Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008077.1 Hibiscus syriacus cultivar Beakdansim tig00110579_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: 593651
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:508 original size:63 final size:61
Alignment explanation
Indices: 409--535 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 61
399 ATGAGCCGCC
409 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGGACTTTTGGGTTCT
1 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAA-GGAC-TTTGGGTTCT
472 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGACTTTGGGTTCT
1 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGACTTTGGGTTCT
533 ACT
1 ACT
536 TTGGACGTCG
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 13 0.20
62 4 0.06
63 47 0.73
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (61 bp):
ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGACTTTGGGTTCT
Found at i:1681 original size:67 final size:67
Alignment explanation
Indices: 1564--1753 Score: 307
Period size: 67 Copynumber: 2.9 Consensus size: 67
1554 CATTCATTCA
* *
1564 TTCATTTACACTAACATTCCCCTTGCAACCTTCAACTTCAAACCTCCTTCAAACTCAATTGAACT
1 TTCATTTACACTAACATTCCCC-TGCAATCTTCAACTTCAAACCTTCTTCAAACTCAATTGAACT
1629 AAT
65 AAT
1632 GTTCA-TTACACTAACATTCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAACTCAATTGAACT
1 -TTCATTTACACTAACATTCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAACTCAATTGAACT
1696 AAT
65 AAT
1699 TTCATTTACACTAACATTCCCCCTGCAATCTT---CTTCAAACCTTCTTCAAACTCAA
1 TTCATTTACACTAACATT-CCCCTGCAATCTTCAACTTCAAACCTTCTTCAAACTCAA
1754 ACTGATCTTC
Statistics
Matches: 117, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
65 23 0.20
66 4 0.03
67 56 0.48
68 30 0.26
69 4 0.03
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (67 bp):
TTCATTTACACTAACATTCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAACTCAATTGAACTA
AT
Found at i:10596 original size:24 final size:24
Alignment explanation
Indices: 10569--10616 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10559 TTTTTACTAC
10569 TAAATAATTATTAGTAATAATTAT
1 TAAATAATTATTAGTAATAATTAT
* * * *
10593 TAAATCATTGTTTGTAATTATTAT
1 TAAATAATTATTAGTAATAATTAT
10617 AATTTCATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (24 bp):
TAAATAATTATTAGTAATAATTAT
Found at i:10906 original size:25 final size:28
Alignment explanation
Indices: 10845--10906 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
10835 AAGTTTGCAT
10845 TGAAGACGCCTAGATATCTAACATAGCAAA
1 TGAAGACGCCTAGATATC--ACATAGCAAA
10875 TGAAGACGCCTAGATATC-CA-AG-AAA
1 TGAAGACGCCTAGATATCACATAGCAAA
10900 TGAAGAC
1 TGAAGAC
10907 TAAGTTGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 10 0.31
26 2 0.06
27 2 0.06
30 18 0.56
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (28 bp):
TGAAGACGCCTAGATATCACATAGCAAA
Found at i:15564 original size:105 final size:105
Alignment explanation
Indices: 15282--16125 Score: 1553
Period size: 105 Copynumber: 8.0 Consensus size: 105
15272 GTTGTGAAGT
* * **
15282 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
*
15347 CTGGAGTCCAATATCCTTCGTTGTGACGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
15388 TGAAATTGAGAAGTTGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
15453 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
15494 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
15559 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
15599 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
15664 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
15704 TGAAATTGAGAAATGTTCGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
15769 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
15809 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
15874 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
15914 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
15979 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
16019 TGAAATTGAGAAATGTTCGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
16084 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
16124 TG
1 TG
16126 GGTAAAACCT
Statistics
Matches: 719, Mismatches: 18, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
105 609 0.85
106 110 0.15
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTC
TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:28194 original size:63 final size:63
Alignment explanation
Indices: 28088--28213 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
28078 AAGGGAATTA
*
28088 AACCGATTTGGGGACCAAATTAAACGTTTTTTAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
* * * * *
28151 AACCGGTTTGGGGACCAAATTGAATGTTTTTCAGAACATAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
28214 CTTTTAACAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (63 bp):
AACCGATTTGGGGACCAAATTAAACGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
Found at i:29563 original size:34 final size:34
Alignment explanation
Indices: 29506--29576 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
29496 TTTTTATGGA
*
29506 TGTATTTTTTTTTTACCTATCTATTTATA-TTTT
1 TGTATTTTTTTTTTACCTATCTATTAATACTTTT
* * *
29539 TGTATTTTTTTTTTGTCTTTTCTATTAATACTTTT
1 TGTATTTTTTTTTT-ACCTATCTATTAATACTTTT
29574 TGT
1 TGT
29577 TGTGTTTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 14 0.44
34 11 0.34
35 7 0.22
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.70
Consensus pattern (34 bp):
TGTATTTTTTTTTTACCTATCTATTAATACTTTT
Found at i:31142 original size:21 final size:21
Alignment explanation
Indices: 31116--31189 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
31106 GTTTCTAGAT
31116 TCGCAACGCGATAATACATAA
1 TCGCAACGCGATAATACATAA
**
31137 TCGCAACGCGATTCTA-ACT-A
1 TCGCAACGCGATAATACA-TAA
*
31157 TCGCAACGCGATAATACAAAA
1 TCGCAACGCGATAATACATAA
*
31178 TCGCAATGCGAT
1 TCGCAACGCGAT
31190 TTTCAAAGCG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (21 bp):
TCGCAACGCGATAATACATAA
Found at i:31359 original size:22 final size:22
Alignment explanation
Indices: 31334--31406 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
31324 CTACGGCGAC
31334 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
31356 ATCCGTCCCTATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * *
31378 ATCCGTCCCCATCTCGGGCAAA
1 ATCCGTCCCCATCTCCGACGAA
31400 ATCCGTC
1 ATCCGTC
31407 TATCTCCATC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:31820 original size:20 final size:20
Alignment explanation
Indices: 31797--31839 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
31787 TTTAATTTGC
31797 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
31817 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
31837 GTT
1 GTT
31840 ACGCTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.47
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:31867 original size:20 final size:20
Alignment explanation
Indices: 31797--31867 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
31787 TTTAATTTGC
**
31797 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
**
31817 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
* * *
31837 GTTACGCTTTTCATTTTTGT
1 GTTGCGATTTTCATTTTCGT
*
31857 GTTGCAATTTT
1 GTTGCGATTTT
31868 AAGTTTCAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:33873 original size:19 final size:19
Alignment explanation
Indices: 33851--33887 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
33841 CACGAATTTA
33851 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
33870 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
33888 CTCGTTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.30, T:0.49
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:33929 original size:20 final size:20
Alignment explanation
Indices: 33892--33938 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33882 GATTTTCTCG
33892 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
* ** *
33912 TTGCGGTAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
33932 TTGCGAT
1 TTGCGAT
33939 TTAAGTTTCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:33953 original size:19 final size:20
Alignment explanation
Indices: 33925--33967 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
33915 CGGTAGTCAT
33925 TTTCGCGTTGCGA-TTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
33944 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
33964 TTTC
1 TTTC
33968 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:34502 original size:21 final size:21
Alignment explanation
Indices: 34427--34504 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
34417 GACTCACCTG
* *
34427 TCATCATTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
34447 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
** * *
34469 TCATCCCTCAAGAGTCCCCTG
1 TCATCGTTCAAGAGGCCCCTA
*
34490 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
34505 TTCCTCCCAC
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
20 1 0.02
21 42 0.95
22 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:37244 original size:3 final size:3
Alignment explanation
Indices: 37238--37292 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
37228 ATTATTTTTT
* * *
37238 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TTA TTA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
37283 TAA TAA TAA T
1 TAA TAA TAA T
37293 TATAGTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:37288 original size:12 final size:12
Alignment explanation
Indices: 37212--37296 Score: 72
Period size: 12 Copynumber: 7.3 Consensus size: 12
37202 CTGTTGGGCC
37212 TATAAT-ATTATT
1 TATAATAATTA-T
* *
37224 TATAATTATTTT
1 TATAATAATTAT
*
37236 TTTAATAA-TA-
1 TATAATAATTAT
