Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012679.1 Kokia drynarioides strain JFW-HI SEQ_127690, 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: 78872
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Warning! 34 characters in sequence are not A, C, G, or T
Found at i:4736 original size:21 final size:20
Alignment explanation
Indices: 4702--4740 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4692 TAATATTTTT
*
4702 AAATAATTATTCAATTTAAA
1 AAATAATAATTCAATTTAAA
4722 AAATATATAATTCAATTTA
1 AAATA-ATAATTCAATTTA
4741 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATAATTCAATTTAAA
Found at i:15176 original size:28 final size:30
Alignment explanation
Indices: 15143--15199 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15133 AAAGATATAG
15143 ACTA-TTAAAATA-ATA-AATTTATATTTTT
1 ACTATTTAAAATATATATAATTTA-ATTTTT
*
15171 ACTATTTTAAATATATATAATTTAATTTT
1 ACTATTTAAAATATATATAATTTAATTTT
15200 GACCCTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 7 0.28
30 8 0.32
31 6 0.24
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
ACTATTTAAAATATATATAATTTAATTTTT
Found at i:18517 original size:14 final size:15
Alignment explanation
Indices: 18494--18539 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
18484 TATATTAATT
*
18494 TATTTCTATTAATAA
1 TATTTTTATTAATAA
*
18509 T-TTTTTATTAAAAA
1 TATTTTTATTAATAA
18523 TAATTTTT-TTAATAA
1 T-ATTTTTATTAATAA
18538 TA
1 TA
18540 AGCTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 13 0.50
15 8 0.31
16 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTTTATTAATAA
Found at i:21177 original size:17 final size:17
Alignment explanation
Indices: 21157--21209 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
21147 TCAATAAATT
21157 ATTTTAAAAATATAAAA
1 ATTTTAAAAATATAAAA
* * *
21174 ATTTTCAAGAGATAAAA
1 ATTTTAAAAATATAAAA
* * *
21191 AATTCAAAATTATAAAA
1 ATTTTAAAAATATAAAA
21208 AT
1 AT
21210 GATAAAAAGT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (17 bp):
ATTTTAAAAATATAAAA
Found at i:22106 original size:29 final size:31
Alignment explanation
Indices: 22059--22120 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
22049 TTGATTTAAT
*
22059 GTGCAATTATATACATGAA-CTTTAATT-TG
1 GTGCAATTATACACATGAATCTTTAATTGTG
** *
22088 GTGCAATTATACATGTGAATTTTTAATTGTG
1 GTGCAATTATACACATGAATCTTTAATTGTG
22119 GT
1 GT
22121 TCACATGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.59
30 7 0.26
31 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (31 bp):
GTGCAATTATACACATGAATCTTTAATTGTG
Found at i:23439 original size:13 final size:13
Alignment explanation
Indices: 23419--23457 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23409 CAAAAAAGGT
*
23419 AGAGAAAAA-GAA
1 AGAGAAAAACAAA
23431 AGAGAAAAACAAA
1 AGAGAAAAACAAA
*
23444 AAAGAAAAACAAA
1 AGAGAAAAACAAA
23457 A
1 A
23458 TATTGTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAGAAAAACAAA
Found at i:24912 original size:3 final size:3
Alignment explanation
Indices: 24904--24950 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
24894 TGCTACTTGC
* * * *
24904 ATT ATT ATT AGT ATA ATT ATT ATT ATA ATT ATA ATT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24951 GTATTGAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:31555 original size:78 final size:77
Alignment explanation
Indices: 31404--32068 Score: 432
Period size: 78 Copynumber: 8.4 Consensus size: 77
31394 TTGGATGGTG
* * * * * * *
31404 GCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGGTGTTTTTTCAATCTGACCTTTGAT-TATG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCATTGATCGA-G
*
31468 ATAAAAGATTAGAT
65 GTAAAAGATT-GAT
* * * * *
31482 GCTTCAATCTACCACATGATTGGGGTAAGAGATTGGTGTGTCTTCAATCTGTCCATTAATCGAGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCATTGATCGAGG
*
31547 TAAGAGATTGAACT
66 TAAAAGATTG-A-T
* * * * * * * * *
31561 GCTACAATTTGCTCCATGATCGGGATAAAAGATTGGAGGATGTCTTCAATCTACCCAATGATCGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCCATTGATCGA
* *
31626 GGCAAAAGATCAGAT
64 GGTAAAAGAT-TGAT
* * * * *
31641 GCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGTGTGTTTTCAATCTACCCTTTGATCGGGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCATTGATCGAGG
* *
31706 TAAGAGATTGGAC
66 TAAAAGATT-GAT
* * ** *
31719 GGTTACAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATTTG-CC-TCTGATCGA
1 GCTT-CAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCAT-TGATCGA
*
31782 GGTAAGAGATTGAACT
64 GGTAAAAGATTG-A-T
* * * * * *
31798 GCTACAATCTGCCCCATAATTGGGGTAAGAGATTGGATAATATCTTCAATCTGCCCA-TGATCGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-T-GTGTCTTCAATCTGCCCATTGATCGA
*
31862 GGTAAAAGATCGGAT
64 GGTAAAAGAT-TGAT
* * * * * * * *
31877 GCTTCAATTTGCTCCATAATCAGGATAAGAGATTGATGTGTCTTCAATCTGCCC-TCTGGT-TAG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCAT-TGATCGA-
* *
31940 GGTAAGAGATTGGAC
64 GGTAAAAGATT-GAT
* * * * * * *
31955 GGTTACAATCTGCCCTATGATCAGGGTAAGAAAATCGG-ATG-CTTCAATCTGCTCCA-TGATTG
1 GCTT-CAATCTGCCCCATGATCGGGGTAAG-AGATTGGTGTGTCTTCAATCTGC-CCATTGATCG
* *
32017 GGGTAAGAGATTGATGT
63 AGGTAAAAGATTGA--T
* * *
32034 GTCTTCAATTTGCCCTC-TGGTCGGGGTGAGAGATT
1 G-CTTCAATCTGCCC-CATGATCGGGGTAAGAGATT
