Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 31 of 218
Found at i:9838617 original size:14 final size:16
Alignment explanation
Indices: 9838582--9838621 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
9838572 AAATTCTGAC
9838582 AAATATATAACAATTAT
1 AAATATAT-ACAATTAT
9838599 AAATATATA-AATT-T
1 AAATATATACAATTAT
9838613 AAATATATA
1 AAATATATA
9838622 TATATAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 1 0.04
17 8 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATACAATTAT
Found at i:9838629 original size:14 final size:14
Alignment explanation
Indices: 9838582--9838629 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
9838572 AAATTCTGAC
9838582 AAATATATAACAATTAT
1 AAATATAT-A-AA-TAT
*
9838599 AAATATATAAATTT
1 AAATATATAAATAT
*
9838613 AAATATATATATAT
1 AAATATATAAATAT
9838627 AAA
1 AAA
9838630 ACATAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 17 0.61
15 2 0.07
16 1 0.04
17 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATATAAATAT
Found at i:9838679 original size:8 final size:9
Alignment explanation
Indices: 9838653--9838700 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
9838643 TTACACACGT
9838653 AAATACATA
1 AAATACATA
*
9838662 AAATAGATA
1 AAATACATA
9838671 AAATA-ATA
1 AAATACATA
9838679 AAATA-AT-
1 AAATACATA
9838686 AAATACATA
1 AAATACATA
9838695 ACAATA
1 A-AATA
9838701 AGAATTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
7 5 0.14
8 12 0.34
9 14 0.40
10 4 0.11
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATACATA
Found at i:9838679 original size:17 final size:17
Alignment explanation
Indices: 9838653--9838701 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
9838643 TTACACACGT
9838653 AAATACATAAAATAGATA
1 AAATACATAAAATA-ATA
9838671 AAATA-ATAAAATAAT-
1 AAATACATAAAATAATA
9838686 AAATACATAACAATAA
1 AAATACATAA-AATAA
9838702 GAATTTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.17
16 6 0.21
17 13 0.45
18 5 0.17
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AAATACATAAAATAATA
Found at i:9854719 original size:15 final size:16
Alignment explanation
Indices: 9854689--9854730 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
9854679 AAAATTCTAA
9854689 AAAATATATAACAA-TT
1 AAAATATAT-ACAATTT
9854705 ATAAATATATA-AATTT
1 A-AAATATATACAATTT
9854721 AAAATATATA
1 AAAATATATA
9854731 TAAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATATATACAATTT
Found at i:9854731 original size:17 final size:16
Alignment explanation
Indices: 9854688--9854734 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
9854678 GAAAATTCTA
*
9854688 AAAAATATATAACAATT
1 AAAAATATATAA-ATTT
*
9854705 ATAAATATATAAATTT
1 AAAAATATATAAATTT
9854721 AAAATATATATAAA
1 AAAA-ATATATAAA
9854735 CACATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATATAAATTT
Found at i:9866028 original size:48 final size:47
Alignment explanation
Indices: 9865972--9866064 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 47
9865962 CCTTCGGAAC
* *
9865972 CATGATTCATGTTCTTCCTGGAGCATCACTTTCCA-CTAGGTGGCTTTG
1 CATGATTCATATGCTTCCTGGAGCATCAC-TTCCAGC-AGGTGGCTTTG
9866020 CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTT
1 CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTT
9866065 GCGATTCAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
47 14 0.33
48 28 0.67
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (47 bp):
CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTTTG
Found at i:9868088 original size:6 final size:6
Alignment explanation
Indices: 9868077--9868109 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9868067 CAGCACTAAG
9868077 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTG
1 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTG
9868110 CGAGAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.33, T:0.52
Consensus pattern (6 bp):
TTGTGC
Found at i:9873185 original size:24 final size:25
Alignment explanation
Indices: 9873158--9873209 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
9873148 CTTTAAACAA
*
9873158 TTTAA-TTT-TTTTCTTTTATGTTTT
1 TTTAACTTTCTTTT-TTTTATCTTTT
*
9873182 TTTAACTTTCTTTTTTTTTTCTTTT
1 TTTAACTTTCTTTTTTTTATCTTTT
9873207 TTT
1 TTT
9873210 TTCATTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 15 0.62
26 4 0.17
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTAACTTTCTTTTTTTTATCTTTT
Found at i:9873758 original size:21 final size:20
Alignment explanation
Indices: 9873734--9873785 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
9873724 TTTGATAGTT
*
9873734 TATTTTAGTTATATCGATAAC
1 TATTTTAGTTAAAT-GATAAC
* *
9873755 TATTTTAGATAAATGTTAAC
1 TATTTTAGTTAAATGATAAC
9873775 TAGTTTTAGTT
1 TA-TTTTAGTT
9873786 CTTTTTCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (20 bp):
TATTTTAGTTAAATGATAAC
Found at i:9877084 original size:29 final size:29
Alignment explanation
Indices: 9877023--9877085 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
9877013 ATCTATATTT
**
9877023 AGATAATTATACATAGAATGTATAAGTTT
1 AGATAATTATACATAGAATGTATAAGTAA
* *
9877052 AGATTATTATACATAGAATGTCCTAA-TAA
1 AGATAATTATACATAGAATGT-ATAAGTAA
9877081 AGATA
1 AGATA
9877086 TCAAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (29 bp):
AGATAATTATACATAGAATGTATAAGTAA
Found at i:9879196 original size:22 final size:22
Alignment explanation
Indices: 9879171--9879250 Score: 60
Period size: 22 Copynumber: 3.6 Consensus size: 22
9879161 ATTTTATTAA
*
9879171 ATTATATTTAATAATAATTTTT
1 ATTAAATTTAATAATAATTTTT
* *
9879193 ATTAAATATAATTA-AATTATTT
1 ATTAAATTTAATAATAATT-TTT
*
9879215 ATT--ATTTATATTAATAA-TCTT
1 ATTAAATTTA-A-TAATAATTTTT
9879236 ATTAAAGTTTAATAA
1 ATTAAA-TTTAATAA
9879251 CAATAACAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
20 4 0.09
21 10 0.22
22 23 0.51
23 4 0.09
24 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
ATTAAATTTAATAATAATTTTT
Found at i:9889642 original size:11 final size:11
Alignment explanation
Indices: 9889619--9889661 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
9889609 AACAAATCTT
9889619 CTCTCATATTTC
1 CTCTCA-ATTTC
9889631 CTCTCAATTTC
1 CTCTCAATTTC
*
9889642 CTTTCAATTT-
1 CTCTCAATTTC
9889652 -TCTCAATTTC
1 CTCTCAATTTC
9889662 TTTCCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
11 14 0.50
12 6 0.21
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:9889674 original size:20 final size:20
Alignment explanation
Indices: 9889632--9889676 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9889622 TCATATTTCC
**
9889632 TCTCAATTTCCTTTCAATTT
1 TCTCAATTTCCTTTCAAAAT
9889652 TCTCAATTT-CTTTCCAAAAT
1 TCTCAATTTCCTTT-CAAAAT
9889672 TCTCA
1 TCTCA
9889677 TAAATCCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (20 bp):
TCTCAATTTCCTTTCAAAAT
Found at i:9889718 original size:51 final size:51
Alignment explanation
Indices: 9889643--9889763 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
9889633 CTCAATTTCC
* * *
9889643 TTTCAATTT--TCTCAATTTCTTTCCAAAATTCTCAT-AAATCCATATTTAA
1 TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTC-TCAAAGCCATATTTAA
* *
9889692 TTTCAATTTCCTTTCAATTTCATTCCAAAAATCTCTCAAAGCTATATTTAA
1 TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAA
*
9889743 TTTCAATTTGCTCTCAATTTC
1 TTTCAATTTCCTCTCAATTTC
9889764 CTTTTTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 9 0.15
50 1 0.02
51 52 0.84
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (51 bp):
TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAA
Found at i:9890892 original size:7 final size:7
Alignment explanation
Indices: 9890876--9890914 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
9890866 TGCAAATAGA
*
9890876 TATTTTG
1 TATTTAG
9890883 TATTTAG
1 TATTTAG
9890890 TATTTAG
1 TATTTAG
9890897 TATTTAG
1 TATTTAG
9890904 TATTTAG
1 TATTTAG
9890911 TATT
1 TATT
9890915 ATGTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:9891592 original size:18 final size:18
Alignment explanation
Indices: 9891565--9891604 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
9891555 CAGGTGCGTT
*
9891565 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
9891583 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
9891601 TCCT
1 TCCT
9891605 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:9892057 original size:25 final size:24
Alignment explanation
Indices: 9892029--9892550 Score: 185
Period size: 25 Copynumber: 21.9 Consensus size: 24
9892019 TGAATATTTT
9892029 GAAGTTTGTTTGATGTAATAAAATA
1 GAAGTTT-TTTGATGTAATAAAATA
9892054 GAAGTTTTATTGATGTAA-AAATATTA
1 GAAGTTTT-TTGATGTAATAAA-A-TA
* ** *
9892080 -AATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTTTGATGTAATAAAATA
*
9892099 GATA-TTATTTGATGTAATAAAATA
1 GA-AGTTTTTTGATGTAATAAAATA
*
9892123 GAAGTTTTATTGATGTAATAAAAATT
1 GAAGTTTT-TTGATGTAAT-AAAATA
* ** *
9892149 GAAATTTTTTTGA-GT--T-ATTTT
1 G-AAGTTTTTTGATGTAATAAAATA
*
9892170 GATA-TTATTTGATGTAATAAAATA
1 GA-AGTTTTTTGATGTAATAAAATA
*
9892194 GAAGTTTTATTGATGTAATAAAAATT
1 GAAGTTTT-TTGATGTAAT-AAAATA
* * * * ** *
9892220 TAAATTTTTTTAAGT--T-ATTTT
1 GAAGTTTTTTGATGTAATAAAATA
*
9892241 GATA-TTATTTGATGTAATAAAATA
1 GA-AGTTTTTTGATGTAATAAAATA
9892265 GAAGTTTTATTGATGTAATAAAAATTTA
1 GAAGTTTT-TTGATGTAAT-AAAA--TA
* ** *
9892293 -AATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTTTGATGTAATAAAATA
*
9892312 GATA-TTATTTGATGTAATAAAATA
1 GA-AGTTTTTTGATGTAATAAAATA
*
9892336 GAGGTTTTATTGATGTAATAAAAATTTA
1 GAAGTTTT-TTGATGTAAT-AAAA--TA
* ** *
9892364 -AATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTTTGATGTAATAAAATA
*
9892383 GATA-TTATTTGATGTAATAAAATA
