Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008856.1 Hibiscus syriacus cultivar Beakdansim tig00112075_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: 559779
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3806 original size:98 final size:98
Alignment explanation
Indices: 3637--3841 Score: 394
Period size: 98 Copynumber: 2.1 Consensus size: 98
3627 TGCGTCGGGG
3637 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
1 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
3702 TTATGATGATGGAAGATTATTGAATGCTGCTTA
66 TTATGATGATGGAAGATTATTGAATGCTGCTTA
3735 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
1 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
*
3800 TTATGATGATGGAAGATTATTGAATGCTGTTTA
66 TTATGATGATGGAAGATTATTGAATGCTGCTTA
3833 CTA-TTTTTT
1 CTACTTTTTT
3842 GTTCTTATAG
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
97 6 0.06
98 100 0.94
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.46
Consensus pattern (98 bp):
CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
TTATGATGATGGAAGATTATTGAATGCTGCTTA
Found at i:5206 original size:2 final size:2
Alignment explanation
Indices: 5199--5238 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
5189 GCTAATTAAC
* *
5199 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5239 TCAACAGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5444 original size:2 final size:2
Alignment explanation
Indices: 5439--5474 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
5429 TTTTTTACAT
5439 TA TA TA TA TGA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
5475 ATAATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5521 original size:20 final size:20
Alignment explanation
Indices: 5496--5537 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
5486 AATATAAAAT
* *
5496 ATATAGTTTTTGGAGATATA
1 ATATAGTTTTTGAAAATATA
5516 ATATAGTTTTTGAAAATATA
1 ATATAGTTTTTGAAAATATA
5536 AT
1 AT
5538 TTTGAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (20 bp):
ATATAGTTTTTGAAAATATA
Found at i:5665 original size:36 final size:38
Alignment explanation
Indices: 5511--5671 Score: 177
Period size: 38 Copynumber: 4.3 Consensus size: 38
5501 GTTTTTGGAG
* **
5511 ATATAATATAGTTTTTGAAAATAT-AATTTTGAAAACAT
1 ATATAATATAGTTTTT-AAAAAATGGTTTTTGAAAACAT
* * *
5549 ATATTATATAGTTTTTTTAAAAACGG-TTTTGAAAACAT
1 ATATAATATAG-TTTTTAAAAAATGGTTTTTGAAAACAT
* *
5587 ATATAATATAGTTTTTGAAAAATGTTATTTTGAAAACAT
1 ATATAATATAGTTTTTAAAAAATGGT-TTTTGAAAACAT
* *
5626 ATAT-ATATAG-TTTAAAAAAATGGTTTTTGAAAACGT
1 ATATAATATAGTTTTTAAAAAATGGTTTTTGAAAACAT
5662 ATATAATATA
1 ATATAATATA
5672 TATAATCTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
36 15 0.14
37 27 0.26
38 42 0.40
39 21 0.20
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (38 bp):
ATATAATATAGTTTTTAAAAAATGGTTTTTGAAAACAT
Found at i:5758 original size:14 final size:12
Alignment explanation
Indices: 5735--5769 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
5725 AATACATATA
5735 TTTTATTTTCTAT
1 TTTTATTTTCT-T
5748 TTTTATCTTTCTT
1 TTTTAT-TTTCTT
5761 TTTTATTTT
1 TTTTATTTT
5770 ATTATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 13 0.62
14 5 0.24
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTATTTTCTT
Found at i:13349 original size:23 final size:23
Alignment explanation
Indices: 13300--13350 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
13290 TACCATTTCG
* * * *
13300 GTGCATTTCTACGTGGCACTACG
1 GTGCAATTCTACATGGAACTACA
*
13323 GTGCAATTCTACATGGAACTTCA
1 GTGCAATTCTACATGGAACTACA
13346 GTGCA
1 GTGCA
13351 TTTATAGGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
GTGCAATTCTACATGGAACTACA
Found at i:20857 original size:22 final size:22
Alignment explanation
Indices: 20819--20860 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20809 GAACATGTGA
*
20819 CATATGAATATGAATATGAAAT
1 CATATGAAAATGAATATGAAAT
20841 CATATGAAAAGTG-ATATGAA
1 CATATGAAAA-TGAATATGAA
20861 CTACGTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.29
Consensus pattern (22 bp):
CATATGAAAATGAATATGAAAT
Found at i:25510 original size:23 final size:23
Alignment explanation
Indices: 25484--25542 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
25474 TAGCACTTTT
25484 GTGCATTTCTACGTGGCACTACG
1 GTGCATTTCTACGTGGCACTACG
* *
25507 GTGCAATTCTACGTGGCACTTCG
1 GTGCATTTCTACGTGGCACTACG
*
25530 GTGCATTTATACG
1 GTGCATTTCTACG
25543 AGTTGTGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (23 bp):
GTGCATTTCTACGTGGCACTACG
Found at i:35446 original size:22 final size:23
Alignment explanation
Indices: 35421--35479 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 23
35411 TTTCAAAAAT
* *
35421 ATATAATATATAGTTTTTG-GAG
1 ATATAATATATAGTTTTTGAAAC
35443 ATAT-A-ATATAGTTTTTGAAAAC
1 ATATAATATATAGTTTTTG-AAAC
