Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002372.1 Hibiscus syriacus cultivar Beakdansim tig00004845_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: 133374
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:5261 original size:16 final size:15
Alignment explanation
Indices: 5242--5275 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
5232 ATTATTTTTA
*
5242 TTATATTATATTTATT
1 TTATATT-TAATTATT
5258 TTATATTTAATTATT
1 TTATATTTAATTATT
5273 TTA
1 TTA
5276 ACAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTTAATTATT
Found at i:8481 original size:7 final size:7
Alignment explanation
Indices: 8471--8514 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
8461 TATTATTAAA
8471 TATTTTT
1 TATTTTT
8478 TATTTTT
1 TATTTTT
8485 TATTTTT
1 TATTTTT
8492 TATTTTT
1 TATTTTT
8499 TA-TTTT
1 TATTTTT
*
8505 TATTATT
1 TATTTTT
8512 TAT
1 TAT
8515 ATTCGAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TATTTTT
Found at i:8487 original size:21 final size:20
Alignment explanation
Indices: 8463--8509 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
8453 AATAAAAATA
8463 TTATTAAATATTTTTTATTTT
1 TTATTAAATATTTTTTA-TTT
***
8484 TTATTTTTTATTTTTTATTT
1 TTATTAAATATTTTTTATTT
8504 TTATTA
1 TTATTA
8510 TTTATATTCG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTAAATATTTTTTATTT
Found at i:8497 original size:13 final size:13
Alignment explanation
Indices: 8474--8514 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
8464 TATTAAATAT
8474 TTTTTATTTTTTA
1 TTTTTATTTTTTA
8487 TTTTTTATTTTTTA
1 -TTTTTATTTTTTA
*
8501 TTTTTATTATTTA
1 TTTTTATTTTTTA
8514 T
1 T
8515 ATTCGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:11747 original size:21 final size:21
Alignment explanation
Indices: 11704--11756 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11694 ATTCTGACTA
11704 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * **
11725 TCGCGTTGCGATTTTCCTGAT
1 TCGCATTGCGATTTCCCAAAT
*
11746 TCGCAATGCGA
1 TCGCATTGCGA
11757 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:11944 original size:20 final size:20
Alignment explanation
Indices: 11746--11938 Score: 282
Period size: 20 Copynumber: 9.7 Consensus size: 20
11736 TTTTCCTGAT
*
11746 TCGCAATGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
11766 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
11786 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
11806 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
11826 TCGCAATGCGAAT-CTGTAAA
1 TCGCAACGCGAATAC-GTAAA
*
11846 TCGCAACGAGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
11866 TCGCAATGCGAAT-CTGTAAA
1 TCGCAACGCGAATAC-GTAAA
*
11886 TCGCAACGAGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
* *
11906 TCGCAATGCGAATTCGTAAA
1 TCGCAACGCGAATACGTAAA
*
11926 TCGCAATGCGAAT
1 TCGCAACGCGAAT
11939 CTGTAATTTC
Statistics
Matches: 158, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
19 2 0.01
20 154 0.97
21 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:12762 original size:24 final size:24
Alignment explanation
Indices: 12735--12788 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
12725 GTATTCGAAA
12735 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
12759 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
12783 TTTGAT
1 TTTGAT
12789 GATTTTTCAG
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:15241 original size:20 final size:20
Alignment explanation
Indices: 15185--15292 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
15175 GACATTCATT
15185 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
15205 T--C-A---CAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
*
15219 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* * *
15239 TGACTATCGTAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
15259 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
15279 TGACTATCGCAACG
1 TGACTATCGCAACG
15293 AGAGAATCGC
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.04
14 8 0.11
16 1 0.01
17 2 0.03
18 1 0.01
20 54 0.75
21 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:15325 original size:33 final size:34
Alignment explanation
Indices: 15288--15359 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
15278 ATGACTATCG
15288 CAACGAGAGAATCGCAATGCG-AAATAAAAATCA
1 CAACGAGAGAATCGCAATGCGAAAATAAAAATCA
* * *
15321 CAACGAGTGAATCGCAATGCGAAAATGAAAATCG
1 CAACGAGAGAATCGCAATGCGAAAATAAAAATCA
15355 CAACG
1 CAACG
15360 CAAAATCGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 20 0.57
34 15 0.43
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.12
Consensus pattern (34 bp):
CAACGAGAGAATCGCAATGCGAAAATAAAAATCA
Found at i:15367 original size:33 final size:32
Alignment explanation
Indices: 15264--15367 Score: 102
Period size: 33 Copynumber: 3.1 Consensus size: 32
15254 GGAATTGACT
* **
15264 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGA-A
* * *
15298 ATCGCAATGCGAAATAAAAATCACAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAG-AA
15331 ATCGCAATGCGAAAATGAAAATCGCAACGCA-AA
1 ATCGCAATGCG-AAATGAAAATCGCAACG-AGAA
15364 ATCG
1 ATCG
15368 TTGCGATAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
33 33 0.57
34 24 0.41
35 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:15514 original size:14 final size:14
Alignment explanation
Indices: 15495--15531 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15485 CATCAATTAA
15495 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
15509 ACAAATCATCTTTT
1 ACAAATCAACATTT
15523 ACAAATCAA
1 ACAAATCAA
15532 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:16977 original size:42 final size:42
Alignment explanation
Indices: 16870--16977 Score: 96
Period size: 42 Copynumber: 2.6 Consensus size: 42
16860 TCTAGAATGT
* *
16870 TGGGAG-GGACCTCTTCAACGATGAAAGTGGCCTCTTGAACAG
1 TGGGAGAGG-CCTCTTGAACGATGAAAGGGGCCTCTTGAACAG
* * ** * *
16912 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTTTTGAAC-G
1 TGGGAGAGGCCTCTTGAACGATGAAAGGGGCCTCTTGAACAG
16953 ATAGGG-GAGGCCTCTTGAACGATGA
1 -T-GGGAGAGGCCTCTTGAACGATGA
16978 CAGGTGAGTC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.02
42 46 0.88
43 5 0.10
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGAAAGGGGCCTCTTGAACAG
Found at i:17484 original size:20 final size:20
Alignment explanation
Indices: 17461--17562 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 20
17451 GAAACTTAAA
17461 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
17481 ATCGCAATGC-AAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
17500 ATCGTAA--C-AACAA--A--
1 ATCGCAACGCGAA-AATGACT
17514 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
17534 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
17554 ATCGCAACG
1 ATCGCAACG
17563 AGAGAATCGC
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
14 6 0.09
16 4 0.06
17 5 0.08
18 3 0.05
19 13 0.20
20 34 0.52
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:17632 original size:20 final size:20
Alignment explanation
Indices: 17607--17790 Score: 245
Period size: 20 Copynumber: 9.5 Consensus size: 20
17597 GATTCTTTCG
**
17607 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
**
17627 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
17647 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
17667 TTGCGATAGTCATTTTCTCA
1 TTGCGATAGTCATTTTCGCA
17687 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
17707 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
* *
17727 TTGTGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
17741 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
17761 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
17781 TTGCGATAGT
1 TTGCGATAGT
17791 AAACTATTCT
Statistics
Matches: 147, Mismatches: 11, Indels: 12
0.86 0.06 0.07
Matches are distributed among these distances:
14 6 0.04
16 5 0.03
18 6 0.04
20 130 0.88
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:17665 original size:40 final size:40