37246 -ATAATAA-TAT
1 TATAATAATTAT
37256 ATATAATAATTAT
1 -TATAATAATTAT
*
37269 AATAATAATTAT
1 TATAATAATTAT
*
37281 TATAATAATAAT
1 TATAATAATTAT
37293 TATA
1 TATA
37297 GTAAAAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
9 8 0.13
11 1 0.02
12 45 0.75
13 6 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TATAATAATTAT
Found at i:37790 original size:117 final size:117
Alignment explanation
Indices: 37433--37791 Score: 457
Period size: 124 Copynumber: 3.0 Consensus size: 117
37423 ATCTTTTCTT
* * *
37433 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGTTAACCTATTTCCTTCTG
1 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCT-CT--GGA-AATGTTAACCTATTTCTTTATG
*
37498 TGATAGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTTC
62 TGATAGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTCC
* * **
37554 TCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTTATGCTAATCTATCTGCTT
1 T-CTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TTAACCT-AT-T-TCT--TT
* * * * * * * *
37619 TTGTGATAGAATTATGCAAAAGGTTGAACAAACTCTTCTCATTGTGAACTTCTTCTTCC
59 ATGTGATAGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTCC
*
37678 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGACCTATTTCTTTATGTGAT
1 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAACCTATTTCTTTATGTGAT
*
37743 AGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTACGAACTTCTTCT
66 AGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCT
37792 GGAAAAGTTG
Statistics
Matches: 202, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
117 49 0.24
118 2 0.01
119 11 0.05
120 3 0.01
121 6 0.03
122 38 0.19
123 40 0.20
124 53 0.26
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (117 bp):
TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAACCTATTTCTTTATGTGAT
AGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTCC
Found at i:37857 original size:84 final size:78
Alignment explanation
Indices: 37687--37875 Score: 220
Period size: 84 Copynumber: 2.3 Consensus size: 78
37677 CTCTTCAGAT
* *
37687 AAGTTCTTCTCATTATGAACTT-TCTCTGGAAATGTTGACCTATTTCTTTATGTGATAGAGTCAT
1 AAGTTCTTCTCATTATGAACTTCT-TCTGGAAAAGTTGACCGATTTCTTTATGTGATAGAGTCAT
* *
37751 TCAAAAGGTTAAAT
65 GCAAAAGGTTAAAC
* * * *
37765 AAGCTCTTCTCATTACGAACTTCTTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGC
1 AAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGTTGA--CCGAT-T-TCT--TTATGTGATAGA
37830 GTCGA-GCAAAAGGTTAAAC
60 GTC-ATGCAAAAGGTTAAAC
37849 AAGTTCTTCTCATTATGAACTTCTTCT
1 AAGTTCTTCTCATTATGAACTTCTTCT
37876 TCATTCTTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 33 0.35
79 1 0.01
80 4 0.04
81 1 0.01
82 3 0.03
84 50 0.54
85 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (78 bp):
AAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGTTGACCGATTTCTTTATGTGATAGAGTCATG
CAAAAGGTTAAAC
Found at i:38204 original size:237 final size:237
Alignment explanation
Indices: 37769--38970 Score: 2316
Period size: 237 Copynumber: 5.1 Consensus size: 237
37759 TTAAATAAGC
*
37769 TCTTCTCATTACGAAC-TTCTTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTC
1 TCTTCTCATTATGAACTTTC-TCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTC
*
37833 GAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTC
65 GAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
37898 TCATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACA
130 TCATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACA
37963 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
195 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
* *
38006 TCTTCTTATTATGAACTTTCTCTGGAAAAGTTGGTGCCGATCTATCTCCTTCTGTGATAGCGTCG
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCG
*
38071 AGCAAAAGATTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
66 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
38136 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
131 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
38201 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
196 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
*
38243 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTATGATAGCGTCG
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCG
38308 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
66 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
38373 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
131 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
*
38438 GTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGT
196 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
38480 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCG
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCG
38545 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
66 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
38610 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
131 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
38675 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
196 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
38717 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCG
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCG
38782 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
66 AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
38847 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
131 CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
*
38912 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGT
196 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
38954 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
38971 CGATCTAGCA
Statistics
Matches: 951, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
237 948 1.00
238 3 0.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (237 bp):
TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCG
AGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGAGCAAAAAGTTGAACAA
GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
Found at i:38950 original size:24 final size:23
Alignment explanation
Indices: 38915--38959 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
38905 TGAACAAGTT
38915 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
38939 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
38960 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:38989 original size:113 final size:113
Alignment explanation
Indices: 38779--38992 Score: 349
Period size: 113 Copynumber: 1.9 Consensus size: 113
38769 TGTGATAGCG
*
38779 TCGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCGAGCAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * *
38844 TCTCATTATGAACACTTCTGGCAAATGTTGATCCATCAAGAGATGAAT
66 TCTCATTATGAACACATCTAGCAAATGCTGATCCATCAAGAGATGAAT
* *
38892 TCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCT
1 TCGAGCAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*
38957 TCTCATTATGAACTCGATCTAGC-AATGCTGATCCAT
66 TCTCATTATGAACAC-ATCTAGCAAATGCTGATCCAT
38993 TGAATGATGG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 88 0.95
114 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (113 bp):
TCGAGCAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
TCTCATTATGAACACATCTAGCAAATGCTGATCCATCAAGAGATGAAT
Found at i:39943 original size:93 final size:92
Alignment explanation
Indices: 39807--40176 Score: 535
Period size: 93 Copynumber: 4.1 Consensus size: 92
39797 CTATGAGCAA
* * * * *
39807 ATTCATCTTTCAATATCCAATGATTGGTTCTGTGGTTTTATACCAAACCAGATCAGATAACTCAA
1 ATTCATCTTCCAA-ATTCAATGATTGGTT-TTTGGGTTCATACCAAACCAGATCAGATAACTCAA
39872 AGAACACTTCCAGAAGATGCTATTGGCAC
64 AGAACACTTCCAGAAGATGCTATTGGCAC
39901 ATTCATCTTCCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 ATTCATCTTCCAAATTCAATGATTGGTTTTT-GGGTTCATACCAAACCAGATCAGATAACTCAAA
39966 GAACACTTCCAGAAGATGCTATTGGCAC
65 GAACACTTCCAGAAGATGCTATTGGCAC
*
39994 ATTCATCTTCCAAATTCAATAATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 ATTCATCTTCCAAATTCAATGATTGGTTTTT-GGGTTCATACCAAACCAGATCAGATAACTCAAA
40059 GAACACTTCCAGAAGATGCTA-TGAGCAC
65 GAACACTTCCAGAAGATGCTATTG-GCAC
*
40087 ATTCATCTTTCAAATTCAATGATTGG----T---TT--TACCAAACCAGATCAGATAACTCAAAG
1 ATTCATCTTCCAAATTCAATGATTGGTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAG
* *
40143 AACACTTCCAAAAGATGCTATTAGCAC
66 AACACTTCCAGAAGATGCTATTGGCAC
40170 ATGTCAT
1 AT-TCAT
40177 TTGTTCCAGT
Statistics
Matches: 262, Mismatches: 10, Indels: 18
0.90 0.03 0.06
Matches are distributed among these distances:
83 52 0.20
84 5 0.02
85 2 0.01
89 1 0.00
92 4 0.02
93 186 0.71
94 12 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (92 bp):
ATTCATCTTCCAAATTCAATGATTGGTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGCAC
Found at i:41569 original size:13 final size:13
Alignment explanation
Indices: 41535--41560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41525 ATCTTGACCG
41535 CCTTTTTCTTTTT
1 CCTTTTTCTTTTT
41548 CCTTTTTCTTTTT
1 CCTTTTTCTTTTT
41561 TTTTCTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CCTTTTTCTTTTT
Found at i:48867 original size:15 final size:15
Alignment explanation
Indices: 48844--48875 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48834 TGAAATGAAT
48844 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
48859 AATGCATGTATGCAA
1 AATGAATGTATGCAA
48874 AA
1 AA
48876 AAGGTATTGA
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:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:54327 original size:3 final size:3
Alignment explanation
Indices: 54319--54373 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
54309 AATTATTTTT
* *
54319 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
54364 TAA TAA TAA T
1 TAA TAA TAA T
