Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_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: 2108335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:1758 original size:24 final size:25
Alignment explanation
Indices: 1729--1799 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 25
1719 ATGTTTTATC
* *
1729 TGATTTTC-GATTTGAATTCTGTTA
1 TGATTTTCTGATATGAATTCTATTA
*
1753 TGA-TTTCTGATATGAATTCTATTT
1 TGATTTTCTGATATGAATTCTATTA
* *
1777 TGA-TTTCTGATCTGGATTCTATT
1 TGATTTTCTGATATGAATTCTATT
1800 CCGATATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 4 0.10
24 37 0.90
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (25 bp):
TGATTTTCTGATATGAATTCTATTA
Found at i:5442 original size:13 final size:13
Alignment explanation
Indices: 5426--5450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5416 TGGCAATCCT
5426 ATCCAAAATGTCC
1 ATCCAAAATGTCC
5439 ATCCAAAATGTC
1 ATCCAAAATGTC
5451 AAATGCCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
ATCCAAAATGTCC
Found at i:9049 original size:21 final size:21
Alignment explanation
Indices: 9024--9123 Score: 103
Period size: 21 Copynumber: 4.8 Consensus size: 21
9014 ACATAGAATT
*
9024 TGTCCCGAAGGACTACATATA
1 TGTCCCGAAGGACCACATATA
* *
9045 TGTCCCAAAAGACCACATATA
1 TGTCCCGAAGGACCACATATA
* *
9066 TATCCCAGAA-GACCACATAGA
1 TGTCCC-GAAGGACCACATATA
*
9087 TGTCCCGAAGAACCACATATA
1 TGTCCCGAAGGACCACATATA
* * *
9108 TATCCTGGAGGACCAC
1 TGTCCCGAAGGACCAC
9124 TCCTTAATAA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.05
21 59 0.92
22 2 0.03
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:9122 original size:42 final size:42
Alignment explanation
Indices: 9032--9123 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
9022 TTTGTCCCGA
* *
9032 AGGACTACATATATGTCCCAAAAGACCACATATATATCCCAG
1 AGGACCACATAGATGTCCCAAAAGACCACATATATATCCCAG
* * **
9074 AAGACCACATAGATGTCCC-GAAGAACCACATATATATCCTGG
1 AGGACCACATAGATGTCCCAAAAG-ACCACATATATATCCCAG
9116 AGGACCAC
1 AGGACCAC
9124 TCCTTAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 3 0.07
42 39 0.93
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.18
Consensus pattern (42 bp):
AGGACCACATAGATGTCCCAAAAGACCACATATATATCCCAG
Found at i:10085 original size:35 final size:35
Alignment explanation
Indices: 10038--10107 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
10028 CAGTGTAAGA
10038 ATGGTACCGATACCT-CCACATT-AGTATCGATACCC
1 ATGGTACCGATA-CTACCAC-TTCAGTATCGATACCC
* *
10073 ATGGTACTGATACTATCACTTCAGTATCGATACCC
1 ATGGTACCGATACTACCACTTCAGTATCGATACCC
10108 CATGAAGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (35 bp):
ATGGTACCGATACTACCACTTCAGTATCGATACCC
Found at i:17298 original size:15 final size:15
Alignment explanation
Indices: 17256--17298 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
17246 TTTTTGTTAT
*
17256 TTCAAATTAATTAAA
1 TTCAAATTAAATAAA
** *
17271 TTCTTATTTAATAAA
1 TTCAAATTAAATAAA
17286 TTCAAATTAAATA
1 TTCAAATTAAATA
17299 TCCATTAAAG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (15 bp):
TTCAAATTAAATAAA
Found at i:25683 original size:373 final size:373
Alignment explanation
Indices: 24998--25749 Score: 1423
Period size: 373 Copynumber: 2.0 Consensus size: 373
24988 ATTGTTAGAG
24998 AACAATGTATTGGATTGAACCATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACAT
1 AACAATGTATTGGATTGAACCATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACAT
*
25063 TGCTCATGGTGATGACTATATGTATGATCCTCAGACTTGAGATAAATATCATCCCAATATATATT
66 TGCTCATGGTGATGACTATATGTATGATCCTCAGACTTGAGATAAATATCATCCCAAAATATATT
25128 GTTGTATGTTTTGATACAGTTAAACATGCTCCGTATCTGATTACACTATAAAGACTGTTATTGAA
131 GTTGTATGTTTTGATACAGTTAAACATGCTCCGTATCTGATTACACTATAAAGACTGTTATTGAA
* * *
25193 TATATTTTGATATATATAGTGGGGTGTATATGGTTAAGATAGGATTTGTCCTTCTTACATAATAG
196 TATATTTCGATATATATAGTCGGGTGTATATGGTTAAGATAGGATTTGTCCTTCCTACATAATAG
*
25258 GAAATATATTGCAGGCCACTTGATTGAGTGAGACTATAAATGCATAACCATGCTCGAATAAGTTG
261 GAAATATATTACAGGCCACTTGATTGAGTGAGACTATAAATGCATAACCATGCTCGAATAAGTTG
25323 ATATGTGATATCATATTCGTTAATCATAGTCTACTCTAGATATCAAGA
326 ATATGTGATATCATATTCGTTAATCATAGTCTACTCTAGATATCAAGA
25371 AACAATGTATTGGATTGAACCATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACAT
1 AACAATGTATTGGATTGAACCATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACAT
* *
25436 TGCTCATGGTGATGACTATATGTATGATCCTCAGACTTGAGATCAATGTCATCCCAAAATATATT
66 TGCTCATGGTGATGACTATATGTATGATCCTCAGACTTGAGATAAATATCATCCCAAAATATATT
25501 GTTGTATGTTTTGATACAGTTAAACATGCTCCGTATCTGATTACACTATAAAGACTGTTATTGAA
131 GTTGTATGTTTTGATACAGTTAAACATGCTCCGTATCTGATTACACTATAAAGACTGTTATTGAA
25566 TATATTTCGATATATATAGTCGGGTGTATATGGTTAAGATAGGATTTGTCCTTCCTACATAATAG
196 TATATTTCGATATATATAGTCGGGTGTATATGGTTAAGATAGGATTTGTCCTTCCTACATAATAG
*
25631 GAAATATATTACAGGCCACTTGATTGAGTGAGACTATAAATGCATGACCATGCTCGAATAAGTTG
261 GAAATATATTACAGGCCACTTGATTGAGTGAGACTATAAATGCATAACCATGCTCGAATAAGTTG
*
25696 ATATGTGATATCATATTCGTTAATTATAGTCTACTCTAGATATCAAGA
326 ATATGTGATATCATATTCGTTAATCATAGTCTACTCTAGATATCAAGA
25744 AACAAT
1 AACAAT
25750 AGATGGACTA
Statistics
Matches: 370, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
373 370 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (373 bp):
AACAATGTATTGGATTGAACCATCATGAGCATATGTCTTGGATTATTATGTAACGGTCATAACAT
TGCTCATGGTGATGACTATATGTATGATCCTCAGACTTGAGATAAATATCATCCCAAAATATATT
GTTGTATGTTTTGATACAGTTAAACATGCTCCGTATCTGATTACACTATAAAGACTGTTATTGAA
TATATTTCGATATATATAGTCGGGTGTATATGGTTAAGATAGGATTTGTCCTTCCTACATAATAG
GAAATATATTACAGGCCACTTGATTGAGTGAGACTATAAATGCATAACCATGCTCGAATAAGTTG
ATATGTGATATCATATTCGTTAATCATAGTCTACTCTAGATATCAAGA
Found at i:32336 original size:16 final size:15
Alignment explanation
Indices: 32300--32352 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
32290 AAGTTCTCAT
*
32300 AAATCCAAACAAATTCA
1 AAAT-CAAAC-AATCCA
32317 AAATCAAACAATCCA
1 AAATCAAACAATCCA
*
32332 CAAATTCAAACATTCCA
1 -AAA-TCAAACAATCCA
32349 AAAT
1 AAAT
32353 ATTCAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 6 0.19
16 11 0.34
17 15 0.47
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATCAAACAATCCA
Found at i:34348 original size:21 final size:21
Alignment explanation
Indices: 34322--34361 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34312 CAGAACCCCA
*
34322 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
34343 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
34362 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:34396 original size:20 final size:21
Alignment explanation
Indices: 34344--34404 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
34334 TTCCCCTGTG
34344 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
34367 GGGGGAATCGGTTCCCTCATA
1 GGGGGAATCGGTTCCCTCAAA
* *
34388 -GGGGTATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
34405 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.43
21 4 0.11
22 3 0.09
23 13 0.37
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:38235 original size:22 final size:21
Alignment explanation
Indices: 38193--38232 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
38183 GAGTTTATTT
38193 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
38214 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
38233 ACAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:60969 original size:21 final size:21
Alignment explanation
Indices: 60943--60984 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
60933 ATAAATAATA
* *
60943 TTACATTTATTTAATTAAGGT
1 TTACATTTACTTAATCAAGGT
60964 TTACATTTACTTAATCAAGGT
1 TTACATTTACTTAATCAAGGT
60985 AAATATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (21 bp):
TTACATTTACTTAATCAAGGT
Found at i:74888 original size:15 final size:15
Alignment explanation
Indices: 74854--74888 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
74844 ATATTTATGA
*
74854 TTTGGGTATTTCGCT
1 TTTGGGTATTTCCCT
*
74869 ATTGGGTATTTCCCT
1 TTTGGGTATTTCCCT
74884 TTTGG
1 TTTGG
74889 TTCATGCTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.14, G:0.26, T:0.51
Consensus pattern (15 bp):
TTTGGGTATTTCCCT
Found at i:82869 original size:40 final size:39
Alignment explanation
Indices: 82724--82965 Score: 203
Period size: 40 Copynumber: 6.2 Consensus size: 39
82714 TCGCAAACGG
* *
82724 TTTTGAAAATACATATATAATATATAGTTTTTTTAAAAGCA-
1 TTTTGAAAAAAAATATATAATATATAG--TTTTTAAAA-CAT
** * *
82765 TTTTG-AAAATGA-ATATAGTATATAGTTTTTAAAACAC
1 TTTTGAAAAAAAATATATAATATATAGTTTTTAAAACAT
*
82802 TTTTG---AAAACTATATAATATATAGTTTTTAAAACAT
1 TTTTGAAAAAAAATATATAATATATAGTTTTTAAAACAT
*
82838 TTTTAGAAAAAAAATATATAATATATGGTTTTTAAAATCATT
1 TTTT-GAAAAAAAATATATAATATATAGTTTTTAAAA-CA-T
** * *
82880 TTTTG--AAAACTTATATAATATATAATTTTTTAAAGCAT
1 TTTTGAAAAAAAATATATAATATAT-AGTTTTTAAAACAT
* * *** *
82918 TTTTTAACACTTATATATAATATATAATTTTTAAAACAT
1 TTTTGAAAAAAAATATATAATATATAGTTTTTAAAACAT
82957 TTTTGAAAA
1 TTTTGAAAA
82966 TTATATAGTT
Statistics
Matches: 164, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
35 2 0.01
36 29 0.18
37 15 0.09
38 5 0.03
39 49 0.30
40 51 0.31
41 8 0.05
42 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (39 bp):
TTTTGAAAAAAAATATATAATATATAGTTTTTAAAACAT
Found at i:82970 original size:29 final size:30
Alignment explanation
Indices: 82938--83010 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 30
82928 TTATATATAA
*
82938 TATATAATTTTTAAAACA-TTTTTGAAAAT
1 TATATAGTTTTTAAAACATTTTTTGAAAAT
82967 TATATAGTTTTTGAAAACATTTTTTGAAAAT
1 TATATAGTTTTT-AAAACATTTTTTGAAAAT
82998 TATATAGTTTTTA
1 TATATAGTTTTTA
83011 TTTTTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 11 0.27
30 7 0.17
31 23 0.56
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.51
Consensus pattern (30 bp):
TATATAGTTTTTAAAACATTTTTTGAAAAT
Found at i:83110 original size:3 final size:3
Alignment explanation
Indices: 83102--83155 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
83092 ATTTATTTAT
* *
83102 TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTT TTA TTA CTTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA
83149 TT- TTA TT
1 TTA TTA TT
83156 TTTCTCGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:83123 original size:22 final size:22
Alignment explanation
Indices: 83098--83155 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
83088 TTTTATTTAT
83098 TTATTTATTATTATTATTATCA
1 TTATTTATTATTATTATTATCA
* *
83120 TTATTTATTATTATTATTTTTA
