Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014497.1 Kokia drynarioides strain JFW-HI SEQ_129536, 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: 260964
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 32 characters in sequence are not A, C, G, or T
Found at i:964 original size:6 final size:6
Alignment explanation
Indices: 953--1021 Score: 72
Period size: 6 Copynumber: 12.0 Consensus size: 6
943 CTTTTATTCT
* *
953 TTTAAA TTTAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
999 -ACAAA TTTAAA TATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
1022 ATAAACTTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 12 0.24
6 39 0.76
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:971 original size:11 final size:12
Alignment explanation
Indices: 955--1031 Score: 83
Period size: 11 Copynumber: 6.8 Consensus size: 12
945 TTTATTCTTT
955 TAAATTTAAA-A
1 TAAATTTAAATA
966 TAAATTTAAACT-
1 TAAATTTAAA-TA
*
978 TAAA-TTAAATT
1 TAAATTTAAATA
989 TAAATTTAAA-A
1 TAAATTTAAATA
*
1000 CAAATTTAAATA
1 TAAATTTAAATA
1012 TAAATTTAAA-A
1 TAAATTTAAATA
*
1023 TAAACTTAA
1 TAAATTTAA
1032 TCTTAAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 1 0.02
11 37 0.65
12 19 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:981 original size:23 final size:24
Alignment explanation
Indices: 954--1021 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 24
944 TTTTATTCTT
954 TTAAATTTAAA-ATAAATTTAAAC
1 TTAAATTTAAATATAAATTTAAAC
*
977 TTAAA-TTAAATTTAAATTTAAAAC
1 TTAAATTTAAATATAAATTT-AAAC
1001 --AAATTTAAATATAAATTTAAA
1 TTAAATTTAAATATAAATTTAAA
1022 ATAAACTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 11 0.28
23 25 0.62
24 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAATTTAAATATAAATTTAAAC
Found at i:1022 original size:23 final size:23
Alignment explanation
Indices: 956--1031 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
946 TTATTCTTTT
956 AAATTTAAA-ATAAATTT-AAAC
1 AAATTTAAATATAAATTTAAAAC
*
977 TTAAA-TTAAATTTAAATTTAAAAC
1 --AAATTTAAATATAAATTTAAAAC
*
1001 AAATTTAAATATAAATTTAAAAT
1 AAATTTAAATATAAATTTAAAAC
*
1024 AAACTTAA
1 AAATTTAA
1032 TCTTAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.17
23 34 0.74
24 4 0.09
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTTAAATATAAATTTAAAAC
Found at i:1026 original size:17 final size:17
Alignment explanation
Indices: 953--1015 Score: 90
Period size: 17 Copynumber: 3.7 Consensus size: 17
943 CTTTTATTCT
953 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
970 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
987 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
*
1004 TTTAAATATAAA
1 TTTAAATTTAAA
1016 TTTAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:1485 original size:86 final size:86
Alignment explanation
Indices: 1336--1540 Score: 302
Period size: 86 Copynumber: 2.4 Consensus size: 86
1326 GGTATCATTG
* * * * * *
1336 ATTTGGTCTACTTCTCAGTGTCTCATCAAGAAGATGAGTGCATCACTTGTTTCAATCCACTTCTT
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACTACATCACTTGTTTCAATCCACTTCTC
1401 TGTATCTCATCAAGAAGACGA
66 TGTATCTCATCAAGAAGACGA
**
1422 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACTACATCACTTGTTTCAATCTGCTTCTC
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACTACATCACTTGTTTCAATCCACTTCTC
* * *
1487 TGTATCTCATCAGGAATATGA
66 TGTATCTCATCAAGAAGACGA
*
1508 ATTTGGTCCACTTCTCAGTATCTCATTAGGAAG
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAG
1541 CTAACCATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 107 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (86 bp):
ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACTACATCACTTGTTTCAATCCACTTCTC
TGTATCTCATCAAGAAGACGA
Found at i:1778 original size:206 final size:207
Alignment explanation
Indices: 1422--1873 Score: 681
Period size: 206 Copynumber: 2.2 Consensus size: 207
1412 AAGAAGACGA
* * * **
1422 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACTACATCACTTGTTTCAATCTGCTTCTC
1 ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCACTTCTC
* * *
1487 TGTATCTCATCAGGAATATGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCATTTT
66 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATTAGGAAGCTAACCATTTT
* * * * *
1552 ATTACTTCGATCTTCTTCTCAGTATCTCATTAGGAAGCTGGGGTTCGAAGATTTGCT-TTTGAGC
131 ATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCTCTTTGAGC
* *
1616 TTGGTTTCATTG
196 CTGATTTCATTG
* * *
1628 ATTTGGTCTTCTTCTCAATATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCATTTCTC
1 ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCACTTCTC
1693 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATTAGGAAGCTAACCATTTT
66 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATTAGGAAGCTAACCATTTT
*
1758 ATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCTCACTTTGA
131 ATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCT--CTTTGA
1823 GCCTGATTTCATTG
194 GCCTGATTTCATTG
* * *
1837 AGTTGGTATACTTCTCTGTATCTCATCAAGAAGATGA
1 ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGA
1874 GCAACTCGTT
Statistics
Matches: 219, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
206 170 0.78
209 49 0.22
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (207 bp):
ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCACTTCTC
TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATTAGGAAGCTAACCATTTT
ATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCTCTTTGAGC
CTGATTTCATTG
Found at i:14095 original size:30 final size:30
Alignment explanation
Indices: 14061--14406 Score: 98
Period size: 30 Copynumber: 11.8 Consensus size: 30
14051 ATTTTCAAAG
*
14061 GTTCGAAGTTAAAAATGG-AATTTTTTGGAA
1 GTTCGAAGGT-AAAATGGTAATTTTTTGGAA
*
14091 GTTCGAGGGTAAAATGGTAATTTTTTGGAGA
1 GTTCGAAGGTAAAATGGTAATTTTTTGGA-A
* * * * * *
14122 ATTTG-GGGCCAAAAAAGG-GATTTTTT-GAA
1 GTTCGAAGG--TAAAATGGTAATTTTTTGGAA
*
14151 GTAC-AATGGTAAAATGGTAA-TTTTTGGAGA
1 GTTCGAA-GGTAAAATGGTAATTTTTTGGA-A
* *
14181 ATTTG-AGGTTTAAAATGG-AA-TTTTTGGAA
1 GTTCGAAGG--TAAAATGGTAATTTTTTGGAA
* * *
14210 ATTAG-GGGTAAAATGGTAA--TTTTGGAGA
1 GTTCGAAGGTAAAATGGTAATTTTTTGGA-A
* * *
14238 ATT-TAAGGTCAAAAAT-G-AAATTTTTGGAGA
1 GTTCGAAGGT--AAAATGGTAATTTTTTGGA-A
* *
14268 ATTC-AAGGTCAAAAATGG-GA-TTTTTGGAA
1 GTTCGAAGGT--AAAATGGTAATTTTTTGGAA
*
14297 GTTC-AGGGGTAAAATGGTAA-TTTTTGGAGA
1 GTTCGA-AGGTAAAATGGTAATTTTTTGGA-A
*
14327 ATTCG-AGGTCAAAAATGG-AA-TTTTTGGAA
1 GTTCGAAGGT--AAAATGGTAATTTTTTGGAA
* * *
14356 ATT-TAGGGGTAAAAT-GTAA-TTTTTGGAA
1 GTTCGA-AGGTAAAATGGTAATTTTTTGGAA
* *
14384 GTTCGTAGGCAAAAT-GTAATTTT
1 GTTCGAAGGTAAAATGGTAATTTT
14407 CAAAAAGTTT
Statistics
Matches: 250, Mismatches: 34, Indels: 65
0.72 0.10 0.19
Matches are distributed among these distances:
27 16 0.06
28 58 0.23
29 46 0.18
30 96 0.38
31 28 0.11
32 6 0.02
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
GTTCGAAGGTAAAATGGTAATTTTTTGGAA
Found at i:14163 original size:60 final size:60
Alignment explanation
Indices: 14071--14241 Score: 188
Period size: 59 Copynumber: 2.9 Consensus size: 60
14061 GTTCGAAGTT
* * *
14071 AAAAATGGAATTTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTTGGAGAATTTGGGGCC
1 AAAAAAGGAATTTTTTGGAAGTACAAGGGTAAAATGGTAA-TTTTTGGAGAATTTGGGGCC
* * * **
14132 AAAAAAGGGATTTTTT-GAAGTACAATGGTAAAATGGTAATTTTTGGAGAATTTGAGGTT
1 AAAAAAGGAATTTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTGGAGAATTTGGGGCC
* * * * *
14191 TAAAATGGAA-TTTTTGGAAAT-TAGGGGTAAAATGGTAA-TTTTGGAGAATTT
1 AAAAAAGGAATTTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTGGAGAATTT
14242 AAGGTCAAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
57 13 0.14
58 19 0.20
59 28 0.30
60 20 0.21
61 14 0.15
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (60 bp):
AAAAAAGGAATTTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTGGAGAATTTGGGGCC
Found at i:14266 original size:87 final size:88
Alignment explanation
Indices: 14169--14383 Score: 292
Period size: 87 Copynumber: 2.5 Consensus size: 88
14159 GTAAAATGGT
*
14169 AATTTTTGGAGAATTTGAGGTTTAAAATGGAATTTTTGGAAATT-AGGGGTAAAATGGTAA-TTT
1 AATTTTTGGAGAATTT-AGGTCTAAAATGGAATTTTTGGAAATTCAGGGGTAAAATGGTAATTTT
*
14232 TGGAGAATTTAAGGTCAAAAATGA
65 TGGAGAATTCAAGGTCAAAAATGA
* * * *
14256 AATTTTTGGAGAATTCAAGGTCAAAAATGGGATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTT
1 AATTTTTGGAGAATT-TAGGTCTAAAATGGAATTTTTGGAAATTCAGGGGTAAAATGGTAATTTT
* *
14321 TGGAGAATTCGAGGTCAAAAATGG
65 TGGAGAATTCAAGGTCAAAAATGA
** *
14345 AATTTTTGGA-AATTTAGGGGTAAAATGTAATTTTTGGAA
1 AATTTTTGGAGAATTTAGGTCTAAAATGGAATTTTTGGAA
14384 GTTCGTAGGC
