Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009011.1 Hibiscus syriacus cultivar Beakdansim tig00112399_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: 579188
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 4
Found at i:6161 original size:23 final size:23
Alignment explanation
Indices: 6134--6178 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6124 GGTAAGTGAT
*
6134 TATTAATTTT-TTTGTTTTTTTTA
1 TATT-ATTTTATTTATTTTTTTTA
6157 TATTATTTTATTTATTTTTTTT
1 TATTATTTTATTTATTTTTTTT
6179 CTCTTCTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (23 bp):
TATTATTTTATTTATTTTTTTTA
Found at i:6267 original size:20 final size:23
Alignment explanation
Indices: 6220--6268 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
6210 AATCTATGTC
6220 TTTGTGACATGTTTTTCTCTACT
1 TTTGTGACATGTTTTTCTCTACT
*
6243 CTTGTGACAT-TTTTT-T-TACT
1 TTTGTGACATGTTTTTCTCTACT
6263 TTTGTG
1 TTTGTG
6269 GCACGTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 1 0.04
22 5 0.21
23 9 0.38
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.59
Consensus pattern (23 bp):
TTTGTGACATGTTTTTCTCTACT
Found at i:6652 original size:60 final size:60
Alignment explanation
Indices: 6575--6756 Score: 179
Period size: 60 Copynumber: 3.0 Consensus size: 60
6565 TCATACGTCT
* * * *
6575 TCAATCTATGACCATCATTTTAAATTGGTTCATAAACTTTTAAATATTTCAATTTCATCC
1 TCAAACTATGACTATCATTTTAAATTGGTTCCTAAACTTTTGAATATTTCAATTTCATCC
* ** *
6635 TTAAACTATGACTATCATTTTAAATT-AATCCTCAAACTTTTGAATATTTCATTTTCATCC
1 TCAAACTATGACTATCATTTTAAATTGGTTCCT-AAACTTTTGAATATTTCAATTTCATCC
* * * ** * * *
6695 CCAAAATGTGA-TATTCATTCAAAATTGGTCCCTAAACTTTTTGAATTTTTCAATTTTATCC
1 TCAAACTATGACTA-TCATTTTAAATTGGTTCCTAAAC-TTTTGAATATTTCAATTTCATCC
6756 T
1 T
6757 AAATTATATG
Statistics
Matches: 97, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
59 5 0.05
60 69 0.71
61 23 0.24
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.44
Consensus pattern (60 bp):
TCAAACTATGACTATCATTTTAAATTGGTTCCTAAACTTTTGAATATTTCAATTTCATCC
Found at i:7013 original size:59 final size:59
Alignment explanation
Indices: 6896--7070 Score: 196
Period size: 59 Copynumber: 2.9 Consensus size: 59
6886 TATGGGGATG
* * * * * *
6896 AAATTAGAA-GATCTAAAAGTTTAGGGACCAATTTAGAATGAGATTCATAGTTTG-GGTTA
1 AAATTAGAATG-TTTAAAAGTTTA-AGACTAATTTAGAATAAGAGTCATAATTTGAGGTTA
*
6955 AAATTGGAATGTTTAAAAGTTTAAGACTAATTTAGAATAAGAGTCATAATTTGAGGTTA
1 AAATTAGAATGTTTAAAAGTTTAAGACTAATTTAGAATAAGAGTCATAATTTGAGGTTA
* *
7014 AAATTAGAGTGTTTAAAAGTTTAAGCACTAGTTTA-AGATAAG-GATCATAATTTGAGG
1 AAATTAGAATGTTTAAAAGTTTAAG-ACTAATTTAGA-ATAAGAG-TCATAATTTGAGG
7071 GCATATGATG
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
58 25 0.25
59 49 0.49
60 27 0.27
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.34
Consensus pattern (59 bp):
AAATTAGAATGTTTAAAAGTTTAAGACTAATTTAGAATAAGAGTCATAATTTGAGGTTA
Found at i:10205 original size:20 final size:20
Alignment explanation
Indices: 10182--10228 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
10172 GTTTCCAAAT
10182 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
*
10202 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
10222 TCGCAAC
1 TCGCAAC
10229 ACATAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:10265 original size:20 final size:20
Alignment explanation
Indices: 10236--10349 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
10226 AACACATAAG
*
10236 TCAAAATCGCAACGCG-TTT
1 TCAAATTCGCAACGCGATTT
*
10255 TCTAAATTCGCAACGTGATTT
1 TC-AAATTCGCAACGCGATTT
* * *
10276 ACAAATTCGCAACACTGAATT
1 TCAAATTCGCAACGC-GATTT
*
10297 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACGCGATTT
* *
10317 TCGAATTCGCAACACGAATTT
1 TCAAATTCGCAACGCG-ATTT
*
10338 T-AATTTCGCAAC
1 TCAAATTCGCAAC
10350 AGGTTTTATT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.03
20 50 0.64
21 26 0.33
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (20 bp):
TCAAATTCGCAACGCGATTT
Found at i:10308 original size:41 final size:40
Alignment explanation
Indices: 10253--10349 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 40
10243 CGCAACGCGT
10253 TTTCTAAATTCGCAACGT-GATTTACAAATTCGCAACACTGAA
1 TTTC-AAATTCGCAAC-TCGATTTACAAATTCGCAACAC-GAA
* *
10295 TTTCAAATTCGCAACTCGATTTTCGAATTCGCAACACGAA
1 TTTCAAATTCGCAACTCGATTTACAAATTCGCAACACGAA
* *
10335 TTTTAATTTCGCAAC
1 TTTCAAATTCGCAAC
10350 AGGTTTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 17 0.34
41 29 0.58
42 4 0.08
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (40 bp):
TTTCAAATTCGCAACTCGATTTACAAATTCGCAACACGAA
Found at i:10350 original size:20 final size:19
Alignment explanation
Indices: 10281--10369 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 19
10271 GATTTACAAA
* *
10281 TTCGCAACACTGAATTTCAAA
1 TTCGCAACAC-G-ATTTTAAT
*
10302 TTCGCAACTCGATTTTCGAA-
1 TTCGCAACACGATTTT--AAT
10322 TTCGCAACACGAATTTTAAT
1 TTCGCAACACG-ATTTTAAT
* *
10342 TTCGCAACA-GGTTTTATT
1 TTCGCAACACGATTTTAAT
10360 TTCGCAACAC
1 TTCGCAACAC
10370 AAATGTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
18 15 0.26
19 7 0.12
20 20 0.34
21 16 0.28
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (19 bp):
TTCGCAACACGATTTTAAT
Found at i:11156 original size:12 final size:12
Alignment explanation
Indices: 11135--11168 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11125 ACCGCATTTC
*
11135 CAATACCAAACA
1 CAATATCAAACA
11147 CAATATCAAACA
1 CAATATCAAACA
*
11159 CAATCTCAAA
1 CAATATCAAA
11169 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:11321 original size:24 final size:24
Alignment explanation
Indices: 11294--11347 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
11284 ATATTCGAAA
11294 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
11318 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
11342 TTTGAT
1 TTTGAT
11348 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:13623 original size:12 final size:12
Alignment explanation
Indices: 13608--13642 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13598 AGAAAAAAGA
13608 AATCAAAATCGC
1 AATCAAAATCGC
*
13620 AATCAAAATCCC
1 AATCAAAATCGC
*
13632 AATCACAATCG
1 AATCAAAATCG
13643 ACTTCACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.29, G:0.06, T:0.17
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:14117 original size:25 final size:25
Alignment explanation
Indices: 14074--14125 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
14064 AAATCAATTA
* * *
14074 AACATTGTTGTGTGTACATTATTTG
1 AACATTGTTATGGGAACATTATTTG
14099 AACATTGTTATGGGAACATTATTTG
1 AACATTGTTATGGGAACATTATTTG
14124 AA
1 AA
14126 AATTAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (25 bp):
AACATTGTTATGGGAACATTATTTG
Found at i:14530 original size:18 final size:18
Alignment explanation
Indices: 14509--14544 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14499 GTAATTGGAG
14509 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
14527 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
14545 AATAAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:14552 original size:24 final size:24
Alignment explanation
Indices: 14501--14553 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
14491 TTTCATATGT
* * *
14501 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
14525 AATTTGAGTTTGAATTTCAAA-ATA
1 AATTTGAGTTTGAATTT-AAATATA
14549 AATTT
1 AATTT
14554 CGACTCCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:15724 original size:6 final size:6
Alignment explanation
Indices: 15713--15759 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
15703 AAGCAAAAGG
*
15713 AAATCA AAATCA AAATCA AAATCA CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
15760 CCAATCACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:15742 original size:24 final size:24
Alignment explanation
Indices: 15714--15766 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
15704 AGCAAAAGGA
15714 AATCAAAATCAAAATCAAAATCAC
1 AATCAAAATCAAAATCAAAATCAC
*
15738 AATCAAAATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCAAAATCAC
15762 AATCA
1 AATCA
15767 CAACCGGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (24 bp):
AATCAAAATCAAAATCAAAATCAC
Found at i:16198 original size:64 final size:64
Alignment explanation
Indices: 16096--16248 Score: 227
Period size: 64 Copynumber: 2.4 Consensus size: 64
16086 AATTTAAAAC
* *
16096 AACAAATCAACTTTTACAAATTAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATCA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATCA
*** * * *
16160 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATCA
16224 AACAAATCAAC-TTTACAAATCAATT
1 AACAAATCAACTTTTACAAATCAATT
16249 TTTACAAATG
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
63 14 0.17
64 67 0.83
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATCA
Found at i:16241 original size:13 final size:14
Alignment explanation
Indices: 16225--16257 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16215 CATCAATTAA
16225 ACAAATCAA-CTTT
1 ACAAATCAATCTTT
*
16238 ACAAATCAATTTTT
1 ACAAATCAATCTTT
16252 ACAAAT
1 ACAAAT
16258 GCATCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAATCTTT
Found at i:17613 original size:21 final size:21
Alignment explanation
Indices: 17584--17689 Score: 88