Alignment explanation
Indices: 17586--17790 Score: 245
Period size: 40 Copynumber: 5.4 Consensus size: 40
17576 GCGATTTTTA
*
17586 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAA
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* **
17620 ATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
*
17660 TTTCGCATTGCGATAGTCATTTTCTCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* *
17700 TTTCGCATTGCGATAGTCATTTTCACATTGTGAT--TC--
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* *
17736 TCTCG--TTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
17774 TTTCGCATTGCGATAGT
1 TTTCGCATTGCGATAGT
17791 AAACTATTCT
Statistics
Matches: 145, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
34 37 0.26
36 8 0.06
38 10 0.07
40 90 0.62
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
Found at i:17765 original size:54 final size:57
Alignment explanation
Indices: 17625--17783 Score: 216
Period size: 54 Copynumber: 2.8 Consensus size: 57
17615 GTCAAATTCG
** *
17625 CATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCT
1 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATT--GATAG-CATTCTCT
*
17685 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTG-T-G-ATTCTCT
1 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGATAGCATTCTCT
* *
17739 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCATTG
1 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTG
17784 CGATAGTAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
54 48 0.52
56 1 0.01
57 1 0.01
58 1 0.01
60 41 0.45
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (57 bp):
CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGATAGCATTCTCT
Found at i:18183 original size:6 final size:6
Alignment explanation
Indices: 18172--18201 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
18162 AACTCATCCC
*
18172 GTGGAG GTGGAG GTGGAG GTGGAC GTGGAG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
18202 AACAGGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.63, T:0.17
Consensus pattern (6 bp):
GTGGAG
Found at i:19722 original size:20 final size:20
Alignment explanation
Indices: 19674--19713 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19664 CTGAAACTTT
19674 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
19694 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
19714 CTATCGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.20, G:0.15, T:0.10
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:19814 original size:20 final size:20
Alignment explanation
Indices: 19789--19835 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
19779 GATTCTCTCG
19789 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
19809 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
19829 TTGCGAT
1 TTGCGAT
19836 TCACTCGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:20230 original size:22 final size:22
Alignment explanation
Indices: 20169--20230 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
20159 TGACCGTGAA
* *
20169 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
20191 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
20209 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
20231 GGCTGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:20450 original size:20 final size:20
Alignment explanation
Indices: 20427--20502 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
20417 CGATAGTCAG
20427 ATTCGCATTGCAATTTACGT
1 ATTCGCATTGCAATTTACGT
*
20447 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCAATTTACGT
* *
20467 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCAATTTACGT
20487 ATTCGCATTGCGAATT
1 ATTCGCATTGC-AATT
20503 AGGAAAATCG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 48 0.94
21 3 0.06
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCAATTTACGT
Found at i:20519 original size:21 final size:21
Alignment explanation
Indices: 20489--20541 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
20479 ATTTACGTAT
*
20489 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
20510 TCGCAATGCGAATTTGGTAAA
1 TCGCAATGCGAATTAGGAAAA
20531 TCGCAATGCGA
1 TCGCAATGCGA
20542 TAGTCAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:24749 original size:27 final size:28
Alignment explanation
Indices: 24719--24785 Score: 118
Period size: 27 Copynumber: 2.4 Consensus size: 28
24709 CTAAATCCGG
24719 ACCCGACCCGAATATCACACTT-AAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
*
24746 ACCCGACCCAAATATCACACTTAAAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
24774 ACCCGACCCGAA
1 ACCCGACCCGAA
24786 CAAAATAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.45, C:0.36, G:0.07, T:0.12
Consensus pattern (28 bp):
ACCCGACCCGAATATCACACTTAAAAAA
Found at i:25701 original size:43 final size:41
Alignment explanation
Indices: 25653--25806 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 41
25643 TTGCATTTCG
*
25653 CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTTCAAAAT--CGTTGCGATAGTCTACAGTTGT
* **
25696 CGTTGCGAT-TTTCCAAAATCGTTGCGATAGTGGACAGTTGT
1 CGTTGCGATAGTT-CAAAATCGTTGCGATAGTCTACAGTTGT
* * *
25737 TGTTGCGATAGTTTACAAATTCGTTGCGATATTCTACAGTTGT
1 CGTTGCGATAG-TT-CAAAATCGTTGCGATAGTCTACAGTTGT
* *
25780 CGTTGCGAT-TTTCCAAATTCGTTGCGA
1 CGTTGCGATAGTT-CAAAATCGTTGCGA
25807 AAATTCGTTG
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 44 0.47
42 2 0.02
43 48 0.51
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTTCAAAATCGTTGCGATAGTCTACAGTTGT
Found at i:25702 original size:22 final size:22
Alignment explanation
Indices: 25674--25788 Score: 94
Period size: 22 Copynumber: 5.4 Consensus size: 22
25664 TTGAAAATCG
25674 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * ***
25696 CGTTGCGAT--TTTCCA-AAAT
1 CGTTGCGATAGTCTACAGTTGT
**
25715 CGTTGCGATAGTGGACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
25737 TGTTGCGATAGTTTACAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
*
25758 CGTTGCGATATTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
25780 CGTTGCGAT
1 CGTTGCGAT
25789 TTTCCAAATT
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
19 10 0.15
20 4 0.06
21 19 0.28
22 35 0.51
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:25733 original size:41 final size:41
Alignment explanation
Indices: 25674--25806 Score: 194
Period size: 41 Copynumber: 3.2 Consensus size: 41
25664 TTGAAAATCG
*
25674 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAAAT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
** * *
25715 CGTTGCGATAGTGGACAGTTGTTGTTGCGATAGTTTACAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGAT--TTTCCAAATT
*
25758 CGTTGCGATATTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
25799 CGTTGCGA
1 CGTTGCGA
25807 AAATTCGTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 45 0.56
43 35 0.44
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:26444 original size:6 final size:6
Alignment explanation
Indices: 26403--26445 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
26393 TCTCGTCTCG
* *
26403 GGTCG- GGTCG- GGTCGT GATCGT GATCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
26446 AATACGTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.05, C:0.16, G:0.49, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:26587 original size:19 final size:19
Alignment explanation
Indices: 26528--26647 Score: 168
Period size: 19 Copynumber: 6.2 Consensus size: 19
26518 TTAACTATCA
*
26528 CAACGAATTTGGAAAATCG
1 CAACGAATTTAGAAAATCG
* * **
26547 CACCGACAACTGTAGACTATCG
1 CAACG--AA-TTTAGAAAATCG
26569 CAACGAATTTAGAAAATCG
1 CAACGAATTTAGAAAATCG
26588 CAACGAATTTAGAAAATCG
1 CAACGAATTTAGAAAATCG
26607 CAACGAATTTAGAAAATCG
1 CAACGAATTTAGAAAATCG
26626 CAACGAATTTAGAAAATCG
1 CAACGAATTTAGAAAATCG
26645 CAA
1 CAA
26648 TGACAACTGT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
19 73 0.82
20 2 0.02
21 2 0.02
22 12 0.13
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (19 bp):
CAACGAATTTAGAAAATCG
