Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006872.1 Hibiscus syriacus cultivar Beakdansim tig00017502_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: 114568
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:2476 original size:3 final size:3
Alignment explanation
Indices: 2468--2535 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
2458 AGCATTGTCT
2468 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
2516 TTC TTC TTC TCC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TT
2536 ATTTGGTTCG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:3295 original size:2 final size:2
Alignment explanation
Indices: 3288--3334 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
3278 TGTTACGCGT
3288 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3329 TA TA TA
1 TA TA TA
3335 CAAGTTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12068 original size:29 final size:29
Alignment explanation
Indices: 12030--12090 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
12020 TTTTTCTTTC
12030 TAAATAAAATTAATATAA-TAAGATTATA
1 TAAATAAAATTAATATAACTAAGATTATA
* *
12058 TAAATACAAATTTATATAACTTTAGATTATA
1 TAAATA-AAATTAATATAAC-TAAGATTATA
12089 TA
1 TA
12091 TCTTTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 11 0.39
31 11 0.39
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAATAAAATTAATATAACTAAGATTATA
Found at i:18651 original size:20 final size:20
Alignment explanation
Indices: 18628--18665 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18618 AAATGAGTAA
18628 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
18648 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
18666 TAATAATAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:20135 original size:106 final size:106
Alignment explanation
Indices: 19951--21330 Score: 2219
Period size: 106 Copynumber: 13.0 Consensus size: 106
19941 GCATTGTTCC
* * ** *
19951 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * *
20015 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
20057 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
20122 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
20163 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
20228 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
20269 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
20334 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
20375 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTAG-TTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT-GTTTATTGACA
20439 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
20481 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
20546 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
20587 GAGTCCAATATCCTTCGCTGTGAACTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
20652 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
20693 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * * *
20757 CCGGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
20798 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
**
20863 CCAGTTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
20904 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
20969 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
21010 GAGTCCAATATCTTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
**
21075 CCAGCGGTCTATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
21116 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * * * * *
21181 TCAGCCGCCCCTTC-ACTGTGAAGTTGAGCTTGTGCTGTCTT
66 CCAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTG
21222 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
21287 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
21328 GAG
1 GAG
21331 AGAAACTGTC
Statistics
Matches: 1189, Mismatches: 79, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
105 97 0.08
106 1089 0.92
107 3 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:21453 original size:37 final size:36
Alignment explanation
Indices: 21331--21468 Score: 163
Period size: 37 Copynumber: 3.8 Consensus size: 36
21321 TTGTCTGGAG
*
21331 AGAA-ACTGTCTCAAGGGAGACAAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTCAA
* *
21366 AGAAGACTGTCTCAAGGGAGACGAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTCAA
* * * * *
21402 AGAAAAACTATCTCAAGCAAGATAAAATCTTGTTTTAA
1 AG-AAGACTGTCTCAAGCGAGACAAAAT-TTGTTTCAA
21440 ATG-AGACTGTCTCAAGCGAGACAAAATTT
1 A-GAAGACTGTCTCAAGCGAGACAAAATTT
21469 ATATTGGAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 34 0.39
37 39 0.45
38 9 0.10
39 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (36 bp):
AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTCAA
Found at i:22241 original size:22 final size:22
Alignment explanation
Indices: 22215--22291 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
22205 TTGTGTTTGG
22215 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* * *
22237 TCAAATGTTTGGTATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
* *
22259 TCAAAGGTTTGTCATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