Period size: 21 Copynumber: 5.0 Consensus size: 21
17574 GAACGGTGGG
*
17584 AGGGACCTCTTGAATGATGACA
1 AGGG-CCTCTTGAACGATGACA
* **
17606 AGGGCCTCTTGAACGGTGGGA
1 AGGGCCTCTTGAACGATGACA
* * *
17627 GGGGCCTCTTGAAGGATGATA
1 AGGGCCTCTTGAACGATGACA
* * **
17648 GGGGCCTCTTGAATGAT-AGG
1 AGGGCCTCTTGAACGATGACA
17668 AGAGGCCTCTTGAACGATGACA
1 AG-GGCCTCTTGAACGATGACA
17690 GGTGCTTCAG
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
20 2 0.03
21 59 0.89
22 5 0.08
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (21 bp):
AGGGCCTCTTGAACGATGACA
Found at i:17635 original size:42 final size:42
Alignment explanation
Indices: 17569--17689 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 42
17559 GTGAATCGGG
* * *
17569 CTCTCGAACGGTGGGAGGGACCTCTTGAATGATGACAAGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAAGGGC
* * *
17611 CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAAGGGC
* * * *
17653 CTCTTGAATGATAGGAGAGGCCTCTTGAACGATGACA
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACA
17690 GGTGCTTCAG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAAGGGC
Found at i:18050 original size:63 final size:63
Alignment explanation
Indices: 17983--18125 Score: 155
Period size: 63 Copynumber: 2.3 Consensus size: 63
17973 CGTAGAGTGG
* *
17983 CTACCTCATCACGTAAA-GTAGATACCTCACCACG-TAAAGCACCATTGTCATCGCGTAAAACAT
1 CTACCTCATCACGTAAAGGTAG-TACCTCACCACGCCAAA-CACCATTGTCATCACGTAAAACAT
* * * * * **
18046 CTACCTCACCACGTAAAGGTCGTACCTCATCACGCCATACACCATTGTCTTCACGTAAAGTAT
1 CTACCTCATCACGTAAAGGTAGTACCTCACCACGCCAAACACCATTGTCATCACGTAAAACAT
* *
18109 CGACCTCCTCACGTAAA
1 CTACCTCATCACGTAAA
18126 ATATTAACCT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
63 61 0.92
64 5 0.08
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.23
Consensus pattern (63 bp):
CTACCTCATCACGTAAAGGTAGTACCTCACCACGCCAAACACCATTGTCATCACGTAAAACAT
Found at i:18135 original size:21 final size:21
Alignment explanation
Indices: 18096--18145 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
18086 ACCATTGTCT
* * *
18096 TCACGTAAAGTATCGACCTCC
1 TCACGTAAAATATCAACCTCA
*
18117 TCACGTAAAATATTAACCTCA
1 TCACGTAAAATATCAACCTCA
*
18138 TTACGTAA
1 TCACGTAA
18146 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (21 bp):
TCACGTAAAATATCAACCTCA
Found at i:20337 original size:20 final size:20
Alignment explanation
Indices: 20312--20362 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
20302 TAAACGCGCT
20312 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
20332 TTGCGAATTTGACTTCTTTG
1 TTGCGAATTTGACTTCTGTG
*
20352 CTGCGAATTTG
1 TTGCGAATTTG
20363 GAAAATCGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:20380 original size:21 final size:21
Alignment explanation
Indices: 20354--20394 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20344 CTTCTTTGCT
*
20354 GCGAATTTGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
*
20375 GCGAATTCGTAAAATCGCAA
1 GCGAATTCGGAAAATCGCAA
20395 TTCGATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:22560 original size:20 final size:20
Alignment explanation
Indices: 22522--22560 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22512 ACTAAAATCA
* * *
22522 TGTTGCGATTTTTATTTTCG
1 TGTTGCGAATTTAAGTTTCG
22542 TGTTGCGAATTTAAGTTTC
1 TGTTGCGAATTTAAGTTTC
22561 AAATAGTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (20 bp):
TGTTGCGAATTTAAGTTTCG
Found at i:27329 original size:93 final size:93
Alignment explanation
Indices: 27170--27355 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
27160 TTTTGGCCAC
27170 TCGTCTTTAAAAAATTAGTGCTGATGTTGATGTCTCATCATAAGATCATGTCACATCATGATTGA
1 TCGTCTTTAAAAAATTAGTGCTGATGTTGATGTCTCATCATAAGATCATGTCACATCATGATTGA
27235 AAAATAATTTAAAATGTCATATTAACAT
66 AAAATAATTTAAAATGTCATATTAACAT
*
27263 TCGTCTTTAAAAAATTAGTGCTGATGTTGATGTCTCATCATAAGATCATGTCACGTCATGATTGA
1 TCGTCTTTAAAAAATTAGTGCTGATGTTGATGTCTCATCATAAGATCATGTCACATCATGATTGA
27328 AAAATAATTTAAAATGTCATATTAACAT
66 AAAATAATTTAAAATGTCATATTAACAT
27356 ATTTCTTAAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (93 bp):
TCGTCTTTAAAAAATTAGTGCTGATGTTGATGTCTCATCATAAGATCATGTCACATCATGATTGA
AAAATAATTTAAAATGTCATATTAACAT
Found at i:27518 original size:36 final size:37
Alignment explanation
Indices: 27478--27550 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
27468 GTGGGGTAAC
*
27478 CAAATAGTTAATTTATACTGAATAAAAAAA-ATGTAT
1 CAAATAGTTAATTTACACTGAATAAAAAAATATGTAT
27514 CAAATAGTTAATTTACACTGAATAAAAAAATATGTAT
1 CAAATAGTTAATTTACACTGAATAAAAAAATATGTAT
27551 GAATTATGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 29 0.83
37 6 0.17
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (37 bp):
CAAATAGTTAATTTACACTGAATAAAAAAATATGTAT
Found at i:35445 original size:19 final size:19
Alignment explanation
Indices: 35421--35458 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35411 TAAACTGCAC
35421 TTTTGTAAACACGTTTAAA
1 TTTTGTAAACACGTTTAAA
35440 TTTTGTAAACACGTTTAAA
1 TTTTGTAAACACGTTTAAA
35459 AGTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTTGTAAACACGTTTAAA
Found at i:40582 original size:71 final size:72
Alignment explanation
Indices: 40501--40655 Score: 224
Period size: 71 Copynumber: 2.2 Consensus size: 72
40491 TTGTGCCAGC
* * *
40501 CATCATGATCACC-TGGACCATGGACATAAACATGAACATGCTCATAGTCATGACAACCATGATT
1 CATCATGATCACCAT-GACCATGGACACAAACATGAAAATGCTCATAGTAATGACAACCATGATT
40565 CTGCCCA-
65 CTGCCCAT
* * * *
40572 CATCATGATCACCATGACCATGGACACAAACATGAAAATGCTCATATTAATGACCATCATGATTG
1 CATCATGATCACCATGACCATGGACACAAACATGAAAATGCTCATAGTAATGACAACCATGATTC
40637 TGCCCAT
66 TGCCCAT
40644 CATCATGATCAC
1 CATCATGATCAC
40656 AATCATCATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 62 0.83
72 13 0.17
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (72 bp):
CATCATGATCACCATGACCATGGACACAAACATGAAAATGCTCATAGTAATGACAACCATGATTC
TGCCCAT
Found at i:43369 original size:3 final size:3
Alignment explanation
Indices: 43361--43387 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
43351 CTAAAACTCT
43361 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
43388 CTCCTCCCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:51289 original size:42 final size:43
Alignment explanation
Indices: 51238--51505 Score: 246
Period size: 43 Copynumber: 6.3 Consensus size: 43
51228 GGAAAAAAAT
51238 GATTGAAAAAATTAGGGACTTCAATTATAAAGGTAAAAAGTGA
1 GATTGAAAAAATTAGGGACTTCAATTATAAAGGTAAAAAGTGA
* * * *
51281 GATTAAAAAAATTAGGGACCTCAATTTTAAAGGTAAAGAGTGA
1 GATTGAAAAAATTAGGGACTTCAATTATAAAGGTAAAAAGTGA
* * * * *
51324 AATTGAAAAAA-TAGGG-GTCTAAATTATATAA-GTAAAAAATGG
1 GATTGAAAAAATTAGGGACT-TCAATTATA-AAGGTAAAAAGTGA
* * * * *
51366 GATTGAAAAAAGTAAGAGCCTT-AATTATAAAGATTAAAAGTGA
1 GATTGAAAAAA-TTAGGGACTTCAATTATAAAGGTAAAAAGTGA
* *
51409 GATT-AAAAAATTAGGGATCTT-AATTATAAAGGTAGAATGTGA
1 GATTGAAAAAATTAGGGA-CTTCAATTATAAAGGTAAAAAGTGA
* * *
51451 GATTAAAAAAATTA-GGATCATCAATTA-AAATGTAAAAAAAGTGA
1 GATTGAAAAAATTAGGGA-CTTCAATTATAAAGGT--AAAAAGTGA
51495 GATTGAAAAAA
1 GATTGAAAAAA
51506 ATTAAAATAC
Statistics
Matches: 181, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
41 4 0.02
42 73 0.40
43 82 0.45
44 21 0.12
45 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (43 bp):
GATTGAAAAAATTAGGGACTTCAATTATAAAGGTAAAAAGTGA
Found at i:51477 original size:85 final size:85
Alignment explanation
Indices: 51238--51505 Score: 278
Period size: 85 Copynumber: 3.1 Consensus size: 85
51228 GGAAAAAAAT
51238 GATTGAAAAAATTAGGGA-CTTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAGGGACCT
1 GATTGAAAAAATTAGGGATCTT-AATTATAAAGGTAAAAAGTGAGATTAAAAAAATTA-GGACCT
* *
51302 CAATTTTAAAG-GTAAAGAGTGA
64 CAATTATAAAGAATAAA-AGTGA
* * * * * * * *
51324 AATTGAAAAAA-TAGGGGTCTAAATTATATAA-GTAAAAAATGGGATTGAAAAAAGTAAGAGCCT
1 GATTGAAAAAATTAGGGATCTTAATTATA-AAGGTAAAAAGTGAGATTAAAAAAATTAGGA-CCT
* *
51387 TAATTATAAAGATTAAAAGTGA
64 CAATTATAAAGAATAAAAGTGA
* * *
51409 GATT-AAAAAATTAGGGATCTTAATTATAAAGGTAGAATGTGAGATTAAAAAAATTAGGATCATC
1 GATTGAAAAAATTAGGGATCTTAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAGGA-CCTC
*
51473 AATTA-AAATGTAAAAAAAGTGA
65 AATTATAAA-G-AATAAAAGTGA
51495 GATTGAAAAAA
1 GATTGAAAAAA
51506 ATTAAAATAC
Statistics
Matches: 147, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
84 13 0.09
85 97 0.66
86 31 0.21
87 6 0.04
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (85 bp):
GATTGAAAAAATTAGGGATCTTAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAGGACCTCA
ATTATAAAGAATAAAAGTGA
Found at i:60461 original size:2 final size:2
Alignment explanation
Indices: 60454--60507 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
60444 CCAAACCCCA
60454 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
60496 AT AT AT AT AT AT
1 AT AT AT AT AT AT
60508 TAAAAAGAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61748 original size:40 final size:40
Alignment explanation
Indices: 61704--61866 Score: 290
Period size: 40 Copynumber: 4.1 Consensus size: 40
61694 AGTAGTATAC
*
61704 ATAAGAGTGTACATGAATTATAGTTTGAATAAATAAAATT
1 ATAAGAGTGTACATGAATTAAAGTTTGAATAAATAAAATT
* *
61744 ATAAGAGCGTACATGAATTAAAGTTTGATTAAATAAAATT
1 ATAAGAGTGTACATGAATTAAAGTTTGAATAAATAAAATT
*
61784 ATAAGAGTGCACATGAATTAAAGTTTGAATAAATAAAATT