1 GA-AGTTTTTTGATGTAATAAAATA
9892407 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTT-TTTGATGTAATAAAATA
* *
9892432 GAAGTTTATATGAAGTAATAAAATA
1 GAAGTTT-TTTGATGTAATAAAATA
*
9892457 GAAGTTTTACTGATGTAATAAAAATTTA
1 GAAGTTTT-TTGATGTAAT-AAAA--TA
* ** *
9892485 -AATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTTTGATGTAATAAAATA
*
9892504 GATA-TTATTTGATGTAATAAAATA
1 GA-AGTTTTTTGATGTAATAAAATA
9892528 GAAGTTTATTTGATGTAATAAAA
1 GAAGTTT-TTTGATGTAATAAAA
9892551 ATTGAAAACC
Statistics
Matches: 368, Mismatches: 67, Indels: 124
0.66 0.12 0.22
Matches are distributed among these distances:
19 4 0.01
20 40 0.11
21 35 0.10
22 1 0.00
23 18 0.05
24 49 0.13
25 146 0.40
26 46 0.12
27 23 0.06
28 6 0.02
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (24 bp):
GAAGTTTTTTGATGTAATAAAATA
Found at i:9892189 original size:71 final size:71
Alignment explanation
Indices: 9892037--9892429 Score: 720
Period size: 71 Copynumber: 5.6 Consensus size: 71
9892027 TTGAAGTTTG
*
9892037 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAA-AAATA-TTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
9892100 ATATTA
66 ATATTA
*
9892106 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
9892171 ATATTA
66 ATATTA
*
9892177 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTAAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
9892242 ATATTA
66 ATATTA
9892248 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
9892313 ATATTA
66 ATATTA
*
9892319 TTTGATGTAATAAAATAGAGGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
9892384 ATATTA
66 ATATTA
9892390 TTTGATGTAATAAAATAGAAG-TTTATTTGATGTAATAAAA
1 TTTGATGTAATAAAATAGAAGTTTTA-TTGATGTAATAAAA
9892430 TAGAAGTTTA
Statistics
Matches: 314, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
69 35 0.11
70 8 0.03
71 271 0.86
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (71 bp):
TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
ATATTA
Found at i:9892480 original size:121 final size:121
Alignment explanation
Indices: 9892316--9892550 Score: 434
Period size: 121 Copynumber: 1.9 Consensus size: 121
9892306 TATTTTGATA
* * * *
9892316 TTATTTGATGTAATAAAATAGAGGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATATGAAGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
9892381 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAGT
66 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAGT
9892437 TTATATGAAGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATATGAAGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
9892502 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAA
66 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAA
9892551 ATTGAAAACC
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 110 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (121 bp):
TTATATGAAGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAGT
Found at i:9892581 original size:23 final size:23
Alignment explanation
Indices: 9892555--9892644 Score: 144
Period size: 23 Copynumber: 3.9 Consensus size: 23
9892545 ATAAAAATTG
*
9892555 AAAACCCTAACTTAATTAAGTTA
1 AAAACCCTAACCTAATTAAGTTA
*
9892578 AAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAGTTA
* *
9892601 AAAACCCTAACCTATTTAAGTTG
1 AAAACCCTAACCTAATTAAGTTA
9892624 AAAACCCTAACCTAATTAAGT
1 AAAACCCTAACCTAATTAAGT
9892645 GCAGCTAGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAACCCTAACCTAATTAAGTTA
Found at i:9894779 original size:125 final size:125
Alignment explanation
Indices: 9894595--9894835 Score: 369
Period size: 125 Copynumber: 1.9 Consensus size: 125
9894585 CCCAAACAGG
* *
9894595 CTACTGTAGCAAAAGCGCGTCCCCAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCACGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
9894660 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTTAAAAAAATTTTATTTCATCCATAAC
66 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAA-ATTATTTCATCCATAAC
* * *
9894721 CTACTGTAGTAAGAGCACGTCCACGAGGGCGCGA-TTTCA-AAATTTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCACGTCCACAAGGGCGCGATTTTCACAAA-TTCTTCTCAAATAGCATCCT
* *
9894784 GCTAGAAGCGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAAATTATTTC
65 GCTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTC
9894836 TTCCCGGACC
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 10 0.10
125 66 0.63
126 29 0.28
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCACGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATAAC
Found at i:9899331 original size:29 final size:29
Alignment explanation
Indices: 9899298--9899360 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
9899288 ATTGAAACTT
*
9899298 AATTTTTAAATTTAAAAATA-GAAGGA-TAA
1 AATTTTTAAA-ATAAAAATATG-AGGACTAA
9899327 AATTTTTTAAAATAAAAATATGAGGACTAA
1 AA-TTTTTAAAATAAAAATATGAGGACTAA
9899357 AATT
1 AATT
9899361 CCTTATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (29 bp):
AATTTTTAAAATAAAAATATGAGGACTAA
Found at i:9899336 original size:30 final size:30
Alignment explanation
Indices: 9899300--9899360 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
9899290 TGAAACTTAA
*
9899300 TTTTTAAATTTAAAAATA-GAAGGA-TAAAAT
1 TTTTTAAA-ATAAAAATATG-AGGACTAAAAT
9899330 TTTTTAAAATAAAAATATGAGGACTAAAAT
1 TTTTTAAAATAAAAATATGAGGACTAAAAT
9899360 T
1 T
9899361 CCTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (30 bp):
TTTTTAAAATAAAAATATGAGGACTAAAAT
Found at i:9899859 original size:22 final size:22
Alignment explanation
Indices: 9899829--9899906 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
9899819 ATTTTCTCTC
*
9899829 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
**
9899852 AATTCTCTCAATTTCCTTAAAA
1 AATTCTCTCAATTTCCTTCCAA
*
9899874 AATTCTCTTAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
9899896 AATTCTCTCAA
1 AATTCTCTCAA
9899907 ATCCATATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 44 0.92
23 4 0.08
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:9900125 original size:14 final size:15
Alignment explanation
Indices: 9900094--9900124 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9900084 TTTTTAAATA
9900094 TTATTTAAGAATTTT
1 TTATTTAAGAATTTT
*
9900109 TTATTTATGAATTTT
1 TTATTTAAGAATTTT
9900124 T
1 T
9900125 AGATAATTAT
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATTTAAGAATTTT
Found at i:9901780 original size:18 final size:18
Alignment explanation
Indices: 9901757--9901792 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9901747 GCGTTTCCTA
9901757 ACCCTTATATGTACCTTT
1 ACCCTTATATGTACCTTT
*
9901775 ACCCTTATATGTATCTTT
1 ACCCTTATATGTACCTTT
9901793 TTTCGAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (18 bp):
ACCCTTATATGTACCTTT
Found at i:9902334 original size:29 final size:29
Alignment explanation
Indices: 9902266--9902969 Score: 969
Period size: 29 Copynumber: 23.9 Consensus size: 29
9902256 GTTTATTCCT
* * *
9902266 AACCTTAACCCTAACCAAACTTTATT-AA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
9902294 AACACTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
9902323 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
9902352 AACCCTAACCTTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
9902381 AACCCTAGCCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
9902410 AACCCTAACCCTAACCTAACTTAATGAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
** *
9902439 AACCCTAACATTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
9902468 AACCCTAACCCTAACCAAACTTTATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
9902497 AACACTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
9902526 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
9902555 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
9902585 AACCCTAACCCTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
9902614 AACCCTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
9902643 AACACTCTAACCCTAACCAAACTCAATTAAA
1 AAC-C-CTAACCCTAACCTAACTTAATTAAA
* *
9902674 AACTCTAACCCTAAACTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
9902703 AACCCTAACACTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
9902732 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
9902762 AACCCTAACCCTAACCTAATTTAATTAAAAACCA
1 AACCCTAACCCTAACCTAACTTAATT---AA--A
*
9902796 TAACCCTAACCCTAACCAAACTTAATTAAA
1 -AACCCTAACCCTAACCTAACTTAATTAAA
9902826 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
9902855 AACCCTAACTCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
9902884 AACCCTAAACCCTAACCTAATTTAATTTAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
9902914 AACCCTAACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
9902943 AACCCTAACCCTAACCCTAACTCAATT
1 AACCCTAACCCTAA-CCTAACTTAATT
9902970 GATAATTTCA
Statistics
Matches: 607, Mismatches: 56, Indels: 24
0.88 0.08 0.03
Matches are distributed among these distances:
28 22 0.04
29 435 0.72
30 93 0.15
31 28 0.05
32 4 0.01
34 1 0.00
35 24 0.04
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAACTTAATTAAA
Found at i:9902607 original size:88 final size:87
Alignment explanation
Indices: 9902266--9902969 Score: 969
Period size: 88 Copynumber: 8.0 Consensus size: 87
9902256 GTTTATTCCT
* * * *
9902266 AACCTTAACCCTAACCAAACTTTATT-AAAACACTAACCCTAACCAAACTCAATTAAAAACCCTA
1 AACCCTAACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCTA
9902330 ACCCTAACCTAACTTAATTAAA
66 ACCCTAACCTAACTTAATTAAA
* * * *
9902352 AACCCTAACCTTAACCAAACTTAATTAAAAACCCTAGCCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCTA
*
9902417 ACCCTAACCTAACTTAATGAAA
66 ACCCTAACCTAACTTAATTAAA
