Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001651.1 Hibiscus syriacus cultivar Beakdansim tig00003303_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: 139104
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Found at i:6933 original size:30 final size:30
Alignment explanation
Indices: 6899--6955 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
6889 TTGTTTGAAC
6899 GCGTTTTGATCTTTCATGTTTGCTTAAAGG
1 GCGTTTTGATCTTTCATGTTTGCTTAAAGG
6929 GCGTTTTGATCTTTCATGTTTGCTTAA
1 GCGTTTTGATCTTTCATGTTTGCTTAA
6956 TCCTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.49
Consensus pattern (30 bp):
GCGTTTTGATCTTTCATGTTTGCTTAAAGG
Found at i:7531 original size:2 final size:2
Alignment explanation
Indices: 7524--7556 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7514 TCATTTATCC
7524 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7557 ATTGTTGTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9217 original size:64 final size:64
Alignment explanation
Indices: 9118--9246 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 64
9108 AGCGTCTGTT
* * *
9118 AACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTC
1 AACAAACAAATTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
* *
9182 AACAAA-AAATTTTCCAGTTTCATTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
1 AACAAACAAATTTT-CAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
9246 A
1 A
9247 CAATTTGCTC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 6 0.10
64 53 0.90
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (64 bp):
AACAAACAAATTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
Found at i:9492 original size:43 final size:43
Alignment explanation
Indices: 9444--9598 Score: 195
Period size: 43 Copynumber: 3.6 Consensus size: 43
9434 CGAAGAGGCC
*
9444 ATCCACGATTTCAACTTCACGATGAAGGATATCGTACCAACGG
1 ATCCACGATTTCAACTCCACGATGAAGGATATCGTACCAACGG
*
9487 ATCCACGATTTCAACTCCATGAT-AGAGGATATCGTACCAACGG
1 ATCCACGATTTCAACTCCACGATGA-AGGATATCGTACCAACGG
* * * * * **
9530 ATCCACGATTTTAACTCCACGACGGAGGATATCGTGCCCACAC
1 ATCCACGATTTCAACTCCACGATGAAGGATATCGTACCAACGG
* *
9573 ATCCACGGTTTCAACTTCACGATGAA
1 ATCCACGATTTCAACTCCACGATGAA
9599 ATGAATCGTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 94 0.99
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGATGAAGGATATCGTACCAACGG
Found at i:9927 original size:120 final size:120
Alignment explanation
Indices: 9761--9979 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 120
9751 ACGCAACTAA
* * * * * *
9761 CTTGGGTTTCAACTTCACGACGAATAATATTCAATTCAATGTTCAACTTCACGATGAAGGGGCCA
1 CTTGGATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCA
* *
9826 TCCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCCGCAACAGCACAAG
66 TCCAAGATTTCAACTTCACGACAAAGGATATCGTGTCCACCCGCAACAGCACAAG
* * * *
9881 CTTGGATTTTAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGGATGGGCCA
1 CTTGGATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCA
9946 TCCAAGATTTCAACTTCACGACAAAGGATATCGT
66 TCCAAGATTTCAACTTCACGACAAAGGATATCGT
9980 ACCAATAGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 87 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (120 bp):
CTTGGATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCA
TCCAAGATTTCAACTTCACGACAAAGGATATCGTGTCCACCCGCAACAGCACAAG
Found at i:10141 original size:164 final size:163
Alignment explanation
Indices: 9825--10143 Score: 399
Period size: 164 Copynumber: 2.0 Consensus size: 163
9815 TGAAGGGGCC
* * *
9825 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCCGCAACAGCACAAGCTTGGATTT
1 ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAACAGCACAACCTTGGATTT
* * * * *
9890 TAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGGATGGGCCATCCAAGATT
66 CAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTCCACAACGAATGGGCCATCCAAGATT
9955 TCAACTTCACGACAAAGGATATCGTACCAATAG
131 TCAACTTCACGACAAAGGATATCGTACCAATAG
* * *
9988 ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAGCAATGTA-ACCCTTGGAT
1 ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAAC-A-GCACAACCTTGGAT
* * * * * * * * * *
10052 TTCAACTTCATGACGAATGATATCCAATTCGAGGTTTAACTCCATAATGAATGGGGCATTCACA-
64 TTCAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTCCACAACGAATGGGCCATCCA-AG
*
10116 ATTTCAACTTCACGACGAAGGATATCGT
128 ATTTCAACTTCACGACAAAGGATATCGT
10144 GCTCATTTGG
Statistics
Matches: 131, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
163 45 0.34
164 83 0.63
165 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (163 bp):
ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAACAGCACAACCTTGGATTT
CAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTCCACAACGAATGGGCCATCCAAGATT
TCAACTTCACGACAAAGGATATCGTACCAATAG
Found at i:10662 original size:83 final size:83
Alignment explanation
Indices: 10146--10808 Score: 724
Period size: 84 Copynumber: 8.0 Consensus size: 83
10136 GATATCGTGC
* * * * * * * * * *
10146 TCATTTGGAGCTTAGCTCAAGGCAAGAAGGGCTATCTACTAACAAAAGACATTCGAGTTCAATTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGC-CACCAAAGACCTTCGAGTTCGATTA
*
10211 CACTTAGCTCAAAGGCACA
65 CACTCAGCTCAAAGGCACA
* * * * * * * *
10230 TCATTTACAACATAACTTAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCAAGTTTGACTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTG-CCACCAAAGACCTTCGAGTTCGATTA
* *
10295 CGCTCAGCTCCAAGGCACA
65 CACTCAGCTCAAAGGCACA
*
10314 TCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGATTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGATTA
*
10379 CACTCAGCTCAAAGGCAGA
65 CACTCAGCTCAAAGGCACA
** * * * * * *
10398 TCATTTGCATAATAATTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTA
* *
10463 CGCTCAGCTCCAAGGCACA
65 CACTCAGCTCAAAGGCACA
* * * * * *
10482 TCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTG----C-AAGACCTTCAAGTTCAACTAT
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
* *
10542 GCTCAGCTCCAAGGCACA
66 ACTCAGCTCAAAGGCACA
*
10560 TCATTTGCAGCATAACTCAAGGAGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
10625 ACTCAGCTCAAAGGCACA
66 ACTCAGCTCAAAGGCACA
* * ** * *
10643 TCATTTGCAGCATAGCTCAAGGAGAGAAGGGTTATCTATCAACAAAGATCTTCGAGTTCGATTAC
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
*
10708 ACTCAGCTCAAAGGCATA
66 ACTCAGCTCAAAGGCACA
* * ** *
10726 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTTTCATCAAAGACCTTCGAGTTCGATT
1 TC--ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATT
* * *
10791 TCATTCAGCTCATAGGCA
64 ACACTCAGCTCAAAGGCA
10809 TATACCTTCT
Statistics
Matches: 494, Mismatches: 75, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
78 70 0.14
79 1 0.00
82 1 0.00
83 116 0.23
84 231 0.47
85 75 0.15
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (83 bp):
TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
ACTCAGCTCAAAGGCACA
Found at i:14509 original size:2 final size:2
Alignment explanation
Indices: 14502--14531 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14492 TATAGAGTAC
14502 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
14532 GTAATTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16231 original size:16 final size:16
Alignment explanation
Indices: 16205--16242 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
16195 TCTACTAAAG
16205 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
16222 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
16238 CATGT
1 CATGT
16243 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:26219 original size:23 final size:23