22281 TCAAAGGTTTG
1 TCAAAGGTTTG
22292 ATGGGGTAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:22919 original size:19 final size:18
Alignment explanation
Indices: 22893--22951 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 18
22883 TTTTTGTCCC
22893 TTTTTCTTTTTTATTTTG
1 TTTTTCTTTTTTATTTTG
*
22911 TTCTTTCTTTTTTCTTTTG
1 TT-TTTCTTTTTTATTTTG
* *
22930 TTTCTCTTTTTT-CTTTG
1 TTTTTCTTTTTTATTTTG
22947 TTTTT
1 TTTTT
22952 TATTGGATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 8 0.22
18 11 0.31
19 17 0.47
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTCTTTTTTATTTTG
Found at i:26232 original size:18 final size:18
Alignment explanation
Indices: 26179--26232 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
26169 TAAATAAATG
26179 AGTAAAATATATAA-AA-A
1 AGTAAAATA-ATAATAATA
**
26196 AGTAAAAGCAT-ATATATA
1 AGTAAAATAATAATA-ATA
26214 AGTAAAATAATAATAATA
1 AGTAAAATAATAATAATA
26232 A
1 A
26233 AAAAAATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 8 0.28
18 14 0.48
19 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (18 bp):
AGTAAAATAATAATAATA
Found at i:35874 original size:22 final size:22
Alignment explanation
Indices: 35823--35867 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
35813 GATGGTTGCA
* *
35823 AGGTAGTTGTTTACCTTTATTT
1 AGGTAATTGTTTAACTTTATTT
35845 AGGTAATTGTTTAACTTTATTT
1 AGGTAATTGTTTAACTTTATTT
35867 A
1 A
35868 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (22 bp):
AGGTAATTGTTTAACTTTATTT
Found at i:41335 original size:17 final size:17
Alignment explanation
Indices: 41308--41340 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
41298 TTATTATATT
41308 AGAATTAAATTTAAAATA
1 AGAATTAAA-TTAAAATA
41326 AGAA-TAAATTAAAAT
1 AGAATTAAATTAAAAT
41341 TAAAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
AGAATTAAATTAAAATA
Found at i:41938 original size:3 final size:3
Alignment explanation
Indices: 41930--41967 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
41920 AATTTTAATT
*
41930 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTAA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA T
41968 AAATTACATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:46530 original size:29 final size:29
Alignment explanation
Indices: 46498--46558 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
46488 AACAAAGCGG
*
46498 GGATACAATCCCTTGCAGAAACAGGATGA
1 GGATACAATCCCATGCAGAAACAGGATGA
* *
46527 GGATATAATCCCATGCAGAATCAGGATGA
1 GGATACAATCCCATGCAGAAACAGGATGA
46556 GGA
1 GGA
46559 CTATGCCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (29 bp):
GGATACAATCCCATGCAGAAACAGGATGA
Found at i:47793 original size:43 final size:43
Alignment explanation
Indices: 47568--47786 Score: 294
Period size: 43 Copynumber: 5.1 Consensus size: 43
47558 TGGTAACAAA
*** * * * ** *
47568 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTATCTAAT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
* * * *
47611 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTTTCAAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
47654 AAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
47697 AAACGCCGCAATAGGTGTTGAGATTTAGTGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
47740 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
47783 AAAC
1 AAAC
47787 ATCGCAAAAG
Statistics
Matches: 158, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 158 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
Found at i:47820 original size:43 final size:43
Alignment explanation
Indices: 47590--47842 Score: 168
Period size: 43 Copynumber: 5.9 Consensus size: 43
47580 AGGTAACGAT
* ** * * * * * *
47590 ATATAGCGGCGTTTATCTAATAAACGCCGCAATAGGTGTTGAT
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* * * * * * * *
47633 ATTTAGCGGCATTTTTTCAACAAACGCCGCAATAGGTGTTGAG
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* * * * * *
47676 ATTTAGCGGAGTTTTTCCCACAAACGCCGCAATAGGTGTTGAG
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* * * * *
47719 ATTTAGTGGCGTTTTTCCCACAAACGCCGCAATAGGTCTTGAG
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* *
47762 ATTTAGCGGCGTTTTTCCCACAAACATCGCAAAAGATC-TG-G
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
*** *
47803 TATATAGCGGCGTTTTTTAGAACAAACGCCGCAAAAGATC
1 -ATATAGCGGCG-TTTTTCCCACAAACACCGCAAAAGATC
47843 ATATCTATAG
Statistics
Matches: 183, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 12 0.07
43 170 0.93
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
Found at i:47820 original size:86 final size:86
Alignment explanation
Indices: 47636--47836 Score: 253
Period size: 86 Copynumber: 2.3 Consensus size: 86
47626 TGTTGATATT
* *
47636 TAGCGGCATTTTTTCAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCACAAAC
1 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAAC
* * * * *
47701 GCCGCAATAGGTGTTGAGATT
66 ACCGCAAAAGATGCTGAGATA
* * * *
47722 TAGTGGCGTTTTTCCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
1 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAAC
*
47787 ATCGCAAAAGAT-CTG-GTATA
