Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 22
Found at i:793 original size:65 final size:65
Alignment explanation
Indices: 693--827 Score: 261
Period size: 65 Copynumber: 2.1 Consensus size: 65
683 TATTAAAATC
693 AAATAATATCAACAATAAGTTGATCTAGAGACACTATTTATTCCCTTAAGTAAAGTCAGAGATTA
1 AAATAATATCAACAATAAGTTGATCTAGAGACACTATTTATTCCCTTAAGTAAAGTCAGAGATTA
*
758 AAATAATATCAACAATAAGTTGATCTAGAGACACTATTTATTCCCTTAAGTAAAGTCAGAGATTG
1 AAATAATATCAACAATAAGTTGATCTAGAGACACTATTTATTCCCTTAAGTAAAGTCAGAGATTA
823 AAATA
1 AAATA
828 TAGGTATTGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (65 bp):
AAATAATATCAACAATAAGTTGATCTAGAGACACTATTTATTCCCTTAAGTAAAGTCAGAGATTA
Found at i:4972 original size:40 final size:40
Alignment explanation
Indices: 4927--5041 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
4917 ATAGTGCTAG
*
4927 ACATAAGGTCGTGCCCGCCATATACACCGAAGTGCATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGCATTAC
* * *
4967 ACATAAGGTTGTGCCCATCATATACACCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGCATTAC
*
5007 ACATAAGGTCGTGCCCACCCATATACACCAAAGTG
1 ACATAAGGTCGTGCCCA-CCATATACACCGAAGTG
5042 TATTTTAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
40 52 0.78
41 15 0.22
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (40 bp):
ACATAAGGTCGTGCCCACCATATACACCGAAGTGCATTAC
Found at i:6588 original size:30 final size:30
Alignment explanation
Indices: 6531--6588 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
6521 AAAATTACAT
*
6531 TTTGGTCCCTAAACTTTTCAAAGTTTATTC
1 TTTGGTCCCTAAACTTTCCAAAGTTTATTC
6561 TTTGGTCACC-AAACTTTACCAAA-TTTAT
1 TTTGGTC-CCTAAACTTT-CCAAAGTTTAT
6589 AATTTTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (30 bp):
TTTGGTCCCTAAACTTTCCAAAGTTTATTC
Found at i:10027 original size:2 final size:2
Alignment explanation
Indices: 10020--10111 Score: 52
Period size: 2 Copynumber: 49.0 Consensus size: 2
10010 TCGGGCCGGG
* * * *
10020 TA TA TA TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
10060 TT TT TA TT TA AA T- TA AA TT TA T- TA -A TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10098 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
10112 AATAATTATT
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
1 6 0.09
2 61 0.91
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11989 original size:50 final size:49
Alignment explanation
Indices: 11887--11989 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 49
11877 CACGTGGACA
* * * * *
11887 TGACGAGTTTCAATAAAACATAATTTTATTAGAACTTGTTATGTTCCTG
1 TGACGAGTTTCAATAAAAAATAATTTTATTAGAACTCGTCATGTCCCCG
*
11936 TGACGAG-TTCTAATAAAAAATATATTTTATTGGAACTCGTCATG-CCCACG
1 TGACGAGTTTC-AATAAAAAATA-ATTTTATTAGAACTCGTCATGTCCC-CG
11986 TGAC
1 TGAC
11990 CAAGTCCAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
48 3 0.07
49 19 0.42
50 23 0.51
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (49 bp):
TGACGAGTTTCAATAAAAAATAATTTTATTAGAACTCGTCATGTCCCCG
Found at i:26368 original size:428 final size:427
Alignment explanation
Indices: 25572--26424 Score: 1501
Period size: 428 Copynumber: 2.0 Consensus size: 427
25562 TCTTATCAAA
*
25572 GTCTCTAGTAAAATGAGAATCAATGTATCTAATAACTCATATCTTGTTCTTCTGAATTGTAAACA
1 GTCTCTAGTAAAATGAGAATCAATGTATCCAATAACTCATATCTTGTTCTTCTGAATTGTAAACA
25637 TACATCAGAAGTTCCTCAGAGGTACCAAAAATCTGTTGGAAAACTTTCTAATGTTCTTTTTCCAA
66 TACATCAGAAGTTCCTCAGAGGTACCAAAAATCTGTTGGAAAACTTTCTAATGTTCTTTTTCCAA
* *
25702 ATTCGCCATGTATCTACTAACTATATTGAATGCATGCGCTAAGTTTGGGCATGTACAAATCATAT
131 ATTCACCATGTATATACTAACTATATTGAATGCATGCGCTAAGTTTGGGCATGTACAAATCATAT
* * * * *
25767 CATACATGAGTGATCCTATTGTACAAGAGTATTGGACTCATGACATGTACTCAATGTCATCATCT
196 CATACATGAGTGATCCCATTATAAAAGAGTAATGAACTCATGACATGTACTCAATGTCATCATCT
25832 GATTTGGAGATAAATCTTATGAAAGTATAAAATGAGACACCAAAGGAGTACTAATTGATTTAGCA
261 GATTTGGAGATAAATCTTATGAAAGTATAAAATGAGACACCAAAGGAGTACTAATTGATTTAGCA
* *
25897 CTTAACATATTAAATATACCAATTACTTTCTCAAGGAACCCCTTTTTGGATTAGGTGCAACTTAC
326 CTTAACATATTAAATATAACAAGTACTTTCTCAAGGAACCCCTTTTTGGATTAGGTGCAACTTAC
25962 TTTCTCAATGTACCAACTTTTACCAAATTTCATATAT
391 TTTCTCAATGTACCAACTTTTACCAAATTTCATATAT
* * *
25999 GTCTCTAGTAAAATGAGAATCAATGTATCCAATAACTCGTCTCTTGTTCTTCTGAATTGTAAACT
1 GTCTCTAGTAAAATGAGAATCAATGTATCCAATAACTCATATCTTGTTCTTCTGAATTGTAAACA
*
26064 TACATCAGAAGTTCCTCAGAGGTACCGAAAAA-CATGTTGGACAACTTTCTAATGTTCTTTTTCC
66 TACATCAGAAGTTCCTCAGAGGTACC-AAAAATC-TGTTGGAAAACTTTCTAATGTTCTTTTTCC
26128 AAATTCACCATGTATATACTAACTATATTGAATGCATGCGCTAAGTTTGGGCATGTACAAATCAT
129 AAATTCACCATGTATATACTAACTATATTGAATGCATGCGCTAAGTTTGGGCATGTACAAATCAT
26193 ATCATACATGAGTGATCCCATTATAAAAGAGTAATGAACTCATGACATGTACTCAATGTCATCAT
194 ATCATACATGAGTGATCCCATTATAAAAGAGTAATGAACTCATGACATGTACTCAATGTCATCAT
* * * *
26258 CTGATTTGGAGATAATTCTTATGAAAGTCTAAAATGAGATACCAATGGAGTACTAATTGATTTAG
259 CTGATTTGGAGATAAATCTTATGAAAGTATAAAATGAGACACCAAAGGAGTACTAATTGATTTAG
* *
26323 CACTTAACATATTAAATATAACAAGTACTTTCTCAATGAACCCCTTTTTGGCTTAGGTGCAACTT
324 CACTTAACATATTAAATATAACAAGTACTTTCTCAAGGAACCCCTTTTTGGATTAGGTGCAACTT
26388 ACTTTCTCAATGTACCAACTTTTACCAAATTTCATAT
389 ACTTTCTCAATGTACCAACTTTTACCAAATTTCATAT
26425 GTTGTTTTTG
Statistics
Matches: 404, Mismatches: 20, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
427 88 0.22
428 316 0.78
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (427 bp):
GTCTCTAGTAAAATGAGAATCAATGTATCCAATAACTCATATCTTGTTCTTCTGAATTGTAAACA
TACATCAGAAGTTCCTCAGAGGTACCAAAAATCTGTTGGAAAACTTTCTAATGTTCTTTTTCCAA
ATTCACCATGTATATACTAACTATATTGAATGCATGCGCTAAGTTTGGGCATGTACAAATCATAT
CATACATGAGTGATCCCATTATAAAAGAGTAATGAACTCATGACATGTACTCAATGTCATCATCT
GATTTGGAGATAAATCTTATGAAAGTATAAAATGAGACACCAAAGGAGTACTAATTGATTTAGCA
CTTAACATATTAAATATAACAAGTACTTTCTCAAGGAACCCCTTTTTGGATTAGGTGCAACTTAC
TTTCTCAATGTACCAACTTTTACCAAATTTCATATAT
Found at i:27124 original size:17 final size:17
Alignment explanation
Indices: 27097--27141 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
27087 ATAAATATTA
27097 AAATAATTTATTTAATAT
1 AAAT-ATTTATTTAATAT
*
27115 AAATATTTATTTATTAT
1 AAATATTTATTTAATAT
*
27132 ATATATTTAT
1 AAATATTTAT
27142 GACTACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATTTATTTAATAT
Found at i:28028 original size:15 final size:14
Alignment explanation
Indices: 28004--28045 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
27994 CCTCGGTAAG
*
28004 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
28019 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
28033 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
28046 GCTGCTGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:28036 original size:20 final size:20
Alignment explanation
Indices: 28004--28045 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
27994 CCTCGGTAAG
*
28004 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
28024 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
28044 TT
1 TT
28046 GCTGCTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:28542 original size:3 final size:3
Alignment explanation
Indices: 28534--28605 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
28524 TTAATATATT
* *
28534 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
28582 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
28606 ATCAATATGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:29261 original size:229 final size:229
Alignment explanation
Indices: 28922--29707 Score: 1160
Period size: 229 Copynumber: 3.5 Consensus size: 229
28912 GAATTATGCA
** *
28922 AAAAG-TTGAACAAGCTCTTCTTATTATGAA---CTTCTTC-TTCTTCAGATGACGAGTTCTTCT
1 AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCT
* *
28982 CATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAA
66 CATTATGAACTCTTCTTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAA
29047 ATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
131 ATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
29112 GGAAAAGCTGATCCATCAAATGATGGATTTGAGC
196 GGAAAAGCTGATCCATCAAATGATGGATTTGAGC
*
29146 AAAAGATTGAACAAATTCTCCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCT
1 AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCT
29211 CATTATGAACTCTTCTTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAA
66 CATTATGAACTCTTCTTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAA
29276 ATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
131 ATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
29341 GGAAAAGCTGATCCATCAAATGATGGATTTGAGC
196 GGAAAAGCTGATCCATCAAATGATGGATTTGAGC
*
29375 AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCATATGACGAGTTCTTCT
1 AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCT
* *** * * * *
29440 CATTATGAACTCTCCTTGGTGCTGTTGATCCATCAAATGATGAATTCAAGCAAAAGGGTTAAACA
66 CATTATGAACTCTTCTTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAA-GGTTGAACA
* * * ****
29505 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
130 AATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * *
29570 TGGAAAAGTTGATCCATCAAATGATGGA-TTCAGGT
195 TGGAAAAGCTGATCCATCAAATGATGGATTTGA-GC
* * * * * *
29605 AAAAGGTTGAACAAGTTTTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTTT
1 AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCT
* * * *
29667 CATTATGAACTCTT-TCTGGAAAAGATAATCCATCAAGTGAT
66 CATTATGAACTCTTCT-TGGCAATGTTAATCCATCAAATGAT
29708 AGATTTGAAT
Statistics
Matches: 513, Mismatches: 41, Indels: 13
0.90 0.07 0.02
Matches are distributed among these distances:
224 5 0.01
225 21 0.04
226 1 0.00
227 40 0.08
228 7 0.01
229 299 0.58
230 140 0.27
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (229 bp):
AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCT
CATTATGAACTCTTCTTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAA
ATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
GGAAAAGCTGATCCATCAAATGATGGATTTGAGC
Found at i:29265 original size:116 final size:113
Alignment explanation
Indices: 28919--29707 Score: 942
Period size: 113 Copynumber: 6.9 Consensus size: 113
28909 ATAGAATTAT
* ** * ** *
28919 GCAAAAAGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTT-CTTC-AGATGACGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCT
* * * * *
28982 CATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
65 CATTATGAACTCTTCTTGGAAAAGTTGATCCATCAAATGATGAATTTAA
* *
29031 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
29096 ATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTCTTCT-TGGAAAAGTTGATCCATCAAATGATGAATTTAA
* * * *
29144 GCAAAAGATTGAACAAATTCTCCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * *
29209 CTCATTATGAACTCTTCTTGGCAATGTTAATCCATCAAATGATGAATTTAA
63 CTCATTATGAACTCTTCTTGGAAAAGTTGATCCATCAAATGATGAATTTAA
* *
29260 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
29325 ATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTCTTCT-TGGAAAAGTTGATCCATCAAATGATGAATTTAA
* * * *
29373 GCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCATATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTT
* **** *
29438 CTCATTATGAACTCTCCTTGGTGCTGTTGATCCATCAAATGATGAATTCAA
63 CTCATTATGAACTCTTCTTGGAAAAGTTGATCCATCAAATGATGAATTTAA
* * *
29489 GCAAAAGGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAA-GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
