Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000113.1 Hibiscus syriacus cultivar Beakdansim tig00000203_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2420 original size:32 final size:32
Alignment explanation
Indices: 2359--2420 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
2349 AGATTTTGAT
* *
2359 AAATTATATTATAATTTTATCAAACTTATAAC
1 AAATTATAATATAATTTTATCAAAATTATAAC
*
2391 AAATTATAATATAA-TTTCTCAAAAATTATA
1 AAATTATAATATAATTTTATC-AAAATTATA
2421 TAAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 5 0.19
32 21 0.81
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (32 bp):
AAATTATAATATAATTTTATCAAAATTATAAC
Found at i:10396 original size:13 final size:12
Alignment explanation
Indices: 10369--10419 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
10359 TAATATTGAT
10369 AAATATATATTA
1 AAATATATATTA
*
10381 AAATATGATTTTA
1 AAATAT-ATATTA
10394 AAATA-AT-TTA
1 AAATATATATTA
10404 AAAGTAATATATTA
1 AAA-T-ATATATTA
10418 AA
1 AA
10420 TAGGATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 7 0.21
13 12 0.36
14 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (12 bp):
AAATATATATTA
Found at i:11974 original size:3 final size:3
Alignment explanation
Indices: 11966--12028 Score: 72
Period size: 3 Copynumber: 21.0 Consensus size: 3
11956 ATATATATAT
* * **
11966 TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
12014 TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
12029 GTAAACTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:12145 original size:24 final size:24
Alignment explanation
Indices: 12098--12144 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
12088 AATAGAGCAA
12098 AGACGAATAAAGACAATAATTTTT
1 AGACGAATAAAGACAATAATTTTT
12122 AGACGAA-AAAGACAATAATTTTT
1 AGACGAATAAAGACAATAATTTTT
12145 TCATTTGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.28
Consensus pattern (24 bp):
AGACGAATAAAGACAATAATTTTT
Found at i:12241 original size:45 final size:46
Alignment explanation
Indices: 12177--12574 Score: 642
Period size: 46 Copynumber: 8.7 Consensus size: 46
12167 GATGAAAATG
* *
12177 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* * *
12222 TTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGG-TT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* ** *
12267 TTGAAAACATCATGCACTGAAGGGTTTATAGATGACCCGAAGG-TT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
12312 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACTCGAAGG-TT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
12357 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
12403 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
12449 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* *
12495 TTGAAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGTTT
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* *
12541 TTTAAAACATCAAGCACTGAAGGTCTTACAGATG
1 TTGAAAACATCAAGCACTGAAGGACTTACAGATG
12575 TGGGAAACAG
Statistics
Matches: 337, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
45 168 0.50
46 169 0.50
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (46 bp):
TTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTT
Found at i:13392 original size:18 final size:19
Alignment explanation
Indices: 13371--13411 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
13361 AATAAGATGT
*
13371 TAAAAGAAAATAATAAAA-
1 TAAAAGAAAATAACAAAAC
*
13389 TAAAAGAAAGTAACAAAAC
1 TAAAAGAAAATAACAAAAC
13408 TAAA
1 TAAA
13412 GAGTAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.15
Consensus pattern (19 bp):
TAAAAGAAAATAACAAAAC
Found at i:13646 original size:22 final size:22
Alignment explanation
Indices: 13598--13747 Score: 62
Period size: 22 Copynumber: 6.8 Consensus size: 22
13588 GAAACTAAAA
*
13598 ATAT-AATGAAAATAA-ATAAAT
1 ATATAAAT-AAAATAATATATAT
13619 AGTATAAATAAAATAATATATAT
1 A-TATAAATAAAATAATATATAT
* * * *
13642 ATATATATAATATAAAATGTAT
1 ATATAAATAAAATAATATATAT
* * * *
13664 GTAT-AATATAATAAAATACTAA
1 ATATAAATAAAATAATATA-TAT
* *
13686 ATAGT-AATAATAATAATAAATAA
1 ATA-TAAATAA-AATAATATATAT
*
13709 ATGAAAAATAAATATACATATA-AT
1 AT-ATAAATAAA-ATA-ATATATAT
*
13733 AT-TAACTAAAA-AATA
1 ATATAAATAAAATAATA
13748 GTAATCATAG
Statistics
Matches: 99, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
19 3 0.03
20 1 0.01
21 12 0.12
22 40 0.40
23 20 0.20
24 19 0.19
25 4 0.04
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATAAATAAAATAATATATAT
Found at i:13870 original size:16 final size:15
Alignment explanation
Indices: 13840--13891 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
13830 GTAAACATAG
*
13840 ATAAAAAAATAATAAT
1 ATAAAATAAT-ATAAT
*
13856 ATAATATATATATAAT
1 ATAAAATA-ATATAAT
*
13872 AGGAAAATAATATAAT