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
87 57 0.51
88 20 0.18
89 34 0.31
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (88 bp):
AATTTTTGGAGAATTTAGGTCTAAAATGGAATTTTTGGAAATTCAGGGGTAAAATGGTAATTTTT
GGAGAATTCAAGGTCAAAAATGA
Found at i:14298 original size:146 final size:146
Alignment explanation
Indices: 14112--14378 Score: 410
Period size: 146 Copynumber: 1.8 Consensus size: 146
14102 AAATGGTAAT
*** * *
14112 TTTTTGGAGAATTTGGGGCCAAAAAAGGGATTTTTTGAAGTACAATGGTAAAATGGTAATTTTTG
1 TTTTTGGAGAATTCAAGGCCAAAAAAGGGATTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTG
* **
14177 GAGAATTTGAGGTTTAAAATGGAATTTTTGGAAA-TTAGGGGTAAAATGGTAATTTTGGAGAATT
66 GAGAATTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAAT-GTAATTTTGGAGAATT
14241 TAAGGTCAAAAATGAAA
130 TAAGGTCAAAAATGAAA
* * * *
14258 TTTTTGGAGAATTCAAGGTCAAAAATGGGATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTG
1 TTTTTGGAGAATTCAAGGCCAAAAAAGGGATTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTG
14323 GAGAATTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGTAATTTT
66 GAGAATTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGTAATTTT
14379 TGGAAGTTCG
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
146 95 0.88
147 13 0.12
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (146 bp):
TTTTTGGAGAATTCAAGGCCAAAAAAGGGATTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTG
GAGAATTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGTAATTTTGGAGAATTT
AAGGTCAAAAATGAAA
Found at i:14323 original size:59 final size:58
Alignment explanation
Indices: 14249--14382 Score: 214
Period size: 59 Copynumber: 2.3 Consensus size: 58
14239 TTTAAGGTCA
* * *
14249 AAAATGAAATTTTTGGAGAATTCAAGGTCAAAAATGGGATTTTTGGAAGTTCAGGGGT
1 AAAATGTAATTTTTGGAGAATTCAAGGTCAAAAATGGAATTTTTGGAAATTCAGGGGT
* *
14307 AAAATGGTAATTTTTGGAGAATTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAAT-GTAATTTTTGGAGAATTCAAGGTCAAAAATGGAATTTTTGGAAATTCAGGGGT
14366 AAAATGTAATTTTTGGA
1 AAAATGTAATTTTTGGA
14383 AGTTCGTAGG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 17 0.24
59 53 0.76
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.34
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAGAATTCAAGGTCAAAAATGGAATTTTTGGAAATTCAGGGGT
Found at i:14397 original size:146 final size:144
Alignment explanation
Indices: 14072--14406 Score: 399
Period size: 146 Copynumber: 2.3 Consensus size: 144
14062 TTCGAAGTTA
* * * ***
14072 AAAATGGAATTTTTTGGAAGTTCG-AGGGTAAAATGGTAATTTTTTGGAGAATTTGGGGCCAAAA
1 AAAATGTAA-TTTTTGGAAGTTCGTA-GGCAAAAT-G-AAATTTTTGGAGAATTCAAGGCCAAAA
* * * **
14136 AAGGGATTTTTTGAAGTACAATGGTAAAATGGTAATTTTTGGAGAATTTGAGGTTTAAAATGGAA
62 AAGGGATTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTGGAGAATTCGAGGTCAAAAATGGAA
14201 TTTTTGGAAATTAGGGGT
127 TTTTTGGAAATTAGGGGT
* *
14219 AAAATGGTAA-TTTTGGAGAATT--TAAGGTCAAAAATGAAATTTTTGGAGAATTCAAGGTCAAA
1 AAAAT-GTAATTTTTGGA-AGTTCGT-AGG-C-AAAATGAAATTTTTGGAGAATTCAAGGCCAAA
* * *
14281 AATGGGATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAGAATTCGAGGTCAAAAATGGA
61 AAAGGGATTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTGGAGAATTCGAGGTCAAAAATGGA
14346 ATTTTTGGAAATTTAGGGGT
126 ATTTTTGGAAA-TTAGGGGT
*
14366 AAAATGTAATTTTTGGAAGTTCGTAGGCAAAATGTAATTTT
1 AAAATGTAATTTTTGGAAGTTCGTAGGCAAAATGAAATTTT
14407 CAAAAAGTTT
Statistics
Matches: 160, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
145 12 0.08
146 106 0.66
147 33 0.21
148 9 0.06
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.35
Consensus pattern (144 bp):
AAAATGTAATTTTTGGAAGTTCGTAGGCAAAATGAAATTTTTGGAGAATTCAAGGCCAAAAAAGG
GATTTTTGGAAGTACAAGGGTAAAATGGTAATTTTTGGAGAATTCGAGGTCAAAAATGGAATTTT
TGGAAATTAGGGGT
Found at i:14464 original size:30 final size:29
Alignment explanation
Indices: 14192--14496 Score: 154
Period size: 30 Copynumber: 10.5 Consensus size: 29
14182 TTTGAGGTTT
* * *
14192 AAAATGGAATTTTTGGAA-ATTAGGGGT-
1 AAAATGTAATTTTTAGAAGTTTAGGGGTC
* *
14219 AAAATGGTAATTTTGGAGAA-TTTA-AGGTC
1 AAAAT-GTAATTTT-TAGAAGTTTAGGGGTC
* * *
14248 AAAAATGAAATTTTTGGAGAA-TTCA-AGGTC
1 -AAAATGTAATTTTT--AGAAGTTTAGGGGTC
** * *
14278 AAAAATGGGATTTTTGGAAGTTCAGGGGT-
1 -AAAATGTAATTTTTAGAAGTTTAGGGGTC
* *
14307 AAAATGGTAATTTTTGGAGAA--TTCGAGGTC
1 AAAAT-GTAATTTTT--AGAAGTTTAGGGGTC
* * *
14337 AAAAATGGAATTTTTGGAAATTTAGGGGT-
1 -AAAATGTAATTTTTAGAAGTTTAGGGGTC
*
14366 AAAATGTAATTTTTGGAAGTTCGTA--GG-C
1 AAAATGTAATTTTTAGAAGTT--TAGGGGTC
* *
14394 AAAATGTAATTTTCAAAAAGTTTA-GGGTC
1 AAAATGTAATTTT-TAGAAGTTTAGGGGTC
* *
14423 AAAATGCAATTTTTAGAATGTTTAGGGGTT
1 AAAATGTAATTTTTAGAA-GTTTAGGGGTC
14453 AAAATGTAATTTTTAGAAAGTTT-GGGGTC
1 AAAATGTAATTTTTAG-AAGTTTAGGGGTC
*
14482 AAAAATGTGATTTTT
1 -AAAATGTAATTTTT
14497 GTATAGGTTA
Statistics
Matches: 219, Mismatches: 34, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
27 7 0.03
28 60 0.27
29 57 0.26
30 85 0.39
31 10 0.05
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTAGAAGTTTAGGGGTC
Found at i:16282 original size:17 final size:17
Alignment explanation
Indices: 16260--16311 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
16250 CTTTTATTCT
16260 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
16277 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
16294 CTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
16311 T
1 T
16312 GGGTTAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 3 0.09
17 29 0.91
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:19339 original size:14 final size:14
Alignment explanation
Indices: 19322--19392 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
19312 ATTAAAAAAT
19322 AATATAATTTTTAA
1 AATATAATTTTTAA
*
19336 AATATAA--TTAAA
1 AATATAATTTTTAA
19348 AATAT-ATTTTT--
1 AATATAATTTTTAA
* * *
19359 ATTTTTATTTTTAA
1 AATATAATTTTTAA
19373 AATAT-ATTTTTAAA
1 AATATAATTTTT-AA
19387 AATATA
1 AATATA
19393 GAAAATTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
11 4 0.09
12 15 0.34
13 8 0.18
14 17 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATATAATTTTTAA
Found at i:19967 original size:20 final size:20
Alignment explanation
Indices: 19914--19967 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
19904 AACCATCATT
* * * *
19914 GATAACCGCCAATTACCGTC
1 GATAACCTCCGATAACCGCC
**
19934 GATAACCTTTGATAACCGCC
1 GATAACCTCCGATAACCGCC
19954 GATAACCTCCGATA
1 GATAACCTCCGATA
19968 GCCATCAAGC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (20 bp):
GATAACCTCCGATAACCGCC
Found at i:20020 original size:10 final size:10
Alignment explanation
Indices: 19990--20028 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
19980 TACCGTTGGT
19990 CACCATTGAC
1 CACCATTGAC
* *
20000 CACTATAGAC
1 CACCATTGAC
*
20010 CTCCATTGAC
1 CACCATTGAC
20020 CACCATTGA
1 CACCATTGA
20029 AGGCATCCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.31, C:0.36, G:0.10, T:0.23
Consensus pattern (10 bp):
CACCATTGAC
Found at i:24362 original size:21 final size:21
Alignment explanation
Indices: 24309--24362 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
24299 TTTAATAAAT
* * *
24309 ATTAATTATGTTAAACCATAA
1 ATTAATTATTTTAAAACAAAA
*
24330 ATGATATT-TTTTAAAACAAAA
1 ATTA-ATTATTTTAAAACAAAA
24351 ATTAATTATTTT
1 ATTAATTATTTT
24363 TAATTTGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (21 bp):
ATTAATTATTTTAAAACAAAA
Found at i:25876 original size:19 final size:19
Alignment explanation
Indices: 25852--25893 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
25842 TACCTAAAAG
25852 TACAACGTGCAACATAAAT
1 TACAACGTGCAACATAAAT
25871 TACAACGTGCAACATAAAT
1 TACAACGTGCAACATAAAT
25890 TACA
1 TACA
25894 GAGTACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (19 bp):
TACAACGTGCAACATAAAT
Found at i:28945 original size:28 final size:23
Alignment explanation
Indices: 28881--28936 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
28871 TTCGGGCTCA
28881 ATTCGTTTATTGTTCATAAACAT
1 ATTCGTTTATTGTTCATAAACAT
28904 ATTCGTTTATTGTTCATAAACAT
1 ATTCGTTTATTGTTCATAAACAT
28927 ATTCGTTTAT
1 ATTCGTTTAT
28937 ATTATTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTCGTTTATTGTTCATAAACAT
Found at i:30090 original size:13 final size:13
Alignment explanation
Indices: 30053--30093 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
30043 AGTTTAGCAT
*
30053 TGCTTTTGAAAAC
1 TGCTTTTGAAAAG
30066 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
30079 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
30092 TG
1 TG
30094 TGATGGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:31570 original size:51 final size:51
Alignment explanation