32069 AGACGACTAC
Statistics
Matches: 455, Mismatches: 103, Indels: 58
0.74 0.17 0.09
Matches are distributed among these distances:
77 20 0.04
78 189 0.42
79 148 0.33
80 65 0.14
81 32 0.07
82 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (77 bp):
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCATTGATCGAGG
TAAAAGATTGAT
Found at i:31740 original size:39 final size:39
Alignment explanation
Indices: 31384--32111 Score: 358
Period size: 40 Copynumber: 18.4 Consensus size: 39
31374 CTTAATTTAA
* *
31384 GGGTAAAAGATTGGATGGTGGCTTCAATCTGCCTCATGATCG
1 GGGTAAGAGATTGGATGGT---TTCAATCTGCCCCATGATCG
* * * ** **
31426 GGGTAAAAGATTGG-TGTTTTTTCAATCTGACCTTTGATTA
1 GGGTAAGAGATTGGATG--GTTTCAATCTGCCCCATGATCG
* * * * * * * *
31466 TGATAAAAGATTAGAT-GCTTCAATCTACCACATGATTG
1 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCG
* *
31504 GGGTAAGAGATTGG-TGTGTCTTCAATCTG-TCCATTAATCG
1 GGGTAAGAGATTGGATG-GT-TTCAATCTGCCCCA-TGATCG
* * * * * *
31544 AGGTAAGAGATTGAACT-GCTACAATTTGCTCCATGATCG
1 GGGTAAGAGATTGGA-TGGTTTCAATCTGCCCCATGATCG
* * * * *
31583 GGATAAAAGATTGGAGGATGTCTTCAATCTACCCAATGATCG
1 GGGTAAGAGATTGGATG--GT-TTCAATCTGCCCCATGATCG
* * ** * *
31625 GGGCAAAAGATCAGAT-GCTTCAATCTACCCCATGATCG
1 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCG
* **
31663 GGGTAAGAGATTGG-TGTGTTTTCAATCTACCCTTTGATCG
1 GGGTAAGAGATTGGATG-G-TTTCAATCTGCCCCATGATCG
* *
31703 GGGTAAGAGATTGGACGGTTACAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCG
* * * *
31742 AGGTAAGAGATT-AATGTGTCTTCAATTTGCCTC-TGATCG
1 GGGTAAGAGATTGGATG-GT-TTCAATCTGCCCCATGATCG
* * * * * *
31781 AGGTAAGAGATTGAACT-GCTACAATCTGCCCCATAATTG
1 GGGTAAGAGATTGGA-TGGTTTCAATCTGCCCCATGATCG
**
31820 GGGTAAGAGATTGGATAATATCTTCAATCTG-CCCATGATCG
1 GGGTAAGAGATTGGAT--GGT-TTCAATCTGCCCCATGATCG
* * * * * * *
31861 GGGTAAAAGATCGGAT-GCTTCAATTTGCTCCATAATCA
1 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCG
* * **
31899 GGATAAGAGATT-GATGTGTCTTCAATCTGCCCTC-TGGTTA
1 GGGTAAGAGATTGGATG-GT-TTCAATCTGCCC-CATGATCG
* * * *
31939 GGGTAAGAGATTGGACGGTTACAATCTGCCCTATGATCA
1 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCG
* * * * *
31978 GGGTAAGAAAATCGGAT-GCTTCAATCTGCTCCATGATTG
1 GGGTAAG-AGATTGGATGGTTTCAATCTGCCCCATGATCG
* *
32017 GGGTAAGAGATT-GATGTGTCTTCAATTTGCCCTC-TGGTCG
1 GGGTAAGAGATTGGATG-GT-TTCAATCTGCCC-CATGATCG
* * * ** *
32057 GGGTGAGAGATTAGACGACTACAATCTGCCCCATGATC-
1 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCG
32095 GGGTAAGAGATTGGATG
1 GGGTAAGAGATTGGATG
32112 ATGGCTTCGC
Statistics
Matches: 513, Mismatches: 132, Indels: 86
0.70 0.18 0.12
Matches are distributed among these distances:
37 16 0.03
38 100 0.19
39 155 0.30
40 156 0.30
41 36 0.07
42 49 0.10
43 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (39 bp):
GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATCG
Found at i:31833 original size:237 final size:237
Alignment explanation
Indices: 31404--31985 Score: 706
Period size: 237 Copynumber: 2.5 Consensus size: 237
31394 TTGGATGGTG
* * * *
31404 GCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGGTGTTTTTTCAATCTGA-CCTTTGATTATG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTTTTCAATCT-ACCCTTTGATTAGG
* * * * * * * * * **
31468 ATAAAAGATTAGATGCTT-CAATCTACCACATGATTGGGGTAAGAGATTGGTGTGTCTTCAATCT
65 GTAAGAGATTGGACGGTTACAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATCT
* * *
31532 GTCCATTAATCGAGGTAAGAGATTGAACTGCTACAATTTGCTCCATGATCGGGATAAAAGATTGG
130 GTCCATTAATCGAGGTAAGAGATTGAACTGCTACAATCTGCCCCATAATCGGGATAAAAGATTGG
* *
31597 AGGATGTCTTCAATCTACCCAATGATCGGGGCAAAAGATCAGAT
195 AGAATATCTTCAATCTACCC-ATGATCGGGGCAAAAGATCAGAT
* **
31641 GCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGTGTGTTTTCAATCTACCCTTTGATCGGGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTTTTCAATCTACCCTTTGATTAGGG
*
31706 TAAGAGATTGGACGGTTACAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATTTG
66 TAAGAGATTGGACGGTTACAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATCTG
* * * *
31771 -CC-TCTGATCGAGGTAAGAGATTGAACTGCTACAATCTGCCCCATAATTGGGGTAAGAGATTGG
131 TCCAT-TAATCGAGGTAAGAGATTGAACTGCTACAATCTGCCCCATAATCGGGATAAAAGATTGG
* * * *
31834 ATAATATCTTCAATCTGCCCATGATCGGGGTAAAAGATCGGAT
195 AGAATATCTTCAATCTACCCATGATCGGGGCAAAAGATCAGAT
* * * * * * * * * *
31877 GCTTCAATTTGCTCCATAATCAGGATAAGAGATTGATGTGTCTTCAATCTGCCCTCTGGTTAGGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTTTTCAATCTACCCTTTGATTAGGG
*
31942 TAAGAGATTGGACGGTTACAATCTGCCCTATGATC-AGGGTAAGA
66 TAAGAGATTGGACGGTTACAATCTGCCCCATGATCGA-GGTAAGA
31986 AAATCGGATG
Statistics
Matches: 295, Mismatches: 46, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
235 1 0.00
236 116 0.39
237 138 0.47
238 40 0.14
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (237 bp):
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTTTTCAATCTACCCTTTGATTAGGG
TAAGAGATTGGACGGTTACAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATCTG
TCCATTAATCGAGGTAAGAGATTGAACTGCTACAATCTGCCCCATAATCGGGATAAAAGATTGGA
GAATATCTTCAATCTACCCATGATCGGGGCAAAAGATCAGAT
Found at i:31945 original size:236 final size:238
Alignment explanation
Indices: 31486--31985 Score: 648
Period size: 236 Copynumber: 2.1 Consensus size: 238