1 A-TAAAATAATATAAT
13888 ATAA
1 ATAA
13892 CACAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.07
16 20 0.69
17 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATAATATAAT
Found at i:15442 original size:106 final size:106
Alignment explanation
Indices: 15257--16003 Score: 1201
Period size: 106 Copynumber: 7.0 Consensus size: 106
15247 AGCATTGTTC
* * * *
15257 TGAGTCTAATATCCTCCG-TCGTGAAGTTGAAATTGGATCTGGAATTGGGAAGTTGTTTATTGAC
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAC
*
15321 AACCAGCGGTCCCTTCGTCGTGAATTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
15363 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
15428 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
15469 TGAGTCCAATATCCTTCACTATGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
15534 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
15575 GGAGTCCAATATCCTTCGTTGTGAAGTTGGAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
15640 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* **
15681 GGAGTCCAATATCCTTATCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
15746 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
15787 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
15852 ACCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
15893 GGAGTCCAATATCCTTCGCTTTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * *
15958 AACAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
15999 CGAGT
1 TGAGT
16004 GGCACGATAT
Statistics
Matches: 595, Mismatches: 44, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
106 593 1.00
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:16991 original size:22 final size:22
Alignment explanation
Indices: 16965--17019 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
16955 TTATGTTTGG
16965 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
16987 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
17009 TCAAAGGTTTG
1 TCAAAGGTTTG
17020 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:17658 original size:14 final size:14
Alignment explanation
Indices: 17656--17712 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 14
17646 TTCTTTCTTT
17656 TTTCTTTTGTT-TTC
1 TTTCTTTT-TTGTTC
17670 -TTCTTTTTTGCTTC
1 TTTCTTTTTTG-TTC
*
17684 TTTTCTTTTTTGTTT
1 -TTTCTTTTTTGTTC
17699 TTTC-TTTTTGTTC
1 TTTCTTTTTTGTTC
17712 T
1 T
17713 GATTGAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 2 0.05
13 16 0.43
14 7 0.19
15 2 0.05
16 10 0.27
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTTGTTC
Found at i:17663 original size:20 final size:21
Alignment explanation
Indices: 17629--17712 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 21
17619 TTTGTCCCTT
17629 TTTC-TTTTTCATTTTTGTTC
1 TTTCTTTTTTCATTTTTGTTC
*
17649 TTTCTTTTTTC--TTTTGTTT
1 TTTCTTTTTTCATTTTTGTTC
* * *
17668 TCTTCTTTTTTGCTTCTTTTCTTT
1 T-TTCTTTTTT-CAT-TTTTGTTC
*
17692 TTTGTTTTTTC-TTTTTGTTC
1 TTTCTTTTTTCATTTTTGTTC
17712 T
1 T
17713 GATTGAATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
19 8 0.15
20 20 0.38
21 8 0.15
22 1 0.02
23 8 0.15
24 8 0.15
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.79
Consensus pattern (21 bp):
TTTCTTTTTTCATTTTTGTTC
Found at i:17673 original size:24 final size:24
Alignment explanation
Indices: 17657--17701 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17647 TCTTTCTTTT
*
17657 TTCTTTTGTTTTCTTCTTTTTTGC
1 TTCTTTTCTTTTCTTCTTTTTTGC
*
17681 TTCTTTTCTTTT-TTGTTTTTT
1 TTCTTTTCTTTTCTTCTTTTTT
17702 CTTTTTGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (24 bp):
TTCTTTTCTTTTCTTCTTTTTTGC
Found at i:17685 original size:31 final size:30
Alignment explanation
Indices: 17650--17707 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
17640 TTTTTGTTCT
17650 TTCTTTT-TTCTTTTGTTTTCTTCTTTTTTGC
1 TTCTTTTCTT-TTTTGTTTT-TTCTTTTTTGC
17681 TTCTTTTCTTTTTTGTTTTTTCTTTTT
1 TTCTTTTCTTTTTTGTTTTTTCTTTTT
17708 GTTCTGATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 8 0.31
31 16 0.62
32 2 0.08
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (30 bp):
TTCTTTTCTTTTTTGTTTTTTCTTTTTTGC
Found at i:17703 original size:19 final size:18
Alignment explanation
Indices: 17627--17706 Score: 64
Period size: 19 Copynumber: 4.6 Consensus size: 18
17617 TTTTTGTCCC
*
17627 TTTTTCTTTTTCATTTTTG
1 TTTTTC-TTTTCTTTTTTG
17646 TTCTTTCTTTT-TTCTTTTG
1 TT-TTTCTTTTCTT-TTTTG
17665 -TTTTC--TTCTTTTTTG
1 TTTTTCTTTTCTTTTTTG
*
17680 --CTTCTTTTCTTTTTTG
1 TTTTTCTTTTCTTTTTTG
17696 TTTTTTCTTTT
1 -TTTTTCTTTT
17707 TGTTCTGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
14 3 0.06
15 7 0.14
16 12 0.24
17 4 0.08
18 2 0.04
19 18 0.36
20 4 0.08
ACGTcount: A:0.01, C:0.14, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTTTG
Found at i:21153 original size:19 final size:20
Alignment explanation
Indices: 21125--21162 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21115 TGCATATGAT
*
21125 GGAAATAAAAT-AAAAGAGA
1 GGAAAAAAAATGAAAAGAGA
21144 GGAAAAAAAATGAAAAGAG
1 GGAAAAAAAATGAAAAGAG
21163 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (20 bp):
GGAAAAAAAATGAAAAGAGA
Found at i:22342 original size:29 final size:30
Alignment explanation
Indices: 22300--22365 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
22290 AATAATAAAC
*
22300 ATAAAAT--AATTGAATGAAA-CAAAAAAA
1 ATAAAATGAAATTGAATAAAATCAAAAAAA
* *
22327 ATAAAATGAAATTGAATAAAATTAAATAAA
1 ATAAAATGAAATTGAATAAAATCAAAAAAA
22357 AT-AAATGAA
1 ATAAAATGAA
22366 GATAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.21
29 18 0.55
30 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (30 bp):
ATAAAATGAAATTGAATAAAATCAAAAAAA
Found at i:22359 original size:15 final size:15
Alignment explanation
Indices: 22324--22374 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
22314 TGAAACAAAA
22324 AAAATAAAATGAAAT
1 AAAATAAAATGAAAT
** *
22339 TGAATAAAATTAAAT
1 AAAATAAAATGAAAT
22354 AAAAT-AAATGAAGAT
1 AAAATAAAATGAA-AT
22369 AAAATA
1 AAAATA
22375 TATATACAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.24
Consensus pattern (15 bp):
AAAATAAAATGAAAT
Found at i:22499 original size:22 final size:22
Alignment explanation
Indices: 22446--22499 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
22436 GCAAAGAAAC
*
22446 TAAAAATAT-AATGAAAATAAA
1 TAAATATATAAATGAAAATAAA
22467 TAAATAGTATAAAT-AAAATAATA
1 TAAATA-TATAAATGAAAATAA-A
*
22490 TATATATATA
1 TAAATATATA
22500 TATATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 5 0.18
22 14 0.50
23 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
TAAATATATAAATGAAAATAAA
Found at i:22512 original size:14 final size:14
Alignment explanation
Indices: 22466--22513 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
22456 ATGAAAATAA
22466 ATAAATAGTATA-A-
1 ATAAATA-TATATAT
22479 ATAAA-ATA-ATAT
1 ATAAATATATATAT
*
22491 ATATATATATATAT
1 ATAAATATATATAT
22505 ATAAATATA
1 ATAAATATA
22514 AAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 1 0.03
11 3 0.10
12 5 0.17
13 8 0.28
14 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
ATAAATATATATAT
Found at i:22735 original size:26 final size:25
Alignment explanation
Indices: 22705--22754 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
22695 ATAGATAAAA
22705 ATAATA-AAAATATAATATATATATAT
1 ATAATAGAAAA-ATAATATA-ATATAT
*
22731 ATAATAGGAAAATAATATAATATA
1 ATAATAGAAAAATAATATAATATA
22755 ACGCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 14 0.64
27 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (25 bp):
ATAATAGAAAAATAATATAATATAT
Found at i:22804 original size:18 final size:17
Alignment explanation
Indices: 22781--22824 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22771 AAAAGAGAAC
22781 TATAATAAATAAATAAAA
1 TATAATAAATAAAT-AAA
* *
22799 TATAATTAAATATATATA
1 TATAA-TAAATAAATAAA
22817 TATAATAA
1 TATAATAA
22825 GGGTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATAAATAAATAAA
Found at i:23355 original size:37 final size:37
Alignment explanation
Indices: 23262--23363 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
23252 GTTCTTGTGG
* * ** * *
23262 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAGAAATTT
*
23299 ATCATATTTTTAGGAGTTTGAATCCTAGCA-AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAGAAATT-T
23336 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
23364 TATGACGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 4 0.07
37 52 0.93
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAGAAATTT
Found at i:24055 original size:54 final size:54
Alignment explanation
Indices: 23997--24139 Score: 184
Period size: 52 Copynumber: 2.7 Consensus size: 54
23987 CTTAAAACAC
23997 TTGACAACACATTCATCATTTCTTGTGGCTTCTGCTCAGATGCTCATAAAACTT
1 TTGACAACACATTCATCATTTCTTGTGGCTTCTGCTCAGATGCTCATAAAACTT
* * * * * *
24051 TTGACAACACATTCA--ATCTCATGTGGTTTCTGCCCATATGTTCATAAAACTT
1 TTGACAACACATTCATCATTTCTTGTGGCTTCTGCTCAGATGCTCATAAAACTT
* *
24103 TTGACAACACATTCCTCTTTTTCTT-TGGCTTCTGCTC
1 TTGACAACACATTCATC-ATTTCTTGTGGCTTCTGCTC
24140 GGATTTCTGG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
52 45 0.61
54 25 0.34
55 4 0.05
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (54 bp):
TTGACAACACATTCATCATTTCTTGTGGCTTCTGCTCAGATGCTCATAAAACTT
Found at i:30793 original size:6 final size:6
Alignment explanation
Indices: 30775--30809 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
30765 AAGAATGCAA
*
30775 AAATGC AAAATGC AAATGC AAATGC AAATGT AAAT
1 AAATGC -AAATGC AAATGC AAATGC AAATGC AAAT