Found at i:26711 original size:21 final size:21
Alignment explanation
Indices: 26687--26729 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
26677 TGGAAATTTA
26687 CGTTGCGATTTTCAACTATCG
1 CGTTGCGATTTTCAACTATCG
26708 CGTTGCGATTTTCAACTATCG
1 CGTTGCGATTTTCAACTATCG
26729 C
1 C
26730 AACGCGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (21 bp):
CGTTGCGATTTTCAACTATCG
Found at i:26736 original size:21 final size:21
Alignment explanation
Indices: 26691--26736 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
26681 AATTTACGTT
***
26691 GCGATTTTCAACTATCGCGTT
1 GCGATTTTCAACTATCGCAAC
26712 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
26733 GCGA
1 GCGA
26737 AATGCAACGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:26926 original size:25 final size:22
Alignment explanation
Indices: 26910--26955 Score: 78
Period size: 20 Copynumber: 2.2 Consensus size: 22
26900 TAGTCACAAT
26910 AATATATTAAAAATTTAATCAA
1 AATATATTAAAAATTTAATCAA
26932 AATATATT--AAATTTAATCAA
1 AATATATTAAAAATTTAATCAA
26952 AATA
1 AATA
26956 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 16 0.67
22 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATATTAAAAATTTAATCAA
Found at i:40310 original size:23 final size:22
Alignment explanation
Indices: 40284--40328 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
40274 TTTTTTATTG
40284 AAAATTTATATTTAAATTATAAT
1 AAAATTTATATTTAAA-TATAAT
* *
40307 AAAATTTATTTTTATATATAAT
1 AAAATTTATATTTAAATATAAT
40329 TACGAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATTTATATTTAAATATAAT
Found at i:43188 original size:20 final size:20
Alignment explanation
Indices: 43163--43200 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43153 AAACCTGGAT
*
43163 TAGTTATTCAGTGAGTGGTA
1 TAGTTATTCAATGAGTGGTA
43183 TAGTTATTCAATGAGTGG
1 TAGTTATTCAATGAGTGG
43201 GATAATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.29, T:0.39
Consensus pattern (20 bp):
TAGTTATTCAATGAGTGGTA
Found at i:44607 original size:132 final size:132
Alignment explanation
Indices: 44274--44669 Score: 598
Period size: 131 Copynumber: 3.0 Consensus size: 132
44264 AAGCAGGATG
*
44274 GTCAAACATAATGTAATGGTTGAATGGGAGGGAAAGATTCGTGCTCGGAATCTTCTTTCATGAAC
1 GTCAAACATAATGTAATGGTTGAATGGGAGGGAAAGACTCGTGCTCGGAATCTTCTTTCATGAAC
* *
44339 CAAGGTAGGCCTCGCAATTAGGCATTGCAAAGCATTTGAAGACGACAATCGGCCGGTCATT-TTA
66 CAAGGTAGGCCTCGCAATTAGGCATTGCAAAGCATTTGAAGACAACAATCGGCCGCTC-TTCTTA
*
44403 ACT
130 ACC
* * *
44406 GT-AAACATAATGTAATGGTTGAATGGGAGGGAAAGACTCATGCTCGGAGTCTTCTTTTATGAAC
1 GTCAAACATAATGTAATGGTTGAATGGGAGGGAAAGACTCGTGCTCGGAATCTTCTTTCATGAAC
* * * *
44470 TAAGGTAGGCCTCGCAATTAGGCATTGCAAAGCATTTGAAGAAAACAATCAGTCGCTCTTCTTAA
66 CAAGGTAGGCCTCGCAATTAGGCATTGCAAAGCATTTGAAGACAACAATCGGCCGCTCTTCTTAA
44535 CC
131 CC
* * * *
44537 GTCAAACATAATGTAATGGTTGAATGGGAGAGAAAGACTGGTGCTCGGAATCTTCTTCCACGAAC
1 GTCAAACATAATGTAATGGTTGAATGGGAGGGAAAGACTCGTGCTCGGAATCTTCTTTCATGAAC
** * *
44602 CAAGGTAGGCCTCAAAATGAGGCATTGCAAAGCATTTGAAGACAACAATTGGCCGCTCTTCTTAA
66 CAAGGTAGGCCTCGCAATTAGGCATTGCAAAGCATTTGAAGACAACAATCGGCCGCTCTTCTTAA
44667 CC
131 CC
44669 G
1 G
44670 AAAAAATACA
Statistics
Matches: 236, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
130 2 0.01
131 117 0.50
132 117 0.50
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
GTCAAACATAATGTAATGGTTGAATGGGAGGGAAAGACTCGTGCTCGGAATCTTCTTTCATGAAC
CAAGGTAGGCCTCGCAATTAGGCATTGCAAAGCATTTGAAGACAACAATCGGCCGCTCTTCTTAA
CC
Found at i:49097 original size:16 final size:17
Alignment explanation
Indices: 49058--49099 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
49048 CATGATTTAG
*
49058 TTAA-TGATTTCTTTCT
1 TTAATTGATTTCTCTCT
*
49074 TTATTTGATTTCTCT-T
1 TTAATTGATTTCTCTCT
49090 TTAATTGATT
1 TTAATTGATT
49100 ACTATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (17 bp):
TTAATTGATTTCTCTCT
Found at i:51230 original size:21 final size:20
Alignment explanation
Indices: 51144--51301 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
51134 AAATGACCAA
**
51144 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
51163 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
51183 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
51203 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
51224 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
51245 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
51265 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
51286 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
51302 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:51317 original size:40 final size:40
Alignment explanation
Indices: 51268--51422 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
51258 CGATTTTCCA
* ** *
51268 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
51308 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
51348 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
51388 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
51423 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:51330 original size:20 final size:20
Alignment explanation
Indices: 51268--51421 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
51258 CGATTTTCCA
* ** *
51268 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
51288 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
51308 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
51328 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
51348 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
51368 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
51388 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
51409 AAATCGCAACGCG
1 AAATCGCAACGCG
51422 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:51843 original size:33 final size:33
Alignment explanation
Indices: 51804--51874 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
51794 TTCACTTAGA
*
51804 TTTCATTTCGCGTTACGATTCTGTCATTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCATTGCGAT
* * * *
51837 TTTCATTTCTCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCATTGCGAT
51870 TTTCA
1 TTTCA
51875 AGTTAGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCATTGCGAT
Found at i:51998 original size:20 final size:20
Alignment explanation
Indices: 51954--52063 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
51944 TGCAGAAGAG
*
51954 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
51975 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
51995 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
52016 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
52030 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
52049 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
52064 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:52011 original size:41 final size:38
Alignment explanation
Indices: 51947--52086 Score: 147
Period size: 33 Copynumber: 3.9 Consensus size: 38
51937 TTCAATTTGC
* *
51947 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
51985 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
52026 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
52059 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCA
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCA
52087 TTTCTCGTTG
Statistics
Matches: 96, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
33 49 0.51
35 7 0.07
38 5 0.05
39 1 0.01
40 1 0.01
41 33 0.34
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:52033 original size:14 final size:14
Alignment explanation
Indices: 52014--52070 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
52004 GAGAAATGAA
52014 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
52028 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
52047 AATCGCAACGAGAG
1 AATCGCAACGAGAG
52061 AATCGCAACG
1 AATCGCAACG
52071 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:52046 original size:33 final size:33
Alignment explanation
Indices: 52006--52086 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