** * * * *
9902439 AACCCTAACATTAACCTAACTCAATTAAAAACCCTAACCCTAACCAAACTTTATTAAAAACACTA
1 AACCCTAACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCTA
* *
9902504 ACCCTAACCAAACTCAATTAAA
66 ACCCTAACCTAACTTAATTAAA
* * *
9902526 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCAAACTTAATTAAAAACCCT-AACCCTAACCAAACTTAATTAAAAACCCT
*
9902591 AACCCTAACCTAACTCAATTAAA
65 AACCCTAACCTAACTTAATTAAA
* * *
9902614 AACCCTAACCCTAACCAAACTCAATTAAAAACACTCTAACCCTAACCAAACTCAATTAAAAACTC
1 AACCCTAACCCTAACCAAACTTAATTAAAAAC-C-CTAACCCTAACCAAACTTAATTAAAAACCC
*
9902679 TAACCCTAAACTAACTTAATTAAA
64 TAACCCTAACCTAACTTAATTAAA
* * * *
9902703 AACCCTAACACTAACCTAACTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCAAACTTAATTAAAAACCCT-AACCCTAACCAAACTTAATTAAAAACCCT
*
9902768 AACCCTAACCTAATTTAATTAAAAACCA
65 AACCCTAACCTAACTTAATT---AA--A
*
9902796 TAACCCTAACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
1 -AACCCTAACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCT
*
9902861 AACTCTAACCTAACTTAATTAAA
65 AACCCTAACCTAACTTAATTAAA
* * *
9902884 AACCCTAAACCCTAACCTAATTTAATTTAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCT
1 AACCCT-AACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCT
*
9902949 AACCCTAACCCTAACTCAATT
65 AACCCTAA-CCTAACTTAATT
9902970 GATAATTTCA
Statistics
Matches: 549, Mismatches: 56, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
86 23 0.04
87 170 0.31
88 183 0.33
89 87 0.16
90 4 0.01
91 2 0.00
93 47 0.09
94 33 0.06
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (87 bp):
AACCCTAACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCTA
ACCCTAACCTAACTTAATTAAA
Found at i:9903192 original size:37 final size:37
Alignment explanation
Indices: 9902968--9903193 Score: 398
Period size: 37 Copynumber: 6.1 Consensus size: 37
9902958 CCTAACTCAA
9902968 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
* *
9903005 TTCATAATTTCACTAACCATTAATTATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
9903042 TTCATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
9903079 TTCATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
9903116 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
* *
9903153 TTGATAATTTTACTAACCATTAGTAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
9903190 TTGA
1 TTGA
9903194 GTTAATACAA
Statistics
Matches: 183, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 183 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (37 bp):
TTGATAATTTCACTAACCATTAATAATTTTATATAAT
Found at i:9906599 original size:125 final size:125
Alignment explanation
Indices: 9906223--9906600 Score: 596
Period size: 125 Copynumber: 3.0 Consensus size: 125
9906213 CCCAAACATG
* *
9906223 CTACTGTAGCAAAAGCGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
9906288 TAGAAGCGATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGAC
* * *
9906348 CTACAGTAGCAAAAGCGCATCCACGAGGTCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
9906413 TAAAAGCGATTTTATACTATTTGCTTAGAAAAGTAAAAAAAAAATTATTTATTACATGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGAC
*
9906473 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*** * *
9906538 TAAAAGCGATTTTATACTATTTGCTCAGAAACA-TCAACTCAAAATTATTTCTTCCAGGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAA-AGTCAAAAAAAAATTATTTCTTACATGAC
9906598 CTA
1 CTA
9906601 AAAACCCTAA
Statistics
Matches: 230, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
125 229 1.00
126 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:9907653 original size:9 final size:9
Alignment explanation
Indices: 9907639--9907687 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
9907629 TTTGGTTAAA
9907639 AATTAACCG
1 AATTAACCG
**
9907648 AATTAAGTG
1 AATTAACCG
9907657 AATTAACCG
1 AATTAACCG
**
9907666 AATTGCCCG
1 AATTAACCG
*
9907675 AATTACCCG
1 AATTAACCG
9907684 AATT
1 AATT
9907688 GAATCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:9907717 original size:17 final size:17
Alignment explanation
Indices: 9907695--9907757 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
9907685 ATTGAATCAC
9907695 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
9907712 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
9907732 TACATAATTAAAAAAAT
1 TACATAATTAAAAACAT
9907749 TACATAATT
1 TACATAATT
9907758 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 21 0.62
20 13 0.38
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:9907727 original size:37 final size:37
Alignment explanation
Indices: 9907686--9907760 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
9907676 ATTACCCGAA
*
9907686 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
*
9907723 TTGAATCACTACATAATTAAAAAAATTACATAATTCT
1 TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
9907760 T
1 T
9907761 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
Found at i:9907774 original size:37 final size:37
Alignment explanation
Indices: 9907686--9907777 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
9907676 ATTACCCGAA
* *
9907686 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAAAATTACATAAGTCT
* *
9907723 TTGAATCACTACATAATTAAAAAAATTACATAATTC-
1 TTGAATAACTACATAATTAAAAAAATTACATAAGTCT
9907759 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
9907778 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 3 0.06
37 44 0.88
38 3 0.06
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAAAATTACATAAGTCT
Found at i:9907971 original size:39 final size:39
Alignment explanation
Indices: 9907885--9907991 Score: 171
Period size: 39 Copynumber: 2.8 Consensus size: 39
9907875 TACTTAGAGT
*
9907885 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGAG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGAG
* *
9907923 TAGATTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGAG
*
9907962 TAGACTTTAGTTTTAGATTTATTGGGTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGG
9907992 ATTGGTAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 26 0.41
39 37 0.59
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGAG
Found at i:9908008 original size:12 final size:12
Alignment explanation
Indices: 9907988--9908021 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
9907978 ATTTATTGGG
*
9907988 TTGGATTGGTAA
1 TTGGGTTGGTAA
9908000 TTGGGTTGGGTAA
1 TTGGGTT-GGTAA
9908013 TTGGGTTGG
1 TTGGGTTGG
9908022 GTTAGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (12 bp):
TTGGGTTGGTAA
Found at i:9908013 original size:13 final size:13
Alignment explanation
Indices: 9907995--9908023 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9907985 GGGTTGGATT
9907995 GGTAATTGGGTTG
1 GGTAATTGGGTTG
9908008 GGTAATTGGGTTG
1 GGTAATTGGGTTG
9908021 GGT
1 GGT
9908024 TAGATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:9909100 original size:23 final size:23
Alignment explanation
Indices: 9909070--9909113 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9909060 ATTGTATATT
* *
9909070 TTTTTCTCTTCTTCTTCTTCTTC
1 TTTTTCTCATCTCCTTCTTCTTC
9909093 TTTTTCTCATCTCCTTCTTCT
1 TTTTTCTCATCTCCTTCTTCT
9909114 ACTGCCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTCTCATCTCCTTCTTCTTC
Found at i:9911270 original size:31 final size:31
Alignment explanation
Indices: 9911235--9911297 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
9911225 AGACTAAAAA
9911235 TCCACACATTACAATCCCAAATAATGAGACT
1 TCCACACATTACAATCCCAAATAATGAGACT
9911266 TCCACACATTACAATCCCAAATAATGAGACT
1 TCCACACATTACAATCCCAAATAATGAGACT
9911297 T
1 T
9911298 AAAACTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (31 bp):
TCCACACATTACAATCCCAAATAATGAGACT
Found at i:9912073 original size:108 final size:107
Alignment explanation
Indices: 9911901--9912328 Score: 633
Period size: 108 Copynumber: 4.0 Consensus size: 107
9911891 AAGATATAAG
* * * *
9911901 AGGATATTTGGCTATTTAGTCCAACGAG-AAATTGAAACCAAGCACATTAGGGCACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
*
9911965 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
66 AATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* * *
9912007 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAGCCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
* * *
9912072 GAATTTCCAAGCGCAGAACATTGCCTTATTTTTGAAATTTTTAAA
65 GAATTTCCAAACGCAAAACATTACCTTA-TTTTGAAA-TTTTAAA
* *
9912117 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
* *
9912182 AAATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
65 GAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* *
9912225 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCTAGCACATTAGGGAACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
* * *
9912290 AATTTTCAAACGCAACACATTACCTTATTTTAAAATTTT
66 AATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
9912329 TTTCCAAAAA
Statistics
Matches: 294, Mismatches: 24, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
106 25 0.09
107 69 0.23
108 92 0.31
109 16 0.05
110 92 0.31
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
AATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
Found at i:9912165 original size:110 final size:107
Alignment explanation
Indices: 9911901--9912328 Score: 617
Period size: 110 Copynumber: 4.0 Consensus size: 107
9911891 AAGATATAAG
* * *
9911901 AGGATATTTGGCTATTTAGTCCAACGAG-AAATTGAAA-CCAAGCACATTAGGGCACGTTTCCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAA-CACATTAGGGCACGTTTCCTC
*
9911964 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
65 GAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* * * *