54374 TATAGTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:55054 original size:14 final size:14
Alignment explanation
Indices: 55017--55078 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
55007 TTGCTTGTTT
*
55017 AATTGATTTATAAA
1 AATTGATTTGTAAA
55031 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
55045 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
55060 TATTGATGTGTAAA
1 AATTGATTTGTAAA
55074 TAATT
1 -AATT
55079 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:55108 original size:36 final size:36
Alignment explanation
Indices: 55052--55165 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
55042 AAAAGTTGAT
55052 TTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTT-A-ATTGATGTGTAAATAATTCTTATTTGTGC
* * *
55090 TTGTTTAATTGATTTGT--A-AA-----AGTTGT-T
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
55117 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
55153 TTATTTAATTGAT
1 TTGTTTAATTGAT
55166 TGAAATGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
27 16 0.27
28 5 0.08
29 1 0.02
30 2 0.03
33 2 0.03
34 1 0.02
35 5 0.08
36 21 0.35
37 1 0.02
38 6 0.10
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (36 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:55152 original size:63 final size:65
Alignment explanation
Indices: 55031--55188 Score: 248
Period size: 63 Copynumber: 2.4 Consensus size: 65
55021 GATTTATAAA
*
55031 AATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTGTTT
1 AATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
*
55096 AATTGATTTGTAAAAGTTGTTTTGTTT-A-ATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
1 AATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
55159 AATTGATTGAAATGTAAAAGTTGATTTGTT
1 AATTGATT----TGTAAAAGTTGATTTGTT
55189 GATTTCAATC
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
63 42 0.49
64 1 0.01
65 26 0.30
67 17 0.20
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (65 bp):
AATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
Found at i:55277 original size:20 final size:20
Alignment explanation
Indices: 55240--55317 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
55230 AGGTACACTT
* * *
55240 TCGCAACGCTAAACTCAAAA
1 TCGCAATGCGAAAGTCAAAA
*
55260 TTGCAATGCGAAAGTCAAAA
1 TCGCAATGCGAAAGTCAAAA
* *
55280 TCACAATGCGAAAGCCAAAA
1 TCGCAATGCGAAAGTCAAAA
*
55300 TCGCAACGCGAAAGTCAA
1 TCGCAATGCGAAAGTCAA
55318 TTCGCGTTGC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.24, G:0.17, T:0.14
Consensus pattern (20 bp):
TCGCAATGCGAAAGTCAAAA
Found at i:55349 original size:20 final size:20
Alignment explanation
Indices: 55307--55486 Score: 179
Period size: 20 Copynumber: 9.7 Consensus size: 20
55297 AAATCGCAAC
*
55307 GCGAAAGTC-AATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
55326 GCGATAGTCTAATACGCTTT
1 GCGATAGTCAAATTCGCGTT
*
55346 GCGAT--T----TTCTCGTT
1 GCGATAGTCAAATTCGCGTT
*
55360 GCGATAGTCAAATTCCCGTT
1 GCGATAGTCAAATTCGCGTT
*
55380 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
55400 GCGATAGTCAAATTCGCATT
1 GCGATAGTCAAATTCGCGTT
55420 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
55440 GCGAT--T----TTTGCGTT
1 GCGATAGTCAAATTCGCGTT
55454 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
55474 GCGATATTCAAAT
1 GCGATAGTCAAAT
55487 GAATGTGTAA
Statistics
Matches: 133, Mismatches: 15, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
14 22 0.17
16 2 0.02
18 2 0.02
19 8 0.06
20 99 0.74
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCGTT
Found at i:55411 original size:40 final size:40
Alignment explanation
Indices: 55307--55486 Score: 179
Period size: 34 Copynumber: 4.8 Consensus size: 40
55297 AAATCGCAAC
* * * *
55307 GCGAAAGTC-AATTCGCGTTGCGATAGTCTAATACGCTTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
* *
55346 GCGAT--T----TTCTCGTTGCGATAGTCAAATTCCCGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
* *
55380 GCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCATT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
*
55420 GCGATAGTCAAATTCGCGTTGCGAT--T----TTTGCGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
*
55454 GCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
55487 GAATGTGTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
34 59 0.50
36 2 0.02
37 1 0.01
38 1 0.01
39 4 0.03
40 50 0.43
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
Found at i:55428 original size:94 final size:93
Alignment explanation
Indices: 55307--55486 Score: 272
Period size: 94 Copynumber: 1.9 Consensus size: 93
55297 AAATCGCAAC
* * *
55307 GCGAAAGTCAATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCT-CGTTGCGATAGTCAA
1 GCGAAAGTCAATTCGCATTGCGATAGTCAAATACGCGTTGCGATTTT-TGCGTTGCGATAGTCAA
55371 ATTCCCGTTGCGATAATCAAATTCGCGTT
65 ATTCCCGTTGCGATAATCAAATTCGCGTT
* *
55400 GCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCAA
1 GCGAAAGTC-AATTCGCATTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTTGCGATAGTCAA
* *
55465 ATTCGCGTTGCGATATTCAAAT
65 ATTCCCGTTGCGATAATCAAAT
55487 GAATGTGTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 9 0.12
94 69 0.88
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (93 bp):
GCGAAAGTCAATTCGCATTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTTGCGATAGTCAAA
TTCCCGTTGCGATAATCAAATTCGCGTT
Found at i:55453 original size:54 final size:56
Alignment explanation
Indices: 55358--55486 Score: 172
Period size: 54 Copynumber: 2.3 Consensus size: 56
55348 GATTTTCTCG
55358 TTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCCCGTTGCGAT-AT---ATTCGCGTTGCGATAGTCAAATTCGCA
* * *
55418 TTGCGATAGTCAAATTCGCGTTGCGAT-T-TTTGCGTTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCCCGTTGCGATATATTCGCGTTGCGATAGTCAAATTCGCA
*
55472 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
55487 GAATGTGTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
54 38 0.58
58 1 0.02
60 26 0.40
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (56 bp):
TTGCGATAGTCAAATTCCCGTTGCGATATATTCGCGTTGCGATAGTCAAATTCGCA
Found at i:55709 original size:140 final size:140
Alignment explanation
Indices: 55457--55739 Score: 566
Period size: 140 Copynumber: 2.0 Consensus size: 140
55447 TTGCGTTGCG
55457 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
55522 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
55587 AATACACATA
131 AATACACATA
55597 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
55662 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
55727 AATACACATA
131 AATACACATA
55737 ATA
1 ATA
55740 CAACGTTTGC
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 143 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:55820 original size:18 final size:18
Alignment explanation
Indices: 55797--55831 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55787 AAGTCGGTTG
*
55797 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
55815 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
55832 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:57886 original size:14 final size:14
Alignment explanation
Indices: 57867--57893 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57857 TCCCGTGGCA
57867 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
57881 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
57894 TTTCTTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:57899 original size:12 final size:13
Alignment explanation
Indices: 57868--57900 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
57858 CCCGTGGCAT
57868 TTTCTTCGGGGAC
1 TTTCTTCGGGGAC
57881 TTTTCTTCGGGGA-
1 -TTTCTTCGGGGAC
57894 TTTCTTC
1 TTTCTTC
57901 TTATTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.06, C:0.21, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTCTTCGGGGAC
Found at i:58119 original size:24 final size:24
Alignment explanation
Indices: 58092--58145 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
58082 TTGAAACATT
*
58092 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
58116 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
58140 ATCAAA
1 ATCAAA
58146 TTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:58988 original size:20 final size:20
Alignment explanation
Indices: 58963--59072 Score: 107
Period size: 20 Copynumber: 5.5 Consensus size: 20
58953 TTGAAATTCA
*
58963 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
**
58983 GCGTTGCGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
59004 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* * *
59024 GCGTTGCGAT-TTACATATTC
1 GCGTTGCGATAGT-CAGAATC
* *
59044 GCATTGCGATAGTCAAAATC
1 GCGTTGCGATAGTCAGAATC
59064 GCGTTGCGA
1 GCGTTGCGA
59073 ATCTGGAAAC
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
19 3 0.04
20 52 0.72
21 15 0.21
22 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:58991 original size:41 final size:39
Alignment explanation
Indices: 58944--59072 Score: 152
Period size: 41 Copynumber: 3.2 Consensus size: 39
58934 ACTAAAACCT
*
58944 GTTGCGAATTTGAAATTCAGCGTTGCGACAGTCAGAATCGC
1 GTTGCG-ATTTGAAATTC-GCGTTGCGATAGTCAGAATCGC
* *
58985 GTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGC
1 GTTGCGATT-TGAAAT-TCGCGTTGCGATAGTCAGAATCGC
* *
59026 GTTGCGATTT-ACATATTCGCATTGCGATAGTCAAAATCGC
1 GTTGCGATTTGA-A-ATTCGCGTTGCGATAGTCAGAATCGC
59066 GTTGCGA
1 GTTGCGA
59073 ATCTGGAAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
40 34 0.44
41 41 0.53
42 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (39 bp):
GTTGCGATTTGAAATTCGCGTTGCGATAGTCAGAATCGC
Found at i:59064 original size:40 final size:41
Alignment explanation
Indices: 58966--59072 Score: 146
Period size: 40 Copynumber: 2.6 Consensus size: 41
58956 AAATTCAGCG
* ** *