66 ACCGCAAAAGATGCTGAG-ATA
*
47807 TAGCGGCGTTTTTTAGAACAAACGCCGCAA
1 TAGCGGCGTTTTTT-CAACAAACGCCGCAA
47837 AAGATCATAT
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
84 1 0.01
85 16 0.16
86 80 0.82
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (86 bp):
TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAAC
ACCGCAAAAGATGCTGAGATA
Found at i:48015 original size:21 final size:21
Alignment explanation
Indices: 48002--48047 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
47992 CTTGACATCT
48002 ATAACAACAAACTTAAAATCC
1 ATAACAACAAACTTAAAATCC
* ** *
48023 ATAACAAGAAAAATGAAATCC
1 ATAACAACAAACTTAAAATCC
48044 ATAA
1 ATAA
48048 TAATAAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.17
Consensus pattern (21 bp):
ATAACAACAAACTTAAAATCC
Found at i:48961 original size:36 final size:36
Alignment explanation
Indices: 48914--49026 Score: 199
Period size: 36 Copynumber: 3.1 Consensus size: 36
48904 TGAGGAATGT
48914 ATTCCACTTGAACATCATCAGTAGAATGTTAATTAA
1 ATTCCACTTGAACATCATCAGTAGAATGTTAATTAA
48950 ATTCCACTTGAACATCATCAGTAGAATGTTAATTAA
1 ATTCCACTTGAACATCATCAGTAGAATGTTAATTAA
* * *
48986 ATTCCACTTGAACAGCAGCAGTAGAATGTTGATTAA
1 ATTCCACTTGAACATCATCAGTAGAATGTTAATTAA
49022 ATTCC
1 ATTCC
49027 CAACCGTTCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (36 bp):
ATTCCACTTGAACATCATCAGTAGAATGTTAATTAA
Found at i:52647 original size:138 final size:133
Alignment explanation
Indices: 52475--52754 Score: 416
Period size: 133 Copynumber: 2.1 Consensus size: 133
52465 AGAAGAAGAA
* *
52475 AAAAACCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAATAAAAAATGAATTCTACCTAGAGATC
1 AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAG-----AAAAAATGAATTCTACCCAGAGATC
*
52540 TAATTCACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAATAGAATGGACTTT
61 TAATTCACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTT
* *
52605 TATAAAAC
126 CAGAAAAC
* * **
52613 AAAACCCAGAAATCATAAGGTAAAACAAGTTTCAGGGAAAATGAATTCTACCCAGAGATCTAATT
1 AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAATGAATTCTACCCAGAGATCTAATT
* *
52678 CACATAAAAGTAAACAAATTCACGCCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTTCAGGA
66 CACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTTCAGAA
52743 AAC
131 AAC
52746 AAAACCCAG
1 AAAACCCAG
52755 CAAGATGAAG
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
133 99 0.76
138 32 0.24
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (133 bp):
AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAATGAATTCTACCCAGAGATCTAATT
CACATAAAAGTAAACAAATTCACACCCCCAATGAGGCTAAGAACTAAAAGAATGGACTTTCAGAA
AAC
Found at i:53669 original size:165 final size:165
Alignment explanation
Indices: 53352--53752 Score: 515
Period size: 165 Copynumber: 2.4 Consensus size: 165
53342 CTTTAAACTT
* * * *
53352 GCGGCGTTTTAAAAAACAAACGCCACTAAAGTACAAG--TATAGCGGCGTTTTTATAAAAATGCC
1 GCGGCGTTTTAAACAA-AAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAATGCC
* * * *
53415 ACTAATGTACGAGTCTATAGCGGCGTTTGTATAAAAACACCACTAATGTACGAGTCTATAGCGGT
65 ACTAAAGTACGACTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGC
53480 GTTTGTATAAAAACGCCACTAAAGTACAAGC-CTATA
130 GTTTGTATAAAAACGCCACTAAAGTACAA-CTCTATA
* * * *
53516 GCGGCGTTTGTAAACACAAATGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAAAAACGCC
1 GCGGCGTTT-TAAACAAAAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAATGCC
* * *
53580 ACTAAAGTACTACTCTATCGCGGCGTTTTGTATAAAAACACCGCTAAAGT-CGAGTCTATAGCGG
65 ACTAAAGTACGACTCTATAGCGGCG-TTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGG
** *
53644 CGTTTGTATAAAAACGCTGCTAAAGTACAACTCTATT
129 CGTTTGTATAAAAACGCCACTAAAGTACAACTCTATA
* * * * * *
53681 GTGGCGTTTTATATAAAAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGTATAAAAATGCCG
1 GCGGCGTTTTAAACAAAAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAATGCCA
53746 CTAAAGT
66 CTAAAGT
53753 TACCATTTTG
Statistics
Matches: 203, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
163 2 0.01
164 40 0.20
165 139 0.68
166 22 0.11
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (165 bp):
GCGGCGTTTTAAACAAAAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAATGCCA
CTAAAGTACGACTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGCG
TTTGTATAAAAACGCCACTAAAGTACAACTCTATA
Found at i:53750 original size:41 final size:41
Alignment explanation
Indices: 53369--53752 Score: 452
Period size: 41 Copynumber: 9.4 Consensus size: 41
53359 TTTAAAAAAC
* *
53369 AAACGCCACTAAAGTACAAG--TATAGCGGCGTTTTTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* *
53408 AAATGCCACTAATGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
53449 AAACACCACTAATGTACGAGTCTATAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
53490 AAACGCCACTAAAGTACAAGCCTATAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATA-A
* * *
53532 CAAATGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
53573 AAACGCCACTAAAGTACTACTCTATCGCGGCGTTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
* *
53615 AAACACCGCTAAAGT-CGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