** * * *
29554 CATTATGAACTCGAAC-TGGAAAAGTTGATCCATCAAATGATGGATTCAG
65 CATTATGAACTC-TTCTTGGAAAAGTTGATCCATCAAATGATGAATTTAA
* * * *
29603 GTAAAAGGTTGAACAAGTTTTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
29668 ATTATGAACTCTT-TCTGGAAAAGATAATCCATCAAGTGAT
66 ATTATGAACTCTTCT-TGGAAAAGTTGATCCATCAAATGAT
29708 AGATTTGAAT
Statistics
Matches: 580, Mismatches: 81, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
112 42 0.07
113 283 0.49
114 57 0.10
115 3 0.01
116 150 0.26
117 45 0.08
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTTCTTGGAAAAGTTGATCCATCAAATGATGAATTTAA
Found at i:30563 original size:105 final size:105
Alignment explanation
Indices: 30440--30696 Score: 514
Period size: 105 Copynumber: 2.4 Consensus size: 105
30430 GTAGTTCCTA
30440 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTAC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTAC
30505 TATGAGCAAAGTCATCTTCCAAATTCAATGATTGGTTCTG
66 TATGAGCAAAGTCATCTTCCAAATTCAATGATTGGTTCTG
30545 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTAC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTAC
30610 TATGAGCAAAGTCATCTTCCAAATTCAATGATTGGTTCTG
66 TATGAGCAAAGTCATCTTCCAAATTCAATGATTGGTTCTG
30650 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
30697 AGCAAATTCA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 152 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (105 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTAC
TATGAGCAAAGTCATCTTCCAAATTCAATGATTGGTTCTG
Found at i:31041 original size:83 final size:83
Alignment explanation
Indices: 30609--31039 Score: 817
Period size: 83 Copynumber: 5.2 Consensus size: 83
30599 CTTATTTCTA
* *
30609 CTATGAGCAAAGTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
30674 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
30692 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
30757 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
30775 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
30840 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
30858 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
30923 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
30941 CTATGAGCACATTCATTTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
31006 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
31024 CTATGAGCACATTCAT
1 CTATGAGCACATTCAT
31040 TTATTCCAAT
Statistics
Matches: 343, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 343 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:32213 original size:16 final size:15
Alignment explanation
Indices: 32194--32232 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
32184 TTTTTTCCCT
32194 TTTTTTTTCTCTCTTC
1 TTTTTTTTCT-TCTTC
*
32210 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTCTTC
32225 TTTTTTTT
1 TTTTTTTT
32233 TCTTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTTTCTTCTTC
Found at i:32233 original size:16 final size:16
Alignment explanation
Indices: 32177--32239 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 16
32167 TTGACCCCCC
32177 TTTTTTCTTTTTTCCCTTT
1 TTTTTTC-TTTTT--CTTT
*
32196 TTTTTTCTCTCTTC-TT
1 TTTTTTCT-TTTTCTTT
32212 TTTTTTCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
32228 TTTTTTCTTTTT
1 TTTTTTCTTTTT
32240 TCTTCAAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.10
16 24 0.60
17 1 0.03
18 1 0.03
19 10 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:43649 original size:16 final size:16
Alignment explanation
Indices: 43610--43653 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
43600 ATAAATATTA
43610 AAATAATTTATTTAATAT
1 AAAT-ATTTA-TTAATAT
*
43628 AAATATTTATTATTAT
1 AAATATTTATTAATAT
*
43644 ATATATTTAT
1 AAATATTTAT
43654 GACTACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.62
17 5 0.21
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTTATTAATAT
Found at i:44540 original size:15 final size:14
Alignment explanation
Indices: 44516--44557 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
44506 CCTCGGTAAG
*
44516 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
44531 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
44545 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
44558 GCTACTGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:44548 original size:20 final size:20
Alignment explanation
Indices: 44516--44557 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44506 CCTCGGTAAG
*
44516 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
44536 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
44556 TT
1 TT
44558 GCTACTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:45055 original size:3 final size:3
Alignment explanation
Indices: 45047--45127 Score: 144
Period size: 3 Copynumber: 27.0 Consensus size: 3
45037 TTAATATATT
*
45047 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
45095 TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45128 ATCAATATGG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:46979 original size:24 final size:24
Alignment explanation
Indices: 46917--47031 Score: 135
Period size: 24 Copynumber: 4.8 Consensus size: 24
46907 CATAAATTAG
* * *
46917 GTCAAGTAACATATCGGAAT-CAG
1 GTCAAGTATCATATCAGAATCCAT
* * *
46940 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCATATCAGAATCCAT
*
46964 GTCAAGTATCATATCAGAATCTAT
1 GTCAAGTATCATATCAGAATCCAT
46988 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
*
47012 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCATATCAGAAT
47032 TCAAATCGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
23 20 0.25
24 58 0.73
25 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:49604 original size:18 final size:18
Alignment explanation
Indices: 49581--49626 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
49571 AACGGGTCAA
49581 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
*
49599 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
49617 CGGGTCGGGT
1 CGGGTCGGGT
49627 TATGATCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.22, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:49622 original size:13 final size:13
Alignment explanation
Indices: 49573--49604 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
49563 CAACGGTCAA
*
49573 CGGGTCAACGGGT
1 CGGGTCAACAGGT
49586 CGGGTCAACAGGT
1 CGGGTCAACAGGT
49599 CGGGTC
1 CGGGTC
49605 GGGTCAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACAGGT
Found at i:51732 original size:23 final size:23
Alignment explanation
Indices: 51706--51767 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
51696 ATCAAAACAT
*
51706 AAATTAGGTCAAGTAACAGATCG
1 AAATCAGGTCAAGTAACAGATCG
51729 AAATCAGGTCAAGTAACAGATC-
1 AAATCAGGTCAAGTAACAGATCG
*
51751 AGAATCCAAGTCAAGTA
1 A-AAT-CAGGTCAAGTA
51768 TCATATCAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
22 1 0.03
23 24 0.69
24 10 0.29
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (23 bp):
AAATCAGGTCAAGTAACAGATCG
Found at i:51775 original size:24 final size:24
Alignment explanation
Indices: 51713--51827 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
51703 CATAAATTAG
* *
51713 GTCAAGTAACAGATC-GAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* *
51736 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
* *
51760 GTCAAGTATCATATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
51784 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
51808 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
51828 TCAAATCGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.25
24 59 0.73
25 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:51843 original size:48 final size:48
Alignment explanation
Indices: 51745--51845 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
51735 GGTCAAGTAA
* ** *
51745 CAGATCAGAATCCAAGTCAAGTATCATATCAGAATCTATGTCAGATAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAAAT
*
51793 CAGATCAGAATCCATGTCAAGTATCAGATCAGAAT-TCAAATC-GAAAAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCT-AAATCAG-AAAT
51841 CAGAT
1 CAGAT
51846 AAAATATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (48 bp):
CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAAAT
Found at i:54080 original size:37 final size:36
Alignment explanation
Indices: 53978--54082 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 36
53968 CATTTTCGTC
* *
53978 CTACTAGGATTCAAACTCTTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCT-AAAATAGGATAGAATT
* * * *
54015 TTGCTAGGATTCAAATTCCTTAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCC-TAAAATAGGATAGAATT
* *
54052 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAA-ATAGGAT
54083 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
36 4 0.07
37 50 0.91
38 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (36 bp):
CTACTAGGATTCAAACTCCTAAAATAGGATAGAATT
Found at i:54653 original size:11 final size:11
Alignment explanation
Indices: 54639--54729 Score: 50
Period size: 11 Copynumber: 8.4 Consensus size: 11
54629 TGCATTTTTT
54639 TATTATTATTA
1 TATTATTATTA
*
54650 TATTATTATTT
1 TATTATTATTA
*
54661 TACTATTA-TA
1 TATTATTATTA
*
54671 T-TTCCTT-TTA
1 TATT-ATTATTA
54681 T-TCTACTTATTTA
1 TAT-TA-TTA-TTA
54694 TATTA-TATGTA
1 TATTATTAT-TA
*
54705 TATTTTTA-TA
1 TATTATTATTA
*
54715 TTTTATTATTA
1 TATTATTATTA
54726 TATT
1 TATT
54730 TTTTACTTTC
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
9 1 0.02
10 17 0.28
11 33 0.55
12 2 0.03
13 6 0.10
14 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (11 bp):
TATTATTATTA
Found at i:54763 original size:11 final size:11
Alignment explanation
Indices: 54747--54790 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
54737 TTCTCTTTCT
54747 TTTTATTATTC
1 TTTTATTATTC
54758 TTTTATTATTAC
1 TTTTATTATT-C
*
54770 TTGTATTATT-
1 TTTTATTATTC
54780 TTTATATTATT
1 TTT-TATTATT
54791 TATTTTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 2 0.07
11 17 0.59
12 10 0.34
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTATTATTC
Found at i:54783 original size:71 final size:74
Alignment explanation
Indices: 54632--54790 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 74
54622 TTTTCTTTGC
* *
54632 ATTTTTTTATTATTATTATATTATTATTTTACTATTATATTTCCTTTTATTCTACTTATTTATAT
1 ATTTTTATATTATTATTATATTATTATTTTACTATTATATTTCCTTTTATTATACTTATTTATAT
54697 TATATGTAT
66 TATATGTAT
* * * *
54706 ATTTTTATATT-TTATTAT-TATATT-TTTTACT-TTCTCTTTCTTTTTATTATTC-T-TTTATT
1 ATTTTTATATTATTATTATAT-TATTATTTTACTATTATATTTCCTTTTATTATACTTATTTA-T
54765 ATTACT-TGTATT
64 ATTA-TATGTA-T
54777 ATTTTTATATTATT
1 ATTTTTATATTATT
54791 TATTTTGTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
69 4 0.05
70 10 0.14
71 29 0.39
72 10 0.14
73 11 0.15
74 10 0.14
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (74 bp):
ATTTTTATATTATTATTATATTATTATTTTACTATTATATTTCCTTTTATTATACTTATTTATAT
TATATGTAT
Found at i:54791 original size:11 final size:10
Alignment explanation
Indices: 54707--54791 Score: 50
Period size: 11 Copynumber: 8.2 Consensus size: 10
54697 TATATGTATA
54707 TTTTTA-TAT
1 TTTTTATTAT
54716 TTTATTATTAT
1 TTT-TTATTAT
* *
54727 ATTTT-TTAC
1 TTTTTATTAT
* *
54736 TTTCTCTT-T
1 TTTTTATTAT
54745 CTTTTTATTAT
1 -TTTTTATTAT
54756 TCTTTTATTAT