58966 TTGCGACAGTCAGAATCGCGTTGCGATTATGTATTATCGCG
1 TTGCGATAGTCAGAATCGCGTTGCGATTACATATTATCGCA
59007 TTGCGATAGTCAGAATCGCGTTGCGATTTACATA-T-TCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGA-TTACATATTATCGCA
*
59047 TTGCGATAGTCAAAATCGCGTTGCGA
1 TTGCGATAGTCAGAATCGCGTTGCGA
59073 ATCTGGAAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
40 29 0.48
41 26 0.43
42 5 0.08
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCGTTGCGATTACATATTATCGCA
Found at i:61049 original size:24 final size:23
Alignment explanation
Indices: 61021--61083 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
61011 ATCATATGAC
61021 AAAAAACGTGTCATAAAGACAGA
1 AAAAAACGTGTCATAAAGACAGA
* *
61044 GAAAAATGTGTCATAAAGACAGA
1 AAAAAACGTGTCATAAAGACAGA
* * *
61067 AGAAGACGTGCCATAAA
1 AAAAAACGTGTCATAAA
61084 AGCATAATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.52, C:0.13, G:0.21, T:0.14
Consensus pattern (23 bp):
AAAAAACGTGTCATAAAGACAGA
Found at i:63327 original size:17 final size:17
Alignment explanation
Indices: 63305--63349 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
63295 GTTCTATTAT
63305 TAATAACATAAATA-AAA
1 TAATAA-ATAAATATAAA
63322 TAATAATATAAATATAAA
1 TAATAA-ATAAATATAAA
63340 T-ATAAATAAA
1 TAATAAATAAA
63350 ATTAATAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 17 0.65
18 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TAATAAATAAATATAAA
Found at i:63335 original size:6 final size:6
Alignment explanation
Indices: 63312--63351 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
63302 TATTAATAAC
63312 ATAAAT A-AAAT A-ATAAT ATAAAT ATAAAT ATAAAT A-AAAT
1 ATAAAT ATAAAT ATA-AAT ATAAAT ATAAAT ATAAAT ATAAAT
63352 TAATAGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.31
6 21 0.66
7 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
ATAAAT
Found at i:63755 original size:25 final size:25
Alignment explanation
Indices: 63727--63894 Score: 288
Period size: 25 Copynumber: 6.8 Consensus size: 25
63717 CATCATCAAT
*
63727 GTGCCACGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
*
63752 GTGCCTTGTAGAAT-TGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
63776 GTGCCTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
63801 GTGCCTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
63826 GTGCCTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
63851 GTGCCTCGTAGAAT-TGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
*
63875 ATGCCTCGTAGAAT-TGCACA
1 GTGCCTCGTAGAATATGCACA
63895 AATAATGCTC
Statistics
Matches: 138, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
24 52 0.38
25 86 0.62
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (25 bp):
GTGCCTCGTAGAATATGCACACAAA
Found at i:63813 original size:74 final size:74
Alignment explanation
Indices: 63727--63894 Score: 286
Period size: 74 Copynumber: 2.3 Consensus size: 74
63717 CATCATCAAT
* *
63727 GTGCCACGTAGAATATGCACACAAAGTGCCTTGTAGAAT-TGCACACAAAGTGCCTCGTAGAATA
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAAT-
63791 TGCACACAAA
65 TGCACACAAA
63801 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATT
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATT
63866 GCACACAAA
66 GCACACAAA
*
63875 ATGCCTCGTAGAAT-TGCACA
1 GTGCCTCGTAGAATATGCACA
63895 AATAATGCTC
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
73 6 0.07
74 60 0.67
75 24 0.27
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (74 bp):
GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATT
GCACACAAA
Found at i:64850 original size:22 final size:23
Alignment explanation
Indices: 64792--64886 Score: 124
Period size: 22 Copynumber: 4.2 Consensus size: 23
64782 AAATGCACTA
*
64792 AAGTGTCA-CGTAAAATTGCACCG
1 AAGTG-CAGCGTAGAATTGCACCG
*
64815 AAGTGCCGCGTAGAATTGCACCG
1 AAGTGCAGCGTAGAATTGCACCG
*
64838 AAGTG-AGCGTAGAATTACACCG
1 AAGTGCAGCGTAGAATTGCACCG
*
64860 AAGTGCA-CGTAGAATTGCACTG
1 AAGTGCAGCGTAGAATTGCACCG
64882 AAGTG
1 AAGTG
64887 TCTTATAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
22 39 0.61
23 25 0.39
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
AAGTGCAGCGTAGAATTGCACCG
Found at i:64936 original size:22 final size:22
Alignment explanation
Indices: 64902--64946 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
64892 TAAAATGTCT
*
64902 ATAAGAACAATATATAAATTCC
1 ATAAGAACAATATACAAATTCC
*
64924 ATAAGAATC-ATATACACATTCC
1 ATAAGAA-CAATATACAAATTCC
64946 A
1 A
64947 AGGACCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (22 bp):
ATAAGAACAATATACAAATTCC
Found at i:65003 original size:20 final size:20
Alignment explanation
Indices: 64975--65013 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64965 CAAAGGACCT
*
64975 CATAAATGTTCCAAAGGATA
1 CATAAATGTCCCAAAGGATA
* *
64995 CATATATGTCCCGAAGGAT
1 CATAAATGTCCCAAAGGAT
65014 CGCGTAGACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
CATAAATGTCCCAAAGGATA
Found at i:71558 original size:23 final size:23
Alignment explanation
Indices: 71532--71581 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
71522 CACCACAGCT
*
71532 CGTAAAAATGCACTGAAGTACCG
1 CGTAAAAATGCACCGAAGTACCG
* * *
71555 CGTAGAATTGCACCGAAGTGCCG
1 CGTAAAAATGCACCGAAGTACCG
71578 CGTA
1 CGTA
71582 GAATTGTACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (23 bp):
CGTAAAAATGCACCGAAGTACCG
Found at i:71582 original size:23 final size:23
Alignment explanation
Indices: 71540--71599 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
71530 CTCGTAAAAA
* *
71540 TGCACTGAAGTACCGCGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAT
71563 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAT
* *
71586 TGTACCAAAGTGCC
1 TGCACCGAAGTGCC
71600 ATATAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCGCGTAGAAT
Found at i:80079 original size:195 final size:193
Alignment explanation
Indices: 79713--80103 Score: 748
Period size: 195 Copynumber: 2.0 Consensus size: 193
79703 GTTAACACTA
79713 CATTGTTTTTAAAGCATAAAGGTAAATATTTATTAGTAGTTCAAATTTATGTTGATGATATAATA
1 CATTGTTTTTAAAGCATAAAGGTAAATATTTATTAGTAGTTCAAATTTATGTTGATGATATAATA
79778 TTTGGCTACTAATGATGTTCTTTGCCAAGAATTTTCTAGCTAATGCAAAGTGAATTCGAGATGAG
66 TTTGGCTACTAATGATGTTCTTTGCCAAGAATTTTCTAGCTAATGCAAAGTGAATTCGAGATGAG
79843 CATGATGGGGGAGCTCTTATTTTTCTTGGGACTCCAAATCAAGCAAAGAAAAGATGA-ATCTT
131 CATGATGGGGGAGCTCTTATTTTTCTTGGGACTCCAAATCAAGCAAAGAAAAGATGACATCTT
79905 CATTGTTTTTAAAGCATAAAGGTAAATATTTATTAGTAGTTCAAATTTATGTTGATGATATAATA
1 CATTGTTTTTAAAGCATAAAGGTAAATATTTATTAGTAGTTCAAATTTATGTTGATGATATAATA
79970 TTTGGTTCTACTAATGATGTTCTTTGCCAAGAATTTTCTAAGCTAATGCAAAGTGAATTCGAGAT
66 TTTGG--CTACTAATGATGTTCTTTGCCAAGAATTTTCT-AGCTAATGCAAAGTGAATTCGAGAT
80035 GAGCATGATGGGGGAGCTCTTATTTTTCTTGGGACTCCAAATCAAGCAAAGAAAAGATGACATCT
128 GAGCATGATGGGGGAGCTCTTATTTTTCTTGGGACTCCAAATCAAGCAAAGAAAAGATGACATCT
80100 T
193 T
80101 CAT
1 CAT
80104 CAATCAAGCT
Statistics
Matches: 195, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
192 70 0.36
194 32 0.16
195 85 0.44
196 8 0.04
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (193 bp):
CATTGTTTTTAAAGCATAAAGGTAAATATTTATTAGTAGTTCAAATTTATGTTGATGATATAATA
TTTGGCTACTAATGATGTTCTTTGCCAAGAATTTTCTAGCTAATGCAAAGTGAATTCGAGATGAG
CATGATGGGGGAGCTCTTATTTTTCTTGGGACTCCAAATCAAGCAAAGAAAAGATGACATCTT
Found at i:81199 original size:23 final size:23
Alignment explanation
Indices: 81157--81218 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
81147 TTGGTGTAGA
* *
81157 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
81179 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
81202 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
81219 GTAGGGGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:81240 original size:21 final size:22
Alignment explanation
Indices: 81157--81239 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 22
81147 TTGGTGTAGA
*
81157 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
*
81179 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
* *
81202 GGGAACCGATTCCCCC-TGTAG
1 GGGAACCGATACCCCCTTGAAG
**
81223 GGGAGTCGATACCCCCT
1 GGGAACCGATACCCCCT
81240 GGGGTTATGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
21 17 0.32
22 14 0.26
23 22 0.42
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:81626 original size:9 final size:10
Alignment explanation
Indices: 81601--81631 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
81591 AAAACATAAG
81601 AATTTTTGAA
1 AATTTTTGAA
81611 AATTTTTGAA
1 AATTTTTGAA
*
81621 AATTTTCGAA
1 AATTTTTGAA
81631 A
1 A
81632 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (10 bp):
AATTTTTGAA
Found at i:82832 original size:18 final size:18
Alignment explanation
Indices: 82811--82848 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
82801 AGAACAGCAC
82811 GAGGAACAAGCTCCACCA
1 GAGGAACAAGCTCCACCA
82829 GAGGAACAAGCTCCACCA
1 GAGGAACAAGCTCCACCA
82847 GA
1 GA
82849 AGATCAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.32, G:0.24, T:0.05
Consensus pattern (18 bp):
GAGGAACAAGCTCCACCA
Found at i:98330 original size:14 final size:14
Alignment explanation
Indices: 98311--98340 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
98301 GTTTTTGTAA
98311 ATTAAGCTTACTGC
1 ATTAAGCTTACTGC
98325 ATTAAGCTTACTGC
1 ATTAAGCTTACTGC
98339 AT
1 AT
98341 GTGCATGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (14 bp):
ATTAAGCTTACTGC
Found at i:116223 original size:42 final size:42
Alignment explanation
Indices: 116170--116251 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
116160 TGGGAATGCT
116170 TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCTTC
1 TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCTTC
*
116212 TGCTGGCCCACTTCCTCTTGACCCACTTGCTTAATCTGCT
1 TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCT
116252 CATCTTCCGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.12, C:0.39, G:0.15, T:0.34
Consensus pattern (42 bp):
TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCTTC
Found at i:117897 original size:104 final size:104
Alignment explanation
Indices: 117717--117931 Score: 430
Period size: 104 Copynumber: 2.1 Consensus size: 104
117707 GTGAATCATA
117717 TAGGATTTGAAGAATCTGTAATCTTAATGATCCAGTAGCTCCAATATAAACTTTGCCTTTGAATC
1 TAGGATTTGAAGAATCTGTAATCTTAATGATCCAGTAGCTCCAATATAAACTTTGCCTTTGAATC
117782 TAAGAATACCCTTAGAATATGTCCACCTAGGGTCAGCAG
66 TAAGAATACCCTTAGAATATGTCCACCTAGGGTCAGCAG
117821 TAGGATTTGAAGAATCTGTAATCTTAATGATCCAGTAGCTCCAATATAAACTTTGCCTTTGAATC
1 TAGGATTTGAAGAATCTGTAATCTTAATGATCCAGTAGCTCCAATATAAACTTTGCCTTTGAATC
117886 TAAGAATACCCTTAGAATATGTCCACCTAGGGTCAGCAG
66 TAAGAATACCCTTAGAATATGTCCACCTAGGGTCAGCAG
117925 TAGGATT
1 TAGGATT
117932 GACTGGTAAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 111 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (104 bp):
TAGGATTTGAAGAATCTGTAATCTTAATGATCCAGTAGCTCCAATATAAACTTTGCCTTTGAATC
TAAGAATACCCTTAGAATATGTCCACCTAGGGTCAGCAG
Found at i:121582 original size:42 final size:42
Alignment explanation
Indices: 121523--121607 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
121513 TGGGAATGCT
121523 TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCTCC
1 TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCTCC
*
121565 TGCTGGCCCACTTCCTCTTTACCCACTTGCTCAATCTGCTCC
1 TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCTCC
121607 T
1 T
121608 CTTCCGAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.12, C:0.42, G:0.13, T:0.33
Consensus pattern (42 bp):
TGCTGGCCCACTTCCTCTTGACCCACTTGCTCAATCTGCTCC
Found at i:124176 original size:21 final size:21
Alignment explanation
Indices: 124150--124242 Score: 89
Period size: 21 Copynumber: 4.5 Consensus size: 21
124140 CCATTTCGCA
*
124150 TTGCGATAGTTGAAAACCGTG
1 TTGCGATAGTTGAAAACCGCG
*
124171 TTGCGATAGTTGAAAATCGCG
1 TTGCGATAGTTGAAAACCGCG
* ** ***
124192 TTGCGAT-TTTCCATTTCGCG
1 TTGCGATAGTTGAAAACCGCG
* *
124212 TTGTGATAGTTGAAAATCGCG
1 TTGCGATAGTTGAAAACCGCG
124233 TTGCGATAGT
1 TTGCGATAGT
124243 CTACAATGTC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 14 0.25
21 43 0.75
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (21 bp):
TTGCGATAGTTGAAAACCGCG
Found at i:124199 original size:62 final size:62
Alignment explanation
Indices: 124125--124242 Score: 200
Period size: 62 Copynumber: 1.9 Consensus size: 62
124115 GCGTTGCATT
*
124125 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAACCGTGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAACCGCGTTGCGATAGTTGAAAA
* * *
124187 TCGCGTTGCGATTTTCCATTTCGCGTTGTGATAGTTGAAAATCGCGTTGCGATAGT
1 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAACCGCGTTGCGATAGT
124243 CTACAATGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (62 bp):
TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAACCGCGTTGCGATAGTTGAAAA
Found at i:124488 original size:21 final size:21
Alignment explanation
Indices: 124415--124480 Score: 123
Period size: 21 Copynumber: 3.1 Consensus size: 21
124405 ACCACGACCA
124415 CGATTTTCAACTATCGCAACG
1 CGATTTTCAACTATCGCAACG
*
124436 CGGTTTTCAACTATCGCAACG
1 CGATTTTCAACTATCGCAACG
124457 CGATTTTCAACTATCGCAACG
1 CGATTTTCAACTATCGCAACG
124478 CGA
1 CGA
124481 AATGCAACGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (21 bp):
CGATTTTCAACTATCGCAACG
Found at i:124915 original size:6 final size:6
Alignment explanation
Indices: 124905--124955 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
124895 TCTCGTCTTG
*
124905 GGTCGG GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
124953 GGT
1 GGT
124956 AATACGTGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:125083 original size:22 final size:22
Alignment explanation
Indices: 125056--125149 Score: 122
Period size: 22 Copynumber: 4.4 Consensus size: 22
125046 AATTTGAAAA
125056 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
125078 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
125100 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
125119 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
125141 ATCGCAACG
1 ATCGCAACG
125150 CGATTTTCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 13 0.22
20 2 0.03
21 2 0.03
22 42 0.71
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:125164 original size:21 final size:21
Alignment explanation
Indices: 125138--125235 Score: 135
Period size: 21 Copynumber: 4.7 Consensus size: 21
125128 ACAACTGTAG
125138 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
*
125159 ACTATCGCAACGTGATTTTCA
1 ACTATCGCAACGCGATTTTCA
** **
125180 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
*
125201 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
125221 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
125236 ATTTGCGATA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.23
21 49 0.77
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:127106 original size:32 final size:32
Alignment explanation
Indices: 127065--127130 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
127055 GTAATGGAAC
127065 TGCATCGTTAAAACAAAAACACTTTGTCTTAT
1 TGCATCGTTAAAACAAAAACACTTTGTCTTAT
127097 TGCATCGTTAAAACAAAAACACTTTGTCTTAT
1 TGCATCGTTAAAACAAAAACACTTTGTCTTAT
127129 TG
1 TG
127131 TGCTATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TGCATCGTTAAAACAAAAACACTTTGTCTTAT
Found at i:129481 original size:3 final size:3
Alignment explanation
Indices: 129473--129575 Score: 145
Period size: 3 Copynumber: 34.7 Consensus size: 3
129463 TTAATATATT
* * *
129473 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA AAA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
129520 TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
129568 TAA TAA TA
1 TAA TAA TA
129576 TGGATAAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 85 0.98
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:130084 original size:119 final size:118
Alignment explanation
Indices: 129730--130462 Score: 1254
Period size: 119 Copynumber: 6.2 Consensus size: 118
129720 TTCTCCAGAT
* ** * *
129730 GAGTTCTTCTCATTACGAA--CTTTCTGCTGGGGATGATGTTCCATCAAATGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTTCT-CTGGAAATGATGATCCATCAAGTGATGAATTCAAGCA
*
129793 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
129847 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
*
129912 AATGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
129965 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATG-ATGATCCATCAAGTGATGAATTCAAGCA
130030 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
130084 GAGTTCTTCTCATTATGACCTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
*
130149 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAT
66 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
130202 GAGTTCTTCTCATTATGACCTCTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAA-GTGATGAATTCAAGCA
130267 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
130321 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATG-ATGATCCATCAAGTGATGAATTCAAGCA
* *
130386 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAT
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
130440 GAGTTCTTTTCATTATGAACTCT
1 GAGTTCTTCTCATTATGAACTCT
130463 AACTGGAAAA
Statistics
Matches: 588, Mismatches: 23, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
117 18 0.03
118 248 0.42
119 310 0.53
120 12 0.02
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (118 bp):
GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:130184 original size:237 final size:235
Alignment explanation
Indices: 129727--130491 Score: 1282
Period size: 237 Copynumber: 3.2 Consensus size: 235
129717 TTTTTCTCCA
* ** * *
129727 GATGAGTTCTTCTCATTACGAACT-TTCTGCTGGGGATGATGTTCCATCAAATGATGAATTCAAG
1 GATGAGTTCTTCTCATTATGAACTCTTCT-CTGGAAAAGATGATCCATCAAATGATGAATTCAAG
*
129791 CAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
65 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
*
129856 TCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAAAATGTTGAA
130 TCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAA
129921 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
195 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* *
129962 GACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAA
1 GATGAGTTCTTCTCATTATGAACTCTT-CTCTGGAAAAG-ATGATCCATCAAATGATGAATTCAA
130027 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
64 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
*
130092 CTCATTATGACCTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGA
129 CTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGA
130157 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
194 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * *
130199 GATGAGTTCTTCTCATTATGACCTCTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAA
1 GATGAGTTCTTCTCATTATGAACTC-TTCTCTGGAAAAGATGATCCATCAA-ATGATGAATTCAA
130264 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
64 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
* * *
130329 CTCATTATGAACTCTTCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGATTG
129 CTCATTATGAACTCTTTCTCTGGAAATG-ATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTG
130394 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
193 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* ** *
130437 GATGAGTTCTTTTCATTATGAACTC-TAACTGGAAAAGCTGATCCATCAAATGATG
1 GATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGATGATCCATCAAATGATG
130492 GATTTGAGTC
Statistics
Matches: 499, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