1 ATAAGAGTGTACATGAATTAAAGTTTGAATAAATAAAATT
61824 ATAAGAGTGTACATGAATTAAAGTTTGAATAAATAAAATT
1 ATAAGAGTGTACATGAATTAAAGTTTGAATAAATAAAATT
61864 ATA
1 ATA
61867 TTTTATATTT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.33
Consensus pattern (40 bp):
ATAAGAGTGTACATGAATTAAAGTTTGAATAAATAAAATT
Found at i:63299 original size:332 final size:332
Alignment explanation
Indices: 62684--63347 Score: 1102
Period size: 332 Copynumber: 2.0 Consensus size: 332
62674 ATTCTTTTAC
*
62684 AATTATTTTATAACTCGACAAATTTTAATTTTTGCATGAAATTACATAATACGTATAATATATAT
1 AATTATTTTATAACTCGACAAATTTTAATTTTTGCATGAAATTACACAATACGTATAATATATAT
*
62749 AGGAAAACTTTGAGGGTAAATATTTTAAAATATGAATAATTTTATAAATATTTTATAACTAGTAT
66 AGGAAAACTTTGAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAATTTTATAACTAGTAT
* *
62814 TTCTTTTTCAAAATGATGATGATAATGATAATAAATATTTTATAATTTAAAAATTATATATGTTA
131 TTATTTTTCAAAATGATGATG--AATGATAATAAATATTTTATAATTTAAAAATTATAAATGTTA
62879 TATATTTTTGAAAAACAAATTGACTTTATATTTTTTTGTATTGAATTTTATTCACTTTTAATTCT
194 TATATTTTTG-AAAACAAATTGACTTTATATTTTTTTGTATTGAATTTTATTCACTTTTAATTCT
* * *
62944 TTTTTATTATATTTTTTAAAAAAATGAATAATAATTCATTTGATCTATCAATTGT-AATTAAAAT
258 TTTTTATTATATTTTTAAAAAAAATGAATAATAATTCATTTAATCTATCAATTGTAAATAAAAAT
*
63008 TTTTTTTGTA
323 TTATTTTGTA
* * *
63018 AATTATTTTATAACTCGACAAATTTTGATTTTTGCATGAAATTACACAATATGTATAATCTAGTA
1 AATTATTTTATAACTCGACAAATTTTAATTTTTGCATGAAATTACACAATACGTATAATATA-TA
*
63083 TAGGAAAACTTTGAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAATTTTATAACTATTA
65 TAGGAAAACTTTGAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAATTTTATAACTAGTA
*
63148 TTTATTTTTCAAAATGATGATG-ATGATAATAAATATTTTATAATTTAAAAATTATAAATTTTAT
130 TTTATTTTTCAAAATGATGATGAATGATAATAAATATTTTATAATTTAAAAATTATAAATGTTAT
63212 ATAATTTTTTG-AAA-AAATTGACTTTATATTCTTTTTGTATTGAATTTTATTCACTTTTAATTC
195 AT-A-TTTTTGAAAACAAATTGACTTTATATT-TTTTTGTATTGAATTTTATTCACTTTTAATTC
* *
63275 TTTTTTATTGTATTTTTAAAAAAAATGAATAATAATTCATTTAATTTATCAATTGTAAATAAAAA
257 TTTTTTATTATATTTTTAAAAAAAATGAATAATAATTCATTTAATCTATCAATTGTAAATAAAAA
63340 TTTATTTT
322 TTTATTTT
63348 AATATTTTTA
Statistics
Matches: 310, Mismatches: 15, Indels: 11
0.92 0.04 0.03
Matches are distributed among these distances:
331 16 0.05
332 129 0.42
333 15 0.05
334 64 0.21
335 86 0.28
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (332 bp):
AATTATTTTATAACTCGACAAATTTTAATTTTTGCATGAAATTACACAATACGTATAATATATAT
AGGAAAACTTTGAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAATTTTATAACTAGTAT
TTATTTTTCAAAATGATGATGAATGATAATAAATATTTTATAATTTAAAAATTATAAATGTTATA
TATTTTTGAAAACAAATTGACTTTATATTTTTTTGTATTGAATTTTATTCACTTTTAATTCTTTT
TTATTATATTTTTAAAAAAAATGAATAATAATTCATTTAATCTATCAATTGTAAATAAAAATTTA
TTTTGTA
Found at i:63498 original size:21 final size:21
Alignment explanation
Indices: 63443--63500 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
63433 AAAGTTGACG
*
63443 TTTTTATTGAATTTTATTCAC
1 TTTTTATTGATTTTTATTCAC
* ** *
63464 TTTTAATTCTTTTTTATTGTA-
1 TTTTTATTGATTTTTATT-CAC
63485 TTTTTATTGATTTTTA
1 TTTTTATTGATTTTTA
63501 AAAAAAATAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTATTGATTTTTATTCAC
Found at i:63499 original size:10 final size:10
Alignment explanation
Indices: 63443--63500 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
63433 AAAGTTGACG
63443 TTTTTATTGA
1 TTTTTATTGA
* *
63453 ATTTTATTCA
1 TTTTTATTGA
* **
63463 CTTTTAATTCT
1 -TTTTTATTGA
63474 TTTTTATTGTA
1 TTTTTATTG-A
63485 TTTTTATTGA
1 TTTTTATTGA
63495 TTTTTA
1 TTTTTA
63501 AAAAAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 22 0.58
11 16 0.42
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (10 bp):
TTTTTATTGA
Found at i:63569 original size:22 final size:21
Alignment explanation
Indices: 63543--63605 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
63533 GATTGTAATT
63543 AAAAGTATAAAAATGCAATAAA
1 AAAAGTATAAAAATG-AATAAA
* *
63565 AAAAGAATTAAAATTGAATAAA
1 AAAAGTA-TAAAAATGAATAAA
63587 ATTAAA-TATAAAAA-GAATA
1 A--AAAGTATAAAAATGAATA
63606 TAAAGTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 5 0.15
22 18 0.53
23 8 0.24
24 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AAAAGTATAAAAATGAATAAA
Found at i:63738 original size:11 final size:11
Alignment explanation
Indices: 63708--63739 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
63698 GAAATACTAG
*
63708 TTATAAAACTT
1 TTATAAAATTT
63719 TTATAAAATTT
1 TTATAAAATTT
63730 TTATAAAATT
1 TTATAAAATT
63740 ATTCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATAAAATTT
Found at i:66620 original size:15 final size:16
Alignment explanation
Indices: 66600--66632 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
66590 GAGGATAGTT
66600 TTAGTTCAT-ATTAGG
1 TTAGTTCATAATTAGG
*
66615 TTAGTTTATAATTAGG
1 TTAGTTCATAATTAGG
66631 TT
1 TT
66633 TTTATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (16 bp):
TTAGTTCATAATTAGG
Found at i:66765 original size:17 final size:18
Alignment explanation
Indices: 66733--66767 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66723 ATTTATCCAT
*
66733 TTATTTGTCCCGATTTTA
1 TTATTTGTCCCAATTTTA
66751 TTATTT-TCCCAATTTTA
1 TTATTTGTCCCAATTTTA
66768 GTTTTAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.57
Consensus pattern (18 bp):
TTATTTGTCCCAATTTTA
Found at i:81095 original size:15 final size:15
Alignment explanation
Indices: 81077--81105 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
81067 AATAAACTAA
81077 TGATAATTAAATTAT
1 TGATAATTAAATTAT
81092 TGATAATTAAATTA
1 TGATAATTAAATTA
81106 ATATGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
TGATAATTAAATTAT
Found at i:81142 original size:62 final size:59
Alignment explanation
Indices: 81040--81161 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 59
81030 AGTGAAGTTA
*
81040 AAATTAATAATATTATTTTAAATTTATAATAAACTAATGATAATTAAATTATTGATAATT
1 AAATTAATAATATTATTTTAAATTTATAATAAACTAATGATAATTAAATTAAT-ATAATT
*
81100 AAATTAAT-ATGATTACTTTTTAAATTT-T-ATAAATTATTATGATAATTAAATTAATATAATT
1 AAATTAATAAT-ATTA--TTTTAAATTTATAATAAACTA--ATGATAATTAAATTAATATAATT
81161 A
1 A
81162 CTTTTTAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
59 2 0.04
60 19 0.35
61 8 0.15
62 26 0.47
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (59 bp):
AAATTAATAATATTATTTTAAATTTATAATAAACTAATGATAATTAAATTAATATAATT
Found at i:81169 original size:21 final size:21
Alignment explanation
Indices: 81098--81170 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
81088 TTATTGATAA
*
81098 TTAAATTAATATGATTACTTT
1 TTAAATTAATATAATTACTTT
* *
81119 TTAAATT-TTATAAATTATTATGAT
1 TTAAATTAATAT-AATTACT-T--T
81143 AATTAAATTAATATAATTACTTT
1 --TTAAATTAATATAATTACTTT
81166 TTAAA
1 TTAAA
81171 ATTAGTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
20 3 0.08
21 17 0.43
22 1 0.03
23 1 0.03
24 1 0.03
25 1 0.03
26 13 0.32
27 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (21 bp):
TTAAATTAATATAATTACTTT
Found at i:84845 original size:29 final size:29
Alignment explanation
Indices: 84803--84860 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
84793 TGTGGTGTTG
84803 TCTCTTAGTTTTAAATTTATTCAATTAGT
1 TCTCTTAGTTTTAAATTTATTCAATTAGT
84832 TCTCTTAGTTTTAAATTTATTCAATTAGT
1 TCTCTTAGTTTTAAATTTATTCAATTAGT
84861 CAAATTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (29 bp):
TCTCTTAGTTTTAAATTTATTCAATTAGT
Found at i:85276 original size:47 final size:48
Alignment explanation
Indices: 85196--85345 Score: 184
Period size: 49 Copynumber: 3.2 Consensus size: 48
85186 AGTTCATATG
* *
85196 TAAAT-TATACTATATACTATATATA-GTTA-ATGTATAA-TATATAGTA
1 TAAATATAAACTATATA-TATATATAGGTCATATGTA-AACTATATAGTA
*
85242 TAAA-ATAAACTATAGATATATATAGGTCATATGTAAACTATATAGTA
1 TAAATATAAACTATATATATATATAGGTCATATGTAAACTATATAGTA
* *
85289 TAAATATCAACTAGTATATATATATAGGTCATATGTAAACTATATAGTT
1 TAAATATAAACTA-TATATATATATAGGTCATATGTAAACTATATAGTA
*
85338 TATATATA
1 TAAATATA
85346 GTTCATATGT
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
45 8 0.09
46 18 0.20
47 18 0.20
48 7 0.08
49 39 0.43
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (48 bp):
TAAATATAAACTATATATATATATAGGTCATATGTAAACTATATAGTA
Found at i:85364 original size:29 final size:30
Alignment explanation
Indices: 85307--85371 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
85297 AACTAGTATA
85307 TATATATAGGTCATATGTAAACTATATAGTT
1 TATATATAGGTCATATGTAAAC-ATATAGTT
* *
85338 TATATATAGTTCATATGTAAGC-TATAGTT
1 TATATATAGGTCATATGTAAACATATAGTT
85367 TATAT
1 TATAT
85372 GTAAATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 12 0.38
31 20 0.62
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (30 bp):
TATATATAGGTCATATGTAAACATATAGTT
Found at i:85364 original size:49 final size:47
Alignment explanation
Indices: 85262--85431 Score: 119
Period size: 49 Copynumber: 3.4 Consensus size: 47
85252 TATAGATATA
* * ** *
85262 TATAGGTCATATGTAAACTATATAGTATAAATATCAACTAGTATATATA-
1 TATAGGTCATATGTAAACTATATAGTTTATATAT-AGTTA-TATGTA-AC
85311 TATAGGTCATATGTAAACTATATAGTTTATATATAGTTCATATGTAAGC
1 TATAGGTCATATGTAAACTATATAGTTTATATATAGTT-ATATGTAA-C
* *
85360 TATAGTTTATATGTAAA-TATAATTAGTATATAAACTATATAGTTTATATGTAAAC
1 TATAGGTCATATGTAAACTAT-A-TAGT-T-T--A-TATATAG-TTATATGT-AAC
* *
85415 TATAGTTCATATATAAA
1 TATAGGTCATATGTAAA