1 TTATTTATTATTATTATTATCA
*
83142 TTACTTATT-TTATT
1 TTATTTATTATTATT
83156 TTTCTCGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATTTATTATTATTATTATCA
Found at i:90291 original size:84 final size:83
Alignment explanation
Indices: 90024--90750 Score: 687
Period size: 84 Copynumber: 8.7 Consensus size: 83
90014 GCTCAAGACA
* * * * *
90024 AGAAGGGCTATTTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCCCCAAGGCACATCATT
1 AGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
*
90089 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* ** * * ** *
90108 AGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATATCATT
1 AGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATT
* * * * *
90170 TACAGTATAACTCAAGGCT
65 TGCAGCATAACTTAAGTCG
* * * *
90189 AGAAGGGTTATCTTTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCCAGGCATATCATT
1 AGAAGGGTTATC-TGCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* *
90254 TGCAGCACAACTTAAGTCT
65 TGCAGCATAACTTAAGTCG
* * * * * * *
90273 ATAAGGGTTGTCTGTCAACAAAAGACCTTTGAGTTCGACAACGCTCAGCTCTAAGGCACATCATT
1 AGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* *
90338 TGCAACATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* ** * * ** *
90357 AGAAGGGCTATCTG---CCAAAGACCCACGAGTTCGATTACACTCAGCTTGAGGGCATATCATTT
1 AGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
* * * *
90419 ACAGCATAACTCAAGGCT
66 GCAGCATAACTTAAGTCG
* * *
90437 AGAAGGGTTATCTGTC-ACCAAAGACCTTTGAGTTCGACTACTCTCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCAT
*
90500 CTGCAGCATAACTTAAGTCG
64 TTGCAGCATAACTTAAGTCG
* *
90520 AAAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
90585 TGCAGCATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * ** *
90604 AGAAGGGTTATCTGCTAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTTCAAGGCACGTCATC
1 AGAAGGGTTATCTGC-AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* *
90669 TGCAACATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * * * * * * *
90688 AGAAGAGCTATCTACCAGCCGAGGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAAATCA
1 AGAAGGGTTATCT-GCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
90751 AGTTCACAGC
Statistics
Matches: 522, Mismatches: 107, Indels: 28
0.79 0.16 0.04
Matches are distributed among these distances:
80 90 0.17
81 35 0.07
82 2 0.00
83 66 0.13
84 300 0.57
85 29 0.06
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (83 bp):
AGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
GCAGCATAACTTAAGTCG
Found at i:90585 original size:247 final size:249
Alignment explanation
Indices: 90026--90618 Score: 931
Period size: 247 Copynumber: 2.4 Consensus size: 249
90016 TCAAGACAAG
* * *
90026 AAGGGCTATTTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCCCCAAGGCACATCATTTG
1 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
90091 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTT
66 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCACGAGTTCGATTACACTCAGCTTT
* *
90156 GAGGGCATATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTTTCAACAAAAGACCTTTGA
131 GAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTTGA
* * * * *
90221 GTTCGACTACGCTCAGCTCCCAGGCATATCATTTGCAGCACAACTTAAGTCTAT
196 GTTCGACTACGCTCAGCTCACAGGCACATCATCTGCAGCACAACTTAAGTCGAA
* * * * * * *
90275 AAGGGTTGTCTGTCAACAAAAGACCTTTGAGTTCGACAACGCTCAGCTCTAAGGCACATCATTTG
1 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
90340 CAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCACGAGTTCGATTACACTCAGC-TT
66 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCACGAGTTCGATTACACTCAGCTTT
*
90404 GAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTTGA
131 GAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTTGA
* *
90468 GTTCGACTACTCTCAGCTCA-ACGGCACATCATCTGCAGCATAACTTAAGTCGAA
196 GTTCGACTACGCTCAGCTCACA-GGCACATCATCTGCAGCACAACTTAAGTCGAA
*
90522 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
1 AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* *
90587 CAGCATAACTTAAGTCGAGAAGGGTTATCTGC
66 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
90619 TAACCAAAGA
Statistics
Matches: 310, Mismatches: 33, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
246 1 0.00
247 145 0.47
248 49 0.16
249 115 0.37
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (249 bp):
AAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCACGAGTTCGATTACACTCAGCTTT
GAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTTGA
GTTCGACTACGCTCAGCTCACAGGCACATCATCTGCAGCACAACTTAAGTCGAA
Found at i:91450 original size:39 final size:37
Alignment explanation
Indices: 91382--91623 Score: 222
Period size: 39 Copynumber: 6.3 Consensus size: 37
91372 TCGCAAACGG
*
91382 TTTTGAAAATACATATATAATATATAGTTTTTTTAAAAGCA-
1 TTTTGAAAAT-GA-ATATAATATATAG--TTTTTAAAA-CAT
* *
91423 TTTTGAAAATGAATATAGTATATAGTTTTTAAAACAC
1 TTTTGAAAATGAATATAATATATAGTTTTTAAAACAT
*
91460 TTTTGAAACTG--TATAATATATAGTTTTTAAAACAT
1 TTTTGAAAATGAATATAATATATAGTTTTTAAAACAT
** *
91495 TTTTAGAAGAAAAAAATATAATATATGGTTTTTAAAATCATT
1 TTTT-G-A-AAATGAATATAATATATAGTTTTTAAAA-CA-T
* * *
91537 TTTTGAAAACT-TATATAATATATATTTTTTTAAAGCAT
1 TTTTGAAAA-TGAATATAATATATA-GTTTTTAAAACAT
* *
91575 TTTTGAAAACTTATATATAATATATAATTTTTAAAACAT
1 TTTTGAAAA-TGA-ATATAATATATAGTTTTTAAAACAT
91614 TTTTGAAAAT
1 TTTTGAAAAT
91624 TATATTGTTT
Statistics
Matches: 172, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
35 26 0.15
36 3 0.02
37 20 0.12
38 15 0.09
39 48 0.28
40 42 0.24
41 13 0.08
42 5 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATGAATATAATATATAGTTTTTAAAACAT
Found at i:91643 original size:30 final size:30
Alignment explanation
Indices: 91595--91690 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 30
91585 TTATATATAA
*
91595 TATATAATTTTTAAAACA-TTTTTGAAAAT
1 TATATAGTTTTTAAAACATTTTTTGAAAAT
*
91624 TATATTGTTTTTGAAAACATTTTTTGAAAAT
1 TATATAGTTTTT-AAAACATTTTTTGAAAAT
*
91655 TATATAGTTTTT-AAA-TTTTTTGTGAAAATT
1 TATATAGTTTTTAAAACATTTTT-TGAAAA-T
91685 TATATA
1 TATATA
91691 TAGTATATAG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.08
29 19 0.32
30 13 0.22
31 22 0.37
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (30 bp):
TATATAGTTTTTAAAACATTTTTTGAAAAT
Found at i:91763 original size:3 final size:3
Alignment explanation
Indices: 91755--91807 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
91745 ATTTATTTAT
* * *
91755 TTA TTA TTA TTA TTA TCA TTGT TTA TTA TTA TTA TTT TTA TTA CTTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA
91802 TT- TTA T
1 TTA TTA T
91808 ATTGTTTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 34 0.83
4 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:91780 original size:16 final size:15
Alignment explanation
Indices: 91761--91802 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
91751 TTATTTATTA
91761 TTATTATTATCATTGT
1 TTATTATTATCATT-T
*
91777 TTATTATTATTATTT
1 TTATTATTATCATTT
91792 TTATTACTTAT
1 TTATTA-TTAT
91803 TTTATATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (15 bp):
TTATTATTATCATTT
Found at i:91802 original size:22 final size:22
Alignment explanation
Indices: 91746--91807 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
91736 TATAGTTTTA
91746 TTTATTTATTTATTATTATTATT
1 TTTA-TTATTTATTATTATTATT
* * *
91769 ATCATTGTTTATTATTATTATT
1 TTTATTATTTATTATTATTATT
*
91791 TTTATTACTTATT-TTAT
1 TTTATTATTTATTATTAT
91808 ATTGTTTTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 4 0.12
22 26 0.81
23 2 0.06
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATTATTTATTATTATTATT
Found at i:92777 original size:18 final size:18
Alignment explanation
Indices: 92754--92797 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
92744 GAAATGTGAG
92754 GATGAGCGGCCAAGAGTT
1 GATGAGCGGCCAAGAGTT
92772 GATGAGCGGCCAAGAGTT
1 GATGAGCGGCCAAGAGTT
92790 GATGAGCG
1 GATGAGCG
92798 TCGCGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.41, T:0.16
Consensus pattern (18 bp):
GATGAGCGGCCAAGAGTT
Found at i:97508 original size:78 final size:78
Alignment explanation
Indices: 97417--97609 Score: 228
Period size: 78 Copynumber: 2.5 Consensus size: 78
97407 ACCTGAAATG
* * * ** * *
97417 TTAATATTTTTATTAATAAAATGGGTTACGCCCAAGAATGTCATGGTTTTGAATAAAAATAGGTA
1 TTAATAATTTTATTAATAAAATAGGTTACGCCCAAAAATGTCATAATTTTAAATAAAAATAAGTA
*
97482 GTGATGTGTTATA
66 GTAATGTGTTATA
* * *
97495 TTAATAATTTTATTAATAAAATATG-TAGCGCCCAAAAATGTTATAATTTTAAATAGAAATAAGT
1 TTAATAATTTTATTAATAAAATAGGTTA-CGCCCAAAAATGTCATAATTTTAAATAAAAATAAGT
* *
97559 TGTAATGTGTTATG
65 AGTAATGTGTTATA
*
97573 TTAAT-ATATTTATTAATAAAATAGGTTATGCCCAAAA
1 TTAATAAT-TTTATTAATAAAATAGGTTACGCCCAAAA
97610 GAAATTAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
77 4 0.04
78 91 0.94
79 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (78 bp):
TTAATAATTTTATTAATAAAATAGGTTACGCCCAAAAATGTCATAATTTTAAATAAAAATAAGTA
GTAATGTGTTATA
Found at i:97653 original size:23 final size:23
Alignment explanation
Indices: 97626--97674 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
97616 AAAAATCATT
*
97626 TAAAAAATTTTAAATATA-AATA
1 TAAAAAATTTTAAACATATAATA
*
97648 TAAAAAGTTTTAAACATATAATA
1 TAAAAAATTTTAAACATATAATA
97671 TAAA
1 TAAA
97675 GGTTGACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAAATTTTAAACATATAATA
Found at i:98958 original size:20 final size:20
Alignment explanation
Indices: 98935--98978 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
98925 AATAAGCTGG
*
98935 AATTTAATGTTAGAATGTTA
1 AATTTAATGTTAGAATGTGA
*
98955 AATTTGATGTTAGAATGTGA
1 AATTTAATGTTAGAATGTGA
98975 AATT
1 AATT
98979 AGACCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (20 bp):
AATTTAATGTTAGAATGTGA
Found at i:104039 original size:20 final size:20
Alignment explanation
Indices: 104014--104097 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 20
104004 ATATTGGGCC
*
104014 ATGAATCTGAAATTAAAGTT
1 ATGAATATGAAATTAAAGTT
* *
104034 ATGAATATGATATTAAAGCT
1 ATGAATATGAAATTAAAGTT
* * *
104054 ATGAATCT-AATAGTAAATTT
1 ATGAATATGAA-ATTAAAGTT
*
104074 GTGAATATGAAA-TAAA-TT
1 ATGAATATGAAATTAAAGTT
104092 ATGAAT
1 ATGAAT
104098 TTGGAAAAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
18 7 0.14
19 5 0.10
20 37 0.73
21 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAATATGAAATTAAAGTT
Found at i:105523 original size:21 final size:22
Alignment explanation