30810 ATGTGAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.20
Consensus pattern (6 bp):
AAATGC
Found at i:31041 original size:43 final size:44
Alignment explanation
Indices: 30976--31062 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
30966 CTGTGCATCA
* *
30976 AACAAAACTTTTACATGCAGGGGACAACTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTC
* * *
31020 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTC
31063 TTTAAAGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 30 0.79
44 8 0.21
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.29
Consensus pattern (44 bp):
AACAAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTC
Found at i:32408 original size:13 final size:13
Alignment explanation
Indices: 32390--32414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32380 TTGAAAATAA
32390 AATAAAAATAATT
1 AATAAAAATAATT
32403 AATAAAAATAAT
1 AATAAAAATAAT
32415 ATACACATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAAAATAATT
Found at i:33296 original size:34 final size:30
Alignment explanation
Indices: 33258--33326 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
33248 TTGATATAAC
33258 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTA
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTA
* *
33292 AATTT-ACAATATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTA
33321 AATTTA
1 AATTTA
33327 TTCAAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 9 0.28
30 12 0.38
31 5 0.16
33 1 0.03
34 5 0.16
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTA
Found at i:33441 original size:21 final size:21
Alignment explanation
Indices: 33416--33495 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
33406 TTCAAGATTG
33416 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
33437 CCCAGGGGGTACAGA-T--AC
1 CCCAGGGGGTACAGATTCCCC
*
33455 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATTCCCC
*
33473 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
33494 CC
1 CC
33496 TGTCTAAAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
18 8 0.17
20 1 0.02
21 30 0.62
ACGTcount: A:0.20, C:0.40, G:0.28, T:0.12
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:33462 original size:36 final size:36
Alignment explanation
Indices: 33422--33493 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
33412 ATTGCCCAGG
*
33422 GGGTACAGATTCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
* *
33458 GGGTACAGATACCCCCCCAGGGGGTACCGATTCCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
33494 CCTGTCTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.14
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
Found at i:33463 original size:15 final size:15
Alignment explanation
Indices: 33443--33472 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33433 CCCCCCCAGG
33443 GGGTACAGATACCCC
1 GGGTACAGATACCCC
33458 GGGTACAGATACCCC
1 GGGTACAGATACCCC
33473 CCCAGGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:33561 original size:20 final size:21
Alignment explanation
Indices: 33521--33564 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
33511 AACAGAATGT
33521 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
*
33542 CCAGGGGGTACTGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
33563 CC
1 CC
33565 TGTTCAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.43, G:0.27, T:0.16
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:33626 original size:21 final size:21
Alignment explanation
Indices: 33600--33641 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33590 ATTTGAATAT
*
33600 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
33621 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
33642 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:33704 original size:21 final size:21
Alignment explanation
Indices: 33670--33709 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
33660 TTTGAGTAGA
*
33670 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
33692 AAAAT-ATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
33710 AGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 1 0.06
22 5 0.29
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:33963 original size:34 final size:32
Alignment explanation
Indices: 33924--33993 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
33914 TTTTTTAAAG
* *
33924 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
33958 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
33990 GGGA
1 GGGA
33994 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:36954 original size:21 final size:21
Alignment explanation
Indices: 36929--37008 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
36919 TTCAAGATTG
36929 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