51996 CGCAACGAGA
52006 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
52039 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
52072 GAAATGAAAATCGCA
1 GAAATGAAAATCGCA
52087 TTTCTCGTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:52130 original size:33 final size:33
Alignment explanation
Indices: 52093--52241 Score: 289
Period size: 33 Copynumber: 4.5 Consensus size: 33
52083 CGCATTTCTC
52093 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
52126 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
52159 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
*
52192 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
52225 GTTGCGATTTTCATTTC
1 GTTGCGATTTTCATTTC
52242 AACCAAAAGA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 115 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTCTCTA
Found at i:52229 original size:14 final size:14
Alignment explanation
Indices: 52111--52233 Score: 57
Period size: 14 Copynumber: 7.7 Consensus size: 14
52101 TTTCATTTCG
52111 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
52125 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
52144 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
52158 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
52177 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
52191 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
52210 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
52224 CGTTGCGATT
1 CGTTGCGATT
52234 TTCATTTCAA
Statistics
Matches: 82, Mismatches: 12, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 37 0.45
16 9 0.11
17 9 0.11
19 27 0.33
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:54099 original size:93 final size:92
Alignment explanation
Indices: 53940--54129 Score: 353
Period size: 93 Copynumber: 2.1 Consensus size: 92
53930 TAGATTGCTT
53940 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
54005 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
54033 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
54098 TTTGTCTTTGTTTTGTCTTTTGGTTGA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGA
54125 AGTAA
1 AGTAA
54130 TGCAATCCAT
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 6 0.06
93 89 0.94
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (92 bp):
AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:54217 original size:19 final size:19
Alignment explanation
Indices: 54177--54305 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
54167 TAGTTTACTT
* *
54177 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
54197 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
54216 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
54235 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
54249 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
54268 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
54282 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
54301 TCGCA
1 TCGCA
54306 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:54256 original size:33 final size:32
Alignment explanation
Indices: 54213--54305 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
54203 CGCGAAACCA
**
54213 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
54245 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
54278 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
54306 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:54303 original size:52 final size:52
Alignment explanation
Indices: 54177--54305 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
54167 TAGTTTACTT
**
54177 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
54229 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
54282 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
54306 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:54323 original size:19 final size:19
Alignment explanation
Indices: 54301--54421 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
54291 GAAACCAAAA
*
54301 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
54320 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
54339 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
54355 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
54372 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
54391 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
54411 TCGTGTTGCGA
1 TCGCGTTGCGA
54422 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
19 57 0.66
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:54904 original size:21 final size:21
Alignment explanation
Indices: 54848--54910 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
54838 TTCCTCGAGA
*
54848 GTCCCTCCCACCGTTCAAGAG
1 GTCCCTCCCACCATTCAAGAG
** * *
54869 G-CCACTGTCATCATTGAAGAG
1 GTCC-CTCCCACCATTCAAGAG
54890 GTCCCTCCCACCATTCAAGAG
1 GTCCCTCCCACCATTCAAGAG
54911 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
GTCCCTCCCACCATTCAAGAG
Found at i:56335 original size:14 final size:14
Alignment explanation
Indices: 56316--56351 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
56306 ATTGTTTAAT
56316 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
56330 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
56344 TGATTTGT
1 TGATTTGT
56352 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:56482 original size:19 final size:19
Alignment explanation
Indices: 56458--56555 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
56448 AAAATTGACT
56458 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
56477 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
56496 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
56510 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
56529 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
56549 ATCGCAA
1 ATCGCAA
56556 CGGGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:56587 original size:53 final size:53
Alignment explanation
Indices: 56458--56574 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
56448 AAAATTGACT
56458 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
56510 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
56563 ATCGCAATGCGA
1 ATCGCAATGCGA
56575 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:56694 original size:20 final size:19
Alignment explanation
Indices: 56564--56733 Score: 163
Period size: 19 Copynumber: 9.7 Consensus size: 19
56554 AACGGGAGAA
* *
56564 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
56583 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
56599 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
56616 TCGCATTGCG--CTTC-TC
1 TCGCATTGCGATTTTCATT
56632 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
56649 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
56668 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
56687 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
56705 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
56721 TCGCATTGTGATT
1 TCGCATTGCGATT
56734 CTCTCGTTGC
Statistics
Matches: 125, Mismatches: 10, Indels: 32
0.75 0.06 0.19
Matches are distributed among these distances:
14 22 0.18
16 16 0.13
17 14 0.11
18 1 0.01
19 56 0.45
20 16 0.13
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:56717 original size:72 final size:68
Alignment explanation
Indices: 56570--56747 Score: 222
Period size: 72 Copynumber: 2.6 Consensus size: 68
56560 AGAATCGCAA
* *
56570 TGCGATTTTAATTTCGCATTGCGA--TTCTCTCGTTGCGATTTTCATTTCGCATTGCGCTTCTCT
1 TGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
56633 CGT
66 CGT
*
56636 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTC-TCTCG--TTGCGATTTTCATTT-CGCATTGCGATT
*
56701 TTCAT-GT
62 CTC-TCGT
* *
56708 TGGGATTTTCATTTCGCATTGTGA--TTCTCTCGTTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATT
56748 GTAATTTCCG
Statistics
Matches: 98, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
66 23 0.23