35465 ATATAATATATAGTT
1 ATATAATATATAGTT
35480 AAAAAACGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
22 9 0.29
23 1 0.03
24 8 0.26
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (23 bp):
ATATAATATATAGTTTTTGAAAC
Found at i:35536 original size:24 final size:23
Alignment explanation
Indices: 35508--35560 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
35498 ATATACATAA
35508 TATATATAATCTTTGAAAATATAT
1 TATATATAATCTTTG-AAATATAT
** *
35532 TATAT-TGTTTTTTGAAATATAT
1 TATATATAATCTTTGAAATATAT
35554 TATATAT
1 TATATAT
35561 TTATATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.52
23 7 0.28
24 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (23 bp):
TATATATAATCTTTGAAATATAT
Found at i:35589 original size:37 final size:36
Alignment explanation
Indices: 35548--35642 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 36
35538 GTTTTTTGAA
* * *
35548 ATATATTATATATTTATATAATATAGTTTTTGAAAAC
1 ATATATTATATATTTATAAAAAAT-GGTTTTGAAAAC
* * *
35585 ATATAATAAATAGTTA-AAAAAATGGTTTTGAAAAC
1 ATATATTATATATTTATAAAAAATGGTTTTGAAAAC
* *
35620 ATATATAATATAGTTTATGAAAA
1 ATATATTATATA-TTTATAAAAA
35643 TGAAAACATG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
35 20 0.44
36 8 0.18
37 17 0.38
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.40
Consensus pattern (36 bp):
ATATATTATATATTTATAAAAAATGGTTTTGAAAAC
Found at i:35733 original size:22 final size:21
Alignment explanation
Indices: 35702--35756 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
35692 TTGAAAACGT
*
35702 ATATAATATATAGTCTTCGAAA
1 ATATATTATATAGTCTTCG-AA
* * *
35724 ATATATTATATTGTTTTTGAA
1 ATATATTATATAGTCTTCGAA
35745 ATATATTATATA
1 ATATATTATATA
35757 TTATATAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (21 bp):
ATATATTATATAGTCTTCGAA
Found at i:35794 original size:6 final size:6
Alignment explanation
Indices: 35779--35812 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
35769 AATACATATA
*
35779 TTTTAT TTTTCAT TTTTAT CTTTAT TTTTAT TTT
1 TTTTAT TTTT-AT TTTTAT TTTTAT TTTTAT TTT
35813 ATTATTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:45058 original size:31 final size:32
Alignment explanation
Indices: 45008--45079 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
44998 GTTAGTTTTG
* *
45008 ATTTTATTCCATTATTTTTTATGATTACTTAT
1 ATTTTATTCCATTATTTTTTATAATTAATTAT
*
45040 ATTTTATTTCATTA-TTTTTATAATTAATTAT
1 ATTTTATTCCATTATTTTTTATAATTAATTAT
*
45071 ACTTTATTC
1 ATTTTATTC
45080 TTTTGAGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (32 bp):
ATTTTATTCCATTATTTTTTATAATTAATTAT
Found at i:47115 original size:17 final size:17
Alignment explanation
Indices: 47093--47127 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47083 TTTTAAACCA
47093 CAAAATAACCGAAAGGC
1 CAAAATAACCGAAAGGC
*
47110 CAAAATAACCTAAAGGC
1 CAAAATAACCGAAAGGC
47127 C
1 C
47128 CATCTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.26, G:0.14, T:0.09
Consensus pattern (17 bp):
CAAAATAACCGAAAGGC
Found at i:63112 original size:35 final size:36
Alignment explanation
Indices: 63057--63162 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 36
63047 ATTAATCTTC
*
63057 AATAAG-AAAATACCCAAATTTCTTATGAAACCTTT
1 AATAAGAAAAATACCCAAATTTCTTATGAAACCTTA
63092 AATAAGAAAAATACCC-AATTT-TT-TG-AACCTTA
1 AATAAGAAAAATACCCAAATTTCTTATGAAACCTTA
63124 AATAAGAAAAAATACCCAAATTTCTTATGAAACC-TA
1 AATAAG-AAAAATACCCAAATTTCTTATGAAACCTTA
63160 AAT
1 AAT
63163 TGGTAATTAA
Statistics
Matches: 64, Mismatches: 1, Indels: 11
0.84 0.01 0.14
Matches are distributed among these distances:
32 12 0.19
33 12 0.19
34 7 0.11
35 13 0.20
36 16 0.25
37 4 0.06
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (36 bp):
AATAAGAAAAATACCCAAATTTCTTATGAAACCTTA
Found at i:63878 original size:18 final size:18
Alignment explanation
Indices: 63855--63889 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63845 AAATATGAGT
63855 TGGACTAATTATTTAACA
1 TGGACTAATTATTTAACA
63873 TGGACTAATTATTTAAC
1 TGGACTAATTATTTAAC
63890 CAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
TGGACTAATTATTTAACA
Found at i:65757 original size:24 final size:23
Alignment explanation
Indices: 65720--65771 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
65710 ATTTATCTCT
* *
65720 TTTATTTTTATTTTTTATTAAAAA
1 TTTATTTTCATTTTTT-CTAAAAA
*
65744 TTTATTTTCGTTTTTTCTAAAAA
1 TTTATTTTCATTTTTTCTAAAAA
65767 TTTAT
1 TTTAT
65772 AAATGTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTCATTTTTTCTAAAAA
Found at i:67441 original size:17 final size:17
Alignment explanation
Indices: 67419--67462 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
67409 AGGAGTGATC
67419 TAGTAGAACATAACATA
1 TAGTAGAACATAACATA
67436 TAGTAGAACATAACATA
1 TAGTAGAACATAACATA
67453 TAGTAGAACA
1 TAGTAGAACA