** * * * * *
53655 AAACGCTGCTAAAGTACAACTCTATTGTGGCGTTTTATATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
*
53697 AAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* *
53738 AAATGCCGCTAAAGT
1 AAACGCCACTAAAGT
53753 TACCATTTTG
Statistics
Matches: 290, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
39 17 0.06
40 35 0.12
41 149 0.51
42 76 0.26
43 13 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:62305 original size:20 final size:20
Alignment explanation
Indices: 62275--62470 Score: 144
Period size: 20 Copynumber: 9.7 Consensus size: 20
62265 GTTTCCAGAT
*
62275 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* ** *
62295 TCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGAC-TA
** *
62315 TTCGCGTTGCGATTTTCCGACTA
1 -TCGCAATGCGA--TTCTGACTA
* * *
62338 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
* *
62358 TCGCAATGCGAGTATGACTA
1 TCGCAATGCGATTCTGACTA
*
62378 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* *
62398 TCGCAACGAGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* * *
62418 CCGCAACGCGATTCTGACTG
1 TCGCAATGCGATTCTGACTA
* *
62438 TCGCAACGCGATGCTGACTA
1 TCGCAATGCGATTCTGACTA
62458 TCGCAATGCGATT
1 TCGCAATGCGATT
62471 TTCAAAGCGC
Statistics
Matches: 139, Mismatches: 30, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.02
20 112 0.81
21 11 0.08
22 9 0.06
23 3 0.02
24 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:62347 original size:22 final size:22
Alignment explanation
Indices: 62290--62348 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
62280 ACGCGATTCT
62290 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
62312 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
62333 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
62349 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:63137 original size:20 final size:20
Alignment explanation
Indices: 63051--63138 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
63041 ATAATCGCAA
*
63051 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
* * **
63070 TACGATTGTCAAATTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
63090 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
*
63110 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
63130 TGCGATTTT
1 TGCGATTTT
63139 AAGTTTTAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
19 7 0.12
20 50 0.88
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.47
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:64872 original size:18 final size:18
Alignment explanation
Indices: 64849--64898 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
64839 TTTACTCGTA
64849 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
64867 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
64885 ATTTCACTTAGATT
1 ATTTCACTTAGATT
64899 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:65076 original size:20 final size:20
Alignment explanation
Indices: 65053--65113 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
65043 CTTTCGCAGT
65053 GCGAAAATGACTATCGCAAC
1 GCGAAAATGACTATCGCAAC
65073 GCGAAAATGACTATCGCAAC
1 GCGAAAATGACTATCGCAAC
*
65093 TCGAAAATGACTATCGCAAC
1 GCGAAAATGACTATCGCAAC
65113 G
1 G
65114 AAAGAATCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAC
Found at i:65182 original size:20 final size:19
Alignment explanation
Indices: 65157--65222 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
65147 CGATTCTCTC
*
65157 GTTGCGCTAGTCAAATTCGT
1 GTTGCGATAGTC-AATTCGT
* **
65177 GTTGCGATAGTCATTTTCAC
1 GTTGCGATAGTCA-ATTCGT
65197 GTTGCGATAGTC-ATTCGT
1 GTTGCGATAGTCAATTCGT
65215 GTTGCGAT
1 GTTGCGAT
65223 TTTAAGTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 11 0.29
19 1 0.03
20 26 0.68
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (19 bp):
GTTGCGATAGTCAATTCGT
Found at i:65233 original size:38 final size:39
Alignment explanation
Indices: 65156--65233 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
65146 GCGATTCTCT
* * *
65156 CGTTGCGCTAGTCAAATTCGTGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTC-AATTCGTGTTGCGATAGTAAGTTTCA
**
65196 CGTTGCGATAGTC-ATTCGTGTTGCGATTTTAAGTTTCA
1 CGTTGCGATAGTCAATTCGTGTTGCGATAGTAAGTTTCA
65234 GATTCTATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 21 0.64
40 12 0.36
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (39 bp):
CGTTGCGATAGTCAATTCGTGTTGCGATAGTAAGTTTCA
Found at i:65758 original size:21 final size:21
Alignment explanation
Indices: 65714--65791 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
65704 CTCACTTGTC
*
65714 ATCATTCAAGAGGCCTCC-CCT
1 ATCATTCAAGAGGCC-CCTACT
*
65735 ATCATTCAAGAGGCCCCTATT
1 ATCATTCAAGAGGCCCCTACT
** * * *
65756 ATCCCTCAAGAGTCCCCTCCC
1 ATCATTCAAGAGGCCCCTACT
* *
65777 ACCGTTCAAGAGGCC
1 ATCATTCAAGAGGCC
65792 ACTGTCATCA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 2 0.05
21 42 0.95
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.22
Consensus pattern (21 bp):
ATCATTCAAGAGGCCCCTACT
Found at i:67247 original size:14 final size:14
Alignment explanation