36950 CCCAGGGGGTACAGA-T--AC
1 CCCAGGGGGTACAGATTCCCC
*
36968 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATTCCCC
*
36986 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
37007 CC
1 CC
37009 TGTCTAAAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
18 8 0.17
20 1 0.02
21 30 0.62
ACGTcount: A:0.20, C:0.40, G:0.28, T:0.12
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:36975 original size:36 final size:36
Alignment explanation
Indices: 36935--37006 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
36925 ATTGCCCAGG
*
36935 GGGTACAGATTCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
* *
36971 GGGTACAGATACCCCCCCAGGGGGTACCGATTCCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
37007 CCTGTCTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.14
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
Found at i:36976 original size:15 final size:15
Alignment explanation
Indices: 36956--36985 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36946 CCCCCCCAGG
36956 GGGTACAGATACCCC
1 GGGTACAGATACCCC
36971 GGGTACAGATACCCC
1 GGGTACAGATACCCC
36986 CCCAGGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:37074 original size:20 final size:21
Alignment explanation
Indices: 37034--37077 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
37024 AACAGAATGT
37034 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
37055 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
37076 CC
1 CC
37078 TGTTCAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:37139 original size:21 final size:21
Alignment explanation
Indices: 37113--37154 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37103 ATTTGAATAT
*
37113 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
37134 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
37155 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:37217 original size:21 final size:21
Alignment explanation
Indices: 37183--37222 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
37173 TTTGAGTAGA
*
37183 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
37205 AAAAT-ATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
37223 AGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 1 0.06
22 5 0.29
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:37939 original size:77 final size:76
Alignment explanation
Indices: 37778--37939 Score: 220
Period size: 77 Copynumber: 2.1 Consensus size: 76
37768 GAAAATAATA
* *
37778 AATAAATATTATTTATTAAAATTATATATATGTATTTATGATTAAATACTAATAATAATATATTA
1 AATAAATATTATTTATTAAAATTATATATA-GTATTTATGATTAAATACTAATAATAAAACATTA
**
37843 AAATAAACATGT
65 AAATAAACATAC
*
37855 AAAAAATATTATTTATTAAAATTATATATA-TATTTATGATTAAATACTAATAATAAAACATATA
1 AATAAATATTATTTATTAAAATTATATATAGTATTTATGATTAAATACTAATAATAAAACAT-TA
*
37919 AAATTGAA-ATAC
65 AAA-TAAACATAC
37931 AACTAAATA
1 AA-TAAATA
37940 ATGACAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
75 29 0.39
76 9 0.12
77 37 0.49
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.40
Consensus pattern (76 bp):
AATAAATATTATTTATTAAAATTATATATAGTATTTATGATTAAATACTAATAATAAAACATTAA
AATAAACATAC
Found at i:39328 original size:3 final size:3
Alignment explanation
Indices: 39305--39378 Score: 96
Period size: 3 Copynumber: 24.0 Consensus size: 3
39295 CTTTTTTATT
39305 TAA TAA TATA TATA TATA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TA-A TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
39352 TAA TAA TAA TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
39379 GTAAACTGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 52 0.80
4 11 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:44658 original size:3 final size:3
Alignment explanation
Indices: 44640--44700 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
44630 ATTCATTAAA
* * **
44640 ATT ATT TTT AATT ATT ATT ATT ATT AAT AAA ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
44686 AAT ATAT ATAT ATT A
1 ATT AT-T AT-T ATT A
44701 CAAGCCCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 39 0.81
4 9 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:44675 original size:21 final size:21
Alignment explanation
Indices: 44649--44689 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
44639 AATTATTTTT
44649 AATTATTATTATTATTAATAA
1 AATTATTATTATTATTAATAA
44670 AATTATTATTATTATTAATA
1 AATTATTATTATTATTAATA
44690 TATATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTATTATTATTATTAATAA
Found at i:46024 original size:15 final size:15
Alignment explanation
Indices: 46004--46053 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
45994 ATCCATTAGT
46004 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