67463 GTTAGCAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (17 bp):
TAGTAGAACATAACATA
Found at i:75216 original size:21 final size:21
Alignment explanation
Indices: 75192--75244 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
75182 AATGCTAAAA
* *
75192 AATGAGAAGGATATGGGAAAT
1 AATGAGAAAGAGATGGGAAAT
75213 AATGAGAAAGAGATGGGAAAT
1 AATGAGAAAGAGATGGGAAAT
*
75234 GATGAGAAAGA
1 AATGAGAAAGA
75245 AGTTAAAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.34, T:0.15
Consensus pattern (21 bp):
AATGAGAAAGAGATGGGAAAT
Found at i:85703 original size:17 final size:18
Alignment explanation
Indices: 85681--85719 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
85671 ACACCCTATA
85681 GGTTTGACCCCTTCGG-T
1 GGTTTGACCCCTTCGGCT
85698 GGTTTGACCCCTTCGGCT
1 GGTTTGACCCCTTCGGCT
85716 GGTT
1 GGTT
85720 CAACCAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.05, C:0.28, G:0.31, T:0.36
Consensus pattern (18 bp):
GGTTTGACCCCTTCGGCT
Found at i:86172 original size:18 final size:18
Alignment explanation
Indices: 86145--86184 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
86135 ACACCCTATA
*
86145 GGTTTGACCCCTTCGGCT
1 GGTTTCACCCCTTCGGCT
86163 GGTTTCACCCCTTCGGCT
1 GGTTTCACCCCTTCGGCT
86181 GGTT
1 GGTT
86185 CAACCAAAGT
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:0.05, C:0.33, G:0.28, T:0.35
Consensus pattern (18 bp):
GGTTTCACCCCTTCGGCT
Found at i:86288 original size:465 final size:465
Alignment explanation
Indices: 85417--86346 Score: 1727
Period size: 465 Copynumber: 2.0 Consensus size: 465
85407 GACTAAACCT
*
85417 TCTGGTTGTGTTATATACACATCCTCTTCAAGTTTTCCATTAAAGAAAGCGGTTTTGACGTCTAT
1 TCTGGTTGTGTCATATACACATCCTCTTCAAGTTTTCCATTAAAGAAAGCGGTTTTGACGTCTAT
85482 TTTCCAGATTTCATAATCATGGAATGCAACTATTGCGAGCAAGATCCGGATGGACTTAAACATAG
66 TTTCCAGATTTCATAATCATGGAATGCAACTATTGCGAGCAAGATCCGGATGGACTTAAACATAG
*
85547 CTACAGGGGAGAATGTTTCATCATATTCTGCACCATGAACTTGTCAAAAACCTTTAGCGACTAAT
131 CTACAGGGGAGAATGTTTCATCATAGTCTGCACCATGAACTTGTCAAAAACCTTTAGCGACTAAT
85612 CACCCCTTGTATGTTTGTACATTACCATCCATGTCGGGTTTCTTCTTGAAAACCCATTTACACCC
196 CACCCCTTGTATGTTTGTACATTACCATCCATGTCGGGTTTCTTCTTGAAAACCCATTTACACCC
*
85677 TATAGGTTTGACCCCTTCGGTGGTTTGACCCCTTCGGCTGGTTCAACCAAAGTCCATACTTGGTT
261 TATAGGTTTGACCCCTTCGGTGGTTTCACCCCTTCGGCTGGTTCAACCAAAGTCCATACTTGGTT
*
85742 TACTAACATGGAATCCATCTCAGATCTCATGGTTTCAAGCAATTTCTCAGAGTTTGGGATAGGCA
326 TACTAACATGGAATCCATCTCAGATCTCATGGTTTCAAGCAATTTCTCAGAGTCTGGGATAGGCA
85807 CTGCCTCTTGATAAGTCCTGAGCTTATCTTGATCCATAAGAAGAACATATACATGTGTCGTAACG
391 CTGCCTCTTGATAAGTCCTGAGCTTATCTTGATCCATAAGAAGAACATATACATGTGTCGTAACG
85872 AGAAATCCAA
456 AGAAATCCAA
*
85882 TCTGGTTGTGTCATATACACATCCTCTTTAAGTTTTCCATTAAAGAAAGCGGTTTTGACGTCTAT
1 TCTGGTTGTGTCATATACACATCCTCTTCAAGTTTTCCATTAAAGAAAGCGGTTTTGACGTCTAT
* * *
85947 TTTCCATATTTCATAATCATGGAATGCAGCTATTGCGAGCAAGATCTGGATGGACTTAAACATAG
66 TTTCCAGATTTCATAATCATGGAATGCAACTATTGCGAGCAAGATCCGGATGGACTTAAACATAG
*
86012 CTACAGGGGAGAATGTTTCATCATAGTCTGCACCATGAACTTGTCGAAAACCTTTAGCGACTAAT
131 CTACAGGGGAGAATGTTTCATCATAGTCTGCACCATGAACTTGTCAAAAACCTTTAGCGACTAAT
* *
86077 CA-CCCTTGTATGTTTGTACATTAGCATCCATGTCGGTTTTCTTCTTGAAAACCCATTTACACCC
196 CACCCCTTGTATGTTTGTACATTACCATCCATGTCGGGTTTCTTCTTGAAAACCCATTTACACCC
86141 TATAGGTTTGACCCCTTCGGCTGGTTTCACCCCTTCGGCTGGTTCAACCAAAGTCCATACTTGGT
261 TATAGGTTTGACCCCTTCGG-TGGTTTCACCCCTTCGGCTGGTTCAACCAAAGTCCATACTTGGT
*
86206 TTACTAACATGGAATCCATCTCAGATCTCATGGTTTCAAGCCATTTCTCAGAGTCTGGGATAGGC
325 TTACTAACATGGAATCCATCTCAGATCTCATGGTTTCAAGCAATTTCTCAGAGTCTGGGATAGGC
*
86271 ACTGCCTCTTGATAAGTCCTGAGCTTATCTTGATTCATAAGAAGAACATATACATGTGTCGTAAC
390 ACTGCCTCTTGATAAGTCCTGAGCTTATCTTGATCCATAAGAAGAACATATACATGTGTCGTAAC
86336 GAGAAATCCAA
455 GAGAAATCCAA
86347 ATCTCTCATG
Statistics
Matches: 451, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
464 80 0.18
465 371 0.82
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (465 bp):
TCTGGTTGTGTCATATACACATCCTCTTCAAGTTTTCCATTAAAGAAAGCGGTTTTGACGTCTAT
TTTCCAGATTTCATAATCATGGAATGCAACTATTGCGAGCAAGATCCGGATGGACTTAAACATAG
CTACAGGGGAGAATGTTTCATCATAGTCTGCACCATGAACTTGTCAAAAACCTTTAGCGACTAAT
CACCCCTTGTATGTTTGTACATTACCATCCATGTCGGGTTTCTTCTTGAAAACCCATTTACACCC
TATAGGTTTGACCCCTTCGGTGGTTTCACCCCTTCGGCTGGTTCAACCAAAGTCCATACTTGGTT
TACTAACATGGAATCCATCTCAGATCTCATGGTTTCAAGCAATTTCTCAGAGTCTGGGATAGGCA
CTGCCTCTTGATAAGTCCTGAGCTTATCTTGATCCATAAGAAGAACATATACATGTGTCGTAACG
AGAAATCCAA
Found at i:93167 original size:38 final size:38
Alignment explanation
Indices: 93116--93428 Score: 378
Period size: 38 Copynumber: 8.1 Consensus size: 38
93106 AGTCAATCTT
* ** * *
93116 TCTTTATTATTCTTGACTTCCTTATTAAGAGAAGTTAA
1 TCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
*
93154 TCTTTGTTATTCTTGACTTCCTCGTGAAGTGAAGTCAA
1 TCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
* * *