Alignment explanation
Indices: 26193--26257 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 23
26183 ATTTTGCTTG
26193 AAAAAATAATGAAAAAATGAAATA
1 AAAAAATAATGAAAAAATGAAA-A
*
26217 AAAAAA-AGA-AAAAAAATGAAAA
1 AAAAAATA-ATGAAAAAATGAAAA
26239 AGAAAAATGAATGAAAAAA
1 A-AAAAAT-AATGAAAAAA
26258 ATGGGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.06
23 17 0.50
24 8 0.24
25 7 0.21
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAAAATAATGAAAAAATGAAAA
Found at i:26220 original size:13 final size:12
Alignment explanation
Indices: 26204--26270 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
26194 AAAAATAATG
26204 AAAAAATGAAATA
1 AAAAAATGAAA-A
*
26217 AAAAAA--AGAA
1 AAAAAATGAAAA
26227 AAAAAATGAAAA
1 AAAAAATGAAAA
*
26239 AGAAAAATGAATGA
1 A-AAAAATGAA-AA
*
26253 AAAAAATGGGAAA
1 AAAAAAT-GAAAA
26266 AAAAA
1 AAAAA
26271 GAAGAAGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 7 0.16
11 2 0.05
12 4 0.09
13 27 0.61
14 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:26238 original size:16 final size:17
Alignment explanation
Indices: 26194--26256 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 17
26184 TTTTGCTTGA
26194 AAAAAT-AATGAAAAA-
1 AAAAATAAATGAAAAAG
*
26209 ATGAAATAAA--AAAAAG
1 A-AAAATAAATGAAAAAG
26225 AAAAA-AAATGAAAAAG
1 AAAAATAAATGAAAAAG
*
26241 AAAAATGAATGAAAAA
1 AAAAATAAATGAAAAA
26257 AATGGGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 3 0.08
15 9 0.23
16 16 0.41
17 11 0.28
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAATAAATGAAAAAG
Found at i:27359 original size:55 final size:55
Alignment explanation
Indices: 27274--28092 Score: 1090
Period size: 55 Copynumber: 14.9 Consensus size: 55
27264 AGATTTCCCA
* *
27274 ACGATTATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
27329 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
27384 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
27439 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
27494 ACGATTTTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
27549 ACGACTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
27604 ACGATTGATAAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
27659 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
27714 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
27769 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
27824 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCATAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
27879 ACGATTGATGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
27934 AAGATTTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAACAGAC
1 ACGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * ** * * *
27990 ACGATTGATGAAGATTCTTCAAGT-TCCTACTCCCT-AAGAAAGAGGGAG-TGAAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAG-AC
* ** * *
28043 CCG-TTGACAGAAGATTGTTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAG
1 ACGATTG-TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAG
28093 TGAACTCGTT
Statistics
Matches: 682, Mismatches: 77, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
52 4 0.01
53 28 0.04
54 16 0.02
55 584 0.86
56 50 0.07
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:28093 original size:55 final size:54
Alignment explanation
Indices: 27999--28155 Score: 203
Period size: 55 Copynumber: 2.9 Consensus size: 54
27989 CACGATTGAT
* * *
27999 GAAGATTCTTCAAGTTC-CTACTCCCTAAGAAAGAGGGAGTGAACCCGTT-GACA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTTCG-CA
*
28052 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACTCGTTCGCA
1 GAAGATTGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGTGAACCCGTTCGCA
* * * *
28107 GAAAATTGTTCGAGTCCTATACTCCCTAA-AATGAGGGAGCGAACCCGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTT
28156 TTCCGAATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
53 32 0.35
54 10 0.11
55 49 0.53
56 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (54 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTTCGCA
Found at i:30333 original size:2 final size:2
Alignment explanation
Indices: 30326--30373 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
30316 TATAGAGTAC
30326 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
30368 AT AT AT
1 AT AT AT
30374 TTGTAATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34353 original size:46 final size:47
Alignment explanation
Indices: 34297--34400 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 47
34287 ATTTAAAATA
* *
34297 TGATAGAAAAAATAACAT-TTTTAGGTAGCG-CCAATTTTAACATTTC
1 TGATAGAAAAAATAA-ATGTTTTAAGTAGCGTCCAATATTAACATTTC
*
34343 TGATAG-AAAAAT-AATGTTTTAAGTAGCGTCCAATATTAACATTTT
1 TGATAGAAAAAATAAATGTTTTAAGTAGCGTCCAATATTAACATTTC
34388 TGATA-AAAAAATA
1 TGATAGAAAAAATA
34401 TTTTAAATAG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
43 2 0.04
44 12 0.24
45 31 0.61
46 6 0.12
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (47 bp):
TGATAGAAAAAATAAATGTTTTAAGTAGCGTCCAATATTAACATTTC
Found at i:35682 original size:2 final size:2
Alignment explanation
Indices: 35675--35704 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
35665 TTGAAACTTT
35675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35705 AGTGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37943 original size:60 final size:60
Alignment explanation
Indices: 37833--37946 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
37823 CTATAGGATA
* *
37833 TTGCTCTATTGAGTTACTTGACTATGAAAAGTTACAAAATGATCCATCGACTATATGAGG
1 TTGCTCTATTGAGTCACTTGACTATGAAAAGTTACAAAATGATACATCGACTATATGAGG
* * * *
37893 TTGCTTTATTGAGTCATTTGACTATTG-AAATTTACAAAATGGTTAC-TCGACTAT
1 TTGCTCTATTGAGTCACTTGACTA-TGAAAAGTTACAAAAT-GATACATCGACTAT
37947 TCATTATGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 41 0.89
61 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (60 bp):
TTGCTCTATTGAGTCACTTGACTATGAAAAGTTACAAAATGATACATCGACTATATGAGG
Found at i:38600 original size:23 final size:23
Alignment explanation
Indices: 38574--38621 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
38564 ATAAAATACA
*
38574 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
38597 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
38620 AT
1 AT
38622 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:39069 original size:23 final size:23
Alignment explanation
Indices: 39043--39105 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
39033 ATATAACCAC
39043 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
39066 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
39089 TACCTATTACATCATAT
1 TACCTATTACATTATAT
39106 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:39498 original size:23 final size:23
Alignment explanation
Indices: 39472--39534 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
39462 ATATAACCAC
39472 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
39495 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
39518 TACCTATTACATCATAT
1 TACCTATTACATTATAT
39535 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:39925 original size:23 final size:23
Alignment explanation
Indices: 39899--39961 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
39889 ATATAACCAC
39899 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
39922 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
39945 TACCTATTACATCATAT
1 TACCTATTACATTATAT
39962 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:40073 original size:427 final size:428
Alignment explanation