1 T-TTTTATTAT
*
54767 TACTTGTATTAT
1 T--TTTTATTAT
54779 TTTTATATTAT
1 TTTT-TATTAT
54790 TT
1 TT
54792 ATTTTGTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
9 9 0.15
10 16 0.27
11 24 0.41
12 10 0.17
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:55177 original size:2 final size:2
Alignment explanation
Indices: 55170--55198 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55160 GTATCGTTAC
55170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55199 TGTAATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55300 original size:2 final size:2
Alignment explanation
Indices: 55295--55321 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55285 TTTTATTTAT
55295 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 T
55322 TATTTGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55369 original size:6 final size:6
Alignment explanation
Indices: 55358--55385 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
55348 GTTTTATTTA
55358 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
55386 TATATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:55470 original size:40 final size:38
Alignment explanation
Indices: 55409--55483 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 38
55399 TTATTTGTTT
55409 TTTTACTTATTATTTTATCTTTGCTTTCTTCATTTTATCA
1 TTTTACTTATTATTTTATCTTTGC-TT-TTCATTTTATCA
*
55449 TTTTACTTAATT-TGTTT-TCTTTTCTTTTCATTTTA
1 TTTTACTT-ATTAT-TTTATCTTTGCTTTTCATTTTA
55484 ATTTAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
38 9 0.28
39 2 0.06
40 15 0.47
41 6 0.19
ACGTcount: A:0.16, C:0.13, G:0.03, T:0.68
Consensus pattern (38 bp):
TTTTACTTATTATTTTATCTTTGCTTTTCATTTTATCA
Found at i:56596 original size:19 final size:19
Alignment explanation
Indices: 56572--56608 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
56562 ACCTTACTAA
56572 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
56591 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
56609 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:60040 original size:16 final size:16
Alignment explanation
Indices: 60014--60047 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
60004 AGATCCAATC
60014 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
60029 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
60046 AA
1 AA
60048 AAAACGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:60341 original size:172 final size:164
Alignment explanation
Indices: 60137--60467 Score: 495
Period size: 167 Copynumber: 2.0 Consensus size: 164
60127 ACAAATGGTG
*
60137 CATCAAGTTTCAAACTATGAGATTGATCAAGCACAATCATTCCCGAATCACTGAATCACTTCACT
1 CATCAAGCTTCAAACTATGAGATTGATCAAGCACAATCATT--C----C-C-GAATCACTTCACT
*
60202 CGAAGATCATAGAGCATCAAGAGAGAGAAACATTTTGAGCA-G-GATTGAAGACATCATAATGAA
58 CGAAGATCATAGAGCATCAAGAGAGAG--ACATTTTGAGCAGGAGATTGAAGACATCAGAATGAA
60265 TTGATCCTTGGTTCAACACCCTGAAACACTTGTTTGAAATGGCA
121 TTGATCCTTGGTTCAACACCCTGAAACACTTGTTTGAAATGGCA
60309 CATCAAGCTTCAAACTATGAGATTGATCAAGCACAATCATTCCCGAATCACTTCACTCGAAGATC
1 CATCAAGCTTCAAACTATGAGATTGATCAAGCACAATCATTCCCGAATCACTTCACTCGAAGATC
* *
60374 ATAGAGTATCAAGAGAGAGACATTTTGAGCAGGACATGATTGAAGGCATCAGAATGAATTGATCC
66 ATAGAGCATCAAGAGAGAGACATTTTGAGCAGG--A-GATTGAAGACATCAGAATGAATTGATCC
60439 TTGGTTCAACACCCTGAAACACTTGTTTG
128 TTGGTTCAACACCCTGAAACACTTGTTTG
60468 GGCCTATTTA
Statistics
Matches: 150, Mismatches: 4, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
162 12 0.08
163 1 0.01
164 39 0.26
165 1 0.01
166 1 0.01
167 55 0.37
170 1 0.01
172 40 0.27
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (164 bp):
CATCAAGCTTCAAACTATGAGATTGATCAAGCACAATCATTCCCGAATCACTTCACTCGAAGATC
ATAGAGCATCAAGAGAGAGACATTTTGAGCAGGAGATTGAAGACATCAGAATGAATTGATCCTTG
GTTCAACACCCTGAAACACTTGTTTGAAATGGCA
Found at i:60936 original size:22 final size:22
Alignment explanation
Indices: 60863--60939 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
60853 GCTACCCCAT
*
60863 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* *
60885 CAAACCTATAAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
60907 CAAACCTTTGAGCCTCAAATGC
1 CAAACCTTTGAGCATCAAATGC
60929 CAAACCTTTGA
1 CAAACCTTTGA
60940 CCAAACATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:62594 original size:106 final size:106
Alignment explanation
Indices: 61742--62593 Score: 1326
Period size: 106 Copynumber: 8.0 Consensus size: 106
61732 ATATCGTGCC
* * * * * *
61742 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
61807 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
61848 ACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
* *
61913 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATGTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
61954 ACTCCAGACAACGCAAGTTCAACTTCACAATGAAGGGACCGCTGATTGTTAACAAACGATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
62019 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
62060 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
62125 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
62166 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
62231 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
62272 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
62337 AATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
62378 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
62443 AATTTCAGAGCCAATTTCAACTTCACAACGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
62484 ACTCAAGACAACGCAAGTTCAACTTTACGACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
** * * *
62549 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
62590 ACTC
1 ACTC
62594 AGAACAATGC
Statistics
Matches: 688, Mismatches: 58, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 688 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:63386 original size:37 final size:37
Alignment explanation
Indices: 63324--63428 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
63314 CATTTTCGTC
*
63324 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTTAAAATAGGATAGAATT
* * *
63361 TTGCTAGGATTCAAATTCCTTAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTTAAAATAGGATAGAATT
* *
63398 CTACTATGATTTAAACTCC-TAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTTAAA-ATAGGAT
63429 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 4 0.07
37 54 0.93
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTTAAAATAGGATAGAATT
Found at i:63875 original size:2 final size:2
Alignment explanation
Indices: 63868--63895 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63858 CTTAATTAGT
63868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63896 CTTGCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64090 original size:25 final size:26
Alignment explanation
Indices: 64040--64091 Score: 83
Period size: 23 Copynumber: 2.1 Consensus size: 26
64030 TTTATTCTAC
64040 TTATTTATATTATATATGTATATTTT
1 TTATTTATATTATATATGTATATTTT
64066 TTATTT-TATTAT-TAT-TATATTTT
1 TTATTTATATTATATATGTATATTTT
64089 TTA
1 TTA
64092 CTTTCTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.42
24 3 0.12
25 6 0.23
26 6 0.23
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TTATTTATATTATATATGTATATTTT
Found at i:65611 original size:13 final size:13
Alignment explanation
Indices: 65593--65622 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
65583 GCCGGTCAAC
*
65593 GGTCAACGGGTCG
1 GGTCAACAGGTCG
65606 GGTCAACAGGTCG
1 GGTCAACAGGTCG
65619 GGTC
1 GGTC
65623 GGATCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:65622 original size:18 final size:18
Alignment explanation
Indices: 65599--65645 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
65589 CAACGGTCAA
65599 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
* *
65617 CGGGTCGGATCAACGGGT
1 CGGGTCGGGTCAACAGGT
65635 CGGGTCGGGTC
1 CGGGTCGGGTC
65646 GGGTTATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:72152 original size:41 final size:40
Alignment explanation
Indices: 72106--72184 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 40
72096 AACCTTTTAG
*
72106 ATTTAGGATTTTTTGTTTGATTATTTGATTATTAATTTTTT
1 ATTTAGGATTTTTAGTTTGATTATTTGATTATT-ATTTTTT
*
72147 ATTTAGGATTTTTAGTTTGATTATTTTATTATTATTTT
1 ATTTAGGATTTTTAGTTTGATTATTTGATTATTATTTT
72185 ATTTAGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 5 0.14
41 31 0.86
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (40 bp):
ATTTAGGATTTTTAGTTTGATTATTTGATTATTATTTTTT
Found at i:85255 original size:12 final size:12
Alignment explanation
Indices: 85238--85271 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
85228 ATTGTAAGTA
85238 CTCTGTTTTCAC
1 CTCTGTTTTCAC
85250 CTCTGTTTTCAC
1 CTCTGTTTTCAC
85262 CTCTGTTTTC
1 CTCTGTTTTC
85272 GAATAAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.32, G:0.09, T:0.53
Consensus pattern (12 bp):
CTCTGTTTTCAC
Found at i:91934 original size:66 final size:66
Alignment explanation
Indices: 91818--91956 Score: 233
Period size: 66 Copynumber: 2.1 Consensus size: 66
91808 AGCTTTGCCT
* * * *
91818 CAATTCCATCTGATCATCGGAATAGATTTTCACTTCAGATATCTGTCGGTTACAATTTACAGGGC
1 CAATCCCATCTGATCATCGGAATAGATTTTCACTTCAGATATATGCCGGTTACAATCTACAGGGC
91883 C
66 C
91884 CAATCCCATCTGATCATCGGAATAGATTTTCACTTCAGATATATGCCGGTTACAATCTACAGGGC
1 CAATCCCATCTGATCATCGGAATAGATTTTCACTTCAGATATATGCCGGTTACAATCTACAGGGC
*
91949 T
66 C
91950 CAATCCC
1 CAATCCC
91957 TATAACTTGT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (66 bp):
CAATCCCATCTGATCATCGGAATAGATTTTCACTTCAGATATATGCCGGTTACAATCTACAGGGC
C
Found at i:92586 original size:19 final size:18
Alignment explanation
Indices: 92558--92596 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
92548 TAAAAATAAT
92558 GAAAAGATAATTCCTAAA
1 GAAAAGATAATTCCTAAA
92576 GAAAGAGATAATTCCTAAA
1 GAAA-AGATAATTCCTAAA
92595 GA
1 GA
92597 TAATTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (18 bp):
GAAAAGATAATTCCTAAA
Found at i:93489 original size:19 final size:17
Alignment explanation
Indices: 93465--93528 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 17
93455 AACATAAACA
93465 CTTTTTTTCAATCTTTTTT
1 CTTTTTTTC--TCTTTTTT
*
93484 CTTTTTTTCCCCTTTTTT
1 CTTTTTTT-CTCTTTTTT
93502 CTCTTTTTTCTCTTTTTTT
1 CT-TTTTTTCTC-TTTTTT
93521 CTTTTTTT
1 CTTTTTTT
93529 TTTCTATGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 17 0.43
19 22 0.55
20 1 0.03
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (17 bp):
CTTTTTTTCTCTTTTTT
Found at i:93498 original size:18 final size:18
Alignment explanation
Indices: 93477--93528 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
93467 TTTTTTCAAT
93477 CTTTTTTCTTTTTTTCCC
1 CTTTTTTCTTTTTTTCCC
*
93495 CTTTTTTCTCTTTTTTCTC
1 CTTTTTTCT-TTTTTTCCC
*
93514 TTTTTTTCTTTTTTT
1 CTTTTTTCTTTTTTT
93529 TTTCTATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTTTCTTTTTTTCCC
Found at i:93510 original size:11 final size:10
Alignment explanation
Indices: 93478--93529 Score: 65
Period size: 9 Copynumber: 5.5 Consensus size: 10
93468 TTTTTCAATC
93478 TTTTT-TCTT
1 TTTTTCTCTT
* *
93487 TTTTTCCCCT
1 TTTTTCTCTT
93497 TTTTTCTC-T
1 TTTTTCTCTT
93506 TTTTTCTCTT
1 TTTTTCTCTT
93516 TTTTTCT-TT
1 TTTTTCTCTT
93525 TTTTT
1 TTTTT
93530 TTCTATGTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 21 0.55