Indices: 105497--105537 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
105487 AAACTACCAA
105497 AAGACAGAGA-AAAAGTGTCTT
1 AAGACAGAGATAAAAGTGTCTT
*
105518 AAGACAGAGATAAACGTGTC
1 AAGACAGAGATAAAAGTGTC
105538 ATAAATGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.17
Consensus pattern (22 bp):
AAGACAGAGATAAAAGTGTCTT
Found at i:105900 original size:24 final size:24
Alignment explanation
Indices: 105870--105920 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
105860 TTTCGTTTGC
*
105870 GCCGTTTTTAGCCTTAAATTAGTT
1 GCCGTTTTAAGCCTTAAATTAGTT
*
105894 GCCGTTTTAATCCTTAAATTAGTT
1 GCCGTTTTAAGCCTTAAATTAGTT
105918 GCC
1 GCC
105921 ATTGGGTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (24 bp):
GCCGTTTTAAGCCTTAAATTAGTT
Found at i:112080 original size:15 final size:15
Alignment explanation
Indices: 112060--112091 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
112050 ATATATTTCA
*
112060 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
112075 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
112090 TT
1 TT
112092 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:112108 original size:20 final size:20
Alignment explanation
Indices: 112061--112114 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
112051 TATATTTCAT
*
112061 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
112082 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
112102 TGTTATTGTTATT
1 T-TTATTTTTATT
112115 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:113216 original size:10 final size:10
Alignment explanation
Indices: 113183--113209 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
113173 ATGTTTTTCA
113183 AAAAAAAAAC
1 AAAAAAAAAC
113193 AAAAAAAAAC
1 AAAAAAAAAC
113203 AAAAAAA
1 AAAAAAA
113210 GCCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:113646 original size:37 final size:37
Alignment explanation
Indices: 113594--113665 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
113584 TAAAAAGAAG
* *
113594 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
* *
113631 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA
113666 TAAACATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:113756 original size:37 final size:37
Alignment explanation
Indices: 113681--113767 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
113671 ATTGAAAACA
** * * * *
113681 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGCCTCCCTTAAGACAG
113717 TTTCCCTTGAAACAAAATTTTGCCTCCCTTAAGACAG
1 TTTCCCTTGAAACAAAATTTTGCCTCCCTTAAGACAG
*
113754 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
113768 TAAACATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGCCTCCCTTAAGACAG
Found at i:113830 original size:36 final size:36
Alignment explanation
Indices: 113783--114008 Score: 189
Period size: 36 Copynumber: 6.4 Consensus size: 36
113773 ATTGAAAACA
*
113783 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
113819 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
113855 TTTCCATTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
*** * * *
113884 TTTTATTTGAAATAAATTTCGTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * ** *
113920 TTTCTTTTGGAACTAAGTTTTATCTCTCTTCAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
113957 TTTCTCTTGAAACAAATTTCATCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
113993 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
114009 ATCTTTGAAT
Statistics
Matches: 151, Mismatches: 29, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
28 2 0.01
29 17 0.11
30 2 0.01
35 1 0.01
36 98 0.65
37 31 0.21
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:113897 original size:101 final size:102
Alignment explanation
Indices: 113600--113970 Score: 496
Period size: 102 Copynumber: 3.6 Consensus size: 102
113590 GAAGATTTTA
*
113600 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* *
113665 ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTG
66 ATAAACATTGAAAACATTTCCCTTGAAATAAATTTCG
* *
113702 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGCCTCCCTTAAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
113767 ATAAACATTGAAAACATTTCCCTTGAAATAAATTTCG
66 ATAAACATTGAAAACATTTCCCTTGAAATAAATTTCG
* *
113804 TCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTC-CATTGAAA
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC-TTGAAA
* * ** ***
113867 CA-AAATATTTGAATATGTTTTATTTGAAATAAATTTCG
65 CATAAACA-TTGAAAACATTTCCCTTGAAATAAATTTCG
* ** * * * * * *
113905 TCTCCCTTGAGATAGTTTCTTTTGGAACTAAGTTTTATCTCTCTTCAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
113970 A
66 A
113971 AATTTCATCT
Statistics
Matches: 241, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
100 5 0.02
101 79 0.33
102 156 0.65
103 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (102 bp):
TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
ATAAACATTGAAAACATTTCCCTTGAAATAAATTTCG
Found at i:113957 original size:203 final size:204
Alignment explanation
Indices: 113600--113970 Score: 505
Period size: 203 Copynumber: 1.8 Consensus size: 204
113590 GAAGATTTTA
*
113600 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* * * *
113665 ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC
66 ATAAACATTGAAAACATTTCACTTGAAATAAATTTCGTCTCCCTTGAGATAGTTTCCCTTGAAAC
*
113730 AAAATTTTGCCTCCCTTAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
131 AAAATTTTACCTCCCTTAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
113795 TAAATTTCG
196 TAAATTTCG
* *
113804 TCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTC-CATTGAAA
1 TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC-TTGAAA
* * ** * * ** *
113867 CA-AAATATTTGAATATGTTTTATTTGAAATAAATTTCGTCTCCCTTGAGATAGTTTCTTTTGGA
65 CATAAACA-TTGAAAACATTTCACTTGAAATAAATTTCGTCTCCCTTGAGATAGTTTCCCTTGAA
* * * * *
113931 ACTAAGTTTTATCTCTCTTCAGACAGTTTCTCTTGAAACA
129 ACAAAATTTTACCTCCCTTAAGACAGTTTCTCTTGAAACA
113971 AATTTCATCT
Statistics
Matches: 143, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
202 5 0.03
203 112 0.78
204 26 0.18
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (204 bp):
TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
ATAAACATTGAAAACATTTCACTTGAAATAAATTTCGTCTCCCTTGAGATAGTTTCCCTTGAAAC
AAAATTTTACCTCCCTTAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
TAAATTTCG
Found at i:114052 original size:138 final size:138
Alignment explanation
Indices: 113804--114054 Score: 371
Period size: 138 Copynumber: 1.8 Consensus size: 138
113794 ATAAATTTCG
* **
113804 TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCATTGAAACA
1 TCTCTCTTCAGACAGTTTCCCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCATTGAAACA
* * *
113869 AAATATTTGAATATGTTTTATTTGAAATAAATTTCGTCTCCCTTGAGATAGTTTCTTTTGGAACT
66 AAATATTTGAATATGTTTTATCTAAAACAAATTTCGTCTCCCTTGAGATAGTTTCTTTTGGAACT
113934 AAGTTTTA
131 AAGTTTTA
* *
113942 TCTCTCTTCAGACAGTTTCTCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TCTCTCTTCAGACAGTTTCCCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCATTGAAACA
* * *
114007 AAATCTTTGAAT-T-TATTTCTCCTAAAACAAATTTTGTCTCCCTTGAGA
66 AAATATTTGAATATGT-TTTAT-CTAAAACAAATTTCGTCTCCCTTGAGA
114055 CAGGTTCTCT
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 1 0.01
137 5 0.05
138 94 0.94
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (138 bp):
TCTCTCTTCAGACAGTTTCCCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCATTGAAACA
AAATATTTGAATATGTTTTATCTAAAACAAATTTCGTCTCCCTTGAGATAGTTTCTTTTGGAACT
AAGTTTTA
Found at i:114067 original size:65 final size:67
Alignment explanation
Indices: 113957--114111 Score: 190
Period size: 65 Copynumber: 2.3 Consensus size: 67
113947 CTTCAGACAG
* * ** * * **
113957 TTTCTCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATT
1 TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGGTTCCCTTGAAACACAAAATCTTCAAATT
114020 TA
66 TA
*
114022 TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGGTTCTCTTGAAACACAAAATCTTCAAATT
1 TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGGTTCCCTTGAAACACAAAATCTTCAAATT
114087 TA
66 TA
114089 TTTC-CCTTAAAACAAAATTTTGT
1 TTTCTCC-TAAAAC-AAATTTTGT
114112 TTCGTTTGAG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 38 0.49
66 4 0.05
67 26 0.34
68 9 0.12
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (67 bp):
TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGGTTCCCTTGAAACACAAAATCTTCAAATT
TA
Found at i:115053 original size:110 final size:108
Alignment explanation
Indices: 114847--115093 Score: 306
Period size: 110 Copynumber: 2.3 Consensus size: 108
114837 ACGAATGGGC
** *
114847 TTCCCAG-T-TTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAG
1 TTCCCAGTTCTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGAACTCAAGACAACACAAG
* * *
114910 CTCAAATTCATAACGAAGGGGTGACTAATTGTCAACAAACAACT
66 CTCAAATTCACAACGAAGGGGCGACTAACTGTCAACAAACAA-T
* * * *
114954 TT-TCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAGACAACATA
1 TTCCCAG-TTC-TTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGAACTCAAGACAACACA
* * **
115018 AGCTCAACTTCACAACGAAGGGGCGGCTGGCTGTCAACAAACAAT
64 AGCTCAAATTCACAACGAAGGGGCGACTAACTGTCAACAAACAAT
115063 TTCCCAGTTC--CAGAGCCAATTTCAACTTCAC
1 TTCCCAGTTCTTCAGAGCCAATTTCAACTTCAC
115094 GACGGAGGAT
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
106 23 0.19
107 2 0.02
108 1 0.01
109 6 0.05
110 87 0.73
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (108 bp):
TTCCCAGTTCTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGAACTCAAGACAACACAAG
CTCAAATTCACAACGAAGGGGCGACTAACTGTCAACAAACAAT
Found at i:116505 original size:38 final size:36
Alignment explanation
Indices: 116463--116549 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 36
116453 ATTTCGTCCC
*
116463 CTATATATATATTTTTAATTATATTTTTTATTTATTTA
1 CTATATATATATTTTTAATTATATTATTTA-TT-TTTA
* * *
116501 CTATAT-TCCTTTTTTTATTTATATTATTTATTTTTA
1 CTATATAT-ATATTTTTAATTATATTATTTATTTTTA
*
116537 TTATATATATATT
1 CTATATATATATT
116550 ATATCATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
36 12 0.30
37 4 0.10
38 24 0.60
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (36 bp):
CTATATATATATTTTTAATTATATTATTTATTTTTA
Found at i:116528 original size:21 final size:21
Alignment explanation
Indices: 116488--116557 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 21
116478 TAATTATATT
*
116488 TTTTATTTATTTACTA-TATTCC