Indices: 38688--40162 Score: 2874
Period size: 427 Copynumber: 3.5 Consensus size: 428
38678 TATTACATTA
38688 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
38752 TTATGTTTCAA-TTTTTTT-ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
38815 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
38880 ATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTT
196 ATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTT
38945 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
261 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
39010 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
326 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
39075 CATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 CATTATATAAGCGCTACCTATTACATCATATTTTTACC
39113 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
39178 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
39243 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
39308 ATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
196 ATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATC
39372 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
259 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
39437 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
324 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
39502 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
389 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
39542 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
39607 TTATGTTTCAATTTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
39671 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
39736 ATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTT
196 ATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTT
39801 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
261 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
39866 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
326 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
39931 CATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 CATTATATAAGCGCTACCTATTACATCATATTTTTACC
39969 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
40034 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
40098 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTA-TTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
40162 A
196 A
40163 CAACATTAAC
Statistics
Matches: 1042, Mismatches: 1, Indels: 13
0.99 0.00 0.01
Matches are distributed among these distances:
425 45 0.04
426 83 0.08
427 373 0.36
428 216 0.21
429 311 0.30
430 14 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (428 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTT
AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
CATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:40446 original size:38 final size:39
Alignment explanation
Indices: 40379--40463 Score: 136
Period size: 38 Copynumber: 2.2 Consensus size: 39
40369 CAAGTTGTAG
*
40379 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
40418 ATTTTGATTTCC-TTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
40456 ATTTTGAT
1 ATTTTGAT
40464 GAGCATCGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
38 31 0.72
39 12 0.28
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:40744 original size:18 final size:18
Alignment explanation
Indices: 40721--40757 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40711 CGAAATATAT
40721 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
40739 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
40757 A
1 A
40758 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:41209 original size:23 final size:23
Alignment explanation
Indices: 41177--41325 Score: 210
Period size: 23 Copynumber: 6.5 Consensus size: 23
41167 GATAGATACT
*
41177 TTACAATATATAAACGATACCTA
1 TTACATTATATAAACGATACCTA
* *
41200 TTACATTATATAAGCGCTACCTA
1 TTACATTATATAAACGATACCTA
41223 TTACATTATATAAACGATACCTA
1 TTACATTATATAAACGATACCTA
*
41246 TTACATTATATAAGC-ACTACCTA
1 TTACATTATATAAACGA-TACCTA
*
41269 TTACATTATATAAACGATACATA
1 TTACATTATATAAACGATACCTA
* *
41292 TTACATTATATAAGCGCTACCTA
1 TTACATTATATAAACGATACCTA
*
41315 TTACATCATAT
1 TTACATTATAT
41326 GTTTACCTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
22 1 0.01
23 110 0.98
24 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (23 bp):
TTACATTATATAAACGATACCTA
Found at i:41227 original size:46 final size:46
Alignment explanation
Indices: 41177--41325 Score: 262
Period size: 46 Copynumber: 3.2 Consensus size: 46
41167 GATAGATACT
*
41177 TTACAATATATAAACGATACCTATTACATTATATAAGCGCTACCTA
1 TTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
*
41223 TTACATTATATAAACGATACCTATTACATTATATAAGCACTACCTA
1 TTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
*
41269 TTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTA
1 TTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
*
41315 TTACATCATAT
1 TTACATTATAT
41326 GTTTACCTAT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 98 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (46 bp):
TTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
Found at i:41728 original size:25 final size:25
Alignment explanation
Indices: 41671--41736 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
41661 CACTCAAAAG
*
41671 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
41696 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
41721 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
41737 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:42960 original size:15 final size:15
Alignment explanation
Indices: 42923--42960 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
42913 ATATTACATT
*
42923 ATACTTTTGGGTTCG
1 ATACTTTTGGGATCG
42938 ATGA-TTTTGGGATCG
1 AT-ACTTTTGGGATCG
42953 ATACTTTT
1 ATACTTTT
42961 TATATATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (15 bp):
ATACTTTTGGGATCG
Found at i:43159 original size:198 final size:198
Alignment explanation
Indices: 42821--44103 Score: 2415
Period size: 198 Copynumber: 6.5 Consensus size: 198
42811 TTTAAATTAG
*
42821 TATCGACACAAACTCTATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
42886 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
42951 CGATACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
43016 AAA
196 AAA
43019 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
43084 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
43149 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
43213 AAA
196 AAA
* *
43216 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
43281 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
43346 CGACACTTTTTATATATGGATTGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG--AA
43411 AAAAA
194 AAAAA
43416 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
43481 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
43546 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTTGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
43611 AAA
196 AAA
43614 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
43679 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
43744 CGACACTTTTTATATATGGATCGAAACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
43809 AAA
196 AAA
* *
43812 TATCGACACAAACAATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
43877 ATTGTACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