10 17 0.45
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:93530 original size:11 final size:11
Alignment explanation
Indices: 93478--93533 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
93468 TTTTTCAATC
93478 TTTT-TTCTTT
1 TTTTCTTCTTT
* *
93488 TTTTC-CCCTT
1 TTTTCTTCTTT
93498 TTTTC-TC-TT
1 TTTTCTTCTTT
93507 TTTTC-TCTTT
1 TTTTCTTCTTT
*
93517 TTTTCTTTTTT
1 TTTTCTTCTTT
93528 TTTTCT
1 TTTTCT
93534 ATGTTGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 9 0.23
10 20 0.51
11 10 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:95441 original size:17 final size:18
Alignment explanation
Indices: 95408--95444 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
95398 TTTAATATTT
95408 TATATTCGATTCAAAATTA
1 TATATTCGATT-AAAATTA
95427 TATATTCGATT-AAATTA
1 TATATTCGATTAAAATTA
95444 T
1 T
95445 TCTAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATTCGATTAAAATTA
Found at i:106416 original size:24 final size:23
Alignment explanation
Indices: 106361--106418 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
106351 ATCGTGAATG
* *
106361 TGTTCGTTTAATGTTCATGACCA
1 TGTTCGTTTAATGTTCATAAACA
* *
106384 TATTAGTTTATATGTTCATAAACA
1 TGTTCGTTTA-ATGTTCATAAACA
106408 TGTTCGTTTAA
1 TGTTCGTTTAA
106419 CTTTAGTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (23 bp):
TGTTCGTTTAATGTTCATAAACA
Found at i:106434 original size:22 final size:22
Alignment explanation
Indices: 106408--106450 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
106398 TTCATAAACA
*
106408 TGTTCGTTTAACTTTAGTTTAG
1 TGTTCGTTTAACATTAGTTTAG
*
106430 TGTTCGTTTATCATTAGTTTA
1 TGTTCGTTTAACATTAGTTTA
106451 TATGTTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.16, T:0.56
Consensus pattern (22 bp):
TGTTCGTTTAACATTAGTTTAG
Found at i:109899 original size:10 final size:10
Alignment explanation
Indices: 109884--109922 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
109874 AGAATTGAGT
109884 GAAAAAAATA
1 GAAAAAAATA
109894 GAAAAAAATA
1 GAAAAAAATA
109904 G-AAAAAATA
1 GAAAAAAATA
109913 GAAAAAAATA
1 GAAAAAAATA
109923 TTTAAAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
GAAAAAAATA
Found at i:109900 original size:9 final size:9
Alignment explanation
Indices: 109886--109919 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
109876 AATTGAGTGA
109886 AAAAAATAG
1 AAAAAATAG
109895 AAAAAAATAG
1 -AAAAAATAG
109905 AAAAAATAG
1 AAAAAATAG
109914 AAAAAA
1 AAAAAA
109920 ATATTTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAATAG
Found at i:109908 original size:19 final size:19
Alignment explanation
Indices: 109886--109922 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
109876 AATTGAGTGA
109886 AAAAAATAGAAAAAAATAG
1 AAAAAATAGAAAAAAATAG
109905 AAAAAATAGAAAAAAATA
1 AAAAAATAGAAAAAAATA
109923 TTTAAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAATAGAAAAAAATAG
Found at i:112570 original size:14 final size:13
Alignment explanation
Indices: 112555--112597 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
112545 GGATTAAAAT
112555 TTTTGCATCTGCA
1 TTTTGCATCTGCA
112568 -TTTGCATCTTTGCA
1 TTTTGCATC--TGCA
*
112582 TTTTGCATCGGCA
1 TTTTGCATCTGCA
112595 TTT
1 TTT
112598 CATTTTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 8 0.31
13 6 0.23
14 4 0.15
15 8 0.31
ACGTcount: A:0.14, C:0.21, G:0.16, T:0.49
Consensus pattern (13 bp):
TTTTGCATCTGCA
Found at i:113790 original size:21 final size:21
Alignment explanation
Indices: 113766--113822 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
113756 CAAAGCAGAG
*
113766 AAAAAACAAAG-AACAAAAGTT
1 AAAAAACAAAGAAAC-AAAGAT
113787 AAAAAGA-AAAGAAACAAAGAT
1 AAAAA-ACAAAGAAACAAAGAT
*
113808 AATAAACAAATGAAA
1 AAAAAACAAA-GAAA
113823 AGGGACAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 21 0.70
22 8 0.27
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAAAACAAAGAAACAAAGAT
Found at i:114910 original size:32 final size:32
Alignment explanation
Indices: 114868--114955 Score: 131
Period size: 32 Copynumber: 2.8 Consensus size: 32
114858 AAGCAATAAA
* *
114868 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATATTG
* *
114900 TGGCATCTTTGGAGATTCAACATCGAATATTG
1 GGGCATCTTTGGAGATTCAACATCAAATATTG
*
114932 GGGCATCTTTGGGGATTCAACATC
1 GGGCATCTTTGGAGATTCAACATC
114956 CTGATGCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATATTG
Found at i:115231 original size:63 final size:64
Alignment explanation
Indices: 115110--115246 Score: 213
Period size: 65 Copynumber: 2.1 Consensus size: 64
115100 TCAAGGCAGT
* *
115110 TTTTGAAGAAAAATATTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGGTAATTT
1 TTTTGAA-AAAAATATTTGAGTTTGTTTCTTTGGAAACAAAA-TTTGTCTCTTTTGAGGCAACTT
115175 C
64 C
* *
115176 TTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA-TTGTCTCTTTTGAGGCAGCTTC
1 TTTTGAAAAAAATATTTGAGTTTGTTTCTTTGGAAACAAAATTTGTCTCTTTTGAGGCAACTTC
115239 TTTTGAAA
1 TTTTGAAA
115247 CTTCATCTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
63 27 0.40
65 33 0.49
66 7 0.10
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (64 bp):
TTTTGAAAAAAATATTTGAGTTTGTTTCTTTGGAAACAAAATTTGTCTCTTTTGAGGCAACTTC
Found at i:115521 original size:128 final size:128
Alignment explanation
Indices: 115373--115620 Score: 379
Period size: 128 Copynumber: 1.9 Consensus size: 128
115363 GTCAACCCAG
* * * * *
115373 ATAACCAGTCGTTCTTATCACGTAGGAACCGTGTTATCACCCTTAAATTGCTTGCCGTCCTCATC
1 ATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAAATTACCTGACGTCCTCATC
* *
115438 GCGTAAGAACCGTGTCATCACCCGACATGATTTCCTCATCACGTAGGAATCGTGTCACCCTAA
66 GCGTAAGAACCATGTCATCACCCGACATGATTTCCTCATCACGTAGGAACCGTGTCACCCTAA
* * *
115501 ATAACCAGTCGTCCTCATCACGTAGGAATCGTGTTATCACCCTTAGATTACCTGACGTCCTTATC
1 ATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAAATTACCTGACGTCCTCATC
* * *
115566 GCGTAGGAACCATGTCATCACCCGACCTGATTTCCTCATCATGTAGGAACCGTGT
66 GCGTAAGAACCATGTCATCACCCGACATGATTTCCTCATCACGTAGGAACCGTGT
115621 TATCACCCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
128 107 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (128 bp):
ATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAAATTACCTGACGTCCTCATC
GCGTAAGAACCATGTCATCACCCGACATGATTTCCTCATCACGTAGGAACCGTGTCACCCTAA
Found at i:115612 original size:86 final size:86
Alignment explanation
Indices: 115512--116011 Score: 280
Period size: 86 Copynumber: 5.9 Consensus size: 86
115502 TAACCAGTCG
* * * *
115512 TCCTCATCACGTAGGAATCGTGTTATCACCCTTAGATTACCTGACGTCCTTATCGCGTAGGAACC
1 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACCTGACATCCTCATCGCGTAGGAACC
115577 ATGTCATCACCCGACCTGATT
66 ATGTCATCACCCGACCTGATT
* * * *
115598 TCCTCATCATGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCATCCTCATCGCGTAGGAACT
1 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACCTGACATCCTCATCGCGTAGGAACC
* * *
115663 GTTTCATCACCTGACCTGATT
66 ATGTCATCACCCGACCTGATT
* * ** * * *** * *
115684 TCCACATCACGTAGGAACCATG---TC-CCCCCAGATAACCAGTTGTCCTCATCACGTATGAACC
1 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACCTGACATCCTCATCGCGTAGGAACC
* * * **
115745 ATGTTATCACCTTTAGATGGCATGCCT
66 ATGTCATCACC---CGA---CCTGATT
* ** * ** * *
115772 TCTTCATCGTGTAGGAACCGTGTCATCA-CC----A-GACCTGATTTCCTCATCACGTAGGAATC
1 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACCTGACATCCTCATCGCGTAGGAACC
* * * ***
115831 GTGTCA-C-CCTAGATAACCAGCCG
66 ATGTCATCACC-CG---ACCTGATT
* * * * *
115854 TCCTCATCATGTAGGAACTGTGTTAT-AACCTAAGAT-AGCCTGACTTCCTCATCGCGTAGGAAC
1 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGA-CCTGACATCCTCATCGCGTAGGAAC
*
115917 CATGTCATCACCTGACCTGATT
65 CATGTCATCACCCGACCTGATT
* * * * * * *
115939 TCCTCATCATGTAGGAACCGTG---TCACCC-CAGATAACCAGCCATCTTCATCACGTAGGAACC
1 TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACCTGACATCCTCATCGCGTAGGAACC
*
116000 ATGTTATCACCC
66 ATGTCATCACCC
116012 TTAAATGGCC
Statistics
Matches: 320, Mismatches: 70, Indels: 52
0.72 0.16 0.12
Matches are distributed among these distances:
81 1 0.00
82 102 0.32
83 6 0.02
84 2 0.01
85 29 0.09
86 122 0.38
87 29 0.09
88 23 0.07
89 2 0.01
91 4 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (86 bp):
TCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGACCTGACATCCTCATCGCGTAGGAACC
ATGTCATCACCCGACCTGATT
Found at i:115730 original size:128 final size:128
Alignment explanation
Indices: 115598--116089 Score: 610
Period size: 128 Copynumber: 3.9 Consensus size: 128
115588 CGACCTGATT
* * * * *
115598 TCCTCATCATGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCATCCTCATCGCGTAGGAACT
1 TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGACTTCCTCATCGCGTAGGAACC
* * * * **
115663 GTTTCATCACCTGACCTGATTTCCACATCACGTAGGAACCATGTCCCCCCAGATAACCAGTTG
66 GTGTCATCACCTGACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAGCCG
* * * * * *
115726 TCCTCATCACGTATGAACCATGTTATCACCTTTAGATGGCATGCCTTCTTCATCGTGTAGGAACC
1 TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGACTTCCTCATCGCGTAGGAACC
* * *
115791 GTGTCATCACCAGACCTGATTTCCTCATCACGTAGGAATCGTGTCACCCTAGATAACCAGCCG
66 GTGTCATCACCTGACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAGCCG
* ** * * *
115854 TCCTCATCATGTAGGAACTGTGTTAT-AACCTAAGATAGCCTGACTTCCTCATCGCGTAGGAACC
1 TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGACTTCCTCATCGCGTAGGAACC
* * *
115918 ATGTCATCACCTGACCTGATTTCCTCATCATGTAGGAACCGTGTCACCCCAGATAACCAGCCA
66 GTGTCATCACCTGACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAGCCG
* * * **
115981 TCTTCATCACGTAGGAACCATGTTATCACCCTTAAATGGCCTGACGTCCTCATCGCGTAGGAGTC
1 TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGACTTCCTCATCGCGTAGGAACC
* * ***
116046 GTGTCATCACCCGACTTGATCTT-CTCATCGTATAGGAACCGTGT
66 GTGTCATCACCTGACCTGAT-TTCCTCATCACGTAGGAACCGTGT
116090 TATCACACTT
Statistics
Matches: 309, Mismatches: 53, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
127 109 0.35
128 198 0.64
129 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (128 bp):
TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGACTTCCTCATCGCGTAGGAACC
GTGTCATCACCTGACCTGATTTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAGCCG
Found at i:115788 original size:214 final size:214
Alignment explanation
Indices: 115389--115834 Score: 597
Period size: 214 Copynumber: 2.1 Consensus size: 214
115379 AGTCGTTCTT
* * *
115389 ATCACGTAGGAACCGTGTTATCACCCTTAAATTGCTTGCCGTCCTCATCGCGTAAGAACCGTGTC
1 ATCACGTAGGAACCGTGTTATCACCCTTAAATGGCCTGCCATCCTCATCGCGTAAGAACCGTGTC
* * * *
115454 ATCACCCGACATGATTTCCTCATCACGTAGGAATCGTGTCACCCTAAATAACCAGTCGTCCTCAT
66 ATCACCCGACATGATTTCCACATCACGTAGGAACCATGTCACCCCAAATAACCAGTCGTCCTCAT
* * * * *
115519 CACGTAGGAATCGTGTTATCACCCTTAGATTACCTGACGTCCTTATCGCGTAGGAACCATGTCAT
131 CACGTAGGAACCATGTTATCACCCTTAGATGACATGACCTCCTTATCGCGTAGGAACCATGTCAT
*
115584 CACCCGACCTGATTTCCTC
196 CACCAGACCTGATTTCCTC
* * * * * *
115603 ATCATGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCATCCTCATCGCGTAGGAACTGTTTC
1 ATCACGTAGGAACCGTGTTATCACCCTTAAATGGCCTGCCATCCTCATCGCGTAAGAACCGTGTC
* * * * *
115668 ATCACCTGACCTGATTTCCACATCACGTAGGAACCATGTCCCCCCAGATAACCAGTTGTCCTCAT
66 ATCACCCGACATGATTTCCACATCACGTAGGAACCATGTCACCCCAAATAACCAGTCGTCCTCAT
* * * * * *
115733 CACGTATGAACCATGTTATCACCTTTAGATGGCATG-CCTTCTTCATCGTGTAGGAACCGTGTCA