9912007 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAGCCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAACACATTAGGGCACGTTTCCTC
* * *
9912072 GAATTTCCAAGCGCAGAACATTGCCTTATTTTTGAAATTTTTAAA
65 GAATTTCCAAACGCAAAACATTACCTTA-TTTTGAAA-TTTTAAA
*
9912117 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAACACATTAGGGCACGTTTCCTC
* *
9912182 AAATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
65 GAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* * *
9912225 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCTAGCACATTAGGGAACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCG
* * *
9912290 AATTTTCAAACGCAACACATTACCTTATTTTAAAATTTT
66 AATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
9912329 TTTCCAAAAA
Statistics
Matches: 293, Mismatches: 24, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
106 25 0.09
107 69 0.24
108 88 0.30
109 19 0.06
110 92 0.31
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAACACATTAGGGCACGTTTCCTCG
AATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
Found at i:9914264 original size:13 final size:13
Alignment explanation
Indices: 9914243--9914272 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9914233 CTTAAACTAA
*
9914243 ATTTTTCAAAAGT
1 ATTTCTCAAAAGT
9914256 ATTTCTCAAAAGT
1 ATTTCTCAAAAGT
9914269 ATTT
1 ATTT
9914273 TTCACTGCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (13 bp):
ATTTCTCAAAAGT
Found at i:9919211 original size:15 final size:15
Alignment explanation
Indices: 9919193--9919222 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9919183 TATTTAATTC
*
9919193 CAATCAATTTGATTT
1 CAATAAATTTGATTT
9919208 CAATAAATTTGATTT
1 CAATAAATTTGATTT
9919223 AATTTTTAGT
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:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (15 bp):
CAATAAATTTGATTT
Found at i:9919975 original size:80 final size:81
Alignment explanation
Indices: 9919810--9920008 Score: 204
Period size: 80 Copynumber: 2.5 Consensus size: 81
9919800 GTTTTTGTAA
* * * * * * *
9919810 AAGCGACGCTAATGC-TCGGATCTTTAGCAGCGTTTCTATCTGGGCGCCGCTAATTCTCTGGCCT
1 AAGCGACGCTAATGCAT-TGACCTTTAGCGGCGTTT-TTTTTGTGCGCCGCTAATGCTCTGGCCT
* *
9919874 TTAGCGGCGTTTTTAACT
64 TTAGAGGCGCTTTTAACT
* * * *
9919892 AAGCGACGCTAATG-GTTGGCCTTTAGTGGCGTTTTTTTTGTGCGCCGCTAATGCTGTGGCCTTT
1 AAGCGACGCTAATGCATTGACCTTTAGCGGCGTTTTTTTTGTGCGCCGCTAATGCTCTGGCCTTT
***
9919956 AGAGGCGCTTTTGTGT
66 AGAGGCGCTTTTAACT
* *
9919972 AAGCGCCGCTAATGCATTTACCTTTAGCGGCGTTTTT
1 AAGCGACGCTAATGCATTGACCTTTAGCGGCGTTTTT
9920009 GCCGAAGCGC
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
80 49 0.52
81 31 0.33
82 15 0.16
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.35
Consensus pattern (81 bp):
AAGCGACGCTAATGCATTGACCTTTAGCGGCGTTTTTTTTGTGCGCCGCTAATGCTCTGGCCTTT
AGAGGCGCTTTTAACT
Found at i:9920009 original size:41 final size:40
Alignment explanation
Indices: 9919788--9920025 Score: 176
Period size: 41 Copynumber: 5.9 Consensus size: 40
9919778 GATTTTTTGA
* ** * *
9919788 GCCTTTAGCGGTGTTTTTGTAAAAGCGACGCTAATGCTCG
1 GCCTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTTG
* * * * * ** *
9919828 GATCTTTAGCAGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
1 G-CCTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCT-TG
*** * *
9919870 GCCTTTAGCGGCGTTTTTAACTAAGCGACGCTAATGGTTG
1 GCCTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTTG
* *
9919910 GCCTTTAGTGGCGTTTTTTTTGT--GCGCCGCTAATGCTGTG
1 GCCTTTAGCGGCG-TTTTTGTGTAAGCGCCGCTAATGCT-TG
* * *
9919950 GCCTTTAGAGGCGCTTTTGTGTAAGCGCCGCTAATGCATTT
1 GCCTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGC-TTG
* *
9919991 ACCTTTAGCGGCGTTTTTGCCG-AAGCGCCGCTAAT
1 GCCTTTAGCGGCGTTTTTG-TGTAAGCGCCGCTAAT
9920026 AGTAAAAAAA
Statistics
Matches: 155, Mismatches: 35, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
39 19 0.12
40 29 0.19
41 103 0.66
42 4 0.03
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (40 bp):
GCCTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTTG
Found at i:9924214 original size:13 final size:13
Alignment explanation
Indices: 9924198--9924235 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
9924188 TTTTTTTTGT
9924198 TATATTTTAGTTG
1 TATATTTTAGTTG
9924211 TATATTTTAGTTG
1 TATATTTTAGTTG
9924224 TATATTTTAGTT
1 TATATTTTAGTT
9924236 TTAATTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (13 bp):
TATATTTTAGTTG
Found at i:9924743 original size:21 final size:21
Alignment explanation
Indices: 9924714--9924766 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
9924704 ACATCTTTGA
* *
9924714 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
9924736 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
9924756 TATATATATTT
1 TATATATATTT
9924767 GAAAAGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:9924902 original size:55 final size:55
Alignment explanation
Indices: 9924787--9924972 Score: 188
Period size: 55 Copynumber: 3.4 Consensus size: 55
9924777 GAAATCATAT
* * * *
9924787 CATAATTTACATACATAA---AATATA-TAAATTTTTATATAAACTTACACAACA
1 CATAACTTACATACATAACTTAATATACAAAATTTTTATATAAACTTACATAATA
*
9924838 CATAACTTACATACATAACTTAA-A-CCAAAATTTTTATATAAAACTTACATACATA
1 CATAACTTACATACATAACTTAATATACAAAATTTTTATAT-AAACTTACATA-ATA
* *
9924893 CATAACTTACATACATAATACATAACTTATATAAAATTTTTATATAAACTTACATAATA
1 CATAACTTACATACAT-A-ACTTAA--TATACAAAATTTTTATATAAACTTACATAATA
* *
9924952 CATTACTTACATA-TTAACTTA
1 CATAACTTACATACATAACTTA
9924973 CATAAGTTAT
Statistics
Matches: 112, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
51 17 0.15
53 13 0.12
54 12 0.11
55 18 0.16
56 5 0.04
57 6 0.05
58 1 0.01
59 15 0.13
60 12 0.11
61 13 0.12
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (55 bp):
CATAACTTACATACATAACTTAATATACAAAATTTTTATATAAACTTACATAATA
Found at i:9924915 original size:20 final size:21
Alignment explanation
Indices: 9924883--9924921 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
9924873 ATATAAAACT
9924883 TACATACATACATAACTTACA
1 TACATACATACATAACTTACA
9924904 TACATA-ATACATAACTTA
1 TACATACATACATAACTTA
9924922 TATAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (21 bp):
TACATACATACATAACTTACA
Found at i:9924977 original size:60 final size:62
Alignment explanation
Indices: 9924848--9924964 Score: 186
Period size: 59 Copynumber: 1.9 Consensus size: 62
9924838 CATAACTTAC
*
9924848 ATACATAACTTAAACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
1 ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
* *
9924910 ATACATAACTTATA-TAAAATTTTTATAT-AAACTTACATA-ATACATTACTTACATA
1 ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATA
9924965 TTAACTTACA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 15 0.29
60 11 0.21
61 13 0.25
62 13 0.25
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (62 bp):
ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
Found at i:9925018 original size:9 final size:9
Alignment explanation
Indices: 9925000--9925326 Score: 222
Period size: 9 Copynumber: 37.8 Consensus size: 9
9924990 CTTATATTTA
*
9925000 AACTTGCAT
1 AACTTACAT
9925009 AACTTACAT
1 AACTTACAT
*
9925018 AA-TAACAT
1 AACTTACAT
9925026 AACAACTTACAT
1 ---AACTTACAT
9925038 AA--TACAT
1 AACTTACAT
* *
9925045 AGCATACAT
1 AACTTACAT
9925054 AACTTACAT
1 AACTTACAT
*
9925063 AA--TACAA
1 AACTTACAT
9925070 AACTTACAT
1 AACTTACAT
*
9925079 AACTTAAAT
1 AACTTACAT
* *
9925088 ATCTTACAC
1 AACTTACAT
9925097 AACTTACAT
1 AACTTACAT
*
9925106 AACCTACAT
1 AACTTACAT
9925115 AA--TACAT
1 AACTTACAT
9925122 AACTTACAT
1 AACTTACAT
*
9925131 AACTTACCT
1 AACTTACAT
9925140 AACTTACAT
1 AACTTACAT
*
9925149 AATACATA-AT
1 -A-ACTTACAT
9925159 AACTTAC--
1 AACTTACAT
9925166 AACTTACAT
1 AACTTACAT
*
9925175 AACATACAT
1 AACTTACAT
* **
9925184 TACTTTGAT
1 AACTTACAT
9925193 AACTTACAT
1 AACTTACAT
*
9925202 AAGTTACAT
1 AACTTACAT
**
9925211 AAAATACAT
1 AACTTACAT
9925220 AACTTAC--
1 AACTTACAT
9925227 AACTTACAT
1 AACTTACAT
*
9925236 AACATACAT
1 AACTTACAT
* **
9925245 TACTTTGAT
1 AACTTACAT
*
9925254 AAC-TA-TT
1 AACTTACAT
**
9925261 AAAATACAT
1 AACTTACAT
*
9925270 AA--TACAC
1 AACTTACAT
9925277 AACTTACAT
1 AACTTACAT
* *
9925286 AGCTTACTT
1 AACTTACAT
9925295 AA--TACAT
1 AACTTACAT
9925302 AACTTACAT
1 AACTTACAT
9925311 AACTTACAT
1 AACTTACAT
*
9925320 AATTTAC
1 AACTTAC
9925327 TTAATACATA
Statistics
Matches: 246, Mismatches: 49, Indels: 46
0.72 0.14 0.13
Matches are distributed among these distances:
7 48 0.20
8 12 0.05
9 172 0.70
10 3 0.01
11 6 0.02
12 5 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:9925060 original size:25 final size:25
Alignment explanation
Indices: 9925029--9925322 Score: 186
Period size: 25 Copynumber: 11.5 Consensus size: 25
9925019 ATAACATAAC
* *
9925029 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
9925054 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
9925079 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
9925106 AACCTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
9925131 AACTTACCTAACTTACATAATACATA-AT
1 AACTTACATAA--TACAT-A-ACTTACAT
* *
9925159 AACTTACA-ACTTACATAACATACAT
1 AACTTACATA-ATACATAACTTACAT
* ** *
9925184 TACTTTGATAACTTACATAAGTTACAT
1 AACTTACATAA--TACATAACTTACAT
**
9925211 AAAATACATAACTTAC--AACTTACAT
1 AACTTACATAA--TACATAACTTACAT
* * ** *
9925236 AACATACATTACTTTGATAAC-TA-TT
1 AACTTACA-TA-ATACATAACTTACAT
** *
9925261 AAAATACATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
9925286 AGCTTACTTAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
9925311 AACTTACATAAT
1 AACTTACATAAT
9925323 TTACTTAATA
Statistics