93192 TCTTTGTTTTTCTTGATTTCCTCGTGAAAAGAAGTCAA
1 TCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
*
93230 TCTTT-TTCATTCTTGACTTCCTCGTAAAGAGAAGTCAA
1 TCTTTGTT-ATTCTTGACTTCCTCGTGAAGAGAAGTCAA
* *
93268 -CGTTTATTATTTTTGACTTCCTCGTGAAGAGAAGTCAA
1 TC-TTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
* *
93306 TCCTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAA
1 TCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
* * *
93344 TCTTTGTTATTCTTGACTTCCTCATTAAGAGGAGTCAA
1 TCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
* * *
93382 TCTTTCAATGTCATTCTTGACTTTCTCGTGAAGAGCAGTCAA
1 TC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
93424 TCTTT
1 TCTTT
93429 AAGTGTTGTC
Statistics
Matches: 239, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
37 3 0.01
38 198 0.83
39 5 0.02
41 2 0.01
42 31 0.13
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (38 bp):
TCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA
Found at i:93459 original size:45 final size:45
Alignment explanation
Indices: 93353--93518 Score: 191
Period size: 45 Copynumber: 3.8 Consensus size: 45
93343 ATCTTTGTTA
* * *
93353 TTCTTGACTTCCTCATTAAGAGGAGTCAATCTTTCAA----TGTCA
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTT-AAGTGTTGTCC
* *
93395 TTCTTGACTTTCTCGTGAAGAGCAGTCAATCTTTAAGTGTTGTCC
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTAAGTGTTGTCC
* * *
93440 TTCTTGACTTTCTCATGAAGAGTAGTCAATATTTTAGTGTTGTCC
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTAAGTGTTGTCC
93485 TTCTTGACTTTCT--TGCAAAGAGGAGTCAATCTTT
1 TTCTTGACTTTCTCATG--AAGAGGAGTCAATCTTT
93519 TAGATTTGGT
Statistics
Matches: 107, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.02
42 30 0.28
43 2 0.02
45 73 0.68
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (45 bp):
TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTAAGTGTTGTCC
Found at i:93907 original size:135 final size:135
Alignment explanation
Indices: 93514--94509 Score: 1136
Period size: 135 Copynumber: 7.4 Consensus size: 135
93504 GAGGAGTCAA
* * *
93514 TCTTTTAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATTAAGTTTGATTCAATCTTCCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
* ** *
93579 GA-ACGGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGAAGAGCAAAT
66 GAGA-AGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGAT
*
93643 TATTAT
130 TCTTAT
* * *
93649 TCTTTCAGATTTGGTCTTTCTGAAGATCAGCGAAGCAAATCAAGTTCGATT-AA-ATTCCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
* * * * * * * *
93712 GAGCAGGGAAGTGGATCAAATTTTTTCTCGACTCTGATTTCCCATAAATAGTAGCAGAGCAGATT
66 GAGAAGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGATT
*
93777 CTTCT
131 CTTAT
* * * *
93782 TCTTTCCGATTTGGTCTTCCTAAAGAGCAGCGAAGCAAATCAAATTCGATTTAATCTTCCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
*
93847 GAGAAGCGAAGTAGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGATT
66 GAGAAGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGATT
93912 CTTAT
131 CTTAT
* * * *
93917 TCTTTCATATTTGGTCTTCCTGAAGAGCAACAAAGCAAATCAAGTTTGATTCAATCTTCCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
* ** * * * * * ** * *
93982 GAGCAGTTAAGTGGAACAAAGTTTTTCTCAACTCGGATCTCCCATAAAGTTTAGCGAAGTAGATT
66 GAGAAGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGATT
*
94047 CTTCT
131 CTTAT
* * * *
94052 TCTTTCAGATTCGGTCTTCCTGAAGAGCAGGGAAGCAAATCAAGTTTGATTCAATATTCCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
* * * * *
94117 GAGAAGTGACGTGGATCAAAGTTTTTCTCGAGTATGATCTCCCATAAATAGTAGCGGAGCAGATT
66 GAGAAGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGATT
94182 CTTAT
131 CTTAT
* *
94187 TCTTTCAGATTTGGTCTTCCTGAAGAGCAACGAAGCAAATCAAGTACGATTCAATCCTT--CTGA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAAT-CTTCCCTGA
* * * * * * *
94250 AGAGCAGC-AGAGTGGATCAAAATTTTTATAGAGTCTGATCTCCCCCAAAGAGTAACAGAGCAGA
65 AGAGAAGCGA-AGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGA
*
94314 TTCTTCT
129 TTCTTAT
* * * * * * *
94321 TCTTTCAGATTTGGTCTTCCTGAATATCAGCGAATCAAATCAAATTCAATTTAATCTTCCCTAAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
* ** * * ** *
94386 GAAAAAAGAAGTGAAGC-AAGGATTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCA-ATT
66 GAGAAGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGATT
*
94449 ATTATT
131 CTTA-T
* * * *
94455 TTTTTCAGATTTGGTATTCCTG-A-AG-A--GAAGCAAATCAACTTCGATTCAATTTTCC
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCC
94510 TTAAAGAACA
Statistics
Matches: 723, Mismatches: 129, Indels: 24
0.83 0.15 0.03
Matches are distributed among these distances:
129 24 0.03
131 1 0.00
132 1 0.00
133 122 0.17
134 166 0.23
135 406 0.56
136 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (135 bp):
TCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
GAGAAGCGAAGTGGATCAAAGTTTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAGATT
CTTAT
Found at i:103853 original size:18 final size:18
Alignment explanation
Indices: 103830--103865 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
103820 TTTTCAGATG
*
103830 CCCATGCTGGACCACTGC
1 CCCATGCCGGACCACTGC
103848 CCCATGCCGGACCACTGC
1 CCCATGCCGGACCACTGC
103866 ACAATCCTCA
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:0.17, C:0.47, G:0.22, T:0.14
Consensus pattern (18 bp):
CCCATGCCGGACCACTGC
Found at i:106994 original size:21 final size:21
Alignment explanation
Indices: 106928--106994 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
106918 AGGGTTTAGA
* *
106928 TTTAAGGTTTATAGTTTATAG
1 TTTAAGGTTTATAATTTAAAG
* * * **
106949 GTTATGGGGTTATAATTTAGGG
1 TTTA-AGGTTTATAATTTAAAG
106971 TTTAAGGTTTATAATTTAAAG
1 TTTAAGGTTTATAATTTAAAG
106992 TTT
1 TTT
106995 TAAGTTAGGG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTATAATTTAAAG
Found at i:109341 original size:15 final size:14
Alignment explanation
Indices: 109323--109369 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
109313 ATCATATGAA
*
109323 ATGTGATAGAGAGCT
1 ATGTGATA-AGAACT
109338 ATGTGA-AAGAACT
1 ATGTGATAAGAACT
*
109351 ATGTGATATGAA-T
1 ATGTGATAAGAACT
109364 ATGTGA
1 ATGTGA
109370 ATGTGTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 18 0.62
14 5 0.17
15 6 0.21
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (14 bp):
ATGTGATAAGAACT
Found at i:109507 original size:21 final size:21
Alignment explanation
Indices: 109481--109521 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
109471 ATATGTGTTA
109481 TATGTGGTCCTTCGAGACATC
1 TATGTGGTCCTTCGAGACATC
*
109502 TATGTGGTCCTTCGGGACAT
1 TATGTGGTCCTTCGAGACAT
109522 ATTCTACGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34
Consensus pattern (21 bp):
TATGTGGTCCTTCGAGACATC
Found at i:110911 original size:2 final size:2
Alignment explanation
Indices: 110906--110941 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
110896 ATATACACAC
110906 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110942 AACGATATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113162 original size:55 final size:55
Alignment explanation
Indices: 112973--113775 Score: 932
Period size: 55 Copynumber: 14.8 Consensus size: 55
112963 AAAACGGATT
* * * * ** * *
112973 TGCTCCCTACTGCTTCAGGGAGTATAAAACTTAAACAATCTTCATAAAATAG-GT-
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGTGTC
* * * * *
113027 TCGTTCCCTATTCCTTCAGAGATTATAGGACT----CAATCTTAAACAAACGTGTC
1 T-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * * *
113079 CGCTCCCTATTCCTTCAGAGAGTATAGGACTTGAACAAATCTTCAACAAACGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAAC-AATCTTCAACAATCGTGTC
* * * *
113135 TGCT-CCTATTCCTTCATAGAGTATAGGACTCG----ATCTTCAACAAACATGT-
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * * *
113184 TCGCTCCCTATTCCTTCAGAGAGTATAGGACTTGAACAACCTT-AACAAAT-GTGTT
1 T-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-AATCGTGTC
* * * *
113239 TGCTCCTTATTCCTTCAGATATTATAAGACTCGAACAATCTTTAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * * *
113294 CGTTCCTTATTCCTTTAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
113349 TGCTCCCTATTTCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
** * * *
113404 TGCTCTGTAATCCTTCAGAGAGTATAAGACTCGAAAAATCTTCAACAATCGTGTT
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* * * *
113459 TGCTCCCTAATCCTTTAGAGAGTATAAGACTTGAACAATCTTCAACAATCGTGTA
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
113514 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGCC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
** * *
113569 TGCTCTTTATTCTTTCAGAGAGTATAAGACTCCAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
** * * *
113624 TGCTCCCTATTTATTCAGAAAGTATAAGACACGAACAATCTTGAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
113679 TACTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGAC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
113734 TGCTCCCTATTCCTTCAGATAATATAAGACTCGAACAATCTT
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTT
113776 GATGCTTCAA
Statistics
Matches: 645, Mismatches: 86, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.00
50 23 0.04
51 64 0.10
54 45 0.07
55 491 0.76
56 21 0.03
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (55 bp):
TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
Found at i:114864 original size:15 final size:14
Alignment explanation
Indices: 114837--114887 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
114827 TTCGATTATC
114837 TTTTT-TTTT-ATT
1 TTTTTCTTTTCATT
114849 TTTTCTCTTTTCATT
1 TTTT-TCTTTTCATT
*
114864 TTTTT-TTTTCCTTT
1 TTTTTCTTTT-CATT