Indices: 31449--31720 Score: 296
Period size: 52 Copynumber: 5.3 Consensus size: 51
31439 AGATCTTAAC
* * * * * * *
31449 AAACAATATAAGTAAATATTTATATTTATGTAAAACAACATATATGAAAATA
1 AAACAATTTAAATAAATATTTATATTTATATAAAACACCAGATCTGAACA-A
* * *
31501 AAACAATTTAAATAAATATTTATATGTATATAAAACACCAAAGCTGAACAA
1 AAACAATTTAAATAAATATTTATATTTATATAAAACACCAGATCTGAACAA
* *
31552 AAACAATTTAAATAAATATTTATATTTATGTAAAACACCAGATCTAAAC-A
1 AAACAATTTAAATAAATATTTATATTTATATAAAACACCAGATCTGAACAA
* ** *
31602 AAACAATTTAAATAAATATTTATATTTACATAAAACACTGGATTTGAACAAA
1 AAACAATTTAAATAAATATTTATATTTATATAAAACACCAGATCTGAAC-AA
* * ** * *
31654 AAACAATTTAAATAAATATTTTTTTTATATATAAAACAGTAGATCCGATCAA
1 AAACAATTTAAATAAATATTTATATT-TATATAAAACACCAGATCTGAACAA
*
31706 AAA-AATTTAGATAAA
1 AAACAATTTAAATAAA
31721 CAAGATCGAA
Statistics
Matches: 188, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
50 44 0.23
51 56 0.30
52 71 0.38
53 17 0.09
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (51 bp):
AAACAATTTAAATAAATATTTATATTTATATAAAACACCAGATCTGAACAA
Found at i:34013 original size:53 final size:53
Alignment explanation
Indices: 33930--34155 Score: 296
Period size: 53 Copynumber: 4.3 Consensus size: 53
33920 GTAAATGCAA
* *
33930 AAAGGTCTGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
*
33983 AAAGGTCCGATGACTCTGTGTCATCATGAGTTATATGAATCCTATTACGG---
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
* * * **
34033 AAAGGTCCGATAACTCTGTGTCATCGTAAGTTACATGAATCCTATTACTTATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
* * * ** *
34086 AAAGGTCCAATGACTATGTGTCATGGTGAGTTATATGAATCCTAACACGGGTT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
*
34139 AAAGGTTCGATGACTCT
1 AAAGGTCCGATGACTCT
34156 AAATGAGTTC
Statistics
Matches: 147, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 44 0.30
53 103 0.70
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
Found at i:34109 original size:103 final size:103
Alignment explanation
Indices: 33930--34129 Score: 301
Period size: 103 Copynumber: 1.9 Consensus size: 103
33920 GTAAATGCAA
* * * * *
33930 AAAGGTCTGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGGATTAAAGGTCCGATG
1 AAAGGTCCGATAACTCTATGTCATCGTAAGTTACATGAATCCTATTACGGATTAAAGGTCCAATG
*
33995 ACTCTGTGTCATCATGAGTTATATGAATCCTATTACGG
66 ACTATGTGTCATCATGAGTTATATGAATCCTATTACGG
* **
34033 AAAGGTCCGATAACTCTGTGTCATCGTAAGTTACATGAATCCTATTACTTATTAAAGGTCCAATG
1 AAAGGTCCGATAACTCTATGTCATCGTAAGTTACATGAATCCTATTACGGATTAAAGGTCCAATG
**
34098 ACTATGTGTCATGGTGAGTTATATGAATCCTA
66 ACTATGTGTCATCATGAGTTATATGAATCCTA
34130 ACACGGGTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (103 bp):
AAAGGTCCGATAACTCTATGTCATCGTAAGTTACATGAATCCTATTACGGATTAAAGGTCCAATG
ACTATGTGTCATCATGAGTTATATGAATCCTATTACGG
Found at i:38904 original size:26 final size:27
Alignment explanation
Indices: 38867--38920 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
38857 TAAGTCTTTC
38867 AAAAATTTAGCTCACACGAGCCCAGAT
1 AAAAATTTAGCTCACACGAGCCCAGAT
* *
38894 AAAAA-TTAGCTCATACGAGCCTAGAT
1 AAAAATTTAGCTCACACGAGCCCAGAT
38920 A
1 A
38921 GGTTAGCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (27 bp):
AAAAATTTAGCTCACACGAGCCCAGAT
Found at i:38934 original size:24 final size:24
Alignment explanation
Indices: 38899--39011 Score: 149
Period size: 24 Copynumber: 4.8 Consensus size: 24
38889 CAGATAAAAA
* * *
38899 TTAGCTCATACGAG-CCTAGATAGG
1 TTAGCTCTTACGAGCCCAAAAT-GG
*
38923 TTAGCTCTTACGAGCCTAAAAT-G
1 TTAGCTCTTACGAGCCCAAAATGG
*
38946 TTAGCTCTTACAAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAAAATGG
*
38970 TTAGTTCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAAAATGG
38994 TTAGCTCTTACGAGCCCA
1 TTAGCTCTTACGAGCCCA
39012 GACAGAGTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 21 0.27
24 53 0.68
25 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAAAATGG
Found at i:38973 original size:47 final size:48
Alignment explanation
Indices: 38921--39011 Score: 148
Period size: 47 Copynumber: 1.9 Consensus size: 48
38911 AGCCTAGATA
*
38921 GGTTAGCTCTTACGAGCCTAAAAT-GTTAGCTCTTACAAGCCCAAAAT
1 GGTTAGCTCTTACGAGCCCAAAATGGTTAGCTCTTACAAGCCCAAAAT
* *
38968 GGTTAGTTCTTACGAGCCCAAAATGGTTAGCTCTTACGAGCCCA
1 GGTTAGCTCTTACGAGCCCAAAATGGTTAGCTCTTACAAGCCCA
39012 GACAGAGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 22 0.55
48 18 0.45
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
GGTTAGCTCTTACGAGCCCAAAATGGTTAGCTCTTACAAGCCCAAAAT
Found at i:39658 original size:35 final size:35
Alignment explanation
Indices: 39612--39681 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
39602 ACTTTCCTTT
*
39612 TATTCAATCTAGTCC-GATTAACATAAAACATGCAA
1 TATTCAATCTAGTCCTG-TTAACACAAAACATGCAA
39647 TATTCAATCTAGTCCTGTTAACACAAAACATGCAA
1 TATTCAATCTAGTCCTGTTAACACAAAACATGCAA
39682 AATACTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (35 bp):
TATTCAATCTAGTCCTGTTAACACAAAACATGCAA
Found at i:42373 original size:82 final size:82
Alignment explanation
Indices: 42225--42469 Score: 402
Period size: 82 Copynumber: 3.0 Consensus size: 82
42215 TTATCACCGT
* * *
42225 ATAACTCTGTCAATTCCTAGCACCCGGTGCCTAGCGGATAAACCGCAATAAGTGAGCCTAGCTCT
1 ATAATTCTGTCAATTCCTAGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
* *
42290 AGTTAGATTAACCAATG
66 AGTTGGATTAACCAACG
* *
42307 ATAATTCTGTCAATTCCTAGCACCCAGTGCCTAGAGGATAAACCGCAATAAGTGAGCCCAGATCT
1 ATAATTCTGTCAATTCCTAGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
42372 AGTTGGATTAACCAACG
66 AGTTGGATTAACCAACG
*
42389 ATAATTCTGTCAATTCCTAGCACCCAGTGACC-AGCGGATAAACTGCAATAAGTGAGCCCAGCTC
1 ATAATTCTGTCAATTCCTAGCACCCAGTG-CCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTC
42453 TAGTTGGATTAACCAAC
65 TAGTTGGATTAACCAAC
42470 AGTTTTGCGC
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
82 150 0.99
83 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (82 bp):
ATAATTCTGTCAATTCCTAGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
AGTTGGATTAACCAACG
Found at i:49387 original size:5 final size:5
Alignment explanation
Indices: 49377--49401 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49367 CACGTTTAGT
49377 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
49402 CATTAGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:50620 original size:3 final size:3
Alignment explanation
Indices: 50612--50643 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
50602 TTTTCACATT
*
50612 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
50644 TACACGACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:51457 original size:41 final size:41
Alignment explanation
Indices: 51387--51559 Score: 220
Period size: 41 Copynumber: 4.2 Consensus size: 41
51377 TTGTAAAAAT
* * * *
51387 GGAAAACTCATGACTCGAAATGAGCATGAGATTATGAATAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA
* * *
51428 GAAAGACTCATGTCTCAAGATAAGAATGAGATTATGAATAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA
* *
51469 GGAAGACTCATGTCTCGAGTTGAGAATGAGATTATGATTAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA
* * **
51510 GGAAGACTCATGTCTCGGGATGAGAATGAGAATATGGTTAAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT-AA
51552 GGAAGACT
1 GGAAGACT
51560 TATGACTAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 105 0.91
42 10 0.09
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.24
Consensus pattern (41 bp):
GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA
Found at i:57416 original size:26 final size:26
Alignment explanation
Indices: 57364--57424 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
57354 ATACATAGTA
**
57364 CCTGCTAAACATTCACCAACTTGAAG
1 CCTGCTAAACATTCACCAACTCAAAG
* **
57390 CCTGCTAAATATTCACCGGCTCAAAG
1 CCTGCTAAACATTCACCAACTCAAAG
*
57416 CCTGTTAAA
1 CCTGCTAAA
57425 AACCACCTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.25
Consensus pattern (26 bp):
CCTGCTAAACATTCACCAACTCAAAG
Found at i:61703 original size:52 final size:52
Alignment explanation
Indices: 61625--61728 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
61615 ATAATGTGGG
61625 GTTCCTAAATAAAAATTAAAGCATATATATGCAAGAATAAAATTTAATCCTA
1 GTTCCTAAATAAAAATTAAAGCATATATATGCAAGAATAAAATTTAATCCTA
61677 GTTCCTAAATAAAAATTAAAGCATATATATGCAAGAATAAAATTTAATCCTA
1 GTTCCTAAATAAAAATTAAAGCATATATATGCAAGAATAAAATTTAATCCTA
61729 CTCCTACAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (52 bp):
GTTCCTAAATAAAAATTAAAGCATATATATGCAAGAATAAAATTTAATCCTA
Found at i:61717 original size:28 final size:28
Alignment explanation
Indices: 61632--61723 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 28
61622 GGGGTTCCTA
61632 AATAAAAATTAAAGCATATATATGCAAG