67 8 0.08
68 3 0.03
69 8 0.08
70 3 0.03
71 15 0.15
72 37 0.38
73 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (68 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
CGT
Found at i:56755 original size:33 final size:33
Alignment explanation
Indices: 56570--56747 Score: 232
Period size: 33 Copynumber: 5.2 Consensus size: 33
56560 AGAATCGCAA
*
56570 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
56603 TGCGATTTTCATTTCGCATTGCGCTTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
56636 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
*
56674 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
* *
56708 TGGGATTTTCATTTCGCATTGTGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
56741 TGCGATT
1 TGCGATT
56748 GTAATTTCCG
Statistics
Matches: 127, Mismatches: 10, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
32 1 0.01
33 75 0.59
34 14 0.11
35 3 0.02
36 6 0.05
37 3 0.02
38 15 0.12
39 10 0.08
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:56755 original size:105 final size:104
Alignment explanation
Indices: 56564--56755 Score: 287
Period size: 105 Copynumber: 1.8 Consensus size: 104
56554 AACGGGAGAA
*
56564 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGCTT
1 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
* *
56629 CTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
66 CTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
* * * * *
56668 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGTGA
1 TCGCAATGCGATTTTAATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGA
56732 TTCTCTCGTTGCGATTGTAATTTC
64 TTCTCTCGTTGCGATTGTAATTTC
56756 CGTGTTGCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
104 18 0.23
105 59 0.76
106 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (104 bp):
TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
CTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
Found at i:59210 original size:24 final size:24
Alignment explanation
Indices: 59176--59222 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59166 CTGAAACATC
59176 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
59200 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
59223 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:59932 original size:20 final size:20
Alignment explanation
Indices: 59904--60213 Score: 352
Period size: 20 Copynumber: 15.5 Consensus size: 20
59894 AAATTTCAGT
* *
59904 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
59924 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
59944 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
59964 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
59984 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
60004 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
60024 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
60044 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
60064 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
60084 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
60104 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
60124 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
60144 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
60164 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
60184 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
60204 GTTGCGATTT
1 GTTGCGATTT
60214 TGGAAAATCG
Statistics
Matches: 256, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 255 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:60230 original size:21 final size:21
Alignment explanation
Indices: 60200--60282 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
60190 ATTTTCATAT
*
60200 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
60221 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
60242 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
60263 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
60283 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:60273 original size:42 final size:43
Alignment explanation
Indices: 60180--60278 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
60170 ATTTATGTGT
* *
60180 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
60221 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
60263 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
60279 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:75855 original size:20 final size:21
Alignment explanation
Indices: 75826--75877 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
75816 TCAAAGAGAG
*
75826 GAATTAGGGA-AGCATC-AGT
1 GAATTTGGGAGAGCATCGAGT
*
75845 CGAATTTGGGAGAGGATCGAGT
1 -GAATTTGGGAGAGCATCGAGT
75867 GAATTTAGGGA
1 GAATTT-GGGA
75878 TTGAAAGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.33
21 11 0.41
22 7 0.26
ACGTcount: A:0.33, C:0.08, G:0.37, T:0.23
Consensus pattern (21 bp):
GAATTTGGGAGAGCATCGAGT
Found at i:83198 original size:18 final size:19
Alignment explanation
Indices: 83163--83200 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
83153 CACGGAATGT
83163 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
83183 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
83201 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:83371 original size:15 final size:15
Alignment explanation
Indices: 83353--83383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83343 AAATTCTAAA
83353 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
83368 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
83383 T
1 T
83384 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:88870 original size:3 final size:3
Alignment explanation
Indices: 88862--88893 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
88852 ATAGTTCCCC
88862 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
88894 ATTTTTCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:88977 original size:3 final size:3
Alignment explanation
Indices: 88969--89149 Score: 233
Period size: 3 Copynumber: 60.7 Consensus size: 3
88959 TTTTAAATAG
88969 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
89017 TCTC TTC TT- TTC -TC TTC TTC TTC TCC TTC TTC TTC TTC TCC TTC
1 T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * *
89061 TCC TTCC TT- TTC TCC TTC TCC TTC TTC TCC TTC TTC TTC TGC TTC
1 TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * *
89106 TTC TCC TTC TTC TCC TTC TTC TCC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
89150 AGACTTTGAA
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
2 6 0.04
3 141 0.92
4 6 0.04
ACGTcount: A:0.00, C:0.38, G:0.01, T:0.61
Consensus pattern (3 bp):
TTC
Found at i:90360 original size:13 final size:13
Alignment explanation
Indices: 90342--90411 Score: 74
Period size: 13 Copynumber: 5.4 Consensus size: 13
90332 TTTATTATAA
90342 TTATAATATAAT-T
1 TTATAA-ATAATAT
*
90355 TTATAAATATTAT
1 TTATAAATAATAT
90368 TTATAAAT--TAT
1 TTATAAATAATAT
*
90379 TTATAAATATTAT
1 TTATAAATAATAT
90392 TTATAAAATAAATAT
1 TTAT-AAAT-AATAT
90407 TTATA
1 TTATA
90412 TTTTTTCTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
11 11 0.22
12 4 0.08
13 22 0.44
14 5 0.10
15 8 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTATAAATAATAT
Found at i:90379 original size:11 final size:11
Alignment explanation
Indices: 90363--90398 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
90353 TTTTATAAAT
90363 ATTATTTATAA
1 ATTATTTATAA
90374 ATTATTTATAAA
1 ATTATTTAT-AA
90386 TATTATTTATAA
1 -ATTATTTATAA
90398 A
1 A
90399 ATAAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.43
12 4 0.17
13 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTATTTATAA
Found at i:90409 original size:15 final size:15
Alignment explanation
Indices: 90370--90411 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
90360 AATATTATTT
90370 ATAAATTATTTAT-AA
1 ATAAA-TATTTATAAA
*
90385 AT-ATTATTTATAAA
1 ATAAATATTTATAAA
90399 ATAAATATTTATA
1 ATAAATATTTATA