Indices: 67210--67271 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
67200 TTGCTTGTTT
*
67210 AATTGATTTATAAA
1 AATTGATTTGTAAA
67224 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
67238 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
67253 TATTGATGTGTAAA
1 AATTGATTTGTAAA
67267 TAATT
1 -AATT
67272 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:67408 original size:20 final size:20
Alignment explanation
Indices: 67385--67423 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
67375 ACGCTAAACT
67385 CAAAATCGCAATGAGAAAGA
1 CAAAATCGCAATGAGAAAGA
*
67405 CAAAATCGCAATGCGAAAG
1 CAAAATCGCAATGAGAAAG
67424 TCAATTCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.21, T:0.10
Consensus pattern (20 bp):
CAAAATCGCAATGAGAAAGA
Found at i:67491 original size:20 final size:20
Alignment explanation
Indices: 67466--67676 Score: 254
Period size: 20 Copynumber: 10.8 Consensus size: 20
67456 GCGATTTTCT
* *
67466 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
67486 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
67506 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
67526 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
67546 CGTTGCGATAGACAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
67566 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
67580 CGTTGCGATAGTCATATTTG
1 CGTTGCGATAGTCAAATTCG
*
67600 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
67620 CGTTGCGATAATCAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
67640 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
67660 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
67677 GAATGTGTAA
Statistics
Matches: 165, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
14 13 0.08
16 1 0.01
20 151 0.92
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:67581 original size:14 final size:14
Alignment explanation
Indices: 67562--67588 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67552 GATAGACAAA
67562 TTTGCGTTGCGATT
1 TTTGCGTTGCGATT
67576 TTTGCGTTGCGAT
1 TTTGCGTTGCGAT
67589 AGTCATATTT
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:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
TTTGCGTTGCGATT
Found at i:67583 original size:74 final size:74
Alignment explanation
Indices: 67505--67648 Score: 227
Period size: 74 Copynumber: 1.9 Consensus size: 74
67495 AATCAAATTC
*
67505 GCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAGA-CAAATTTGCGT
1 GCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATA-ATCAAATTTGCAT
67569 TGCGATTTTT
65 TGCGATTTTT
* * **
67579 GCGTTGCGATAGTCATATTTGTGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTTGCATT
1 GCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTTGCATT
67644 GCGAT
66 GCGAT
67649 AGTCAAATTC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 1 0.02
74 63 0.98
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (74 bp):
GCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTTGCATT
GCGATTTTT
Found at i:67584 original size:94 final size:94
Alignment explanation
Indices: 67486--67668 Score: 276
Period size: 94 Copynumber: 1.9 Consensus size: 94
67476 GTCAAATACC
* *
67486 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCGTTG
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCATTGCGATAATCAAATTCGCATTG
*
67551 CGATAGACAAATTTGCGTTGCGATTTTTG
66 CGATAGACAAATTCGCGTTGCGATTTTTG
* * * * * *
67580 CGTTGCGATAGTCATATTTGTGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTTGCATTG
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCATTGCGATAATCAAATTCGCATTG
*
67645 CGATAGTCAAATTCGCGTTGCGAT
66 CGATAGACAAATTCGCGTTGCGAT
67669 ATTCAAATGA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (94 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCATTGCGATAATCAAATTCGCATTG
CGATAGACAAATTCGCGTTGCGATTTTTG
Found at i:67676 original size:114 final size:114
Alignment explanation
Indices: 67405--67676 Score: 359
Period size: 114 Copynumber: 2.4 Consensus size: 114
67395 ATGAGAAAGA
* * * * *
67405 CAAAATCGCAATGCGAAAGTC-AATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCGT
1 CAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACACGTTGCGATTTTCTCGT
*
67469 TGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGT
66 TGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAAT
* ***
67518 CAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTTGCGTTGCGATTTT-TGCG
1 CAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACACGTTGCGATTTTCT-CG
* **** *
67582 TTGCGATAGTCATATTTGTGTTGCGATAGTCAAATTCGCGTTGCGATAAT
65 TTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAAT
* *
67632 CAAATTTGCATTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
67677 GAATGTGTAA
Statistics
Matches: 138, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
113 19 0.14
114 119 0.86
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (114 bp):
CAAATTCGCATTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACACGTTGCGATTTTCTCGT
TGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAAT
Found at i:67899 original size:140 final size:140
Alignment explanation