31476 TTAGATGCTT
* * * * **
31486 CAATCTACCACATGATTGGGGTAAGAGATTGGTGTGTCTTCAATCTGTCCATTAATCGAGGTAAG
1 CAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATCTGTCCATTAATCGAGGTAAG
* * * * *
31551 AGATTGAACTGCTACAATTTGCTCCATGATCGGGATAAAAGATTGGAGGATGTCTTCAATCTACC
66 AGATTGAACTGCTACAATCTGCCCCATAATCGGGATAAAAGATTGGAGAATATCTTCAATCTACC
* * * *
31616 CAATGATCGGGGCAAAAGATCAGATGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGTGTG
131 CAATGATCGGGGCAAAAGATCAGATGCTTCAATCTACCCCATAATCAGGATAAGAGATTGATGTG
* * *
31681 TTTTCAATCTACCCTTTGATCGGGGTAAGAGATTGGACGGTTA
196 TCTTCAATCTACCCTCTGATCAGGGTAAGAGATTGGACGGTTA
* *
31724 CAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATTTG-CC-TCTGATCGAGGTAA
1 CAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATCTGTCCAT-TAATCGAGGTAA
* * * * *
31787 GAGATTGAACTGCTACAATCTGCCCCATAATTGGGGTAAGAGATTGGATAATATCTTCAATCTGC
65 GAGATTGAACTGCTACAATCTGCCCCATAATCGGGATAAAAGATTGGAGAATATCTTCAATCTAC
* * * * *
31852 CC-ATGATCGGGGTAAAAGATCGGATGCTTCAATTTGCTCCATAATCAGGATAAGAGATTGATGT
130 CCAATGATCGGGGCAAAAGATCAGATGCTTCAATCTACCCCATAATCAGGATAAGAGATTGATGT
* * *
31916 GTCTTCAATCTGCCCTCTGGTTAGGGTAAGAGATTGGACGGTTA
195 GTCTTCAATCTACCCTCTGATCAGGGTAAGAGATTGGACGGTTA
*
31960 CAATCTGCCCTATGATC-AGGGTAAGA
1 CAATCTGCCCCATGATCGA-GGTAAGA
31986 AAATCGGATG
Statistics
Matches: 226, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
235 1 0.00
236 115 0.51
237 70 0.31
238 40 0.18
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (238 bp):
CAATCTGCCCCATGATCGAGGTAAGAGATTAATGTGTCTTCAATCTGTCCATTAATCGAGGTAAG
AGATTGAACTGCTACAATCTGCCCCATAATCGGGATAAAAGATTGGAGAATATCTTCAATCTACC
CAATGATCGGGGCAAAAGATCAGATGCTTCAATCTACCCCATAATCAGGATAAGAGATTGATGTG
TCTTCAATCTACCCTCTGATCAGGGTAAGAGATTGGACGGTTA
Found at i:31946 original size:40 final size:40
Alignment explanation
Indices: 31383--32107 Score: 301
Period size: 39 Copynumber: 18.4 Consensus size: 40
31373 TCTTAATTTA
* *
31383 AGGGTAAAAGATTGGATGGTGGCTTCAATCTG-CCTCATGATC
1 AGGGTAAGAGATT-GAT-GTGTCTTCAATCTGCCCT-ATGATC
* * * * * * * *
31425 GGGGTAAAAGATTGGTGTTTTTTCAATCTGACCTTTGATT
1 AGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATGATC
* * * * *
31465 ATGATAAAAGATT-A-GATG-CTTCAATCTACCAC-ATGATT
1 AGGGTAAGAGATTGATG-TGTCTTCAATCTGCC-CTATGATC
* * * *
31503 GGGGTAAGAGATTGGTGTGTCTTCAATCTGTCC-ATTAATC
1 AGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTA-TGATC
** * *
31543 -GAGGTAAGAGATTGAACTG-CTACAATTTGCTCC-ATGATC
1 AG-GGTAAGAGATTGATGTGTCTTCAATCTGC-CCTATGATC
* * * *
31582 -GGGATAAAAGATTGGAGGATGTCTTCAATCTACCCAATGATC
1 AGGG-TAAGAGATT-GATG-TGTCTTCAATCTGCCCTATGATC
* * * * * *
31624 GGGGCAAAAGA-TCA-GATG-CTTCAATCTACCCCATGATC
1 AGGGTAAGAGATTGATG-TGTCTTCAATCTGCCCTATGATC
* * * * *
31662 GGGGTAAGAGATTGGTGTGTTTTCAATCTACCCTTTGATC
1 AGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATGATC
* * * *
31702 GGGGTAAGAGATTGGACG-GT-TACAATCTGCCCCATGATC
1 AGGGTAAGAGATT-GATGTGTCTTCAATCTGCCCTATGATC
* * *
31741 -GAGGTAAGAGATTAATGTGTCTTCAATTTG-CCTCTGATC
1 AG-GGTAAGAGATTGATGTGTCTTCAATCTGCCCTATGATC
** * * * *
31780 -GAGGTAAGAGATTGAACTG-CTACAATCTGCCCCATAATT
1 AG-GGTAAGAGATTGATGTGTCTTCAATCTGCCCTATGATC
* * *
31819 GGGGTAAGAGATTGGATAATATCTTCAATCTGCCC-ATGATC
1 AGGGTAAGAGATT-GAT-GTGTCTTCAATCTGCCCTATGATC
* * * * *
31860 GGGGTAAAAGATCG--GATG-CTTCAATTTGCTCC-ATAATC
1 AGGGTAAGAGATTGATG-TGTCTTCAATCTGC-CCTATGATC
* * * *
31898 AGGATAAGAGATTGATGTGTCTTCAATCTGCCCTCTGGTT
1 AGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATGATC
* *
31938 AGGGTAAGAGATTGGACG-GT-TACAATCTGCCCTATGATC
1 AGGGTAAGAGATT-GATGTGTCTTCAATCTGCCCTATGATC
* * *
31977 AGGGTAAGAAAATCG--GATG-CTTCAATCTGCTCC-ATGATT
1 AGGGTAAG-AGATTGATG-TGTCTTCAATCTGC-CCTATGATC
* * * *
32016 GGGGTAAGAGATTGATGTGTCTTCAATTTGCCCTCTGGTC
1 AGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATGATC
* * * * * *
32056 GGGGTGAGAGATT-A-GACGACTACAATCTGCCCCATGATC
1 AGGGTAAGAGATTGATG-TGTCTTCAATCTGCCCTATGATC
32095 -GGGTAAGAGATTG
1 AGGGTAAGAGATTG
32108 GATGATGGCT
Statistics
Matches: 522, Mismatches: 116, Indels: 93
0.71 0.16 0.13
Matches are distributed among these distances:
37 11 0.02
38 99 0.19
39 173 0.33
40 161 0.31
41 31 0.06
42 44 0.08
43 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (40 bp):
AGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATGATC
Found at i:32001 original size:118 final size:117
Alignment explanation
Indices: 31607--32102 Score: 447
Period size: 118 Copynumber: 4.2 Consensus size: 117
31597 AGGATGTCTT
* * * * * * * *
31607 CAATCTACCCAATGATCGGGGCAA-AAGATCAGATGCTTCAATCTACCCCATGATCGGGGTAAGA
1 CAATCTGCCCCATGATC-GGGTAAGAAAATCGGATGCTTCAATCTGCTCCATGATCAGGGTAAGA
* * * * *
31671 GATTGGTGTGTTTTCAATCTACCCTTTGATCGGGGTAAGAGATTGGACGGTTA
65 GATTGATGTGTCTTCAATCTGCCCTCTGATCGGGGTAAGAGATTGGACGATTA
*
31724 CAATCTGCCCCATGATCGAGGTAAGAGATTAAT--G-TGTCTTCAATTTGC-CTC-TGATC-GAG
1 CAATCTGCCCCATGATCG-GGTAAGA-A--AATCGGATG-CTTCAATCTGCTC-CATGATCAG-G
** * * * ** *
31783 GTAAGAGATTGAACTG-CTACAATCTGCCC-CATAATTGGGGTAAGAGATTGGATAATATCTT
59 GTAAGAGATTGATGTGTCTTCAATCTGCCCTC-TGATCGGGGTAAGAGATTGG--ACGAT-TA
* * * *
31844 CAATCTG-CCCATGATCGGGGTAA-AAGATCGGATGCTTCAATTTGCTCCATAATCAGGATAAGA
1 CAATCTGCCCCATGATC-GGGTAAGAAAATCGGATGCTTCAATCTGCTCCATGATCAGGGTAAGA
