices: 23463775--23463821 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
23463765 AATAAAAAGT
* *
23463775 TATTTATATATATAATA
1 TATTT-TATAAATATTA
23463792 TATTTTATAAATATTA
1 TATTTTATAAATATTA
*
23463808 TAATTTA-AAATATT
1 TATTTTATAAATATT
23463822 TTTACTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 7 0.26
16 15 0.56
17 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTATAAATATTA
Found at i:23467051 original size:16 final size:16
Alignment explanation
Indices: 23467018--23467054 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23467008 ATTAAAAATC
**
23467018 ATCATAAATCATTGTT
1 ATCATAAATCATCATT
23467034 ATCATAAATCATCATT
1 ATCATAAATCATCATT
23467050 ATCAT
1 ATCAT
23467055 TCGTTTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.41
Consensus pattern (16 bp):
ATCATAAATCATCATT
Found at i:23468214 original size:12 final size:12
Alignment explanation
Indices: 23468197--23468222 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23468187 CACTGTAAAC
23468197 ATTAAGGTTCAT
1 ATTAAGGTTCAT
23468209 ATTAAGGTTCAT
1 ATTAAGGTTCAT
23468221 AT
1 AT
23468223 GAAATAAAAA
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:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATTAAGGTTCAT
Found at i:23469690 original size:97 final size:97
Alignment explanation
Indices: 23469589--23469773 Score: 273
Period size: 97 Copynumber: 1.9 Consensus size: 97
23469579 GAACTTCTTT
* * *
23469589 AAAAAAATAAATTTATTAGGTGATCAATCATATC-TAATTAAAAAAAATTAGTAGCAACTTCTAA
1 AAAAAAATAAATTTATTAGGTGATCAATCA-ACCTTAAATAAAAAAAATTAGTAGAAACTTCTAA
*
23469653 TTTAGTATCTAATAATTGAGTTCACGAATTTAA
65 TTTAGTATCTAATAATTAAGTTCACGAATTTAA
* * * *
23469686 AAAAAAATAGATTTATTAGGTGATCAATCACCCTTAAATAAAAAATATTGGTAGAAACTTCTAAT
1 AAAAAAATAAATTTATTAGGTGATCAATCAACCTTAAATAAAAAAAATTAGTAGAAACTTCTAAT
*
23469751 TTAGTATCTAATGATTAAGTTCA
66 TTAGTATCTAATAATTAAGTTCA
23469774 AACATTATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 1 0.01
97 77 0.99
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (97 bp):
AAAAAAATAAATTTATTAGGTGATCAATCAACCTTAAATAAAAAAAATTAGTAGAAACTTCTAAT
TTAGTATCTAATAATTAAGTTCACGAATTTAA
Found at i:23474289 original size:2 final size:2
Alignment explanation
Indices: 23474282--23474315 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23474272 TTCAGTTTTG
23474282 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23474316 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23474320 original size:2 final size:2
Alignment explanation
Indices: 23474315--23474347 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23474305 TCTCTCTCTC
23474315 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23474348 GAGTTGATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23475083 original size:13 final size:13
Alignment explanation
Indices: 23475065--23475089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23475055 AAAAATTATT
23475065 TTAAATATTTTAA
1 TTAAATATTTTAA
23475078 TTAAATATTTTA
1 TTAAATATTTTA
23475090 TTTTGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATATTTTAA
Found at i:23478696 original size:3 final size:3
Alignment explanation
Indices: 23478688--23478714 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23478678 ATTTAAAAAG
23478688 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
23478715 GAAAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23478851 original size:17 final size:17
Alignment explanation
Indices: 23478814--23478878 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
23478804 TAAAAAAGGT
23478814 AAAATAAATTATAAAAT-
1 AAAATAAATTA-AAAATA
* *
23478831 AAAAGAAATTGAAAATA
1 AAAATAAATTAAAAATA
*
23478848 AAAATAAGTTAAAAATA
1 AAAATAAATTAAAAATA
23478865 TAAAATAAA-TAAAA
1 -AAAATAAATTAAAA
23478879 TCATAAAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
16 5 0.12
17 28 0.70
18 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAATAAATTAAAAATA
Found at i:23479308 original size:12 final size:14
Alignment explanation
Indices: 23479291--23479323 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23479281 GCTAAACAAA
23479291 TTTCTCT-T-TTTT
1 TTTCTCTATCTTTT
23479303 TTTCTCTATCTTTT
1 TTTCTCTATCTTTT
23479317 TTTCTCT
1 TTTCTCT
23479324 CTCTCAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 1 0.05
14 11 0.58
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTCTATCTTTT
Found at i:23479316 original size:16 final size:16
Alignment explanation
Indices: 23479295--23479325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23479285 AACAAATTTC
*
23479295 TCTTTTTTTTTCTCTA
1 TCTTTTTTTCTCTCTA
23479311 TCTTTTTTTCTCTCT
1 TCTTTTTTTCTCTCT
23479326 CTCAAGAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (16 bp):
TCTTTTTTTCTCTCTA
Found at i:23479583 original size:47 final size:48
Alignment explanation
Indices: 23479455--23479586 Score: 131
Period size: 51 Copynumber: 2.7 Consensus size: 48
23479445 TTTTAATGAG
* * * * **
23479455 AATTGATTTTGAAATTAAATCCCAAAAATATCTCCCTATCATGTTAATGTG
1 AATTGATTATGAAATTAAATCTCAAAAATCTCTCCATATCA---TAATGCC
* * *
23479506 AATTAATTATGGAATTAAATCTCAATAATCTCTCCATATCA-AATGCC
1 AATTGATTATGAAATTAAATCTCAAAAATCTCTCCATATCATAATGCC
* *
23479553 AATTGATTCTGAAATTAAATCTAAAAAATCTCTC
1 AATTGATTATGAAATTAAATCTCAAAAATCTCTC
23479587 AACTATGGTT
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 33 0.49
51 34 0.51
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (48 bp):
AATTGATTATGAAATTAAATCTCAAAAATCTCTCCATATCATAATGCC
Found at i:23480691 original size:9 final size:9
Alignment explanation
Indices: 23480673--23480745 Score: 56
Period size: 9 Copynumber: 7.8 Consensus size: 9
23480663 TCCTATTTTA
*
23480673 TTTTTATTT
1 TTTTTCTTT
23480682 TTTTTCTTTT
1 TTTTTC-TTT
*
23480692 GCTTTTTATTT
1 --TTTTTCTTT
*
23480703 TTTTTATTT
1 TTTTTCTTT
*
23480712 TTTTTCTTC
1 TTTTTCTTT
23480721 TTTTTCTTT
1 TTTTTCTTT
* * *
23480730 TTGTACATT
1 TTTTTCTTT
23480739 TTTTTCT
1 TTTTTCT
23480746 CATTTGCTGA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
9 39 0.78
10 3 0.06
11 3 0.06
12 5 0.10
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:23480697 original size:21 final size:21
Alignment explanation
Indices: 23480673--23480712 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23480663 TCCTATTTTA
*
23480673 TTTTTATTTTTTTTCTTTTGC
1 TTTTTATTTTTTTTATTTTGC
23480694 TTTTTATTTTTTTTATTTT
1 TTTTTATTTTTTTTATTTT
23480713 TTTTCTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.03, T:0.85
Consensus pattern (21 bp):
TTTTTATTTTTTTTATTTTGC
Found at i:23480700 original size:27 final size:27
Alignment explanation
Indices: 23480658--23480731 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
23480648 CTCCTTTGTC
23480658 TCTTTTCCTATTTTATTTTTATTT-TTTT
1 TCTTTTCCT-TTTTATTTTT-TTTATTTT
*
23480686 TCTTTTGCTTTTTATTTTTTTTATTTT