Indices: 67647--67915 Score: 511
Period size: 140 Copynumber: 1.9 Consensus size: 140
67637 TTGCATTGCG
* *
67647 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAACTGATAACAACTGAACAGATCA
*
67712 TAGCAATGTTCATACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
67777 AATACACATA
131 AATACACATA
67787 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAACTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAACTGATAACAACTGAACAGATCA
67852 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
67916 GTACAACGTT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAACTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:67999 original size:18 final size:18
Alignment explanation
Indices: 67976--68010 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67966 AAGCCGGTTG
*
67976 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
67994 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
68011 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:71188 original size:20 final size:20
Alignment explanation
Indices: 71135--71190 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
71125 TTCAGTGTTA
71135 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
* *
71155 CGACATTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
*
71175 CGATAGTCATAATCGC
1 CGATAGTCAGAATCGC
71191 ATTGTGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:71205 original size:20 final size:20
Alignment explanation
Indices: 71182--71238 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
71172 TTGCGATAGT
* *
71182 CATAATCGCATTGTGATTTA
1 CATATTCGCATTGCGATTTA
71202 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
71222 CATATTCGCATTGCGAT
1 CATATTCGCATTGCGAT
71239 AGTCGGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:87126 original size:201 final size:201
Alignment explanation
Indices: 86773--87364 Score: 1060
Period size: 201 Copynumber: 2.9 Consensus size: 201
86763 ACATCTACTC
*
86773 CATTTTCGTATATGATTTTTGATTTAATCATGAATTCCGTCCTTCAAATTGTTTGATCATTTTCG
1 CATTTTTGTATATGATTTTTGATTTAATCATGAATTCCGTCCTTC-AATTGTTTGATCATTTTCG
*
86838 TATGAGTAATTTAAATAATTTGATCTAATAAATATCAATGGTTCATATCCATAATTGTTGCATAT
65 TATGAGTAATTTAAATAATTTGATCTAATAAATATCAATGGTTCATATCCATAATTGTTACATAT
** * *
86903 TACTAGTATACATACAAACTTGAAAATGCATCTTCGTCTTCGTTTTTAAAGTCCTAACAATGATT
130 TACTAGTATACATACAAACTTGAAAATGCATCTTCAACGTCGTTTTTAAAGTCCTAACAATAATT
86968 CCTTTAT
195 CCTTTAT
* *
86975 CATTTTTGTATATGATTTTTGATTTAATCATAAATTTCGTCCTTCAATTGTTTGAT-AGTTTTCG
1 CATTTTTGTATATGATTTTTGATTTAATCATGAATTCCGTCCTTCAATTGTTTGATCA-TTTTCG
87039 TATGAGTAATTTAAATAATTTGATCTAATAAATATCAATGGTTCATATCCATAATTGTTACATAT
65 TATGAGTAATTTAAATAATTTGATCTAATAAATATCAATGGTTCATATCCATAATTGTTACATAT
*
87104 TACTAGTATACATACAAACTTGAAAATGCATCTTCAACGTCGTTTTTAAAGTCTTAACAATAATT
130 TACTAGTATACATACAAACTTGAAAATGCATCTTCAACGTCGTTTTTAAAGTCCTAACAATAATT
87169 CCTTTAT
195 CCTTTAT
**
87176 TGTTTTTGTATATGATTTTTGATTTAATCATGAATTCCGTCCTTCAATTGTTTGATCATTTTCGT
1 CATTTTTGTATATGATTTTTGATTTAATCATGAATTCCGTCCTTCAATTGTTTGATCATTTTCGT
87241 ATGAGTAATTTAAATAATTTGATCTAATAAATATCAATGGTTCATATCCATAATTGTTACATATT
66 ATGAGTAATTTAAATAATTTGATCTAATAAATATCAATGGTTCATATCCATAATTGTTACATATT
87306 ACTAGTATACATACAAACTTGAAAATGCATCTTCAACGTCGTTTTTAAAGTCCTAACAA
131 ACTAGTATACATACAAACTTGAAAATGCATCTTCAACGTCGTTTTTAAAGTCCTAACAA
87365 GCCGGATAAA
Statistics
Matches: 374, Mismatches: 14, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
200 1 0.00
201 330 0.88
202 43 0.11
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (201 bp):
CATTTTTGTATATGATTTTTGATTTAATCATGAATTCCGTCCTTCAATTGTTTGATCATTTTCGT
ATGAGTAATTTAAATAATTTGATCTAATAAATATCAATGGTTCATATCCATAATTGTTACATATT
ACTAGTATACATACAAACTTGAAAATGCATCTTCAACGTCGTTTTTAAAGTCCTAACAATAATTC
CTTTAT
Found at i:90812 original size:12 final size:12
Alignment explanation
Indices: 90779--90843 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
90769 AAAATATTAA
*
90779 TTATTAAAATAT
1 TTATTAATATAT
*
90791 TTA-AAATATAT
1 TTATTAATATAT
90802 TTATTAATATAT
1 TTATTAATATAT
* *
90814 CTAATAATATA-
1 TTATTAATATAT
*
90825 ATATT-ATAT-T
1 TTATTAATATAT
90835 TT-TTAATAT
1 TTATTAATAT
90844 TATAATAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 2 0.05
10 9 0.21
11 12 0.29
12 19 0.45
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTAATATAT
Found at i:90813 original size:23 final size:23
Alignment explanation
Indices: 90769--90830 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
90759 CATTTTAATC
*
90769 AAAATATTAATTATTAAAATATTT
1 AAAATA-TAATTATTAAAATATCT
* *
90793 AAAATATATTTATTAATATATCT
1 AAAATATAATTATTAAAATATCT
90816 AATAATATAA-TATTA
1 AA-AATATAATTATTA
90831 TATTTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 21 0.64
24 12 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATATAATTATTAAAATATCT
Found at i:90911 original size:54 final size:54
Alignment explanation
Indices: 90815--90918 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
90805 TTAATATATC
*
90815 TAATAATATAATATTATATTTTTTAATATTATAATAAAATAATCAATTATATTG
1 TAATAATATAATATTATATTTTTTAATATTATAATAAAATAATAAATTATATTG