Matches: 207, Mismatches: 45, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
23 5 0.02
24 9 0.04
25 116 0.56
26 10 0.05
27 53 0.26
28 10 0.05
29 4 0.02
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:9925121 original size:43 final size:41
Alignment explanation
Indices: 9925049--9925159 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 41
9925039 ATACATAGCA
* * *
9925049 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCT
1 TACACAACTTACATAATACATAA--TACATAACTTAAATAACT
*
9925092 TACACAACTTACATAACCTACATAATACATAACTTACATAACT
1 TACACAACTTACATAA--TACATAATACATAACTTAAATAACT
9925135 TAC-CTAACTTACATAATACATAATA
1 TACAC-AACTTACATAATACATAATA
9925160 ACTTACAACT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
41 9 0.15
42 1 0.02
43 45 0.74
45 6 0.10
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.31
Consensus pattern (41 bp):
TACACAACTTACATAATACATAATACATAACTTAAATAACT
Found at i:9925183 original size:105 final size:105
Alignment explanation
Indices: 9925047--9925238 Score: 228
Period size: 105 Copynumber: 1.8 Consensus size: 105
9925037 TAATACATAG
* * **
9925047 CATACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACCTA
1 CATACATAACTTACATAATACAAAACATACATAACTTAAATAACTTACACAACTTACATAAAATA
9925112 CATAA-TACATAACTTACATAACTTACCTAACTTACATAATA
66 CATAACTAC--AACTTACATAACTTACCTAACTTACATAATA
* * * ** * *
9925153 CATA-ATAACTTACA-ACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAAAAT
1 CATACATAACTTACATA-ATACAAAACATACATAACTTAAATAACTTACACAACTTACATAAAAT
9925216 ACATAACTTACAACTTACATAAC
65 ACATAAC-TACAACTTACATAAC
9925239 ATACATTACT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
104 1 0.01
105 64 0.89
106 4 0.06
107 3 0.04
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (105 bp):
CATACATAACTTACATAATACAAAACATACATAACTTAAATAACTTACACAACTTACATAAAATA
CATAACTACAACTTACATAACTTACCTAACTTACATAATA
Found at i:9925240 original size:61 final size:62
Alignment explanation
Indices: 9925070--9925337 Score: 220
Period size: 61 Copynumber: 4.4 Consensus size: 62
9925060 CATAATACAA
* * * * * **
9925070 AACTTACATAACTTAAAT-AT-CTTACACAACTTACATAACCTACAT-A-ATACATAACTTACAT
1 AACTTACATAACTTACATAATACATA-ATAACTTAC--AACTTACATAACATACATTACTTTGAT
*
9925131 AACTTACCTAACTTACATAATACATAATAACTTACAACTTACATAACATACATTACTTTGAT
1 AACTTACATAACTTACATAATACATAATAACTTACAACTTACATAACATACATTACTTTGAT
*
9925193 AACTTACATAAGTTACATAA-A-ATACATAACTTACAACTTACATAACATACATTACTTTGAT
1 AACTTACATAACTTACATAATACATA-ATAACTTACAACTTACATAACATACATTACTTTGAT
* ** * * * **
9925254 AAC-TA-TTAAAATACATAATAC---ACAACTTACATAGCTTAC-TTA-ATACATAACTTACAT
1 AACTTACATAACTTACATAATACATAATAACTTACA-A-CTTACATAACATACATTACTTTGAT
* *
9925311 AACTTACATAATTTACTTAATACATAA
1 AACTTACATAACTTACATAATACATAA
9925338 ATTATGTAAC
Statistics
Matches: 171, Mismatches: 22, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
57 24 0.14
58 5 0.03
59 27 0.16
60 14 0.08
61 57 0.33
62 41 0.24
63 3 0.02
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (62 bp):
AACTTACATAACTTACATAATACATAATAACTTACAACTTACATAACATACATTACTTTGAT
Found at i:9925319 original size:34 final size:32
Alignment explanation
Indices: 9925263--9925337 Score: 105
Period size: 34 Copynumber: 2.3 Consensus size: 32
9925253 TAACTATTAA
*
9925263 AATACATAATACACAACTTACATAGCTTACTT
1 AATACATAATACACAACTTACATAACTTACTT
* *
9925295 AATACATAACTTACATAACTTACATAATTTACTT
1 AATACATAA--TACACAACTTACATAACTTACTT
9925329 AATACATAA
1 AATACATAA
9925338 ATTATGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 9 0.24
34 29 0.76
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (32 bp):
AATACATAATACACAACTTACATAACTTACTT
Found at i:9931387 original size:85 final size:84
Alignment explanation
Indices: 9931291--9931563 Score: 313
Period size: 85 Copynumber: 3.2 Consensus size: 84
9931281 CTTTTGTGAA
* * * * *
9931291 ATAAGTGCCGCTAAAGAACACTA-CTTTTAGCGGCGTTT-TTGACCAAGCGCCGCTATAGAACAT
1 ATAAGCGCCGCTAAAGAATA-TATC-TTTAGCGGCGTTTATT-TCCTAGCGCCGCTAAAGAACAT
*
9931354 TA-CTTTTAGCGGCGTTTTATTTC
63 GATC-TTTAGCGGCGTTTT-TTTC
* *
9931377 -TAAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATG
1 ATAAGCGCCGCTAAAGAATAT-ATCTTTAGCGGCGTTTATTTCC-TAGCGCCGCTAAAGAACATG
9931441 ATCTTTAGCGGCG-TTTTTTC
64 ATCTTTAGCGGCGTTTTTTTC
* *
9931461 ATAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTCTTAGCGCCGCTAAAGAACATG
1 ATAAGCGCCGCTAAAGAATA-TATCTTTAGCGGCGTTTA-TTTCCTAGCGCCGCTAAAGAACATG
9931526 ATCTTTAGCGGCGTTTTTTTC
64 ATCTTTAGCGGCGTTTTTTTC
* *
9931547 TGTAAGCGCCGCAAAAG
1 -ATAAGCGCCGCTAAAG
9931564 TTAGCGACGT
Statistics
Matches: 163, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
84 5 0.03
85 103 0.63
86 40 0.25
87 15 0.09
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAATATATCTTTAGCGGCGTTTATTTCCTAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTTTTC
Found at i:9931405 original size:43 final size:41
Alignment explanation
Indices: 9931292--9931563 Score: 280
Period size: 43 Copynumber: 6.4 Consensus size: 41
9931282 TTTTGTGAAA
* *
9931292 TAAGTGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TC
* * *
9931334 CAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTT-TTTC
*
9931377 TAAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-C
* * *
9931420 TTAGCGCTGATAAAGAACATGATCTTTAGCGGCGTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
* *
9931461 ATAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTC
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TT-TTTTC
*
9931505 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC
*
9931547 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
9931564 TTAGCGACGT
Statistics
Matches: 198, Mismatches: 22, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.01
42 73 0.37
43 102 0.52
44 21 0.11
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
Found at i:9931467 original size:128 final size:128
Alignment explanation
Indices: 9931316--9931546 Score: 333
Period size: 128 Copynumber: 1.8 Consensus size: 128
9931306 GAACACTACT
* * **
9931316 TTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTT-TATTTCTA
1 TTTAGCGGCGTTTTTCACCAAGCGCCGCTAAAGAACAGGATC-TTTAGCGGCGTTTAT-TTTCTA
*
9931379 AGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
64 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
* * *
9931444 TTTAGCGGCGTTTTTTCA-TAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTCTTA
1 TTTAGCGGCG-TTTTTCACCAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTATTTTCTAA
*
9931508 GCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
65 GCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
9931547 TGTAAGCGCC
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
128 83 0.91
129 8 0.09
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (128 bp):
TTTAGCGGCGTTTTTCACCAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTATTTTCTAAG
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
Found at i:9932578 original size:10 final size:9
Alignment explanation
Indices: 9932541--9932579 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
9932531 ATTTTATTAC
9932541 AAATTAAAA
1 AAATTAAAA
9932550 AAATTAAAA
1 AAATTAAAA
9932559 AAATTGTAAAA
1 AAA-T-TAAAA
9932570 AAATATAAAA
1 AAAT-TAAAA
9932580 TATATGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 12 0.44
10 7 0.26
11 8 0.30
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (9 bp):
AAATTAAAA
Found at i:9932751 original size:17 final size:17
Alignment explanation
Indices: 9932719--9932751 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9932709 TTTTTCTATA
*
9932719 ATTTTTTATTAGTTTTT
1 ATTTTTTATCAGTTTTT
9932736 ATTTTTTATCA-TTTTT
1 ATTTTTTATCAGTTTTT
9932752 CGCCACATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTTTATCAGTTTTT
Found at i:9936600 original size:88 final size:90
Alignment explanation
Indices: 9936481--9936669 Score: 249
Period size: 88 Copynumber: 2.1 Consensus size: 90
9936471 TTAATTAAGT
* * * * *
9936481 CTTTTTTTGTTACACTTAATTGTGTATTTGAACTTTTAAAATGCATAAAAAAGACTCTC-AAACT
1 CTTTTTTT-TTACACTCAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAACT
9936545 TTTAAAAAAAAACAATTAAA-CTCCTG
65 TTTAAAAAAAAACAATTAAACCT-CTG
* * *
9936571 -TTTTTTTTTCCACTCAATTGGGTAATTGAAATGTTAAAATGCATAAAAAATACTCTCAAAATTT
1 CTTTTTTTTTACACTCAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAACTT
* *
9936635 TTCAAAAAAAGCAATTAAACCTCTG
66 TTAAAAAAAAACAATTAAACCTCTG
9936660 CTTTTTTTTT
1 CTTTTTTTTT
9936670 TTTTGCACTT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
88 43 0.50
89 32 0.37
90 11 0.13
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (90 bp):
CTTTTTTTTTACACTCAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAACTT
TTAAAAAAAAACAATTAAACCTCTG
Found at i:9936744 original size:20 final size:20
Alignment explanation
Indices: 9936708--9936745 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9936698 AAAATGCCAT
*
9936708 TTGACCGTAAACTTTAACAA
1 TTGACCGTAAACGTTAACAA
9936728 TTGACCGTTAAA-GTTAAC
1 TTGACCG-TAAACGTTAAC
9936746 TGCCCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGACCGTAAACGTTAACAA
Found at i:9936829 original size:10 final size:9
Alignment explanation
Indices: 9936808--9936917 Score: 69
Period size: 10 Copynumber: 11.4 Consensus size: 9
9936798 ACATGTGACA
9936808 AAAAATTAT
1 AAAAATTAT
9936817 AAAAATTATT
1 AAAAATTA-T
**
9936827 AAACTTTAAT
1 AAAAATT-AT
*
9936837 AAAAATTAGA
1 AAAAATTA-T
9936847 AAAAATATAT
1 AAAAAT-TAT
*
9936857 AAAAATCGTAA
1 AAAAAT--TAT
*
9936868 AAAAATATAA
1 AAAAAT-TAT
9936878 AAAAATT-T
1 AAAAATTAT
*
9936886 AAAATTTTAT
1 AAAA-ATTAT
*