85432 TATCAACCTT
Statistics
Matches: 100, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
47 1 0.01
48 10 0.10
49 49 0.49
50 4 0.04
51 1 0.01
52 1 0.01
54 1 0.01
55 29 0.29
56 4 0.04
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (47 bp):
TATAGGTCATATGTAAACTATATAGTTTATATATAGTTATATGTAAC
Found at i:85365 original size:18 final size:18
Alignment explanation
Indices: 85342--85431 Score: 85
Period size: 18 Copynumber: 4.9 Consensus size: 18
85332 ATAGTTTATA
*
85342 TATAGTTCATATGTAAGC
1 TATAGTTCATATGTAAAC
*
85360 TATAGTTTATATGTAAA-
1 TATAGTTCATATGTAAAC
* *
85377 TATAATT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
*
85395 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATGTAAAC
*
85415 TATAGTTCATATATAAA
1 TATAGTTCATATGTAAA
85432 TATCAACCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.02
17 13 0.22
18 30 0.51
20 14 0.24
21 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:85380 original size:37 final size:38
Alignment explanation
Indices: 85339--85431 Score: 106
Period size: 37 Copynumber: 2.5 Consensus size: 38
85329 TATATAGTTT
* *
85339 ATATATAGTTCATATGTAAGC-TATAGTTTATATGTAA
1 ATATATAGTTCATATATAAACATATAGTTTATATGTAA
85376 ATATA-A-TT-AGTATATAAACTATATAGTTTATATGTAA
1 ATATATAGTTCA-TATATAAAC-ATATAGTTTATATGTAA
*
85413 A-CTATAGTTCATATATAAA
1 ATATATAGTTCATATATAAA
85432 TATCAACCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
34 1 0.02
35 9 0.19
36 3 0.06
37 23 0.49
38 10 0.21
39 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (38 bp):
ATATATAGTTCATATATAAACATATAGTTTATATGTAA
Found at i:85409 original size:55 final size:57
Alignment explanation
Indices: 85340--85492 Score: 193
Period size: 55 Copynumber: 2.6 Consensus size: 57
85330 ATATAGTTTA
* * *
85340 TATATAGTTCATATGTAAGCTATAGTTTATATGTAAATAT-AA-TTAGTATATAAAC
1 TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTTAGTATATAAAC
* *
85395 TATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACCTTAGTATATACATATTTA
1 TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAA-CTTAGTATATA-A-A---C
85458 TATATAGTTCATATGTAAACTATAGTTCATATATA
1 TATATAGTTCATATGTAAACTATAGTTCATATATA
85493 TAGTATATAA
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
55 36 0.43
56 2 0.02
58 10 0.12
59 1 0.01
60 1 0.01
63 34 0.40
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (57 bp):
TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTTAGTATATAAAC
Found at i:85493 original size:31 final size:32
Alignment explanation
Indices: 85475--85537 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
85465 TTCATATGTA
85475 AACTATAGTTCATATATATAGTATATAAATAT
1 AACTATAGTTCATATATATAGTATATAAATAT
*
85507 AACTATAGTTTATATA-ATAGTATA-AAATAT
1 AACTATAGTTCATATATATAGTATATAAATAT
85537 A
1 A
85538 GTATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 7 0.23
31 8 0.27
32 15 0.50
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (32 bp):
AACTATAGTTCATATATATAGTATATAAATAT
Found at i:85499 original size:18 final size:18
Alignment explanation
Indices: 85441--85499 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
85431 ATATCAACCT
* *
85441 TAGTATA-TACATATTTA
1 TAGTATAGTTCATATATA
*
85458 TA-TATAGTTCATATGTA
1 TAGTATAGTTCATATATA
* *
85475 AACTATAGTTCATATATA
1 TAGTATAGTTCATATATA
85493 TAGTATA
1 TAGTATA
85500 TAAATATAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 4 0.12
17 11 0.32
18 19 0.56
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (18 bp):
TAGTATAGTTCATATATA
Found at i:85536 original size:15 final size:13
Alignment explanation
Indices: 85490--85551 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 13
85480 TAGTTCATAT
*
85490 ATATAGTATATAA
1 ATATAATATATAA
**
85503 ATATAACTATAGTTT
1 ATATAA-TATA-TAA
85518 ATATAATAGTATAAA
1 ATATAATA-TAT-AA
*
85533 ATATAGTATATAA
1 ATATAATATATAA
85546 ATATAA
1 ATATAA
85552 ATTATAGTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
13 12 0.32
14 10 0.26
15 16 0.42
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (13 bp):
ATATAATATATAA
Found at i:85538 original size:12 final size:13
Alignment explanation
Indices: 85503--85550 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
85493 TAGTATATAA
*
85503 ATATAACTATAGT
1 ATATAAATATAGT
* *
85516 TTATATA-ATAGT
1 ATATAAATATAGT
85528 ATA-AAATATAGT
1 ATATAAATATAGT
85540 ATATAAATATA
1 ATATAAATATA
85551 AATTATAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 2 0.07
12 15 0.54
13 11 0.39
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:85568 original size:20 final size:20
Alignment explanation
Indices: 85490--85560 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 20
85480 TAGTTCATAT
85490 ATATAGTATATAAATAT-AA
1 ATATAGTATATAAATATAAA
*
85509 CTATAGTTTATATAATAGTATAAA
1 ATATAG--TATATAA-A-TATAAA
85533 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
85553 TTATAGTA
1 ATATAGTA
85561 GTTTAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.11
20 13 0.30
21 8 0.18
22 8 0.18
23 3 0.07
24 7 0.16
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:85579 original size:47 final size:43
Alignment explanation
Indices: 85490--85584 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 43
85480 TAGTTCATAT
* **
85490 ATATAGTATATAAATATAACTATAGTTTATATAATAGTATAAA
1 ATATAGTATATAAATATAAATATAGTTTATATAATAAAATAAA
85533 ATATAGTATATAAATATAAATTATAGTAGTT-TAATAAATAAAATAAA
1 ATATAGTATATAAATATAAA-TATAGT--TTAT-AT-AATAAAATAAA
85580 ATATA
1 ATATA
85585 AATCCTAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
43 19 0.43
44 6 0.14
45 1 0.02
46 4 0.09
47 14 0.32
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (43 bp):
ATATAGTATATAAATATAAATATAGTTTATATAATAAAATAAA
Found at i:85618 original size:9 final size:9
Alignment explanation
Indices: 85604--85723 Score: 62
Period size: 9 Copynumber: 13.9 Consensus size: 9
85594 CCCCTAAACC
*
85604 ATATATTAT
1 ATATATAAT
85613 ATATATAAT
1 ATATATAAT
85622 ATATA-AA-
1 ATATATAAT
*
85629 CTATATAAT
1 ATATATAAT
*
85638 -TATACAAT
1 ATATATAAT
85646 ATATAT-AT
1 ATATATAAT
*
85654 AGTTTATAATT
1 A-TATATAA-T
*
85665 ATACATAA-
1 ATATATAAT
85673 ATATATAA-
1 ATATATAAT
85681 ATATA-AAT
1 ATATATAAT
*
85689 -TGTAT--T
1 ATATATAAT
85695 ATATATAATT
1 ATATATAA-T
85705 CAATATATAAT
1 --ATATATAAT
*
85716 TTATATAA
1 ATATATAA
85724 ACTATGTAGT
Statistics
Matches: 86, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
6 1 0.01
7 13 0.15
8 26 0.30
9 28 0.33
10 7 0.08
11 3 0.03
12 8 0.09
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (9 bp):
ATATATAAT
Found at i:85844 original size:15 final size:15
Alignment explanation
Indices: 85826--85855 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
85816 TACTTATACT
85826 TTATACATATATATA
1 TTATACATATATATA
*
85841 TTATATATATATATA
1 TTATACATATATATA
85856 AACATATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATACATATATATA
Found at i:85847 original size:24 final size:24
Alignment explanation
Indices: 85764--85847 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 24
85754 ATATATAAAC
* **
85764 TATATAGTATTATAGTTTATACATGG
1 TATATA-T-TTATACTTTATACATAA
85790 TATATATTTATAC-TT-TACATAA
1 TATATATTTATACTTTATACATAA
* *
85812 TTTATACTTATACTTTATACAT-A
1 TATATATTTATACTTTATACATAA
85835 TATATATTATATA
1 TATATATT-TATA
85848 TATATATAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 16 0.33
23 11 0.23
24 14 0.29
25 1 0.02
26 6 0.12
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (24 bp):
TATATATTTATACTTTATACATAA
Found at i:85882 original size:23 final size:23
Alignment explanation
Indices: 85841--85915 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 23
85831 CATATATATA
85841 TTATATATATATATAAACATATAGT
1 TTATATATATA-AT-AACATATAGT
* *
85866 TTATATATATAATAACATGTA-C
1 TTATATATATAATAACATATAGT
85888 TT-TATATATAA-AACTATATAGT
1 TTATATATATAATAAC-ATATAGT
85910 TTATAT
1 TTATAT
85916 TAATATATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 3 0.07
21 13 0.30
22 4 0.09
23 10 0.23
24 2 0.05
25 11 0.26
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (23 bp):
TTATATATATAATAACATATAGT
Found at i:86371 original size:204 final size:211
Alignment explanation
Indices: 85951--86746 Score: 1041
Period size: 213 Copynumber: 3.8 Consensus size: 211
85941 TTTTTTATCA
* * * *
85951 ACTTATTACTTATTTCTATTTATTAATTGGTCCATAA-TTTTT-AATGAGTATAATTTAGTACAT
1 ACTTATTACTTATTTATATTT-TAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
86014 TTTTGTATTAATTTCAACCTCAAAATTTAAATTA-TTCGATTTGATCCCT-T-T-TGTGTTGTTT
65 TTTTGTATTAATTTCAACCTCAAAATTTAAATTATTTCGATTTGATCCCTATATGTGTGTTGTTT
*
86075 AATATATTTAATTTTTTATTTGTAA-TTCATATTTTGTTC-ATTTAGT-CTCCAAA-TTTATTTG
130 AATATATTTAAATTTTTATTTGTAATTTCATA-TTTGTTCAATTTAGTCCTCCAAATTTTATTTG
* * *
86136 CACCTGAAGTTGGCCCAT
194 CATCTGAAATTGACCCAT
*
86154 ACTTATTACTTATTTATATTTTAAATTGGCCCATAACTTTTTAAATG-GTATAATTTAGCACCTT
1 ACTTATTACTTATTTATATTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTA-CTT
*
86218 TTTT-T-TTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCT-T-T-TGTGTTGTT
65 TTTTGTATTAATTTCAACCTCAAAATTT-AAATTATTTCGATTTGATCCCTATATGTGTGTTGTT
*
86278 TAATATA-TTAAA-TTTTATTT-TAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATATG
129 TAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTG
86340 CATCTGAAATTGACCCAT
194 CATCTGAAATTGACCCAT
* *
86358 ACTTATTACTTATTTCTATTTTAAATTGACCCATAACTTTTTAAATGAGTATAATTTAGTACTTT
1 ACTTATTACTTATTTATATTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTTT
* *
86423 TTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTG
66 TTTGTATTAATTTCAACCTCAAAATTT-AAATTATTTCGATTTGATCCCT-AT--ATGTGTGTTG
* *
86488 -TTAATTTATTTAAATTTTTATTTGT-ATTCCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
127 TTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
* * *
86551 TGCATATG-AATTGATCAAT
192 TGCATCTGAAATTGACCCAT
* * *
86570 ACTTATTACTTAATTCTATTTTTTTAATTGGCCCATAACTTTTTAAA-GGGTATAATTTAGTACT
1 ACTTATTACTT-ATT-TATATTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACT
* *
86634 TTTTTGTATTAATTTCAATCTCACAA-TTAAATTATTTCGA-TTGATCCCTCATCAACGTGTGTG
64 TTTTTGTATTAATTTCAACCTCAAAATTTAAATTATTTCGATTTGATCCCT-AT--A--TGTGTG
*
86697 TTGTTTAATTTATTTAAATTTTTA-TTGTAATTTCATATTTGTTCAATTTA
124 TTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
86747 ATTCTTAAAT
Statistics
Matches: 535, Mismatches: 31, Indels: 44
0.88 0.05 0.07
Matches are distributed among these distances:
201 10 0.02
202 55 0.10
203 55 0.10
204 116 0.22
205 13 0.02
206 41 0.08
208 1 0.00
210 15 0.03
211 20 0.04
212 47 0.09
213 134 0.25
214 28 0.05
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (211 bp):
ACTTATTACTTATTTATATTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTTT
TTTGTATTAATTTCAACCTCAAAATTTAAATTATTTCGATTTGATCCCTATATGTGTGTTGTTTA
ATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
TCTGAAATTGACCCAT
Found at i:89832 original size:164 final size:162
Alignment explanation
Indices: 89538--89864 Score: 579
Period size: 164 Copynumber: 2.0 Consensus size: 162
89528 TCTCTGCAGC
89538 TCTACAAGGATTTAAAGGGGGCTGAGGCAAGGGTTGGCTAAAGGCTTAGCCATTGGAAGCAATGA
1 TCTACAAGGATTTAAAGGGGGCTGAGGCAAGGGTTGGCTAAAGGCTTAGCCATTGGAAGCAATGA
89603 ATTCAATTTGCCGTTTGGGCTTCATTATTTACTATGGTAGCGGAATGGTTATGTATCACGGAGCT
66 ATTCAATTTGCCGTTTGGGCTTCATTATTTACTATGGTAGCGGAATGGTTATGTATCACGGAGCT
89668 AAGGGCGGAACTATA-TCATTG-GGGTACTTG
131 AAGGGCGGAACTATATTCATTGTGGGTACTTG
89698 TCTACAAGGATCTTTAAAGTTGGGGCTGAGGCAAGGGTTGGCTAAAGGCTTAGCCATTGGAAGCA
1 TCTACAAGGA--TTTAAAG--GGGGCTGAGGCAAGGGTTGGCTAAAGGCTTAGCCATTGGAAGCA
*
89763 ATGAATTCAATTTG-CGTTTGGGCTTTCATTATTTACTATGGTAGCGGAATGGTTATGTATCATG
62 ATGAATTCAATTTGCCGTTTGGGC-TTCATTATTTACTATGGTAGCGGAATGGTTATGTATCACG
89827 GAGCTAAGGGCGGAACTATATTCATTGTGGGTACTTG
126 GAGCTAAGGGCGGAACTATATTCATTGTGGGTACTTG
89864 T
1 T
89865 ATTGCTTTGG
Statistics
Matches: 159, Mismatches: 1, Indels: 8
0.95 0.01 0.05
Matches are distributed among these distances:
160 10 0.06
162 7 0.04
163 9 0.06
164 117 0.74
165 6 0.04
166 10 0.06
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (162 bp):
TCTACAAGGATTTAAAGGGGGCTGAGGCAAGGGTTGGCTAAAGGCTTAGCCATTGGAAGCAATGA
ATTCAATTTGCCGTTTGGGCTTCATTATTTACTATGGTAGCGGAATGGTTATGTATCACGGAGCT
AAGGGCGGAACTATATTCATTGTGGGTACTTG
Found at i:90480 original size:93 final size:93
Alignment explanation
Indices: 90321--90507 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
90311 GAGGAGACAT
90321 ACTACTTGATGGGGTTTCAATTAAAAAATTGCAGCTCAAGTTGTCAAGGTCACAAATGGGGTTGG
1 ACTACTTGATGGGGTTTCAATTAAAAAATTGCAGCTCAAGTTGTCAAGGTCACAAATGGGGTTGG
90386 TGAGTCAAGAGCCTACACTTTTTGTAAC
66 TGAGTCAAGAGCCTACACTTTTTGTAAC
90414 ACTACTTGATGGGGTTTCAATTAAAAAATTGCAGCTCAAGTTGTCAAGGTCACAAATGGGGTTGG
1 ACTACTTGATGGGGTTTCAATTAAAAAATTGCAGCTCAAGTTGTCAAGGTCACAAATGGGGTTGG
90479 TGAGTCAAGAGCCTACACTTTTTGTAAC
66 TGAGTCAAGAGCCTACACTTTTTGTAAC
90507 A
1 A
90508 ACCATTAAAG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (93 bp):
ACTACTTGATGGGGTTTCAATTAAAAAATTGCAGCTCAAGTTGTCAAGGTCACAAATGGGGTTGG
TGAGTCAAGAGCCTACACTTTTTGTAAC
Found at i:93874 original size:20 final size:20
Alignment explanation
Indices: 93849--93902 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
93839 TGTGGCAGGC
93849 AGACATCTAAAACTCATGTT
1 AGACATCTAAAACTCATGTT
93869 AGACATCTAAAACTCATGTT
1 AGACATCTAAAACTCATGTT
* *
93889 AGATATTTAAAACT
1 AGACATCTAAAACT
93903 AATGCTCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (20 bp):
AGACATCTAAAACTCATGTT
Found at i:95099 original size:19 final size:19
Alignment explanation
Indices: 95066--95102 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
95056 ATGACCAACA
*
95066 AAATCGCAATACGATCTCT
1 AAATCGCAACACGATCTCT
*
95085 AAATCGCAACGCGATCTC
1 AAATCGCAACACGATCTC
95103 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCGCAACACGATCTCT
Found at i:98360 original size:18 final size:18
Alignment explanation
Indices: 98337--98371 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
98327 AGCAAAAGGC
*
98337 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
98355 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
98372 CAACCGGCTT
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:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:98562 original size:20 final size:20
Alignment explanation
Indices: 98537--98646 Score: 74
Period size: 20 Copynumber: 5.8 Consensus size: 20
98527 TTACACATTC
98537 ATTTGAATATCGCAACACGA
1 ATTTGAATATCGCAACACGA
*
98557 ATTTGACTATCGC-A-ACG-
1 ATTTGAATATCGCAACACGA
* * *
98574 --CT-AAAATCGCAACGCGA
1 ATTTGAATATCGCAACACGA
* *
98591 ATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACACGA
* *
98611 ACTTGATTATCGCAACGA-GA
1 ATTTGAATATCGCAAC-ACGA
98631 ATTT-AACTATCGCAAC
1 ATTTGAA-TATCGCAAC
98647 GAGAAAATTG
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
16 2 0.03
18 3 0.04
19 3 0.04
20 53 0.77
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (20 bp):
ATTTGAATATCGCAACACGA
Found at i:98592 original size:34 final size:34
Alignment explanation
Indices: 98545--98685 Score: 138
Period size: 34 Copynumber: 4.0 Consensus size: 34
98535 TCATTTGAAT
* *
98545 ATCGCAACACGAATTTGACTATCGCAACGCTAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAAA
98579 ATCGCAACGCGAATTTGACTATCGCAACGCGAACTTGA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAA----A
* * *
98617 TTATCGCAACGAGAATTTAACTATCGCAACGAGAAA
1 --ATCGCAACGCGAATTTGACTATCGCAACGCGAAA
* * * * *
98653 ATTGCAAAGCGTATTAGACTATCGCAACACGAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAA
98686 TTGACTTTCG
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
34 56 0.64
36 1 0.01
38 1 0.01
40 30 0.34
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAAA
Found at i:98647 original size:20 final size:20
Alignment explanation
Indices: 98579--98651 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
98569 CAACGCTAAA
*
98579 ATCGCAACGCGAATTTGACT
1 ATCGCAACGAGAATTTGACT
* * *
98599 ATCGCAACGCGAACTTGATT
1 ATCGCAACGAGAATTTGACT
*
98619 ATCGCAACGAGAATTTAACT
1 ATCGCAACGAGAATTTGACT
98639 ATCGCAACGAGAA
1 ATCGCAACGAGAA
98652 AATTGCAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAGAATTTGACT
Found at i:98673 original size:74 final size:73
Alignment explanation
Indices: 98539--98689 Score: 196
Period size: 74 Copynumber: 2.1 Consensus size: 73
98529 ACACATTCAT
* ** * *
98539 TTGAATATCGCAACACGAATTTGACTATCGCAACGCTAAAATCGCAACGCGAATTTGACTATCGC
1 TTGAATATCGCAACACGAATTTAACTATCGCAACGAGAAAATCGCAAAGCGAATTAGACTATCGC
*
98604 AACGCGAA
66 AACACGAA
* * *
98612 CTTGATTATCGCAACGA-GAATTTAACTATCGCAACGAGAAAATTGCAAAGCGTATTAGACTATC
1 -TTGAATATCGCAAC-ACGAATTTAACTATCGCAACGAGAAAATCGCAAAGCGAATTAGACTATC
98676 GCAACACGAA
64 GCAACACGAA
98686 TTGA
1 TTGA
98690 CTTTCGCGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
73 4 0.06
74 62 0.93
75 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (73 bp):
TTGAATATCGCAACACGAATTTAACTATCGCAACGAGAAAATCGCAAAGCGAATTAGACTATCGC
AACACGAA
Found at i:98715 original size:20 final size:20
Alignment explanation
Indices: 98690--98728 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
98680 CACGAATTGA
*
98690 CTTTCGCGTTGCGATTTTGG
1 CTTTCGCATTGCGATTTTGG
98710 CTTTCGCATTGCGATTTTG
1 CTTTCGCATTGCGATTTTG
98729 AGTTTAGCGT
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:0.08, C:0.21, G:0.26, T:0.46
Consensus pattern (20 bp):
CTTTCGCATTGCGATTTTGG
Found at i:100610 original size:12 final size:12
Alignment explanation
Indices: 100587--100623 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
100577 TCTCTTCGTT
100587 TCTTTTTCCCTTC
1 TCTTTTT-CCTTC
100600 TCTTTTTCCTTC
1 TCTTTTTCCTTC
100612 TCTTTTTCCTTC
1 TCTTTTTCCTTC
100624 ACCCTCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTTTTCCTTC
Found at i:101865 original size:15 final size:15
Alignment explanation
Indices: 101845--101873 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
101835 GTAGAAAAAT
101845 CATCCCCAACGGCTC
1 CATCCCCAACGGCTC
101860 CATCCCCAACGGCT
1 CATCCCCAACGGCT
101874 ATATACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.52, G:0.14, T:0.14
Consensus pattern (15 bp):
CATCCCCAACGGCTC
Found at i:103856 original size:20 final size:20
Alignment explanation
Indices: 103833--103870 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
103823 ATATGTACTT
*
103833 AATTTTAACAATTAGTATCA
1 AATTTAAACAATTAGTATCA
*
103853 AATTTAAACAATTGGTAT
1 AATTTAAACAATTAGTAT
103871 TGCATAAAGT
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:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AATTTAAACAATTAGTATCA