90869 TAATAATATAAGATATTATA-TTTTT-AT-TT-TAATAATATATAATAAATTAT
1 TAATAATAT-A-ATATTATATTTTTTAATATTATAATAA-A-ATAATAAATTAT
90919 TAATAAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
52 6 0.13
53 3 0.07
54 22 0.49
55 6 0.13
56 8 0.18
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (54 bp):
TAATAATATAATATTATATTTTTTAATATTATAATAAAATAATAAATTATATTG
Found at i:91010 original size:27 final size:27
Alignment explanation
Indices: 90930--91015 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
90920 AATAAAATTT
* *
90930 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
90957 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
90984 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
91013 ATA
1 ATA
91016 ATATAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:91039 original size:34 final size:35
Alignment explanation
Indices: 91001--91080 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 35
90991 TTATATATTT
*
91001 AATATTAATATAATA-ATA-TAA-TAATATTTTAATA
1 AATA-TAATATAAAATATACTAATTAATATTTTAA-A
* *
91035 AATAT-ATTTAAAATATACTAATTAATATTTTTAA
1 AATATAATATAAAATATACTAATTAATATTTTAAA
91069 AATATAATATAA
1 AATATAATATAA
91081 CACTAATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
32 6 0.16
33 4 0.11
34 13 0.34
35 15 0.39
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (35 bp):
AATATAATATAAAATATACTAATTAATATTTTAAA
Found at i:91042 original size:54 final size:53
Alignment explanation
Indices: 90881--91042 Score: 138
Period size: 59 Copynumber: 3.0 Consensus size: 53
90871 ATAATATAAG
* * *
90881 ATATTATATTTTTATTTTA-ATAAT-ATATAATAAATTATTAATAAA-AT-TT
1 ATATTATATATTAATTTAATATAATAATATAATAAATTATTAATAAATATATT
* * * *
90930 ATATTATTTATTAATTTCATAGAAATAATATTATTAAATTATTAATAATGAATAATATT
1 ATATTATATATTAATTTAATA-TAATAATA-TAATAAATTATTAAT-A--AAT-ATATT
90989 AT-TTATATATTTAATATTAATATAATAATATAATAATATT-TTAATAAATATATT
1 ATATTATATA-TTAAT-TTAATATAATAATATAATAA-ATTATTAATAAATATATT
91043 TAAAATATAC
Statistics
Matches: 90, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
49 15 0.17
50 1 0.01
51 3 0.03
52 3 0.03
53 14 0.16
54 6 0.07
55 3 0.03
56 2 0.02
57 1 0.01
58 18 0.20
59 19 0.21
60 5 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (53 bp):
ATATTATATATTAATTTAATATAATAATATAATAAATTATTAATAAATATATT
Found at i:91049 original size:23 final size:23
Alignment explanation
Indices: 91002--91074 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
90992 TATATATTTA
*
91002 ATATTAATATAATA-ATATAATAAT
1 ATATTAATA-AATATATTTAA-AAT
*
91026 ATTTTAATAAATATATTTAAAAT
1 ATATTAATAAATATATTTAAAAT
* * *
91049 ATACTAATTAATATTTTTAAAAT
1 ATATTAATAAATATATTTAAAAT
91072 ATA
1 ATA
91075 ATATAACACT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 29 0.69
24 13 0.31
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAATAAATATATTTAAAAT
Found at i:91139 original size:31 final size:29
Alignment explanation
Indices: 91115--91184 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 29
91105 ATATAATTTA
91115 TAATATTTTTATTTCAATAAAATATACCAATAT
1 TAATATTTTTA-TT-AATAAAATATA--AATAT
*
91148 TAATATTTTTATTAATAAAATTATAAA-AA
1 TAATATTTTTATTAATAAAA-TATAAATAT
91177 TAATATTT
1 TAATATTT
91185 AATAATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 2 0.06
31 7 0.20
32 6 0.17
33 11 0.31
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (29 bp):
TAATATTTTTATTAATAAAATATAAATAT
Found at i:91223 original size:14 final size:14
Alignment explanation
Indices: 91161--91229 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
91151 TATTTTTATT
91161 AATAA-AATTATAAA
1 AATAATAATT-TAAA
*
91175 AATAAT-ATTTAAT
1 AATAATAATTTAAA
*
91188 AATAAATAATTT-AT
1 AAT-AATAATTTAAA
**
91202 TTTAATAATTTAAA
1 AATAATAATTTAAA
91216 AATAATAATATTAA
1 AATAATAAT-TTAA
91230 GTTTTATGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 14 0.32
14 22 0.50
15 8 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAATAATTTAAA
Found at i:91440 original size:29 final size:29
Alignment explanation
Indices: 91408--91483 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
91398 TTCAAAAAAT
* *
91408 GTAATTTATTTTCCAGAATTCAATTTCCA
1 GTAATTCAATTTCCAGAATTCAATTTCCA
* *
91437 GTAATTCAATTTCCAGTATTTCATTTTCCA
1 GTAATTCAATTTCCAG-AATTCAATTTCCA
*
91467 -AAATTCAATTTCCAGAA
1 GTAATTCAATTTCCAGAA
91484 AACTAATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.70
30 11 0.28
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (29 bp):
GTAATTCAATTTCCAGAATTCAATTTCCA
Found at i:91442 original size:15 final size:15
Alignment explanation
Indices: 91417--91481 Score: 89
Period size: 15 Copynumber: 4.5 Consensus size: 15
91407 TGTAATTTAT
91417 TTTCCAG-AATTCAA
1 TTTCCAGTAATTCAA
91431 TTTCCAGTAATTCAA
1 TTTCCAGTAATTCAA
* *
91446 TTTCCAGTATTTCAT
1 TTTCCAGTAATTCAA
*
91461 TTTCCA-AAATTCAA
1 TTTCCAGTAATTCAA
91475 TTTCCAG
1 TTTCCAG
91482 AAAACTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
14 18 0.41
15 26 0.59
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (15 bp):
TTTCCAGTAATTCAA
Found at i:95340 original size:2 final size:2
Alignment explanation