1 TTTT-TTTATTTA-TATTATTCA
*
116510 TTTTTTTATTTATATTATTTA
1 TTTTTTTATTTATATTATTCA
116531 TTTTTATTATATATATATTATATCA
1 TTTTT-TTAT-T-TATATTAT-TCA
116556 TT
1 TT
116558 ATATATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.05
21 17 0.43
22 8 0.20
23 1 0.03
24 8 0.20
25 4 0.10
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTTTATTTATATTATTCA
Found at i:116545 original size:2 final size:2
Alignment explanation
Indices: 116538--116628 Score: 136
Period size: 2 Copynumber: 46.5 Consensus size: 2
116528 TTATTTTTAT
116538 TA TA TA TA TA T- TA TA TCA T- TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
116578 TCA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116620 TA TA TA TA T
1 TA TA TA TA T
116629 GTGTGTATAG
Statistics
Matches: 83, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
1 4 0.05
2 75 0.90
3 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116775 original size:42 final size:43
Alignment explanation
Indices: 116703--116790 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 43
116693 TTTATACGTT
116703 TTTATATATATTTTTTCTTAATATTCTATTTTTGTTTT-TATTTA
1 TTTATATATATTTTTTCTTAATATTCTATTTTT-TTTTCTA-TTA
116747 TTTATATATATTATATTT-TT-A-ATT-TATTTTTTTTTCTATTA
1 TTTATATATATT-T-TTTCTTAATATTCTATTTTTTTTTCTATTA
116788 TTT
1 TTT
116791 TTTCTTAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
41 10 0.24
42 9 0.22
43 3 0.07
44 13 0.32
45 3 0.07
46 3 0.07
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (43 bp):
TTTATATATATTTTTTCTTAATATTCTATTTTTTTTTCTATTA
Found at i:116933 original size:18 final size:17
Alignment explanation
Indices: 116906--116939 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
116896 TTTTTATTCA
116906 TTTTTAATTTCTTTTACC
1 TTTTTAATTT-TTTTACC
*
116924 TTTTTTATTTTTTTAC
1 TTTTTAATTTTTTTAC
116940 TCCATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTTTTACC
Found at i:116937 original size:17 final size:17
Alignment explanation
Indices: 116893--116939 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
116883 TATGTACACA
116893 TTATTTTTATT-CATTTT
1 TTATTTTT-TTACATTTT
* *
116910 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACATTTT
116928 TTATTTTTTTAC
1 TTATTTTTTTAC
116940 TCCATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACATTTT
Found at i:128142 original size:16 final size:18
Alignment explanation
Indices: 128107--128147 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 18
128097 CCCTAAATTA
128107 AAAAAAGAGAAAAGAGAAC
1 AAAAAAGAG-AAAGAGAAC
128126 AAAAAAGAG-AA-AGAAC
1 AAAAAAGAGAAAGAGAAC
128142 AAAAAA
1 AAAAAA
128148 TAAGGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
17 2 0.09
19 9 0.41
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAAGAGAAAGAGAAC
Found at i:129332 original size:110 final size:110
Alignment explanation
Indices: 129134--129333 Score: 278
Period size: 110 Copynumber: 1.8 Consensus size: 110
129124 GCTTCCCAGT
* * *
129134 TTCAGAGCCAAATTCAACTTCACAGCGAGGGATATTTGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAAATTCAACTTCACAACAAAGGATATTTGACTCAAGACAACACAAGCTCAACTTCA
*
129199 CAACAAAGGGGCGACTGATTGTCAACAAAAAACTTTTCAGTTTCA
66 CAACAAAGGGGCGACTGACTGTCAACAAAAAACTTTTCAGTTTCA
* * *
129244 TTCAGAGTCAATTTCAACTTCACAACAAAGGATA-TTGAACTCGAGACAACACAAGCTCAACTTC
1 TTCAGAGCCAAATTCAACTTCACAACAAAGGATATTTG-ACTCAAGACAACACAAGCTCAACTTC
***
129308 ACAGTGAAGGGGC-AGCTGACTGTCAA
65 ACAACAAAGGGGCGA-CTGACTGTCAA
129334 TAAACAATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
109 4 0.05
110 74 0.95
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (110 bp):
TTCAGAGCCAAATTCAACTTCACAACAAAGGATATTTGACTCAAGACAACACAAGCTCAACTTCA
CAACAAAGGGGCGACTGACTGTCAACAAAAAACTTTTCAGTTTCA
Found at i:130831 original size:2 final size:2
Alignment explanation
Indices: 130824--130853 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
130814 ATTCTATCGT
130824 TA 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 TA
130854 CTTTTAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:130907 original size:16 final size:15
Alignment explanation
Indices: 130870--130943 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
130860 ATTCTTTTTC
*
130870 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
130887 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
130902 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
130918 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
130934 TTATATATTT
1 ATATATATTT
130944 CATTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:130966 original size:15 final size:15
Alignment explanation
Indices: 130946--130977 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
130936 ATATATTTCA
*
130946 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
130961 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
130976 TT
1 TT
130978 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:130994 original size:20 final size:20
Alignment explanation
Indices: 130947--131000 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
130937 TATATTTCAT
*
130947 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
130968 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
130988 TGTTATTGTTATT
1 T-TTATTTTTATT
131001 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:131030 original size:13 final size:14
Alignment explanation
Indices: 130871--131035 Score: 55
Period size: 14 Copynumber: 10.5 Consensus size: 14
130861 TTCTTTTTCA
130871 TATATCATTATTATTT
1 TATAT-ATT-TTATTT
*
130887 ATATATATTTT-TAT
1 -TATATATTTTATTT
*
130901 TACTATAATTATATGTT
1 TA-TAT-ATTTTAT-TT
130918 ATATATATTTATTATTT
1 -TATATA-TT-TTATTT
*
130935 TATATATTTCATTT
1 TATATATTTTATTT
* * *
130949 TATCTTTTATTTTTT
1 TATATATT-TTATTT
*
130964 TATCTTCTATTTTTATTT
1 TA---TATA-TTTTATTT
*
130982 T-TGTATTGTTATTGT
1 TATATATT-TTATT-T
*
130997 TATTATCTTCTTTATTT
1 TA-TAT-AT-TTTATTT
131014 TATATATTTTATTT
1 TATATATTTTATTT
131028 ATATATAT
1 -TATATAT
131036 ATATTATATT
Statistics
Matches: 114, Mismatches: 15, Indels: 40
0.67 0.09 0.24
Matches are distributed among these distances:
13 4 0.04
14 31 0.27
15 24 0.21
16 14 0.12
17 18 0.16
18 20 0.18
19 3 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (14 bp):
TATATATTTTATTT
Found at i:133011 original size:28 final size:28
Alignment explanation
Indices: 132974--133028 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
132964 CTATAATACA
132974 TGTTAGAATTTGTTATCAAAATTTTATG
1 TGTTAGAATTTGTTATCAAAATTTTATG
* *
133002 TGTTATAATTTGTTATCAAATTTTTAT
1 TGTTAGAATTTGTTATCAAAATTTTAT
133029 ATTAATCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.55
Consensus pattern (28 bp):
TGTTAGAATTTGTTATCAAAATTTTATG
Found at i:133128 original size:18 final size:18
Alignment explanation
Indices: 133105--133147 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
133095 ATTACAATTA
133105 TAAATTTAATATTTTTAT
1 TAAATTTAATATTTTTAT
133123 TAAATTTAATATTTTTAT
1 TAAATTTAATATTTTTAT
133141 TAAATTT
1 TAAATTT
133148 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAAATTTAATATTTTTAT
Found at i:137274 original size:33 final size:33
Alignment explanation
Indices: 137237--137307 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
137227 GTTCATGTTG
* *
137237 CTTTCACATCGAGTTAAAATTCGGTTTGGGTTT
1 CTTTCACATCGAGTTAAAATTCAGTCTGGGTTT
*** * *
137270 CTTTCGGTTCGGGTTAAAATTTAGTCTGGGTTT
1 CTTTCACATCGAGTTAAAATTCAGTCTGGGTTT
137303 CTTTC
1 CTTTC
137308 GATTCAGGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (33 bp):
CTTTCACATCGAGTTAAAATTCAGTCTGGGTTT
Found at i:137277 original size:16 final size:16
Alignment explanation
Indices: 137256--137333 Score: 50
Period size: 16 Copynumber: 4.8 Consensus size: 16
137246 CGAGTTAAAA
137256 TTCGGTTTGGGTTTCT
1 TTCGGTTTGGGTTTCT
* **
137272 TTCGGTTCGGGTTAAAAT
1 TTCGGTTTGGGTT--TCT
* *
137290 TT-AGTCTGGGTTTCT
1 TTCGGTTTGGGTTTCT
* ** *
137305 TTCGATTCAGGTTGCT
1 TTCGGTTTGGGTTTCT
137321 TTCGGTTTGGGTT
1 TTCGGTTTGGGTT
137334 AATTTTAGTT
Statistics
Matches: 42, Mismatches: 17, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
15 3 0.07
16 29 0.69
17 7 0.17
18 3 0.07
ACGTcount: A:0.09, C:0.13, G:0.29, T:0.49
Consensus pattern (16 bp):
TTCGGTTTGGGTTTCT
Found at i:137308 original size:33 final size:33
Alignment explanation
Indices: 137249--137317 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
137239 TTCACATCGA
* * * *
137249 GTTAAAATTCGGTTTGGGTTTCTTTCGGTTCGG
1 GTTAAAATTCAGTCTGGGTTTCTTTCGATTCAG
*
137282 GTTAAAATTTAGTCTGGGTTTCTTTCGATTCAG
1 GTTAAAATTCAGTCTGGGTTTCTTTCGATTCAG
137315 GTT
1 GTT
137318 GCTTTCGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.16, C:0.12, G:0.26, T:0.46
Consensus pattern (33 bp):
GTTAAAATTCAGTCTGGGTTTCTTTCGATTCAG
Found at i:137793 original size:21 final size:21
Alignment explanation
Indices: 137767--137811 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
137757 GAACTGCGAT
* *
137767 AGGGGAATGAGTTCTACTT-A
1 AGGGGGATAAGTTCTACTTCA
*
137787 AGGGGGATAAGTTGTACTTCA
1 AGGGGGATAAGTTCTACTTCA
137808 AGGG
1 AGGG
137812 TTGATTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.29, C:0.09, G:0.36, T:0.27
Consensus pattern (21 bp):
AGGGGGATAAGTTCTACTTCA
Found at i:139890 original size:32 final size:31
Alignment explanation
Indices: 139805--139890 Score: 84
Period size: 37 Copynumber: 2.6 Consensus size: 31
139795 TTGTATAATA
139805 TTAC-AAATTATAAAATATTTATATATTTTCT
1 TTACAAAATTA-AAAATATTTATATATTTTCT
* *
139836 TTAAAAAATTAAATTCATAATATTTATATAATTTTTT
1 TTACAAAATT-AA---A-AATATTTATAT-ATTTTCT
139873 TTACAAAATTAAAAATAT
1 TTACAAAATTAAAAATAT
139891 AAAAAAGGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
31 3 0.07
32 11 0.24
33 2 0.04
35 1 0.02
36 13 0.29
37 15 0.33
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (31 bp):
TTACAAAATTAAAAATATTTATATATTTTCT
Found at i:144989 original size:23 final size:23
Alignment explanation
Indices: 144946--144990 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
144936 ACATATTAGG
**
144946 TAGCACTTATATAATGTAATAGC
1 TAGCACTTATATAATAAAATAGC
*
144969 TAGCGCTTATATAATAAAATAG
1 TAGCACTTATATAATAAAATAG
144991 GCATTTAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (23 bp):
TAGCACTTATATAATAAAATAGC
Found at i:145051 original size:87 final size:87
Alignment explanation
Indices: 144905--145067 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
144895 AATGTTATAT
*