46019 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
46033 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
46049 TTTTA
1 TTTTA
46054 TTTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 1 0.04
17 4 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:46347 original size:27 final size:29
Alignment explanation
Indices: 46298--46352 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
46288 ATATTTCTAA
*
46298 ATAAATAAATATTTTATTTATAAATATAT
1 ATAAATAAATATTTTATTCATAAATATAT
* *
46327 ATAAATTAAT-TTTT-TTCATAATTATA
1 ATAAATAAATATTTTATTCATAAATATA
46353 ATTTTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 4 0.17
29 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
ATAAATAAATATTTTATTCATAAATATAT
Found at i:46868 original size:28 final size:25
Alignment explanation
Indices: 46837--46892 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
46827 TTCAAAATTT
46837 TTTATATATACTTATTATTTTCATAATA
1 TTTATATATA--TATTATTTT-ATAATA
* *
46865 TTTATATGTATATTATTTTTTAATA
1 TTTATATATATATTATTTTATAATA
46890 TTT
1 TTT
46893 TATTTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 9 0.35
28 9 0.35
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTATATATATATTATTTTATAATA
Found at i:46895 original size:15 final size:15
Alignment explanation
Indices: 46886--46914 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46876 ATTATTTTTT
46886 AATATTTTATTTTCA
1 AATATTTTATTTTCA
46901 AATATTTT-TTTTCA
1 AATATTTTATTTTCA
46915 TTATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTTATTTTCA
Found at i:46919 original size:13 final size:13
Alignment explanation
Indices: 46874--46920 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
46864 ATTTATATGT
46874 ATATTATTTTTT-A
1 ATATT-TTTTTTCA
46887 ATATTTTATTTTCAA
1 ATATTTT-TTTTC-A
46902 ATATTTTTTTTCA
1 ATATTTTTTTTCA
*
46915 TTATTT
1 ATATTT
46921 ATTTATCTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.07
13 15 0.50
14 5 0.17
15 8 0.27
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTTTTTTCA
Found at i:54390 original size:114 final size:114
Alignment explanation
Indices: 54056--54394 Score: 520
Period size: 113 Copynumber: 3.0 Consensus size: 114
54046 AAGTGCCATC
* *
54056 TGCTCATAGTAGAAAT-AAGAAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGAT
1 TGCTCATAGTAGAAATAAAG-AGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
*
54120 CTGGTTTGATATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
65 CTGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
* *
54170 TGCTCATAGTAGAAATAAGGA-GCCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAAGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
54234 TGGTTTAGTATGAACCCCAAAACCAATCATTAGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
* *
54283 TGCTCATAGTAGAAATAAAGAGGCCCAATAACATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAAGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * *
54348 TGGTTCGGTAGGAATCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
54395 CTGCATGATC
Statistics
Matches: 204, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
113 106 0.52
114 96 0.47
115 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAAGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
Found at i:56460 original size:54 final size:54
Alignment explanation
Indices: 56373--56531 Score: 184
Period size: 54 Copynumber: 3.0 Consensus size: 54
56363 AATAATTGAG
* * * *
56373 AAATCTGAGCAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGA
1 AAATCTGAGCAGAAGCCACAAGAAAGGAAGAATGTGTTGTCAAATGTTTTACGA
* *
56427 AAATCTGAGCAGAAGCTACAAGAAAGGAAGAATGTGTTTTCAAATGTTTTAC--
1 AAATCTGAGCAGAAGCCACAAGAAAGGAAGAATGTGTTGTCAAATGTTTTACGA
* * * *
56479 --ATCTCGA-CAGAAACCACATGAGATGAAGAATGTGTTGTCAAATGTTTTACGA
1 AAATCT-GAGCAGAAGCCACAAGAAAGGAAGAATGTGTTGTCAAATGTTTTACGA
56531 A
1 A
56532 CCAGTTATTC
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
50 41 0.46
51 2 0.02
54 46 0.52
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (54 bp):
AAATCTGAGCAGAAGCCACAAGAAAGGAAGAATGTGTTGTCAAATGTTTTACGA
Found at i:56912 original size:22 final size:22
Alignment explanation
Indices: 56883--56937 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
56873 ATCTACACTC
56883 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
56905 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
56927 TTCAAATATGA
1 TTCAAAGATGA
56938 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:57786 original size:185 final size:183
Alignment explanation
Indices: 57456--57824 Score: 684
Period size: 185 Copynumber: 2.0 Consensus size: 183
57446 CCAATCAACA
*
57456 TGTTATTTTGAAAAAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAA
1 TGTTAATTTGAAAAAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAA
57521 ATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATATG
66 ATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATATG
*
57586 TAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
131 TAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
57639 TGTTAATTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTAATTTG-AAAA-AATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
* *
57704 AAATTGTTGAAAAGTAAGAAAATGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
64 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATA
57769 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
129 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
57824 T
1 T
57825 TTCAAAGCCT
Statistics
Matches: 180, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
183 9 0.05
184 4 0.02
185 167 0.93
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (183 bp):
TGTTAATTTGAAAAAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAA
ATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATATG
TAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
Found at i:57864 original size:76 final size:76
Alignment explanation
Indices: 57765--58052 Score: 540
Period size: 76 Copynumber: 3.8 Consensus size: 76
57755 CTATTTCCCA
*
57765 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
57830 AGCCTTAGGGT
66 AGCCTTAGGGT
57841 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
57906 AGCCTTAGGGT
66 AGCCTTAGGGT
*
57917 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
57982 AACCTTAGGGT
66 AGCCTTAGGGT
*
57993 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
58053 GTTACTTTGA
Statistics
Matches: 207, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 207 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:58277 original size:76 final size:76
Alignment explanation
Indices: 58178--58512 Score: 553
Period size: 76 Copynumber: 4.4 Consensus size: 76
58168 CTATTTCCCA
* * *
58178 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
58243 AGCCTTAGGGT
66 AACCTTAGGGT
* * *
58254 CATCTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
58319 AACCTTAGGGT
66 AACCTTAGGGT
58330 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCATGCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
58395 AAACCTTAGGGT
65 AAACCTTAGGGT
* * *
58407 CATCTGTAAATCTTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
58472 AGCCTTAGGGT
66 AACCTTAGGGT
*
58483 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCATGCAGTGCATGATGTTT
58513 TTAAGACCTC
Statistics
Matches: 245, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 173 0.71
77 72 0.29
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:58351 original size:413 final size:414
Alignment explanation
Indices: 57584--58466 Score: 1615
Period size: 413 Copynumber: 2.1 Consensus size: 414
57574 TTCCCACATA
57584 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTAATTTG
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTAATTTG
57649 AAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGA
66 AAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGA
* *
57714 AAAGTAAGAAAATGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCTGTAAGTCCT
131 AAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCTATAAGTCCT
57779 ACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCAT
196 ACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCAT
* * * *
57844 CTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGC
261 CTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAC
* *
57909 CTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGTTTTTTGA
326 CTTAGGGTCATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGA
57973 TGTTTTCAAAACCTTAGGGTCATC
391 TGTTTTCAAAACCTTAGGGTCATC
* *
57997 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGTTGTTACTTTG
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTAATTTG
* *
58062 AAAAATAATGAGATAACGATTTCCATATTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGA
66 AAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGA
58127 AAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCTATAAGTCCT
131 AAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCTATAAGTCCT
58192 ACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCAT
196 ACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCAT
*
58257 CTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAAC
261 CTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAC
58322 CTTAGGGTCATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGA
326 CTTAGGGTCATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGA
58387 TGTTTTCAAAACCTTAGGGTCATC
391 TGTTTTCAAAACCTTAGGGTCATC
* * *