1 TCTTTTCCTTTTTATTTTTTTTATTTT
* *
23480713 T-TTTCTTCTTTTTCTTTTT
1 TCTTT-TCCTTTTTATTTTT
23480732 GTACATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.15
27 27 0.66
28 8 0.20
ACGTcount: A:0.07, C:0.11, G:0.01, T:0.81
Consensus pattern (27 bp):
TCTTTTCCTTTTTATTTTTTTTATTTT
Found at i:23484646 original size:19 final size:20
Alignment explanation
Indices: 23484624--23484661 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23484614 TTATTTTTGT
23484624 TTATT-TGAAAAGATTTTTA
1 TTATTATGAAAAGATTTTTA
* *
23484643 TTATTATTAAAAGGTTTTT
1 TTATTATGAAAAGATTTTT
23484662 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
TTATTATGAAAAGATTTTTA
Found at i:23484742 original size:13 final size:13
Alignment explanation
Indices: 23484711--23484742 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23484701 GAAAAGATTT
23484711 TTTTTTATTTTTG
1 TTTTTTATTTTTG
*
23484724 GTTTTTATTTTTG
1 TTTTTTATTTTTG
23484737 TTTTTT
1 TTTTTT
23484743 CTCTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTTG
Found at i:23484816 original size:16 final size:16
Alignment explanation
Indices: 23484771--23484843 Score: 71
Period size: 16 Copynumber: 4.6 Consensus size: 16
23484761 AAAAAGGTAG
23484771 AATAAATTATAAAATAA
1 AATAAATTA-AAAATAA
* *
23484788 AAGAAATTGAAAATAA
1 AATAAATTAAAAATAA
*
23484804 AATAAGTTAAAAATATAA
1 AATAAATT-AAAA-ATAA
23484822 AATAAA-T-AAAATAA
1 AATAAATTAAAAATAA
23484836 AA-AAATTA
1 AATAAATTA
23484844 GGAGAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 3 0.07
14 7 0.15
15 3 0.07
16 13 0.28
17 11 0.24
18 9 0.20
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
AATAAATTAAAAATAA
Found at i:23492971 original size:19 final size:19
Alignment explanation
Indices: 23492935--23492977 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
23492925 TACAATCTCG
23492935 AAAATCAACAAAATAAAACA
1 AAAATCAACAAAATAAAA-A
*
23492955 AAAATCACCCAAAA-AAAAA
1 AAAATCA-ACAAAATAAAAA
23492974 AAAA
1 AAAA
23492978 AAAACACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.77, C:0.16, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAATCAACAAAATAAAAA
Found at i:23492973 original size:21 final size:20
Alignment explanation
Indices: 23492935--23492979 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
23492925 TACAATCTCG
* *
23492935 AAAATCAACAAAATAAAACA
1 AAAATCAACAAAAAAAAAAA
*
23492955 AAAATCACCCAAAAAAAAAAA
1 AAAATCA-ACAAAAAAAAAAA
23492976 AAAA
1 AAAA
23492980 AACACTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.78, C:0.16, G:0.00, T:0.07
Consensus pattern (20 bp):
AAAATCAACAAAAAAAAAAA
Found at i:23500435 original size:19 final size:19
Alignment explanation
Indices: 23500396--23500435 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23500386 TATAAAATTA
*
23500396 ATTTTGTAAAGAATAGTGG
1 ATTTTGTAAAGAATAGAGG
*
23500415 ATTTTGTAAAGAGTAGAGG
1 ATTTTGTAAAGAATAGAGG
23500434 AT
1 AT
23500436 GGAGATGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (19 bp):
ATTTTGTAAAGAATAGAGG
Found at i:23501213 original size:17 final size:17
Alignment explanation
Indices: 23501191--23501224 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23501181 ACTATAAGAG
*
23501191 GCCATTGAATAGTAAAT
1 GCCATTGAAAAGTAAAT
23501208 GCCATTGAAAAGTAAAT
1 GCCATTGAAAAGTAAAT
23501225 TCTGAGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (17 bp):
GCCATTGAAAAGTAAAT
Found at i:23510401 original size:18 final size:18
Alignment explanation
Indices: 23510378--23510415 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23510368 TTTCTATTTG
23510378 ATTGATGATATTAATGGT
1 ATTGATGATATTAATGGT
* *
23510396 ATTGATGATCTTGATGGT
1 ATTGATGATATTAATGGT
23510414 AT
1 AT
23510416 GAAAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (18 bp):
ATTGATGATATTAATGGT
Found at i:23512927 original size:21 final size:21
Alignment explanation
Indices: 23512874--23512945 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 21
23512864 CTGTGTGATT
23512874 TATTATATTTGCATGATTATTAA
1 TATTATATTTGCATGATTA-T-A
23512897 TAAATT-TATTTGCATGATTATA
1 T--ATTATATTTGCATGATTATA
* *
23512919 TATTATATTTACATGATTATT
1 TATTATATTTGCATGATTATA
23512940 TATTAT
1 TATTAT
23512946 TTATTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 3 0.07
21 20 0.45
22 2 0.05
23 2 0.05
24 14 0.32
25 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (21 bp):
TATTATATTTGCATGATTATA
Found at i:23514903 original size:138 final size:138
Alignment explanation
Indices: 23514622--23514999 Score: 447
Period size: 138 Copynumber: 2.7 Consensus size: 138
23514612 TGCATTTTCA
* * *
23514622 ATAGTTGTGAATGTGAATTCTTATTGTTACTATGTATTGCATATATGCATTTGTATATACATTTT
1 ATAGTTGTGAATATGAATTCTTATT-TTACTATGTATTGCATACATGCATTTGCATATACATTTT
* * * * * *
23514687 TATCCATGTAAATATTTTTGTATGTACATTATTTAATTTGTTTGAGGGCAATATTTGCCTTTTTA
65 CATCCATGTAAACATCTTTATATGTACATTATTTAATTCGTTTGAGGGCAATATATGCCTTTTTA
23514752 GTTTTGTAC
130 GTTTTGTAC
* *
23514761 ATAGTTGTAAATATGAATTCTTACTTTTACTATGTATTGCATACATGTATTTGCATATACA-TTT
1 ATAGTTGTGAATATGAATTCTTA-TTTTACTATGTATTGCATACATGCATTTGCATATACATTTT
* *
23514825 CATCCATGTAAACATCTTTATATGTACATTATTTTATTCGTTTG-GGAG-AATCTATGCCTTTTT
65 CATCCATGTAAACATCTTTATATGTACATTATTTAATTCGTTTGAGG-GCAATATATGCC-TTTT
23514888 TAGTTTTGTAC
128 TAGTTTTGTAC
* * * * * * *
23514899 ATAGTTTTGAATATGAATTTTTATTTGTACTATGTATTGTATATATACATTTGGATTTACATTTT
1 ATAGTTGTGAATATGAATTCTTATTT-TACTATGTATTGCATACATGCATTTGCATATACATTTT
* * ** *
23514964 CTTATCCATCTAAACATTTTTGCATGTATATTATTT
65 C--ATCCATGTAAACATCTTTATATGTACATTATTT
23515000 GTATGGGGCA
Statistics
Matches: 205, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
137 13 0.06
138 105 0.51
139 57 0.28
140 2 0.01
141 28 0.14
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (138 bp):
ATAGTTGTGAATATGAATTCTTATTTTACTATGTATTGCATACATGCATTTGCATATACATTTTC
ATCCATGTAAACATCTTTATATGTACATTATTTAATTCGTTTGAGGGCAATATATGCCTTTTTAG
TTTTGTAC
Found at i:23515043 original size:138 final size:134
Alignment explanation
Indices: 23514622--23515052 Score: 426
Period size: 138 Copynumber: 3.1 Consensus size: 134
23514612 TGCATTTTCA
* *
23514622 ATAGTTGTGAATGTGAATTCTTA-TTGTTACTATGTATTGCATATATGCATTTGTATATACATTT
1 ATAGTTGTGAATATGAATTCTTATTTG-TACTATGTATTGCATATATGCATTTGCATATACATTT
* * * *
23514686 -TTATCCATGTAAATATTTTTGTATGTACATTATTTAATTTGTTTGAGGGCAATATTTGCCTTTT
65 CTTATCCATGTAAACATTTTTGCATGT--A-TA-TT-ATTTGTTTG-GGGCAATCTTTGCTTTTT
23514750 TAGTTTTGTAC
124 TAGTTTTGTAC
* * *
23514761 ATAGTTGTAAATATGAATTCTTACTTT-TACTATGTATTGCATACATGTATTTGCATATACATTT
1 ATAGTTGTGAATATGAATTCTTA-TTTGTACTATGTATTGCATATATGCATTTGCATATACATTT
* * *
23514825 C--ATCCATGTAAACATCTTTATATGTACAT-TATTTTATTCGTTTGGGAG-AATCTATGCCTTT
65 CTTATCCATGTAAACA--TTT-T-TG--CATGTATATTATTTGTTTGGG-GCAATCTTTG-CTTT
23514886 TTTAGTTTTGTAC
122 TTTAGTTTTGTAC
* * * * * *