235 27 0.05
236 40 0.08
237 329 0.66
238 103 0.21
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (235 bp):
GATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGC
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
CATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAAC
AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:131201 original size:52 final size:52
Alignment explanation
Indices: 131133--131690 Score: 1028
Period size: 52 Copynumber: 10.7 Consensus size: 52
131123 ATTCTGTCCA
*
131133 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
131185 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
131237 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
* *
131289 ATTAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
131341 ATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
131393 ATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
131445 ATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
131497 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
131549 ATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGAT-CAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCAG
131601 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
131653 ATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
131691 AGCACATTCA
Statistics
Matches: 496, Mismatches: 8, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
51 1 0.00
52 494 1.00
53 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:132859 original size:13 final size:12
Alignment explanation
Indices: 132841--132877 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
132831 TTGACCCCCC
*
132841 TTTTTTCTCTTT
1 TTTTTTTTCTTT
132853 TTTTTTTTCTTCT
1 TTTTTTTTCTT-T
132866 TTTTTTTTCTTT
1 TTTTTTTTCTTT
132878 AAGCATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:132860 original size:14 final size:15
Alignment explanation
Indices: 132841--132873 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
132831 TTGACCCCCC
132841 TTTTTTC-TCTTTTT
1 TTTTTTCTTCTTTTT
132855 TTTTTTCTTCTTTTT
1 TTTTTTCTTCTTTTT
132870 TTTT
1 TTTT
132874 CTTTAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTCTTCTTTTT
Found at i:152577 original size:29 final size:29
Alignment explanation
Indices: 152545--152637 Score: 107
Period size: 29 Copynumber: 3.1 Consensus size: 29
152535 TCTCACTCGC
152545 AATTGATCCTCAAACTTTTGAATATTTCA
1 AATTGATCCTCAAACTTTTGAATATTTCA
* * * * *
152574 AATTAATCTTCAAAC-TATGACTCTCATTCTA
1 AATTGATCCTCAAACTTTTGAATAT--TTC-A
152605 AATTGATCCTCAAACTTTTGAATATTTCA
1 AATTGATCCTCAAACTTTTGAATATTTCA
152634 AATT
1 AATT
152638 AATCTCCAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
28 6 0.12
29 18 0.36
30 6 0.12
31 14 0.28
32 6 0.12
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.41
Consensus pattern (29 bp):
AATTGATCCTCAAACTTTTGAATATTTCA
Found at i:152599 original size:60 final size:60
Alignment explanation
Indices: 152500--152688 Score: 270
Period size: 60 Copynumber: 3.1 Consensus size: 60
152490 AGTCCCTAGA
* * * * * * **
152500 TTTTTAATATTTCAATTTAATCTCCTAATTATAATTCTCACTCGCAATTGATCCTCAAAC
1 TTTTGAATATTTCAAATTAATCTCCAAATTATGACTCTCATTCTAAATTGATCCTCAAAC
* *
152560 TTTTGAATATTTCAAATTAATCTTCAAACTATGACTCTCATTCTAAATTGATCCTCAAAC
1 TTTTGAATATTTCAAATTAATCTCCAAATTATGACTCTCATTCTAAATTGATCCTCAAAC
152620 TTTTGAATATTTCAAATTAATCTCCAAATTATGACTCTCATTCTAAATTGATCCTCAAAC
1 TTTTGAATATTTCAAATTAATCTCCAAATTATGACTCTCATTCTAAATTGATCCTCAAAC
* *
152680 ATTTAAATA
1 TTTTGAATA
152689 CTCCAATAAT
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 115 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (60 bp):
TTTTGAATATTTCAAATTAATCTCCAAATTATGACTCTCATTCTAAATTGATCCTCAAAC
Found at i:152618 original size:31 final size:31
Alignment explanation
Indices: 152573--152679 Score: 105
Period size: 31 Copynumber: 3.5 Consensus size: 31
152563 TGAATATTTC
*
152573 AAATTAATCTTCAAACTATGACTCTCATTCT
1 AAATTAATCCTCAAACTATGACTCTCATTCT
* * * *
152604 AAATTGATCCTCAAACTTTTGAATAT--TTC-
1 AAATTAATCCTCAAAC-TATGACTCTCATTCT
*
152633 AAATTAAT-CTCCAAATTATGACTCTCATTCT
1 AAATTAATCCT-CAAACTATGACTCTCATTCT
*
152664 AAATTGATCCTCAAAC
1 AAATTAATCCTCAAAC
152680 ATTTAAATAC
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
28 8 0.14
29 11 0.19
30 6 0.10
31 25 0.43
32 8 0.14
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.37
Consensus pattern (31 bp):
AAATTAATCCTCAAACTATGACTCTCATTCT
Found at i:152647 original size:29 final size:29
Alignment explanation
Indices: 152555--152647 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
152545 AATTGATCCT
*
152555 CAAACTTTTGAATATTTCAAATTAATCTT
1 CAAACTTTTGAATATTTCAAATTAATCTC
* * * *
152584 CAAAC-TATGACTCTCATTCTAAATTGATC-C
1 CAAACTTTTGAATAT--TTC-AAATTAATCTC
152614 TCAAACTTTTGAATATTTCAAATTAATCTC
1 -CAAACTTTTGAATATTTCAAATTAATCTC
152644 CAAA
1 CAAA
152648 TTATGACTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 6 0.12
29 17 0.35
30 7 0.14
31 13 0.27
32 6 0.12
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (29 bp):
CAAACTTTTGAATATTTCAAATTAATCTC
Found at i:155269 original size:19 final size:20
Alignment explanation
Indices: 155245--155285 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
155235 AAGTTGATTA
155245 AAATTTATATTTT-T-TACGT
1 AAATTTAT-TTTTATCTACGT
155264 AAATTTATTTTTATCTACGT
1 AAATTTATTTTTATCTACGT
155284 AA
1 AA
155286 TTAAGGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 9 0.45
20 7 0.35
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (20 bp):
AAATTTATTTTTATCTACGT
Found at i:165080 original size:19 final size:19
Alignment explanation
Indices: 165023--165083 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
165013 TCCTAAAAAA
165023 TATTAATAAATAAATAAAT
1 TATTAATAAATAAATAAAT
* * *
165042 TATTAGAT-TATCAATGAAT
1 TATTA-ATAAATAAATAAAT
*
165061 TATTAATAAATTAATAAAT
1 TATTAATAAATAAATAAAT
165080 TATT
1 TATT
165084 TTAAAGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 2 0.06
19 30 0.88
20 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
TATTAATAAATAAATAAAT
Found at i:166084 original size:12 final size:12
Alignment explanation
Indices: 166067--166096 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
166057 CGAAAATGTT
166067 ACATTTTTCATA
1 ACATTTTTCATA
166079 ACA-TTTTCATA
1 ACATTTTTCATA
166090 ACATTTT
1 ACATTTT
166097 CAGTTGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (12 bp):
ACATTTTTCATA
Found at i:166087 original size:11 final size:11
Alignment explanation
Indices: 166071--166098 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
166061 AATGTTACAT
166071 TTTTCATAACA
1 TTTTCATAACA
166082 TTTTCATAACA
1 TTTTCATAACA
166093 TTTTCA
1 TTTTCA
166099 GTTGAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTTCATAACA
Found at i:167256 original size:24 final size:22
Alignment explanation
Indices: 167220--167264 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
167210 TTATTGGATT
167220 TGACACTACTTTGATTGATCATGA
1 TGACACTACTTTG-TT-ATCATGA
167244 TGACACTTA-TTTGTTATCATG
1 TGACAC-TACTTTGTTATCATG
167265 CTGATCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.30
23 2 0.10
24 10 0.50
25 2 0.10
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (22 bp):
TGACACTACTTTGTTATCATGA
Found at i:168446 original size:84 final size:82
Alignment explanation
Indices: 168354--168584 Score: 294
Period size: 77 Copynumber: 2.8 Consensus size: 82
168344 CAAATCAAAG
* * *
168354 CTTAAATTAGGAAAATAAGTGGGAAACAAATAGTATAATGATTACATATATTATTATCATCAATA
1 CTTAAATTAGGAAAATAAGTGGGAAACAAATAATATAATAATT-C-TATATTATTATAATCAATA
168419 AAAAAATAAACCACTATAA
64 AAAAAATAAACCACTATAA
* * *
168438 CTTAAATTAAGG-AAATAAGTGGG-AA-AAATATTATAATAATTTTATA-TA-TATTAT-AATAA
1 CTTAAATT-AGGAAAATAAGTGGGAAACAAATAATATAATAATTCTATATTATTATAATCAATAA
* *
168497 AAAATTAAACCACTATAG
65 AAAAATAAACCACTATAA
* *
168515 CTTAAATTAAGAAAATAAGTGAGAAACAAATAATATAATAATTCTATATCTATTATAATCAATAA
1 CTTAAATTAGGAAAATAAGTGGGAAACAAATAATATAATAATTCTATAT-TATTATAATCAATAA
168580 AAAAA
65 AAAAA
168585 CTATTATATC
Statistics
Matches: 127, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
76 2 0.02
77 39 0.31
78 7 0.06
79 21 0.17
80 4 0.03
81 2 0.02
82 19 0.15
83 11 0.09
84 19 0.15
85 3 0.02
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (82 bp):
CTTAAATTAGGAAAATAAGTGGGAAACAAATAATATAATAATTCTATATTATTATAATCAATAAA
AAAATAAACCACTATAA
Found at i:168509 original size:77 final size:78
Alignment explanation
Indices: 168354--168600 Score: 257
Period size: 79 Copynumber: 3.1 Consensus size: 78
168344 CAAATCAAAG
* * *
168354 CTTAAATT-AGGAAAATAAGTGGGAAACAAATAGTATAATGATTACATATATTATTATCATCAAT
1 CTTAAATTAAGG-AAATAAGTGGG-AACAAATAATATAATAATT--ATATA-TA-TATTAT-AAT
168418 AAAAAAATAAACCACTATAA
59 AAAAAAATAAACCACTATAA
* * *
168438 CTTAAATTAAGGAAATAAGTGGGAA-AAATATTATAATAATTTTATATATATTATAATAAAAAAT
1 CTTAAATTAAGGAAATAAGTGGGAACAAATAATATAATAATTATATATATATTATAATAAAAAAA
*
168502 TAAACCACTATAG
66 TAAACCACTATAA
* * * * *
168515 CTTAAATTAAGAAAATAAGTGAGAAACAAATAATATAATAATTCTATATCTATTATAATCAATAA
1 CTTAAATTAAGGAAATAAGTG-GGAACAAATAATATAATAATTATATATATATTATAAT-AAAAA
* * *
168580 AA-AAACTATTATAT
64 AATAAACCACTATAA
168594 CTTAAAT
1 CTTAAAT
168601 AAACAAGAGT
Statistics
Matches: 143, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
77 41 0.29
78 8 0.06
79 47 0.33
80 9 0.06
82 14 0.10
83 2 0.01
84 19 0.13
85 3 0.02
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (78 bp):
CTTAAATTAAGGAAATAAGTGGGAACAAATAATATAATAATTATATATATATTATAATAAAAAAA
TAAACCACTATAA
Found at i:171316 original size:3 final size:3
Alignment explanation
Indices: 171308--171359 Score: 86
Period size: 3 Copynumber: 16.7 Consensus size: 3
171298 AGTAATCTTA