144905 CATTTAACCGGATATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAGCT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAGCT
144970 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
144992 CATTTAACCGGAAATATTATTAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAGCT
145057 AGCGCTTATAT
66 AGCGCTTATAT
145068 TGATCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAGCT
AGCGCTTATATAATAAAATAGG
Found at i:145496 original size:200 final size:200
Alignment explanation
Indices: 145093--145588 Score: 624
Period size: 200 Copynumber: 2.5 Consensus size: 200
145083 GTAAACCGGC
* * * * * * ***
145093 ATATTTATACCGGTAACATTGAAAATTTATTTATTACATTATACTTATGGGTTTCGATGTTTCCG
1 ATATTTATATCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTTTT
* * * * *
145158 GGATCGATATTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGG
66 GGATCGATACTTTTAATAAATGTATCGACACTTTATGGTTGCACCCGTTTGGGCATTCATCCTGG
* *
145223 ACCAAAAGTATCGACACAAATTTAACAAGTGTCGATACTTTATGCTAACCTATTTTATTATAAAA
131 ACCAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGCTAACCTATTTTATAATAAAA
145288 TCGGT
196 TCGGT
*
145293 ATATTTATATCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATATTTTTT
1 ATATTTATATCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTTTT
*
145358 GGATCGATACTTTTAATAAATGTATCGACACTTTATGCG-TGTACCTCGTTTGGGCATTCATCCT
66 GGATCGATACTTTTAATAAATGTATCGACACTTTATG-GTTGCACC-CGTTTGGGCATTCATCCT
* * * * * *
145422 GGA-TAATAAGTATCGACACAAATTCT-ACAAGTGTCGATACATTATGTTGACTTGTTTTCTAAT
129 GGACCAA-AAGTATCGACACAAATT-TAACAAGTGTCGATACATTATGCTAACCTATTTTATAAT
* *
145485 TAACT-GGT
192 AAAATCGGT
* * * *
145493 ATATTTATATCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTT
1 ATATTTATATCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTTTT
* *
145558 GGGTCGATACTTATAGA-AAATGTATCGACAC
66 GGATCGATACTTTTA-ATAAATGTATCGACAC
145589 ATATTTAGGT
Statistics
Matches: 258, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
200 187 0.72
201 70 0.27
202 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (200 bp):
ATATTTATATCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTTTT
GGATCGATACTTTTAATAAATGTATCGACACTTTATGGTTGCACCCGTTTGGGCATTCATCCTGG
ACCAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGCTAACCTATTTTATAATAAAA
TCGGT
Found at i:149886 original size:200 final size:200
Alignment explanation
Indices: 149542--150471 Score: 1235
Period size: 200 Copynumber: 4.7 Consensus size: 200
149532 CGCGTTATTT
* * **
149542 AAAAGTATCGACACAA-AATAAAATAGTGTCGCTACATGTTATAGACCTATTCTCTCATAAAAGT
1 AAAAGTATCGACACAATATTAAAA-AGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACC
* * ** *
149606 GGTATATTTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATGGTTTTCGATGTTT
65 AGTATATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * * *
149671 TTTGGATCGACACTTTTTAAAAATGTATCGAAACTTTGTGTGTTCACCCTTTTTGGCGTCTATTC
130 TTCGGATCGACACTTTTTAAAAATGTATCGAAACTTTGTGCGTTCACCCTTTTTGGCATCCATTC
149736 TGGACA
195 TGGACA
* * * *
149742 TAAAGTATCGACACAATATTAACAAGTATCGATACATGTTATAGACCTATTCTCTCATGAAACCA
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCA
* *
149807 GTATATCTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * * * * *
149872 TCGAATCAACACTTTTTGAAAATATATCGACACTTTGTGTGTTCACCATTTTTGGCATCCATTCT
131 TCGGATCGACACTTTTTAAAAATGTATCGAAACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
*
149937 GAACA
196 GGACA
* * * * * *
149942 AAAAGTATCGACACAATATTAAGAAGTGTCGATATATGTTGTAGACATATTTTCTCATAAAA-TA
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCA
* * * *
150006 GGTATATGTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGGGTTTC-ACTATT
66 -GTATATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGA-TGTT
* * * *
150070 TTTGGGATCGACAC-TTTTAATAAAAGTATCGACACTTTGTGCGTTCATCCTTTTTGGCATCCAT
129 TTTCGGATCGACACTTTTTAA-AAATGTATCGAAACTTTGTGCGTTCACCCTTTTTGGCATCCAT
150134 TCTGGACA
193 TCTGGACA
*
150142 AAAAGTATCGACACAA-ATTTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACC
1 AAAAGTATCGACACAATA-TTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACC
* * *
150206 AGCATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
65 AGTATATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * *
150271 TTCGGATCGACACTTTTTGAAAATGTATC-AACATTTTGTGCATTCACCCTTTTTGGCATCCATT
130 TTCGGATCGACACTTTTTAAAAATGTATCGAA-ACTTTGTGCGTTCACCCTTTTTGGCATCCATT
*
150335 CCGGACA
194 CTGGACA
* * * * *
150342 AAGAGTATCGACACAATATTAAAAAGTGTCGATACATGGTGTAGACCTATT-TATCATAAAACCG
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCA
* * * *
150406 GTATATTTATACCTGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATATTTT
66 GTATATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
150471 T
131 T
150472 GGGGTCGTTA
Statistics
Matches: 637, Mismatches: 83, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
199 79 0.12
200 545 0.86
201 13 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (200 bp):
AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCA
GTATATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
TCGGATCGACACTTTTTAAAAATGTATCGAAACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
GGACA
Found at i:150286 original size:400 final size:398
Alignment explanation
Indices: 149542--150506 Score: 1391
Period size: 400 Copynumber: 2.4 Consensus size: 398
149532 CGCGTTATTT
* * * *
149542 AAAAGTATCGACACAA-AATAAAATAGTGTCGCTACATGTTATAGACCTATTCTCTCATAAAAGT
1 AAAAGTATCGACACAATATTAAAA-AGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAA-T
* *
149606 GGTATATTTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATGGTTTTCGATGTTT
64 GGTATATTTATACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
* * * * *
149671 TTTGGATCGACACTTTTTAA-AAATGTATCGAAACTTTGTGTGTTCACCCTTTTTGGCGTCTATT
128 TTGGGATCGACAC-TTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATT
*
149735 CTGGACATAAAGTATCGACACAATATTAACAAGTATCGATACATGTTATAGACCTATTCTCTCAT
192 CTGGACAAAAAGTATCGACACAATATTAACAAGTATCGATACATGTTATAGACCTATTCTCTCAT
* *
149800 GAAACCAGTATATCTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCG
257 AAAACCAGCATATCTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCG
* **
149865 ATGTTTTTCGAATCAACACTTTTTGAAAATATATCGACACTTTGTGTGTTCACCATTTTTGGCAT
322 ATGTTTTTCGAATCAACACTTTTTGAAAATATATCAACACTTTGTGCATTCACCATTTTTGGCAT
*
149930 CCATTCTGAACA
387 CCATTCCGAACA
* * *
149942 AAAAGTATCGACACAATATTAAGAAGTGTCGATATATGTTGTAGACATATTTTCTCATAAAATAG
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAAT-G
*
150007 GTATATGTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGGGTTTC-ACTATTT
65 GTATATTTATACCGGTTATATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGA-TATTT
* *
150071 TTGGGATCGACACTTTTAATAAAAGTATCGACACTTTGTGCGTTCATCCTTTTTGGCATCCATTC
128 TTGGGATCGACACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTC
*
150136 TGGACAAAAAGTATCGACACAA-ATTTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCAT
193 TGGACAAAAAGTATCGACACAATA-TTAACAAGTATCGATACATGTTATAGACCTATTCTCTCAT
* *
150200 AAAACCAGCATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCG
257 AAAACCAGCATATCTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCG
* * * * *
150265 ATGTTTTTCGGATCGACACTTTTTGAAAATGTATCAACATTTTGTGCATTCACCCTTTTTGGCAT
322 ATGTTTTTCGAATCAACACTTTTTGAAAATATATCAACACTTTGTGCATTCACCATTTTTGGCAT
*
150330 CCATTCCGGACA
387 CCATTCCGAACA
* * * *
150342 AAGAGTATCGACACAATATTAAAAAGTGTCGATACATGGTGTAGACCTA-TTTATCATAAAACCG
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAA-TG
* * *
150406 GTATATTTATACCTGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATATTTT
65 GTATATTTATACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTT
* ** * * *
150471 TGGGGTCGTTACTTTTTATATATGGATCGACACTTT
129 TGGGATCGACACTTTTAATAAATGTATCGACACTTT
150507 ATGGGAAACT
Statistics
Matches: 505, Mismatches: 51, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
399 108 0.21
400 392 0.78
401 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (398 bp):
AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAATGG
TATATTTATACCGGTTATATTAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTTTG
GGATCGACACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGG
ACAAAAAGTATCGACACAATATTAACAAGTATCGATACATGTTATAGACCTATTCTCTCATAAAA
CCAGCATATCTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGT
TTTTCGAATCAACACTTTTTGAAAATATATCAACACTTTGTGCATTCACCATTTTTGGCATCCAT
TCCGAACA
Found at i:151867 original size:6 final size:6
Alignment explanation
Indices: 151860--151917 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
151850 GTTTGGATCA
* * * * * *
151860 TCATCA TCATCA TCATCG TCATCT TCATCG TCAACT TCATCG TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
151908 TCATCT TCAT
1 TCATCT TCAT
151918 TGACTGTTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:151873 original size:12 final size:12
Alignment explanation
Indices: 151860--151917 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
151850 GTTTGGATCA
* *
151860 TCATCATCATCA
1 TCATCGTCATCT
151872 TCATCGTCATCT
1 TCATCGTCATCT
*
151884 TCATCGTCAACT
1 TCATCGTCATCT
151896 TCATCGTCATCT
1 TCATCGTCATCT
*
151908 TCATCTTCAT
1 TCATCGTCAT
151918 TGACTGTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:152860 original size:21 final size:20
Alignment explanation
Indices: 152836--152948 Score: 63
Period size: 21 Copynumber: 5.5 Consensus size: 20
152826 TTGAAAATCG
152836 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATA-TCTACAGTGT
* * * *
152857 CGTTACGAT-TTTCCA-TTT
1 CGTTGCGATATCTACAGTGT
*
152875 CGCGTTGCGATAGTCTATAGTGT
1 --CGTTGCGATA-TCTACAGTGT
* * *
152898 CGTTGCGAT-TTTCCA-TTT
1 CGTTGCGATATCTACAGTGT
152916 CGCGTTGCGATAATCTACAGTGT
1 --CGTTGCGAT-ATCTACAGTGT
152939 CGTTGCGATA
1 CGTTGCGATA
152949 ATTTTCTCTA
Statistics
Matches: 66, Mismatches: 16, Indels: 21
0.64 0.16 0.20
Matches are distributed among these distances:
18 4 0.06
19 7 0.11
20 18 0.27
21 26 0.39
22 7 0.11
23 4 0.06
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATATCTACAGTGT
Found at i:152885 original size:20 final size:20
Alignment explanation
Indices: 152857--152926 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
152847 TCTACAGTGT
*
152857 CGTTACGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
** * *
152877 CGTTGCGATAGTCTATAGT-G
1 CGTTGCGATTTTCCAT-TTCG
152897 TCGTTGCGATTTTCCATTTCG
1 -CGTTGCGATTTTCCATTTCG
152918 CGTTGCGAT