131 CACGTAGGAACCATGTTATCACCCTTAGATGACATGACCTCCTT-ATCGCGTAGGAACCATGTCA
115797 TCACCAGACCTGATTTCCTC
195 TCACCAGACCTGATTTCCTC
*
115817 ATCACGTAGGAATCGTGT
1 ATCACGTAGGAACCGTGT
115835 CACCCTAGAT
Statistics
Matches: 199, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
213 5 0.03
214 194 0.97
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (214 bp):
ATCACGTAGGAACCGTGTTATCACCCTTAAATGGCCTGCCATCCTCATCGCGTAAGAACCGTGTC
ATCACCCGACATGATTTCCACATCACGTAGGAACCATGTCACCCCAAATAACCAGTCGTCCTCAT
CACGTAGGAACCATGTTATCACCCTTAGATGACATGACCTCCTTATCGCGTAGGAACCATGTCAT
CACCAGACCTGATTTCCTC
Found at i:115953 original size:40 final size:40
Alignment explanation
Indices: 115430--115963 Score: 225
Period size: 40 Copynumber: 12.6 Consensus size: 40
115420 TTGCTTGCCG
* * * *
115430 TCCTCATCGCGTAAGAACCGTGTCATCACCCGACATGATT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTGACCTGATT
* * ** * * *
115470 TCCTCATCACGTAGGAATCGTGTCACCCTAAATAACCAG-TCG
1 TCCTCATCACGTAGGAACCGTGTCA-TC-ACCTGACCTGAT-T
* * **
115512 TCCTCATCACGTAGGAATCGTGTTATCACCCTTAGATTACCTGACG
1 TCCTCATCACGTAGGAACCGTGTCATCA-CC-T-G---ACCTGATT
* * * *
115558 TCCTTATCGCGTAGGAACCATGTCATCACCCGACCTGATT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTGACCTGATT
* * *
115598 TCCTCATCATGTAGGAACCGTGTTATCACCCTTAGATGGCCTG-TCA
1 TCCTCATCACGTAGGAACCGTGTCATCA-CC-T-GA---CCTGAT-T
* * *
115644 TCCTCATCGCGTAGGAACTGTTTCATCACCTGACCTGATT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTGACCTGATT
* * * * * *
115684 TCCACATCACGTAGGAACCATGTC-CCCCCAGATAACCAG-TT
1 TCCTCATCACGTAGGAACCGTGTCATCACC---TGACCTGATT
* * * * **
115725 GTCCTCATCACGTATGAACCATGTTATCACCTTTAGATGGCATGCCT
1 -TCCTCATCACGTAGGAACCGTGTCATCACC--T-GA---CCTGATT
* ** *
115772 TCTTCATCGTGTAGGAACCGTGTCATCACCAGACCTGATT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTGACCTGATT
* * ***
115812 TCCTCATCACGTAGGAATCGTGTCA-C-CCTAGATAACCAGCCG
1 TCCTCATCACGTAGGAACCGTGTCATCACCT-G---ACCTGATT
* * * * *
115854 TCCTCATCATGTAGGAACTGTGTTATAACCTAAGATAGCCTGACT
1 TCCTCATCACGTAGGAACCGTGTCATCACCT--G--A-CCTGATT
* *
115899 TCCTCATCGCGTAGGAACCATGTCATCACCTGACCTGATT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTGACCTGATT
*
115939 TCCTCATCATGTAGGAACCGTGTCA
1 TCCTCATCACGTAGGAACCGTGTCA
115964 CCCCAGATAA
Statistics
Matches: 360, Mismatches: 98, Indels: 72
0.68 0.18 0.14
Matches are distributed among these distances:
38 2 0.01
39 5 0.01
40 128 0.36
41 9 0.03
42 81 0.22
43 12 0.03
44 5 0.01
45 36 0.10
46 81 0.22
47 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCACCTGACCTGATT
Found at i:115970 original size:255 final size:256
Alignment explanation
Indices: 115598--116074 Score: 670
Period size: 255 Copynumber: 1.9 Consensus size: 256
115588 CGACCTGATT
* * * * *
115598 TCCTCATCATGTAGGAACCGTGTTATCACCCTTAGATGGCCTGTCATCCTCATCGCGTAGGAACT
1 TCCTCATCATGTAGGAACCGTGTTATCAACCTAAGATAGCCTGACATCCTCATCGCGTAGGAACC
* * * ***
115663 GTTTCATCACCTGACCTGATTTCCACATCACGTAGGAACCATGTCCCCCCAGATAACCAGTTGTC
66 ATGTCATCACCTGACCTGATTTCCACATCACGTAGGAACCATGTCACCCCAGATAACCAGCCATC
* * * * * * *
115728 CTCATCACGTATGAACCATGTTATCACCTTTAGATGGCATGCCTTCTTCATCGTGTAGGAACCGT
131 CTCATCACGTAGGAACCATGTTATCACCCTTAAATGGCATGACGTCCTCATCGCGTAGGAACCGT
115793 GTCATCACCAGACCTGAT-TTCCTCATCACGTAGGAATCGTGTCACCCTAGATAACCAGCCG
196 GTCATCACCAGACCTGATCTT-CTCATCACGTAGGAATCGTGTCACCCTAGATAACCAGCCG
* *
115854 TCCTCATCATGTAGGAACTGTGTTAT-AACCTAAGATAGCCTGACTTCCTCATCGCGTAGGAACC
1 TCCTCATCATGTAGGAACCGTGTTATCAACCTAAGATAGCCTGACATCCTCATCGCGTAGGAACC
* * *
115918 ATGTCATCACCTGACCTGATTTCCTCATCATGTAGGAACCGTGTCACCCCAGATAACCAGCCATC
66 ATGTCATCACCTGACCTGATTTCCACATCACGTAGGAACCATGTCACCCCAGATAACCAGCCATC
* * **
115983 TTCATCACGTAGGAACCATGTTATCACCCTTAAATGGCCTGACGTCCTCATCGCGTAGGAGTCGT
131 CTCATCACGTAGGAACCATGTTATCACCCTTAAATGGCATGACGTCCTCATCGCGTAGGAACCGT
* *
116048 GTCATCACCCGACTTGATCTTCTCATC
196 GTCATCACCAGACCTGATCTTCTCATC
116075 GTATAGGAAC
Statistics
Matches: 191, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
255 164 0.86
256 27 0.14
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (256 bp):
TCCTCATCATGTAGGAACCGTGTTATCAACCTAAGATAGCCTGACATCCTCATCGCGTAGGAACC
ATGTCATCACCTGACCTGATTTCCACATCACGTAGGAACCATGTCACCCCAGATAACCAGCCATC
CTCATCACGTAGGAACCATGTTATCACCCTTAAATGGCATGACGTCCTCATCGCGTAGGAACCGT
GTCATCACCAGACCTGATCTTCTCATCACGTAGGAATCGTGTCACCCTAGATAACCAGCCG
Found at i:116163 original size:469 final size:471
Alignment explanation
Indices: 115362--116356 Score: 1259
Period size: 469 Copynumber: 2.1 Consensus size: 471
115352 GAAAGAGCTA
* * * * * *
115362 TGTCAACCCAGATAACCAGTCGTTCTTATCACGTAGGAACCGTGTTATCACCCTTAAATTGCTTG
1 TGTCAACCCAGATAACCAGTCGTCCTCATCATGTAGGAACCGTGTTATCAACCTTAAATAGCCTG
* * *
115427 CCGTCCTCATCGCGTAAGAACCGTGTCATCACCCGACATGATTTCCTCATCACGTAGGAATCGTG
66 ACGTCCTCATCGCGTAAGAACCATGTCATCACCCGACATGATTTCCTCATCACGTAGGAACCGTG
* * * * * * *
115492 TCACCCTAAATAACCAGTCGTCCTCATCACGTAGGAATCGTGTTATCACCCTTAGATTACCTGAC
131 TCACCCCAAATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTTAAATGACCTGAC
* *
115557 GTCCTTATCGCGTAGGAACCATGTCATCACCCGACCTGATTTCCTCATCATGTAGGAACCGTGTT
196 GTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGATTTCCTCATCATATAGGAACCGTGTT
* ** * *
115622 ATCACCCTTAGATGGCCTGTCATCCTCATCGCGTAGGAACTGTTTCATCACCTGACCTGATTTCC
261 ATCACACTTAGATGGCCTAACATCCTCATCGCGTAGGAACTGTGTCATCACCTGACCTGATCTCC
* ** * * *
115687 ACATCACGTAGGAACCATGTC-CCCCCAGATAACCAGTTGTCCTCATCACGTATGAACCATGTTA
326 ACATCACGTAGGAACCATGTCAACCCCAGATAACCAGTCATCATAATCACGTAGGAACCATGTTA
* * * * *
115751 TCACCTTTAGATGGCATGCCTTCTTCATCGTGTAGGAACCGTGTCATCACCAGACCT-GATTTCC
391 TCACCCTTAGATAGCATGCCGTCCTCATCATGTAGGAACCGTGTCATCACCAGA-CTAGATTTCC
115815 TCATCACGTAGGAATCG
455 TCATCACGTAGGAATCG
* *
115832 TGTC-ACCCTAGATAACCAGCCGTCCTCATCATGTAGGAACTGTGTTAT-AACC-TAAGATAGCC
1 TGTCAACCC-AGATAACCAGTCGTCCTCATCATGTAGGAACCGTGTTATCAACCTTAA-ATAGCC
* * * * *
115894 TGACTTCCTCATCGCGTAGGAACCATGTCATCACCTGACCTGATTTCCTCATCATGTAGGAACCG
64 TGACGTCCTCATCGCGTAAGAACCATGTCATCACCCGACATGATTTCCTCATCACGTAGGAACCG
* * *
115959 TGTCACCCCAGATAACCAGCCATCTTCATCACGTAGGAACCATGTTATCACCCTTAAATGGCCTG
129 TGTCACCCCAAATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTTAAATGACCTG
** * * *
116024 ACGTCCTCATCGCGTAGGAGTCGTGTCATCACCCGACTTGATCTT-CTCATCGTATAGGAACCGT
194 ACGTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGAT-TTCCTCATCATATAGGAACCGT
* * * *
116088 GTTATCACACTTAGATGGCCTAACGTCTTCATCGCGTAAGTA-TCGTGTCATCACCTGACCTGAT
258 GTTATCACACTTAGATGGCCTAACATCCTCATCGCGTAGGAACT-GTGTCATCACCTGACCTGAT
* * * * *
116152 CTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACTAGTCATCATAATCACGTAGGAACCGT
322 CTCCACATCACGTAGGAACCATGTCAACCCCAGATAACCAGTCATCATAATCACGTAGGAACCAT
* * *
116217 GTTATCACCCTTAGATAGCTTGTCGTCCTCATCATGTAGGAACCGTGTCATCACCCGACTAGATT
387 GTTATCACCCTTAGATAGCATGCCGTCCTCATCATGTAGGAACCGTGTCATCACCAGACTAGATT
* * * *
116282 TCCTCATTATGTAGGAGTTG
452 TCCTCATCACGTAGGAATCG
* ** *
116302 TGTCAACCCAGATAACCAATCGTCCTCATC-TCGTAGGAACCAAGTTATCACCCTT
1 TGTCAACCCAGATAACCAGTCGTCCTCATCAT-GTAGGAACCGTGTTATCAACCTT
116357 CCTAAAGATG
Statistics
Matches: 444, Mismatches: 71, Indels: 18
0.83 0.13 0.03
Matches are distributed among these distances:
468 4 0.01
469 255 0.57
470 177 0.40
471 7 0.02
472 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (471 bp):
TGTCAACCCAGATAACCAGTCGTCCTCATCATGTAGGAACCGTGTTATCAACCTTAAATAGCCTG
ACGTCCTCATCGCGTAAGAACCATGTCATCACCCGACATGATTTCCTCATCACGTAGGAACCGTG
TCACCCCAAATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTTAAATGACCTGAC
GTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTGATTTCCTCATCATATAGGAACCGTGTT
ATCACACTTAGATGGCCTAACATCCTCATCGCGTAGGAACTGTGTCATCACCTGACCTGATCTCC
ACATCACGTAGGAACCATGTCAACCCCAGATAACCAGTCATCATAATCACGTAGGAACCATGTTA
TCACCCTTAGATAGCATGCCGTCCTCATCATGTAGGAACCGTGTCATCACCAGACTAGATTTCCT
CATCACGTAGGAATCG
Found at i:116168 original size:86 final size:86
Alignment explanation
Indices: 115984--116175 Score: 251
Period size: 86 Copynumber: 2.2 Consensus size: 86
115974 CCAGCCATCT
* * *
115984 TCATCACGTAGGAACCATGTTATCACCCTTAAATGGCCTGACGTCCTCATCGCGTAGGAGTCGTG
1 TCATCACGTAGGAACCGTGTTATCACACTTAAATGGCCTAACGTCCTCATCGCGTAGGAGTCGTG
* *
116049 TCATCACCCGACTTGATCTTC
66 TCATCACCCGACCTGATCTCC
*** * * *
116070 TCATCGTATAGGAACCGTGTTATCACACTTAGATGGCCTAACGTCTTCATCGCGTAAGTA-TCGT
1 TCATCACGTAGGAACCGTGTTATCACACTTAAATGGCCTAACGTCCTCATCGCGT-AGGAGTCGT
*
116134 GTCATCACCTGACCTGATCTCC
65 GTCATCACCCGACCTGATCTCC
*
116156 TCATCACGTAGGAGCCGTGT
1 TCATCACGTAGGAACCGTGT
116176 CAACCCCAGA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 86 0.97
87 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (86 bp):
TCATCACGTAGGAACCGTGTTATCACACTTAAATGGCCTAACGTCCTCATCGCGTAGGAGTCGTG
TCATCACCCGACCTGATCTCC
Found at i:116249 original size:129 final size:128
Alignment explanation
Indices: 116078--116444 Score: 310
Period size: 129 Copynumber: 2.8 Consensus size: 128
116068 TCTCATCGTA
* * * * * *
116078 TAGGAACCGTGTTATCACACTTAGATGGCCTAACGTCTTCATCGCGTAAGTATCGTGTCATCACC
1 TAGGAACCGTGTTATCACCCTTAGATAGCCTAACGTCCTCATCACGTAAGAACCGTGTCATCACC
* * *
116143 TGACCT-GATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACTAGTCATCATAATCACG
66 CGA-CTAGATCTCCTCATCACGTAGGAGCCGTGTCAA-CCCAGATAACCAATCATCATAATCACG
* ** * *
116207 TAGGAACCGTGTTATCACCCTTAGATAGCTTGTCGTCCTCATCATGTAGGAACCGTGTCATCACC
1 TAGGAACCGTGTTATCACCCTTAGATAGCCTAACGTCCTCATCACGTAAGAACCGTGTCATCACC
* * * ** * * * *
116272 CGACTAGATTTCCTCATTATGTAGGAGTTGTGTCAACCCAGATAACCAATCGTCCTCATCTCG
66 CGACTAGATCTCCTCATCACGTAGGAGCCGTGTCAACCCAGATAACCAATCATCATAATCACG
** * * * * *
116335 TAGGAACCAAGTTATCACCCTTCCTAAAGAT-GACCAAGAAC-TCTTCATCACGTATGAGCAGTG
1 TAGGAACCGTGTTATCACCC-T--T--AGATAG-CC--TAACGTCCTCATCACGTAAGAACCGTG
* * *
116398 TCATC-CTCTGACCAGATCTCCTCATCACATAGGAGCCGTGTCAACCC
58 TCATCAC-CCGACTAGATCTCCTCATCACGTAGGAGCCGTGTCAACCC
116445 TTAGACAACC
Statistics
Matches: 186, Mismatches: 42, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
128 41 0.22
129 82 0.44
131 1 0.01
132 1 0.01
133 6 0.03
134 54 0.29
135 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (128 bp):
TAGGAACCGTGTTATCACCCTTAGATAGCCTAACGTCCTCATCACGTAAGAACCGTGTCATCACC
CGACTAGATCTCCTCATCACGTAGGAGCCGTGTCAACCCAGATAACCAATCATCATAATCACG
Found at i:116272 original size:215 final size:213
Alignment explanation
Indices: 115856--116276 Score: 563
Period size: 215 Copynumber: 2.0 Consensus size: 213
115846 ACCAGCCGTC
* * * * *
115856 CTCATCATGTAGGAACTGTGTTATAACCTAAGATAGCCTGACTTCCTCATCGCGTAGGAACCATG
1 CTCATCATATAGGAACCGTGTTATAACCTAAGATAGCCTAACGTCCTCATCGCGTAAGAACCATG
* * * *
115921 TCATCACCTGACCTGATTTCCTCATCATGTAGGAACCGTGTCACCCCAGATAACCAGCCATCTTC
66 TCATCACCTGACCTGATCTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAGCCATCATA
* * **
115986 ATCACGTAGGAACCATGTTATCACCCTTAAATGGCCTGACGTCCTCATCGCGTAGGAGTCGTGTC
131 ATCACGTAGGAACCATGTTATCACCCTTAAATAGCCTGACGTCCTCATCACGTAGGAACCGTGTC
116051 ATCACCCGACTTGATCTT
196 ATCACCCGACTTGATCTT
* * * * * * * *
116069 CTCATCGTATAGGAACCGTGTTATCACACTTAGATGGCCTAACGTCTTCATCGCGTAAGTATCGT
1 CTCATCATATAGGAACCGTGTTATAAC-CTAAGATAGCCTAACGTCCTCATCGCGTAAGAACCAT
* * *
116134 GTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACTAGTCATCA
65 GTCATCACCTGACCTGATCTCCTCATCACGTAGGAACCGTGTC-ACCCCAGATAACCAGCCATCA