23514899 ATAGTTTTGAATATGAATTTTTATTTGTACTATGTATTGTATATATACATTTGGATTTACATTTT
1 ATAGTTGTGAATATGAATTCTTATTTGTACTATGTATTGCATATATGCATTTGCATATACA-TTT
* * * *
23514964 CTTATCCATCTAAACATTTTTGCATGTATATTATTTGTATGGGGCAATCTTTGTTTTTTTCAATT
65 CTTATCCATGTAAACATTTTTGCATGTATATTATTTGTTTGGGGCAATCTTTGCTTTTTT-AGTT
23515029 TTGGTAC
129 TT-GTAC
*
23515036 ATAAGTTTTGAATATGA
1 AT-AGTTGTGAATATGA
23515053 GTTCATCTAT
Statistics
Matches: 244, Mismatches: 28, Indels: 41
0.78 0.09 0.13
Matches are distributed among these distances:
135 10 0.04
136 26 0.11
137 19 0.08
138 100 0.41
139 64 0.26
140 4 0.02
141 16 0.07
142 2 0.01
143 1 0.00
144 2 0.01
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (134 bp):
ATAGTTGTGAATATGAATTCTTATTTGTACTATGTATTGCATATATGCATTTGCATATACATTTC
TTATCCATGTAAACATTTTTGCATGTATATTATTTGTTTGGGGCAATCTTTGCTTTTTTAGTTTT
GTAC
Found at i:23516207 original size:16 final size:16
Alignment explanation
Indices: 23516185--23516230 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
23516175 AGAAAATGTA
23516185 AAAAGAAAAAAAGA-G
1 AAAAGAAAAAAAGATG
*
23516200 AAAGAGAAAAAAAAATG
1 AAA-AGAAAAAAAGATG
*
23516217 AAATGAAAAAAAGA
1 AAAAGAAAAAAAGA
23516231 AGATGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 3 0.12
16 19 0.73
17 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAAAAGATG
Found at i:23516219 original size:17 final size:17
Alignment explanation
Indices: 23516164--23516238 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 17
23516154 AAGTGGAAAC
* *
23516164 ATGAAA-AGGAAAGAAA
1 ATGAAAGAGAAAAAAAA
* *
23516180 ATGTAAAAAGAAAAAAAG
1 ATG-AAAGAGAAAAAAAA
23516198 A-GAAAGAGAAAAAAAA
1 ATGAAAGAGAAAAAAAA
23516214 ATGAAATGA-AAAAAAGAA
1 ATGAAA-GAGAAAAAA-AA
23516232 GATGAAA
1 -ATGAAA
23516239 ATATGTGGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 16 0.33
17 14 0.29
18 12 0.25
19 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (17 bp):
ATGAAAGAGAAAAAAAA
Found at i:23517391 original size:71 final size:69
Alignment explanation
Indices: 23517314--23517502 Score: 218
Period size: 70 Copynumber: 2.7 Consensus size: 69
23517304 AATTTATAAA
* *
23517314 TTGCATAATTGTTTGAACCATGCATTTACATCATTTGATGAATATTTAAATCATTGTTTTGAATA
1 TTGCATAATTGTTTGAACCATGCATTTGCATCATTTG-TGAATATTTAAATCATTG-TTGGAATA
23517379 TTGCAT
64 TTGCAT
* * * *
23517385 TTGCATAATTATTT-ACACCGTGCATTTGCATCATTTGGGAAGTATTTAAGTCATTGTTGGAATA
1 TTGCATAATTGTTTGA-ACCATGCATTTGCATCATTTGTGAA-TATTTAAATCATTGTTGGAATA
*
23517449 TTGTAT
64 TTGCAT
* * * * *
23517455 TTGCATTATAGTTAGAACCATGCATTCGCATCATTTGGTGAGTATTTA
1 TTGCATAATTGTTTGAACCATGCATTTGCATCATTT-GTGAATATTTA
23517503 GATGTTTGAC
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
70 50 0.51
71 49 0.49
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (69 bp):
TTGCATAATTGTTTGAACCATGCATTTGCATCATTTGTGAATATTTAAATCATTGTTGGAATATT
GCAT
Found at i:23517917 original size:22 final size:22
Alignment explanation
Indices: 23517892--23517954 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
23517882 CCAAAACTTT
23517892 TAGGCATGATTTGTAAGACATC
1 TAGGCATGATTTGTAAGACATC
* *
23517914 TAGGCATAATCTT-TAAGACCTC
1 TAGGCATGAT-TTGTAAGACATC
* *
23517936 CAAGCATGATTTGTAAGAC
1 TAGGCATGATTTGTAAGAC
23517955 CCATGGGCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (22 bp):
TAGGCATGATTTGTAAGACATC
Found at i:23517943 original size:44 final size:43
Alignment explanation
Indices: 23517895--23518014 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 43
23517885 AAACTTTTAG
23517895 GCATGATTTGTAAGACATCTAGGCATAATCTT-TAAGACCTCCAA
1 GCATGATTTGTAAGAC-TCTAGGCATAATCTTGT-AGACCTCCAA
* * *
23517939 GCATGATTTGTAAGACCCATGGGCATAATCTTGTAGGCCTCCAA
1 GCATGATTTGTAAGACTC-TAGGCATAATCTTGTAGACCTCCAA
* * **
23517983 GCATGATTTATGAGACCTCTAAACATAATCTT
1 GCATGATTTGTAAGA-CTCTAGGCATAATCTT
23518015 CAGGACCTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 60 0.94
45 3 0.05
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (43 bp):
GCATGATTTGTAAGACTCTAGGCATAATCTTGTAGACCTCCAA
Found at i:23518594 original size:38 final size:38
Alignment explanation
Indices: 23518508--23518643 Score: 152
Period size: 38 Copynumber: 3.6 Consensus size: 38
23518498 TGACTTCATT
* * **
23518508 TAAAGTTTCAAGCCTTAGTTGTGGGAGGAACATTTTATC
1 TAAAGTTTCAAGCCTCAGTTGTTGGA-GAGTATTTTATC
23518547 TAACA-TTTCAAGCCTCAGTTGTTGGAGAGTATTTTATC
1 TAA-AGTTTCAAGCCTCAGTTGTTGGAGAGTATTTTATC
* * *
23518585 TAAAGTTTCAAGTCTCAGTT-ATGTGAGAGTATTTT-TT
1 TAAAGTTTCAAGCCTCAGTTGTTG-GAGAGTATTTTATC
*
23518622 TAAAGTTTCAAGCCTCAATTGT
1 TAAAGTTTCAAGCCTCAGTTGT
23518644 GAGGGGAGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
37 22 0.27
38 38 0.46
39 22 0.27
40 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (38 bp):
TAAAGTTTCAAGCCTCAGTTGTTGGAGAGTATTTTATC
Found at i:23518714 original size:39 final size:38
Alignment explanation
Indices: 23518665--23518800 Score: 175
Period size: 38 Copynumber: 3.5 Consensus size: 38
23518655 TTTGTTTAAC
*
23518665 TTTTTTAAAAGTTTGAAGCCTCGATGGAAGAGTACTTTA
1 TTTTTCAAAAG-TTGAAGCCTCGATGGAAGAGTACTTTA
* * *
23518704 TTTTTCAAAAGTTAAAGCCTCGATGGAGGAGTAGTTTA
1 TTTTTCAAAAGTTGAAGCCTCGATGGAAGAGTACTTTA
* * *
23518742 TTATTCAAAAGTTGAAGCTTC-AGTGGAAGAGTATTTTA
1 TTTTTCAAAAGTTGAAGCCTCGA-TGGAAGAGTACTTTA
23518780 TTTTTCAAAAGTTAGAAGCCT
1 TTTTTCAAAAGTT-GAAGCCT
23518801 TAGCTATTGG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 67 0.80
39 16 0.19
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (38 bp):
TTTTTCAAAAGTTGAAGCCTCGATGGAAGAGTACTTTA
Found at i:23520274 original size:29 final size:29
Alignment explanation
Indices: 23520242--23520298 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
23520232 ATGAATAAAA
*
23520242 GCCAATATATATTGCCAAAATGATATACT
1 GCCAATATATACTGCCAAAATGATATACT
* *
23520271 GCCAATATATGCTGCCAAAATGGTATAC
1 GCCAATATATACTGCCAAAATGATATAC
23520299 AACAAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (29 bp):
GCCAATATATACTGCCAAAATGATATACT
Found at i:23522208 original size:12 final size:13
Alignment explanation
Indices: 23522161--23522220 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
23522151 TCACTTAAGA
*
23522161 TTTAGGGTTTC-G
1 TTTAGGGTTTCAT
* *
23522173 TCTAGGGTTTTAT
1 TTTAGGGTTTCAT
23522186 TTTAGGGTTTCAT
1 TTTAGGGTTTCAT
*
23522199 TTTA-GGTTTCAC
1 TTTAGGGTTTCAT
*
23522211 ATTAGGGTTT
1 TTTAGGGTTT
23522221 TAGGGCTTCG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
12 19 0.49
13 20 0.51
ACGTcount: A:0.15, C:0.08, G:0.25, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTCAT
Found at i:23522297 original size:13 final size:13
Alignment explanation
Indices: 23522276--23522375 Score: 60
Period size: 13 Copynumber: 7.8 Consensus size: 13
23522266 TCACCTAACA
* *
23522276 TTTAGGGTTTCAT
1 TTTAAGGTTTCAC
*
23522289 TTTAAGGTTTTAC
1 TTTAAGGTTTCAC