1 AATAAAAATTAAAGCATATATATGCAAG
* * * * * *
61660 AAT-AAAATTTAATCCTA-GT-TCCTA-
1 AATAAAAATTAAAGCATATATATGCAAG
61684 AATAAAAATTAAAGCATATATATGCAAG
1 AATAAAAATTAAAGCATATATATGCAAG
*
61712 AATAAAATTTAA
1 AATAAAAATTAA
61724 TCCTACTCCT
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
24 3 0.06
25 14 0.30
26 2 0.04
27 14 0.30
28 14 0.30
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (28 bp):
AATAAAAATTAAAGCATATATATGCAAG
Found at i:66871 original size:15 final size:15
Alignment explanation
Indices: 66839--66890 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
66829 TGCTAGAACT
* **
66839 AGAACCAAATTCGTC
1 AGAACCAATTTCACC
*
66854 AGAACCAATTTTACC
1 AGAACCAATTTCACC
* *
66869 AGAACCAGTTTCACT
1 AGAACCAATTTCACC
66884 AGAACCA
1 AGAACCA
66891 CAAGTGGTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (15 bp):
AGAACCAATTTCACC
Found at i:72874 original size:17 final size:19
Alignment explanation
Indices: 72844--72881 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
72834 TAGCTAAAAA
*
72844 TAAAGTTATTTA-TTTATT
1 TAAAGTTATCTATTTTATT
72862 TAAA-TTATCTATTTTATT
1 TAAAGTTATCTATTTTATT
72880 TA
1 TA
72882 CGTTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TAAAGTTATCTATTTTATT
Found at i:72952 original size:19 final size:20
Alignment explanation
Indices: 72905--72952 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
72895 TTGATAATTC
72905 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
72923 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
72942 TTAATTATTAT
1 TTAATTATTAT
72953 CAAGAGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:73043 original size:104 final size:107
Alignment explanation
Indices: 72884--73180 Score: 444
Period size: 106 Copynumber: 2.8 Consensus size: 107
72874 TTTATTTACG
* *
72884 TTTTCAAAGTTTTGATAATTCTTAATATTAAATTATAAATTAAATTTTATAATTTATATTAATTA
1 TTTTCAAAATTTCGATAATTCTTAATATT-AATTATAAATTAAATTTTATAATTTATATTAATTA
*
72949 TTATCAAGAGTTTAAATTAAGAATTT-TCATTT-AATATTT-T
65 TTATCAAAAGTTTAAATTAAGAATTTATCATTTAAATATTTAT
72989 TTTTCAAAATTTCGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATTAT
1 TTTTCAAAATTTCGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATTAT
* * * *
73054 TATCAATA-TTTAGAGTTAA-TATTTATCATTTAAATTTTTAT
66 TATCAAAAGTTTA-AATTAAGAATTTATCATTTAAATATTTAT
*
73095 TTTTCAAAA-TTCTGATAATTCTTAATATTAATTATAAATTAATTTTTATAATTTATATTAATTA
1 TTTTCAAAATTTC-GATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATTA
*
73159 TTATCAAAAGTTTGAATTAAGA
65 TTATCAAAAGTTTAAATTAAGA
73181 TTTGTTTTCA
Statistics
Matches: 174, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
103 8 0.05
104 54 0.31
105 36 0.21
106 73 0.42
107 3 0.02
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (107 bp):
TTTTCAAAATTTCGATAATTCTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATTAT
TATCAAAAGTTTAAATTAAGAATTTATCATTTAAATATTTAT
Found at i:74610 original size:18 final size:18
Alignment explanation
Indices: 74581--74638 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
74571 ATCTATTAAA
*
74581 GAAGAA-AAGATCTTGAG
1 GAAGAAGAAGATCCTGAG
*
74598 GAAGAAGAAGATCCTGAA
1 GAAGAAGAAGATCCTGAG
*
74616 GAAGAAGAAGATCCCGAG
1 GAAGAAGAAGATCCTGAG
74634 GAAGA
1 GAAGA
74639 TCTTGTGGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 6 0.17
18 30 0.83
ACGTcount: A:0.48, C:0.10, G:0.31, T:0.10
Consensus pattern (18 bp):
GAAGAAGAAGATCCTGAG
Found at i:75083 original size:20 final size:20
Alignment explanation
Indices: 75058--75097 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
75048 ACTTGTCTTT
75058 CTTTAAAT-TTTATTATTTTA
1 CTTTAAATCTTTATT-TTTTA
*
75078 CTTTAAGTCTTTATTTTTTA
1 CTTTAAATCTTTATTTTTTA
75098 ATGAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
CTTTAAATCTTTATTTTTTA
Found at i:87460 original size:15 final size:15
Alignment explanation
Indices: 87436--87472 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
87426 GTTTTGCTAC
87436 AGTTTCACAATCTAT
1 AGTTTCACAATCTAT
*
87451 AGTTTTACAATCTAT
1 AGTTTCACAATCTAT
87466 AGTTTCA
1 AGTTTCA
87473 GTATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (15 bp):
AGTTTCACAATCTAT
Found at i:90281 original size:41 final size:41
Alignment explanation
Indices: 90205--90382 Score: 288
Period size: 41 Copynumber: 4.4 Consensus size: 41
90195 TAGGTCATGT
90205 GTCTTCCTTTTTAA-CAATCTTATGCTCTA-CTGAGTCATAA
1 GTCTTCCTTTTTAATCAATCTTATGCTCTATC-GAGTCATAA
*
90245 GGCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
* *
90286 GTCTTCCTTTTTAATCAATCTTATGCTCTATCAAGTAATAA
1 GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
*
90327 GTCTTCCTTCTTAATCAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
*
90368 GTCTTCCTTCTTAAT
1 GTCTTCCTTTTTAAT
90383 AACAAACCTC
Statistics
Matches: 129, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 13 0.10
41 115 0.89
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (41 bp):
GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
Found at i:90421 original size:45 final size:41
Alignment explanation
Indices: 90205--90421 Score: 170
Period size: 41 Copynumber: 5.2 Consensus size: 41
90195 TAGGTCATGT
* * * * *
90205 GTCTTCCTTTTTAA-CAATCTTATGCTCTA-CTGAGTCATAA
1 GTCTTCCTTCTTAATCAACCTCATGCTCAATC-GAGACATAA
* * * * * *
90245 GGCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTCTTAATCAACCTCATGCTCAATCGAGACATAA
* * * * *
90286 GTCTTCCTTTTTAATCAATCTTATGCTCTATCAAGTA-ATAA
1 GTCTTCCTTCTTAATCAACCTCATGCTCAATCGAG-ACATAA
* * * *
90327 GTCTTCCTTCTTAATCAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTCTTAATCAACCTCATGCTCAATCGAGACATAA
*
90368 GTCTTCCTTCTTAATAACAAACCTCATGCTCAATTCGAGACATGA
1 GTCTTCCTTCTTAAT--C-AACCTCATGCTCAA-TCGAGACATAA
90413 GTCTTCCTT
1 GTCTTCCTT
90422 TAATATAATC
Statistics
Matches: 157, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
40 13 0.08
41 113 0.72
42 1 0.01
43 1 0.01
44 11 0.07
45 18 0.11
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.41
Consensus pattern (41 bp):
GTCTTCCTTCTTAATCAACCTCATGCTCAATCGAGACATAA
Found at i:90509 original size:43 final size:42
Alignment explanation
Indices: 90200--90510 Score: 142
Period size: 41 Copynumber: 7.4 Consensus size: 42
90190 CTGCATAGGT
* * * * * *
90200 CATGTGTCTTCCTTTTTA-ACAATCTTATGCTCTACT-GAGT
1 CATGAGTCTTCCTTTATATATAATCTCATGCTCAACTCGAGG
* * * * * *
90240 CATAAGGCTTCCTTTTTA-ATCAATCTTATGCTCTA-TCGAGT
1 CATGAGTCTTCCTTTATATAT-AATCTCATGCTCAACTCGAGG
* * * * * *
90281 CATAAGTCTTCCTTTTTA-ATCAATCTTATGCTCTA-TCAAGT
1 CATGAGTCTTCCTTTATATAT-AATCTCATGCTCAACTCGAGG
* * * * *
90322 AATAAGTCTTCCTTCT-TA-ATCAATCTTATGCTCTA-TCGAGT
1 CATGAGTCTTCCTT-TATATAT-AATCTCATGCTCAACTCGAGG
* * * * *
90363 CATAAGTCTTCCTTCT-TAATAACAAACCTCATGCTCAATTCGAGA
1 CATGAGTCTTCCTT-TAT-AT-A-TAATCTCATGCTCAACTCGAGG
* *
90408 CATGAGTCTTCCTTTA-ATATAATCTCATGCTCATCCCGAGG
1 CATGAGTCTTCCTTTATATATAATCTCATGCTCAACTCGAGG
* * *
90449 CATGGGTCTT-CTTTTTATATAAATTCTCATGCTCAACTCAAGG
1 CATGAGTCTTCCTTTATATAT-AA-TCTCATGCTCAACTCGAGG
90492 CATGAGTCTTCCATTTATA
1 CATGAGTCTTCC-TTTATA
90511 CATCAAGTTT
Statistics
Matches: 229, Mismatches: 28, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
40 21 0.09
41 139 0.61
42 5 0.02
43 27 0.12
44 14 0.06
45 23 0.10
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (42 bp):
CATGAGTCTTCCTTTATATATAATCTCATGCTCAACTCGAGG
Found at i:96911 original size:41 final size:41
Alignment explanation
Indices: 96830--96966 Score: 222
Period size: 41 Copynumber: 3.4 Consensus size: 41
96820 CAGGTCATGT
* *
96830 GTCTTCCTTTTTAA-CAATCTTATGCTCTACCTAGTCATAA
1 GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
* *
96870 GTCTTCCTTTTTAATCAATCTTATACTCTATCGAGTAATAA
1 GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
96911 GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
*
96952 GTCTTCCTTTATAAT
1 GTCTTCCTTTTTAAT
96967 AACAAACCAC
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 14 0.16
41 75 0.84
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (41 bp):
GTCTTCCTTTTTAATCAATCTTATGCTCTATCGAGTCATAA
Found at i:104116 original size:19 final size:17
Alignment explanation
Indices: 104082--104130 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
104072 TTATCCAAAC
104082 ATTACAAGTCTTAAAATAA
1 ATTA-AAGTCTTAAAA-AA
104101 ATTAAAGTCTTGAAAAAA
1 ATTAAAGTCTT-AAAAAA
104119 ATTAAAGT-TTAA
1 ATTAAAGTCTTAA
104131 TCATCATCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 17 0.59
19 8 0.28
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (17 bp):
ATTAAAGTCTTAAAAAA
Found at i:119627 original size:13 final size:13
Alignment explanation