* * * * *
116199 TAATCACGTAGGAACCGTGTTATCACCCTTAGATAGCTTGTCGTCCTCATCATGTAGGAACCGTG
129 TAATCACGTAGGAACCATGTTATCACCCTTAAATAGCCTGACGTCCTCATCACGTAGGAACCGTG
116264 TCATCACCCGACT
194 TCATCACCCGACT
116277 AGATTTCCTC
Statistics
Matches: 177, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
213 23 0.13
214 68 0.38
215 86 0.49
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (213 bp):
CTCATCATATAGGAACCGTGTTATAACCTAAGATAGCCTAACGTCCTCATCGCGTAAGAACCATG
TCATCACCTGACCTGATCTCCTCATCACGTAGGAACCGTGTCACCCCAGATAACCAGCCATCATA
ATCACGTAGGAACCATGTTATCACCCTTAAATAGCCTGACGTCCTCATCACGTAGGAACCGTGTC
ATCACCCGACTTGATCTT
Found at i:117387 original size:29 final size:28
Alignment explanation
Indices: 117355--117419 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
117345 TGAATCTCTG
* *
117355 TGTTTTCTGATTTTTGACACTTTAGTTTC
1 TGTTTT-TGATTTTAGACACTTAAGTTTC
* **
117384 TGTTATTTTATTTTAGTTACTTAAGTTTC
1 TGTT-TTTGATTTTAGACACTTAAGTTTC
117413 TGTTTTT
1 TGTTTTT
117420 TCTATTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 3 0.10
29 25 0.83
30 2 0.07
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.63
Consensus pattern (28 bp):
TGTTTTTGATTTTAGACACTTAAGTTTC
Found at i:118195 original size:271 final size:271
Alignment explanation
Indices: 117712--118256 Score: 1045
Period size: 271 Copynumber: 2.0 Consensus size: 271
117702 TCCCGAACCC
* * *
117712 GTTTTAATCAAATCTTTGGTAAATGCAGACCAACTTTTGTCTTAAAAAATGATTTTTCTTAAAAT
1 GTTTTAATCAAATCTTTGGTAAACGCAGACCAACTTTTGTCTGAAAAAACGATTTTTCTTAAAAT
117777 TGTTTTTAAAAGACGATTTTAGGTATTCATCCTACCTAACCCAATGGTTGATGGCAACTCTATCC
66 TGTTTTTAAAAGACGATTTTAGGTATTCATCCTACCTAACCCAATGGTTGATGGCAACTCTATCC
*
117842 AATTTTTTCCAAATGAATCTAAAACCCCCAATTTTCCAAATTAAAAGTTGTAACTGTTTTTAAAA
131 AATTTTTTCCAAATGAATCTAAAACCCCCAATTTTCCAAATTAAAAGTTGTAACTATTTTTAAAA
117907 CAATAAATAATTGTTCCACCCTAAAAATGGTTATGACAAATGGGTCTTCAAAATCAAGCGAAATG
196 CAATAAATAATTGTTCCACCCTAAAAATGGTTATGACAAATGGGTCTTCAAAATCAAGCGAAATG
117972 GTAAAGATCAA
261 GTAAAGATCAA
117983 GTTTTAATCAAATCTTTGGTAAACGCAGACCAACTTTTGTCTGAAAAAACGATTTTTCTTAAAAT
1 GTTTTAATCAAATCTTTGGTAAACGCAGACCAACTTTTGTCTGAAAAAACGATTTTTCTTAAAAT
118048 TGTTTTTAAAAGACGATTTTAGGTATTCATCCTACCTAACCCAATGGTTGATGGCAACTCTATCC
66 TGTTTTTAAAAGACGATTTTAGGTATTCATCCTACCTAACCCAATGGTTGATGGCAACTCTATCC
118113 AATTTTTTCCAAATGAATCTAAAACCCCCAATTTTCCAAATTAAAAGTTGTAACTATTTTTAAAA
131 AATTTTTTCCAAATGAATCTAAAACCCCCAATTTTCCAAATTAAAAGTTGTAACTATTTTTAAAA
118178 CAATAAATAATTGTTCCACCCTAAAAATGGTTATGACAAATGGGTCTTCAAAATCAAGCGAAATG
196 CAATAAATAATTGTTCCACCCTAAAAATGGTTATGACAAATGGGTCTTCAAAATCAAGCGAAATG
*
118243 GTAACGATCAA
261 GTAAAGATCAA
118254 GTT
1 GTT
118257 GAGAGGTATC
Statistics
Matches: 269, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
271 269 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (271 bp):
GTTTTAATCAAATCTTTGGTAAACGCAGACCAACTTTTGTCTGAAAAAACGATTTTTCTTAAAAT
TGTTTTTAAAAGACGATTTTAGGTATTCATCCTACCTAACCCAATGGTTGATGGCAACTCTATCC
AATTTTTTCCAAATGAATCTAAAACCCCCAATTTTCCAAATTAAAAGTTGTAACTATTTTTAAAA
CAATAAATAATTGTTCCACCCTAAAAATGGTTATGACAAATGGGTCTTCAAAATCAAGCGAAATG
GTAAAGATCAA
Found at i:121968 original size:29 final size:29
Alignment explanation
Indices: 121934--122020 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
121924 ACATGAGTAA
121934 CATACTTTTAATTTTAGCAATATGACCAC
1 CATACTTTTAATTTTAGCAATATGACCAC
*
121963 CATACTTTTAATTTTAGCAATATGACCTC
1 CATACTTTTAATTTTAGCAATATGACCAC
*
121992 CATACTTTTAATTTTAACAATATGACCAC
1 CATACTTTTAATTTTAGCAATATGACCAC
122021 ATAACTATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (29 bp):
CATACTTTTAATTTTAGCAATATGACCAC
Found at i:124280 original size:54 final size:52
Alignment explanation
Indices: 124197--124348 Score: 178
Period size: 43 Copynumber: 3.0 Consensus size: 52
124187 AATATTTCAT
* *
124197 TTTAAATATAACTAATTATTATGTAAATAAAAATTATTAGTCAACTAGCAATCAA
1 TTTAAACA-AACTAAGTATTATGTAAATAAAAATTATTA-TCAACTA-CAATCAA
124252 TTTAAACAAACTAAGTATTATGTAAAT-AAAA--ATTAT----T--AATCAA
1 TTTAAACAAACTAAGTATTATGTAAATAAAAATTATTATCAACTACAATCAA
124295 TTTAAACAAACTAAGTATTATGTAAATAAAAATTATTAATCAACTACCAATCAA
1 TTTAAACAAACTAAGTATTATGTAAATAAAAATTATT-ATCAACTA-CAATCAA
124349 CATATGAAAC
Statistics
Matches: 84, Mismatches: 2, Indels: 23
0.77 0.02 0.21
Matches are distributed among these distances:
43 33 0.39
44 4 0.05
46 4 0.05
47 2 0.02
50 1 0.01
51 5 0.06
53 4 0.05
54 24 0.29
55 7 0.08
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (52 bp):
TTTAAACAAACTAAGTATTATGTAAATAAAAATTATTATCAACTACAATCAA
Found at i:124294 original size:43 final size:43
Alignment explanation
Indices: 124246--124337 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
124236 GTCAACTAGC
124246 AATCAATTTAAACAAACTAAGTATTATGTAAATAAAAATTATT
1 AATCAATTTAAACAAACTAAGTATTATGTAAATAAAAATTATT
124289 AATCAATTTAAACAAACTAAGTATTATGTAAATAAAAATTATT
1 AATCAATTTAAACAAACTAAGTATTATGTAAATAAAAATTATT
124332 AATCAA
1 AATCAA
124338 CTACCAATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (43 bp):
AATCAATTTAAACAAACTAAGTATTATGTAAATAAAAATTATT
Found at i:124633 original size:15 final size:15
Alignment explanation
Indices: 124606--124640 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
124596 TATATTCTAT
124606 TTTTTAATAATTTTAA
1 TTTTTAATAATTTT-A
124622 TTTTTAAT-ATTTTA
1 TTTTTAATAATTTTA
124636 TTTTT
1 TTTTT
124641 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 5 0.26
16 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAATAATTTTA
Found at i:124641 original size:15 final size:15
Alignment explanation
Indices: 124597--124641 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
124587 ATTTTAGTCT
*
124597 ATATTCTATTTTTTA
1 ATATTTTATTTTTTA
*
124612 ATAATTTTAATTTTTA
1 AT-ATTTTATTTTTTA
124628 ATATTTTATTTTTT
1 ATATTTTATTTTTT
124642 TAAAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATTTTATTTTTTA
Found at i:126749 original size:5 final size:5
Alignment explanation
Indices: 126739--126857 Score: 186
Period size: 5 Copynumber: 23.6 Consensus size: 5
126729 TTTTATAGAC
* * *
126739 TATAT TATAT TAT-T TGTTAAT TATAC GATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT T-AT-AT TATAT TATAT TATAT TATAT TATAT TATAT
126790 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
126840 TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TAT
126858 TTTCTAGGTG
Statistics
Matches: 105, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
4 2 0.02
5 100 0.95
6 1 0.01
7 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:132896 original size:33 final size:33
Alignment explanation
Indices: 132858--132934 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
132848 TAAATCAACA
* * *
132858 TATTTGAGTCTTATTAAAATACTAAAACCGACG
1 TATTTGAGTCCTATTAAAACACTAAAACCGAAG
* *
132891 TATTTGAGTCCTATTGAAACACTAAAACTGAAG
1 TATTTGAGTCCTATTAAAACACTAAAACCGAAG
*
132924 CATTTGAGTCC
1 TATTTGAGTCC
132935 AAGTAGAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (33 bp):
TATTTGAGTCCTATTAAAACACTAAAACCGAAG
Found at i:133328 original size:24 final size:25
Alignment explanation
Indices: 133295--133346 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
133285 TACATTGTTA
133295 TATATATATATATATATTTATTATTAT
1 TATATATAT-TA-ATATTTATTATTAT
* *
133322 TAT-TATATTAATATTTTTTGTTAT
1 TATATATATTAATATTTATTATTAT
133346 T
1 T
133347 TTTTCTCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 13 0.57
25 2 0.09
26 5 0.22
27 3 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TATATATATTAATATTTATTATTAT
Found at i:137402 original size:32 final size:32
Alignment explanation
Indices: 137355--137463 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 32
137345 TGAGGACATC
**
137355 TTTGAAGATTCAACATCAAATGCTGGGGCATTT
1 TTTG-AGATTCAACATCAAATATTGGGGCATTT
* * *
137388 TTTGAGATTTAACATCAAATTTTGGGGAATTT
1 TTTGAGATTCAACATCAAATATTGGGGCATTT
* *
137420 TTTGAGATTCAACATCGAATATTGGGGCA-TC
1 TTTGAGATTCAACATCAAATATTGGGGCATTT
137451 TTTGAGAATTCAA
1 TTTGAG-ATTCAA
137464 TATCTTTATG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
31 7 0.11
32 55 0.83
33 4 0.06
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATATTGGGGCATTT
Found at i:138717 original size:35 final size:36
Alignment explanation
Indices: 138678--138772 Score: 151
Period size: 35 Copynumber: 2.7 Consensus size: 36
138668 ATCTCTTACT
138678 ACAGTTTCCCTTGAAACAAAATCTTG-TCTCTTGAG
1 ACAGTTTCCCTTGAAACAAAATCTTGCTCTCTTGAG
*
138713 ACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAG
1 ACAGTTTCCCTTGAAACAAAATCTTG-CTCTCTTGAG
138749 A-AGTTTCCCTTGAAACAAAATCTT
1 ACAGTTTCCCTTGAAACAAAATCTT
138773 TGAATATATT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
34 7 0.13
35 32 0.58
36 16 0.29
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (36 bp):
ACAGTTTCCCTTGAAACAAAATCTTGCTCTCTTGAG
Found at i:138870 original size:32 final size:32
Alignment explanation
Indices: 138807--138869 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
138797 TTTCGTCTCC
138807 CTTGAGACAGTTTCTTTTAGAACTAAATTTTT
1 CTTGAGACAGTTTCTTTTAGAACTAAATTTTT
138839 CTTGAGACAGTTTCTTTT-GAAAC-AAATTTTT
1 CTTGAGACAGTTTCTTTTAG-AACTAAATTTTT
138870 TTCCCTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 9 0.30
32 21 0.70
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (32 bp):
CTTGAGACAGTTTCTTTTAGAACTAAATTTTT
Found at i:138939 original size:31 final size:32
Alignment explanation
Indices: 138887--138964 Score: 104
Period size: 31 Copynumber: 2.4 Consensus size: 32
138877 TTGAGACATA
*
138887 TTCTCTTGAAACACAAAAAAACCCTCGAAATTGT
1 TTCTCTTG-AA-ACAAAAAAACCCTCGAAAATGT
* *
138921 TTCTCTTGAAA-AAAAAAACCTTTGAAAATGT
1 TTCTCTTGAAACAAAAAAACCCTCGAAAATGT
138952 TTCTCTTGAAACA
1 TTCTCTTGAAACA
138965 TCAAACCTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
31 28 0.70
32 2 0.05
33 2 0.05
34 8 0.20
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (32 bp):
TTCTCTTGAAACAAAAAAACCCTCGAAAATGT
Found at i:139108 original size:83 final size:82
Alignment explanation
Indices: 138969--139226 Score: 304
Period size: 83 Copynumber: 3.1 Consensus size: 82
138959 GAAACATCAA
** * *
138969 ACCTTCGAGTTCGACTACGCTCAGCTTTAAGACACGTCATTTACAGCATAACTCAAGGCTAGAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
*
139034 GGTTATCTGCCAATAAAG
66 GGTTATCTG-CAACAAAG
*
139052 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
*
139117 GGTTATCTGTCAACAATG
66 GGTTATCTG-CAACAAAG
* ** * * ** ** * *
139135 ACCTCCTTGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGTAATATAGCTCAAGGCAAGAA
1 ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCA-CATCATTTACAGCATAACTCAAGGCTAGAA
*
139200 GGGCTATCTG--ACAAAG
65 GGGTTATCTGCAACAAAG
139216 ACCTTCGAGTT
1 ACCTTCGAGTT
139227 TGATTCCATT
Statistics
Matches: 150, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
81 13 0.09
83 104 0.69
84 33 0.22
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (82 bp):
ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
GGTTATCTGCAACAAAG
Found at i:139678 original size:5 final size:5
Alignment explanation
Indices: 139575--139667 Score: 134
Period size: 5 Copynumber: 18.2 Consensus size: 5
139565 CAAAACATTT
139575 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* *
139625 TATTA TATTA TATT- TCTTA TTATTA TTATTA TTATTA TTTTA T
1 TATTA TATTA TATTA TATTA -TATTA -TATTA -TATTA TATTA T