43942 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
44007 AAA
196 AAA
*
44010 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
44075 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
44104 CCTTTTGGCC
Statistics
Matches: 1062, Mismatches: 20, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
197 193 0.18
198 676 0.64
200 193 0.18
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:44274 original size:19 final size:19
Alignment explanation
Indices: 44228--44276 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
44218 TTATATTCAC
*
44228 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
44247 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
44266 ATACAAAATTA
1 ATACAAAATTA
44277 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:46094 original size:32 final size:32
Alignment explanation
Indices: 46052--46112 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
46042 TTAATATCAC
*
46052 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
46084 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
46113 CCATCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:46186 original size:21 final size:21
Alignment explanation
Indices: 46146--46209 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
46136 CCCCTTATGC
* *
46146 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
46167 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
** *
46188 -GATCAAGTTTCTCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
46208 CT
1 CT
46210 TGATTGTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.39
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:48469 original size:19 final size:19
Alignment explanation
Indices: 48414--48460 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
48404 ATCCGGTATC
48414 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
48433 -TTTGATACCGGTTTTATCAT
1 ATTT--TACCGGTTTTATCAT
48453 ATTTTACC
1 ATTTTACC
48461 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 4 0.16
20 15 0.60
21 3 0.12
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:48608 original size:20 final size:19
Alignment explanation
Indices: 48582--48626 Score: 81
Period size: 20 Copynumber: 2.3 Consensus size: 19
48572 CACTTTTAAA
48582 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
48601 TGTTACCGGTTTTATCATTT
1 T-TTACCGGTTTTATCATTT
48621 TTTACC
1 TTTACC
48627 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:48635 original size:19 final size:20
Alignment explanation
Indices: 48583--48635 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
48573 ACTTTTAAAT
*
48583 TTACCGGTTTTATCATTTTG
1 TTACCGGTTATATCATTTTG
*
48603 TTACCGGTTTTATCATTTT-
1 TTACCGGTTATATCATTTTG
48622 TTACCTGG-TATATC
1 TTACC-GGTTATATC
48636 GTTTGGATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (20 bp):
TTACCGGTTATATCATTTTG
Found at i:48724 original size:20 final size:20
Alignment explanation
Indices: 48696--48733 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48686 GCTTTTAAAG
48696 TTATGTAATTA-TGTTTCAAT
1 TTATGTAA-TAGTGTTTCAAT
*
48716 TTATTTAATAGTGTTTCA
1 TTATGTAATAGTGTTTCA
48734 TGTTTTCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
TTATGTAATAGTGTTTCAAT
Found at i:50056 original size:53 final size:52
Alignment explanation
Indices: 49993--50148 Score: 251
Period size: 53 Copynumber: 3.0 Consensus size: 52
49983 TTAAAGCGAT
*
49993 ATAAAGTAAATTTGTTTAGGGTAAAGTACATAAATAGTCCCTTGATTATAGGAC
1 ATAAA-TAAATTTGTTTAGGGTAAAGTACA-AAATAGTCCCTTGACTATAGGAC
*
50047 ATAAATAAATTTGTTTAGGGTAAAGTACACAAATAGTTCCTTGACTATAGGAC
1 ATAAATAAATTTGTTTAGGGTAAAGTACA-AAATAGTCCCTTGACTATAGGAC
*
50100 ATAAATAAATTTGTTTAGGGTAAAGTAC-ACATAGTCCCTTGACTATAGG
1 ATAAATAAATTTGTTTAGGGTAAAGTACAAAATAGTCCCTTGACTATAGG
50149 GCATTATTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
51 19 0.20
53 73 0.75
54 5 0.05
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (52 bp):
ATAAATAAATTTGTTTAGGGTAAAGTACAAAATAGTCCCTTGACTATAGGAC
Found at i:56753 original size:14 final size:14
Alignment explanation
Indices: 56734--56760 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56724 TGTTCAATAA
56734 TTCGTTCGTTTATG
1 TTCGTTCGTTTATG
56748 TTCGTTCGTTTAT
1 TTCGTTCGTTTAT
56761 ATTCAGTCCA
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:0.19, T:0.59
Consensus pattern (14 bp):
TTCGTTCGTTTATG
Found at i:56837 original size:17 final size:15
Alignment explanation
Indices: 56810--56858 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
56800 CTAATGAATT
*
56810 TTAACTTTAAACCCA
1 TTAATTTTAAACCCA
56825 TTAATATTTTAAAGCCCAA
1 TT-A-ATTTTAAA-CCC-A
56844 TTAATTTTAAACCCA
1 TTAATTTTAAACCCA
56859 AATAAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 3 0.10
16 4 0.14
17 15 0.52
18 4 0.14
19 3 0.10
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAATTTTAAACCCA
Found at i:59457 original size:21 final size:21
Alignment explanation
Indices: 59415--59457 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
59405 TTTCTGGGTT
* * *
59415 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
59436 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
59457 A
1 A
59458 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:59523 original size:67 final size:69
Alignment explanation
Indices: 59437--59590 Score: 206
Period size: 68 Copynumber: 2.2 Consensus size: 69
59427 ACCCATTCAA
* *
59437 GGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAATGCTAGAGGGGAATCGGTACCCC-
1 GGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCT
*
59499 CAGGG
65 AAGGG
* * *
59504 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCTA
1 GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCTA
59569 AGGG
66 AGGG
*
59573 GGGTGAACCGATTCCCCC
1 GGG-GAACCGATACCCCC
59591 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
66 2 0.03
67 20 0.26
68 34 0.45
69 7 0.09
70 13 0.17
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCTA
AGGG
Found at i:59990 original size:30 final size:31
Alignment explanation
Indices: 59948--60007 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
59938 AGAAAAAGTT
*
59948 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
59979 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
60008 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:60288 original size:22 final size:22
Alignment explanation
Indices: 60243--60288 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
60233 ACGGGCACTT
*
60243 CGGGCACTTCGGTGCAATTCTA
1 CGGGCACTTCGGTGCAATTATA
*
60265 CGGGCACTTCGGTGCATTTATA
1 CGGGCACTTCGGTGCAATTATA
60287 CG
1 CG
60289 AGCTGTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (22 bp):
CGGGCACTTCGGTGCAATTATA
Found at i:66354 original size:21 final size:21
Alignment explanation
Indices: 66312--66354 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
66302 TTTCTGGGTT
* * *
66312 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
66333 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
66354 A
1 A
66355 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:66470 original size:67 final size:66
Alignment explanation
Indices: 66312--66470 Score: 180
Period size: 66 Copynumber: 2.4 Consensus size: 66
66302 TTTCTGGGTT
* *
66312 AGGGGAATCGGTACCCATTCAA-GGGGAACCGATACCCCCTCAATGAAATGAATTTCCAGAATGC
1 AGGGGAATCGGTACCC-CT-AAGGGGGAACCGATACCCCCTCAATGAAATGAAATTCCAGAATGC
66376 TAG
64 TAG
* * * *
66379 A-GGGAATCGGTACCCCCAGGGGGGGAACCGATACCCCCTC-ATCGTATATGAAATTCCAGATTG
1 AGGGGAATCGGTACCCCTA-AGGGGGAACCGATACCCCCTCAAT-G-AAATGAAATTCCAGAATG