Indices: 119609--119634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119599 AATCATATTG
119609 GGTTCAATTTTTA
1 GGTTCAATTTTTA
119622 GGTTCAATTTTTA
1 GGTTCAATTTTTA
119635 TTATATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
GGTTCAATTTTTA
Found at i:120831 original size:18 final size:17
Alignment explanation
Indices: 120790--120832 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
120780 AAAAAGTGAT
120790 AAAAAAATTAGAGAAAA
1 AAAAAAATTAGAGAAAA
120807 AAGAAAAA-TATGAGAAAA
1 AA-AAAAATTA-GAGAAAA
120825 ATAAAAAA
1 A-AAAAAA
120833 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.17
18 18 0.78
19 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAAAATTAGAGAAAA
Found at i:130750 original size:16 final size:16
Alignment explanation
Indices: 130729--130772 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
130719 CTTAAAAAAT
130729 ATTTTTCTTTTTACAA
1 ATTTTTCTTTTTACAA
* *
130745 ATTTTTCTTTTAACAT
1 ATTTTTCTTTTTACAA
*
130761 TTTTTTCTTTTT
1 ATTTTTCTTTTT
130773 CTTTAATCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTCTTTTTACAA
Found at i:134008 original size:241 final size:241
Alignment explanation
Indices: 133585--134074 Score: 953
Period size: 241 Copynumber: 2.0 Consensus size: 241
133575 AGCCACAAAT
*
133585 AGTCAACAATATACCGCTGCCACAAAGAGAGCAAATTCCTGACAGAACAATTAGAGATTTCATTG
1 AGTCAACAATATACCGCTGCCACAAAGAGAGCAAATTCCTGACAGAACAATTAGAAATTTCATTG
133650 TTGCTATGCTCGATAATTTATTACCAAGGGTTGTTAGACCAGCAACACAAGCTGGTAATTTCGAA
66 TTGCTATGCTCGATAATTTATTACCAAGGGTTGTTAGACCAGCAACACAAGCTGGTAATTTCGAA
133715 TTAAAACCGGTGATGTTTCAAATGCTTAACTCGAATGGACAATATGCAGGTTTACCTCACGAAGA
131 TTAAAACCGGTGATGTTTCAAATGCTTAACTCGAATGGACAATATGCAGGTTTACCTCACGAAGA
*
133780 TGCGAGGGAGCATCTTAAATCTTTAATGCTTATATGTGCTTCTTTC
196 TACGAGGGAGCATCTTAAATCTTTAATGCTTATATGTGCTTCTTTC
*
133826 AGTCAACAATATACCGCTGCCACAAAGAGAGCAAATTCTTGACAGAACAATTAGAAATTTCATTG
1 AGTCAACAATATACCGCTGCCACAAAGAGAGCAAATTCCTGACAGAACAATTAGAAATTTCATTG
133891 TTGCTATGCTCGATAATTTATTACCAAGGGTTGTTAGACCAGCAACACAAGCTGGTAATTTCGAA
66 TTGCTATGCTCGATAATTTATTACCAAGGGTTGTTAGACCAGCAACACAAGCTGGTAATTTCGAA
133956 TTAAAACCGGTGATGTTTCAAATGCTTAACTCGAATGGACAATATGCAGGTTTACCTCACGAAGA
131 TTAAAACCGGTGATGTTTCAAATGCTTAACTCGAATGGACAATATGCAGGTTTACCTCACGAAGA
134021 TACGAGGGAGCATCTTAAATCTTTAATGCTTATATGTGCTTCTTTC
196 TACGAGGGAGCATCTTAAATCTTTAATGCTTATATGTGCTTCTTTC
134067 AGTCAACA
1 AGTCAACA
134075 TGATGTTCTT
Statistics
Matches: 246, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 246 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (241 bp):
AGTCAACAATATACCGCTGCCACAAAGAGAGCAAATTCCTGACAGAACAATTAGAAATTTCATTG
TTGCTATGCTCGATAATTTATTACCAAGGGTTGTTAGACCAGCAACACAAGCTGGTAATTTCGAA
TTAAAACCGGTGATGTTTCAAATGCTTAACTCGAATGGACAATATGCAGGTTTACCTCACGAAGA
TACGAGGGAGCATCTTAAATCTTTAATGCTTATATGTGCTTCTTTC
Found at i:139212 original size:17 final size:18
Alignment explanation
Indices: 139170--139214 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
139160 TTTCCTCTCA
139170 ATTTCAG-T-TTTTTTTC
1 ATTTCAGTTCTTTTTTTC
**
139186 ATTTTTGTTCTTTTTTTC
1 ATTTCAGTTCTTTTTTTC
139204 -TTTCAGTTCTT
1 ATTTCAGTTCTT
139215 CGTAACTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 8 0.35
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.71
Consensus pattern (18 bp):
ATTTCAGTTCTTTTTTTC
Found at i:141267 original size:5 final size:5
Alignment explanation
Indices: 141229--141300 Score: 74
Period size: 5 Copynumber: 14.4 Consensus size: 5
141219 TGATAACTTT
* * * * * *
141229 TTTTC ATTTC ATTTC ATTTC TTTTC GTTTC TTTTT TTTTC TTTT- TGTTTA
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC
141279 TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TT
141301 CCAAATAGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
4 1 0.02
5 56 0.97
6 1 0.02
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:159940 original size:29 final size:29
Alignment explanation
Indices: 159900--159981 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
159890 TTATCATATT
*
159900 ATTTAGCACTTCGGTGCTTATCGTTGTAAA
1 ATTT-GCACTTCGGTGCTTATCGTTATAAA
* *
159930 ATTTGCACTTCGGTGCTTATCGTTATTAT
1 ATTTGCACTTCGGTGCTTATCGTTATAAA
* * *
159959 TTTTACACTTTGGTGCTTATCGT
1 ATTTGCACTTCGGTGCTTATCGT
159982 AATTTTCACT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 42 0.91
30 4 0.09
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.46
Consensus pattern (29 bp):
ATTTGCACTTCGGTGCTTATCGTTATAAA
Found at i:159992 original size:24 final size:25
Alignment explanation
Indices: 159906--159994 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 25
159896 TATTATTTAG
* *
159906 CACTTCGGTGCTTATCGTTGTAAAATTTG
1 CACTTTGGTGCTTATCG-T-T--AATTTT
*
159935 CACTTCGGTGCTTATCGTTATTATTTTT
1 CACTTTGGTGCTTATCGTTA--A-TTTT
159963 ACACTTTGGTGCTTATCG-TAATTTT
1 -CACTTTGGTGCTTATCGTTAATTTT
159988 CACTTTG
1 CACTTTG
159995 TTTCTTAGTG
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
24 7 0.13
25 5 0.09
26 1 0.02
27 2 0.04
28 6 0.11
29 33 0.61
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (25 bp):
CACTTTGGTGCTTATCGTTAATTTT
Found at i:161241 original size:23 final size:23
Alignment explanation
Indices: 161197--161672 Score: 576
Period size: 23 Copynumber: 20.7 Consensus size: 23
161187 TTCTTGTATC
*
161197 TATGCTTAAATATTATTGTGATT
1 TATGCTTAAATATTAATGTGATT
* * *
161220 TATTCTTAAATGTTAATATGATT
1 TATGCTTAAATATTAATGTGATT
*
161243 TATGCTTAAATATTATTGTGATT
1 TATGCTTAAATATTAATGTGATT
* *
161266 TATGCTTAAATGTTAATATGATT
1 TATGCTTAAATATTAATGTGATT
161289 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
*
161312 TGTGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* * *
161335 TGTTCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* *
161358 TGTTCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* *
161381 TATGCTTAAATATTGATATGATT
1 TATGCTTAAATATTAATGTGATT
* * *
161404 TGTGCTCAAATATTAATCTGATT
1 TATGCTTAAATATTAATGTGATT
161427 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
** * **
161450 GGTGTTTAAATATTAATACGATT
1 TATGCTTAAATATTAATGTGATT
* *
161473 TGTGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
**
161496 TATGCTTAAATATTAACATGATT
1 TATGCTTAAATATTAATGTGATT
* *
161519 TGTGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* * *
161542 TTTGCTTAAATATTAATATGACT
1 TATGCTTAAATATTAATGTGATT
* * *
161565 TGTGCTAAAATATTAACGTGATT
1 TATGCTTAAATATTAATGTGATT
*
161588 TATGCTTAAATATTAATGTTATT
1 TATGCTTAAATATTAATGTGATT
*
161611 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
*
161634 TGA-GCTCAAATATTAATGTGATT
1 T-ATGCTTAAATATTAATGTGATT
* *
161657 TGTGCTCAAATATTAA
1 TATGCTTAAATATTAA
161673 GATTTAATAT
Statistics
Matches: 387, Mismatches: 64, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
23 386 1.00
24 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (23 bp):
TATGCTTAAATATTAATGTGATT
Found at i:161784 original size:36 final size:36
Alignment explanation
Indices: 161744--161812 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
161734 TTGTGAAAGT
* *
161744 AAATATGTGGGTATGTTCTTCATGCCATATGACAGA
1 AAATATATAGGTATGTTCTTCATGCCATATGACAGA
*
161780 AAATATATATGTATGTTCTTCATGCCATATGAC
1 AAATATATAGGTATGTTCTTCATGCCATATGAC
161813 TAAATTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (36 bp):
AAATATATAGGTATGTTCTTCATGCCATATGACAGA
Found at i:166443 original size:9 final size:8
Alignment explanation
Indices: 166420--166463 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
166410 AATAAAAAAA
166420 TTTTCTTT
1 TTTTCTTT
166428 TTTTCTTT
1 TTTTCTTT
166436 TCTTTCTTT
1 T-TTTCTTT
* *
166445 TTCTCATTA
1 TTTTC-TTT
166454 TTTTCTTT
1 TTTTCTTT
166462 TT
1 TT
166464 CAAATGACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 16 0.53
9 14 0.47
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:166458 original size:17 final size:16
Alignment explanation
Indices: 166419--166464 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
166409 CAATAAAAAA
*
166419 ATTTTCTTTTTTTCTT
1 ATTTTCTTTTTCTCTT
*
166435 TTCTTTCTTTTTCTCATT
1 AT-TTTCTTTTTCTC-TT
166453 ATTTTCTTTTTC
1 ATTTTCTTTTTC
166465 AAATGACTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 21 0.84
18 3 0.12
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTCTTTTTCTCTT
Found at i:167070 original size:18 final size:18
Alignment explanation
Indices: 167047--167095 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
167037 TAGCAAAATG
167047 AATGCAATGACAAAACAA
1 AATGCAATGACAAAACAA
* * *
167065 AATGCAGTAACAATA-AA
1 AATGCAATGACAAAACAA
167082 AATGC-ATGA-AAAAC
1 AATGCAATGACAAAAC
167096 TATCTAGAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 7 0.29