90412 TTTTTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAAATATTTATAAA
Found at i:90413 original size:24 final size:24
Alignment explanation
Indices: 90356--90406 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
90346 AATATAATTT
* **
90356 TATAAATATTATTTATAAATTATT
1 TATAAATATTATTTATAAAATAAA
90380 TATAAATATTATTTATAAAATAAA
1 TATAAATATTATTTATAAAATAAA
90404 TAT
1 TAT
90407 TTATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TATAAATATTATTTATAAAATAAA
Found at i:90564 original size:14 final size:13
Alignment explanation
Indices: 90525--90564 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 13
90515 ATTATTTTAA
90525 ATATTTAAAAAAT
1 ATATTTAAAAAAT
90538 ATATTCTATAAAATAT
1 ATATT-TA-AAAA-AT
90554 ATATTTAAAAA
1 ATATTTAAAAA
90565 CTATTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 6 0.25
16 7 0.29
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATTTAAAAAAT
Found at i:91279 original size:20 final size:21
Alignment explanation
Indices: 91254--91305 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
91244 TTTTCCCAAT
*
91254 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
91274 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
91295 TCGCAATGCGA
1 TCGCAATGCGA
91306 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:91336 original size:41 final size:41
Alignment explanation
Indices: 91291--91368 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
91281 GCGAATTGGG
* * *
91291 AAAATCGCAATGCGATACTGACTATCACAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATAATAA
* * *
91332 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATA
91369 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCACAACGCGATAATAA
Found at i:91361 original size:20 final size:20
Alignment explanation
Indices: 91336--91388 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
91326 TAATAAAAAA
* *
91336 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
91356 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
91376 TCGCAACGCGATA
1 TCGCAACGCGATA
91389 ATACATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:91605 original size:22 final size:22
Alignment explanation
Indices: 91577--91620 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
91567 CACTCTCTCA
91577 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
91599 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
91621 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:91910 original size:20 final size:20
Alignment explanation
Indices: 91885--91922 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
91875 CGATTCTCTC
91885 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
91905 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
91923 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:93258 original size:18 final size:18
Alignment explanation
Indices: 93237--93281 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
93227 TCCACTTCGG
*
93237 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
93255 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
93273 GAGCCATCA
1 GAGCCATCA
93282 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:93788 original size:20 final size:20
Alignment explanation
Indices: 93763--93803 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
93753 TAGTTTACTT
93763 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* *
93783 TCGCAACACGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
93803 T
1 T
93804 AGTAATGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:93860 original size:32 final size:33
Alignment explanation
Indices: 93807--93892 Score: 156
Period size: 32 Copynumber: 2.6 Consensus size: 33
93797 TGGCTATAGT
93807 AATGCGAAATGAAAATCGCAACGACAAAATCGC
1 AATGCGAAATGAAAATCGCAACGACAAAATCGC
93840 AATGCGAAATG-AAATCGCAACGACAAAATCGC
1 AATGCGAAATGAAAATCGCAACGACAAAATCGC
*
93872 AACGCGAAATGAAAATCGCAA
1 AATGCGAAATGAAAATCGCAA
93893 TGCGATTTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 31 0.61
33 20 0.39
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
AATGCGAAATGAAAATCGCAACGACAAAATCGC
Found at i:93886 original size:19 final size:19
Alignment explanation
Indices: 93807--93897 Score: 78
Period size: 14 Copynumber: 5.4 Consensus size: 19
93797 TGGCTATAGT
93807 AATGCGAAATGAAAATCGC
1 AATGCGAAATGAAAATCGC
*
93826 AA--CG--A-CAAAATCGC
1 AATGCGAAATGAAAATCGC
93840 AATGCGAAATG-AAATCGC
1 AATGCGAAATGAAAATCGC
*
93858 AA--CG--A-CAAAATCGC
1 AATGCGAAATGAAAATCGC
*
93872 AACGCGAAATGAAAATCGC
1 AATGCGAAATGAAAATCGC
93891 AATGCGA
1 AATGCGA
93898 TTTGTGTTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
14 20 0.36
15 1 0.02
16 6 0.11
17 2 0.04
18 11 0.20
19 16 0.29
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (19 bp):
AATGCGAAATGAAAATCGC
Found at i:93928 original size:14 final size:14
Alignment explanation
Indices: 93909--93966 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
93899 TTGTGTTTCG
93909 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
93923 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
93939 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
93955 CGTTGCGATTTT
1 CGTTGCGATTTT
93967 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:93947 original size:32 final size:33
Alignment explanation
Indices: 93904--93982 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
93894 GCGATTTGTG
*
93904 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
93936 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
93969 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
93983 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:93997 original size:20 final size:19
Alignment explanation
Indices: 93967--94021 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
93957 TTGCGATTTT
93967 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* *
93986 CATTTCCGCATTGTGATAGT
1 CATTT-CGCATTGCGATAGC
*
94006 CATTTCGCGTTGCGAT
1 CATTTCGCATTGCGAT
94022 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:95905 original size:14 final size:14
Alignment explanation
Indices: 95886--95921 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
95876 ATTGTTTAAT
95886 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
95900 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
95914 TGATTTGT
1 TGATTTGT
95922 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:96032 original size:20 final size:20
Alignment explanation
Indices: 96007--96044 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
95997 GTAAAACAGA
*
96007 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
96027 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
96045 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:96063 original size:19 final size:19
Alignment explanation
Indices: 96039--96106 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
96029 ATCGCAACGA
96039 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
96058 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
96077 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
96091 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
96107 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.64
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:96136 original size:18 final size:18
Alignment explanation
Indices: 96094--96148 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
96084 GCAACGAGAA
* *
96094 AATCGCAATGCGATTTTC
1 AATCGCATTGCGATTTCC
*
96112 ATTTCGCATTGCGATTTCC
1 A-ATCGCATTGCGATTTCC
96131 AATCGCATTGCGATTTCC
1 AATCGCATTGCGATTTCC
96149 TCGTTGCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (18 bp):
AATCGCATTGCGATTTCC
Found at i:96173 original size:20 final size:20
Alignment explanation
Indices: 96150--96205 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
96140 GCGATTTCCT
96150 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
96170 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
96190 CGTTGCGATAGCCATT
1 CGTTGCGATAGCCATT