* ** *
31907 GATTGATGTGTCTTCAATCTGCCCTCTGGTTAGGGTAAGAGATTGGACGGTTA
65 GATTGATGTGTCTTCAATCTGCCCTCTGATCGGGGTAAGAGATTGGACGATTA
* **
31960 CAATCTGCCCTATGATCAGGGTAAGAAAATCGGATGCTTCAATCTGCTCCATGATTGGGGTAAGA
1 CAATCTGCCCCATGATC-GGGTAAGAAAATCGGATGCTTCAATCTGCTCCATGATCAGGGTAAGA
* * * * *
32025 GATTGATGTGTCTTCAATTTGCCCTCTGGTCGGGGTGAGAGATTAGACGACTA
65 GATTGATGTGTCTTCAATCTGCCCTCTGATCGGGGTAAGAGATTGGACGATTA
32078 CAATCTGCCCCATGATCGGGTAAGA
1 CAATCTGCCCCATGATCGGGTAAGA
32103 GATTGGATGA
Statistics
Matches: 308, Mismatches: 48, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
115 2 0.01
116 9 0.03
117 86 0.28
118 141 0.46
119 58 0.19
120 10 0.03
121 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (117 bp):
CAATCTGCCCCATGATCGGGTAAGAAAATCGGATGCTTCAATCTGCTCCATGATCAGGGTAAGAG
ATTGATGTGTCTTCAATCTGCCCTCTGATCGGGGTAAGAGATTGGACGATTA
Found at i:32360 original size:49 final size:49
Alignment explanation
Indices: 32314--32634 Score: 211
Period size: 49 Copynumber: 6.5 Consensus size: 49
32304 GTTGTTACAA
*
32314 CCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTTGCCGTTACGG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTACGG
* * * * * * * * **
32363 CCTTAA-TTCTTCCCATCACATCTTCTAAGGTA-CAGGGTTCGCCATTGCAA
1 CCTCAACCT-TTCCCTTCATATCTTC-ATGGTACCA-GATTCGCCGTTACGG
* ** * *
32413 CCTCAACCTTT-CCTTCCATATCTCCATGGTATAAGATTCGTCGTTGCGG
1 CCTCAACCTTTCCCTT-CATATCTTCATGGTACCAGATTCGCCGTTACGG
* * * * * * * * *
32462 CTTCAATCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACGG
1 CCTCAACCTTTCC-CTTCATATCTTCATGGTACCAGATTCGCCGTTACGG
* * * * * * *
32512 TCTCGATCTTTCCCATCATATC-TCTAGGGTACCAGGTTCGCCGTTGCGG
1 CCTCAACCTTTCCCTTCATATCTTC-ATGGTACCAGATTCGCCGTTACGG
* * *
32561 CCTCAACCTTTCCCTTCATATATTCATGGTACCAGATTCACCGTTACAG
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTACGG
* *
32610 CCTCAATCC-TTCCCATCACATCTTC
1 CCTCAA-CCTTTCCCTTCATATCTTC
32635 TGAGGTATAG
Statistics
Matches: 200, Mismatches: 61, Indels: 22
0.71 0.22 0.08
Matches are distributed among these distances:
48 2 0.01
49 126 0.63
50 69 0.34
51 3 0.01
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (49 bp):
CCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCCGTTACGG
Found at i:32665 original size:247 final size:247
Alignment explanation
Indices: 32212--32674 Score: 629
Period size: 247 Copynumber: 1.9 Consensus size: 247
32202 TTTGCCATTA
* * **** * *
32212 CGGCTTCAATCTTTCCTATTTATATCTCCATGGTATTAGATTTTTCGTTGCAACCTCGATCTTTC
1 CGGCTTCAATCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACAACCTCGATCTTTC
* * ** *
32277 CCATCACGTCTCTAAGGTACTAGGTTCGTTGTTACAACCTCAACCTTTCCCTTCATATCTTCATG
66 CCATCACATCTCTAAGGTACCAGGTTCGCCGTTACAACCTCAACCTTTCCCTTCATATATTCATG
** * * * *
32342 GTACCAGATTTGCCGTTACGGCCTTAATTCTTCCCATCACATCTTCTAAGGTACAGGGTTCGCCA
131 GTACCAGATTCACCGTTACAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTCACCA
32407 TTGCAACCTCAACCTTTCCTTCCATATCTCCATGGTATAAGATTCGTCGTTG
196 TTGCAACCTCAACCTTTCCTTCCATATCTCCATGGTATAAGATTCGTCGTTG
***
32459 CGGCTTCAATCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACGGTCTCGATCTTTC
1 CGGCTTCAATCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACAACCTCGATCTTTC
* * * **
32524 CCATCATATCTCTAGGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATATTCATG
66 CCATCACATCTCTAAGGTACCAGGTTCGCCGTTACAACCTCAACCTTTCCCTTCATATATTCATG
* * * * *
32589 GTACCAGATTCACCGTTACAGCCTCAATCCTTCCCATCACATCTTCTGAGGTATAGGGTTTATCG
131 GTACCAGATTCACCGTTACAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTCACCA
*
32654 TTGCGACCTCAACCTTTCCTT
196 TTGCAACCTCAACCTTTCCTT
32675 TTATTTCCAT
Statistics
Matches: 183, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
247 183 1.00
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (247 bp):
CGGCTTCAATCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACAACCTCGATCTTTC
CCATCACATCTCTAAGGTACCAGGTTCGCCGTTACAACCTCAACCTTTCCCTTCATATATTCATG
GTACCAGATTCACCGTTACAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAGGGTTCACCA
TTGCAACCTCAACCTTTCCTTCCATATCTCCATGGTATAAGATTCGTCGTTG
Found at i:32794 original size:195 final size:198
Alignment explanation
Indices: 32453--32822 Score: 430
Period size: 195 Copynumber: 1.9 Consensus size: 198
32443 ATAAGATTCG
* * * *
32453 TCGTTGCGGCTTCAATCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACGGTCTCGA
1 TCGTTGCGACCTCAACCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACGGCCTCGA
* * *
32518 TCTTTCCCATCATATCTCTAGGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATA
66 TCTTTCCCATCATATCTCTAAGGTACCAGGTTCGCCATTGCGACCTCAACCTTTCCCTTCATATA
*
32583 TTCATGGTACCAGATTCACCGTTACAGCCTCAATCCTTCCC-ATCACATCTTCTGAGGTATAGGG
131 TTCATGGGACCAGATTCACCGTTACAGCCTCAAT-CTTCCCTATCACATCTTCTGAGGTATAGGG
32647 TTTA
195 TTTA
* * * * *
32651 TCGTTGCGACCTCAACCTTTCCT-TTTAT-T-TCCATGGTGCTAGATCTGCCGTTGCGGCCTCGA
1 TCGTTGCGACCTCAACCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACGGCCTCGA
* ** * * * * *
32713 TCTTTCCCATCATGTCTTCTAAGGTATGAGGCTT-GCTATTGTGACTTCAACCTTTTCCTTCGTA
66 TCTTTCCCATCATATC-TCTAAGGTACCAGG-TTCGCCATTGCGACCTCAACCTTTCCCTTCATA
* * **
32777 T-TTCCA-GGGATCAGATTCGCCGTTGTAGCCTCAATCTTCCCTATCA