139668 TTTTTTATTT
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
4 3 0.04
5 64 0.77
6 16 0.19
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (5 bp):
TATTA
Found at i:140165 original size:14 final size:14
Alignment explanation
Indices: 140129--140171 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
140119 TTTTACATTG
140129 TTATATATATATATATA
1 TTATAT-TA-ATAT-TA
140146 TT-TATTAATATTA
1 TTATATTAATATTA
140159 TTATATTAATATT
1 TTATATTAATATT
140172 TTTTGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 14 0.56
15 2 0.08
16 3 0.12
17 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATATTAATATTA
Found at i:142466 original size:2 final size:2
Alignment explanation
Indices: 142459--142493 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
142449 TCAATAGCAA
142459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
142494 CACACACTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:146271 original size:13 final size:13
Alignment explanation
Indices: 146253--146286 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
146243 TAAGATTTTC
*
146253 TTTGAAAATCATT
1 TTTGAAAATCAAT
146266 TTTG-AAATCAAT
1 TTTGAAAATCAAT
146278 TTTGAAAAT
1 TTTGAAAAT
146287 TACTCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:146634 original size:24 final size:22
Alignment explanation
Indices: 146587--146651 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
146577 GTTCAAATTA
* *
146587 AAATTCAAATCATTC-AAACAC
1 AAATCCAAATCATCCAAAACAC
146608 AAATATCCAAATCATCCAAAACAC
1 -AA-ATCCAAATCATCCAAAACAC
*
146632 AAATCCAAAAACATCCAAAA
1 AAATCC-AAATCATCCAAAA
146652 TGTTTTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.16
23 25 0.68
24 6 0.16
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATCCAAATCATCCAAAACAC
Found at i:148071 original size:12 final size:13
Alignment explanation
Indices: 148049--148091 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
148039 TCCTAATGGG
*
148049 CAATATTTGAAAA
1 CAATGTTTGAAAA
*
148062 CTAT-TTTGAAAA
1 CAATGTTTGAAAA
148074 CAATGTTTGAAAA
1 CAATGTTTGAAAA
148087 TCAAT
1 -CAAT
148092 ATGTAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 11 0.42
13 11 0.42
14 4 0.15
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (13 bp):
CAATGTTTGAAAA
Found at i:148661 original size:44 final size:44
Alignment explanation
Indices: 148564--148662 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
148554 CTCCTGAGTG
* ** *
148564 TATCGATACACATTCAAGGAATGCATCGGTGTACTTTCATAGTG
1 TATCGATGCACATTCAAGGAATGCATCGGTACACTTTCATAGTA
* *
148608 TATCAATGCACATTCATGGAATGCATCGGTACACTTTCATAGTA
1 TATCGATGCACATTCAAGGAATGCATCGGTACACTTTCATAGTA
148652 TATCGATGCAC
1 TATCGATGCAC
148663 TTTGCACAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (44 bp):
TATCGATGCACATTCAAGGAATGCATCGGTACACTTTCATAGTA
Found at i:148663 original size:21 final size:21
Alignment explanation
Indices: 148596--148665 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
148586 GCATCGGTGT
* *
148596 ACTTTCATAGTGTATCAATGC
1 ACTTTCATAGTATATCGATGC
* * * * *
148617 ACATTCATGGAATGCATCGGTAC
1 ACTTTCATAGTAT--ATCGATGC
148640 ACTTTCATAGTATATCGATGC
1 ACTTTCATAGTATATCGATGC
148661 ACTTT
1 ACTTT
148666 GCACAAAAAA
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
21 20 0.57
23 15 0.43
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (21 bp):
ACTTTCATAGTATATCGATGC
Found at i:148837 original size:78 final size:78
Alignment explanation
Indices: 148708--148862 Score: 301
Period size: 78 Copynumber: 2.0 Consensus size: 78
148698 ATTAGAATGC
148708 TAAATTTTATTTGAACATATAATTAATTCTCACCAAAGAATCATAAACCCCCTAACTATTAGCAA
1 TAAATTTTATTTGAACATATAATTAATTCTCACCAAAGAATCATAAACCCCCTAACTATTAGCAA
148773 AGAATGCAATCAT
66 AGAATGCAATCAT
*
148786 TAAATTTTATTTGAACATATAATTAATTCTCACTAAAGAATCATAAACCCCCTAACTATTAGCAA
1 TAAATTTTATTTGAACATATAATTAATTCTCACCAAAGAATCATAAACCCCCTAACTATTAGCAA
148851 AGAATGCAATCA
66 AGAATGCAATCA
148863 AAAATATTAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (78 bp):
TAAATTTTATTTGAACATATAATTAATTCTCACCAAAGAATCATAAACCCCCTAACTATTAGCAA
AGAATGCAATCAT
Found at i:155223 original size:20 final size:20
Alignment explanation
Indices: 155198--155236 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
155188 AATCCTTGTT
155198 TGAGTAT-ATATACTCTCTAC
1 TGAGTATCA-ATACTCTCTAC
155218 TGAGTATCAATACTCTCTA
1 TGAGTATCAATACTCTCTA
155237 GTTAAGTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TGAGTATCAATACTCTCTAC
Found at i:155251 original size:21 final size:21
Alignment explanation
Indices: 155227--155274 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
155217 CTGAGTATCA
*
155227 ATACTCTCTAGTTAAGTACCC
1 ATACTCACTAGTTAAGTACCC
* * *
155248 ATACTCACTGGTTTAGTGCCC
1 ATACTCACTAGTTAAGTACCC
155269 ATACTC
1 ATACTC
155275 CTTATTTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (21 bp):
ATACTCACTAGTTAAGTACCC
Found at i:155597 original size:33 final size:33
Alignment explanation
Indices: 155555--155622 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
155545 AATGTTGAGA
* * *
155555 AAGAAATGTTTAGAATTTTAGTCAATATTTAAC
1 AAGAAATGTTTAGAACTTGAGTCAATAGTTAAC
155588 AAGAAATGTTTAGAACTTGAGTCAATAGTTAAC
1 AAGAAATGTTTAGAACTTGAGTCAATAGTTAAC
155621 AA
1 AA
155623 TCTCTTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (33 bp):
AAGAAATGTTTAGAACTTGAGTCAATAGTTAAC
Found at i:156403 original size:49 final size:49
Alignment explanation
Indices: 156315--156409 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
156305 ATCATCCATA
* *
156315 TGTTGAAAAATCAAACAACTTTCGGTGGCCAACAATTTCGGTGCAAAAT
1 TGTTGAAAAATCAAACAACTTTCGATGACCAACAATTTCGGTGCAAAAT
* * *
156364 TGTTGAAAATTCAATCAACTTTTGATGACCAA-AACTTTCGGTGCAA
1 TGTTGAAAAATCAAACAACTTTCGATGACCAACAA-TTTCGGTGCAA
156410 TTGGCACCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.05
49 38 0.95
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (49 bp):
TGTTGAAAAATCAAACAACTTTCGATGACCAACAATTTCGGTGCAAAAT
Found at i:159329 original size:931 final size:926
Alignment explanation
Indices: 157531--159381 Score: 2851
Period size: 931 Copynumber: 2.0 Consensus size: 926
157521 CCCTAGAATC
* *
157531 TTGTTTGTTGATCCCAAGTCCTTCATTTCAAATTCCCTAGACAGTTGTGCCTTCAATTCTTCAAT
1 TTGTTTGCTAATCCCAAGTCCTTCATTTCAAATTCCCTAGACAGTTGTGCCTTCAATTCTTCAAT
*
157596 ATGATCTTTGTTGGGTCCTGCAACCAACATGACATCCACATACAACAGCAATATAACAAAATTGT
66 ATGATCTTTGTTGGGTCCTGCAACCAACATGACATCCACATACAACAGCAATATAACAAAATCGT
* * * *
157661 TATCATCAAACCTCTTGAAATAAATAAAGGGGTCTGGATTAAGTATGTTGTATCCAAGGCACATA
131 TATCACCAAACCTCTTGAAATAAACAAAGGGGTCTGCATTAAGTATATTGTATCCAAGGCACATA
* * *
157726 ATGAAGGAATCAAATCTCTTATACTAACACCTCGGCGCCTGCTTTAGACCATACAAATATTTGTT
196 ATGAAGGAATCAAATCTCTTATACCAACACCTCGGCGCCTGCTTTAGAACATACAAAGATTTGTT
*
157791 TAACCTGCAAACCAAGTTCTTCATTTCTTTTTCTTCAAAACCTTCAGGCTGAAGCATGTAAATTT
261 CAACCTGCAAACCAAGTTCTTCATTTCTTTTTCTTCAAAACCTTCAGGCTGAAGCATGTAAATTT
* * *
157856 ATTTTTTAAGATTTCCATGAAGAAAATATGTTTTAACATCTAGCTGCTCTAGATGTAAATTCAAT
326 ATTCTTCAAGATTTCCATGAAGAAAATATATTTTAACATCTAGCTGCTCTAGATGTAAATTCAAT
157921 GTAACACACATTGCCAAGACTACTCGAACTGTTGTTAGTCGAACCACAGGAGAAAATATTTCATT
391 GTAACACACATTGCCAAGACTACTCGAACTGTTGTTAGTCGAACCACAGGAGAAAATATTTCATT
* * * *
157986 GAAACCAACACATTTTTTTAGCATATCCTTTGACCATCAGTCTTGTACGATACCTCTCAACTTGA
456 AAAACCAACACATTTTTTTAACATATCCTTTGACCACCAGTCTTGCACGATACCTCTCAACTTGA
*
158051 TCGTTACCATTTCGCTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCCTTCCTTGTGGTAG
521 TCGTTACCATTTCACTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCCTTCCTTGTGGTAG
* * *
158116 CGGCACAAGATCTCATGTATTATTTTTATGAAGGGCTTCAATTTCTTCTAGCATCGTCATCATCC
586 CGACACAAGATCCCATATATTATTTTTATGAAGGGCTTCAATTTCTTCTAGCATCGTCATCATCC
* * * * *
158181 ACAGTGAAGCCTCTGAGCTGTTTATTGCCTCCTGGTATATTGATGGCTCACCGTCCTCTATTAAA
651 ACAGTGAAGCATCTGAGATGTTTATTACCTCCTGGTATATTGATGACTCACAGTCCTCTATTAAA
* * * * *
158246 AGGCAGTGTGCAATATTTTCTTCTATAACATAATTTGAGTGCCAATTGGGATGTCTTCTCACACG
716 AGGCAGTATGCAATATTTCCTTCTATAACATAATCTGAGTGCCAATTGGGACGTCTTCTCACACA
* * *
158311 ATCTGATTGACGAGTTGTTGGAGCTTCAGAACTCTCTGGTTCTTGTTCATCTTGTGTTGGTTCTG
781 ATCTGATTGACGAGTTATTGGAGCTTCAGAACTCTCTGGTTCTTGTTCATCATGTGCTGGTTCTG
* * * * * *
158376 CTTTAGAATAATCTCATTGTTCAAACTCATTTTCCACATGTATCTGTGTAGTCTCTAATTTTTCA
846 CTTCAAAAGAATCTCATTGTTCAAACTCATTTTCCACATATATCTGTGCAGTCTCTAACTTTTCA
158441 GTACTATCATTTTCTT
911 GTACTATCATTTTCTT
* *
158457 TTGTTTGCTAATCCCAAGTCCTTTATTTCAAATTCCCTAGTCAGTTGTGCCTTCAATTCTTCAAT
1 TTGTTTGCTAATCCCAAGTCCTTCATTTCAAATTCCCTAGACAGTTGTGCCTTCAATTCTTCAAT
* * * * * *
158522 ATGATCTTTTTTGGGTCCTGCAATCAATATGTCATCCACATATAACATCAATATAACAAAATCGT
66 ATGATCTTTGTTGGGTCCTGCAACCAACATGACATCCACATACAACAGCAATATAACAAAATCGT
* *
158587 TATCACCAAACCTCTTGAAATAAGCACAA-GGGTCTGCATTAAGTCTATTGTATCCAAGGCACAT
131 TATCACCAAACCTCTTGAAATAAACA-AAGGGGTCTGCATTAAGTATATTGTATCCAAGGCACAT
* * * * *
158651 AATGAAGGAATCGAATCTCTTATACCAATACCTCGGTGCCTGCTTTAGAACGTACAGAGATTTGT
195 AATGAAGGAATCAAATCTCTTATACCAACACCTCGGCGCCTGCTTTAGAACATACAAAGATTTGT
* * * * *
158716 TCAACCTGCAAACCAAGTTTTTCTTCTTTTCTTTTTCTTTAAAACCTTTAGGTTGGAGCATGTAA
260 TCAACCTGCAAACCAAG---TTCTTCATTTCTTTTTCTTCAAAACCTTCAGGCTGAAGCATGTAA
*
158781 ATTTATTCTTCAAGATTTCCATGAAGAAAAGT-TATTTTAACATCTAGCTGCTCTATATGTAAAT
322 ATTTATTCTTCAAGATTTCCATGAAGAAAA-TATATTTTAACATCTAGCTGCTCTAGATGTAAAT
* *
158845 TTAATGTAGCACACATTGCCAAGACTACTCGAACTGTTGTTAGTCGAACCACAGGAGAAAATATT
386 TCAATGTAACACACATTGCCAAGACTACTCGAACTGTTGTTAGTCGAACCACAGGAGAAAATATT
* * * *
158910 TCATTAAAATCAATACCTTCTTTTTGAACATATCCTTTGACCACCAGTCTTGCATGATACCTCTC
451 TCATTAAAACCAACACATT-TTTTT-AACATATCCTTTGACCACCAGTCTTGCACGATACCTCTC
*
158975 AACTTGATCGTTACCATTTTACTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCCTTCCTT
514 AACTTGATCGTTACCATTTCACTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCCTTCCTT
* * * *
159040 GTGGTAGTGACACAAGGTCCCATATATTATTTTTATGAAGGGCTTCAATTTTTTCTTGCATCGTC
579 GTGGTAGCGACACAAGATCCCATATATTATTTTTATGAAGGGCTTCAATTTCTTCTAGCATCGTC
* *
159105 ATCATCCACAGTGAAGCATCTGAGATGTTTATTACCTCCTGGTATGTTGATGACTTACAGTCCTC
644 ATCATCCACAGTGAAGCATCTGAGATGTTTATTACCTCCTGGTATATTGATGACTCACAGTCCTC
* * *
159170 TGTTAAAAGGTAGTATGCATTATTTCCTTCTATAACATAATCTGAGTGCCAATTGGGACGTCTTC
709 TATTAAAAGGCAGTATGCAATATTTCCTTCTATAACATAATCTGAGTGCCAATTGGGACGTCTTC
* *
159235 TCACACAATCTGATTGACGAGTTATTGGGGTTTCAGAACTCTCTGGTTCTTGTTCATCATGTGCT
774 TCACACAATCTGATTGACGAGTTATTGGAGCTTCAGAACTCTCTGGTTCTTGTTCATCATGTGCT
* * * * *
159300 GGTTCTGCTTCAAAAGAATCTCCTTGTTCAAACTCCTTTTCTATATATATCTGTGCAGTCTCTGA
839 GGTTCTGCTTCAAAAGAATCTCATTGTTCAAACTCATTTTCCACATATATCTGTGCAGTCTCTAA
*
159365 CTTTTCAGTACTGTCAT
904 CTTTTCAGTACTATCAT
159382 CGTCTTCTTT
Statistics
Matches: 832, Mismatches: 86, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
926 247 0.30
927 2 0.00
929 176 0.21
930 6 0.01
931 401 0.48
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (926 bp):
TTGTTTGCTAATCCCAAGTCCTTCATTTCAAATTCCCTAGACAGTTGTGCCTTCAATTCTTCAAT
ATGATCTTTGTTGGGTCCTGCAACCAACATGACATCCACATACAACAGCAATATAACAAAATCGT
TATCACCAAACCTCTTGAAATAAACAAAGGGGTCTGCATTAAGTATATTGTATCCAAGGCACATA
ATGAAGGAATCAAATCTCTTATACCAACACCTCGGCGCCTGCTTTAGAACATACAAAGATTTGTT
CAACCTGCAAACCAAGTTCTTCATTTCTTTTTCTTCAAAACCTTCAGGCTGAAGCATGTAAATTT