*
66442 CTTG
63 CTAG
*
66446 AGGGGAATCGATACCCCTAAGGGGG
1 AGGGGAATCGGTACCCCTAAGGGGG
66471 GTGAACCGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
64 1 0.01
65 2 0.03
66 34 0.44
67 25 0.32
68 15 0.19
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.19
Consensus pattern (66 bp):
AGGGGAATCGGTACCCCTAAGGGGGAACCGATACCCCCTCAATGAAATGAAATTCCAGAATGCTA
G
Found at i:66886 original size:30 final size:31
Alignment explanation
Indices: 66844--66903 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
66834 AGAAAAAGTT
*
66844 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
66875 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
66904 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:67197 original size:22 final size:22
Alignment explanation
Indices: 67123--67189 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
67113 TTATGGACAT
67123 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
67145 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
67167 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
67189 A
1 A
67190 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:79472 original size:13 final size:13
Alignment explanation
Indices: 79456--79486 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
79446 AATCCCCAGT
*
79456 CCGATTACCCACC
1 CCGATTACCCAAC
79469 CCGATTACCCAAC
1 CCGATTACCCAAC
79482 CCGAT
1 CCGAT
79487 AAATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.48, G:0.10, T:0.16
Consensus pattern (13 bp):
CCGATTACCCAAC
Found at i:81525 original size:29 final size:29
Alignment explanation
Indices: 81492--81552 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
81482 TATTTCAGAA
81492 TGGAAGTTGTCTTTGGTGGGACAATTCCT
1 TGGAAGTTGTCTTTGGTGGGACAATTCCT
*
81521 TGGAAGTTGTCTTTGGTGGGGCAATTCCT
1 TGGAAGTTGTCTTTGGTGGGACAATTCCT
81550 TGG
1 TGG
81553 GGATGTGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.15, C:0.13, G:0.34, T:0.38
Consensus pattern (29 bp):
TGGAAGTTGTCTTTGGTGGGACAATTCCT
Found at i:86173 original size:289 final size:291
Alignment explanation
Indices: 85644--86230 Score: 1027
Period size: 289 Copynumber: 2.0 Consensus size: 291
85634 TGGAACAAAG
* * **
85644 TTTTGGCTTGGGCAGTTGTTAATTTCAAAGGGAAGTCTTTGCTTGTCTGTTTCATGAAGTTGGCT
1 TTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAGTCTTTGCTTGTCTGTACCATGAAGTTGGCT
* *
85709 TGGACTTGTTTTCTATATTTTGTTTGGGAAAAGCGGAATTTTAGGTGCTTTAGGGGATGCTCTCG
66 TGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTAGGGGATGCTCTCG
* * *
85774 TTTAGTTAAAGAGATTTTTTAATGCATTAGGATGATTGTTTGTGCTAAATTGCGGGGTTGTTGTA
131 TTTAGTTAAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGCAGGGTTGTTGTA
* *
85839 TTAATAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTGACTGGGGGATTTGTTGATTTTCTTTT
196 TTAACAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTCACTGGGGGATTTGTTGATTTTCTTTT
85904 TCCTTTGCTGCTGGGTTGATAGAGTTATT-A
261 TCCTTTGCTGCTGGGTTGATAGAGTTATTGA
*
85934 TTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAGTCTTTGCTTGTCTGTACCTTGAAGTTGGCT
1 TTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAGTCTTTGCTTGTCTGTACCATGAAGTTGGCT
85999 TGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTA-GGGATGCTCTCG
66 TGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTAGGGGATGCTCTCG
*
86063 TTTAGTTGAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGCAGGGTTGTTGTA
131 TTTAGTTAAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGCAGGGTTGTTGTA
*
86128 TTAACAAGCTTGATAGAGTTAATTTGCAGCTTTTTCTTCACTGGGGGATTTGTTGATTTTCTTTT
196 TTAACAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTCACTGGGGGATTTGTTGATTTTCTTTT
86193 TCCTTTGCTGCTGGGTTGATAGAGTTATTGA
261 TCCTTTGCTGCTGGGTTGATAGAGTTATTGA
86224 -TTTGGCT
1 TTTTGGCT
86231 GCTTAATTGT
Statistics
Matches: 282, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
289 171 0.61
290 111 0.39
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.44
Consensus pattern (291 bp):
TTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAGTCTTTGCTTGTCTGTACCATGAAGTTGGCT
TGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTAGGGGATGCTCTCG
TTTAGTTAAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGCAGGGTTGTTGTA
TTAACAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTCACTGGGGGATTTGTTGATTTTCTTTT
TCCTTTGCTGCTGGGTTGATAGAGTTATTGA
Found at i:87701 original size:9 final size:8
Alignment explanation
Indices: 87679--87707 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
87669 AAAAATTACT
87679 TTAAAAAA
1 TTAAAAAA
87687 TTAAAAAA
1 TTAAAAAA
87695 TTAAAAAA
1 TTAAAAAA
87703 -TAAAA
1 TTAAAA
87708 CTATAGGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
TTAAAAAA
Found at i:88198 original size:41 final size:41
Alignment explanation
Indices: 88149--88678 Score: 560
Period size: 41 Copynumber: 12.8 Consensus size: 41
88139 CAAAAGAGTA
*
88149 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGATTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* * * * *
88190 GTAATTTAGTGGCATTTTTATACAAACGCCGCTATAGAATT
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* * * * *
88231 GTACTTTAGTGGTGTTTTTATACAAACGTCGTTATACACAT-
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGAC-TC
* * *
88272 GTACTATAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTC
* * *
88315 ATAATTTAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* *
88356 ATACTTTAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* * *
88397 ATACTTTAGTGGTGTTTTTATACAAACTCCGCTAAAGA-TGC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACT-C
* * ** *** *
88438 GTACTTTAGTGGCATTTTTATTCAAACGCCATTATTCACTT
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* * * *
88479 GTACTATAGTGGCATTTGTGTTTACAAACGTCGCTAAAGACTC
1 GTACTTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTC
* *
88522 GTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* * *
88563 GTACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* * * * *
88604 GTACTTTAGTGGCGTTTTTATTCAAACGCCGTTATACACTT
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
* *
88645 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGC
1 GTACTTTAGTGGCGTTT-T-TATACAAACGCCGC
88679 AAGTTTACAA
Statistics
Matches: 409, Mismatches: 70, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.00
41 331 0.81
42 8 0.02
43 69 0.17
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
Found at i:88624 original size:166 final size:166
Alignment explanation
Indices: 88149--88678 Score: 640
Period size: 166 Copynumber: 3.2 Consensus size: 166
88139 CAAAAGAGTA
* * *
88149 GTACTTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGATTCGTAATTTAGTGGCATTTTTATA
1 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
* * * * * * *
88212 CAAACGCCGCTATAGAATTGTACTTTAGTGGTGTTTTTATACAAACGTCGTTATACACAT-GTAC
66 CAAACGCCGCTAAAGACTCGTACTTTAGTGGTGTTTTTATACAAACGCCGCTAAAGAC-TCGTAC
* * ** * * * *
88276 TATAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTC
130 TTTAGTGGCGTTT-T-TATTCAAACGCCGTTATACACTT
* * * * * * * * *
88315 ATAATTTAGTGGCGTTT-T-TATCCAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATC
1 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
* *
88378 CAAACGCCGCTAAAGACTCATACTTTAGTGGTGTTTTTATACAAACTCCGCTAAAGA-TGCGTAC
66 CAAACGCCGCTAAAGACTCGTACTTTAGTGGTGTTTTTATACAAACGCCGCTAAAGACT-CGTAC
* * *
88442 TTTAGTGGCATTTTTATTCAAACGCCATTATTCACTT
130 TTTAGTGGCGTTTTTATTCAAACGCCGTTATACACTT
* *
88479 GTACTATAGTGGCATTTGTGTTTACAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