Found at i:104253 original size:21 final size:19
Alignment explanation
Indices: 104197--104253 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 19
104187 CAACAATTGG
104197 TAACAATTGATA--TTTTT
1 TAACAATTGATATCTTTTT
*
104214 TAACAATTGATGTCATTTTGT
1 TAACAATTGATATC-TTTT-T
104235 TAACAATTGATATCTTTTT
1 TAACAATTGATATCTTTTT
104254 CATTAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 11 0.32
19 1 0.03
20 8 0.24
21 14 0.41
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (19 bp):
TAACAATTGATATCTTTTT
Found at i:107431 original size:23 final size:23
Alignment explanation
Indices: 107401--107451 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
107391 TTTCTATTTT
*
107401 CAAAAAAAAAAAAAAACAAAAGG
1 CAAAAAAAAAAAAAAACAAAAGC
* * *
107424 CAAAAAAAGAAAGAAAGAAAAGC
1 CAAAAAAAAAAAAAAACAAAAGC
107447 CAAAA
1 CAAAA
107452 TTTCAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.78, C:0.10, G:0.12, T:0.00
Consensus pattern (23 bp):
CAAAAAAAAAAAAAAACAAAAGC
Found at i:117356 original size:12 final size:12
Alignment explanation
Indices: 117341--117410 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
117331 TGATACGTTG
117341 TCTGAATTCTGT
1 TCTGAATTCTGT
* *
117353 TCTG-ATTTTGA
1 TCTGAATTCTGT
*
117364 TCTGGATTCTGT
1 TCTGAATTCTGT
*
117376 TCTG-ATATCTGA
1 TCTGAAT-TCTGT
*
117388 TATGAATTCTGT
1 TCTGAATTCTGT
* *
117400 TTTGATTTCTG
1 TCTGAATTCTG
117411 ATATCTCCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 11 0.24
12 33 0.72
13 2 0.04
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (12 bp):
TCTGAATTCTGT
Found at i:117396 original size:24 final size:23
Alignment explanation
Indices: 117343--117414 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 23
117333 ATACGTTGTC
* *
117343 TGAATTCTGTTCTGATTTTGATC
1 TGAATTCTGTTCTGATTCTGATA
*
117366 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGAT-TCTGATA
*
117390 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGA-TTCTGATA
117414 T
1 T
117415 CTCCGTTTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.36
24 26 0.62
25 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.51
Consensus pattern (23 bp):
TGAATTCTGTTCTGATTCTGATA
Found at i:122507 original size:24 final size:23
Alignment explanation
Indices: 122480--122566 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 23
122470 ATTTCCGAAT
122480 TGAATTCTGTTCTGATACGTTG-TC
1 TGAATTCTGTTCTGATAC--TGATC
*
122504 TGAATTCTGTTCTGATTCTGATC
1 TGAATTCTGTTCTGATACTGATC
* *
122527 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATA-CTGATC
*
122551 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
122567 TTCTGATATC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
22 2 0.04
23 17 0.31
24 36 0.65
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTGATC
Found at i:122517 original size:12 final size:12
Alignment explanation
Indices: 122480--122571 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
122470 ATTTCCGAAT
122480 TGAATTCTGTTC
1 TGAATTCTGTTC
*
122492 TG-ATAC-GTTGTC
1 TGAATTCTG-T-TC
122504 TGAATTCTGTTC
1 TGAATTCTGTTC
*
122516 TG-ATTCTGATC
1 TGAATTCTGTTC
*
122527 TGGATTCTGTTC
1 TGAATTCTGTTC
* *
122539 TG-ATATCTGATA
1 TGAAT-TCTGTTC
*
122551 TGAATTCTGTTT
1 TGAATTCTGTTC
*
122563 TGATTTCTG
1 TGAATTCTG
122572 ATATCTCCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 1 0.02
11 16 0.25
12 40 0.62
13 6 0.09
14 1 0.02
ACGTcount: A:0.17, C:0.14, G:0.20, T:0.49
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:122534 original size:47 final size:48
Alignment explanation
Indices: 122466--122573 Score: 125
Period size: 47 Copynumber: 2.3 Consensus size: 48
122456 AAATATTTTA
* * *
122466 TCTGATTTCCGAAT-TGAATTCTGTTCTGATA-CGTTG-TCTGAATTCTGT
1 TCTGATTTCTG-ATCTGGATTCTGTTCTGATATC--TGATATGAATTCTGT
122514 TCTGA-TTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
*
122561 TTTGATTTCTGAT
1 TCTGATTTCTGAT
122574 ATCTCCGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
46 4 0.08
47 35 0.67
48 13 0.25
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
Found at i:122571 original size:24 final size:24
Alignment explanation
Indices: 122466--122575 Score: 102
Period size: 24 Copynumber: 4.6 Consensus size: 24
122456 AAATATTTTA
*
122466 TCTGATTTCCGA-ATTGAATTCTGT
1 TCTGATTTCTGATA-TGAATTCTGT
* *
122490 TCTGA-TACGTTG-TCTGAATTCTGT
1 TCTGATTTC--TGATATGAATTCTGT
* *
122514 TCTGA-TTCTGATCTGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
122537 TCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
122561 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
122576 CTCCGTTTAC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
22 2 0.03
23 18 0.25
24 50 0.70
25 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:135665 original size:2 final size:2
Alignment explanation
Indices: 135658--135683 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
135648 AATCATTTAA
135658 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
135684 TATTGTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:136167 original size:65 final size:65
Alignment explanation
Indices: 136046--136170 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 65
136036 TAAGTCACGG
* * * * *
136046 ATTCGAGCATTAGCGACTACAACAGGATGATCGAGGGTTCATTATCAAACGGTTGAGAGTCACAA
1 ATTCGAGCATCAACGACTACAACAGGATGATCGAGAGTTCATTATAAAACGATTGAGAGTCACAA
* * * **
136111 ATTCGAGCATCAACGGCTACAACAGGGTGATTGAGAGTTCATTATAAAATTATTGAGAGT
1 ATTCGAGCATCAACGACTACAACAGGATGATCGAGAGTTCATTATAAAACGATTGAGAGT
136171 ATTTAAAACA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (65 bp):
ATTCGAGCATCAACGACTACAACAGGATGATCGAGAGTTCATTATAAAACGATTGAGAGTCACAA
Found at i:137361 original size:2 final size:2
Alignment explanation
Indices: 137354--137391 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
137344 TACGTAATGT
*
137354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
137392 TAGAAGTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:139307 original size:16 final size:16
Alignment explanation
Indices: 139283--139356 Score: 121
Period size: 16 Copynumber: 4.6 Consensus size: 16
139273 ACCAAAGATG
139283 TCAACTTTGCCAACTT
1 TCAACTTTGCCAACTT
*
139299 TCAATTTTGCCAACTT
1 TCAACTTTGCCAACTT
*
139315 TCAACTTTGTCAACTT
1 TCAACTTTGCCAACTT
*
139331 TCAATTTTGCCAACTT
1 TCAACTTTGCCAACTT
139347 TCAACTTTGC
1 TCAACTTTGC
139357 TAATATTTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.42
Consensus pattern (16 bp):
TCAACTTTGCCAACTT
Found at i:139329 original size:32 final size:32
Alignment explanation
Indices: 139283--139356 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
139273 ACCAAAGATG
139283 TCAACTTTGCCAACTTTCAATTTTGCCAACTT
1 TCAACTTTGCCAACTTTCAATTTTGCCAACTT
*
139315 TCAACTTTGTCAACTTTCAATTTTGCCAACTT
1 TCAACTTTGCCAACTTTCAATTTTGCCAACTT
139347 TCAACTTTGC
1 TCAACTTTGC
139357 TAATATTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.42
Consensus pattern (32 bp):
TCAACTTTGCCAACTTTCAATTTTGCCAACTT
Found at i:144074 original size:16 final size:16
Alignment explanation
Indices: 144050--144123 Score: 103
Period size: 16 Copynumber: 4.6 Consensus size: 16
144040 ACCAAAGATG
144050 TCAACTTTGCCAACTT
1 TCAACTTTGCCAACTT
* *
144066 TCAATTTTGCCAAATT
1 TCAACTTTGCCAACTT
*
144082 TCAACTTTGTCAACTT
1 TCAACTTTGCCAACTT
*
144098 TCAATTTTGCCAACTT
1 TCAACTTTGCCAACTT
*
144114 TTAACTTTGC
1 TCAACTTTGC
144124 TAATATTTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (16 bp):
TCAACTTTGCCAACTT
Found at i:144086 original size:32 final size:32
Alignment explanation
Indices: 144050--144123 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
144040 ACCAAAGATG
144050 TCAACTTTGCCAACTTTCAATTTTGCCAAATT
1 TCAACTTTGCCAACTTTCAATTTTGCCAAATT
* *
144082 TCAACTTTGTCAACTTTCAATTTTGCCAACTT
1 TCAACTTTGCCAACTTTCAATTTTGCCAAATT
*
144114 TTAACTTTGC
1 TCAACTTTGC
144124 TAATATTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (32 bp):
TCAACTTTGCCAACTTTCAATTTTGCCAAATT
Found at i:145445 original size:12 final size:10
Alignment explanation
Indices: 145403--145443 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
145393 TTTATCACAC
145403 CAAATTCTCT
1 CAAATTCTCT
145413 CAAATTCTCT
1 CAAATTCTCT
145423 -AAATTTCTCT
1 CAAA-TTCTCT
*
145433 CAAATACTCT
1 CAAATTCTCT
145443 C
1 C
145444 TCGTATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:145736 original size:111 final size:111
Alignment explanation
Indices: 145542--145755 Score: 410
Period size: 111 Copynumber: 1.9 Consensus size: 111
145532 ATATATTTCT
*
145542 ACACTTCGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
1 ACACTTCGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
145607 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
*
145653 ACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
1 ACACTTCGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
145718 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
145756 TTTTTGTAAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (111 bp):
ACACTTCGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
Found at i:149176 original size:82 final size:80
Alignment explanation
Indices: 149090--149430 Score: 277
Period size: 82 Copynumber: 4.2 Consensus size: 80