96206 GGAAAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:96663 original size:33 final size:33
Alignment explanation
Indices: 96606--96704 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
96596 ACGAGATAAT
*
96606 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
96640 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
96673 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
96705 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:96698 original size:19 final size:19
Alignment explanation
Indices: 96581--96765 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
96571 TCTTTTGGTT
*
96581 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
96600 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
96620 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
96638 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
96654 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
96672 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
96687 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
96707 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
96726 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
96745 AAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
96764 GA
1 GA
96766 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.44
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:96719 original size:39 final size:38
Alignment explanation
Indices: 96676--96765 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
96666 GCGACCAGAC
*
96676 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCAAAATAAA
*
96715 AATCGCAACGCGAAATGAAAATCGCAACGCAAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCAAAATAAA
*
96753 AATCGCAATGCGA
1 AATCGCAACGCGA
96766 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCAAAATAAA
Found at i:96808 original size:20 final size:19
Alignment explanation
Indices: 96761--96846 Score: 136
Period size: 19 Copynumber: 4.5 Consensus size: 19
96751 AAAATCGCAA
**
96761 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
96780 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
96799 TGCGATTTTTATTTCGCGGT
1 TGCGATTTTTATTTCGC-GT
*
96819 TGCGATTTTCATTTCGCGT
1 TGCGATTTTTATTTCGCGT
96838 TGCGATTTT
1 TGCGATTTT
96847 CATTCTCGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 45 0.71
20 18 0.29
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.50
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:96833 original size:39 final size:38
Alignment explanation
Indices: 96761--96846 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 38
96751 AAAATCGCAA
* *
96761 TGCGATTTTGGTTTCGCGTTGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGTTGCGATTTTCATTTCGCGT
*
96799 TGCGATTTTTATTTCGCGGTTGCGATTTTCATTTCGCGT
1 TGCGATTTTGATTTCGC-GTTGCGATTTTCATTTCGCGT
96838 TGCGATTTT
1 TGCGATTTT
96847 CATTCTCGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 15 0.34
39 29 0.66
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.50
Consensus pattern (38 bp):
TGCGATTTTGATTTCGCGTTGCGATTTTCATTTCGCGT
Found at i:97202 original size:22 final size:22
Alignment explanation
Indices: 97146--97204 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
97136 TGGTTGTGAG
**
97146 GGATTTCGCCGGCGATGGGGAC
1 GGATTTCGCCGTAGATGGGGAC
** **
97168 GGAAATCTTCGTAGATGGGGAC
1 GGATTTCGCCGTAGATGGGGAC
97190 GGATTTCGCCGTAGA
1 GGATTTCGCCGTAGA
97205 GAGTGAGAGA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.39, T:0.22
Consensus pattern (22 bp):
GGATTTCGCCGTAGATGGGGAC
Found at i:97386 original size:20 final size:20
Alignment explanation
Indices: 97361--97413 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
97351 GCGCTATGTA
97361 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
97381 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
97401 TATCTCGTTGCGA
1 AATCGCGTTGCGA
97414 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:97447 original size:20 final size:20
Alignment explanation
Indices: 97422--97475 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
97412 GATTTTGTAT
97422 TATCGCATTGCGATAGTAAA
1 TATCGCATTGCGATAGTAAA
* *
97442 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAA
97462 TATCGCATTGCGAT
1 TATCGCATTGCGAT
97476 TTTCCCAATT
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:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAA
Found at i:97494 original size:61 final size:61
Alignment explanation
Indices: 97362--97496 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 61
97352 CGCTATGTAA
* * * * * ** *
97362 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAAAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* *
97423 ATCGCATTGCGATAGT-AAATATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAAA-ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
97485 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
97497 TTACTTATTC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
60 2 0.03
61 57 0.93
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAAAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:97586 original size:21 final size:21
Alignment explanation
Indices: 97546--97586 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
97536 ATTGTATACC
**
97546 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
97567 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
97587 GCGAATTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:99359 original size:34 final size:34
Alignment explanation
Indices: 99316--99394 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
99306 AACGTCTAGG
*
99316 ATCAAGTAGGTGGAATAATAATAGCTCTTGGGGC
1 ATCAAGTAGGTGGAATAATAATAGCTCGTGGGGC
99350 ATCAAGTAGGTGGAATAATAATAGCTCGTGGGGC
1 ATCAAGTAGGTGGAATAATAATAGCTCGTGGGGC
*
99384 ATCAGGTAGGT
1 ATCAAGTAGGT
99395 TTGAACTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (34 bp):
ATCAAGTAGGTGGAATAATAATAGCTCGTGGGGC
Found at i:100867 original size:21 final size:21
Alignment explanation
Indices: 100816--100868 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
100806 ATTATGACTA
100816 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
100837 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
*
100858 TCGTAATGCGA
1 TCGCAATGCGA
100869 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:100901 original size:21 final size:21
Alignment explanation
Indices: 100875--100972 Score: 187
Period size: 21 Copynumber: 4.7 Consensus size: 21
100865 GCGAATAAGT
100875 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
100896 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
100917 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
100938 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
*
100959 AAATCGCAACGCGA
1 AAATCGCAATGCGA
100973 TACTGAATAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (21 bp):
AAATCGCAATGCGAATTTGGA
Found at i:100986 original size:20 final size:20
Alignment explanation
Indices: 100961--101075 Score: 124
Period size: 20 Copynumber: 5.7 Consensus size: 20
100951 AATTTGGAAA
100961 ATCGCAACGCGATACTGAAT
1 ATCGCAACGCGATACTGAAT
* *
100981 ATCGCAACGCGATAAT-ACAA
1 ATCGCAACGCGATACTGA-AT
*
101001 AGTCGCAACGCGATACTGACT
1 A-TCGCAACGCGATACTGAAT
* *
101022 TTCGCAACGCGATACTTAAT
1 ATCGCAACGCGATACTGAAT
* *
101042 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGAAT
* *
101062 TTCGCAACGAGATA
1 ATCGCAACGCGATA
101076 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 65 0.80
21 14 0.17
22 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGAAT
Found at i:101058 original size:40 final size:41
Alignment explanation
Indices: 100962--101095 Score: 173
Period size: 41 Copynumber: 3.3 Consensus size: 41
100952 ATTTGGAAAA
* *
100962 TCGCAACGCGATACTGAATATCGCAACGCGATAATACAAAG
1 TCGCAACGCGATACTGACTTTCGCAACGCGATAATACAAAG
* * **
101003 TCGCAACGCGATACTGACTTTCGCAACGCGATACT-TAATT
1 TCGCAACGCGATACTGACTTTCGCAACGCGATAATACAAAG
*
101043 TCGCAACGCGATACTGACTTTCGCAACGAGATAATACATAA-