9936896 AAAAATCAT
1 AAAAATTAT
*
9936905 AAAAAATAT
1 AAAAATTAT
9936914 AAAA
1 AAAA
9936918 TGCATCAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
8 4 0.05
9 26 0.33
10 38 0.48
11 11 0.14
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9936858 original size:20 final size:19
Alignment explanation
Indices: 9936807--9936914 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 19
9936797 CACATGTGAC
9936807 AAAAAAT-TATAAAAATTA
1 AAAAAATATATAAAAATTA
** * *
9936825 TTAAACTTTAATAAAAATTA
1 AAAAAATAT-ATAAAAATTA
9936845 GAAAAAATATATAAAAATCGTA
1 -AAAAAATATATAAAAAT--TA
*
9936867 AAAAAATATAAAAAAATT-
1 AAAAAATATATAAAAATTA
* * * *
9936885 TAAAATTTTATAAAAATCA
1 AAAAAATATATAAAAATTA
9936904 TAAAAAATATA
1 -AAAAAATATA
9936915 AAATGCATCA
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
18 17 0.25
19 2 0.03
20 25 0.37
21 21 0.31
22 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAAATATATAAAAATTA
Found at i:9936861 original size:21 final size:18
Alignment explanation
Indices: 9936837--9936917 Score: 56
Period size: 21 Copynumber: 4.2 Consensus size: 18
9936827 AAACTTTAAT
9936837 AAAAATTAGAAAAAATATA
1 AAAAATTA-AAAAAATATA
9936856 TAAAAATCGTAAAAAAATATAA
1 -AAAAAT--TAAAAAAATAT-A
* * *
9936878 AAAAATT-TAAAATTTTA
1 AAAAATTAAAAAAATATA
*
9936895 TAAAAATCATAAAAAATATA
1 -AAAAATTA-AAAAAATATA
9936915 AAA
1 AAA
9936918 TGCATCAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.25
19 4 0.08
20 13 0.27
21 15 0.31
22 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATTAAAAAAATATA
Found at i:9936889 original size:28 final size:28
Alignment explanation
Indices: 9936847--9936918 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
9936837 AAAAATTAGA
9936847 AAAAATATATAAAAATCGTAAAAAAAT-AT
1 AAAAA-ATAT-AAAATCGTAAAAAAATCAT
* ** *
9936876 AAAAAAATTTAAAATTTTATAAAAATCAT
1 -AAAAAATATAAAATCGTAAAAAAATCAT
9936905 AAAAAATATAAAAT
1 AAAAAATATAAAAT
9936919 GCATCAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 26 0.72
29 5 0.14
30 5 0.14
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (28 bp):
AAAAAATATAAAATCGTAAAAAAATCAT
Found at i:9937207 original size:11 final size:11
Alignment explanation
Indices: 9937187--9937231 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
9937177 TAAAAATTAA
9937187 AAAAATTATTTT
1 AAAAA-TATTTT
9937199 AAAAATATTTT
1 AAAAATATTTT
9937210 --AAA-A-TTT
1 AAAAATATTTT
9937217 AAAAATATTTT
1 AAAAATATTTT
9937228 AAAA
1 AAAA
9937232 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.10
8 1 0.03
9 6 0.21
10 1 0.03
11 13 0.45
12 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:9937267 original size:18 final size:17
Alignment explanation
Indices: 9937197--9937289 Score: 90
Period size: 18 Copynumber: 5.7 Consensus size: 17
9937187 AAAAATTATT
9937197 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
9937214 TTTAAAAATATTTTAAAA
1 -TTAAAAATATTTTAAAA
9937232 TTAAAAA-A---TAAAA
1 TTAAAAATATTTTAAAA
*
9937245 -AAAAAAGTATTTTAAAA
1 TTAAAAA-TATTTTAAAA
*
9937262 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTTAAAA
* *
9937278 ATAAATATATTT
1 TTAAAAATATTT
9937290 ATTATATCGG
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.08
13 5 0.08
14 1 0.02
16 14 0.22
17 16 0.25
18 22 0.35
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:9937277 original size:30 final size:29
Alignment explanation
Indices: 9937217--9937290 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 29
9937207 TTTAAAATTT
9937217 AAAAATATTTTAAAATTAAAAAATAAAAA
1 AAAAATATTTTAAAATTAAAAAATAAAAA
9937246 AAAAAGTATTTTAAAATTAAAAAATTTAAAAA
1 AAAAA-TATTTTAAAATTAAAAAA--TAAAAA
*
9937278 ATAAATATATTTA
1 AAAAATAT-TTTA
9937291 TTATATCGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 5 0.12
30 18 0.45
31 3 0.08
32 14 0.35
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAAATATTTTAAAATTAAAAAATAAAAA
Found at i:9937290 original size:17 final size:16
Alignment explanation
Indices: 9937218--9937290 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
9937208 TTAAAATTTA
* *
9937218 AAAATATTTTAAAATT
1 AAAATATTTAAAAAAT
*
9937234 AAAA-A-ATAAAAAA-
1 AAAATATTTAAAAAAT
* *
9937247 AAAAGTATTTTAAAATT
1 AAAA-TATTTAAAAAAT
*
9937264 AAAAAATTTAAAAAAT
1 AAAATATTTAAAAAAT
9937280 AAATATATTTA
1 AAA-ATATTTA
9937291 TTATATCGGG
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
13 4 0.10
14 5 0.12
15 2 0.05
16 21 0.50
17 10 0.24
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (16 bp):
AAAATATTTAAAAAAT
Found at i:9937529 original size:11 final size:11
Alignment explanation
Indices: 9937500--9937544 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
9937490 GATAAAAAAT
*
9937500 AAAAATTA-AT
1 AAAAATTATAA
*
9937510 AAAAGTTATAA
1 AAAAATTATAA
*
9937521 AAAAATTATAG
1 AAAAATTATAA
9937532 AAAAATTATAA
1 AAAAATTATAA
9937543 AA
1 AA
9937545 TGCTTCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:9937535 original size:22 final size:21
Alignment explanation
Indices: 9937500--9937544 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
9937490 GATAAAAAAT
* *
9937500 AAAAATTAATAAAAGTTATAA
1 AAAAATTAAGAAAAATTATAA
9937521 AAAAATTATAGAAAAATTATAA
1 AAAAATTA-AGAAAAATTATAA
9937543 AA
1 AA
9937545 TGCTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAAATTAAGAAAAATTATAA
Found at i:9937601 original size:20 final size:20
Alignment explanation
Indices: 9937566--9937645 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
9937556 GTATAATAAT
9937566 TTTTATAAATTTTTTTTACAAA
1 TTTTAT-AA-TTTTTTTACAAA
**
9937588 TTTTATAATTTTTTTACATT
1 TTTTATAATTTTTTTACAAA
* * *
9937608 TTTTATCATTTTTTTACGAC
1 TTTTATAATTTTTTTACAAA
9937628 TTTATATAATTTTATTTA
1 TTT-TATAATTTT-TTTA
9937646 TTTTTCTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
20 29 0.59
21 10 0.20
22 10 0.20
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAA
Found at i:9937609 original size:41 final size:42
Alignment explanation
Indices: 9937565--9937645 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 42
9937555 GGTATAATAA
9937565 TTTTTATAAATTTTTTTTACAAATTT-TATAATTTT-TTTACAT
1 TTTTTAT-AA-TTTTTTTACAAATTTATATAATTTTATTTACAT
* * *
9937607 TTTTTATCATTTTTTTACGACTTTATATAATTTTATTTA
1 TTTTTATAATTTTTTTACAAATTTATATAATTTTATTTA
9937646 TTTTTCTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 13 0.38
41 10 0.29
42 11 0.32
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (42 bp):
TTTTTATAATTTTTTTACAAATTTATATAATTTTATTTACAT
Found at i:9937676 original size:17 final size:17
Alignment explanation
Indices: 9937656--9937700 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
9937646 TTTTTCTATA
9937656 TTTTATAATTTTACGAT
1 TTTTATAATTTTACGAT
*
9937673 TTTTATAAAATTTTATGAT
1 TTTTAT--AATTTTACGAT
*
9937692 TTATATAAT
1 TTTTATAAT
9937701 ATTTTTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTTATAATTTTACGAT
Found at i:9937686 original size:19 final size:19
Alignment explanation
Indices: 9937662--9937705 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9937652 TATATTTTAT
*
9937662 AATTTTACGATTTTTATAA
1 AATTTTACGATTTATATAA
*
9937681 AATTTTATGATTTATATAA
1 AATTTTACGATTTATATAA
*
9937700 TATTTT
1 AATTTT
9937706 TCTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
AATTTTACGATTTATATAA
Found at i:9937703 original size:46 final size:46
Alignment explanation
Indices: 9937619--9937714 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 46
9937609 TTTATCATTT
* * * *
9937619 TTTTACGACTTTATATAATTTTATTTATTTTTCTATA-TTTTATAA
1 TTTTACGACTTTATAAAATTTTATTGATTTATATATATTTTTATAA
* *
9937664 TTTTACGATTTTTATAAAATTTTA-TGATTTATATAATATTTTTCTAA
1 TTTTACGA-CTTTATAAAATTTTATTGATTTATAT-ATATTTTTATAA
9937711 TTTT
1 TTTT
9937715 TAATAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
45 15 0.36
46 16 0.38
47 11 0.26
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (46 bp):
TTTTACGACTTTATAAAATTTTATTGATTTATATATATTTTTATAA
Found at i:9937775 original size:29 final size:28
Alignment explanation
Indices: 9937697--9937776 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
9937687 ATGATTTATA
* *
9937697 TAATATTTTTCTAATTTTTAATAAAAATT
1 TAATATTTTTATAATTTTT-ATTAAAATT
*
9937726 AAATATTTCTTAT-ATTTTTATTAAAATT
1 TAATATTT-TTATAATTTTTATTAAAATT
*
9937754 TAATAATTTTTATAACTTTTATT
1 TAAT-ATTTTTATAATTTTTATT
9937777 GATTTTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 15 0.35
29 25 0.58
30 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATATTTTTATAATTTTTATTAAAATT
Found at i:9941206 original size:22 final size:24
Alignment explanation
Indices: 9941163--9941206 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
9941153 ATTTGATATA
*
9941163 TTTTGATATAAAAAATTGAAATGT
1 TTTTGATATAAAAAATTAAAATGT
*
9941187 TTTTGA-AT-AAAAGTTAAAAT
1 TTTTGATATAAAAAATTAAAAT
9941207 TGAACAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 2 0.11
24 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAAAAAATTAAAATGT
Found at i:9941433 original size:44 final size:44
Alignment explanation
Indices: 9941380--9941464 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
9941370 CAAAATTGCT
*
9941380 CAATGCCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
1 CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
* *
9941424 CAATACCAAAATGACATTCTGTTTTTCACAAACTCTATTAA
1 CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAA
9941465 GTATCGATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (44 bp):
CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
Found at i:9943568 original size:17 final size:17
Alignment explanation
Indices: 9943546--9943579 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9943536 CGGAGCCAAT