18 12 0.50
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.14
Consensus pattern (18 bp):
AATGCAATGACAAAACAA
Found at i:167165 original size:6 final size:6
Alignment explanation
Indices: 167154--167179 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
167144 GCTACCTTTG
167154 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
167180 GGGCGTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:178652 original size:24 final size:24
Alignment explanation
Indices: 178620--178675 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
178610 TGTATGGGTA
178620 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
178644 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
178668 TCCTCTTG
1 TCTTCTTG
178676 AGAACTCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:183590 original size:36 final size:36
Alignment explanation
Indices: 183550--183634 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 36
183540 CTCAAAAGAT
* *
183550 ATGTCTCTTCATTTATCTTTGAGTATATGAAAGGGC
1 ATGTCTCTTCATTTATCTTAGAGTAGATGAAAGGGC
*
183586 ATGTCTCTTCATTTTTCTTAGAGTAGATGAAAGGGC
1 ATGTCTCTTCATTTATCTTAGAGTAGATGAAAGGGC
*
183622 ATGTCTTTTCATT
1 ATGTCTCTTCATT
183635 AGTCCTTGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (36 bp):
ATGTCTCTTCATTTATCTTAGAGTAGATGAAAGGGC
Found at i:184067 original size:18 final size:18
Alignment explanation
Indices: 184022--184068 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
184012 TAACAGTCAA
*
184022 ATTTAATAACACACACAT
1 ATTTAATAACTCACACAT
184040 A-TTAACTAACTCA-AGCAT
1 ATTTAA-TAACTCACA-CAT
184058 ATTTAATAACT
1 ATTTAATAACT
184069 AAGATGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (18 bp):
ATTTAATAACTCACACAT
Found at i:184239 original size:50 final size:52
Alignment explanation
Indices: 184124--184246 Score: 153
Period size: 50 Copynumber: 2.4 Consensus size: 52
184114 TAGATTACTA
* * * *
184124 AATGCATGAC-TTGTTTTAATGATGCAAACTTAACTAATCATGAGAGTTATAT
1 AATGCATGACATT-ATTTAATGATGCAAACTTAACTAATCAAGAAAGTTACAT
* *
184176 AATGCATGTCATTATTT-ATGATGCATACTTAACTAA-CAAGAAAGTTACAT
1 AATGCATGACATTATTTAATGATGCAAACTTAACTAATCAAGAAAGTTACAT
*
184226 AATGCATGACATTATTAAATG
1 AATGCATGACATTATTTAATG
184247 CATAACACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
50 26 0.43
51 21 0.34
52 12 0.20
53 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (52 bp):
AATGCATGACATTATTTAATGATGCAAACTTAACTAATCAAGAAAGTTACAT
Found at i:186355 original size:23 final size:23
Alignment explanation
Indices: 186289--186828 Score: 647
Period size: 23 Copynumber: 23.5 Consensus size: 23
186279 TGTATCTATT
*
186289 CTTAAATATTATTGTGATTTATG
1 CTTAAATATTAATGTGATTTATG
*
186312 CTTAAATGTTAA--T-ATTTATG
1 CTTAAATATTAATGTGATTTATG
*
186332 CTTAAATATTAATTTGATTTATG
1 CTTAAATATTAATGTGATTTATG
* *
186355 CTTAAATATTATTATGATTTATG
1 CTTAAATATTAATGTGATTTATG
*
186378 CTTAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTATG
186401 CTTAAATATTAATGTGATTTGAT-
1 CTTAAATATTAATGTGATTT-ATG
* * *
186424 CTTAAATATTAATATGATTTGTT
1 CTTAAATATTAATGTGATTTATG
* *
186447 CTTAAATACTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTATG
*
186470 CTTAAATATTAATATGATTTATG
1 CTTAAATATTAATGTGATTTATG
186493 CTTAAATATTAATGTGATTTATG
1 CTTAAATATTAATGTGATTTATG
*
186516 CTTAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTATG
* * * *
186539 TTTAAATATTAATATAATTTTTG
1 CTTAAATATTAATGTGATTTATG
* * *
186562 CTCAAACATTAATCTGATTTATG
1 CTTAAATATTAATGTGATTTATG
* *
186585 CTTAAATATTAGTGTGATTTGTG
1 CTTAAATATTAATGTGATTTATG
*
186608 CTTAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTATG
* * * *
186631 CTTAAGTGTTGATATGATTTATG
1 CTTAAATATTAATGTGATTTATG
* *
186654 CTTAAATTATTAATATGATTTGTG
1 CTTAAA-TATTAATGTGATTTATG
* *
186678 CTCAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTATG
* * *
186701 TTTAAATATTAATATGATTTGTG
1 CTTAAATATTAATGTGATTTATG
* * *
186724 CTCAAATATTAAAGTGATTTACG
1 CTTAAATATTAATGTGATTTATG
186747 CTTAAATATTAATGTGATTTATG
1 CTTAAATATTAATGTGATTTATG
* * *
186770 CTTAAATATTAATATGATTTGTA
1 CTTAAATATTAATGTGATTTATG
*
186793 CTCAAATTATTAATGTGATTTATG
1 CTTAAA-TATTAATGTGATTTATG
*
186817 CTCAAATATTAA
1 CTTAAATATTAA
186829 GATTTGATAT
Statistics
Matches: 445, Mismatches: 65, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.04
21 1 0.00
22 2 0.00
23 384 0.86
24 40 0.09
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.48
Consensus pattern (23 bp):
CTTAAATATTAATGTGATTTATG
Found at i:188854 original size:19 final size:19
Alignment explanation
Indices: 188809--188872 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
188799 TTTTGGTGCT
* *
188809 TTTTTTTTTACTATTTTGG
1 TTTTTTTTTATTGTTTTGG
* *
188828 TTGCTTTTTTATTGTTTTGA
1 TT-TTTTTTTATTGTTTTGG
188848 TTTTTTTTTATTGTTTTGG
1 TTTTTTTTTATTGTTTTGG
188867 TTTTTT
1 TTTTTT
188873 ACTATTTTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.08, C:0.03, G:0.12, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTATTGTTTTGG
Found at i:188878 original size:19 final size:19
Alignment explanation
Indices: 188837--188878 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
188827 GTTGCTTTTT
**
188837 TATTGTTTTGATTTTTTTT
1 TATTGTTTTGATTTTTTAC
*
188856 TATTGTTTTGGTTTTTTAC
1 TATTGTTTTGATTTTTTAC
188875 TATT
1 TATT
188879 TTAGTGCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.74
Consensus pattern (19 bp):
TATTGTTTTGATTTTTTAC
Found at i:188889 original size:19 final size:19
Alignment explanation
Indices: 188812--188891 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 19
188802 TGGTGCTTTT
*
188812 TTTTTTACTATTTTGGTTGC
1 TTTTTTACTATTTT-GATGC
* * **
188832 TTTTTTATTGTTTTGATTT
1 TTTTTTACTATTTTGATGC
* *
188851 TTTTTTATTGTTTTG--G-
1 TTTTTTACTATTTTGATGC
188867 TTTTTTACTATTTT-AGTGC
1 TTTTTTACTATTTTGA-TGC
188886 TTTTTT
1 TTTTTT
188892 CTGTTTTGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
16 12 0.25
18 1 0.02
19 23 0.48
20 12 0.25
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.72
Consensus pattern (19 bp):
TTTTTTACTATTTTGATGC
Found at i:188909 original size:18 final size:17
Alignment explanation
Indices: 188859--188913 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
188849 TTTTTTTTAT
*
188859 TGTTTTGGT-TTTTTAC
1 TGTTTTGGTGTTTTTTC
* *
188875 TATTTTAGTGCTTTTTTC
1 TGTTTTGGTG-TTTTTTC
188893 TGTTTTGGTGTTATTTT-
1 TGTTTTGGTGTT-TTTTC
188910 TGTT
1 TGTT
188914 GTTATTTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.23
17 6 0.19
18 18 0.58
ACGTcount: A:0.07, C:0.05, G:0.18, T:0.69
Consensus pattern (17 bp):
TGTTTTGGTGTTTTTTC
Found at i:188910 original size:54 final size:55
Alignment explanation
Indices: 188812--188916 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 55
188802 TGGTGCTTTT
* * *
188812 TTTTTTACTATTTTGGTTGCTTTTTTATTGTTTTGATTTTTTTTTATTGTTTTGG
1 TTTTTTACTATTTTAGTTGCTTTTTTACTGTTTTGATTTATTTTTATTGTTTTGG
* *
188867 TTTTTTACTATTTTAG-TGCTTTTTT-CTGTTTTGGTGTTATTTTTGTTGTT
1 TTTTTTACTATTTTAGTTGCTTTTTTACTGTTTTGAT-TTATTTTTATTGTT
188917 ATTTTTGTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
53 8 0.18
54 21 0.48
55 15 0.34
ACGTcount: A:0.09, C:0.05, G:0.15, T:0.71
Consensus pattern (55 bp):
TTTTTTACTATTTTAGTTGCTTTTTTACTGTTTTGATTTATTTTTATTGTTTTGG
Found at i:188916 original size:12 final size:12
Alignment explanation
Indices: 188895--188987 Score: 93
Period size: 12 Copynumber: 7.8 Consensus size: 12
188885 CTTTTTTCTG
*
188895 TTTTGGTGTTAT
1 TTTTGTTGTTAT
188907 TTTTGTTGTTAT
1 TTTTGTTGTTAT
* *
188919 TTTTGTTATTGT
1 TTTTGTTGTTAT
*
188931 TTTT-TGTGCTAT
1 TTTTGT-TGTTAT
*
188943 TTTTGCTGTTAT
1 TTTTGTTGTTAT
*
188955 TTTTGTTGCTA-
1 TTTTGTTGTTAT
188966 TTTTGTTGTT-T
1 TTTTGTTGTTAT
188977 TTGTTGTTGTT
1 TT-TTGTTGTT
188988 TTGCTATTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
11 12 0.18
12 54 0.82
ACGTcount: A:0.06, C:0.03, G:0.19, T:0.71
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:188990 original size:20 final size:20
Alignment explanation
Indices: 188901--188982 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 20
188891 TCTGTTTTGG
*
188901 TGTTATTTTTGTTGTTATTTT
1 TGTTATTTTTGTTGCTA-TTT
*
188922 TGTTATTGTTTTTTGTGCTATTTTT
1 TGTTA-T-TTTTGT-TGCTA--TTT
188947 GCTGTTATTTTTGTTGCTATTT
1 --TGTTATTTTTGTTGCTATTT
*
188969 TGTTGTTTTTGTTG
1 TGTTATTTTTGTTG
188983 TTGTTTTGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 13 0.25
21 5 0.10
22 4 0.08
23 5 0.10
24 9 0.18
25 9 0.18
26 1 0.02
27 5 0.10
ACGTcount: A:0.07, C:0.04, G:0.18, T:0.71
Consensus pattern (20 bp):
TGTTATTTTTGTTGCTATTT
Found at i:189000 original size:23 final size:23