1 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
* ***
88544 CAAACGCCGCTAAAGACTCGTACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACT
66 CAAACGCCGCTAAAGACTCGTACTTTAGTGGTGTTTTTATACAAACGCCGCTAAAGACTCGTACT
88609 TTAGTGGCGTTTTTATTCAAACGCCGTTATACACTT
131 TTAGTGGCGTTTTTATTCAAACGCCGTTATACACTT
88645 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGC
1 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGC
88679 AAGTTTACAA
Statistics
Matches: 309, Mismatches: 50, Indels: 10
0.84 0.14 0.03
Matches are distributed among these distances:
164 28 0.09
165 2 0.01
166 278 0.90
167 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (166 bp):
GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATA
CAAACGCCGCTAAAGACTCGTACTTTAGTGGTGTTTTTATACAAACGCCGCTAAAGACTCGTACT
TTAGTGGCGTTTTTATTCAAACGCCGTTATACACTT
Found at i:88657 original size:207 final size:206
Alignment explanation
Indices: 88149--88676 Score: 696
Period size: 207 Copynumber: 2.5 Consensus size: 206
88139 CAAAAGAGTA
* * *
88149 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGATTCGTAATTTAGTGGCATTTTTATACA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACA
** * *
88214 AACGCCGCTATAGAATTGTACTTTAGTGGTGTTTTTATACAAACGTCGTTATACACATGTACTAT
66 AACGCCGCTATAG-ATTGTACTTTAGTGGCATTTTTATACAAACGCCATTATACACATGTACTAT
* * *
88279 AGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATCCAAACGC
130 AGTGGCATTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGC
88344 CGCTAAAGACTC
195 CGCTAAAGACTC
* * * *
88356 ATACTTTAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTCATACTTTAGTGGTGTTTTTATACA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACA
* * * * * *
88421 AACTCCGCTAAAGATGCGTACTTTAGTGGCATTTTTATTCAAACGCCATTATTCACTTGTACTAT
66 AACGCCGCTATAGAT-TGTACTTTAGTGGCATTTTTATACAAACGCCATTATACACATGTACTAT
**** * *
88486 AGTGGCATTTGTGTTTACAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGC
130 AGTGGCATTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGC
88551 CGCTAAAGACTC
195 CGCTAAAGACTC
* * * *
88563 GTACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACA
* * * * *
88628 AACGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAACGCC
66 AACGCCGCTATAGA-TTGTACTTTAGTGGCATTT-T-TATACAAACGCC
88677 GCAAGTTTAC
Statistics
Matches: 274, Mismatches: 43, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
206 2 0.01
207 260 0.95
208 2 0.01
209 10 0.04
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (206 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACA
AACGCCGCTATAGATTGTACTTTAGTGGCATTTTTATACAAACGCCATTATACACATGTACTATA
GTGGCATTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCC
GCTAAAGACTC
Found at i:89388 original size:25 final size:25
Alignment explanation
Indices: 89346--89396 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
89336 AATTAGATAA
* *
89346 TAACTGACAGGTAGTATTATAATAT
1 TAACTGACAAGTAATATTATAATAT
*
89371 TAACTTACAAGTAATATTATAATAT
1 TAACTGACAAGTAATATTATAATAT
89396 T
1 T
89397 TGGGTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (25 bp):
TAACTGACAAGTAATATTATAATAT
Found at i:89768 original size:30 final size:30
Alignment explanation
Indices: 89732--89796 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
89722 ATAACTGACA
89732 GGTAATATTATAATATTTGGGTGATTGTCG
1 GGTAATATTATAATATTTGGGTGATTGTCG
89762 GGTAATATTATAATATTTGGGTGATTGTCG
1 GGTAATATTATAATATTTGGGTGATTGTCG
89792 GGTAA
1 GGTAA
89797 AAATGCCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.42
Consensus pattern (30 bp):
GGTAATATTATAATATTTGGGTGATTGTCG
Found at i:89848 original size:377 final size:374
Alignment explanation
Indices: 89113--89872 Score: 1247
Period size: 377 Copynumber: 2.0 Consensus size: 374
89103 TAACCCGTTA
89113 TATTCTTAAACTCATAGAACTAATATGTAGTAAATTACGATATTAGATCCTATAGTTTTATTTTC
1 TATTCTTAAACTCATAGAACTAATATGTAGTAAATTACGATATTAGATCCTATAGTTTTATTTTC
*
89178 AATTTTTTTAAAACATATTTTTTTAATATTCTTTTAAGCCCTAGAAGGAACACCCCTTGAAACGT
66 AATTTTTCTAAAACATATTTTTTTAATATTCTTTTAAGCCCTAGAAGGAACACCCCTTGAAACGT
*
89243 GTCTTCGTGATGCCATGTTAACATTTTCTTTAGAAAACGTGCTTCAGGAAACAGGAAATGTGCCC
131 GTCTTCGTGATGCCATGTTAACATTTTCTTTAAAAAACGTGCTTCAGGAAACAGGAAATGTGCCC
* *
89308 TAAGTCCACCTAAGCAGTTCTTATTATAAATTAGATAATAACTGACAGGTAGTATTATAATATTA
196 TAAGTCCACCTAAGCAGATCTTATTATAAATTAGATAATAACTGACAGGTAATATTATAATATTA
89373 ACTTACAAGTAATATTATAATATTTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTATAAAAA
261 ACTTACAAGTAATATTATAATATTTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTATAAAAA
89438 AAACTAAATTAAATAAGAAAGAAAGAAAAAGAAAGCAAGAGAAATCAATGGTT
326 AAACTAAATTAAAT---AAAGAAAG-AAAAGAAAGCAAGAGAAATCAATGGTT
*
89491 TATT-TTAAACTCATAGAATTAATATGTAGTAAATTACGATATTAGATCCTATAGTTTTATTTTC
1 TATTCTTAAACTCATAGAACTAATATGTAGTAAATTACGATATTAGATCCTATAGTTTTATTTTC
* *
89555 AATTTTTCTAAAATATATTTTTTTAATATTCTTTTAAGCCCTAGAAGGAACAGCCCTTGAAACGT
66 AATTTTTCTAAAACATATTTTTTTAATATTCTTTTAAGCCCTAGAAGGAACACCCCTTGAAACGT
89620 GTCTTCGTGATGCCATGTTAACATTTTCTTTAAAAAACGTGCTTCAGGAAACAGGAAATGTGCCC
131 GTCTTCGTGATGCCATGTTAACATTTTCTTTAAAAAACGTGCTTCAGGAAACAGGAAATGTGCCC
89685 TCAA-TCCACCTAAGCAGATCTTATTATAAATTAGATAATAACTGACAGGTAATATTATAATATT
196 T-AAGTCCACCTAAGCAGATCTTATTATAAATTAGATAATAACTGACAGGTAATATTATAATA--
* * ** *
89749 TGGGTGA-TTGTCGGGTAATATTATAATATTTGGGTGATTGTCGGGTAAAAATGCCCTTATAGTT
258 T---TAACTT-ACAAGTAATATTATAATATTTGGGTGATTATCGGGTAAAAATGCCCTTATAGTT
89813 ATAAAAAAAAACTAAATTAAATAAGAAAGAAAGAAAAAGAAAGCAAGAGAAATCAATGGT
319 AT-AAAAAAAACTAAATTAAAT---AAAGAAAG-AAAAGAAAGCAAGAGAAATCAATGGT
89873 CATAAAAAGT
Statistics
Matches: 362, Mismatches: 12, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
377 242 0.67
378 6 0.02
379 1 0.00
381 2 0.01
382 54 0.15
383 57 0.16
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (374 bp):
TATTCTTAAACTCATAGAACTAATATGTAGTAAATTACGATATTAGATCCTATAGTTTTATTTTC
AATTTTTCTAAAACATATTTTTTTAATATTCTTTTAAGCCCTAGAAGGAACACCCCTTGAAACGT
GTCTTCGTGATGCCATGTTAACATTTTCTTTAAAAAACGTGCTTCAGGAAACAGGAAATGTGCCC
TAAGTCCACCTAAGCAGATCTTATTATAAATTAGATAATAACTGACAGGTAATATTATAATATTA
ACTTACAAGTAATATTATAATATTTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTATAAAAA
AAACTAAATTAAATAAAGAAAGAAAAGAAAGCAAGAGAAATCAATGGTT
Found at i:96360 original size:23 final size:23
Alignment explanation
Indices: 96320--96381 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
96310 CAGACTTAGG
* *
96320 TCGATTGAAGCTCGAACTCGAGC
1 TCGATTCAAGCTCTAACTCGAGC
* *
96343 TCGGTTCAAGCTCTAACTTGAGC
1 TCGATTCAAGCTCTAACTCGAGC
*
96366 TCGATTTAAGCTCTAA
1 TCGATTCAAGCTCTAA
96382 TTTGGTACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (23 bp):
TCGATTCAAGCTCTAACTCGAGC
Found at i:96488 original size:34 final size:33
Alignment explanation
Indices: 96444--96546 Score: 154
Period size: 34 Copynumber: 3.1 Consensus size: 33
96434 ACATGTTAAT
*
96444 ATCATGAATAATTTAATGAAAATAAATAAATAAA
1 ATCATAAATAATTTAATGAAAA-AAATAAATAAA
96478 ATCATAAATAATTTAATG-AAAAAATAAAATAAAA
1 ATCATAAATAATTTAATGAAAAAAAT-AAAT-AAA
*
96512 ATCATAAATAATTTAATGAAAAAAATAAAAAAA
1 ATCATAAATAATTTAATGAAAAAAATAAATAAA
96545 AT
1 AT
96547 ATATATTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
32 4 0.06
33 12 0.19
34 41 0.64
35 7 0.11
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (33 bp):
ATCATAAATAATTTAATGAAAAAAATAAATAAA
Found at i:96743 original size:26 final size:27
Alignment explanation
Indices: 96708--96775 Score: 111
Period size: 26 Copynumber: 2.5 Consensus size: 27
96698 TTAAGTTAGT
96708 GTTTAGGGTTTAGGGTTTAAGATTTTAA
1 GTTTA-GGTTTAGGGTTTAAGATTTTAA
96736 G-TTAGGTTTAGGGTTTAAGATTTTAA