129 TATT-CATGGGACCAGATTCACCGTTACAGCCTCAATCTTCCCTATCA
32823 AACCTGTAGA
Statistics
Matches: 143, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
194 6 0.04
195 72 0.50
196 38 0.27
197 7 0.05
198 20 0.14
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (198 bp):
TCGTTGCGACCTCAACCTTTCCTATTTATATCTCCATAGTACTAGATCCGCCATTACGGCCTCGA
TCTTTCCCATCATATCTCTAAGGTACCAGGTTCGCCATTGCGACCTCAACCTTTCCCTTCATATA
TTCATGGGACCAGATTCACCGTTACAGCCTCAATCTTCCCTATCACATCTTCTGAGGTATAGGGT
TTA
Found at i:32817 original size:97 final size:95
Alignment explanation
Indices: 32593--32822 Score: 214
Period size: 97 Copynumber: 2.4 Consensus size: 95
32583 TTCATGGTAC
* * * * * *
32593 CAGATTCACCGTTACAGCCTCAATCCTTCCCATCACATCTTCTGAGGTATAGGGTTTATCGTTGC
1 CAGATTCGCCGTTGCAGCCTCAAT-CTTCCCATCACATCTTCTAAGGTATAGGCTTGATCATTGC
* *
32658 GACCTCAACCTTTCCTTTTATTTCCATGGTG
65 GACCTCAACCTTTCCTTGTATTTCCAGGGTG
* * ** *
32689 CTAGA-TCTGCCGTTGCGGCCTCGATCTTTCCCATCATGTCTTCTAAGGTATGAGGCTTGCT-AT
1 C-AGATTC-GCCGTTGCAGCCTCAATC-TTCCCATCACATCTTCTAAGGTAT-AGGCTTGATCAT
* *
32752 TGTGACTTCAACCTTTTCCTTCGTATTTCCAGGGAT-
62 TGCGACCTCAACC-TTTCCTT-GTATTTCCAGGG-TG
*
32788 CAGATTCGCCGTTGTAGCCTCAATCTTCCCTATCA
1 CAGATTCGCCGTTGCAGCCTCAATCTTCCC-ATCA
32823 AACCTGTAGA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
96 4 0.04
97 54 0.50
98 35 0.33
99 13 0.12
100 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (95 bp):
CAGATTCGCCGTTGCAGCCTCAATCTTCCCATCACATCTTCTAAGGTATAGGCTTGATCATTGCG
ACCTCAACCTTTCCTTGTATTTCCAGGGTG
Found at i:33776 original size:25 final size:25
Alignment explanation
Indices: 33749--33796 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
33739 GACCTCGCAT
33749 TTTTCTTTTT-TCTTCTATTTTCTC
1 TTTTCTTTTTCTCTTCTATTTTCTC
* *
33773 TTTTCTTTTTCTCTTTTTTTTTCT
1 TTTTCTTTTTCTCTTCTATTTTCT
33797 TTCCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTCTTTTTCTCTTCTATTTTCTC
Found at i:33793 original size:12 final size:13
Alignment explanation
Indices: 33749--33796 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
33739 GACCTCGCAT
33749 TTTTCTTTTT-TC
1 TTTTCTTTTTCTC
33761 --TTCTATTTTCTC
1 TTTTCT-TTTTCTC
33773 TTTTCTTTTTCTC
1 TTTTCTTTTTCTC
33786 TTTT-TTTTTCT
1 TTTTCTTTTTCT
33797 TTCCCTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.12
11 4 0.12
12 9 0.28
13 11 0.34
14 4 0.12
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:34696 original size:16 final size:15
Alignment explanation
Indices: 34666--34696 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
34656 TTCTTCTTGA
34666 CTTTTTTTTTTCTTC
1 CTTTTTTTTTTCTTC
34681 CTTTTTTCTTTTCTTC
1 CTTTTTT-TTTTCTTC
34697 TTCTTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTTTTTTTCTTC
Found at i:39403 original size:29 final size:29
Alignment explanation
Indices: 39371--39474 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 29
39361 GTCAAAATGT
* *
39371 AATTTTCAAAAAGTTTAGGGGTCAAATCA
1 AATTTTTAGAAAGTTTAGGGGTCAAATCA
* * *
39400 AATTTTTAGAAAGTTCAAGAGTCAAAATCA
1 AATTTTTAGAAAGTTTAGGGGTC-AAATCA
* * *
39430 AATTTTTGGAAAGCTTAGGGGTCAAAACTA
1 AATTTTTAGAAAGTTTAGGGGTCAAATC-A
*
39460 AATTTTTAGGAAGTT
1 AATTTTTAGAAAGTT
39475 CGATGGTCAA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
29 22 0.37
30 37 0.63
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (29 bp):
AATTTTTAGAAAGTTTAGGGGTCAAATCA
Found at i:39424 original size:59 final size:60
Alignment explanation
Indices: 39361--39475 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 60
39351 AAAAAACGGG
** * *
39361 GTCAAAATGTAATTTTCAAAAAGTTTAGGGGTCAAATC-AAATTTTTAGAAAGTTCAAGA
1 GTCAAAATCAAATTTTCAAAAAGCTTAGGGGTCAAAACTAAATTTTTAGAAAGTTCAAGA
*** *
39420 GTCAAAATCAAATTTTTGGAAAGCTTAGGGGTCAAAACTAAATTTTTAGGAAGTTC
1 GTCAAAATCAAATTTTCAAAAAGCTTAGGGGTCAAAACTAAATTTTTAGAAAGTTC
39476 GATGGTCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 31 0.66
60 16 0.34
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (60 bp):
GTCAAAATCAAATTTTCAAAAAGCTTAGGGGTCAAAACTAAATTTTTAGAAAGTTCAAGA
Found at i:39483 original size:30 final size:30
Alignment explanation
Indices: 39390--39507 Score: 84
Period size: 30 Copynumber: 4.0 Consensus size: 30
39380 AAAGTTTAGG
* *
39390 GGTCAAATC-AAATTTTTAGAAAGTTC-AA
1 GGTCAAAACTAAATTTTTAGGAAGTTCGAA
* *
39418 GAGTCAAAA-TCAAATTTTT-GGAAAGCTTAG-G
1 G-GTCAAAACT-AAATTTTTAGG-AAG-TTCGAA
*
39449 GGTCAAAACTAAATTTTTAGGAAGTTCGAT
1 GGTCAAAACTAAATTTTTAGGAAGTTCGAA
** * *
39479 GGTCAAATTTGAATTTTTGGGAAGTTCGA
1 GGTCAAAACTAAATTTTTAGGAAGTTCGA
39508 GAGTTAAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
28 1 0.01
29 10 0.14
30 54 0.76
31 6 0.08
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.33
Consensus pattern (30 bp):
GGTCAAAACTAAATTTTTAGGAAGTTCGAA
Found at i:39517 original size:30 final size:30
Alignment explanation
Indices: 39460--39528 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
39450 GTCAAAACTA
*
39460 AATTTTTAGGAAGTTCGATGGTCAAATTTG
1 AATTTTTGGGAAGTTCGATGGTCAAATTTG
*
39490 AATTTTTGGGAAGTTCGA-GAGTTAAATTTG
1 AATTTTTGGGAAGTTCGATG-GTCAAATTTG
39520 AATTTTTGG
1 AATTTTTGG
39529 ATAAAATAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 1 0.03
30 35 0.97
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (30 bp):