*
9943546 CTCCTCCACGTGCGCCA
1 CTCCTCCACGCGCGCCA
9943563 CTCCTCCACGCGCGCCA
1 CTCCTCCACGCGCGCCA
9943580 TGGCTTGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.56, G:0.18, T:0.15
Consensus pattern (17 bp):
CTCCTCCACGCGCGCCA
Found at i:9968786 original size:23 final size:23
Alignment explanation
Indices: 9968734--9968786 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
9968724 TTAAGTTAAT
* **
9968734 CAAATTAAGTTATTCGAGTCGACT
1 CAAA-TAAGTTATTCGAGTCAAAG
9968758 CAAATAAGTTATTCGAGTCAAAG
1 CAAATAAGTTATTCGAGTCAAAG
*
9968781 CTAATA
1 CAAATA
9968787 TATGGACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (23 bp):
CAAATAAGTTATTCGAGTCAAAG
Found at i:9970726 original size:17 final size:17
Alignment explanation
Indices: 9970704--9970737 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9970694 TGGAAATTTT
*
9970704 CAAAAAAAAAAGTGAAA
1 CAAAAAAAAAACTGAAA
*
9970721 CAAAAAGAAAACTGAAA
1 CAAAAAAAAAACTGAAA
9970738 AGAAACCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
CAAAAAAAAAACTGAAA
Found at i:9971006 original size:10 final size:11
Alignment explanation
Indices: 9970980--9971005 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9970970 AAAATTTAAA
9970980 AAAAATATTTT
1 AAAAATATTTT
9970991 AAAAATATTTT
1 AAAAATATTTT
9971002 AAAA
1 AAAA
9971006 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:9974417 original size:3 final size:3
Alignment explanation
Indices: 9974409--9974494 Score: 138
Period size: 3 Copynumber: 28.7 Consensus size: 3
9974399 ATCAATTAAA
* *
9974409 TAT TAT TA- TAT TAT TAT AAT AAT GTAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
9974454 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9974495 CGTAAAAGAA
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.03
3 75 0.95
4 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:9975335 original size:36 final size:38
Alignment explanation
Indices: 9975267--9975358 Score: 93
Period size: 36 Copynumber: 2.5 Consensus size: 38
9975257 ATATGTGTGG
*
9975267 AATTGAAATGAATAT-TGACTTGAAAATGG-AAAAGTGAA
1 AATTGAATTGAAT-TGTGACTTGAAAATGGAAAAAGT-AA
** *
9975305 TTTTGAATTGAATTGTGA-TTGAAAGT-GAAAAAGTAA
1 AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTAA
*
9975341 AATTGAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
9975359 ATTTGGAGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
36 18 0.40
37 14 0.31
38 13 0.29
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.32
Consensus pattern (38 bp):
AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTAA
Found at i:9979476 original size:11 final size:11
Alignment explanation
Indices: 9979460--9979485 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9979450 TAGAAGAGAC
9979460 GAAACAGGGGA
1 GAAACAGGGGA
9979471 GAAACAGGGGA
1 GAAACAGGGGA
9979482 GAAA
1 GAAA
9979486 GAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:9980240 original size:39 final size:40
Alignment explanation
Indices: 9980197--9980284 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
9980187 CGAATTATGG
*
9980197 AATACTGAATATTGTCT-TG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGT-TATGCA-TAATGCAGTGAATTGTGAA
*
9980236 AATACTGAATATTGTTATGCATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
*
9980276 ATTACTGAA
1 AATACTGAA
9980285 GTAAAGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 21 0.49
40 21 0.49
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (40 bp):
AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
Found at i:9980539 original size:39 final size:40
Alignment explanation
Indices: 9980459--9980634 Score: 173
Period size: 45 Copynumber: 4.2 Consensus size: 40
9980449 ATTTTCCGGC
* * *
9980459 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
9980497 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
9980536 TTACTG-TTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATT--C-A---GGCACTTTGTGTGTCGAATACTGTTACTG
*
9980581 TTACTG-TTACAGGTTCACCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATT-CAGG-----CACTTTGTGTGTCGAATACTGTTACTG
9980626 TTACTGATT
1 TTACTGATT
9980635 ACTGTATACT
Statistics
Matches: 118, Mismatches: 5, Indels: 22
0.81 0.03 0.15
Matches are distributed among these distances:
38 14 0.12
39 28 0.24
40 3 0.03
43 1 0.01
44 1 0.01
45 69 0.58
46 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (40 bp):
TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:9980554 original size:45 final size:45
Alignment explanation
Indices: 9980486--9980636 Score: 230
Period size: 45 Copynumber: 3.3 Consensus size: 45
9980476 ATGTGCCGAC
*
9980486 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
9980531 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* ** *
9980576 TACTGTTACTGTTACAGGTTCACCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
9980621 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
9980637 TGTATACTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
45 93 0.96
46 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:9986938 original size:11 final size:11
Alignment explanation
Indices: 9986922--9986947 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9986912 TAGAAGAGAC
9986922 GAAACAGGGGA
1 GAAACAGGGGA
9986933 GAAACAGGGGA
1 GAAACAGGGGA
9986944 GAAA
1 GAAA
9986948 GAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:9987702 original size:39 final size:40
Alignment explanation
Indices: 9987659--9987746 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
9987649 CGAATTATGG
*
9987659 AATACTGAATATTGTCT-TG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGT-TATGCA-TAATGCAGTGAATTGTGAA
*
9987698 AATACTGAATATTGTTATGCATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
*
9987738 ATTACTGAA
1 AATACTGAA
9987747 GTAAAGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 21 0.49
40 21 0.49
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (40 bp):
AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
Found at i:9987973 original size:38 final size:39
Alignment explanation
Indices: 9987921--9988095 Score: 122
Period size: 45 Copynumber: 4.2 Consensus size: 39
9987911 ATTTTCCGGC
9987921 TTACTGATCAGGCAC-TTATGTG-CCAACTACTGTTACTG
1 TTACTGATCAGGCACTTTATGTGTCCAA-TACTGTTACTG
* *
9987959 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGA-TCAGGCACTTTATGTGTCCAATACTGTTACTG
* * *
9987998 TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTG--ATC-A---GGCACTTTATGTGTCCAATACTGTTACTG
* * **
9988043 TTACTGTTACAGGTTCACCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGAT-CAGG-----CACTTTATGTGTCCAATACTGTTACTG
9988088 TTACTGAT
1 TTACTGAT
9988096 TACTGTATAC
Statistics
Matches: 114, Mismatches: 7, Indels: 25
0.78 0.05 0.17
Matches are distributed among these distances:
38 12 0.11
39 25 0.22
40 6 0.05
41 1 0.01
43 1 0.01
44 1 0.01
45 68 0.60
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGTCCAATACTGTTACTG
Found at i:9988016 original size:45 final size:45
Alignment explanation
Indices: 9987948--9988098 Score: 230
Period size: 45 Copynumber: 3.3 Consensus size: 45
9987938 ATGTGCCAAC
*
9987948 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
9987993 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* ** *
9988038 TACTGTTACTGTTACAGGTTCACCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
9988083 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
9988099 TGTATACTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
45 93 0.96
46 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:9989232 original size:41 final size:41
Alignment explanation
Indices: 9989173--9989268 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
9989163 ATTGAAATTT
* *
9989173 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
9989214 GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
1 GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
9989255 GTGATCTGAATCAA
1 GTGATCTGAATCAA
9989269 AGGAACGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (41 bp):
GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
Found at i:9989503 original size:41 final size:41
Alignment explanation
Indices: 9989444--9989578 Score: 216
Period size: 41 Copynumber: 3.3 Consensus size: 41
9989434 GTTTGGAATT
9989444 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
9989485 GATGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
9989526 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
9989567 GGTGATCTGAAT
1 GGTGATCTGAAT
9989579 ATGTTAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:9990774 original size:32 final size:32
Alignment explanation
Indices: 9990733--9990797 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9990723 ACCTAACATT
9990733 GAGGTATCAATATCTGAATTCCTCAAATACTG
1 GAGGTATCAATATCTGAATTCCTCAAATACTG
9990765 GAGGTATCAATATCTGAATTCCTCAAATACTG
1 GAGGTATCAATATCTGAATTCCTCAAATACTG
9990797 G
1 G
9990798 TACATTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (32 bp):
GAGGTATCAATATCTGAATTCCTCAAATACTG
Found at i:10001995 original size:12 final size:12
Alignment explanation
Indices: 10001978--10002002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10001968 TTTGCCCCTA
10001978 ATAATACATATT
1 ATAATACATATT
10001990 ATAATACATATT
1 ATAATACATATT
10002002 A
1 A
10002003 ATGTATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATACATATT
Found at i:10003299 original size:16 final size:16
Alignment explanation
Indices: 10003278--10003312 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10003268 AATAAATATG