23522302 TTT-AGAGTTTCAC
1 TTTAAG-GTTTCAC
* * *
23522315 ATTAGGGTTTTAC
1 TTTAAGGTTTCAC
* *
23522328 TTAAAGTTTTCAC
1 TTTAAGGTTTCAC
* *
23522341 ATTAGGGTTTCA-
1 TTTAAGGTTTCAC
*
23522353 TTTTAGGTTTCAC
1 TTTAAGGTTTCAC
* *
23522366 ATTAGGGTTT
1 TTTAAGGTTT
23522376 TAAGGCTTCG
Statistics
Matches: 62, Mismatches: 22, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
12 11 0.18
13 50 0.81
14 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (13 bp):
TTTAAGGTTTCAC
Found at i:23522298 original size:78 final size:76
Alignment explanation
Indices: 23522199--23522455 Score: 175
Period size: 78 Copynumber: 3.3 Consensus size: 76
23522189 AGGGTTTCAT
*
23522199 TTTAGGTTTCACATTAGGGTTTTAGGGCTTCGCTTATAGTTTAAGATCTCACCCAAAGTTTCAAG
1 TTTAGGTTTCACATTAAGGTTTTA-GGCTTCGCTTATAGTTTAAGATCTCACCCAAAGTTTCAAG
23522264 TTTCACCTAACA
65 TTTCACCTAACA
** * * ** * * * * **
23522276 TTTAGGGTTTCATTTTAAGGTTTTA--CTTTAGAGTT-TCACATTAGGGTTTTACTTAAAGTTTT
1 TTTA-GGTTTCACATTAAGGTTTTAGGC-TTCG-CTTAT-AGTTTAAGATCTCACCCAAAG-TTT
** **
23522338 CACA--TT-AGGGTTTCA
61 CA-AGTTTCA-CCTAACA
* *
23522353 TTTTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACCCAAAGTTTCGA
1 -TTTAGGTTTCACATTAAGGTTTT-AGGCTTCGCTTATAGTTTAAGATCTCACCCAAAGTTTCAA
*
23522418 GTTTCACCTAAGA
64 GTTTCACCTAACA
**
23522431 TTTAGGGTTTCATTTTAAGGTTTTA
1 TTTA-GGTTTCACATTAAGGTTTTA
23522456 CTTTAGGGTT
Statistics
Matches: 125, Mismatches: 39, Indels: 32
0.64 0.20 0.16
Matches are distributed among these distances:
75 1 0.01
76 6 0.05
77 49 0.39
78 62 0.50
79 6 0.05
80 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (76 bp):
TTTAGGTTTCACATTAAGGTTTTAGGCTTCGCTTATAGTTTAAGATCTCACCCAAAGTTTCAAGT
TTCACCTAACA
Found at i:23522305 original size:26 final size:26
Alignment explanation
Indices: 23522276--23522377 Score: 100
Period size: 26 Copynumber: 4.0 Consensus size: 26
23522266 TCACCTAACA
* **
23522276 TTTAGGGTTTCATTTTAAGGTTTTAC
1 TTTAGAGTTTCACATTAAGGTTTTAC
*
23522302 TTTAGAGTTTCACATTAGGGTTTTAC
1 TTTAGAGTTTCACATTAAGGTTTTAC
* * * *
23522328 -TTAAAGTTTTCACATTAGGGTTTCAT
1 TTTAGAG-TTTCACATTAAGGTTTTAC
*
23522354 TTTAG-GTTTCACATTAGGGTTTTA
1 TTTAGAGTTTCACATTAAGGTTTTA
23522378 AGGCTTCGCT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
25 22 0.34
26 40 0.62
27 3 0.05
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.49
Consensus pattern (26 bp):
TTTAGAGTTTCACATTAAGGTTTTAC
Found at i:23522359 original size:39 final size:39
Alignment explanation
Indices: 23522276--23522364 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 39
23522266 TCACCTAACA
* * *
23522276 TTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCAC
1 TTTAGGGTTTCATCTTAAAGTTTTACATTAGAGTTTCAC
* * * *
23522315 ATTAGGGTTTTA-CTTAAAGTTTTCACATTAGGGTTTCAT
1 TTTAGGGTTTCATCTTAAAGTTTT-ACATTAGAGTTTCAC
23522354 TTTA-GGTTTCA
1 TTTAGGGTTTCA
23522365 CATTAGGGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
38 15 0.38
39 25 0.62
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (39 bp):
TTTAGGGTTTCATCTTAAAGTTTTACATTAGAGTTTCAC
Found at i:23522414 original size:155 final size:155
Alignment explanation
Indices: 23522187--23522479 Score: 532
Period size: 155 Copynumber: 1.9 Consensus size: 155
23522177 GGGTTTTATT
*
23522187 TTAGGGTTTCATTTTAGGTTTCACATTAGGGTTTTAGGGCTTCGCTTATAGTTTAAGATCTCACC
1 TTAGGGTTTCATTTTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACC
23522252 CAAAGTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACAT
66 CAAAGTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACAT
*
23522317 TAGGGTTTTACTTAAAGTTTTCACA
131 TAGAGTTTTACTTAAAGTTTTCACA
23522342 TTAGGGTTTCATTTTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACC
1 TTAGGGTTTCATTTTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACC
* * * *
23522407 CAAAGTTTCGAGTTTCACCTAAGATTTAGGGTTTCATTTTAAGGTTTTACTTTAGGGTTTCACTT
66 CAAAGTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACAT
23522472 TAGAGTTT
131 TAGAGTTT
23522480 CACATTAGGG
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 132 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (155 bp):
TTAGGGTTTCATTTTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACC
CAAAGTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACAT
TAGAGTTTTACTTAAAGTTTTCACA
Found at i:23522452 original size:13 final size:13
Alignment explanation
Indices: 23522431--23522549 Score: 103
Period size: 13 Copynumber: 9.2 Consensus size: 13
23522421 TCACCTAAGA
*
23522431 TTTAGGGTTTCAT
1 TTTAGGGTTTCAC
* *
23522444 TTTAAGGTTTTAC
1 TTTAGGGTTTCAC
23522457 TTTAGGGTTTCAC
1 TTTAGGGTTTCAC
*
23522470 TTTAGAGTTTCAC
1 TTTAGGGTTTCAC
* *
23522483 ATTAGGGTTTTAC
1 TTTAGGGTTTCAC
* * * *
23522496 TTAAAGTTTTCGC
1 TTTAGGGTTTCAC
* *
23522509 ATTAGGATTTCAC
1 TTTAGGGTTTCAC
* *
23522522 TTAAGGGTTTCGC
1 TTTAGGGTTTCAC
*
23522535 ATTAGGGTTTCAC
1 TTTAGGGTTTCAC
23522548 TT
1 TT
23522550 GAGTTTTCGA
Statistics
Matches: 78, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 78 1.00
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (13 bp):
TTTAGGGTTTCAC
Found at i:23522460 original size:26 final size:26
Alignment explanation
Indices: 23522431--23522582 Score: 100
Period size: 26 Copynumber: 5.9 Consensus size: 26
23522421 TCACCTAAGA
* *
23522431 TTTAGGGTTTCATTTTA-AGGTTTTAC
1 TTTAGGGTTTCACTTTAGA-GTTTCAC
23522457 TTTAGGGTTTCACTTTAGAGTTTCAC
1 TTTAGGGTTTCACTTTAGAGTTTCAC
* * * *
23522483 ATTAGGGTTTTAC-TTAAAGTTTTCGC
1 TTTAGGGTTTCACTTTAGAG-TTTCAC
* * * * *
23522509 ATTAGGATTTCACTTAAGGGTTTCGC
1 TTTAGGGTTTCACTTTAGAGTTTCAC
*
23522535 ATTAGGGTTTCAC-TT-GAGTTTTCGA-
1 TTTAGGGTTTCACTTTAGAG-TTTC-AC
* *
23522560 GTTAGGGTTTCACTTGAG-GTTTC
1 TTTAGGGTTTCACTTTAGAGTTTC
23522583 GGGCTTGGAT
Statistics
Matches: 102, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.02
25 26 0.25
26 69 0.68
27 5 0.05
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.45
Consensus pattern (26 bp):
TTTAGGGTTTCACTTTAGAGTTTCAC
Found at i:23522488 original size:52 final size:52
Alignment explanation
Indices: 23522432--23522582 Score: 139
Period size: 52 Copynumber: 2.9 Consensus size: 52
23522422 CACCTAAGAT
* * * * *
23522432 TTAGGGTTTCATTTTAAGGTTTT-ACTTTAGGGTTTCACTTTAGAGTTTCACA
1 TTAGGGTTTCA-CTTAAAGTTTTCACATTAGGATTTCACTTAAGAGTTTCACA
* * * *
23522484 TTAGGGTTTTACTTAAAGTTTTCGCATTAGGATTTCACTTAAGGGTTTCGCA
1 TTAGGGTTTCACTTAAAGTTTTCACATTAGGATTTCACTTAAGAGTTTCACA
* * * *
23522536 TTAGGGTTTCACTT-GAGTTTTCGA-GTTAGGGTTTCACTTGAG-GTTTC
1 TTAGGGTTTCACTTAAAGTTTTC-ACATTAGGATTTCACTTAAGAGTTTC
23522583 GGGCTTGGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
50 5 0.06
51 31 0.38
52 46 0.56
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.45
Consensus pattern (52 bp):
TTAGGGTTTCACTTAAAGTTTTCACATTAGGATTTCACTTAAGAGTTTCACA
Found at i:23522514 original size:155 final size:155