1 TCGCAACGCGATACTGACTTTCGCAACGCGATAATACA-AAG
*
101084 TCGCAATGCGAT
1 TCGCAACGCGAT
101096 TTTCAAAGCG
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 35 0.44
41 44 0.55
42 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (41 bp):
TCGCAACGCGATACTGACTTTCGCAACGCGATAATACAAAG
Found at i:101088 original size:61 final size:61
Alignment explanation
Indices: 100960--101095 Score: 143
Period size: 61 Copynumber: 2.2 Consensus size: 61
100950 GAATTTGGAA
* *
100960 AATCGCAACGCGATACTGAATATCGCAACGCGATAATACAAAGTCGCAACGCGATACTGACT
1 AATCGCAACGCGATACTGAATATCGCAACGCGATAATAC-AAGTCGCAACGAGATAATGACT
* * * * **
101022 -TTCGCAACGCGATACTTAATTTCGCAACGCGATACTGAC-TTTCGCAACGAGATAAT-ACAT
1 AATCGCAACGCGATACTGAATATCGCAACGCGATAAT-ACAAGTCGCAACGAGATAATGAC-T
*
101082 AATCGCAATGCGAT
1 AATCGCAACGCGAT
101096 TTTCAAAGCG
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
59 2 0.03
60 14 0.23
61 43 0.70
62 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (61 bp):
AATCGCAACGCGATACTGAATATCGCAACGCGATAATACAAGTCGCAACGAGATAATGACT
Found at i:101290 original size:22 final size:22
Alignment explanation
Indices: 101262--101305 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
101252 CACTCTCTCA
101262 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
101284 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
101306 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:101617 original size:20 final size:20
Alignment explanation
Indices: 101568--101626 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
101558 TTTATTCTCT
* **
101568 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
101588 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
101608 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
101627 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:101817 original size:25 final size:24
Alignment explanation
Indices: 101763--101817 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
101753 TGTTTATTAT
* *
101763 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
101787 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
101813 TGTTT
1 TGTTT
101818 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:102969 original size:18 final size:18
Alignment explanation
Indices: 102948--102995 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
102938 TCCACTTCGG
102948 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
102966 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
102984 GAGCCATCACCT
1 GAGCCATCACCT
102996 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:103561 original size:20 final size:20
Alignment explanation
Indices: 103536--103581 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
103526 TAGTTTACTT
103536 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
103556 TCGCAATGCGATAATGGCTA
1 TCGCAACACGAAAATGACTA
103576 TCGCAA
1 TCGCAA
103582 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:103582 original size:20 final size:19
Alignment explanation
Indices: 103547--103591 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
103537 CGCAACACGA
103547 AAATGACTATCGCAATGCG
1 AAATGACTATCGCAATGCG
*
103566 ATAATGGCTATCGCAATGCG
1 A-AATGACTATCGCAATGCG
103586 AAATGA
1 AAATGA
103592 AAATTGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (19 bp):
AAATGACTATCGCAATGCG
Found at i:103600 original size:19 final size:19
Alignment explanation
Indices: 103555--103671 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
103545 GAAAATGACT
***
103555 ATCGCAATGCGATAATGGCT
1 ATCGCAATGCGA-AATGAAA
103575 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
103594 ATTGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
103608 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
103627 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
103641 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
103660 ATTGCAATGCGA
1 ATCGCAATGCGA
103672 TTTGTGTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 33 0.43
20 12 0.16
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:103614 original size:14 final size:14
Alignment explanation
Indices: 103591--103649 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
103581 ATGCGAAATG
*
103591 AAAATTGCAACGAC
1 AAAATCGCAACGAC
*
103605 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
103624 AAAATCGCAACGAC
1 AAAATCGCAACGAC
103638 AAAATCGCAACG
1 AAAATCGCAACG
103650 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:103617 original size:33 final size:33
Alignment explanation
Indices: 103575--103666 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
103565 GATAATGGCT
103575 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
*
103608 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
*
103641 ATCGCAACGCGAAATGAAAATTGCAA
1 ATCGCAATGCGAAATGAAAATTGCAA
103667 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATTGCAACGACAAA
Found at i:103722 original size:33 final size:33
Alignment explanation
Indices: 103678--103757 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
103668 GCGATTTGTG
*
103678 TTTCACGTTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCACATTGCGATTTTGTCGTTGCAATTTTCA
*
103711 TTTCACATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCACATTGCGATTTTGTCGTTGCAATTTTCA
*
103744 TTTCGCATTGCGAT
1 TTTCACATTGCGAT
103758 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (33 bp):
TTTCACATTGCGATTTTGTCGTTGCAATTTTCA
Found at i:103756 original size:19 final size:19
Alignment explanation
Indices: 103699--103757 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
103689 GATTTTGTCG
* *
103699 TTGCAATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
*
103718 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
103732 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
103751 TTGCGAT
1 TTGCGAT
103758 AGCCATTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 6 0.19
15 3 0.10
16 3 0.10
17 4 0.13
18 3 0.10
19 12 0.39
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:103776 original size:20 final size:20
Alignment explanation
Indices: 103742--103816 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
103732 TTGCGATTTT
*
103742 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
103761 CATTTCCGCGTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
103781 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
*
103801 CATTTTCGCGTTGCGA
1 CATTTCCGCGTTGCGA
103817 AAGTAAGTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 5 0.10
20 47 0.90
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:103827 original size:20 final size:20
Alignment explanation
Indices: 103787--103842 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
103777 TAGCCATTTC
* * *
103787 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
103807 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
*
103827 CGTGTTGCGAAAGTAA
1 CGCGTTGCGAAAGTAA
103843 ACTATTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:103834 original size:40 final size:40
Alignment explanation
Indices: 103743--103836 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
103733 TGCGATTTTC
* * *
103743 ATTT-CGCATTGCGATAGCCATTTCCGCGTTGCGATAGCC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
* * *
103782 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
*
103822 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
103837 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.85
41 3 0.07
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
Found at i:104246 original size:42 final size:41
Alignment explanation
Indices: 104187--104265 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 41
104177 GACTCACCTG
**
104187 TCATCCCTCAAGAGTCCCCTCCAATTGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCAACCGTTCAAGAGGCCCCTA
*
104229 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCC
1 TCATCCCTCAAGAGTCCCCCCAACCGTTCAAGAGGCC
104266 ACAGTCATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCAACCGTTCAAGAGGCCCCTA
Done.