Alignment explanation
Indices: 188893--189013 Score: 72
Period size: 24 Copynumber: 5.3 Consensus size: 23
188883 TGCTTTTTTC
* *
188893 TGTTTTGGTGTTATTTTTGTTGT
1 TGTTTTGCTATTATTTTTGTTGT
* * *
188916 TATTTTTGTTATTGTTTTT-TGTGCT
1 T-GTTTTGCTATTATTTTTGT-TG-T
* *
188941 AT-TTTTGCTGTTATTTTTGTTGC
1 -TGTTTTGCTATTATTTTTGTTGT
* *
188964 TATTTTG---TTGTTTTTGTTGT
1 TGTTTTGCTATTATTTTTGTTGT
* *
188984 TGTTTTGCTATTATTTTTATTGC
1 TGTTTTGCTATTATTTTTGTTGT
189007 TGTTTTG
1 TGTTTTG
189014 GTTGTTTGGA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
20 17 0.23
22 1 0.01
23 24 0.32
24 30 0.40
25 2 0.03
26 1 0.01
ACGTcount: A:0.07, C:0.04, G:0.19, T:0.69
Consensus pattern (23 bp):
TGTTTTGCTATTATTTTTGTTGT
Found at i:189028 original size:32 final size:30
Alignment explanation
Indices: 188982--189042 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 30
188972 TGTTTTTGTT
* *
188982 GTTGTTTTGCTATTATTTTTATTGCTGTTTTG
1 GTTGTTTGGATATTATTTTTA-TG-TGTTTTG
189014 GTTGTTTGGATATTATTTTTATGTGTTTT
1 GTTGTTTGGATATTATTTTTATGTGTTTT
189043 TACTATTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 6 0.22
31 2 0.07
32 19 0.70
ACGTcount: A:0.11, C:0.03, G:0.20, T:0.66
Consensus pattern (30 bp):
GTTGTTTGGATATTATTTTTATGTGTTTTG
Found at i:193520 original size:24 final size:24
Alignment explanation
Indices: 193471--193520 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
193461 CATTTTAATG
* **
193471 TTCTTGTTTTTCTTTTTCTTTTTC
1 TTCTTGTTGTTCTTTTTCTTCCTC
193495 TTCTTGTTGTTCATTTTT-TTCCTC
1 TTCTTGTTGTTC-TTTTTCTTCCTC
193519 TT
1 TT
193521 AAGAACTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.02, C:0.18, G:0.06, T:0.74
Consensus pattern (24 bp):
TTCTTGTTGTTCTTTTTCTTCCTC
Found at i:194951 original size:19 final size:19
Alignment explanation
Indices: 194910--194951 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
194900 TTATAATGTA
* *
194910 TAAAAAAACAATAAAAAGC
1 TAAAAAAAAAATAAAAACC
*
194929 -AAAAAAAAAATGAAAACC
1 TAAAAAAAAAATAAAAACC
194947 TAAAA
1 TAAAA
194952 CTAAGAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.76, C:0.10, G:0.05, T:0.10
Consensus pattern (19 bp):
TAAAAAAAAAATAAAAACC
Found at i:195165 original size:18 final size:19
Alignment explanation
Indices: 195134--195169 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
195124 AACATTTTTT
*
195134 TATTTTTTTATTTTTCTCA
1 TATTTTTCTATTTTTCTCA
195153 TATTTTTCT-TTTTTCTC
1 TATTTTTCTATTTTTCTC
195170 TACTTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTTTCTATTTTTCTCA
Found at i:196483 original size:12 final size:13
Alignment explanation
Indices: 196460--196508 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
196450 GTATCTTCTT
196460 GTTTTTCATTTTC
1 GTTTTTCATTTTC
*
196473 GTTTTTCTTTTTC
1 GTTTTTCATTTTC
196486 -TTTTTC-TTCTT-
1 GTTTTTCATT-TTC
196497 GTTTTTCATTTT
1 GTTTTTCATTTT
196509 TTTTCCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 2 0.06
12 16 0.50
13 14 0.44
ACGTcount: A:0.04, C:0.14, G:0.06, T:0.76
Consensus pattern (13 bp):
GTTTTTCATTTTC
Found at i:196489 original size:5 final size:6
Alignment explanation
Indices: 196461--196509 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
196451 TATCTTCTTG
* * *
196461 TTTTTC ATTTTC GTTTTTC TTTTTC TTTTTC TTCTTG TTTTTC ATTTTT
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTT
196510 TTTCCTCTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:197951 original size:21 final size:20
Alignment explanation
Indices: 197909--197951 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
197899 TATAATGTAT
* *
197909 AAAAAAACAATAAAAAGCAA
1 AAAAAAAAAATAAAAACCAA
* *
197929 AAAAAAAAAATGAAAACCTA
1 AAAAAAAAAATAAAAACCAA
197949 AAA
1 AAA
197952 CTAAGAATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.79, C:0.09, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAATAAAAACCAA
Found at i:198157 original size:18 final size:19
Alignment explanation
Indices: 198125--198161 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
198115 AACCCACGGA
*
198125 ATATTTTTTTATTTTTCTC
1 ATATTTTTCTATTTTTCTC
198144 ATATTTTTCT-TTTTTCTC
1 ATATTTTTCTATTTTTCTC
198162 TACTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (19 bp):
ATATTTTTCTATTTTTCTC
Found at i:207337 original size:19 final size:18
Alignment explanation
Indices: 207313--207353 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
207303 TAAAAAATTC
207313 GAAAAAAATTTGATAAAAAA
1 GAAAAAAA-TTGA-AAAAAA
*
207333 GAAAAAAATTGAAAAAGA
1 GAAAAAAATTGAAAAAAA
207351 GAA
1 GAA
207354 GAAGAATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
GAAAAAAATTGAAAAAAA
Found at i:208411 original size:23 final size:25
Alignment explanation
Indices: 208385--208431 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
208375 CCAATTAGGG
208385 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
208408 AATTATCTTTTTAGAAATTTAATT
1 AATTATCTGTTTAG-AATTTAATT
208432 TGGATCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
26 8 0.40
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:208819 original size:20 final size:20
Alignment explanation
Indices: 208794--208833 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
208784 TTATATTTTG
*
208794 TTCTTAGTTGTTGTGCTTAA
1 TTCTTAGTTGATGTGCTTAA
*
208814 TTCTTATTTGATGTGCTTAA
1 TTCTTAGTTGATGTGCTTAA
208834 ATCAGAGGAG
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:0.17, C:0.10, G:0.17, T:0.55
Consensus pattern (20 bp):
TTCTTAGTTGATGTGCTTAA
Found at i:212699 original size:10 final size:9
Alignment explanation
Indices: 212683--212707 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
212673 TCATGTTTTT
212683 GAAAAAAAA
1 GAAAAAAAA
212692 GAAAAAAAA
1 GAAAAAAAA
212701 GAAAAAA
1 GAAAAAA
212708 GAAATTGAAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:214770 original size:3 final size:3
Alignment explanation
Indices: 214764--214804 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
214754 ATTATTATTA
214764 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
214805 TATATTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:218073 original size:13 final size:13
Alignment explanation
Indices: 218057--218098 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
218047 AAATATCCTT
218057 AAAACATAACTTG
1 AAAACATAACTTG
* *
218070 AAAACCTAACTTA
1 AAAACATAACTTG
218083 AAAACATAACTTG
1 AAAACATAACTTG
218096 AAA
1 AAA
218099 CTAGAGTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:220974 original size:28 final size:28
Alignment explanation
Indices: 220912--220978 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
220902 CGATGGGAAA
* * * * *
220912 GCTTTTATGGCAATCTCTATTATGGATT
1 GCTTTTGTGTCAATATCTATTAAGGACT
220940 GCTTTTGTGTCAATATCTATTAAGGACT
1 GCTTTTGTGTCAATATCTATTAAGGACT
220968 GCTTTTGTGTC
1 GCTTTTGTGTC
220979 GGAGATGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (28 bp):
GCTTTTGTGTCAATATCTATTAAGGACT
Found at i:238735 original size:44 final size:44
Alignment explanation
Indices: 238677--238781 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
238667 AACTAAGAAA
* * *
238677 GTTTAAATACAAAATGGAACCATTACAAGTTCCTAACTGAAGGT
1 GTTTAAATACAAAATGGAACCATCAAAAGTTCCAAACTGAAGGT
* * *
238721 GTTTAAGTATAAAATGGAACCATCAAAAGTTCCAAACTGAATGTT
1 GTTTAAATACAAAATGGAACCATCAAAAGTTCCAAACTGAA-GGT
*
238766 CTTTAAATACAAAATG
1 GTTTAAATACAAAATG
238782 TAACAAATCA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 36 0.71
45 15 0.29
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (44 bp):
GTTTAAATACAAAATGGAACCATCAAAAGTTCCAAACTGAAGGT
Found at i:241916 original size:6 final size:6
Alignment explanation
Indices: 241900--241932 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
241890 TTCTTAGAGG
*
241900 ATCACT GTCACT ATCACT ATCACT ATCACT ATC
1 ATCACT ATCACT ATCACT ATCACT ATCACT ATC
241933 TCCCTCTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (6 bp):
ATCACT
Found at i:241966 original size:27 final size:27
Alignment explanation
Indices: 241928--241983 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
241918 ATCACTATCA
241928 CTATCTCCCTCTGGAACAACTTCCTCC
1 CTATCTCCCTCTGGAACAACTTCCTCC
*
241955 CTATCTCCCTCTGGAACAGCTTCCTCC
1 CTATCTCCCTCTGGAACAACTTCCTCC
241982 CT
1 CT
241984 TCCCATTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.45, G:0.09, T:0.30
Consensus pattern (27 bp):
CTATCTCCCTCTGGAACAACTTCCTCC
Found at i:243388 original size:16 final size:15
Alignment explanation
Indices: 243350--243390 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
243340 AACATTTTAT
243350 TCTCAAA-TTTTAAA
1 TCTCAAATTTTTAAA