1 CGTTGCGAT
152927 AATCTACAGT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:152890 original size:41 final size:41
Alignment explanation
Indices: 152833--152947 Score: 203
Period size: 41 Copynumber: 2.8 Consensus size: 41
152823 TAGTTGAAAA
*
152833 TCGCGTTGCGATAGTCTACAGTGTCGTTACGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
*
152874 TCGCGTTGCGATAGTCTATAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
*
152915 TCGCGTTGCGATAATCTACAGTGTCGTTGCGAT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGAT
152948 AATTTTCTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
Found at i:153540 original size:6 final size:6
Alignment explanation
Indices: 153524--153579 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
153514 TCTCGTCTCG
*
153524 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCAT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
153571 GGTCGT GGT
1 GGTCGT GGT
153580 AATACGTGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.02, C:0.16, G:0.50, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:153712 original size:21 final size:21
Alignment explanation
Indices: 153688--153985 Score: 103
Period size: 21 Copynumber: 14.4 Consensus size: 21
153678 AATTTGGAAA
*
153688 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTACACT
* **
153709 ATCGCAACG-CGAAATG-A-AAA
1 ATCGCAACGAC--ACTGTACACT
153729 ATCGCAACGACACTGTACACT
1 ATCGCAACGACACTGTACACT
* * *
153750 ATCGCAATGCGAGA-TGGA-A-A
1 ATCGCAA--CGACACTGTACACT
*
153770 ATCGCAATGACACTGTACACT
1 ATCGCAACGACACTGTACACT
* *
153791 ATCGCAACG-CGA-TTTTCAACT
1 ATCGCAACGAC-ACTGTAC-ACT
* * * *
153812 ATCGTAACG-CGAAATGGA-A-A
1 ATCGCAACGAC--ACTGTACACT
*
153832 ATCGCAATGACACTGTACACT
1 ATCGCAACGACACTGTACACT
* *
153853 ATCGCAACG-CGA-TTTTCAACT
1 ATCGCAACGAC-ACTGTAC-ACT
* * *
153874 ATCGCAACG-CGAAATGGA-A-A
1 ATCGCAACGAC--ACTGTACACT
*
153894 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTACACT
* * *
153915 ATCGCAACG-CGAAATGGA-A-A
1 ATCGCAACGAC--ACTGTACACT
*
153935 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTACACT
*
153956 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTACACT
153977 ATCGCAACG
1 ATCGCAACG
153986 CGATTTTCAA
Statistics
Matches: 204, Mismatches: 44, Indels: 58
0.67 0.14 0.19
Matches are distributed among these distances:
18 3 0.01
19 18 0.09
20 57 0.28
21 108 0.53
22 12 0.06
23 6 0.03
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (21 bp):
ATCGCAACGACACTGTACACT
Found at i:153741 original size:41 final size:41
Alignment explanation
Indices: 153685--153964 Score: 232
Period size: 41 Copynumber: 6.8 Consensus size: 41
153675 ACGAATTTGG
153685 AAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGA
1 AAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGA
* * * *
153726 AAAATCGCAACGACACTGTACACTATCGCAATGCGAGATGG
1 AAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGA
* * ** *
153767 AAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
1 AAAATCGCAACGACACTGTAGACTATCGCAACGCGA-AATGA
** * * ** * *
153809 ACTATCGTAACG-CGAAATG--GAAAATCGCAA--TGACACTGTA
1 AAAATCGCAACGAC--ACTGTAGACTATCGCAACGCGA-AATG-A
** * * *
153849 CACTATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAATGG
1 -AAAATCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAATGA
*
153891 AAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGG
1 AAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGA
153932 AAAATCGCAACGACACTGTAGACTATCGCAACG
1 AAAATCGCAACGACACTGTAGACTATCGCAACG
153965 ACACTGTAGA
Statistics
Matches: 191, Mismatches: 36, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
39 3 0.02
40 4 0.02
41 158 0.83
42 18 0.09
43 6 0.03
44 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (41 bp):
AAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGA
Found at i:153796 original size:62 final size:62
Alignment explanation
Indices: 153747--154013 Score: 351
Period size: 62 Copynumber: 4.3 Consensus size: 62
153737 GACACTGTAC
* *
153747 ACTATCGCAATGCGAGATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
*
153809 ACTATCGTAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
* * ** **
153871 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
* * ** * *
153933 A-AATCGCAA--CGACACTGTAGACTATCGCAACGACACTGTAGACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGA-AATG--GAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
153995 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
154014 CAACGCGAAA
Statistics
Matches: 179, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 7 0.04
62 153 0.85
63 7 0.04
64 3 0.02
65 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (62 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTTCA
Found at i:153899 original size:20 final size:20
Alignment explanation
Indices: 153874--153943 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
153864 ATTTTCAACT
153874 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
153894 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
153915 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
153935 ATCGCAACG
1 ATCGCAACG
153944 ACACTGTAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 18 0.46
21 9 0.23
22 3 0.08
23 3 0.08
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:153978 original size:103 final size:103
Alignment explanation
Indices: 153682--153988 Score: 335
Period size: 103 Copynumber: 3.0 Consensus size: 103
153672 GCGACGAATT
*
153682 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGAAAAATCGCAACGACACTGTAC
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAC
* ** * *
153747 ACTATCGCAATGCGAGATG--GAAAATCGCAA--TGACAC
66 ACTATCGCAA--CGACATGTAGACTATCGCAACGCGACAA
* * * * * *
153783 TGTACACTATCGCAACG-CGATTTTCA-ACTATCGTAACGCGAAATGGAAAATCGCAATGACACT
1 TGGA-A-AATCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGACACT
*
153846 GTACACTATCGCAACG-CGATTTTCA-ACTATCGCAACGCGA-AA
62 GTACACTATCGCAACGAC-A-TGT-AGACTATCGCAACGCGACAA
*
153888 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAC
153953 ACTATCGCAACGACACTGTAGACTATCGCAACGCGA
66 ACTATCGCAACGACA-TGTAGACTATCGCAACGCGA
153989 TTTTCAACTA
Statistics
Matches: 169, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
101 6 0.04
102 5 0.03
103 140 0.83
104 12 0.07
105 4 0.02
106 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (103 bp):
TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAC
ACTATCGCAACGACATGTAGACTATCGCAACGCGACAA
Found at i:154017 original size:21 final size:21
Alignment explanation
Indices: 153788--154017 Score: 86
Period size: 21 Copynumber: 11.1 Consensus size: 21
153778 GACACTGTAC
** *
153788 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
* *
153809 ACTATCGTAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * * *
153830 A-AATCGCAA--TGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
** *
153849 CACTATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGCA
*
153871 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
153892 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
*
153911 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* * *
153933 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
* *
153952 GACTATCGCAA--CGACACTGTA
1 -ACTATCGCAACGCGA-AATGCA
** *
153973 GACTATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGCA
153995 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
154016 AC
1 AC
154018 GCGAAATGCA
Statistics
Matches: 157, Mismatches: 37, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.05
19 12 0.08
20 23 0.15
21 98 0.62
22 8 0.05
23 8 0.05
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:154018 original size:12 final size:12
Alignment explanation
Indices: 154001--154034 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
153991 TTCAACTATC
154001 GCAACGCGAAAT
1 GCAACGCGAAAT
154013 GCAACGCGAAAT
1 GCAACGCGAAAT
154025 GCAACGCGAA
1 GCAACGCGAA
154035 TTTGCGATAC
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:0.41, C:0.26, G:0.26, T:0.06
Consensus pattern (12 bp):
GCAACGCGAAAT
Found at i:154174 original size:2 final size:2
Alignment explanation
Indices: 154167--154192 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
154157 TGATTTTCTC
154167 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
154193 TTCCTTCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:155209 original size:200 final size:199
Alignment explanation
Indices: 154853--155811 Score: 1465
Period size: 200 Copynumber: 4.8 Consensus size: 199
154843 TTTAAATTAA
* **
154853 TATCGACATAAAATTAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAATTGGTATA
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAACCGGTATA
* *
154918 TTTATACTGGTTACATTGAAAATTTATCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
66 TTTATACCGGTTACATTGAAAA-TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
* * * *
154983 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCATTTTTGGCATTCATTTTAGACC
130 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACC
*
155048 AAACG
195 AAAAG
* ** *
155053 TATTGACACAAAATTAAAAAGTGTTAATACATGTTGCAGACATATTCTCTCATAAAAACCGGTAT
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCAT-AAAACCGGTAT
* *
155118 ATTTATACAGGTTATATTGCAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT-GG
65 ATTTATACCGGTTACATTG-AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGG
* * *
155182 ATCGATACTTTTTATAAATGGATCGACACTTTATGGGTATACCCTTTTTGGCATTCATTCTGGAC
129 ATCGATACTTTTTATAAATGTATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGAC
155247 CAAAAG
194 CAAAAG
* *
155253 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCA-ATTCTCTCATAAAATCGATAT
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGA-CATATTCTCTCATAAAACCGGTAT
* *
155317 ATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATATTTTTGGG
65 ATTTATACCGGTTACATTG-AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGG
* * *
155382 ATTGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGAAC
129 ATCGATACTTTTTATAAATGTATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGAC
155447 CAAAAG
194 CAAAAG
*
155453 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAACCGGTATA
* *
155518 TTTATACCGGTTACATTGATAAATTAACTATTACATTATACTTATGGGTTTCGATGTTTCTGTGA
66 TTTATACCGGTTACATTGA-AAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
* *