171308 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AACTT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT
171355 AAT AA
1 AAT AA
171360 CGGGATGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 44 0.94
5 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:171687 original size:111 final size:111
Alignment explanation
Indices: 171484--171913 Score: 630
Period size: 111 Copynumber: 3.9 Consensus size: 111
171474 TAAATGATCA
* * * * *
171484 GTTCCACTGTCACTCAAGGAATATCAAATCTGGGGATGAGAGG-GATTTGTTCCGCTTCTTCTAA
1 GTTCCGCTGTCACTCAAGGAATATCAAATCTTGGAAT-AG-GGTGATCTGTTCCACTTCTTCT-A
* * *
171548 AGGGAATATCAGATATGGGGGAGTTGATCCATTGAATTGAGGTAGACTT
63 AGGGAATATCAGATCTGGAGGAGTTGATCCATTGAATCGAGGTAGACTT
* *
171597 GTTCCGCTGTTACTCAAGGAATATCAAATCTTGGAATAGGGTGATCTGCTCCACTTCTTCTAAGG
1 GTTCCGCTGTCACTCAAGGAATATCAAATCTTGGAATAGGGTGATCTGTTCCACTTCTTCTAAGG
171662 GAATATCAGATCTGGAGGAGTTGATCCATTGAATCGAGGTAGACTT
66 GAATATCAGATCTGGAGGAGTTGATCCATTGAATCGAGGTAGACTT
* * * *
171708 ATTCTGCTGTCACTCAGGGAATATCAAATCTTGGAATAGGGTGATTTGTTCCACTTCTTCTAAGG
1 GTTCCGCTGTCACTCAAGGAATATCAAATCTTGGAATAGGGTGATCTGTTCCACTTCTTCTAAGG
* *
171773 GAATATCAGATTTGGAGGAGTTAATCCATTGAATCG-GTGTAGACTT
66 GAATATCAGATCTGGAGGAGTTGATCCATTGAATCGAG-GTAGACTT
* * * *
171819 GTTCCGCTGTTACTCAGGGAATATCAAATCTTGGAATATGGTGATCTGTTCCACTTCTTCTAAGA
1 GTTCCGCTGTCACTCAAGGAATATCAAATCTTGGAATAGGGTGATCTGTTCCACTTCTTCTAAGG
171884 GAATATCAGATCTGGAGGAGTTGATCCATT
66 GAATATCAGATCTGGAGGAGTTGATCCATT
171914 CCGCTGTCAC
Statistics
Matches: 289, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
110 1 0.00
111 237 0.82
112 18 0.06
113 33 0.11
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (111 bp):
GTTCCGCTGTCACTCAAGGAATATCAAATCTTGGAATAGGGTGATCTGTTCCACTTCTTCTAAGG
GAATATCAGATCTGGAGGAGTTGATCCATTGAATCGAGGTAGACTT
Found at i:171878 original size:222 final size:224
Alignment explanation
Indices: 171490--171913 Score: 694
Period size: 222 Copynumber: 1.9 Consensus size: 224
171480 ATCAGTTCCA
* *
171490 CTGTCACTCAAGGAATATCAAATCTGGGGATGAGAGGGATTTGTTCCGCTTCTTCTAAAGGGAAT
1 CTGTCACTCAAGGAATATCAAATCTGGGAATGAGAGGGATTTGTTCCACTTCTTCTAAAGGGAAT
* * *
171555 ATCAGATATGGGGGAGTTGATCCATTGAATTGAGGTAGACTTGTTCCGCTGTTACTCAAGGAATA
66 ATCAGATATGGAGGAGTTAATCCATTGAATCGAGGTAGACTTGTTCCGCTGTTACTCAAGGAATA
*
171620 TCAAATCTTGGAATAGGGTGATCTGCTCCACTTCTTCTAAGGGAATATCAGATCTGGAGGAGTTG
131 TCAAATCTTGGAATAGGGTGATCTGCTCCACTTCTTCTAAGAGAATATCAGATCTGGAGGAGTTG
171685 ATCCATTGAATCGAGGTAGACTTATTCTG
196 ATCCATTGAATCGAGGTAGACTTATTCTG
* *
171714 CTGTCACTCAGGGAATATCAAATCTTGGAAT-AG-GGTGATTTGTTCCACTTCTTCT-AAGGGAA
1 CTGTCACTCAAGGAATATCAAATCTGGGAATGAGAGG-GATTTGTTCCACTTCTTCTAAAGGGAA
* *
171776 TATCAGATTTGGAGGAGTTAATCCATTGAATCG-GTGTAGACTTGTTCCGCTGTTACTCAGGGAA
65 TATCAGATATGGAGGAGTTAATCCATTGAATCGAG-GTAGACTTGTTCCGCTGTTACTCAAGGAA
* *
171840 TATCAAATCTTGGAATATGGTGATCTGTTCCACTTCTTCTAAGAGAATATCAGATCTGGAGGAGT
129 TATCAAATCTTGGAATAGGGTGATCTGCTCCACTTCTTCTAAGAGAATATCAGATCTGGAGGAGT
171905 TGATCCATT
194 TGATCCATT
171914 CCGCTGTCAC
Statistics
Matches: 186, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
221 1 0.01
222 137 0.74
223 20 0.11
224 28 0.15
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (224 bp):
CTGTCACTCAAGGAATATCAAATCTGGGAATGAGAGGGATTTGTTCCACTTCTTCTAAAGGGAAT
ATCAGATATGGAGGAGTTAATCCATTGAATCGAGGTAGACTTGTTCCGCTGTTACTCAAGGAATA
TCAAATCTTGGAATAGGGTGATCTGCTCCACTTCTTCTAAGAGAATATCAGATCTGGAGGAGTTG
ATCCATTGAATCGAGGTAGACTTATTCTG
Found at i:178779 original size:32 final size:32
Alignment explanation
Indices: 178730--178799 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
178720 CGTGCCCCAC
*
178730 ATGG-TGACAAATGTAGTTTTTTCCATATCAT
1 ATGGATGAAAAATGTAGTTTTTTCCATATCAT
*
178761 CTGGATGAAAAATGTAGTTTTTTCCATATCAT
1 ATGGATGAAAAATGTAGTTTTTTCCATATCAT
178793 ATGGATG
1 ATGGATG
178800 CATCTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (32 bp):
ATGGATGAAAAATGTAGTTTTTTCCATATCAT
Found at i:189281 original size:23 final size:23
Alignment explanation
Indices: 189248--189314 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
189238 GAGTCGAGGG
* *
189248 TCTACGCGGTCCTACGGGACAAT
1 TCTACGTGGTCCTTCGGGACAAT
189271 TCTACGTGGTCCTTCGGGACAAT
1 TCTACGTGGTCCTTCGGGACAAT
189294 TCTACGTGGTCCTTCGGGACA
1 TCTACGTGGTCCTTCGGGACA
189315 TATATATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (23 bp):
TCTACGTGGTCCTTCGGGACAAT
Found at i:189434 original size:26 final size:26
Alignment explanation
Indices: 189398--189466 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
189388 TCTTATGGAG
189398 TGGTCCTTCGGGACATATGTGATATA
1 TGGTCCTTCGGGACATATGTGATATA
*
189424 TGGTCCTTCGGGACATATGTGATATG
1 TGGTCCTTCGGGACATATGTGATATA
189450 TGGTCCTTCGGGACATA
1 TGGTCCTTCGGGACATA
189467 GTGGTCATTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.33
Consensus pattern (26 bp):
TGGTCCTTCGGGACATATGTGATATA
Found at i:190300 original size:22 final size:21
Alignment explanation
Indices: 190261--190301 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
190251 GAAAGTACTA
*
190261 TAGCAGGGTATCGATTCCCTG
1 TAGCAGGGAATCGATTCCCTG
*
190282 TAGCAGGGGAATCGGTTCCC
1 TAGCA-GGGAATCGATTCCC
190302 CTATTACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (21 bp):
TAGCAGGGAATCGATTCCCTG
Found at i:191303 original size:26 final size:26
Alignment explanation
Indices: 191251--191299 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
191241 TAAAAGTTAA
* *
191251 TATATTTTTTTAAAATATATGAAATT
1 TATAATTTTTTAAAATATATAAAATT
191277 TATAATTTTTT-AAAT-TATAAAAT
1 TATAATTTTTTAAAATATATAAAAT
191300 ATTTCTTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TATAATTTTTTAAAATATATAAAATT
Found at i:203098 original size:8 final size:8
Alignment explanation
Indices: 203085--203125 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
203075 CTCATTTTCA
203085 GAGAATTT
1 GAGAATTT
203093 GAGAATTT
1 GAGAATTT
*
203101 -AGAGTTT
1 GAGAATTT
*
203108 GGGAATTT
1 GAGAATTT
203116 GAGAATTT
1 GAGAATTT
203124 GA
1 GA
203126 AAGTTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:203117 original size:23 final size:24
Alignment explanation
Indices: 203087--203132 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
203077 CATTTTCAGA
*
203087 GAATTTGAGAATTT-AGAGTTTGG
1 GAATTTGAGAATTTGAAAGTTTGG
203110 GAATTTGAGAATTTGAAAGTTTG
1 GAATTTGAGAATTTGAAAGTTTG
203133 TGAACTGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (24 bp):
GAATTTGAGAATTTGAAAGTTTGG
Found at i:203421 original size:128 final size:128
Alignment explanation
Indices: 203196--203623 Score: 790
Period size: 128 Copynumber: 3.4 Consensus size: 128
203186 TAATCGGAGT
*
203196 ACTATTTACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA--TT-TCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
203258 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
203321 ACTATTCACATGAAGGCGTGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
203386 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
203449 ACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
203514 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTATCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
203577 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
203624 CTCAGCGACT
Statistics
Matches: 292, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
125 42 0.14
127 2 0.01
128 248 0.85
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:204535 original size:20 final size:20
Alignment explanation
Indices: 204484--204537 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
204474 GAAAATATTC
*
204484 ATTTTAAATAATAAAATTAAT
1 ATTTTAAATAA-AAAAATAAT
*
204505 A-TTTACGATAAAAAAATAAT
1 ATTTTA-AATAAAAAAATAAT
204525 ATTTTAAATAAAA
1 ATTTTAAATAAAA
204538 TTCTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTTTAAATAAAAAAATAAT
Found at i:208433 original size:8 final size:8
Alignment explanation
Indices: 208420--208460 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
208410 CTCATTTTCA
208420 GAGAATTT
1 GAGAATTT
208428 GAGAATTT
1 GAGAATTT
*
208436 -AGAGTTT
1 GAGAATTT
*
208443 GGGAATTT
1 GAGAATTT
208451 GAGAATTT
1 GAGAATTT
208459 GA
1 GA
208461 AAGTTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:208452 original size:23 final size:24
Alignment explanation
Indices: 208422--208467 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
208412 CATTTTCAGA
*
208422 GAATTTGAGAATTT-AGAGTTTGG
1 GAATTTGAGAATTTGAAAGTTTGG
208445 GAATTTGAGAATTTGAAAGTTTG
1 GAATTTGAGAATTTGAAAGTTTG
208468 TGAACTGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (24 bp):
GAATTTGAGAATTTGAAAGTTTGG
Found at i:208756 original size:128 final size:128
Alignment explanation
Indices: 208531--209156 Score: 1064
Period size: 128 Copynumber: 4.9 Consensus size: 128
208521 TAATCGGAGT
*
208531 ACTATTTACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA--TT-TCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
208593 CATTGCCCTATTATGTCACTTATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
208656 ACTATTCACATGAAGGCGTGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
208721 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
208784 ACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
208849 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTATCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
208912 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
* *
208977 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTA-TTCATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATCAGTACCTATTATTTC
* *** * *
209040 TC-AGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTA
*
209104 TCATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
209157 AATCAGGTAA
Statistics
Matches: 476, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