114878 TTTTTCTTTT
1 TTTTTCTTTT
114888 TCCTCTTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 4 0.12
13 5 0.15
14 13 0.39
15 11 0.33
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTCATT
Found at i:114870 original size:20 final size:20
Alignment explanation
Indices: 114841--114878 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
114831 ATTATCTTTT
114841 TTTTTATTTTTTCTCTTTTCA
1 TTTTTATTTTTTC-CTTTTCA
114862 TTTTT-TTTTTTCCTTTT
1 TTTTTATTTTTTCCTTTT
114879 TTTTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTATTTTTTCCTTTTCA
Found at i:114880 original size:21 final size:22
Alignment explanation
Indices: 114840--114880 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
114830 GATTATCTTT
*
114840 TTTTTTATTTTTTCTCTTTTCA
1 TTTTTTATTTTTCCTCTTTTCA
*
114862 TTTTTT-TTTTTCCTTTTTT
1 TTTTTTATTTTTCCTCTTTT
114881 TTCTTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTATTTTTCCTCTTTTCA
Found at i:114887 original size:19 final size:19
Alignment explanation
Indices: 114835--114888 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
114825 CATTCGATTA
*
114835 TCTTTTTTTTTATTTTTTC
1 TCTTTTTTTTTTTTTTTTC
*
114854 TCTTTTCATTTTTTTTTTTC
1 TCTTTT-TTTTTTTTTTTTC
114874 -CTTTTTTTTCTTTTT
1 TCTTTTTTTT-TTTTT
114889 CCTCTTCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 16 0.53
20 11 0.37
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (19 bp):
TCTTTTTTTTTTTTTTTTC
Found at i:114890 original size:16 final size:15
Alignment explanation
Indices: 114862--114891 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
114852 TCTCTTTTCA
114862 TTTTTTTTTTTCCTT
1 TTTTTTTTTTTCCTT
114877 TTTTTTCTTTTTCCT
1 TTTTTT-TTTTTCCT
114892 CTTCAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTTCCTT
Found at i:122646 original size:2 final size:2
Alignment explanation
Indices: 122641--122691 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
122631 ATAGCTATCT
122641 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122682 TA TA T- TA TA T
1 TA TA TA TA TA T
122692 TACATATGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:127190 original size:15 final size:15
Alignment explanation
Indices: 127170--127208 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
127160 CATAACCTGG
127170 AATATCATCTCTCCC
1 AATATCATCTCTCCC
127185 AATATCATCTCTCCC
1 AATATCATCTCTCCC
*
127200 AATACCATC
1 AATATCATC
127209 CACTTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATCATCTCTCCC
Found at i:129663 original size:263 final size:263
Alignment explanation
Indices: 129193--129778 Score: 809
Period size: 263 Copynumber: 2.2 Consensus size: 263
129183 TATAATATGG
* * * * * *
129193 AATCTTAATATTTTGAATAATAAAATGTGTTACGCCTAAAATGTTA-TAAGAGTTTAAGGTGATG
1 AATCTTACTATTTTTAATAATAAAATGGGTTGCGCCTAAAATATTATTAA-AGTTTAAGCTGATG
* * *
129257 AAGACTTATAATTCCCCACGATAAGAAAATAAGTTAAGAGCTTAAAATGTATAAATATGTATAGT
65 AAGACTTAGAATTCCCCACGATAAGAAAATAAGTTAAAAGCTTAAAATGTATAAATATGTATAAT
*
129322 AAATACAGTTGCACCCAATAATATCATTGTTCAATAACAAATAGGTTGTGGTTTGTAATGTTAAT
130 AAATACAGTTGCACCCAATAATATCATTGTTCAATAACAAATAGGTTGTGATTTGTAATGTTAAT
* * * * ***
129387 ATTTTTATTAATAAAATAGATTACACTCAAGAATGTTATGGTTCATTAAGAAAGTGTGTTGCAAT
195 ATATTTATTAATAAAATAGATTACACCCAAGAATGTAATGGTTCACTAAGAAAGCAAGTTGCAAT
129452 ATAA
260 ATAA
* *
129456 AATCTTACTATTTTTAATAATAAAATGGGTTGCGTCTAAAATATTATTAAAGTTTAAGCTGATGG
1 AATCTTACTATTTTTAATAATAAAATGGGTTGCGCCTAAAATATTATTAAAGTTTAAGCTGATGA
* * * * *
129521 AGCCTTAGAGTTTCCCATGATAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATGTATAAT
66 AGACTTAGAATTCCCCACGATAAGAAAATAAGTTAAAAGCTTAAAATG-TATAAATATGTATAAT
* * *
129586 AAATACGGTTGCACCCAATAATATCA-TGTTTCAATAAGAAATAGGTTGTGATTTGTATTGTTAA
130 AAATACAGTTGCACCCAATAATATCATTG-TTCAATAACAAATAGGTTGTGATTTGTAATGTTAA
* *
129650 TATATTT-TTAATAAAATAGGTTACGCCCAAGAATGTAATGGTTCACTAAGAAAGCAAGTTGCAA
194 TATATTTATTAATAAAATAGATTACACCCAAGAATGTAATGGTTCACTAAGAAAGCAAGTTGCAA
**
129714 TATGG
259 TATAA
* * * *
129719 AATATTACTATTTTTAATAATTAAATGGATTGCGCCTAAAATATTATCAAAGTTTAAGCT
1 AATCTTACTATTTTTAATAATAAAATGGGTTGCGCCTAAAATATTATTAAAGTTTAAGCT
129779 ATTATCAAGT
Statistics
Matches: 284, Mismatches: 36, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
263 204 0.72
264 80 0.28
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (263 bp):
AATCTTACTATTTTTAATAATAAAATGGGTTGCGCCTAAAATATTATTAAAGTTTAAGCTGATGA
AGACTTAGAATTCCCCACGATAAGAAAATAAGTTAAAAGCTTAAAATGTATAAATATGTATAATA
AATACAGTTGCACCCAATAATATCATTGTTCAATAACAAATAGGTTGTGATTTGTAATGTTAATA
TATTTATTAATAAAATAGATTACACCCAAGAATGTAATGGTTCACTAAGAAAGCAAGTTGCAATA
TAA
Found at i:129790 original size:17 final size:18
Alignment explanation
Indices: 129760--129796 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
129750 GCGCCTAAAA
129760 TATTATCAAAGTTTAAGC