58411 TGTAAATCTTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
58467 TTCAAAGCCT
Statistics
Matches: 452, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
413 353 0.78
414 99 0.22
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (414 bp):
TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTAATTTG
AAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGA
AAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCTATAAGTCCT
ACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCAT
CTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAC
CTTAGGGTCATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGA
TGTTTTCAAAACCTTAGGGTCATC
Found at i:58428 original size:153 final size:152
Alignment explanation
Indices: 58178--58512 Score: 562
Period size: 153 Copynumber: 2.2 Consensus size: 152
58168 CTATTTCCCA
* *
58178 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
58243 AGCCTTAGGGTCATCTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTT
66 AACCTTAGGGTCATCTATAAATCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
58308 GATGTTTTCAAAACCTTAGGGT
131 GATGTTTTCAAAACCTTAGGGT
*
58330 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * **
58395 AAACCTTAGGGTCATCTGTAAATCTTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAACCTTAGGGTCATCTATAAATCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
58460 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAACCTTAGGGT
58483 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
58513 TTAAGACCTC
Statistics
Matches: 170, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
152 29 0.17
153 141 0.83
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (152 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGTCATCTATAAATCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAACCTTAGGGT
Found at i:58682 original size:31 final size:31
Alignment explanation
Indices: 58647--58725 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
58637 GTAAACATCA
* * *
58647 ATTTTTCATTTTTCTTA-AATTCATTAAAATT
1 ATTTTTAATTATTATTATAATT-ATTAAAATT
*
58678 ATTTTTAATTATTATTATTATTATTAAAATT
1 ATTTTTAATTATTATTATAATTATTAAAATT
*
58709 ATTATT-ATTATTATTAT
1 ATTTTTAATTATTATTAT
58726 TAATATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 11 0.26
31 28 0.67
32 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (31 bp):
ATTTTTAATTATTATTATAATTATTAAAATT
Found at i:58693 original size:3 final size:3
Alignment explanation
Indices: 58675--58727 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
58665 ATTCATTAAA
* **
58675 ATT ATT TTT AATT ATT ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58721 ATT ATT A
1 ATT ATT A
58728 ATATAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 41 0.95
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:60036 original size:15 final size:15
Alignment explanation
Indices: 60013--60067 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
60003 AATATGATCC
*
60013 ATTAGTTTTAATATT
1 ATTACTTTTAATATT
60028 ATTACTTTTAAT-TT
1 ATTACTTTTAATATT
* *
60042 CTTTCATTTTAATTATT
1 ATTAC-TTTTAA-TATT
60059 ATTA-TTTTA
1 ATTACTTTTA
60068 TTTTATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 5 0.16
15 22 0.69
16 1 0.03
17 4 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (15 bp):
ATTACTTTTAATATT
Found at i:60361 original size:27 final size:29
Alignment explanation
Indices: 60312--60366 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
60302 ATTTTTCTAA
*
60312 ATAAATAAATATTTTATTTATAAATATAT
1 ATAAATAAATATTTTATTCATAAATATAT
* *
60341 ATAAATTAAT-TTTT-TTCATAATTATA
1 ATAAATAAATATTTTATTCATAAATATA
60367 ATTTTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 4 0.17
29 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
ATAAATAAATATTTTATTCATAAATATAT
Found at i:61252 original size:19 final size:19
Alignment explanation
Indices: 61209--61263 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
61199 GTAGTTAATT
61209 GTAGAAAATCAGAC--TATA
1 GTAGAAAA-CAGACTGTATA
*
61227 GAAAGAAAACAGACTGTATA
1 G-TAGAAAACAGACTGTATA
61247 GTAGAAAACAGACTGTA
1 GTAGAAAACAGACTGTA
61264 GGAAATAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 6 0.19
19 21 0.66
20 5 0.16
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.18
Consensus pattern (19 bp):
GTAGAAAACAGACTGTATA
Found at i:63238 original size:36 final size:36
Alignment explanation
Indices: 63190--63260 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
63180 TTACCTTCTG
* *
63190 TTTCAGATGCAACAGGATCCGAATCTGGTTTTTGGT
1 TTTCAGAGGCAACAGGATCCGAATCTGGTTCTTGGT
* *
63226 TTTCAGAGGCAACAGGATCTGAATTTGGTTCTTGG
1 TTTCAGAGGCAACAGGATCCGAATCTGGTTCTTGG
63261 CGAATGCTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (36 bp):
TTTCAGAGGCAACAGGATCCGAATCTGGTTCTTGGT
Done.