125 42 0.09
127 4 0.01
128 429 0.90
129 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:209595 original size:34 final size:34
Alignment explanation
Indices: 209557--209657 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
209547 AAATTTAATG
*
209557 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
209591 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
209625 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
209658 AACATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:210207 original size:21 final size:20
Alignment explanation
Indices: 210180--210270 Score: 101
Period size: 21 Copynumber: 4.3 Consensus size: 20
210170 GGTATAAAAC
*
210180 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
*
210200 CCTGGCGGGCTAGGAAAGTAA
1 CCT-GCGGGCTAGGAATGTAA
* *
210221 CCCTGCAGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
*
210242 CCATGCGGGCTCGGAATGTAA
1 CC-TGCGGGCTAGGAATGTAA
210263 CCCTGCGG
1 -CCTGCGG
210271 AGATGGCATA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
20 5 0.08
21 51 0.84
22 5 0.08
ACGTcount: A:0.22, C:0.26, G:0.34, T:0.18
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:210240 original size:42 final size:42
Alignment explanation
Indices: 210177--210268 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
210167 TATGGTATAA
* *
210177 AACCCTGCGGGCTAGGCATGTAACC-TGGCGGGCTAGGAAAGT
1 AACCCTGCAGGCTAGGAATGTAACCAT-GCGGGCTAGGAAAGT
* * *
210219 AACCCTGCAGGCTCGGAATGTAACCATGCGGGCTCGGAATGT
1 AACCCTGCAGGCTAGGAATGTAACCATGCGGGCTAGGAAAGT
210261 AACCCTGC
1 AACCCTGC
210269 GGAGATGGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.32, T:0.17
Consensus pattern (42 bp):
AACCCTGCAGGCTAGGAATGTAACCATGCGGGCTAGGAAAGT
Found at i:210300 original size:21 final size:21
Alignment explanation
Indices: 210274--210321 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
210264 CCTGCGGAGA
*
210274 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
210295 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
210316 GGGCAT
1 TGGCAT
210322 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:212088 original size:34 final size:31
Alignment explanation
Indices: 212045--212133 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
212035 TTAATAATTC
*
212045 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
212079 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
212110 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
212134 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:212090 original size:31 final size:33
Alignment explanation
Indices: 212048--212122 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
212038 ATAATTCTAA
* * *
212048 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
212080 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
212111 ATAAAAAATAAT
1 ATAAAAAATAAT
212123 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:214119 original size:2 final size:2
Alignment explanation
Indices: 214114--214187 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
214104 ACACACACAC
214114 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
214156 AT AT AT 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 AT AT AT
214188 GTATTAATAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:225763 original size:27 final size:27
Alignment explanation
Indices: 225725--225790 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
225715 TTTGAAGAAA
225725 ATCAGTGTTTGTATTTCTTGCTCAAGG
1 ATCAGTGTTTGTATTTCTTGCTCAAGG
225752 ATCAGTGTTTGTATTTCTTGCTCAAGG
1 ATCAGTGTTTGTATTTCTTGCTCAAGG
225779 ATCAGTGTTTGT
1 ATCAGTGTTTGT
225791 TAGCTGAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.18, C:0.14, G:0.23, T:0.45
Consensus pattern (27 bp):
ATCAGTGTTTGTATTTCTTGCTCAAGG
Found at i:234079 original size:15 final size:15
Alignment explanation
Indices: 234059--234093 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
234049 ATGATTCTAC
234059 GACCTCAGCTTGCTG
1 GACCTCAGCTTGCTG
234074 GACCTCAGCTTGCTG
1 GACCTCAGCTTGCTG
234089 GACCT
1 GACCT
234094 GTGACTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.26
Consensus pattern (15 bp):
GACCTCAGCTTGCTG
Found at i:239829 original size:20 final size:20
Alignment explanation
Indices: 239779--239831 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
239769 TTTTCCTAAT
*
239779 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
239799 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
239819 TCGCAACGCGAAT
1 TCGCAATGCGAAT
239832 CTGACTATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:239841 original size:20 final size:20
Alignment explanation
Indices: 239818--239904 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
239808 GAATATGTAA
* *
239818 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
239838 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
239858 ATCGCAATGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
239878 ATCGCAACGCGATTCTAACT
1 ATCGCAACGAGATTCTGACT
239898 ATCGCAA
1 ATCGCAA
239905 TATTGAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:240797 original size:24 final size:24
Alignment explanation
Indices: 240746--240799 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
240736 GTATTCAAAA
*
240746 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* * *
240770 TTTGATCTTGGTCGATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
240794 TTTGAT
1 TTTGAT
240800 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:243236 original size:20 final size:21
Alignment explanation
Indices: 243211--243284 Score: 109
Period size: 20 Copynumber: 3.7 Consensus size: 21
243201 GACATTCATT
243211 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCAGAATA
* *
243231 TGACTATCGCAACACGGAA-A
1 TGACTATCGCAACGCAGAATA
243251 TGACTATCGCAACGCAGAAT-
1 TGACTATCGCAACGCAGAATA
243271 TGACTATCGCAACG
1 TGACTATCGCAACG
243285 AGAGAATCGC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 46 0.94
21 3 0.06
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (21 bp):
TGACTATCGCAACGCAGAATA
Found at i:243402 original size:20 final size:20
Alignment explanation
Indices: 243328--243392 Score: 130
Period size: 20 Copynumber: 3.2 Consensus size: 20
243318 GCAAATTTAG
243328 TTTCGCGTTGTGATTTTCAT
1 TTTCGCGTTGTGATTTTCAT
243348 TTTCGCGTTGTGATTTTCAT
1 TTTCGCGTTGTGATTTTCAT
243368 TTTCGCGTTGTGATTTTCAT
1 TTTCGCGTTGTGATTTTCAT
243388 TTTCG
1 TTTCG
243393 TATTGCGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.09, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGCGTTGTGATTTTCAT
Found at i:243431 original size:33 final size:34
Alignment explanation
Indices: 243380--243445 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
243370 TCGCGTTGTG
*
243380 ATTTTCATTTTCGTATTGCGATTCTCTCGTTGCA
1 ATTTTCATTTTCGCATTGCGATTCTCTCGTTGCA
243414 ATTTTCA-TTTCGCATTGCGATTCTCTCGTTGC
1 ATTTTCATTTTCGCATTGCGATTCTCTCGTTGC
243446 GATAGTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.48
Consensus pattern (34 bp):
ATTTTCATTTTCGCATTGCGATTCTCTCGTTGCA
Found at i:243455 original size:33 final size:33
Alignment explanation
Indices: 243388--243457 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
243378 TGATTTTCAT
* **
243388 TTTCGTATTGCGATTCTCTCGTTGCAATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCAATAGTCA
*
243421 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 TTTCGCATTGCGATTCTCTCGTTGCAATAGTCA
243454 TTTC
1 TTTC
243458 CGCGTTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTGCAATAGTCA
Found at i:243593 original size:14 final size:14
Alignment explanation
Indices: 243574--243610 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
243564 CATCAATTAA
243574 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
243588 ACAAATCATCTTTT
1 ACAAATCAACATTT
243602 ACAAATCAA
1 ACAAATCAA
243611 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:245075 original size:21 final size:20
Alignment explanation
Indices: 244994--245095 Score: 69
Period size: 21 Copynumber: 4.9 Consensus size: 20
244984 GAATGTTGGG
* * *
244994 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTGAACGAT-AT
* * *
245015 AGTGGCCTCTTGAACGGTGT
1 AGGGGCCTCTTGAACGATAT
* **
245035 GAGGGGACTCTTGAGGGATAAT
1 -AGGGGCCTCTTGAACGAT-AT
*
245057 AGGGGCCTCTTGAACGATAG
1 AGGGGCCTCTTGAACGATAT
*
245077 GGGAGGCCTCTTGAACGAT
1 AGG-GGCCTCTTGAACGAT
245096 GACAGGTGAG
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
20 3 0.05
21 57 0.93
22 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (20 bp):
AGGGGCCTCTTGAACGATAT
Found at i:245604 original size:20 final size:20
Alignment explanation
Indices: 245594--245685 Score: 148
Period size: 20 Copynumber: 4.6 Consensus size: 20
245584 AACGCTAAAA
* **
245594 TGACTATCGCAATGCAAAAA
1 TGACTATCGCAATGCGAATT
*
245614 TGAATATCGCAATGCGAATT
1 TGACTATCGCAATGCGAATT
245634 TGACTATCGCAATGCGAATT
1 TGACTATCGCAATGCGAATT
245654 TGACTATCGCAATGCGAATT
1 TGACTATCGCAATGCGAATT
245674 TGACTATCGCAA
1 TGACTATCGCAA
245686 CGAGAGAATC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (20 bp):
TGACTATCGCAATGCGAATT
Found at i:245702 original size:34 final size:36
Alignment explanation
Indices: 245619--245704 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 36
245609 AAAAATGAAT
245619 ATCGCAATGCGAATTTGACTATCGCAATGCGAATTTGAC
1 ATCGCAATGCGAATTTGACTATCGCAA-GCGAA--TGAC
245658 TATCGCAATGCGAATTTGACTATCGCAA-CGAGA-GA-
1 -ATCGCAATGCGAATTTGACTATCGCAAGCGA-ATGAC
245693 ATCGCAATGCGA
1 ATCGCAATGCGA
245705 TTTTTATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
34 12 0.27
36 2 0.04
38 3 0.07
39 1 0.02
40 27 0.60
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (36 bp):
ATCGCAATGCGAATTTGACTATCGCAAGCGAATGAC
Done.