Alignment explanation
Indices: 23522191--23522531 Score: 481
Period size: 155 Copynumber: 2.2 Consensus size: 155
23522181 TTTATTTTAG
** *
23522191 GGTTTCATTTTAGGTTTCACATTAGGGTTTTAGGGCTTCGCTTATAGTTTAAGATCTCACCCAAA
1 GGTTTCACATTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACCCAAA
*
23522256 GTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACATTAGG
66 GTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACATTAGA
* *
23522321 GTTTTACTTAAAGTTTTCACATTAG
131 GTTTCACTTAAAGTTTTCACATTAA
**
23522346 GGTTTCATTTTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACCCAAA
1 GGTTTCACATTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACCCAAA
* * * *
23522411 GTTTCGAGTTTCACCTAAGATTTAGGGTTTCATTTTAAGGTTTTACTTTAGGGTTTCACTTTAGA
66 GTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACATTAGA
**
23522476 GTTTCACATTAGGGTTTT-AC-TTAAA
131 GTTTCAC-TTAAAGTTTTCACATT-AA
* *
23522501 GTTTTCGCATTAGGATTTCAC-TTAAGGGTTT
1 GGTTTCACATTAGG-TTTCACATT-AGGGTTT
23522532 CGCATTAGGG
Statistics
Matches: 168, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
154 2 0.01
155 145 0.86
156 21 0.12
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (155 bp):
GGTTTCACATTAGGTTTCACATTAGGGTTTTAAGGCTTCGCTTATAGTTTAAGATCTCACCCAAA
GTTTCAAGTTTCACCTAACATTTAGGGTTTCATTTTAAGGTTTTACTTTAGAGTTTCACATTAGA
GTTTCACTTAAAGTTTTCACATTAA
Found at i:23522564 original size:25 final size:24
Alignment explanation
Indices: 23522458--23522583 Score: 117
Period size: 26 Copynumber: 5.0 Consensus size: 24
23522448 AGGTTTTACT
* *
23522458 TTAGGGTTTCACTTTAGAGTTTCACA
1 TTAGGGTTTCACTTGAG-GTTTC-GA
* * *
23522484 TTAGGGTTTTACTTAAAGTTTTCGCA
1 TTAGGGTTTCACTT-GAGGTTTCG-A
* *
23522510 TTAGGATTTCACTTAAGGGTTTCGCA
1 TTAGGGTTTCACTTGA-GGTTTCG-A
*
23522536 TTAGGGTTTCACTTGAGTTTTCGA
1 TTAGGGTTTCACTTGAGGTTTCGA
23522560 GTTAGGGTTTCACTTGAGGTTTCG
1 -TTAGGGTTTCACTTGAGGTTTCG
23522584 GGCTTGGATT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
24 1 0.01
25 30 0.35
26 52 0.61
27 2 0.02
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (24 bp):
TTAGGGTTTCACTTGAGGTTTCGA
Found at i:23522595 original size:25 final size:25
Alignment explanation
Indices: 23522510--23522606 Score: 99
Period size: 25 Copynumber: 3.8 Consensus size: 25
23522500 AGTTTTCGCA
*
23522510 TTAGGATTTCACTTAAGGGTTTCGCA-
1 TTAGGATTTCACTTGA-GGTTTCG-AG
* *
23522536 TTAGGGTTTCACTTGAGTTTTCGAG
1 TTAGGATTTCACTTGAGGTTTCGAG
* *
23522561 TTAGGGTTTCACTTGAGGTTTCGGG
1 TTAGGATTTCACTTGAGGTTTCGAG
*
23522586 CTT-GGATTTCACTTGGGGTTT
1 -TTAGGATTTCACTTGAGGTTT
23522607 AACAAATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.73
26 16 0.26
ACGTcount: A:0.15, C:0.13, G:0.29, T:0.42
Consensus pattern (25 bp):
TTAGGATTTCACTTGAGGTTTCGAG
Found at i:23522759 original size:21 final size:20
Alignment explanation
Indices: 23522722--23522773 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
23522712 TTTCATTAAA
* *
23522722 ATTTATTATTGTTATTATTT
1 ATTTATTTTTATTATTATTT
23522742 ATTTATCTTTTATTATTATTT
1 ATTTAT-TTTTATTATTATTT
23522763 ATTTATTTTTA
1 ATTTATTTTTA
23522774 ATAATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTATTTTTATTATTATTT
Found at i:23522780 original size:21 final size:21
Alignment explanation
Indices: 23522735--23522780 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23522725 TATTATTGTT
*
23522735 ATTATTTATTTATCTTTTATT
1 ATTATTTATTTATCTTTTATA
23522756 ATTATTTATTTAT-TTTTAATA
1 ATTATTTATTTATCTTTT-ATA
23522777 ATTA
1 ATTA
23522781 ATAATTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATTTATTTATCTTTTATA
Found at i:23531362 original size:59 final size:58
Alignment explanation
Indices: 23531271--23531392 Score: 199
Period size: 59 Copynumber: 2.1 Consensus size: 58
23531261 ACCCCCCAAT
*
23531271 TGATTGAACTTCTGAATTGATTACCTTAAATACCACACTCCAATCACTCAGTTTGGAA
1 TGATTGAACTTCTGAATTGATTACCCTAAATACCACACTCCAATCACTCAGTTTGGAA
* *
23531329 TGATTGCACTTTCTGAATTGATTGCCCTAAATACCACACTCCAATCACTCAGTTTGGAA
1 TGATTGAAC-TTCTGAATTGATTACCCTAAATACCACACTCCAATCACTCAGTTTGGAA
*
23531388 CGATT
1 TGATT
23531393 ACAAAACTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 8 0.14
59 51 0.86
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (58 bp):
TGATTGAACTTCTGAATTGATTACCCTAAATACCACACTCCAATCACTCAGTTTGGAA
Found at i:23531920 original size:38 final size:37
Alignment explanation
Indices: 23531840--23531927 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 37
23531830 ATGGGGGAGC
* * *
23531840 ATTTTATTTAAAGTTGTAAGTCTCAATTGTAAATGAGT
1 ATTTTATTTAAAGTTGTAAGCCTCAATTATAAA-GAGG
23531878 ATTTTATTTAAAGTT-TCAAGCCTCAATTATGAGAA-AGG
1 ATTTTATTTAAAGTTGT-AAGCCTCAATTAT-A-AAGAGG
23531916 ATTTTATTTAAA
1 ATTTTATTTAAA
23531928 AGTTCGAAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 1 0.02
38 40 0.91
39 1 0.02
40 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (37 bp):
ATTTTATTTAAAGTTGTAAGCCTCAATTATAAAGAGG
Found at i:23532470 original size:14 final size:14
Alignment explanation
Indices: 23532451--23532479 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23532441 ATCTTGATAG
23532451 ATTTGATTTCATGA
1 ATTTGATTTCATGA
23532465 ATTTGATTTCATGA
1 ATTTGATTTCATGA
23532479 A
1 A
23532480 ATTTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
ATTTGATTTCATGA
Found at i:23534275 original size:24 final size:24
Alignment explanation
Indices: 23534236--23534355 Score: 98
Period size: 24 Copynumber: 5.3 Consensus size: 24
23534226 TTATGTGATT
*
23534236 TATTATATTTGTATGATTATTAATA
1 TATT-TATTTGCATGATTATTAATA
23534261 TATTTATTTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
* *
23534285 TGTTTATTTACAT-A--ATT--TA
1 TATTTATTTGCATGATTATTAATA
23534304 TATTATATTTGC---ATTATTAATA
1 TATT-TATTTGCATGATTATTAATA
* * *
23534326 T-TATATTTGCAAGATTATTTAT-
1 TATTTATTTGCATGATTATTAATA
23534348 TATTTATT
1 TATTTATT
23534356 ATTTGCATGG
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
18 1 0.01
19 5 0.06
20 16 0.21
21 4 0.05
22 4 0.05
23 14 0.18
24 30 0.38
25 4 0.05
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (24 bp):
TATTTATTTGCATGATTATTAATA
Found at i:23534326 original size:20 final size:21
Alignment explanation
Indices: 23534251--23534336 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 21
23534241 TATTTGTATG
*
23534251 ATTATTAATATATTTATTTGC
1 ATTATTAATATATATATTTGC
* * *
23534272 ATGATTATTAATATGTTTATTTAC
1 ---ATTATTAATATATATATTTGC
* *
23534296 ATAATTTATAT-TATATTTGC
1 ATTATTAATATATATATTTGC
23534316 ATTATTAATAT-TATATTTGC
1 ATTATTAATATATATATTTGC
23534336 A
1 A
23534337 AGATTATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.48
21 9 0.17
24 19 0.35
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTATTAATATATATATTTGC
Found at i:23534342 original size:20 final size:20
Alignment explanation