1 GTTTAGGTTTAGGGTTTAAGATTTTAA
96762 GTTTAGTGTTTAGG
1 GTTTAG-GTTTAGG
96776 CTTTGGGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 23 0.61
27 7 0.18
28 8 0.21
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (27 bp):
GTTTAGGTTTAGGGTTTAAGATTTTAA
Found at i:96761 original size:34 final size:34
Alignment explanation
Indices: 96696--96762 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
96686 TTGTTTTGGG
*
96696 TTTTAAGTTAGTGTTTAGGGTTTAGGGTTTAAGA
1 TTTTAAGTTAGTGTTTAGGGTTTAGAGTTTAAGA
*
96730 TTTTAAGTTAG-GTTTAGGGTTTAAGATTTTAAG
1 TTTTAAGTTAGTGTTTAGGGTTT-AGAGTTTAAG
96763 TTTAGTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (34 bp):
TTTTAAGTTAGTGTTTAGGGTTTAGAGTTTAAGA
Found at i:96859 original size:15 final size:15
Alignment explanation
Indices: 96835--96883 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
96825 TTGGTTTTTC
96835 GGAAAATGAATTACT
1 GGAAAATGAATTACT
*
96850 GGAAATTGAATTACT
1 GGAAAATGAATTACT
**
96865 AAAAAATGAATTACT
1 GGAAAATGAATTACT
96880 GGAA
1 GGAA
96884 TTTGTTTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (15 bp):
GGAAAATGAATTACT
Found at i:96899 original size:29 final size:30
Alignment explanation
Indices: 96837--96907 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
96827 GGTTTTTCGG
96837 AAAATGAATTACTGGAAATTGAATTACTAA
1 AAAATGAATTACTGGAAATTGAATTACTAA
* * * *
96867 AAAATGAATTACTGGAATTTG-TTTTCTGA
1 AAAATGAATTACTGGAAATTGAATTACTAA
96896 AAAATGAATTAC
1 AAAATGAATTAC
96908 ATTTCTGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (30 bp):
AAAATGAATTACTGGAAATTGAATTACTAA
Found at i:97111 original size:49 final size:50
Alignment explanation
Indices: 97014--97112 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
97004 TACAAATATT
*
97014 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
97064 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
97113 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:97218 original size:90 final size:86
Alignment explanation
Indices: 97062--97231 Score: 200
Period size: 88 Copynumber: 1.9 Consensus size: 86
97052 ATTATTATTT
* * * * *
97062 TAAAATATTAAAATAATTTATTTATTATTAAATATTATTTTTATAATTTTATTAATAAAAATATT
1 TAAAATATTAAAATAATTTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
*
97127 AATATTGGTATATTTTAGTGAAA
66 -A-ATTAGTATATTTTAGTGAAA
* *
97150 TAAAATATTATAAATTATATTAATTATTTATTAAAGTAATAGTGTTAT-ATTATATT-TTAAAAA
1 TAAAATATTA-AAATAAT-TTAATTA-TTATTAAA-TAATAGTGTTATAATTATATTAATAAAAA
97213 TATTAATTAGTATATTTTA
62 TATTAATTAGTATATTTTA
97232 AATATCTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
88 23 0.33
89 7 0.10
90 16 0.23
91 15 0.21
92 9 0.13
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (86 bp):
TAAAATATTAAAATAATTTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
AATTAGTATATTTTAGTGAAA
Found at i:97305 original size:30 final size:28
Alignment explanation
Indices: 97247--97324 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
97237 CTTTACTAAA
97247 ATATTATTTAAATATATAAATAAAATTAT
1 ATATTA-TTAAATATATAAATAAAATTAT
97276 -TCATTATTAAATATATAAA-AAATTTATTAT
1 AT-ATTATTAAATATATAAATAAA---ATTAT
97306 ATATTATTAAA-ATA-AAATA
1 ATATTATTAAATATATAAATA
97325 TAATATCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
27 3 0.07
28 17 0.40
29 8 0.19
30 14 0.33
31 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATTATTAAATATATAAATAAAATTAT
Found at i:97386 original size:30 final size:29
Alignment explanation
Indices: 97350--97430 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
97340 TATTATTATA
97350 ATATTATTTTATATAATTAA-AAATAATATT
1 ATATTATTTTA-ATAATTAATAAAT-ATATT
*
97380 ATATTATTATAA-ATATTAATAAATATATT
1 ATATTATTTTAATA-ATTAATAAATATATT
* *
97409 TTAAATATTTTAATAATTAATA
1 AT-ATTATTTTAATAATTAATA
97431 TTTTGATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 1 0.02
29 12 0.28
30 29 0.67
31 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATATTATTTTAATAATTAATAAATATATT
Found at i:97665 original size:42 final size:42
Alignment explanation
Indices: 97606--97724 Score: 211
Period size: 42 Copynumber: 2.8 Consensus size: 42
97596 ATAAATTACG
97606 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
97648 TTCCGGAAAACGAATTACGTGAAACAAATACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
97690 TTCCGGAAAACGAATTACATGAAACAAACACGGGA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGA
97725 TTTCGGGAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:107963 original size:151 final size:150
Alignment explanation
Indices: 107689--108040 Score: 632
Period size: 151 Copynumber: 2.3 Consensus size: 150
107679 ACTTAGATTC
107689 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
1 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
* * *
107754 CTCCCTAGTAGGTTATGTTTCTCGAATTTGTGAGTGTCGGTAACACCAATATTTATGTCCGACGC
66 CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
107819 GGTTTTGTTACTTGGACTGTT
131 GGTTTTGTTACTTGGACTG-T
107840 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
1 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
107905 CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
66 CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
*
107970 GGTTTTTTTACTTGGACTGT
131 GGTTTTGTTACTTGGACTGT
* * *
107990 TTTTTATGGATTTTAAGTGAGTAATGTAATTCATATTTGATCAATGCTTCA
1 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCA
108041 ATTTGTACTT
Statistics
Matches: 194, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
150 49 0.25
151 145 0.75
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (150 bp):
TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
GGTTTTGTTACTTGGACTGT
Found at i:112928 original size:20 final size:22
Alignment explanation
Indices: 112892--112932 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
112882 TTATTGATTT
112892 TTAATTATATCTATGTTAATAA
1 TTAATTATATCTATGTTAATAA
112914 TTAATT-TAT-TATGTTAATA
1 TTAATTATATCTATGTTAATA
112933 TCAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (22 bp):
TTAATTATATCTATGTTAATAA
Found at i:113072 original size:26 final size:24
Alignment explanation
Indices: 113043--113097 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
113033 ATTAATAATT
*
113043 ATTATATATTTTTAATTATATGAATA
1 ATTATACA-TTTT-ATTATATGAATA
* *
113069 ATTATACATTTTCTTGTATGAATA
1 ATTATACATTTTATTATATGAATA
113093 ATTAT
1 ATTAT
113098 TCAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 15 0.58
25 4 0.15
26 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (24 bp):
ATTATACATTTTATTATATGAATA
Found at i:113138 original size:76 final size:76
Alignment explanation
Indices: 113050--113297 Score: 256
Period size: 76 Copynumber: 3.2 Consensus size: 76
113040 ATTATTATAT
113050 ATTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTATTCAAAAAAATTATGAAC
1 ATTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTATTCAAAAAAATTATGAAC
113115 AAGTATTTTAC
66 AAGTATTTTAC
* * * * * * * *
113126 ATTTTTAGTTATATGAA-AAGCTATACATCTCTTTCTT-TAT-AA-AATT-TGCTACATAGTGTT
1 ATTTTTAATTATATGAATAA-TTATACA--T-TTTCTTGTATGAATAATTATTCAAAAAAAT-TA
* * *
113186 TTAATTAA-TCATATTATAT
61 TGAA-CAAGT-AT-TT-TAC
*
113205 ACTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTATTCAAAAAAATTATGAAC
1 ATTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTATTCAAAAAAATTATGAAC
113270 AAGTATTTTAC
66 AAGTATTTTAC
*
113281 ATTTTTAGTTATATGAA
1 ATTTTTAATTATATGAA
113298 AAGCTATACA
Statistics
Matches: 132, Mismatches: 25, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
75 8 0.06