149080 GATTCTGACT
** * * * * * *
149090 ATCGCATTGCGATTTCCCAAATTCGCGTTTCGATTTTCCTAATTCGCAATGCGAATACGTAAATC
1 ATCGCATTGCGATTTCCCAAA-TCGCAATGCGAATTACCAAAATCGCAATGCGATTACGTAAATC
*
149155 ACAATGCGATTACGTAA
65 GCAATGCGATTACGT-A
* * ** ** *
149172 ATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATACGATTACGTAAATCG
1 ATCGCATTGCGATTTCCCAAATCGCAATGCGAATTACCAAAATCGCAATGCGATTACGTAAATCG
* *
149237 CAATGCGAATTAGGAAA
66 CAATGCG-ATTACG-TA
* * * ** * **
149254 ATCGTAATGCGATTACGTAAATAGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCG
1 ATCGCATTGCGATTTCCCAAATCGCAATGCGAATTACCAAAATCGCAATGCGATTACGTAAATCG
*
149319 CAATGCGAATACGTA
66 CAATGCGATTACGTA
* * * * * * * * * * *
149334 ATCACATTGCGATTTTCCTAATTCGCATTGCGATTTACCTAATTCGCATTGCGATTTTCCTAATT
1 ATCGCATTGCGA-TTTCCCAAATCGCAATGCGAATTACCAAAATCGCAATGCGA-TTACGTAAAT
*
149399 CGCATTGCGATTACGTA
64 CGCAATGCGATTACGTA
149416 ATCGCATTGCGATTT
1 ATCGCATTGCGATTT
149431 AGTAAATCGC
Statistics
Matches: 211, Mismatches: 44, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
80 10 0.05
81 76 0.36
82 125 0.59
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (80 bp):
ATCGCATTGCGATTTCCCAAATCGCAATGCGAATTACCAAAATCGCAATGCGATTACGTAAATCG
CAATGCGATTACGTA
Found at i:149227 original size:41 final size:41
Alignment explanation
Indices: 149133--149328 Score: 322
Period size: 41 Copynumber: 4.8 Consensus size: 41
149123 TTTTCCTAAT
* * * *
149133 TCGCAATGCGAATACGTAAATCACAATGCG-ATTACGTAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
149173 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
*
149214 TCGCAATACGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
* *
149255 TCGTAATGCGATTACGTAAATAGCAATGCGAATTAGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
149296 TCGCAATGCGATTACGTAAATCGCAATGCGAAT
1 TCGCAATGCGATTACGTAAATCGCAATGCGAAT
149329 ACGTAATCAC
Statistics
Matches: 145, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 28 0.19
41 117 0.81
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (41 bp):
TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
Found at i:149363 original size:21 final size:21
Alignment explanation
Indices: 149296--149431 Score: 147
Period size: 21 Copynumber: 6.7 Consensus size: 21
149286 ATTAGGAAAA
* * *
149296 TCGCAATGCGA-TTACGTAAA
1 TCGCATTGCGATTTACCTAAT
* * *
149316 TCGCAATGCGA-ATACGTAA-
1 TCGCATTGCGATTTACCTAAT
* *
149335 TCACATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
149356 TCGCATTGCGATTTACCTAAT
1 TCGCATTGCGATTTACCTAAT
*
149377 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
*
149398 TCGCATTGCGA-TTACGTAA-
1 TCGCATTGCGATTTACCTAAT
149417 TCGCATTGCGATTTA
1 TCGCATTGCGATTTA
149432 GTAAATCGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
19 20 0.20
20 32 0.31
21 50 0.49
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTACCTAAT
Found at i:149389 original size:42 final size:40
Alignment explanation
Indices: 149294--149430 Score: 168
Period size: 42 Copynumber: 3.4 Consensus size: 40
149284 GAATTAGGAA
* * * * * * *
149294 AATCGCAATGCGA-TTACGTAAATCGCAATGCGAATACGT
1 AATCGCATTGCGATTTTCCTAATTCGCATTGCGATTACCT
*
149333 AATCACATTGCGATTTTCCTAATTCGCATTGCGATTTACCT
1 AATCGCATTGCGATTTTCCTAATTCGCATTGCGA-TTACCT
*
149374 AATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTACGT
1 AA-TCGCATTGCGATTTTCCTAATTCGCATTGCGATTACCT
149415 AATCGCATTGCGATTT
1 AATCGCATTGCGATTT
149431 AGTAAATCGC
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 11 0.13
40 30 0.35
41 13 0.15
42 31 0.36
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (40 bp):
AATCGCATTGCGATTTTCCTAATTCGCATTGCGATTACCT
Found at i:149440 original size:20 final size:20
Alignment explanation
Indices: 149133--149442 Score: 302
Period size: 20 Copynumber: 15.3 Consensus size: 20
149123 TTTTCCTAAT
*
149133 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
*
149153 TCACAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
149173 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
149193 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
*
149214 TCGCAATACGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
149234 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
*
149255 TCGTAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* * *
149275 TAGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
149296 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
*
149316 TCGCAATGCGAATACGT-AA
1 TCGCAATGCGATTACGTAAA
* * * * *
149335 TCACATTGCGATTTTCCTAAT
1 TCGCAATGCGA-TTACGTAAA
* * *
149356 TCGCATTGCGATTTACCTAAT
1 TCGCAATGCGA-TTACGTAAA
* * * *
149377 TCGCATTGCGATTTTCCTAAT
1 TCGCAATGCGA-TTACGTAAA
*
149398 TCGCATTGCGATTACGT-AA
1 TCGCAATGCGATTACGTAAA
*
149417 TCGCATTGCGATTTA-GTAAA
1 TCGCAATGCGA-TTACGTAAA
149437 TCGCAA
1 TCGCAA
149443 CGAGATTCTG
Statistics
Matches: 248, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
19 25 0.10
20 121 0.49
21 102 0.41
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:152893 original size:20 final size:19
Alignment explanation
Indices: 152865--152919 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
152855 CAATCATCTT
*
152865 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
152885 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
152904 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
152920 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:152907 original size:19 final size:17
Alignment explanation
Indices: 152872--153022 Score: 77
Period size: 19 Copynumber: 8.8 Consensus size: 17
152862 CTTAATGTCT
*
152872 ATCGCAACGCGGAAATGA
1 ATCGCAATGC-GAAATGA
152890 CTATCGCAATGCGAAATGAAA
1 --ATCGCAATGCGAAATG--A
*
152911 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
152925 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
152944 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
152958 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
**
152977 ATCGCAA--CG-AGGGA
1 ATCGCAATGCGAAATGA
*
152991 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
153010 ATCGCAACGCGAA
1 ATCGCAATGCGAA
153023 TTTAGTTTCG
Statistics
Matches: 104, Mismatches: 10, Indels: 35
0.70 0.07 0.23
Matches are distributed among these distances:
14 24 0.23
16 14 0.13
17 14 0.13
19 42 0.40
20 9 0.09
21 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.12
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:152929 original size:14 final size:14
Alignment explanation
Indices: 152910--152997 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
152900 GCGAAATGAA
152910 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
152924 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
152943 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
152957 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
152976 AATCGCAACGAGGG
1 AATCGCAACGAGAG
152990 AATCGCAA
1 AATCGCAA
152998 AGCGAAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 27 0.46
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:152934 original size:33 final size:33
Alignment explanation
Indices: 152892--153018 Score: 236
Period size: 33 Copynumber: 3.8 Consensus size: 33
152882 GGAAATGACT
152892 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
152925 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
152958 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
152991 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
153019 CGAATTTAGT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:153070 original size:33 final size:33
Alignment explanation
Indices: 153028--153099 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
153018 GCGAATTTAG
* * *
153028 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATATTCA
153061 TTTCGCGTTGCGATTCTCTCGTTGCGATATTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATATTCA
153094 TTTCGC
1 TTTCGC
153100 ATTACGATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATATTCA
Found at i:153233 original size:14 final size:14
Alignment explanation
Indices: 153214--153250 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
153204 CATCAATTAA
153214 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
153228 ACAAATCATCTTTT
1 ACAAATCAACTTTT
153242 ACAAATCAA
1 ACAAATCAA
153251 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:154629 original size:21 final size:21
Alignment explanation
Indices: 154563--154629 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
154553 GTGAATCGGG
*
154563 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
154583 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
154605 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
154626 CTCT
1 CTCT
154630 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:154648 original size:42 final size:41
Alignment explanation
Indices: 154563--154685 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
154553 GTGAATCGGG
* * * *
154563 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
154605 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
154647 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
154686 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:155106 original size:19 final size:19
Alignment explanation