Indices: 23534303--23534342 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23534293 TACATAATTT
**
23534303 ATATTATATTTGCATTATTA
1 ATATTATATTTGCAAGATTA
23534323 ATATTATATTTGCAAGATTA
1 ATATTATATTTGCAAGATTA
23534343 TTTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (20 bp):
ATATTATATTTGCAAGATTA
Found at i:23534390 original size:19 final size:18
Alignment explanation
Indices: 23534348--23534390 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
23534338 GATTATTTAT
*
23534348 TATTTATTATTTGCATGG
1 TATTTATTATTTGCATGA
*
23534366 TAATTTATATTTTTGCATGA
1 T-ATTTAT-TATTTGCATGA
23534386 TATTT
1 TATTT
23534391 TATGGTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (18 bp):
TATTTATTATTTGCATGA
Found at i:23534392 original size:20 final size:21
Alignment explanation
Indices: 23534352--23534393 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
23534342 ATTTATTATT
*
23534352 TATTATTTGCATGGTAATTTA
1 TATTATTTGCATGATAATTTA
*
23534373 TATT-TTTGCATGATATTTTA
1 TATTATTTGCATGATAATTTA
23534393 T
1 T
23534394 GGTATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTATTTGCATGATAATTTA
Found at i:23534533 original size:20 final size:20
Alignment explanation
Indices: 23534496--23534534 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23534486 TGGTTTTATT
* *
23534496 TTTTTTATATTGGTATGATA
1 TTTTTAATATTGGCATGATA
*
23534516 TTTTTAATATTTGCATGAT
1 TTTTTAATATTGGCATGAT
23534535 TGCATAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (20 bp):
TTTTTAATATTGGCATGATA
Found at i:23535270 original size:13 final size:13
Alignment explanation
Indices: 23535252--23535279 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23535242 AATCATGTGC
23535252 ATTTAAGATTAAA
1 ATTTAAGATTAAA
23535265 ATTTAAGATTAAA
1 ATTTAAGATTAAA
23535278 AT
1 AT
23535280 AATTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGATTAAA
Found at i:23535294 original size:124 final size:125
Alignment explanation
Indices: 23535144--23535381 Score: 349
Period size: 124 Copynumber: 1.9 Consensus size: 125
23535134 CCCAAATTAA
** * *
23535144 AAGATTAAAATATATTAAAATTTTTCTATTTATTTTACTT-GTCAATCATTATTCACAAAC-CTT
1 AAGATTAAAATATATTAAAAAATTTCTATTTAGTTTACTTACT-AATCATTATTCACAAACAC-T
* *
23535207 TAAAGTTAATTTATTTGTTACAAATATT-AACTTACAATCATGTGCATTTAAGATTAAAATTT
64 TAAAGTTAATTGATTTGTTACAAATATTGAA-TTACAATCATGTGAATTTAAGATTAAAATTT
* *
23535269 AAGATTAAAATA-ATTAAAAAATTTCTGTTTAGTTTACTTACTAATCATTGTTCACAAACACTTA
1 AAGATTAAAATATATTAAAAAATTTCTATTTAGTTTACTTACTAATCATTATTCACAAACACTTA
23535333 AAGTTAATTGATTTGTTACAAATATTGAATTACAATCATGTGAATTTAA
66 AAGTTAATTGATTTGTTACAAATATTGAATTACAATCATGTGAATTTAA
23535382 AAGAACTTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
124 86 0.84
125 16 0.16
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (125 bp):
AAGATTAAAATATATTAAAAAATTTCTATTTAGTTTACTTACTAATCATTATTCACAAACACTTA
AAGTTAATTGATTTGTTACAAATATTGAATTACAATCATGTGAATTTAAGATTAAAATTT
Found at i:23536163 original size:16 final size:17
Alignment explanation
Indices: 23536133--23536165 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23536123 AAAAGTTTAA
*
23536133 TTTTGTTGTTGTAATAT
1 TTTTGTTGTTATAATAT
23536150 TTTTGTT-TTATAATAT
1 TTTTGTTGTTATAATAT
23536166 ATAAATAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTTGTTGTTATAATAT
Found at i:23538856 original size:2 final size:2
Alignment explanation
Indices: 23538849--23538879 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23538839 CTCAAATGAA
23538849 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 A
23538880 GTATTAGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23539415 original size:15 final size:17
Alignment explanation
Indices: 23539390--23539429 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
23539380 AAGAATATCT
23539390 TTTATTATTTAT-TAAA
1 TTTATTATTTATATAAA
23539406 TTTA-TATTTATATAAA
1 TTTATTATTTATATAAA
*
23539422 TATATTAT
1 TTTATTAT
23539430 ATCAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 11 0.52
17 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATTATTTATATAAA
Found at i:23539452 original size:29 final size:29
Alignment explanation
Indices: 23539420--23539489 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 29
23539410 TATTTATATA
23539420 AATATATT-ATATCAATAAAAA-TATTATTT
1 AATATATTAAT-TCAATAAAAATTA-TATTT
* *
23539449 AATATCTTAATTTAATAAAAATTATATTT
1 AATATATTAATTCAATAAAAATTATATTT
23539478 ATATATAATTAA
1 A-ATAT-ATTAA
23539490 CTTATAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 22 0.65
30 8 0.24
31 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
AATATATTAATTCAATAAAAATTATATTT
Found at i:23539486 original size:22 final size:21
Alignment explanation
Indices: 23539460--23539526 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
23539450 ATATCTTAAT
23539460 TTAATAAAAATTATATTTATA
1 TTAATAAAAATTATATTTATA
* *
23539481 TATAAT-TAACTTATAATTTATA
1 T-TAATAAAAATTAT-ATTTATA
* * *
23539503 TTAAAAAATAAATACATTTATA
1 TTAATAAA-AATTATATTTATA
23539525 TT
1 TT
23539527 TATTTATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
21 10 0.29
22 22 0.63
23 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATAAAAATTATATTTATA
Found at i:23541374 original size:30 final size:31
Alignment explanation
Indices: 23541306--23541376 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
23541296 TGAAATATTT
* *
23541306 AATCCAATTTTCACATAGAGCTATATTAAGCT
1 AATCCAATTTTCACATAGAGC-ATATGAAGCC
*
23541338 AATCCAATTTTCACATATAGC-TATGAAGCC
1 AATCCAATTTTCACATAGAGCATATGAAGCC
23541368 AATCCAATT
1 AATCCAATT
23541377 GAAATATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 16 0.44
32 20 0.56
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (31 bp):
AATCCAATTTTCACATAGAGCATATGAAGCC
Found at i:23541453 original size:64 final size:66
Alignment explanation
Indices: 23541374--23541503 Score: 228
Period size: 64 Copynumber: 2.0 Consensus size: 66
23541364 AGCCAATCCA
* *
23541374 ATTGAAATATTTAAATAAAATTATATCATTGTTTCTA-AAAAAA-ATAAAAAGATTCATGATCTT
1 ATTGAAATATTTAAATAAAATTATATCATTATTTCTACAAAAAATAAAAAAAGATTCATGATCTT
23541437 T
66 T
23541438 ATTGAAATATTTAAATAAAATTATATCATTATTTCTACAAAAAATAAAAAAAGATTCATGATCTT
1 ATTGAAATATTTAAATAAAATTATATCATTATTTCTACAAAAAATAAAAAAAGATTCATGATCTT
23541503 T
66 T
23541504 CCAGCAGCTA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 36 0.58
65 6 0.10
66 20 0.32
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.38
Consensus pattern (66 bp):
ATTGAAATATTTAAATAAAATTATATCATTATTTCTACAAAAAATAAAAAAAGATTCATGATCTT
T
Found at i:23545503 original size:17 final size:15
Alignment explanation
Indices: 23545469--23545518 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
23545459 ATCAATTGTG
23545469 AAAAATTAAATATAT
1 AAAAATTAAATATAT
* *
23545484 AAAAATTAATTATTT
1 AAAAATTAAATATAT
* *
23545499 ATAAATTACATA-AT
1 AAAAATTAAATATAT