AATTTTTGGGAAGTTCGATGGTCAAATTTG
Found at i:45074 original size:16 final size:17
Alignment explanation
Indices: 45042--45074 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45032 TTTCTAATCA
*
45042 TTTTGTTAATTTATTAT
1 TTTTCTTAATTTATTAT
45059 TTTTCTTAATTT-TTAT
1 TTTTCTTAATTTATTAT
45075 ACAATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCTTAATTTATTAT
Found at i:49636 original size:41 final size:42
Alignment explanation
Indices: 49591--49709 Score: 150
Period size: 41 Copynumber: 2.8 Consensus size: 42
49581 GCACATGGGC
*
49591 GTGTGTATACTGTTTGGAGGCACACGGGCGTGTGTCAAG-GT
1 GTGTGTATACTGTTTGGAGGCACACAGGCGTGTGTCAAGAGT
* * *
49632 GTGTGTATACTGTTTGGAGACACACAGACGTGTGTTAAGATGT
1 GTGTGTATACTGTTTGGAGGCACACAGGCGTGTGTCAAGA-GT
* * **
49675 GTATGTATACTTTTTTTAGGCACACAGGCGTGTGT
1 GTGTGTATACTGTTTGGAGGCACACAGGCGTGTGT
49710 ATACTGTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 35 0.53
43 31 0.47
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (42 bp):
GTGTGTATACTGTTTGGAGGCACACAGGCGTGTGTCAAGAGT
Found at i:50407 original size:29 final size:29
Alignment explanation
Indices: 50363--50453 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
50353 GCGAATGGGG
* *
50363 GTATCGTGTCTGCATCTGTAACTATATCT
1 GTATCATGTCTGCATCTGTAACTATACCT
* * * *
50392 GTATCATGTCTCCATCTATAATTGTACCT
1 GTATCATGTCTGCATCTGTAACTATACCT
* * * *
50421 GTATCATGTTTGCATTTGTAACTGTACCC
1 GTATCATGTCTGCATCTGTAACTATACCT
50450 GTAT
1 GTAT
50454 TATATCTGTA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (29 bp):
GTATCATGTCTGCATCTGTAACTATACCT
Found at i:52120 original size:17 final size:16
Alignment explanation
Indices: 52085--52120 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
52075 AGCACACGAC
*
52085 AAAGAAAAAATAAACA
1 AAAGAAAAAATAAAAA
52101 AAAGTAAAAAATAAAAA
1 AAAG-AAAAAATAAAAA
52118 AAA
1 AAA
52121 ATCTATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.08
Consensus pattern (16 bp):
AAAGAAAAAATAAAAA
Found at i:58210 original size:19 final size:21
Alignment explanation
Indices: 58176--58229 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
58166 TATTGACGAT
*
58176 TATTTTATATAATTGAT-TAA-
1 TATTTT-TATATTTGATCTAAC
58196 TATTTTTATATTTGATCTAAC
1 TATTTTTATATTTGATCTAAC
58217 TCA-TTTTATATTT
1 T-ATTTTTATATTT
58230 TTACATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.30
20 9 0.30
21 11 0.37
22 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTTTTATATTTGATCTAAC
Found at i:60024 original size:17 final size:19
Alignment explanation
Indices: 59989--60028 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
59979 ACTTTGGGTA
*
59989 TTAATTTTTTATATTATTT
1 TTAATTTTTTATATGATTT
60008 TTAA-TTTTTA-ATGATTT
1 TTAATTTTTTATATGATTT
60025 TTAA
1 TTAA
60029 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 6 0.30
19 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTAATTTTTTATATGATTT
Found at i:60064 original size:19 final size:19
Alignment explanation
Indices: 60003--60090 Score: 85
Period size: 19 Copynumber: 4.7 Consensus size: 19
59993 TTTTTTATAT
60003 TATTTTT-AATTT-TT-AA
1 TATTTTTAAATTTATTAAA
**
60019 TGATTTTTAAAAAT-TTAAA
1 T-ATTTTTAAATTTATTAAA
60038 TAATTTTTACAATTTATTAAA
1 T-ATTTTTA-AATTTATTAAA
*
60059 TGTTTTTAAATTTATTAAA
1 TATTTTTAAATTTATTAAA
*
60078 TATTTTTATATTT
1 TATTTTTAAATTT
60091 TATATTTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
16 1 0.02
17 6 0.10
18 5 0.08
19 32 0.54
20 9 0.15
21 6 0.10
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTTTTAAATTTATTAAA
Found at i:60209 original size:22 final size:22
Alignment explanation
Indices: 60183--60226 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60173 CAATTAATTT
*
60183 ATTTTTTCAAAATTTTTTTGTA
1 ATTTTTTCAAAAATTTTTTGTA
*
60205 ATTTTTTTAAAAATTTTTTGTA
1 ATTTTTTCAAAAATTTTTTGTA
60227 TAATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTTTTTCAAAAATTTTTTGTA
Found at i:62916 original size:11 final size:11
Alignment explanation
Indices: 62902--62935 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
62892 TTATCAATTT
62902 TTATTATTTTA
1 TTATTATTTTA
*
62913 TTATTATTTTG
1 TTATTATTTTA
*
62924 TTAATATTTTA
1 TTATTATTTTA
62935 T
1 T
62936 ATTTAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:62976 original size:25 final size:26
Alignment explanation
Indices: 62928--62976 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
62918 ATTTTGTTAA
* *
62928 TATTTTATATTTAATAATACTTTTAT
1 TATTTGATATTTAACAATACTTTTAT
*
62954 TATTTGATA-TTAACAATATTTTT
1 TATTTGATATTTAACAATACTTTT
62977 TTTGTGAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (26 bp):
TATTTGATATTTAACAATACTTTTAT
Found at i:62977 original size:26 final size:27
Alignment explanation
Indices: 62917--62977 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
62907 ATTTTATTAT
* *
62917 TATTTTGTTAATATTTTATATTTAATAA
1 TATTTT-TTAATATTTGATATTTAACAA
* *
62945 TA-CTTTTATTATTTGATA-TTAACAA
1 TATTTTTTAATATTTGATATTTAACAA
62970 TATTTTTT
1 TATTTTTT
62978 TTGTGAAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
25 8 0.30
26 15 0.56
27 2 0.07
28 2 0.07
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (27 bp):
TATTTTTTAATATTTGATATTTAACAA
Found at i:67197 original size:202 final size:202