76 54 0.41
77 12 0.09
78 12 0.09
79 38 0.29
80 8 0.06
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (76 bp):
ATTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTATTCAAAAAAATTATGAAC
AAGTATTTTAC
Found at i:113212 original size:155 final size:155
Alignment explanation
Indices: 113032--113368 Score: 647
Period size: 155 Copynumber: 2.2 Consensus size: 155
113022 GATTATCTAA
* *
113032 AATTAATAATTATTATATATTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTA
1 AATTAATCA-TATTATATACTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTA
113097 TTCAAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCT
65 TTCAAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCT
113162 TTATAAAATTTGCTACATAGTGTTTT
130 TTATAAAATTTGCTACATAGTGTTTT
113188 AATTAATCATATTATATACTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTAT
1 AATTAATCATATTATATACTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTAT
113253 TCAAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCTT
66 TCAAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCTT
113318 TATAAAATTTGCTACATAGTGTTTT
131 TATAAAATTTGCTACATAGTGTTTT
113343 AATTAATCATATTATATACTTTTAAT
1 AATTAATCATATTATATACTTTTAAT
113369 GCATAATATT
Statistics
Matches: 179, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
155 171 0.96
156 8 0.04
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.47
Consensus pattern (155 bp):
AATTAATCATATTATATACTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTAT
TCAAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCTT
TATAAAATTTGCTACATAGTGTTTT
Found at i:113217 original size:79 final size:79
Alignment explanation
Indices: 113128--113368 Score: 248
Period size: 79 Copynumber: 3.1 Consensus size: 79
113118 TATTTTACAT
*
113128 TTTTAGTTATATGAAAAGCTATACATCTCTTTCTTTATAAAATTTGCTACATAGTGTTTTAATTA
1 TTTTAATTATATGAAAAGCTATACATCTCTTTCTTTATAAAATTTGCTACATAGTGTTTTAATTA
113193 ATCATATTATATAC
66 ATCATATTATATAC
* * * * * * * *
113207 TTTTAATTATATGAATAA-TTATACA--T-TTTCTTGTATGAATAATTATTCAAAAAAAT-TATG
1 TTTTAATTATATGAA-AAGCTATACATCTCTTTCTT-TAT-AA-AATT-TGCTACATAGTGTTTT
* * *
113267 AA-CAAGT-AT-TT-TACAT
61 AATTAA-TCATATTATATAC
*
113283 TTTTAGTTATATGAAAAGCTATACATCTCTTTCTTTATAAAATTTGCTACATAGTGTTTTAATTA
1 TTTTAATTATATGAAAAGCTATACATCTCTTTCTTTATAAAATTTGCTACATAGTGTTTTAATTA
113348 ATCATATTATATAC
66 ATCATATTATATAC
113362 TTTTAAT
1 TTTTAAT
113369 GCATAATATT
Statistics
Matches: 122, Mismatches: 25, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
75 8 0.07
76 38 0.31
77 12 0.10
78 12 0.10
79 44 0.36
80 8 0.07
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (79 bp):
TTTTAATTATATGAAAAGCTATACATCTCTTTCTTTATAAAATTTGCTACATAGTGTTTTAATTA
ATCATATTATATAC
Found at i:119115 original size:41 final size:41
Alignment explanation
Indices: 119070--119285 Score: 308
Period size: 41 Copynumber: 5.2 Consensus size: 41
119060 AAATTCGCAA
* *
119070 TGCGATAGTCGAAGTTCGCATTGCGATTCATTCCAAATAGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
*
119111 TGCGATAGTCGAAGTTCGTGTTGCGATTCATTCCAAATCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
* * *
119152 TGCGATAGGCAAAGTTCGCGTTGCGATTCATTCCAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
* * * *
119193 TGCGATAGGCGAAGTTCGTGTTGCGATTCATTTCAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
*
119234 TACGATAAG-CGAAGTTCGCGTTGCGATTCATTCCAAATTCGT
1 TGCGAT-AGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGT
119276 TGCGATAGTC
1 TGCGATAGTC
119286 CAAATATTGC
Statistics
Matches: 157, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
41 145 0.92
42 12 0.08
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (41 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGT
Found at i:119135 original size:21 final size:20
Alignment explanation
Indices: 119109--119288 Score: 61
Period size: 21 Copynumber: 8.8 Consensus size: 20
119099 ATTCCAAATA
*
119109 GTTGCGATAGTCGAAGTTCG
1 GTTGCGATAGTCCAAGTTCG
* *
119129 TGTTGCGATTCATTCCAA-ATC-
1 -GTTGCGA-T-AGTCCAAGTTCG
* *
119150 GTTGCGATAGGCAAAGTTCG
1 GTTGCGATAGTCCAAGTTCG
*
119170 CGTTGCGATTCATTCCAA-TTC-
1 -GTTGCGA-T-AGTCCAAGTTCG
* *
119191 GTTGCGATAGGCGAAGTTCG
1 GTTGCGATAGTCCAAGTTCG
* *
119211 TGTTGCGATTCATTTCAA-TTC-
1 -GTTGCGA-T-AGTCCAAGTTCG
* *
119232 GTTACGATAAG-CGAAGTTCG
1 GTTGCGAT-AGTCCAAGTTCG
* *
119252 CGTTGCGATTCATTCCAAATTC-
1 -GTTGCGA-T-AGTCCAAGTTCG
119274 GTTGCGATAGTCCAA
1 GTTGCGATAGTCCAA
119289 ATATTGCATT
Statistics
Matches: 114, Mismatches: 28, Indels: 36
0.64 0.16 0.20
Matches are distributed among these distances:
18 10 0.09
19 18 0.16
20 21 0.18
21 34 0.30
22 13 0.11
23 18 0.16
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCCAAGTTCG
Found at i:119155 original size:20 final size:20
Alignment explanation
Indices: 119090--119157 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
119080 GAAGTTCGCA
*
119090 TTGCGATTCATTCCAAATAG
1 TTGCGATTCATTCCAAATCG
* * *
119110 TTGCGA-T-AGTCGAAGTTCGTG
1 TTGCGATTCATTCCAA-ATC--G
119131 TTGCGATTCATTCCAAATCG
1 TTGCGATTCATTCCAAATCG
119151 TTGCGAT
1 TTGCGAT
119158 AGGCAAAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 14 0.39
21 7 0.19
22 3 0.08
23 5 0.14
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATTCATTCCAAATCG
Found at i:119963 original size:6 final size:6
Alignment explanation
Indices: 119947--119976 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
119937 TCCCATCTCG
119947 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT G
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT G
119977 ATAATACGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:120903 original size:13 final size:13
Alignment explanation
Indices: 120887--120918 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
120877 AATACAAATA
*
120887 TTTTTCTTTATAT
1 TTTTTCGTTATAT
120900 TTTTTCGTTATAT
1 TTTTTCGTTATAT
120913 TTTTTC
1 TTTTTC
120919 ATATTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTTTCGTTATAT
Found at i:121572 original size:20 final size:20
Alignment explanation
Indices: 121547--121588 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
121537 TTTTGGTAGC
121547 TTACGGTTTTTTGTCGTTGT
1 TTACGGTTTTTTGTCGTTGT
121567 TTACGGTTTTTTGTCGTTGT
1 TTACGGTTTTTTGTCGTTGT
121587 TT
1 TT
121589 TTGTTTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.05, C:0.10, G:0.24, T:0.62
Consensus pattern (20 bp):
TTACGGTTTTTTGTCGTTGT
Found at i:122223 original size:14 final size:14
Alignment explanation
Indices: 122181--122223 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
122171 TGAAACTGGT
**
122181 TTTTTCGGTTCGAT
1 TTTTTCGGTTCGGG
122195 TTTTTAACGGTTCGGG
1 TTTTT--CGGTTCGGG
122211 TTTTTCGGTTCGG
1 TTTTTCGGTTCGG
122224 TTCGGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.07, C:0.14, G:0.28, T:0.51
Consensus pattern (14 bp):
TTTTTCGGTTCGGG
Found at i:123134 original size:2 final size:2
Alignment explanation
Indices: 123127--123170 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
123117 AACTAGCCAC
123127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123169 TA
1 TA
123171 AACCGTTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:134657 original size:20 final size:22
Alignment explanation
Indices: 134629--134671 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
134619 TTTAATTTTT
*
134629 TAAT-TTTTTCTTT-TAAAAAA
1 TAATATTTTTATTTATAAAAAA
134649 TAATATTTTTATTTATAAAAAA
1 TAATATTTTTATTTATAAAAAA
134671 T
1 T
134672 CAAAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATATTTTTATTTATAAAAAA
Done.