155583 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTACACCCTTTTTGACATTCATTATGGACC
130 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACC
155648 AAAAG
195 AAAAG
** * * * *
155653 TATTAACACAAAATTAAAATGTGTCGATACATGTTGTAGACCTATTCTCCCATAAAACCGATATA
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAACCGGTATA
*
155718 TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATTTCGATGTTTCTGGGA
66 TTTATACCGGTTACATTGAAAA-TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
*
155783 TCGATACTTTTTTATATATAG-ATCGACAC
130 TCGATAC-TTTTTATAAAT-GTATCGACAC
155812 ATATTCTTAC
Statistics
Matches: 694, Mismatches: 56, Indels: 17
0.90 0.07 0.02
Matches are distributed among these distances:
199 71 0.10
200 535 0.77
201 83 0.12
202 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAACCGGTATA
TTTATACCGGTTACATTGAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGAT
CGATACTTTTTATAAATGTATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCA
AAAG
Found at i:156079 original size:19 final size:19
Alignment explanation
Indices: 156055--156122 Score: 118
Period size: 19 Copynumber: 3.6 Consensus size: 19
156045 TTACATTCAC
156055 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
156074 ATACAAAATTCTAAATCGT
1 ATACAAAATTATAAATCGT
*
156093 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
156112 ATACAAAATTA
1 ATACAAAATTA
156123 ACCCAACATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:161472 original size:37 final size:37
Alignment explanation
Indices: 161399--161473 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
161389 GTTGGAAAAT
* *
161399 ATTTATATATATTTTTTTAAAAATTTAAATTCATAAA
1 ATTTATATATATTTTTTTAAAAATTAAAAATCATAAA
161436 ATTTATATA-ATTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATATATA-TTTTTTTA-AAAATTAAAAATCATAAA
161473 A
1 A
161474 AGGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 1 0.03
37 23 0.68
38 10 0.29
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (37 bp):
ATTTATATATATTTTTTTAAAAATTAAAAATCATAAA
Found at i:166702 original size:27 final size:27
Alignment explanation
Indices: 166672--166731 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
166662 ATTTAGTTTA
*
166672 TTAAATATATTTTATTACTAACTTAAT
1 TTAAAAATATTTTATTACTAACTTAAT
* **
166699 TTAAAAATATTTTATTATTATTTTAAT
1 TTAAAAATATTTTATTACTAACTTAAT
166726 TTAAAA
1 TTAAAA
166732 GTATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAAAAATATTTTATTACTAACTTAAT
Found at i:166743 original size:31 final size:30
Alignment explanation
Indices: 166674--166816 Score: 102
Period size: 31 Copynumber: 4.8 Consensus size: 30
166664 TTAGTTTATT
* *
166674 AAATATATTTTATTACTAACTTAA-TTT-A
1 AAATATATTTTATTATTAATTTAACTTTAA
*
166702 AAA-ATATTTTATTATTATTTTAA-TTTAA
1 AAATATATTTTATTATTAATTTAACTTTAA
* *
166730 AAGTATATATTTTATTCTT-ATCTAAACTTTTAA
1 AA--ATATATTTTATTATTAAT-TTAAC-TTTAA
* *
166763 AAATATATTTTATCATT-ATGTAACTTTTCAA
1 AAATATATTTTATTATTAATTTAAC-TTT-AA
*
166794 AGTATATATTTTA-TATTAATTTA
1 A-AATATATTTTATTATTAATTTA
166817 CTAAATATAT
Statistics
Matches: 92, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
27 20 0.22
28 6 0.07
30 9 0.10
31 36 0.39
32 14 0.15
33 7 0.08
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (30 bp):
AAATATATTTTATTATTAATTTAACTTTAA
Found at i:166806 original size:32 final size:32
Alignment explanation
Indices: 166705--166811 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 32
166695 TAATTTAAAA
* * * *
166705 ATATTTTATTATTATTTTAA-TTTAAAAGTAT
1 ATATTTTATCATTATCTAAACTTTTAAAGTAT
*
166736 ATATTTTATTC-TTATCTAAACTTTTAAA-AAT
1 ATATTTTA-TCATTATCTAAACTTTTAAAGTAT
*
166767 ATATTTTATCATTATGT-AACTTTTCAAAGTAT
1 ATATTTTATCATTATCTAAACTTTT-AAAGTAT
166799 ATATTTTAT-ATTA
1 ATATTTTATCATTA
166812 ATTTACTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
30 9 0.14
31 37 0.58
32 18 0.28
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (32 bp):
ATATTTTATCATTATCTAAACTTTTAAAGTAT
Found at i:166856 original size:30 final size:29
Alignment explanation
Indices: 166798--166873 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
166788 TTTCAAAGTA
* *
166798 TATATTTTATATTAATTTACTAAATATAT
1 TATATTTTATTTTAAGTTACTAAATATAT
* *
166827 TATATTATTATTTTAAGTTATTGAATATAT
1 TATATT-TTATTTTAAGTTACTAAATATAT
*
166857 TTTATTCTTATCTTTAA
1 TATATT-TTAT-TTTAA
166874 CTTCAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 6 0.15
30 28 0.72
31 5 0.13
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (29 bp):
TATATTTTATTTTAAGTTACTAAATATAT
Found at i:166918 original size:21 final size:21
Alignment explanation
Indices: 166878--166937 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
166868 CTTTAACTTC
166878 AAAATA-TTTTAACA-TAAAAT
1 AAAATATTTTTAA-ATTAAAAT
*
166898 -ATATATTTTTATAATTAAAAT
1 AAAATATTTTTA-AATTAAAAT
166919 AAAAATATTTTTAAATTAA
1 -AAAATATTTTTAAATTAA
166938 GTTAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 4 0.12
20 6 0.18
21 7 0.21
22 6 0.18
23 10 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATATTTTTAAATTAAAAT
Found at i:166942 original size:27 final size:30
Alignment explanation
Indices: 166912--166967 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
166902 ATTTTTATAA
*
166912 TTAA-AATAAAA-ATATTT-TTAAATTAAG
1 TTAATAATAAAATATATTTAATAAATTAAG
166939 TTAATAATAAAATATATTTAATAAATTAA
1 TTAATAATAAAATATATTTAATAAATTAA
166968 TATAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 6 0.24
30 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
TTAATAATAAAATATATTTAATAAATTAAG
Found at i:166947 original size:22 final size:23
Alignment explanation
Indices: 166892--166947 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
166882 TATTTTAACA
166892 TAAAAT-AT-ATATTTTTATAAT
1 TAAAATAATAATATTTTTATAAT
*
166913 TAAAATAAAAATATTTTTA-AAT
1 TAAAATAATAATATTTTTATAAT
**
166935 TAAGTTAATAATA
1 TAAAATAATAATA
166948 AAATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 6 0.21
22 14 0.48
23 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TAAAATAATAATATTTTTATAAT
Found at i:166967 original size:25 final size:25
Alignment explanation
Indices: 166891--166974 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 25
166881 ATATTTTAAC
**
166891 ATAAAATATATATTTTTATAATTAA-A
1 ATAAAATATAT-TTAATA-AATTAATA
* *
166917 ATAAAAATATTTTTAAATTAAGTTAATA
1 AT-AAAATATATTT-AA-TAAATTAATA
166945 ATAAAATATATTTAATAAATTAAT-
1 ATAAAATATATTTAATAAATTAATA
166969 ATAAAA
1 ATAAAA
166975 AATACTTCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
24 6 0.12
25 8 0.17
26 6 0.12
27 23 0.48
28 5 0.10
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (25 bp):
ATAAAATATATTTAATAAATTAATA
Found at i:169553 original size:21 final size:21
Alignment explanation
Indices: 169529--169570 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
169519 TTCGTATATA
169529 TTTCAGA-ACTTTTCATTTCAT
1 TTTCAGATACTTTTC-TTTCAT
*
169550 TTTCATATACTTTTCTTTCAT
1 TTTCAGATACTTTTCTTTCAT
169571 ATTCTGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.19, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTCAGATACTTTTCTTTCAT
Found at i:170280 original size:21 final size:21
Alignment explanation
Indices: 170255--170377 Score: 106
Period size: 21 Copynumber: 5.8 Consensus size: 21
170245 GCTATATAAA
170255 ATGTCCCGAAAGACCACATAT
1 ATGTCCCGAAAGACCACATAT
* * *
170276 ATGTCCTGTAGGACCACATAT
1 ATGTCCCGAAAGACCACATAT
* *
170297 ATGTTCC-AAAGGACCAAATAT
1 ATGTCCCGAAA-GACCACATAT
* * *
170318 ATGTCCAAGAAGGACCTCATAT
1 ATGTCC-CGAAAGACCACATAT
* *
170340 ATGTTCC-AAAGGATCACATAT
1 ATGTCCCGAAA-GACCACATAT
*
170361 ATGTCCCGAAGGACCAC
1 ATGTCCCGAAAGACCAC
170378 GTAGAACCCT
Statistics
Matches: 76, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
20 3 0.04
21 56 0.74
22 15 0.20
23 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (21 bp):
ATGTCCCGAAAGACCACATAT
Found at i:170343 original size:43 final size:42
Alignment explanation
Indices: 170266--170377 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 42
170256 TGTCCCGAAA
* *
170266 GACCACATATATGTCCTGTAGGACCACATATATGTTCCAAAG
1 GACCACATATATGTCCAGAAGGACCACATATATGTTCCAAAG
* *
170308 GACCAAATATATGTCCAAGAAGGACCTCATATATGTTCCAAAG
1 GACCACATATATGTCC-AGAAGGACCACATATATGTTCCAAAG
* *
170351 GATCACATATATGTCCCGAAGGACCAC
1 GACCACATATATGTCCAGAAGGACCAC
170378 GTAGAACCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 24 0.39
43 37 0.61
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (42 bp):
GACCACATATATGTCCAGAAGGACCACATATATGTTCCAAAG
Found at i:170988 original size:20 final size:20
Alignment explanation
Indices: 170959--170996 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
170949 TTTCAAAGGG
*
170959 ATGCACCGATGCATCAATCC
1 ATGCACCGATGCACCAATCC
*
170979 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
170997 GAATAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:171035 original size:65 final size:64
Alignment explanation
Indices: 170958--171166 Score: 219
Period size: 65 Copynumber: 3.2 Consensus size: 64
170948 TTTTCAAAGG
*
170958 GATGCACCGATGCATCAATCCATGCATCGATGCAC-CAATGAATAAATTGAACATCGAATGCATT
1 GATGCATCGATGCA-CAATCCATGCATCGATGCACTCAA-GAATAAATTGAACATCGAATGCATT
171022 T
64 T
* * * *
171023 GATGCATCGATGCAC-ATACCATGCATCGATACACTCAGGATTTAA-TGAAAACATCGAATGCAT
1 GATGCATCGATGCACAAT-CCATGCATCGATGCACTCAAGAATAAATTG--AACATCGAATGCAT
171086 TT
63 TT
* * * ** * *
171088 GATGCATCGATGCACAAGCCATGCATAGATGCACTCAAG-CTATTTTAAAACATCGAATGCACTT
1 GATGCATCGATGCACAATCCATGCATCGATGCACTCAAGAATAAATT-GAACATCGAATGCATTT
*
171152 CATGCATCGATGCAC
1 GATGCATCGATGCAC
171167 TGATGCAATA
Statistics
Matches: 121, Mismatches: 16, Indels: 15
0.80 0.11 0.10
Matches are distributed among these distances:
63 4 0.03
64 51 0.42
65 65 0.54
66 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (64 bp):
GATGCATCGATGCACAATCCATGCATCGATGCACTCAAGAATAAATTGAACATCGAATGCATTT
Found at i:176987 original size:21 final size:22
Alignment explanation
Indices: 176941--176993 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
176931 ACACCTAACA
* * *
176941 GTGCATCGATATATCCTTGAAT
1 GTGCATCGATATAACCATGAAG
176963 GTGCATCGATA-AACCATGAAG
1 GTGCATCGATATAACCATGAAG
*
176984 GTGCACCGAT
1 GTGCATCGAT
176994 GCACTCCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (22 bp):
GTGCATCGATATAACCATGAAG
Found at i:177010 original size:23 final size:23
Alignment explanation