Indices: 155066--155192 Score: 120
Period size: 19 Copynumber: 6.8 Consensus size: 19
155056 TCTGGAACTT
*
155066 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
155087 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
155106 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
*
155126 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATG
155145 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
155159 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
155178 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
155193 TTATAGTTTC
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 43 0.49
20 18 0.21
21 11 0.13
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:155135 original size:39 final size:39
Alignment explanation
Indices: 155066--155163 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
155056 TCTGGAACTT
* * ** *
155066 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGAG-AGAATGAAAATCGCAACGCGAAATA
155106 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATA
1 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATA
155145 AAAATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
155164 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 40 0.75
40 13 0.25
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.12
Consensus pattern (39 bp):
AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATA
Found at i:155174 original size:33 final size:36
Alignment explanation
Indices: 155090--155189 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 36
155080 AAAAATGACT
*
155090 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGAAATAAAAATCGCAAC--GAGAATG-AA
155129 ATCGCAACGCGAAATAAAAATCGCAACGAG-A-G-A
1 ATCGCAACGCGAAATAAAAATCGCAACGAGAATGAA
* *
155162 ATCGCAATGCGAAATTAAAATCGCAACG
1 ATCGCAACGCGAAATAAAAATCGCAACG
155190 CGATTATAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
33 27 0.47
35 1 0.02
36 1 0.02
37 3 0.05
39 26 0.45
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (36 bp):
ATCGCAACGCGAAATAAAAATCGCAACGAGAATGAA
Found at i:155213 original size:19 final size:19
Alignment explanation
Indices: 155189--155272 Score: 98
Period size: 20 Copynumber: 4.3 Consensus size: 19
155179 AAATCGCAAC
*
155189 GCGATTATAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
155208 GTGATTTTTGGTTTCGCGTT
1 GCGA-TTTTAGTTTCGCGTT
*
155228 GCGATTTTTGGTTTCGCGTT
1 GCGA-TTTTAGTTTCGCGTT
155248 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
155267 GCGATT
1 GCGATT
155273 CTCTCATTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
19 22 0.38
20 36 0.62
ACGTcount: A:0.10, C:0.15, G:0.27, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:155223 original size:20 final size:20
Alignment explanation
Indices: 155198--155272 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
155188 CGCGATTATA
*
155198 GTTTCGCGTTGTGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
155218 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
*
155238 GTTTCGCGTTGCGA-TTTTC
1 GTTTCGCGTTGCGATTTTTG
*
155257 ATTTCGCGTTGCGATT
1 GTTTCGCGTTGCGATT
155273 CTCTCATTGC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 17 0.33
20 34 0.67
ACGTcount: A:0.07, C:0.16, G:0.28, T:0.49
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:155262 original size:39 final size:37
Alignment explanation
Indices: 155189--155333 Score: 127
Period size: 39 Copynumber: 3.9 Consensus size: 37
155179 AAATCGCAAC
* * **
155189 GCGATTATAGTTTCGCGTTGTGATTTTTGGTTTCGCGTT
1 GCGATT-TTGTTTCGCGTTGCGA-TTTTCATTTCGCGTT
155228 GCGATTTTTGGTTTCGCGTTGCGATTTTCATTTCGCGTT
1 GCGA-TTTT-GTTTCGCGTTGCGATTTTCATTTCGCGTT
* * *
155267 GCGA---T-TCTCTCATTGCGATTTTCATTTCGCGTT
1 GCGATTTTGTTTCGCGTTGCGATTTTCATTTCGCGTT
* *
155300 GCGATTTTCATTCTCTCGTTGCGATTTTCATTTC
1 GCGATTTT-GTT-TCGCGTTGCGATTTTCATTTC
155334 AACCAAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
33 29 0.33
35 1 0.01
36 1 0.01
38 1 0.01
39 42 0.47
40 15 0.17
ACGTcount: A:0.10, C:0.19, G:0.22, T:0.48
Consensus pattern (37 bp):
GCGATTTTGTTTCGCGTTGCGATTTTCATTTCGCGTT
Found at i:155321 original size:20 final size:20
Alignment explanation
Indices: 155270--155331 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
155260 TCGCGTTGCG
*
155270 ATTCTCTCATTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
155290 ATT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
155309 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
155329 ATT
1 ATT
155332 TCAACCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.50
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:155532 original size:94 final size:92
Alignment explanation
Indices: 155423--155703 Score: 428
Period size: 94 Copynumber: 3.1 Consensus size: 92
155413 ATGGATTGCA
* *
155423 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
155488 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAAACGAA-AAAT
155516 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
155581 TTAGCAGAATTGGCAGC-AACTGAATAAT
65 TTAGCAGAATTGGCAGCAAAC-GAAAAAT
*
155609 TTACTTCAAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTC-AACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
155670 TTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAAACGAA-AAAT
155699 TTACT
1 TTACT
155704 AAGCAATCTA
Statistics
Matches: 176, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
89 28 0.16
90 10 0.06
92 3 0.02
93 57 0.32
94 78 0.44
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (92 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAAACGAAAAAT
Found at i:157513 original size:20 final size:20
Alignment explanation
Indices: 157488--157550 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
157478 TTTTGGTTGA
157488 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
157508 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
157527 AAATGACTATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
157548 AAT
1 AAT
157551 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:157637 original size:21 final size:21
Alignment explanation
Indices: 157613--157691 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
157603 CGCGTTGCGA
*
157613 TTCTCTCATTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
157634 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
157655 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
157675 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
157692 AAGTTTAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 30 0.59
21 21 0.41
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:157689 original size:20 final size:19
Alignment explanation
Indices: 157621--157691 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 19
157611 GATTCTCTCA
157621 TTGCGATTTTCATTTCTCTCG
1 TTGCGATTTTCATTT-TCT-G
**
157642 TTGCGATAGTCATTTTCGTG
1 TTGCGATTTTCATTTTC-TG
157662 TTGCGATTTTCATTTTCATG
1 TTGCGATTTTCATTTTC-TG
157682 TTGCGATTTT
1 TTGCGATTTT
157692 AAGTTTAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
20 30 0.68
21 14 0.32
ACGTcount: A:0.13, C:0.17, G:0.18, T:0.52
Consensus pattern (19 bp):
TTGCGATTTTCATTTTCTG
Found at i:158256 original size:20 final size:20
Alignment explanation
Indices: 158233--158320 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
158223 CGATAGTCTG
*
158233 ATTCGTATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
158253 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
158273 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGT
* *
158294 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
158314 ATTCGCA
1 ATTCGCA
158321 CTGTGAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 40 0.69
21 18 0.31
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:158286 original size:41 final size:40
Alignment explanation
Indices: 158213--158309 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 40
158203 GCGCTATGTA
** * *
158213 AATCGCATTGCGATAGTCTGATTCGTATTGCGATTTACGT
1 AATCGCATTGCGATTTTCTAATTCGCATTGCGATTTACGT
*
158253 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTT-CTAATTCGCATTGCGATTTACGT
*
158294 AATCGCGTTGCGATTT
1 AATCGCATTGCGATTT
158310 ACGTATTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 14 0.29
41 35 0.71
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (40 bp):
AATCGCATTGCGATTTTCTAATTCGCATTGCGATTTACGT
Found at i:158349 original size:21 final size:21
Alignment explanation
Indices: 158325--158368 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
158315 TTCGCACTGT
158325 GAATTAGGAAAATCGCAACGC
1 GAATTAGGAAAATCGCAACGC
* * *
158346 GAATTTGGGAAATCGCAATGC
1 GAATTAGGAAAATCGCAACGC
158367 GA
1 GA
158369 TAGTCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (21 bp):
GAATTAGGAAAATCGCAACGC
Found at i:158604 original size:6 final size:6
Alignment explanation
Indices: 158589--158637 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
158579 ACATTAAATC
158589 AATT-T AATTCT AATTCT AATTCT AATTCT AATTCT AATT-T AATT-T
1 AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT AATTCT
158634 AATT
1 AATT
158638 AATTTAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 14 0.33
6 29 0.67
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (6 bp):
AATTCT
Done.