Indices: 95333--95360 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95323 AGTCTATTGG
95333 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95361 GGAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96566 original size:23 final size:23
Alignment explanation
Indices: 96540--96584 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
96530 CACCACAGCT
*
96540 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
96563 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
96585 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:96833 original size:149 final size:148
Alignment explanation
Indices: 96563--96864 Score: 561
Period size: 149 Copynumber: 2.0 Consensus size: 148
96553 CGAAGTGCCC
*
96563 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATAGAATTCCTTAAGAAT
96628 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGAT-TA
96693 CATATGTCCTAAAGAACCG
130 CATATGTCCTAAAGAACCG
* *
96712 CGTAGAATTGTACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATAGAATTCCTTAAGAAT
96777 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATTAC
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATTAC
96842 ATATGTCCTAAAGAACCG
131 ATATGTCCTAAAGAACCG
96860 C-TAGA
1 CGTAGA
96865 CCCTCTACCC
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
147 4 0.03
148 22 0.15
149 124 0.83
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (148 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATTAC
ATATGTCCTAAAGAACCG
Found at i:96984 original size:30 final size:30
Alignment explanation
Indices: 96949--97018 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
96939 TCATATCGCG
* *
96949 TAGTCATATTATTTCCATACCTTTATCACA
1 TAGTCATATCATTTACATACCTTTATCACA
96979 TAGTCATATCATTTACATACCTTTATCACA
1 TAGTCATATCATTTACATACCTTTATCACA
97009 TAGCTCATAT
1 TAG-TCATAT
97019 AACTTTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 31 0.84
31 6 0.16
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.41
Consensus pattern (30 bp):
TAGTCATATCATTTACATACCTTTATCACA
Found at i:97065 original size:28 final size:29
Alignment explanation
Indices: 97033--97100 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 29
97023 TTTTCTGCAT
*
97033 ATTCATGTCATGCAATACATATAATA-GA
1 ATTCATGTCATGCAATACATATAATATAA
* *
97061 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGCAATACATATAATATAA
97090 ATTCATGTCAT
1 ATTCATGTCAT
97101 ATCATAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 24 0.67
29 12 0.33
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (29 bp):
ATTCATGTCATGCAATACATATAATATAA
Found at i:97389 original size:16 final size:16
Alignment explanation
Indices: 97368--97398 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97358 TATAGCTTAG
97368 TCTTCTTTCTTTTCTT
1 TCTTCTTTCTTTTCTT
*
97384 TCTTCTTTTTTTTCT
1 TCTTCTTTCTTTTCT
97399 CATGGGGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTCTTTCTTTTCTT
Found at i:97438 original size:19 final size:20
Alignment explanation
Indices: 97401--97438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97391 TTTTTTCTCA
*
97401 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
97421 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
97439 TCAAGCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:97573 original size:67 final size:67
Alignment explanation
Indices: 97402--97551 Score: 232
Period size: 67 Copynumber: 2.3 Consensus size: 67
97392 TTTTTCTCAT
* *
97402 GGGGGAATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGAT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
97467 GA
66 GA
* * *
97469 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC-AT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA-
97532 TGA
65 TGA
97535 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
97552 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
65 1 0.01
66 22 0.29
67 54 0.70
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:105020 original size:30 final size:31
Alignment explanation
Indices: 104986--105044 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
104976 GGTAATGAAC
*
104986 TTTGATAAGTTTAACTATCA-TTTGTAATAG
1 TTTGATAAGTTTAACTACCATTTTGTAATAG
* *
105016 TTTGATAATTTTAATTACCATTTTGTAAT
1 TTTGATAAGTTTAACTACCATTTTGTAAT
105045 CATCTAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (31 bp):
TTTGATAAGTTTAACTACCATTTTGTAATAG
Found at i:105313 original size:7 final size:7
Alignment explanation
Indices: 105301--105329 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
105291 ATTGACCCAC
105301 GTATGAT
1 GTATGAT
105308 GTATGAT
1 GTATGAT
105315 GTATGAT
1 GTATGAT
105322 GTATGAT
1 GTATGAT
105329 G
1 G
105330 AACGTGTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (7 bp):
GTATGAT
Found at i:114528 original size:23 final size:23
Alignment explanation
Indices: 114495--114539 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
114485 CTCGTATAAA
114495 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
114518 TGCACCTAAGTGCCGCATAGAA
1 TGCACCGAAGTGCCACATAGAA
114540 AATATCGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Done.