Indices: 176941--177020 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 23
176931 ACACCTAACA
**
176941 GTGCATCGATATA-TCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
** * *
176963 GTGCATCGAT--AAACCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
*
176984 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
177007 GTGCATCGATGCAC
1 GTGCATCGATGCAC
177021 AAGGCCATCC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 10 0.22
23 20 0.43
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:179364 original size:12 final size:12
Alignment explanation
Indices: 179345--179378 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
179335 TAAGGGGGAG
179345 TAATTTCAAAAT
1 TAATTTCAAAAT
*
179357 TGATTTCAAAAT
1 TAATTTCAAAAT
179369 TAATTTCAAA
1 TAATTTCAAA
179379 TAAAATCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (12 bp):
TAATTTCAAAAT
Found at i:179707 original size:20 final size:20
Alignment explanation
Indices: 179678--179715 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
179668 TTTCAAAGGG
179678 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
179698 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
179716 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:179861 original size:45 final size:45
Alignment explanation
Indices: 179762--179868 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
179752 TGCACATACC
179762 ATGCATCGATGCACTCAGGATTTAATGAAAACATCGAATACATTTG
1 ATGCATCGATGCACTCAGGATTT-ATGAAAACATCGAATACATTTG
*
179808 ATGCATCGATGCACTCAGGCTATTT-T-AAAACATCGAATGCACTTT-
1 ATGCATCGATGCACTCAGG--ATTTATGAAAACATCGAATACA-TTTG
*
179853 ATGTATCGATGCACTC
1 ATGCATCGATGCACTC
179869 TTAGTGCATC
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
45 29 0.52
46 23 0.41
48 4 0.07
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (45 bp):
ATGCATCGATGCACTCAGGATTTATGAAAACATCGAATACATTTG
Found at i:179866 original size:17 final size:19
Alignment explanation
Indices: 179838--179886 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
179828 TATTTTAAAA
179838 CATCGAATGCACT-TTA-TG
1 CATCG-ATGCACTCTTAGTG
*
179856 TATCGATGCACTCTTAGTG
1 CATCGATGCACTCTTAGTG
179875 CATCGATGCACT
1 CATCGATGCACT
179887 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (19 bp):
CATCGATGCACTCTTAGTG
Found at i:181813 original size:20 final size:21
Alignment explanation
Indices: 181788--181839 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
181778 TTTTCCCAAT
*
181788 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
181808 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
181829 TCGCAATGCGA
1 TCGCAATGCGA
181840 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:181853 original size:20 final size:20
Alignment explanation
Indices: 181828--181962 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
181818 AATTGGGAAA
*
181828 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
181848 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
181868 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
181889 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
*
181909 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
181929 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
181949 TTCGCAACGTGATA
1 ATCGCAACGCGATA
181963 ATACATAATC
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 83 0.83
21 13 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:181872 original size:61 final size:61
Alignment explanation
Indices: 181825--181941 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
181815 GCGAATTGGG
* * * * *
181825 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
181886 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATACTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
181942 TCTGACTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:182497 original size:20 final size:20
Alignment explanation
Indices: 182453--182512 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
182443 GCGATTCTCT
**
182453 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCATTTTCA
*
182473 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCA
* **
182493 TGTTGCGATTTTCATTTTCA
1 CGTTGCGATAGTCATTTTCA
182513 GAAATATCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:183822 original size:18 final size:18
Alignment explanation
Indices: 183801--183845 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
183791 TCCACTTCGG
*
183801 GAGCCATCACCTCACCCA
1 GAGCTATCACCTCACCCA
183819 GAGCTATCACCTCACCCA
1 GAGCTATCACCTCACCCA
183837 GAGCTATCA
1 GAGCTATCA
183846 TCTGATCGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:184251 original size:16 final size:17
Alignment explanation
Indices: 184211--184253 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
184201 TACTGCTAAA
184211 TGTTTTT-GTTAGTATT
1 TGTTTTTGGTTAGTATT
*
184227 TGTTTTTGGTTTGT-TT
1 TGTTTTTGGTTAGTATT
184243 TGTTTTTGGTT
1 TGTTTTTGGTT
184254 GAAGTAATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.05, C:0.00, G:0.23, T:0.72
Consensus pattern (17 bp):
TGTTTTTGGTTAGTATT
Found at i:184361 original size:19 final size:20
Alignment explanation
Indices: 184318--184362 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
184308 CGTAACACGA
184318 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
184338 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
184357 AAATGA
1 AAATGA
184363 AAATCACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:184388 original size:33 final size:33
Alignment explanation
Indices: 184346--184423 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
184336 GGAAATGGCT
*
184346 ATCGCAATGCGAAATGAAAATCACAATGACAAA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
*
184379 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
184412 ATCGCAATGCGA
1 ATCGCAATGCGA
184424 TTTGTTTCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGACAAA
Found at i:184401 original size:19 final size:19
Alignment explanation
Indices: 184346--184404 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
184336 GGAAATGGCT
184346 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
184365 ATCACAAT--G--A-CAAA
1 ATCGCAATGCGAAATGAAA
184379 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
184398 ATCGCAA
1 ATCGCAA
184405 CGACAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 17 0.55
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:184454 original size:14 final size:14
Alignment explanation
Indices: 184435--184491 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
184425 TTGTTTCGCG
184435 GTTGCGATTTTGTC
1 GTTGCGATTTTGTC
*
184449 GTTGCGATTTCATTTCAC
1 GTTGCGATTT--TGT--C
*
184467 ATTGCGATTTTGTC
1 GTTGCGATTTTGTC
184481 GTTGCGATTTT
1 GTTGCGATTTT
184492 CATTTAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 21 0.60
16 4 0.11
18 10 0.29
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.49
Consensus pattern (14 bp):
GTTGCGATTTTGTC
Found at i:184472 original size:32 final size:33
Alignment explanation
Indices: 184436--184507 Score: 121
Period size: 32 Copynumber: 2.2 Consensus size: 33
184426 TGTTTCGCGG
184436 TTGCGATTTTGTCGTTGCGA-TTTCATTTCA-CA
1 TTGCGATTTTGTCGTTGCGATTTTCATTT-AGCA
184468 TTGCGATTTTGTCGTTGCGATTTTCATTTAGCA
1 TTGCGATTTTGTCGTTGCGATTTTCATTTAGCA
184501 TTGCGAT
1 TTGCGAT
184508 AGCAATTTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 21 0.55
33 17 0.45
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTGTCGTTGCGATTTTCATTTAGCA
Found at i:184541 original size:19 final size:19
Alignment explanation
Indices: 184480--184546 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
184470 GCGATTTTGT
** *
184480 CGTTGCGATTTTCATTTAG
1 CGTTGCGATAGTCATTTCG
*
184499 CATTGCGATAG-CAATTTCCG
1 CGTTGCGATAGTC-ATTT-CG
184519 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
184538 CGTTGCGAT
1 CGTTGCGAT
184547 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 23 0.57
20 15 0.38
21 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:185003 original size:41 final size:41
Alignment explanation
Indices: 184907--184994 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
184897 GACTCACCTG
* * *
184907 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
184949 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
184990 TCATC
1 TCATC
184995 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:186634 original size:19 final size:19
Alignment explanation
Indices: 186610--186676 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
186600 GCGATTTTCT
186610 CGTTGCGATAGCCATTTTG
1 CGTTGCGATAGCCATTTTG
186629 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTT-G
**
186649 CGTTATGATA-CCATTTT-
1 CGTTGCGATAGCCATTTTG
186666 CGTTGCGATAG
1 CGTTGCGATAG
186677 TCAAATGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.19
19 25 0.60
20 9 0.21
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGCCATTTTG
Found at i:186658 original size:20 final size:20
Alignment explanation
Indices: 186603--186667 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 20
186593 TCGCATTGCG
* *
186603 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTACGATAGCC
*
186623 ATTTT-GCGTTGCGATAGCC
1 ATTTTCGCGTTACGATAGCC
*
186642 ATTTTCGCGTTATGATA-CC
1 ATTTTCGCGTTACGATAGCC
186661 ATTTTCG
1 ATTTTCG
186668 TTGCGATAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 27 0.66
20 14 0.34
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (20 bp):
ATTTTCGCGTTACGATAGCC
Found at i:187029 original size:20 final size:20
Alignment explanation
Indices: 187004--187051 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
186994 TGTATTATCT
187004 CGTTGCGAAAGTCAAAATCG
1 CGTTGCGAAAGTCAAAATCG
**
187024 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAAAATCG
187044 CGTTGCGA
1 CGTTGCGA
187052 TTTTGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (20 bp):
CGTTGCGAAAGTCAAAATCG
Found at i:187085 original size:20 final size:20
Alignment explanation
Indices: 187020--187093 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
187010 GAAAGTCAAA
* * *
187020 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTTAGT
* ** *
187040 ATCGCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGT-TAGT
187061 ATCGCATTGCGATAGTTAGT
1 ATCGCATTGCGATAGTTAGT
187081 ATCGCATTGCGAT
1 ATCGCATTGCGAT
187094 TTTCCCAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTTAGT
Done.