1 TATTATCAAAGTTTAAGC
129778 TATTATC-AAGTTTAAGC
1 TATTATCAAAGTTTAAGC
129795 TA
1 TA
129797 ATGGAGCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TATTATCAAAGTTTAAGC
Found at i:131963 original size:101 final size:101
Alignment explanation
Indices: 131779--132204 Score: 336
Period size: 101 Copynumber: 4.2 Consensus size: 101
131769 GAAGACACAG
* ** * * *
131779 CCTATAATGTTAGACTTATAAA-CTCGTTTCCTCTTACTCTTTTATAATA-AAATCA-GTTTGAA
1 CCTATAATGTTATACTTATAAACCT-GTTTTGTCATA-TTTTTTATAATATAAA--AGGTTTCAA
* * *
131841 ACATATAATCTTAATGGTTGACAATTTAAAAATGTGCAT-
62 ACATATAATCTTAATGATTGACAATTAAAAAAGGTGCATA
* * *
131880 CTTATAATGTTATACTTATAAACCTGTTTTGTCATGTTTTTGTATAATATGAAAGGTTTCAAACA
1 CCTATAATGTTATACTTATAAACCTGTTTTGTCATATTTTT-TATAATATAAAAGGTTTCAAACA
*
131945 TATAA-CTTAAATGATTGACAATTAAAAAAGGAGC-TA
65 TATAATCTT-AATGATTGACAATTAAAAAAGGTGCATA
* * * * *
131981 CCTATAATGTTAGACTTATCAACCTGTTTTGTCGTATTGTTTCT-TAACA-AAAATGGTTTGAAA
1 CCTATAATGTTATACTTATAAACCTGTTTTGTCATATT-TTT-TATAATATAAAA-GGTTTCAAA
* * **
132044 TAAATAATCTTAATGATTTCCAATTAAAAAAAGGTGCA-A
63 CATATAATCTTAATGATTGACAATT-AAAAAAGGTGCATA
* * ** * *
132083 CCTATAATGGTATACTTATAAACATGTTTT-TTTTACTTTTTCATAATATAAAAGATTTCAAACA
1 CCTATAATGTTATACTTATAAACCTGTTTTGTCATA-TTTTTTATAATATAAAAGGTTTCAAACA
* * * * * * *
132147 TATAA-CGTAAATGGTGGATAAGTAAAAAAGGTG-TTG
65 TATAATC-TTAATGATTGACAATTAAAAAAGGTGCATA
*
132183 CATATAATGTTATACTTATAAA
1 CCTATAATGTTATACTTATAAA
132205 AATGTTTTTC
Statistics
Matches: 259, Mismatches: 50, Indels: 33
0.76 0.15 0.10
Matches are distributed among these distances:
100 43 0.17
101 162 0.63
102 54 0.21
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (101 bp):
CCTATAATGTTATACTTATAAACCTGTTTTGTCATATTTTTTATAATATAAAAGGTTTCAAACAT
ATAATCTTAATGATTGACAATTAAAAAAGGTGCATA
Found at i:132131 original size:202 final size:202
Alignment explanation
Indices: 131834--132201 Score: 461
Period size: 202 Copynumber: 1.8 Consensus size: 202
131824 AATAAAATCA
* * * * * * *
131834 GTTTGAAACATATAATCTTAATGGTTGACAATTTAAAAATGTGCATCTTATAATGTTATACTTAT
1 GTTTGAAACAAATAATCTTAATGATTGACAATTAAAAAAGGTGCAACCTATAATGGTATACTTAT
* * * * * * *
131899 AAACCTGTTTTGTCATGTTTTTGTATAATATGAAAGGTTTCAAACATATAACTTAAATGATTGAC
66 AAACATGTTTTGTCATCTTTTTGCATAATATAAAAGATTTCAAACATATAACGTAAATGATGGAC
* *
131964 AATTAAAAAAGGAGCTACCTATAATGTTAGACTTATCAACCTGTTTTGTCGTATTGTTTCTTAAC
131 AAGTAAAAAAGGAGCTACATATAATGTTAGACTTATCAACCTGTTTTGTCGTATTGTTTCTTAAC
132029 AAAAATG
196 AAAAATG
* **
132036 GTTTGAAATAAATAATCTTAATGATTTCCAATTAAAAAAAGGTGCAACCTATAATGGTATACTTA
1 GTTTGAAACAAATAATCTTAATGATTGACAATT-AAAAAAGGTGCAACCTATAATGGTATACTTA
** *
132101 TAAACATGTTTT-TTTTACTTTTT-CATAATATAAAAGATTTCAAACATATAACGTAAATGGTGG
65 TAAACATGTTTTGTCAT-CTTTTTGCATAATATAAAAGATTTCAAACATATAACGTAAATGATGG
* * * * *
132164 ATAAGTAAAAAAGGTGTTGCATATAATGTTATACTTAT
129 ACAAGTAAAAAAGGAGCTACATATAATGTTAGACTTAT
132202 AAAAATGTTT
Statistics
Matches: 137, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
202 95 0.69
203 42 0.31
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (202 bp):
GTTTGAAACAAATAATCTTAATGATTGACAATTAAAAAAGGTGCAACCTATAATGGTATACTTAT
AAACATGTTTTGTCATCTTTTTGCATAATATAAAAGATTTCAAACATATAACGTAAATGATGGAC
AAGTAAAAAAGGAGCTACATATAATGTTAGACTTATCAACCTGTTTTGTCGTATTGTTTCTTAAC
AAAAATG
Found at i:134023 original size:19 final size:19
Alignment explanation
Indices: 133999--134045 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
133989 TTGATTGTAA
133999 CCATCAGAAGTTTTTCATG
1 CCATCAGAAGTTTTTCATG
134018 CCATCAGAAGTTTTTCATG
1 CCATCAGAAGTTTTTCATG
134037 CCATCAGAA
1 CCATCAGAA
134046 TATGATGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (19 bp):
CCATCAGAAGTTTTTCATG
Found at i:136592 original size:33 final size:33
Alignment explanation
Indices: 136530--136609 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
136520 CTTTGAATGA
* * *
136530 ATTTATCGATAAGTTGTTGGTTGAATGGTCGAG
1 ATTTTTCGATGAGTTGTAGGTTGAATGGTCGAG
* *
136563 ATTTTT-GAATGAGTTGTAGGTTTATTGGTCGAG
1 ATTTTTCG-ATGAGTTGTAGGTTGAATGGTCGAG
136596 ATTTTTCGATGAGT
1 ATTTTTCGATGAGT
136610 CGTTGCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 1 0.03
33 38 0.95
34 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.29, T:0.44
Consensus pattern (33 bp):
ATTTTTCGATGAGTTGTAGGTTGAATGGTCGAG
Found at i:143439 original size:21 final size:20
Alignment explanation
Indices: 143411--143450 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
143401 AATGTTCAGA
143411 ACGAATCTCGTCATGCATTG
1 ACGAATCTCGTCATGCATTG
* *
143431 ACGATATCTGGTCTTGCATT
1 ACGA-ATCTCGTCATGCATT
143451 ACCCCAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
ACGAATCTCGTCATGCATTG
Found at i:144600 original size:20 final size:21
Alignment explanation
Indices: 144575--144614 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