Alignment explanation
Indices: 66851--67542 Score: 1110
Period size: 202 Copynumber: 3.5 Consensus size: 202
66841 GAGCTAAGGT
* *
66851 TCACATATTGAAGAAAAAGAGCTAAGGTTGTTTTGTTGTCCATTTCATACCTTTTCTCTCATGCA
1 TCACATATTGAAGACAAAGAGCTAAGGTTGTTTGGTTGTCCATTTCATACCTTTTCTCTCATGCA
*
66916 TATTTATCTCGTGAAGAATAATGTGAACATGTTTGGGTTGAGAAAATAATAAGCTATTCTTAAAT
66 TATTTATCTCGTGAAGAATATTGTGAACATGTTTGGGTTGAGAAAATAATAAGCTATTCTTAAAT
66981 TTTGTTCGCAATATTTACAAAAAAAAAAATCACAACCCCAAGTTTGGTACGTAATTAAAAATCTA
131 TTTGTTCGCAATATTTACAAAAAAAAAAATCACAACCCCAAGTTTGGTACGTAATTAAAAATCTA
*
67046 AGAACTA
196 AGAAATA
67053 TCACATATTGAAGACAAAGAGCTAAGGTTGTTTGGTTGTCCATTTCATACCTTTTCTCTCATGCA
1 TCACATATTGAAGACAAAGAGCTAAGGTTGTTTGGTTGTCCATTTCATACCTTTTCTCTCATGCA
*
67118 TATTTATCTCGTCAAGAATATTGTGAACATGTTTGGGTTGAGAAAATAATAAGCTATTCTTAAAT
66 TATTTATCTCGTGAAGAATATTGTGAACATGTTTGGGTTGAGAAAATAATAAGCTATTCTTAAAT
67183 TTTGTTCGCAATATTTACAAAAAAAAAAATCACAACCCCAAGTTTGGTACGTAATTAAAAATCTA
131 TTTGTTCGCAATATTTACAAAAAAAAAAATCACAACCCCAAGTTTGGTACGTAATTAAAAATCTA
67248 AGAAATA
196 AGAAATA
*
67255 TCACATATTGAAGATAAAGAGCTAAGGTTGTTTGGTTGTCCATTTCATACCTTTTCTCTCATGCA
1 TCACATATTGAAGACAAAGAGCTAAGGTTGTTTGGTTGTCCATTTCATACCTTTTCTCTCATGCA
* **
67320 TATTTATCTCGTGAAGAATATTGTGAACATCTTTGGGTTGAGAAAATAATAAGCTAAACTTAAAT
66 TATTTATCTCGTGAAGAATATTGTGAACATGTTTGGGTTGAGAAAATAATAAGCTATTCTTAAAT
* * * *
67385 TTTGTTCGAAATATTTAC--AAAAAAAACTCACAATCCCAAG-TT--T-CCTAATTAAAAATCTA
131 TTTGTTCGCAATATTTACAAAAAAAAAAATCACAACCCCAAGTTTGGTACGTAATTAAAAATCTA
67444 AGAAAGT-
196 AGAAA-TA
* * * ** * *
67451 TCACATATAGAAGGCAAAGAGCTTAGGTTGTTTTCTTGTTCATTGCATACCTTTTCTCTCATGCA
1 TCACATATTGAAGACAAAGAGCTAAGGTTGTTTGGTTGTCCATTTCATACCTTTTCTCTCATGCA
* * * *
67516 TATTTGTCTCATGAAAAATATTATGAA
66 TATTTATCTCGTGAAGAATATTGTGAA
67543 GAAAACTCCT
Statistics
Matches: 463, Mismatches: 26, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
196 100 0.22
197 2 0.00
199 2 0.00
200 20 0.04
202 339 0.73
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (202 bp):
TCACATATTGAAGACAAAGAGCTAAGGTTGTTTGGTTGTCCATTTCATACCTTTTCTCTCATGCA
TATTTATCTCGTGAAGAATATTGTGAACATGTTTGGGTTGAGAAAATAATAAGCTATTCTTAAAT
TTTGTTCGCAATATTTACAAAAAAAAAAATCACAACCCCAAGTTTGGTACGTAATTAAAAATCTA
AGAAATA
Found at i:70087 original size:51 final size:51
Alignment explanation
Indices: 69975--70097 Score: 119
Period size: 51 Copynumber: 2.5 Consensus size: 51
69965 CCAATCCAGC
* * *
69975 CCACTGTAACTTCAGGG-GTATAGGATTTGATGTCGTAGCTTCATCTTGCT
1 CCACTGTAACTTCAGGGAGTATAAGATTTGATGTCGTAGCCTCATCTTGAT
* * * * *
70025 CCATTGCAACTTCAGGGAG-ATAAAGATTTGCTTTTGTAGCCTCAATC-TGAT
1 CCACTGTAACTTCAGGGAGTAT-AAGATTTGATGTCGTAGCCTC-ATCTTGAT
*
70076 CCACTGTAACTTTAGGGA-TATA
1 CCACTGTAACTTCAGGGAGTATA
70098 GTAATCAAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
50 18 0.31
51 37 0.64
52 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (51 bp):
CCACTGTAACTTCAGGGAGTATAAGATTTGATGTCGTAGCCTCATCTTGAT
Found at i:73204 original size:15 final size:16
Alignment explanation
Indices: 73186--73222 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
73176 TAGATATATT
73186 TAAAATA-TCAAAAA-A
1 TAAAATACT-AAAAATA
73201 TAAAATACTAAAAATA
1 TAAAATACTAAAAATA
73217 TAAAAT
1 TAAAAT
73223 GTTTTCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAATACTAAAAATA
Found at i:73570 original size:31 final size:31
Alignment explanation
Indices: 73534--73593 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
73524 ATGGTTACCG
*
73534 AACTATTTGAAAGTTTCTATTTAAGTCACAT
1 AACTATTCGAAAGTTTCTATTTAAGTCACAT
* *
73565 AACTATTCGGAAGTTTTTATTTAAGTCAC
1 AACTATTCGAAAGTTTCTATTTAAGTCAC
73594 TTGATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (31 bp):
AACTATTCGAAAGTTTCTATTTAAGTCACAT
Found at i:75856 original size:29 final size:29
Alignment explanation
Indices: 75785--75857 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
75775 ATCGGAGTTG
*
75785 AAAAT-GTGATTTTTGGATACCCGGGGGT
1 AAAATGGTAATTTTTGGATACCCGGGGGT
*
75813 AAAATGGTAA-TTTTGG-TCACTCGGGGGT
1 AAAATGGTAATTTTTGGAT-ACCCGGGGGT
75841 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
75858 GAAATGTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 1 0.03
28 30 0.75
29 9 0.22
ACGTcount: A:0.27, C:0.08, G:0.30, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGATACCCGGGGGT
Found at i:75971 original size:29 final size:29
Alignment explanation
Indices: 75939--76145 Score: 90
Period size: 29 Copynumber: 7.2 Consensus size: 29
75929 TCAAAAATAC
75939 AATTTTTGGAAGTTTAGGAGT-AAAATGGT
1 AATTTTTGGAAGTTTAGG-GTAAAAATGGT
*** ** *
75968 AATTTTCAAAAAATTAGGGTCAAAATGG-
1 AATTTTTGGAAGTTTAGGGTAAAAATGGT
75996 AA-TTTTGGAAAGTTTGAGGGTAAAAAT-GT
1 AATTTTTGG-AAGTTT-AGGGTAAAAATGGT
* *** *
76025 AATTTTTAGAAAAATCGAGGTCAAAAAT-G-
1 AATTTTTGGAAGTTTAG-GGT-AAAAATGGT
* **
76054 AAATTTTGGAAAGTTGGGGGTAAAAAT-GT
1 AATTTTTGG-AAGTTTAGGGTAAAAATGGT
** * *
76083 AATTTTTGGAAAAATTAAGGTCAAAATGG-
1 AATTTTTGG-AAGTTTAGGGTAAAAATGGT
* * * *
76112 AATTTTAGAAAGTTTAGGGTACAAAT-AT
1 AATTTTTGGAAGTTTAGGGTAAAAATGGT
76140 AATTTT
1 AATTTT
76146 CAAAAAGTTC
Statistics
Matches: 129, Mismatches: 38, Indels: 23
0.68 0.20 0.12
Matches are distributed among these distances:
27 3 0.02