ATTCTTCAAGATTTCCATGAAGAAAATATATTTTAACATCTAGCTGCTCTAGATGTAAATTCAAT
GTAACACACATTGCCAAGACTACTCGAACTGTTGTTAGTCGAACCACAGGAGAAAATATTTCATT
AAAACCAACACATTTTTTTAACATATCCTTTGACCACCAGTCTTGCACGATACCTCTCAACTTGA
TCGTTACCATTTCACTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCCTTCCTTGTGGTAG
CGACACAAGATCCCATATATTATTTTTATGAAGGGCTTCAATTTCTTCTAGCATCGTCATCATCC
ACAGTGAAGCATCTGAGATGTTTATTACCTCCTGGTATATTGATGACTCACAGTCCTCTATTAAA
AGGCAGTATGCAATATTTCCTTCTATAACATAATCTGAGTGCCAATTGGGACGTCTTCTCACACA
ATCTGATTGACGAGTTATTGGAGCTTCAGAACTCTCTGGTTCTTGTTCATCATGTGCTGGTTCTG
CTTCAAAAGAATCTCATTGTTCAAACTCATTTTCCACATATATCTGTGCAGTCTCTAACTTTTCA
GTACTATCATTTTCTT
Found at i:163109 original size:23 final size:21
Alignment explanation
Indices: 163084--163131 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 21
163074 ATAATAAACA
163084 AAAGAAATATATATAAAAATAT
1 AAAGAAATATATATAAAAA-AT
163106 AAA-AAATATATATAAAAAATT
1 AAAGAAATATATATAAAAAA-T
163127 AAAGA
1 AAAGA
163132 GTACAACTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.04
21 19 0.79
22 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAGAAATATATATAAAAAAT
Found at i:165103 original size:42 final size:42
Alignment explanation
Indices: 165044--165183 Score: 280
Period size: 42 Copynumber: 3.3 Consensus size: 42
165034 CTAATTGAAA
165044 TATTAAATATTAAACAAATACATTGTAAAAACATTAATGCAT
1 TATTAAATATTAAACAAATACATTGTAAAAACATTAATGCAT
165086 TATTAAATATTAAACAAATACATTGTAAAAACATTAATGCAT
1 TATTAAATATTAAACAAATACATTGTAAAAACATTAATGCAT
165128 TATTAAATATTAAACAAATACATTGTAAAAACATTAATGCAT
1 TATTAAATATTAAACAAATACATTGTAAAAACATTAATGCAT
165170 TATTAAATATTAAA
1 TATTAAATATTAAA
165184 GTCAATCTAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 98 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (42 bp):
TATTAAATATTAAACAAATACATTGTAAAAACATTAATGCAT
Found at i:166020 original size:13 final size:13
Alignment explanation
Indices: 166021--166057 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
166011 CCGTTGACCC
166021 GACCCGACCCGTT
1 GACCCGACCCGTT
*
166034 GACTCGACCCGTT
1 GACCCGACCCGTT
*
166047 TACCCGACCCG
1 GACCCGACCCG
166058 ATCGTTGACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:166026 original size:18 final size:18
Alignment explanation
Indices: 166003--166044 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
165993 GACCGGTCAT
166003 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
*
166021 GACCCGACCCGTTGACTC
1 GACCCGACCCGTTGACCC
166039 GACCCG
1 GACCCG
166045 TTTACCCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.24, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:166043 original size:31 final size:30
Alignment explanation
Indices: 166002--166067 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
165992 TGACCGGTCA
166002 TGACCCGACCCGTTGACCCGACCCGACCCGT
1 TGACCCGACCCGTTGACCCGACCCGA-CCGT
* * *
166033 TGACTCGACCCGTTTACCCGACCCGATCGT
1 TGACCCGACCCGTTGACCCGACCCGACCGT
166063 TGACC
1 TGACC
166068 GTTGACCGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.17, C:0.44, G:0.21, T:0.18
Consensus pattern (30 bp):
TGACCCGACCCGTTGACCCGACCCGACCGT
Found at i:166136 original size:29 final size:29
Alignment explanation
Indices: 166075--166170 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 29
166065 ACCGTTGACC
* * *** *
166075 GGTGTTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAATTAATTCGAAATG
166104 GGTGCTATTCTGGTAATTAATTCGAAATG
1 GGTGCTATTCTGGTAATTAATTCGAAATG
* * ** *
166133 GGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTCTGGTAATTAATTCGAAATG
166162 GGTGCTATT
1 GGTGCTATT
166171 TGTGTAAAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (29 bp):
GGTGCTATTCTGGTAATTAATTCGAAATG
Found at i:167934 original size:235 final size:235
Alignment explanation
Indices: 167523--167978 Score: 876
Period size: 235 Copynumber: 1.9 Consensus size: 235
167513 GGACATTATT
* *
167523 TTAAAATATCGGATTTTATAATGATGACTCTTTTGCTATTACTGTTCGGTTTATTGTGATTTTGA
1 TTAAAATATCAGATTTTATAATGATGACTATTTTGCTATTACTGTTCGGTTTATTGTGATTTTGA
167588 ATTTGAAGACATGTTTTAAATTAATTTATTACTTATTGGTACTATATTTACGAGTTGGATTTTGA
66 ATTTGAAGACATGTTTTAAATTAATTTATTACTTATTGGTACTATATTTACGAGTTGGATTTTGA
167653 TAGTATAATTTGTTTATAATTTCATGTTATTTATAAGGTGATTTTATATTGATGGAATAACGGTT
131 TAGTATAATTTGTTTATAATTTCATGTTATTTATAAGGTGATTTTATATTGATGGAATAACGGTT
167718 TCGGAAAATGTCTTTAATAATCATAAATGTAACCCCCTAG
196 TCGGAAAATGTCTTTAATAATCATAAATGTAACCCCCTAG
*
167758 TTAAAATATTAGATTTTATAATGATGACTATTTTGCTATTACTGTTCGGTTTATTGTGATTTTGA
1 TTAAAATATCAGATTTTATAATGATGACTATTTTGCTATTACTGTTCGGTTTATTGTGATTTTGA
167823 ATTTGAAGACATGTTTTAAATTAATTTATTACTTATTGGTACTATATTTACGAGTTGGATTTTGA
66 ATTTGAAGACATGTTTTAAATTAATTTATTACTTATTGGTACTATATTTACGAGTTGGATTTTGA
*
167888 TAGTATAATTTGTTTATAATTTCATGTTATTTATAAGGTGATTTTATATTTATGGAATAACGGTT
131 TAGTATAATTTGTTTATAATTTCATGTTATTTATAAGGTGATTTTATATTGATGGAATAACGGTT
167953 TCGGAAAATGTCTTTAATAATCATAA
196 TCGGAAAATGTCTTTAATAATCATAA
167979 TGTGATCCAT
Statistics
Matches: 217, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
235 217 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (235 bp):
TTAAAATATCAGATTTTATAATGATGACTATTTTGCTATTACTGTTCGGTTTATTGTGATTTTGA
ATTTGAAGACATGTTTTAAATTAATTTATTACTTATTGGTACTATATTTACGAGTTGGATTTTGA
TAGTATAATTTGTTTATAATTTCATGTTATTTATAAGGTGATTTTATATTGATGGAATAACGGTT
TCGGAAAATGTCTTTAATAATCATAAATGTAACCCCCTAG
Found at i:173672 original size:23 final size:23
Alignment explanation
Indices: 173644--173689 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
173634 TCTTAAGGGT
* *
173644 TTGACCGGTCACGACCCGACCCG
1 TTGACCCGACACGACCCGACCCG
*
173667 TTGACCCGACCCGACCCGACCCG
1 TTGACCCGACACGACCCGACCCG
173690 ATCGTTGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.48, G:0.24, T:0.11
Consensus pattern (23 bp):
TTGACCCGACACGACCCGACCCG
Found at i:173768 original size:29 final size:29
Alignment explanation
Indices: 173707--173801 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 29
173697 ACCGTTGACC
* * *** *
173707 GGTGCTATTCTAGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAATTAATTCGAAATA
173736 GGTGCTATTCTGGTAATTAATTCGAAATA
1 GGTGCTATTCTGGTAATTAATTCGAAATA
* ** *
173765 GGTGCTATTTTGGTAATT-ATTTTAAAAA
1 GGTGCTATTCTGGTAATTAATTCGAAATA
173793 GGTGCTATT
1 GGTGCTATT
173802 TCTGTAAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 16 0.29
29 40 0.71
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.43
Consensus pattern (29 bp):
GGTGCTATTCTGGTAATTAATTCGAAATA
Found at i:173808 original size:28 final size:30
Alignment explanation
Indices: 173736--173805 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 30
173726 ATTCGGTTTT
*
173736 GGTGCTA-TTCTGGTAATTAATTCGAAATA
1 GGTGCTATTTCTGGTAATTAATTCGAAAAA
**
173765 GGTGCTATTT-TGGTAATT-ATTTTAAAAA
1 GGTGCTATTTCTGGTAATTAATTCGAAAAA
173793 GGTGCTATTTCTG
1 GGTGCTATTTCTG
173806 TAAAATGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 17 0.47
29 17 0.47
30 2 0.06
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (30 bp):
GGTGCTATTTCTGGTAATTAATTCGAAAAA
Found at i:177459 original size:37 final size:36
Alignment explanation
Indices: 177417--177524 Score: 164
Period size: 35 Copynumber: 3.0 Consensus size: 36
177407 ATATTTCAAC
* *
177417 AAACATCTACCAAACTTTGAAAAACCATTTTTCAAAT
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
177454 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
* *
177489 AAACATTTACCAAACTTTGAAAATCATTTTTTAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
177525 TTGGTTGCCA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
35 33 0.50
36 15 0.23
37 18 0.27
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:177481 original size:21 final size:20
Alignment explanation
Indices: 177454--177517 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
177444 TTTTTCAAAT
177454 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
177474 AAACCATTT-TCAAA----G-
1 AAA-CATTTACCAAACTTTGA
177489 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
177509 AAATCATTT
1 AAA-CATTT
177518 TTTAAAGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 10 0.29
21 10 0.29
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:182864 original size:19 final size:20
Alignment explanation
Indices: 182840--182887 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
182830 AAGGATTTTC
*
182840 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
182859 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
182879 TTTTGAAAA
1 TTTTGAAAA
182888 AAGGATTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:184378 original size:19 final size:20
Alignment explanation
Indices: 184339--184415 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
184329 ATCAGATTGT
184339 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
184359 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
184377 CC---GGGAACAGATTCCCCC
1 CCAGGGGGTACAGATT-CCCC
*
184395 CCAGGGAGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
184415 C
1 C
184416 TGCATGGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
18 8 0.17
20 19 0.41
21 10 0.22
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:184554 original size:21 final size:21
Alignment explanation
Indices: 184528--184569 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
184518 ATTTGAATAT
*
184528 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
184549 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
184570 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:185573 original size:16 final size:17
Alignment explanation
Indices: 185545--185580 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
185535 TGTATCGCCG
185545 ACAAAATTTTACTATTC
1 ACAAAATTTTACTATTC
185562 ACAAAA-TTTACTATTC
1 ACAAAATTTTACTATTC
185578 ACA
1 ACA
185581 TGAATAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.36
Consensus pattern (17 bp):
ACAAAATTTTACTATTC
Found at i:186051 original size:21 final size:21
Alignment explanation
Indices: 186027--186109 Score: 90
Period size: 21 Copynumber: 4.3 Consensus size: 21
186017 TTCAAAGAAA
186027 CATTTTCCAAACTTTGAAAAC
1 CATTTTCCAAACTTTGAAAAC
*
186048 CATTTACCAAACTTTGAAAAC
1 CATTTTCCAAACTTTGAAAAC
186069 CATTTT-CAAA----G-AAA-
1 CATTTTCCAAACTTTGAAAAC
* *
186083 CATTTACCAAACTTTGAAAAT
1 CATTTTCCAAACTTTGAAAAC
186104 CATTTT
1 CATTTT
186110 TTCAAAGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
14 5 0.10
15 7 0.14
16 1 0.02
19 1 0.02
20 7 0.14
21 30 0.59
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (21 bp):
CATTTTCCAAACTTTGAAAAC
Found at i:186086 original size:56 final size:58
Alignment explanation
Indices: 185994--186108 Score: 189
Period size: 56 Copynumber: 2.0 Consensus size: 58
185984 AACAAACATC
* *
185994 TACCAAACTTTGAAAAATCATTTTTCAAAGAAACATTTTCCAAACTTTGAAAACCATT
1 TACCAAACTTTGAAAAACCATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCATT
*
186052 TACCAAACTTTG-AAAACCA-TTTTCAAAGAAACATTTACCAAACTTTGAAAATCATT
1 TACCAAACTTTGAAAAACCATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCATT
186108 T
1 T
186109 TTTCAAAGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 36 0.67
57 6 0.11
58 12 0.22
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (58 bp):
TACCAAACTTTGAAAAACCATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCATT
Done.