23545513 AAAAAT
1 AAAAAT
23545519 GCATTTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATTAAATATAT
Found at i:23552940 original size:3 final size:3
Alignment explanation
Indices: 23552934--23552970 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
23552924 AGATAAAAAA
23552934 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
23552971 TAATATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23553692 original size:20 final size:21
Alignment explanation
Indices: 23553653--23553692 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
23553643 ACTTTTCCAG
* *
23553653 TAAAATGTTTTATAATTAATT
1 TAAAATGTTTTAAAAATAATT
23553674 TAAAA-GTTTTAAAAATAAT
1 TAAAATGTTTTAAAAATAAT
23553693 AAAATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
TAAAATGTTTTAAAAATAATT
Found at i:23557675 original size:26 final size:26
Alignment explanation
Indices: 23557645--23557697 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23557635 AGACTTAGAC
23557645 AATTGTTCTTTCAACTTGCGAACCAT
1 AATTGTTCTTTCAACTTGCGAACCAT
*
23557671 AATTGTTCTTTCAACTTGTGAACCAT
1 AATTGTTCTTTCAACTTGCGAACCAT
23557697 A
1 A
23557698 CCAGCATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (26 bp):
AATTGTTCTTTCAACTTGCGAACCAT
Found at i:23558497 original size:35 final size:36
Alignment explanation
Indices: 23558443--23558514 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
23558433 TAGTTTTCCT
* * *
23558443 TGCTTAACACTCTCTGGTAGAGATGATT-CTCACCC
1 TGCTCAACACTCTCAGGTAGAGAGGATTGCTCACCC
*
23558478 TGCTCAACACTCTCAGGTAGAGAGGATTGCTCTCCC
1 TGCTCAACACTCTCAGGTAGAGAGGATTGCTCACCC
23558514 T
1 T
23558515 TCTAAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 25 0.78
36 7 0.22
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (36 bp):
TGCTCAACACTCTCAGGTAGAGAGGATTGCTCACCC
Found at i:23561397 original size:160 final size:161
Alignment explanation
Indices: 23561133--23561448 Score: 481
Period size: 160 Copynumber: 2.0 Consensus size: 161
23561123 ATCTCATTAC
* *
23561133 ATAGGTGACTCAACAAATATACCCTAGATTTATTCCAAGAGAGCTTCAAATATAATCTTCACTGT
1 ATAGGTGACTCAACAAATATACCCTAAATTTATTCCAAGAGAGCTTCAAATATAATCTTCACTAT
* * * * *
23561198 TCAAAATGTAGAACTCTAAATCATAAATCTGTTGATAAAATTTTCACTTAATCGGATCGTGGATT
66 TCAAAATGTAGAACTCTAAATCATAAATCTGTTGATAAAATGTTAACTTAATCAGATCATAGATT
* *
23561263 GACTTTCGTTCAA-CAATTCTTTCTTACTAT
131 GACTTTCATTCAACCAATTCTCTCTTACTAT
* * * * * * *
23561293 ATAGGTGACTCAACAAATATATCCTAAATTTGTTTCAAGAGAGCTTCAAATCTGATCTTTATTAT
1 ATAGGTGACTCAACAAATATACCCTAAATTTATTCCAAGAGAGCTTCAAATATAATCTTCACTAT
23561358 TCAAAATGTAGAACTCTAAATCATAAATCTGTTGATAAAATGTTAACTTAATCAGATCATAGATT
66 TCAAAATGTAGAACTCTAAATCATAAATCTGTTGATAAAATGTTAACTTAATCAGATCATAGATT
23561423 GACTTTCATTCAACCAATTCTCTCTT
131 GACTTTCATTCAACCAATTCTCTCTT
23561449 CTCTATTTTC
Statistics
Matches: 139, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
160 128 0.92
161 11 0.08
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (161 bp):
ATAGGTGACTCAACAAATATACCCTAAATTTATTCCAAGAGAGCTTCAAATATAATCTTCACTAT
TCAAAATGTAGAACTCTAAATCATAAATCTGTTGATAAAATGTTAACTTAATCAGATCATAGATT
GACTTTCATTCAACCAATTCTCTCTTACTAT
Found at i:23564354 original size:3 final size:3
Alignment explanation
Indices: 23564348--23564397 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
23564338 TTGTTGTTTT
* *
23564348 ATA ATA ATTA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ACA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23564394 ATA A
1 ATA A
23564398 AAAATGATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23564611 original size:18 final size:17
Alignment explanation
Indices: 23564586--23564619 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23564576 AATTATAAAA
*
23564586 AAATATAAAAAGATAAT
1 AAATATAAAAACATAAT
23564603 AAATAATAAAAACATAA
1 AAAT-ATAAAAACATAA
23564620 AAAGATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAATATAAAAACATAAT
Found at i:23564799 original size:14 final size:14
Alignment explanation
Indices: 23564782--23564881 Score: 65
Period size: 14 Copynumber: 7.0 Consensus size: 14
23564772 AATTAAACCC
*
23564782 TCAAAATCCTAAAA
1 TCAAAACCCTAAAA
*
23564796 TCAAAACCCTAAAC
1 TCAAAACCCTAAAA
* * * *
23564810 CCCAAATCCTAAGA
1 TCAAAACCCTAAAA
* * *
23564824 TCGAAACCATAAACCT
1 TCAAAACCCTAAA--A
*
23564840 TCTAAACCCTAAAA
1 TCAAAACCCTAAAA
*
23564854 TCAAAACCCTAAAC
1 TCAAAACCCTAAAA
* *
23564868 TCACAACTCTAAAA
1 TCAAAACCCTAAAA
23564882 CTAAAATGCT
Statistics
Matches: 63, Mismatches: 21, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
14 52 0.83
16 11 0.17
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (14 bp):
TCAAAACCCTAAAA
Found at i:23568922 original size:12 final size:12
Alignment explanation
Indices: 23568905--23568929 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23568895 ATGTTGTCTA
23568905 AAAATGAATGAT
1 AAAATGAATGAT
23568917 AAAATGAATGAT
1 AAAATGAATGAT
23568929 A
1 A
23568930 CAATAAAAGC
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:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (12 bp):
AAAATGAATGAT
Found at i:23569163 original size:14 final size:15
Alignment explanation
Indices: 23569138--23569166 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23569128 AGTTTTGATA
23569138 GAAGCAAAATTGGAT
1 GAAGCAAAATTGGAT
23569153 GAAGC-AAATTGGAT
1 GAAGCAAAATTGGAT
23569167 TTGAGATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (15 bp):
GAAGCAAAATTGGAT
Found at i:23569287 original size:93 final size:93
Alignment explanation
Indices: 23569128--23569302 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 93
23569118 TTTTCCTAAA
* * *
23569128 AGTTTTGATAGAAGCAAAATTGGATGAAGCAAATTGGATTTGAGATCATTTTGAGCAACTGAATC
1 AGTTTTGATAGAAGCAAAATTGGATAAAGCAAATTGGATGTGAGATCATTTTGAGCAACTAAATC
23569193 TTATTAAAGAGAAAAGGGCTTCCCTGAG
66 TTATTAAAGAGAAAAGGGCTTCCCTGAG
* * * *
23569221 AGTTTTGATGGAGGCAAAATTGGATAAAGCAGATTGGGTGTGAGA-CTATTTCT-AGCAACTAAA
1 AGTTTTGATAGAAGCAAAATTGGATAAAGCAAATTGGATGTGAGATC-ATTT-TGAGCAACTAAA
*
23569284 TCTTATTGAAGAGAAAAGG
64 TCTTATTAAAGAGAAAAGG
23569303 TTCTTGGCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 1 0.01
93 70 0.97
94 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (93 bp):
AGTTTTGATAGAAGCAAAATTGGATAAAGCAAATTGGATGTGAGATCATTTTGAGCAACTAAATC
TTATTAAAGAGAAAAGGGCTTCCCTGAG
Found at i:23570805 original size:35 final size:35
Alignment explanation
Indices: 23570713--23570816 Score: 95
Period size: 36 Copynumber: 3.0 Consensus size: 35
23570703 TTTACCCACG
* * * ***
23570713 GTTTAATCCTAATCATTTTTATTTTTTGACTCGTG
1 GTTTAATCCTAGTCGTCTTTATTTTTTGACTCACA
* * *
23570748 GTTCAAT-TTCAGTTGTCATTTATTTTTTGACTCACA
1 GTTTAATCCT-AGTCGTC-TTTATTTTTTGACTCACA
23570784 GTTTAATCCTAGTCGTCTTTA-TTTTTGACTCAC
1 GTTTAATCCTAGTCGTCTTTATTTTTTGACTCAC
23570817 GATTTTATCT