10003278 ATAATATTCA-TTATTA
1 ATAATATT-ATTTATTA
10003294 ATAATATTATTTATTA
1 ATAATATTATTTATTA
10003310 ATA
1 ATA
10003313 GTACCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAATATTATTTATTA
Found at i:10003962 original size:19 final size:19
Alignment explanation
Indices: 10003915--10003962 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
10003905 TATAAAAATT
10003915 ATTTTTAAAAAAATAAAAA
1 ATTTTTAAAAAAATAAAAA
* * * *
10003934 AATTTAAAAAAAATTAATA
1 ATTTTTAAAAAAATAAAAA
*
10003953 TTTTTTAAAA
1 ATTTTTAAAA
10003963 TTTAAAAAAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTTTAAAAAAATAAAAA
Found at i:10007448 original size:14 final size:15
Alignment explanation
Indices: 10007419--10007456 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
10007409 ATATCTCAAT
*
10007419 TTAATTTCATACCAA
1 TTAATTACATACCAA
*
10007434 TT-ATTACATATCAA
1 TTAATTACATACCAA
10007448 TTAATTACA
1 TTAATTACA
10007457 CCACTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAATTACATACCAA
Found at i:10009081 original size:20 final size:19
Alignment explanation
Indices: 10009032--10009081 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
10009022 AATGTAAATA
*
10009032 TTTTATTGAATAAAGTTTTG
1 TTTTATTG-ATAAAGTTATG
* *
10009052 GTTTAGTGATAAAGTTAATG
1 TTTTATTGATAAAGTT-ATG
10009072 TTTTATTGAT
1 TTTTATTGAT
10009082 GTAAATAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (19 bp):
TTTTATTGATAAAGTTATG
Found at i:10012301 original size:59 final size:58
Alignment explanation
Indices: 10012136--10012301 Score: 201
Period size: 58 Copynumber: 2.8 Consensus size: 58
10012126 AATATAATAT
* * * * * *
10012136 TTGGTACATGAACTTCACACTTTTTC-TAATTTGGCATCTAAACTTTTTTTGGTCCAAT
1 TTGGTAC-TGAACTTGACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGGGTCCAAG
* * *
10012194 TTGGTACTCAAACTTGACACTTTTTCTTAAGTTGGTACTTAATC-TTTTTGGAGTCCAAG
1 TTGGTACT-GAACTTGACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGG-GTCCAAG
*
10012253 TTGGTACTGAACTTGACTCTTTTTCTTAATTTGGTACCTAATCTTTTTT
1 TTGGTACTGAACTTGACACTTTTTCTTAATTTGGTACCTAATCTTTTTT
10012302 TTTATTCGAT
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
57 1 0.01
58 59 0.65
59 31 0.34
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.46
Consensus pattern (58 bp):
TTGGTACTGAACTTGACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGGGTCCAAG
Found at i:10012886 original size:60 final size:60
Alignment explanation
Indices: 10012817--10012929 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
10012807 AAATCGAATA
10012817 AAAAAAGATT-AGATACCAAATT-AGAAAAAAGAGTCAAGTTCAGA-TACCAAATTAGACCTC
1 AAAAAAGATTAAG-TACCAAATTAAG-AAAAAGAGTCAAGTT-AGAGTACCAAATTAGACCTC
* * * *
10012877 AAAAAAGATTAAGTGCCAACTTAAGAAAAAGTGTCAAGTTTGAGTACCAAATT
1 AAAAAAGATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTAGAGTACCAAATT
10012930 GGACAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
59 2 0.04
60 40 0.87
61 4 0.09
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.22
Consensus pattern (60 bp):
AAAAAAGATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTAGAGTACCAAATTAGACCTC
Found at i:10012941 original size:60 final size:60
Alignment explanation
Indices: 10012816--10012943 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
10012806 CAAATCGAAT
**
10012816 AAAAAAAGATTAGATACCAAATTAGAAAAAAGAGTCAAGTTCAGATACCAAATTAGACCT
1 AAAAAAAGATTAGATACCAAATTAGAAAAAAGAGTCAAGTTCAGATACCAAATTAGACAA
* * * * * *
10012876 CAAAAAAGATTA-AGTGCCAACTTA-AGAAAAAGTGTCAAGTT-TGAGTACCAAATTGGACAA
1 AAAAAAAGATTAGA-TACCAAATTAGA-AAAAAGAGTCAAGTTCAGA-TACCAAATTAGACAA
10012936 AAAAAAAG
1 AAAAAAAG
10012944 TGTCATTCCG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (60 bp):
AAAAAAAGATTAGATACCAAATTAGAAAAAAGAGTCAAGTTCAGATACCAAATTAGACAA
Found at i:10018610 original size:19 final size:20
Alignment explanation
Indices: 10018588--10018633 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
10018578 TTTTTAATTG
* *
10018588 AAATAATAATTTTATTAA-A
1 AAATAATAATCTTATAAATA
10018607 AAATAATAATCTTATAAATA
1 AAATAATAATCTTATAAATA
10018627 AAATAAT
1 AAATAAT
10018634 TTAAGGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATAATCTTATAAATA
Found at i:10019173 original size:19 final size:19
Alignment explanation
Indices: 10019138--10019177 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10019128 AATGAACTTT
*
10019138 AATTTTTTTTTACTTTTTA
1 AATTTTTTTATACTTTTTA
10019157 AATTTTTTTAATA-TTTTTA
1 AATTTTTTT-ATACTTTTTA
10019176 AA
1 AA
10019178 ATTAAGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTTTATACTTTTTA
Found at i:10020100 original size:52 final size:51
Alignment explanation
Indices: 10020044--10020153 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 51
10020034 AATGGTATGT
10020044 TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTAAAA
1 TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATT-AAA
* * * * *
10020096 TTTTTTTAATGGAGCCTATCTGACAGGCGCTAATGAATTTTTTATATTAAT
1 TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTAAA
10020147 TTTTTTT
1 TTTTTTT
10020154 CTTTTAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 9 0.17
52 44 0.83
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (51 bp):
TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTAAA
Found at i:10021905 original size:21 final size:21
Alignment explanation
Indices: 10021863--10021905 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10021853 TTCACTATAC
*
10021863 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
10021884 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
10021905 A
1 A
10021906 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:10023017 original size:39 final size:37
Alignment explanation
Indices: 10022950--10023042 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
10022940 ACCAGAATGG
* *
10022950 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
10022989 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
10023026 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
10023043 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:10023403 original size:3 final size:3
Alignment explanation
Indices: 10023395--10023424 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10023385 ATTCCCACTC
10023395 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10023425 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10024151 original size:16 final size:16
Alignment explanation
Indices: 10024132--10024166 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10024122 TTCTTTGTTC
10024132 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
10024148 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
10024164 TTT
1 TTT
10024167 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:10024240 original size:28 final size:29
Alignment explanation
Indices: 10024169--10024232 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
10024159 TTTCTTTTAT
*
10024169 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
10024200 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
10024228 ATATA
1 ATATA
10024233 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:10027149 original size:21 final size:20
Alignment explanation
Indices: 10027124--10027187 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
10027114 AATATATTTA
10027124 AATATTTTTAATAAAAAAATT
1 AATA-TTTTAATAAAAAAATT
* *
10027145 AATATTTTATTTAAACAAAA-A
1 AATATTTTA-ATAAA-AAAATT
10027166 AATAATTTTAATATAAAAAATT
1 AAT-ATTTTAATA-AAAAAATT
10027188 GATTCGCGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.15
21 17 0.50
22 12 0.35
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATTTTAATAAAAAAATT
Found at i:10027182 original size:23 final size:25
Alignment explanation
Indices: 10027136--10027182 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
10027126 TATTTTTAAT
* *
10027136 AAAAAAATTAATATTTTATTTAAAC
1 AAAAAAATTAATATTTAATATAAAC
10027161 AAAAAAA-TAAT-TTTAATATAAA
1 AAAAAAATTAATATTTAATATAAA
10027183 AAATTGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAAAAATTAATATTTAATATAAAC
Found at i:10027221 original size:55 final size:55
Alignment explanation
Indices: 10027161--10027272 Score: 154
Period size: 55 Copynumber: 2.0 Consensus size: 55
10027151 TTATTTAAAC
*
10027161 AAAAAAATA-ATTTTAATATAAAAAATTGATTCGCGTCTATTAGATAGGCGCGATT
1 AAAAAAATATATTTTAATAT-AAAAATTGATTCGCGTCTATCAGATAGGCGCGATT
* * * * *
10027216 AAAAAAATATTTTTTAATATAATAATTTATTTGCGTCTGTCAGATAGGCGCGATT
1 AAAAAAATATATTTTAATATAAAAATTGATTCGCGTCTATCAGATAGGCGCGATT
10027271 AA
1 AA
10027273 TTTTTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
55 41 0.82
56 9 0.18
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (55 bp):
AAAAAAATATATTTTAATATAAAAATTGATTCGCGTCTATCAGATAGGCGCGATT
Found at i:10027670 original size:60 final size:60
Alignment explanation
Indices: 10027577--10027695 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
10027567 ATATTAAACT
* * * *
10027577 AAACACTACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
10027637 AAACACAAAAATTTATAACATAATCCTAAATTACTTACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
10027696 TAAAAAGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:10029290 original size:18 final size:20
Alignment explanation
Indices: 10029260--10029297 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10029250 TAGATTAATG
10029260 TTTAAATAATAATA-ATTTT
1 TTTAAATAATAATATATTTT
10029279 TTTAAA-AATAATATATTTT
1 TTTAAATAATAATATATTTT
10029298 AACTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAAATAATAATATATTTT
Done.