28 35 0.27
29 75 0.58
30 16 0.12
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (29 bp):
AATTTTTGGAAGTTTAGGGTAAAAATGGT
Found at i:76038 original size:58 final size:57
Alignment explanation
Indices: 75942--76186 Score: 241
Period size: 58 Copynumber: 4.2 Consensus size: 57
75932 AAAATACAAT
75942 TTTTGG-AAGTTT-AGGAGT-AAAATGGTAATTTTCAAAAAATTAGGGTCAAAATGGAA
1 TTTTGGAAAGTTTGAGG-GTAAAAAT-GTAATTTTCAAAAAATTAGGGTCAAAATGGAA
* * *
75998 TTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTAGAAAAA-TCGAGGTCAAAAATGAAA
1 TTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTCA-AAAAATTAG-GGTC-AAAATGGAA
* ** *
76057 TTTTGGAAAG-TTGGGGGTAAAAATGTAATTTTTGGAAAAATTAAGGTCAAAATGGAA
1 TTTTGGAAAGTTTGAGGGTAAAAATGTAA-TTTTCAAAAAATTAGGGTCAAAATGGAA
* * * * **
76114 TTTTAGAAAGTTT-AGGGTACAAATATAATTTTCAAAAAGTTCAAGGGTCAAAATATAA
1 TTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTCAAAAAATT--AGGGTCAAAATGGAA
*
76172 TTTTAGAGAAGTTTG
1 TTTTGGA-AAGTTTG
76187 GGATCAAAAT
Statistics
Matches: 157, Mismatches: 19, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
56 16 0.10
57 48 0.31
58 64 0.41
59 29 0.18
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.33
Consensus pattern (57 bp):
TTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTCAAAAAATTAGGGTCAAAATGGAA
Found at i:76168 original size:30 final size:28
Alignment explanation
Indices: 76092--76204 Score: 90
Period size: 30 Copynumber: 4.0 Consensus size: 28
76082 TAATTTTTGG
**
76092 AAAAA-TTAA-GGTCAAAATGGAATTTT
1 AAAAAGTTAAGGGTCAAAATATAATTTT
* *
76118 AGAAAGTTTAGGGT-ACAAATATAATTTT
1 AAAAAGTTAAGGGTCA-AAATATAATTTT
76146 CAAAAAGTTCAAGGGTCAAAATATAATTTT
1 -AAAAAGTT-AAGGGTCAAAATATAATTTT
* * *
76176 AGAGAAGTT-TGGGATCAAAATATGATTTT
1 A-AAAAGTTAAGGG-TCAAAATATAATTTT
76205 TGGATAGTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
26 4 0.06
27 4 0.06
28 16 0.23
29 22 0.31
30 23 0.33
31 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (28 bp):
AAAAAGTTAAGGGTCAAAATATAATTTT
Found at i:76184 original size:116 final size:115
Alignment explanation
Indices: 75920--76208 Score: 291
Period size: 116 Copynumber: 2.5 Consensus size: 115
75910 ATATTTTGAG
* * ** * **
75920 AAATCAAGGTCAAAAATACAATTTTTGGAAGTTTAGGAGT-AAAATGGTAA-TTTTCAAAAAATT
1 AAATCAAGGTCAAAAATA-AATTTTAGAAAGTTGGGGA-TAAAAAT-ATAATTTTTGGAAAAATT
* * * *
75983 AGGGTCAAAATGGAATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTAGAA
63 AAGGTCAAAATGGAATTTTAGAAAGTTTGAGGGTAAAAATATAATTTTCAGAA
* * * *
76036 AAATCGAGGTCAAAAATGAAATTTTGGAAAGTTGGGGGTAAAAATGTAATTTTTGGAAAAATTAA
1 AAATCAAGGTCAAAAAT-AAATTTTAGAAAGTTGGGGATAAAAATATAATTTTTGGAAAAATTAA
*
76101 GGTCAAAATGGAATTTTAGAAAGTTT-AGGGTACAAATATAATTTTCA-AA
65 GGTCAAAATGGAATTTTAGAAAGTTTGAGGGTAAAAATATAATTTTCAGAA
* * * *
76150 AAGTTCAAGGGTC-AAAATATAATTTTAGAGAAGTTTGGGATCAAAATATGATTTTTGGA
1 AA-ATCAA-GGTCAAAAATA-AATTTTAGA-AAGTTGGGGATAAAAATATAATTTTTGGA
76209 TAGTTTAGGG
Statistics
Matches: 145, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
114 5 0.03
115 39 0.27
116 100 0.69
117 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (115 bp):
AAATCAAGGTCAAAAATAAATTTTAGAAAGTTGGGGATAAAAATATAATTTTTGGAAAAATTAAG
GTCAAAATGGAATTTTAGAAAGTTTGAGGGTAAAAATATAATTTTCAGAA
Found at i:76213 original size:29 final size:30
Alignment explanation
Indices: 76103--76219 Score: 95
Period size: 29 Copynumber: 4.0 Consensus size: 30
76093 AAAATTAAGG
**
76103 TCAAAATGGAATTTTAGA-AAGTTTAGGG-
1 TCAAAATATAATTTTAGAGAAGTTTAGGGA
* *
76131 T-ACAAATATAATTTTCA-AAAAGTTCAAGGG-
1 TCA-AAATATAATTTT-AGAGAAGTT-TAGGGA
76161 TCAAAATATAATTTTAGAGAAGTTT-GGGA
1 TCAAAATATAATTTTAGAGAAGTTTAGGGA
* *
76190 TCAAAATATGATTTTTG-GATAGTTTAGGGA
1 TCAAAATATAATTTTAGAGA-AGTTTAGGGA
76220 CCTCCAGGGC
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
27 1 0.01
28 17 0.23
29 27 0.37
30 27 0.37
31 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (30 bp):
TCAAAATATAATTTTAGAGAAGTTTAGGGA
Found at i:77366 original size:3 final size:3
Alignment explanation
Indices: 77360--77391 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
77350 TTAAACCCAT
77360 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
77392 GACACTAAAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:78110 original size:17 final size:16
Alignment explanation
Indices: 78087--78154 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
78077 TTTAATTGGA
*
78087 AAATAAATTTAAATTT
1 AAATAAATTCAAATTT
**
78103 AAAGTAAATTCAAACTCA
1 AAA-TAAATTCAAA-TTT
* *
78121 AAATGAATTTAAATTT
1 AAATAAATTCAAATTT
78137 AGAATAAATTCAAATTT
1 A-AATAAATTCAAATTT
78154 A
1 A
78155 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
16 5 0.12
17 31 0.77
18 4 0.10
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (16 bp):
AAATAAATTCAAATTT
Found at i:78130 original size:34 final size:34
Alignment explanation
Indices: 78086--78150 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
78076 TTTTAATTGG
78086 AAAATAAATTTAAATTTA-AAGTAAATTCAAACTC
1 AAAATAAATTTAAATTTAGAA-TAAATTCAAACTC
*
78120 AAAATGAATTTAAATTTAGAATAAATTCAAA
1 AAAATAAATTTAAATTTAGAATAAATTCAAA
78151 TTTATTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (34 bp):
AAAATAAATTTAAATTTAGAATAAATTCAAACTC
Done.