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
34 13 0.24
35 13 0.24
36 27 0.50
37 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (35 bp):
GTTTAATCCTAGTCGTCTTTATTTTTTGACTCACA
Found at i:23570831 original size:34 final size:33
Alignment explanation
Indices: 23570766--23570839 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
23570756 TCAGTTGTCA
23570766 TTTATTTTTTGACTCACAGTTTAATCCTAGTCGTC
1 TTTA-TTTTTGACTCACAGTTTAATCCTAGTC-TC
* *
23570801 TTTATTTTTGACTCAC-GATTTTATCTTAGTCTC
1 TTTATTTTTGACTCACAG-TTTAATCCTAGTCTC
*
23570834 GTTATT
1 TTTATT
23570840 CTCTGACTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 8 0.23
34 23 0.66
35 4 0.11
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.53
Consensus pattern (33 bp):
TTTATTTTTGACTCACAGTTTAATCCTAGTCTC
Found at i:23570847 original size:34 final size:34
Alignment explanation
Indices: 23570775--23570847 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
23570765 ATTTATTTTT
* *
23570775 TGACTCACAGTTTAATCCTAGTCGTCTTTATTTT
1 TGACTCACAGTTTAATCCTAGTCGTCGTTATTTC
* *
23570809 TGACTCAC-GATTTTATCTTAGTC-TCGTTATTCTC
1 TGACTCACAG-TTTAATCCTAGTCGTCGTTATT-TC
23570843 TGACT
1 TGACT
23570848 TGCGGTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 8 0.24
34 25 0.76
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (34 bp):
TGACTCACAGTTTAATCCTAGTCGTCGTTATTTC
Found at i:23570921 original size:35 final size:35
Alignment explanation
Indices: 23570869--23571021 Score: 146
Period size: 35 Copynumber: 4.4 Consensus size: 35
23570859 CTTAGTCTTG
* * *
23570869 TTATTTTCTAACCCATGATTTAATTTTGATCATTT
1 TTATTTTCTGACTCATGATTTAATCTTGATCATTT
* * * *
23570904 TTATTTTCTCACTCATGATTCAATCTCGATCATCT
1 TTATTTTCTGACTCATGATTTAATCTTGATCATTT
** * * *
23570939 TTATTTTCTGACTCGCGGTTTAATCCTAATCATTT
1 TTATTTTCTGACTCATGATTTAATCTTGATCATTT
* ** *
23570974 TTATTTTTTGACTCATGATTTAATCCAGGTC-TTT
1 TTATTTTCTGACTCATGATTTAATCTTGATCATTT
*
23571008 TTATTTTTTGACTC
1 TTATTTTCTGACTC
23571022 GCAATTCAAT
Statistics
Matches: 96, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
34 17 0.18
35 79 0.82
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.52
Consensus pattern (35 bp):
TTATTTTCTGACTCATGATTTAATCTTGATCATTT
Found at i:23571089 original size:34 final size:34
Alignment explanation
Indices: 23571016--23571260 Score: 147
Period size: 34 Copynumber: 7.1 Consensus size: 34
23571006 TTTTATTTTT
* *
23571016 TGACTCGCAATTCAATCCTAGTCTCATTATTCTC
1 TGACTTGCAGTTCAATCCTAGTCTCATTATTCTC
*
23571050 TGACTTGCAGTTCAAT-CTCAGTCTCATTGTTCTC
1 TGACTTGCAGTTCAATCCT-AGTCTCATTATTCTC
* **
23571084 TGACTTGCGGTTCAATCCT-GATCTTGTTATTCTC
1 TGACTTGCAGTTCAATCCTAG-TCTCATTATTCTC
* * ** * * * *
23571118 TAACTTACCCTTCAATCTTAGTCTCTTTGTTTTC
1 TGACTTGCAGTTCAATCCTAGTCTCATTATTCTC
*** * * ** * *
23571152 TGACTTATGGTTCAATCCCAATCATTTTTATTTTT
1 TGACTTGCAGTTCAATCCTAGTC-TCATTATTCTC
* * *
23571187 TGA-TT-CATGGTTTAATCCCAGTCGTCTTTATTCTC
1 TGACTTGCA--GTTCAATCCTAGTC-TCATTATTCTC
* * *
23571222 TAACTTGCAATTCAATCCTAGTCTCATTATTCTT
1 TGACTTGCAGTTCAATCCTAGTCTCATTATTCTC
23571256 TGACT
1 TGACT
23571261 CACGGGTAAA
Statistics
Matches: 161, Mismatches: 41, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
33 3 0.02
34 107 0.66
35 47 0.29
36 2 0.01
37 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.45
Consensus pattern (34 bp):
TGACTTGCAGTTCAATCCTAGTCTCATTATTCTC
Found at i:23571157 original size:68 final size:68
Alignment explanation
Indices: 23571042--23571169 Score: 175
Period size: 68 Copynumber: 1.9 Consensus size: 68
23571032 CCTAGTCTCA
* * * *
23571042 TTATTCTCTGACTTGCAGTTCAATCTCAGTCTCATTGTTCTCTGACTTGCGGTTCAATCCTGATC
1 TTATTCTCTAACTTACACTTCAATCTCAGTCTCATTGTTCTCTGACTTACGGTTCAATCCTGATC
23571107 TTG
66 TTG
* * * * *
23571110 TTATTCTCTAACTTACCCTTCAATCTTAGTCTCTTTGTTTTCTGACTTATGGTTCAATCC
1 TTATTCTCTAACTTACACTTCAATCTCAGTCTCATTGTTCTCTGACTTACGGTTCAATCC
23571170 CAATCATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.45
Consensus pattern (68 bp):
TTATTCTCTAACTTACACTTCAATCTCAGTCTCATTGTTCTCTGACTTACGGTTCAATCCTGATC
TTG
Found at i:23571217 original size:35 final size:34
Alignment explanation
Indices: 23571026--23571339 Score: 102
Period size: 34 Copynumber: 9.2 Consensus size: 34
23571016 TGACTCGCAA
* * * ***
23571026 TTCAATCCTAGTCTCATTATTCTCTGACTTGCAG
1 TTCAATCCCAGTCTCTTTATTTTCTGACTTATGG
* * * * **
23571060 TTCAATCTCAGTCTCATTGTTCTCTGACTTGCGG
1 TTCAATCCCAGTCTCTTTATTTTCTGACTTATGG
* * * ***
23571094 TTCAAT-CCTGATCT-TGTTATTCTCTAACTTACCC
1 TTCAATCCCAG-TCTCT-TTATTTTCTGACTTATGG
** *
23571128 TTCAATCTTAGTCTCTTTGTTTTCTGACTTATGG
1 TTCAATCCCAGTCTCTTTATTTTCTGACTTATGG
* * *
23571162 TTCAATCCCAATCATTTTTATTTTTTGA-TTCATGG
1 TTCAATCCCAGTC-TCTTTATTTTCTGACTT-ATGG
* * * ****
23571197 TTTAATCCCAGTCGTCTTTATTCTCTAACTTGCAA
1 TTCAATCCCAGTC-TCTTTATTTTCTGACTTATGG
* * * *
23571232 TTCAATCCTAGTCTCATTATTCTT-TGACTCACGG
1 TTCAATCCCAGTCTCTTTATT-TTCTGACTTATGG
* * * * * *
23571266 GTAAATCCCAAT-TGTGTTATTCTCTGAC-T-CGAG
1 TTCAATCCCAGTCTCT-TTATTTTCTGACTTATG-G
* * * *
23571299 TTCAATCTCAGTCTCTTTGTTTTTTGACTTGTGG
1 TTCAATCCCAGTCTCTTTATTTTCTGACTTATGG
23571333 TTCAATC
1 TTCAATC
23571340 TCGACGATTT
Statistics
Matches: 202, Mismatches: 64, Indels: 28
0.69 0.22 0.10
Matches are distributed among these distances:
32 2 0.01
33 22 0.11
34 125 0.62
35 51 0.25
36 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.45
Consensus pattern (34 bp):
TTCAATCCCAGTCTCTTTATTTTCTGACTTATGG
Found at i:23571247 original size:172 final size:170
Alignment explanation
Indices: 23571029--23571356 Score: 394
Period size: 172 Copynumber: 1.9 Consensus size: 170
23571019 CTCGCAATTC
* * * * **
23571029 AATCCTAGTCTCATTATTCTCTGACTTGCAGTTCAATCTCAGTCTCATTGTTCTCTGACTTGCGG
1 AATCCCAGTCTCATTATTCTCTAACTTGCAATTCAATCTCAGTCTCATTATTCTCTGACTCACGG
* * ** * *
23571094 TTCAATCCTGATCT-TGTTATTCTCTAACTTAC-CCTTCAATCTTAGTCTCTTTGTTTTCTGACT
66 GTAAATCCCAAT-TGTGTTATTCTCTAAC-T-CGACTTCAATCTCAGTCTCTTTGTTTTCTGACT
23571157 TATGGTTCAATCCCAATC-ATTTTTATTTTTTGATTCATGGTTT
128 TATGGTTCAATCCCAA-CGATTTTTATTTTTTGATTCATGGTTT
* *
23571200 AATCCCAGTCGTCTTTATTCTCTAACTTGCAATTCAATC-CTAGTCTCATTATTCTTTGACTCAC
1 AATCCCAGTC-TCATTATTCTCTAACTTGCAATTCAATCTC-AGTCTCATTATTCTCTGACTCAC
* * *
23571264 GGGTAAATCCCAATTGTGTTATTCTCTGACTCGAGTTCAATCTCAGTCTCTTTGTTTTTTGACTT
64 GGGTAAATCCCAATTGTGTTATTCTCTAACTCGACTTCAATCTCAGTCTCTTTGTTTTCTGACTT
* * *
23571329 GTGGTTCAATCTCGACGATTTTTATTTT
129 ATGGTTCAATCCCAACGATTTTTATTTT
23571357 CTAACTAGTG
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
170 2 0.02
171 63 0.48
172 67 0.51
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (170 bp):
AATCCCAGTCTCATTATTCTCTAACTTGCAATTCAATCTCAGTCTCATTATTCTCTGACTCACGG
GTAAATCCCAATTGTGTTATTCTCTAACTCGACTTCAATCTCAGTCTCTTTGTTTTCTGACTTAT
GGTTCAATCCCAACGATTTTTATTTTTTGATTCATGGTTT
Done.