*
243364 T-TGAAATTTTTAAAA
1 TCTCAAATTTTT-AAA
243379 TCTCAAATTTTT
1 TCTCAAATTTTT
243391 TTAACCCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 4 0.18
16 9 0.41
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (15 bp):
TCTCAAATTTTTAAA
Found at i:243585 original size:130 final size:131
Alignment explanation
Indices: 243414--243653 Score: 394
Period size: 130 Copynumber: 1.8 Consensus size: 131
243404 TTTTTCTAAA
*
243414 TTTTTAAACCTTCTCTTATTTTTTTTTTTCGAAAACCTAAATAACAGCTAATTTATTCCTAAATT
1 TTTTTAAACCTTCTCTTATTTTTTTTTTTCGAAAACCTAAATAACAGATAATTTATTCCTAAATT
*
243479 TTATGGATTTCAAGTTCTTCCAGTCACATGTTGTATATTGTTTTCAAGTTCTTGTCTTATTTCAA
66 TTATGGATTTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTCAAGTTCTTGTCTTATTTCAA
243544 T
131 T
* * * *
243545 TTTTTTAACCTTCTCTT-TTTTATTTTTTTTG-AAACCTAAATAGCAGATACTTTATTCCTAAAT
1 TTTTTAAACCTTCTCTTATTTT-TTTTTTTCGAAAACCTAAATAACAGATAATTTATTCCTAAAT
*
243608 TTTTTGGATTTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTC
65 TTTATGGATTTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTC
243654 TAGTACTAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
130 77 0.76
131 24 0.24
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (131 bp):
TTTTTAAACCTTCTCTTATTTTTTTTTTTCGAAAACCTAAATAACAGATAATTTATTCCTAAATT
TTATGGATTTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTCAAGTTCTTGTCTTATTTCAA
T
Found at i:243695 original size:130 final size:130
Alignment explanation
Indices: 243423--243697 Score: 292
Period size: 130 Copynumber: 2.1 Consensus size: 130
243413 ATTTTTAAAC
*
243423 CTTCT-CTTATTT-TTTTTTTTCGAAAACCTAAATAACAGCTAATTTATTCCTAAATTTTATGGA
1 CTTCTCCTT-TTTATTTTTTTTCGAAAACCTAAATAACAGATAATTTATTCCTAAATTTTATGGA
* * *** * ** * *
243486 TTTCAAGTTCTTCCAGTCACATGTTGTATATTGTTTTCAAGTTCTTGTCTTATTTCAATTTTTTT
65 TTTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTCAAGTACTTAAATAATAACAATCTATTT
243551 AA
130 -A
* * * *
243553 CCTTCTCTTTTTTATTTTTTTT-G-AAACCTAAATAGCAGATACTTTATTCCTAAATTTTTTGGA
1 -CTTCTCCTTTTTATTTTTTTTCGAAAACCTAAATAACAGATAATTTATTCCTAAATTTTATGGA
*
243616 TTTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTCTAGTAC-TAAATAAGTCAACAAGTCTA
65 TTTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTCAAGTACTTAAATAA-T-AACAA-TCTA
243680 TTT-
127 TTTA
*
243683 CTGTTTCCTTTTTAT
1 CT-TCTCCTTTTTAT
243698 AGAAGTCAAC
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
129 5 0.04
130 88 0.73
131 12 0.10
132 15 0.12
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (130 bp):
CTTCTCCTTTTTATTTTTTTTCGAAAACCTAAATAACAGATAATTTATTCCTAAATTTTATGGAT
TTCAAGTTCTTCCAGTCACATGTTGTATAATGTTTTCAAGTACTTAAATAATAACAATCTATTTA
Found at i:244821 original size:29 final size:29
Alignment explanation
Indices: 244781--244853 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
244771 GAAATTAAAC
244781 TTCAGGTACCACATTAGACATTTTGAAAA
1 TTCAGGTACCACATTAGACATTTTGAAAA
* *
244810 TTTAGGTACCACATTAGACATTTTGAAAC
1 TTCAGGTACCACATTAGACATTTTGAAAA
*
244839 TTCAAGTACCACATT
1 TTCAGGTACCACATT
244854 CAAACAAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (29 bp):
TTCAGGTACCACATTAGACATTTTGAAAA
Found at i:245575 original size:73 final size:73
Alignment explanation
Indices: 245451--245597 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
245441 ATTTATTTAG
* *
245451 TAGGGATGAGCAAAACTCGATTTGATTTGAAAAAATTGAAAAAAAAATTGAATTCCGAGTTAAAC
1 TAGGGATGAGCAAAACTCGATTCGATTTGAAAAAATCGAAAAAAAAATTGAATTCCGAGTTAAAC
245516 GAATCGAA
66 GAATCGAA
* * *
245524 TAGGGGTGAGCAAAACTCGATTCGATTTGAAAAAATCGAAAAAAAATTTGAATTTCGAGTTAAAC
1 TAGGGATGAGCAAAACTCGATTCGATTTGAAAAAATCGAAAAAAAAATTGAATTCCGAGTTAAAC
245589 GAATCGAA
66 GAATCGAA
245597 T
1 T
245598 TATTTGAGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (73 bp):
TAGGGATGAGCAAAACTCGATTCGATTTGAAAAAATCGAAAAAAAAATTGAATTCCGAGTTAAAC
GAATCGAA
Found at i:246789 original size:5 final size:5
Alignment explanation
Indices: 246768--246804 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
246758 ATGTGTTTAC
*
246768 ATAAT AT-AT AT-AT ATAAT ATAAT ATAAT ATATT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
246805 ACTTAAAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:248160 original size:33 final size:33
Alignment explanation
Indices: 248118--248183 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
248108 CAAGGAGCAG
248118 GAGGGAGATTGCGAGATCTGGTAGATGACCCAA
1 GAGGGAGATTGCGAGATCTGGTAGATGACCCAA
248151 GAGGGAGATTGCGAGATCTGGTAGATGACCCAA
1 GAGGGAGATTGCGAGATCTGGTAGATGACCCAA
248184 AATGGAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.36, T:0.18
Consensus pattern (33 bp):
GAGGGAGATTGCGAGATCTGGTAGATGACCCAA
Found at i:249223 original size:16 final size:16
Alignment explanation
Indices: 249176--249224 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
249166 TTTCAAGTTA
*
249176 ATTTTGAGTTAATATT
1 ATTTTGAGTTAAAATT
* *
249192 ATTTTGGGTTAGAATT
1 ATTTTGAGTTAAAATT
*
249208 ATTTTGAATTAAAATT
1 ATTTTGAGTTAAAATT
249224 A
1 A
249225 ATTTAGTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
ATTTTGAGTTAAAATT
Found at i:251937 original size:30 final size:30
Alignment explanation
Indices: 251897--251962 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
251887 AAAATTATCC
*
251897 ATATTAATATTATATACAAAAAGTTTCCAT
1 ATATTTATATTATATACAAAAAGTTTCCAT
*
251927 ATATTTATATTATATACAAAAAGTTTCCTT
1 ATATTTATATTATATACAAAAAGTTTCCAT
251957 ATATTT
1 ATATTT
251963 TATGTACAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (30 bp):
ATATTTATATTATATACAAAAAGTTTCCAT
Found at i:260456 original size:216 final size:215
Alignment explanation
Indices: 260047--260955 Score: 835
Period size: 216 Copynumber: 4.3 Consensus size: 215
260037 ACGAACATCA
* * * * *
260047 GAACTAGTCAAAATTTTATGAGTTCTTTGATAACTTTGGTTCCTTAAAGTATTCAAGACAATAC-
1 GAACTTGTCAAACTTTTACGAGTTCTTTAATAACTTTGGTTCCTTAAAGTATTCAAGATAAT-CT
** *
260111 ATTCCTTCGAGAAATTTTTTGAACATTCCATGCTCGGGAAATCGCAGT-ATTTGTTCCAAATAGT
65 ATTCCTTCGACCAATTTTTTGAACATTCCATGCTC-GGAAATCGCA-TCATTTGGTCCAAATAGT
* * * * *
260175 TTGTCATTTTCTAAACAACTTTCAGTCTTTGAATTAAAAACTTATTTACATGAGACTTGTTTCTC
128 TTGTCATTTTCTAAACAACTTTCAGTCATCGAATTAAAAACATATTTACATGAGAATTATTTCTC
* *
260240 TCTTTGTTCTTGGGA-AAACTTTC
193 TCTTGGTTCTT-CGACAAACTTTC
* * * * * * *
260263 GAACTTGTCAAACTTTTACGAGTTCTTCAATAACTTCGATTCCATACAGTATCCAAGATGATCTA
1 GAACTTGTCAAACTTTTACGAGTTCTTTAATAACTTTGGTTCCTTAAAGTATTCAAGATAATCTA
* *
260328 TTCCTTCGACCAATTTTTTGAACATTCCATTCTCGAAAAATCGCATCATTTGGTCCAAATAGTTC
66 TTCCTTCGACCAATTTTTTGAACATTCCATGCTCG-GAAATCGCATCATTTGGTCCAAATAGTT-
* * *
260393 T-TCATTTTGTAAACAACATTT-GGTCATCGAATTAAAAACATATTTACGTGAGAATTATTTCTC
129 TGTCATTTTCTAAACAAC-TTTCAGTCATCGAATTAAAAACATATTTACATGAGAATTATTTCTC
260456 TCTTGGTTCTTCGACAAACTTTC
193 TCTTGGTTCTTCGACAAACTTTC
* * * * *
260479 AAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGTTTAT-TC
1 GAACTTGTCAAACTTTTACGAGTTCTTTAATAACTTTGGTTCCTTAAAGTATTCAAGATAATCT-
* * * ** * *
260543 ATTCTTTCGACC-ACTTTTCGAACATTTAATGCTCTGGAAATTGCATCATTTCGTCCAAATAGTT
65 ATTCCTTCGACCAATTTTTTGAACATTCCATGCTC-GGAAATCGCATCATTTGGTCCAAATAGTT
* *
260607 TGTCAGTTTGCT------C--T---T--T-GAATTAAAAAC-TGATTTACATGAGAATTACTTCT
129 TGTCA-TTTTCTAAACAACTTTCAGTCATCGAATTAAAAACAT-ATTTACATGAGAATTATTTCT
* * *
260657 CTCTTGGTTCTTGGACGAACTTCC
192 CTCTTGGTTCTTCGACAAACTTTC
* * * * *
260681 GAACTAGTCAAACTTTTACGAGTTC-TTAGATAACTTAGTTTCCTTAAAGTATTCAAGACAATCC
1 GAACTTGTCAAACTTTTACGAGTTCTTTA-ATAACTTTGGTTCCTTAAAGTATTCAAGATAATCT
** * * * *
260745 ATTCCTTCGAGAAATTTTCT-AAGCATTCCATGCTCGGGAAATCTCATGATTTGTTCCAAATAGT
65 ATTCCTTCGACCAATTTTTTGAA-CATTCCATGCTC-GGAAATCGCATCATTTGGTCCAAATAGT
* * ** * ** * * * * *
260809 TTGTCATTTTGTAAGCAACTTTTGGTCTTTAAAATAAAAAACTTATATACGTGAGAATTGTTTCT
128 TTGTCATTTTCTAAACAACTTTCAGTC-ATCGAATTAAAAACATATTTACATGAGAATTATTTCT
*
260874 CTCTTGGTTC-TCGGACGAAC-TTC
192 CTCTTGGTTCTTC-GACAAACTTTC
* * * *
260897 TGAACTTCTCATACTTTTACGAGTTCTTTGATAACTTTGGTTCCTTAGAGTATTCAAGA
1 -GAACTTGTCAAACTTTTACGAGTTCTTTAATAACTTTGGTTCCTTAAAGTATTCAAGA
260956 AGATCCATT
Statistics
Matches: 564, Mismatches: 95, Indels: 67
0.78 0.13 0.09
Matches are distributed among these distances:
201 3 0.01
202 116 0.21
203 44 0.08
205 1 0.00
207 1 0.00
208 1 0.00
210 2 0.00
213 1 0.00
214 1 0.00
215 51 0.09
216 245 0.43
217 95 0.17
218 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (215 bp):
GAACTTGTCAAACTTTTACGAGTTCTTTAATAACTTTGGTTCCTTAAAGTATTCAAGATAATCTA
TTCCTTCGACCAATTTTTTGAACATTCCATGCTCGGAAATCGCATCATTTGGTCCAAATAGTTTG
TCATTTTCTAAACAACTTTCAGTCATCGAATTAAAAACATATTTACATGAGAATTATTTCTCTCT
TGGTTCTTCGACAAACTTTC
Done.