144565 AAGGAAAAGA
*
144575 TGTAAACCTTAAACA-TATAC
1 TGTAAACCCTAAACACTATAC
144595 TGTAAACCCTAAACACTATA
1 TGTAAACCCTAAACACTATA
144615 TGGAATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (21 bp):
TGTAAACCCTAAACACTATAC
Found at i:145228 original size:103 final size:100
Alignment explanation
Indices: 145104--145298 Score: 232
Period size: 103 Copynumber: 1.9 Consensus size: 100
145094 TTCATAATAA
* *
145104 AAAAGGCTGACCAGTTCAAAAAGGCTA-TACATGTATTATTATATATATATAAACATATTTTATC
1 AAAAGGCTGACCAGTTCAAAAAGGC-ACTACATGTATTATTATACATATA-AAAC-TATTTAATC
*
145168 TTACATTTACATAATAGAAAATGTTTCAAACATATAACTT
63 TTAAATTTACATAATA-AAAA-GTTTCAAACATATAACTT
* * * * * * *
145208 AAAAGGTTGACCA-TTTAAAAAGGCACTACTTGTATTGTTATACATCTAAATCTGTTTAATCTTA
1 AAAAGGCTGACCAGTTCAAAAAGGCACTACATGTATTATTATACATATAAAACTATTTAATCTTA
*
145272 AATTTTCATAATAAAAAGTTTCAAACA
66 AATTTACATAATAAAAAGTTTCAAACA
145299 AATAGCGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
99 10 0.13
100 4 0.05
101 21 0.27
102 4 0.05
103 28 0.35
104 12 0.15
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (100 bp):
AAAAGGCTGACCAGTTCAAAAAGGCACTACATGTATTATTATACATATAAAACTATTTAATCTTA
AATTTACATAATAAAAAGTTTCAAACATATAACTT
Found at i:148646 original size:30 final size:32
Alignment explanation
Indices: 148587--148649 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
148577 TTGTTACCAG
* *
148587 TGCTTCACCGTTCCTAACGGAGCAGCAACTCA
1 TGCTTCACCATTCCTAACGGAGCAACAACTCA
*
148619 TGCTTCACCATTCC-CAC-GAGCAACAACTCA
1 TGCTTCACCATTCCTAACGGAGCAACAACTCA
148649 T
1 T
148650 ACACCCTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 13 0.46
31 2 0.07
32 13 0.46
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.22
Consensus pattern (32 bp):
TGCTTCACCATTCCTAACGGAGCAACAACTCA
Found at i:156161 original size:2 final size:2
Alignment explanation
Indices: 156154--156221 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
156144 CGTATACCCA
156154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
156196 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
156222 GTGATTACAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:158524 original size:41 final size:41
Alignment explanation
Indices: 158434--158544 Score: 98
Period size: 41 Copynumber: 2.7 Consensus size: 41
158424 TCACGATTTG
* * * * * *
158434 TAAGTCCTTCGGGCATCAGTAAGTCTTTCGAGCATGATGCT
1 TAAGTCCTTCGGCCATCCGTAAGCCTTTAGAGCAGGATGCA
* * *
158475 TAAATCCTTCTGGTCATCCGTAAGCCTTTAGAGTAGGATG-A
1 TAAGTCCTTC-GGCCATCCGTAAGCCTTTAGAGCAGGATGCA
*
158516 TAAGTCCTTCGGGCCATCCATAAGACCTT
1 TAAGTCCTTC-GGCCATCCGTAAG-CCTT
158545 CGGGTAGGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 29 0.52
42 27 0.48
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (41 bp):
TAAGTCCTTCGGCCATCCGTAAGCCTTTAGAGCAGGATGCA
Found at i:158697 original size:42 final size:41
Alignment explanation
Indices: 158651--158747 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
158641 GATTTGTAAG
* * * *
158651 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGCCTTTAGAGCAGGATG-ATAAA
* * *
158693 TCCTTCGGGTCATCCGTAAGCCTTTAGAGCAGGATGATAAG
1 TCCTTCGGGCCATCAGTAAGCCTTTAGAGCAGGATGATAAA
*
158734 TCCTTCAGGCCATC
1 TCCTTCGGGCCATC
158748 CATAAGACCT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 15 0.33
42 31 0.67
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAGCCTTTAGAGCAGGATGATAAA
Found at i:158912 original size:215 final size:215
Alignment explanation
Indices: 158325--158988 Score: 1093
Period size: 215 Copynumber: 3.1 Consensus size: 215
158315 GTGAAGCAAA
* *
158325 CCATCCATAAAACCTTCAGGTAGGATGTTTTCACAAGAATTTGAAAATGAAAAAATGATG--TT-
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCACAAGAATTTGAAAATGAAAAAATGATGTTTTA
* *
158387 ----G--G-AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCATGATTTGTAAGTCCTTCG
* *
158445 GG-CATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCTGGTCATCCGTAAGCCTTTAGAGT
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAGC
158509 AGGATGATAAGTCCTTCGGG
196 AGGATGATAAGTCCTTCGGG
* *
158529 CCATCCATAAGACCTTCGGGTAGGATGTTTTCA-AATGAATTTAAAAATG-AAAAATGATTTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCACAA-GAATTTGAAAATGAAAAAATGATGTTTT
* *
158592 AAGAAGATGAAATGTTTGAAAACAAAGAATGTGATTTTCAAAATTTCATGATTTGTAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCATGATTTGTAAGTCCTTC
158657 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAG
*
158722 CAGGATGATAAGTCCTTCAGG
195 CAGGATGATAAGTCCTTCGGG
158743 CCATCCATAAGACCTTCGGGTAGGATGTTTTCACAAGAATTTGAAAATGAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCACAAGAATTTGAAAATGAAAAAATGATGTTTTA
*
158808 AGAAGATGAAATTTTTGAAAACAAAGAATGCGAGTTTCAAAATTTCATGATTTGTAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCATGATTTGTAAGTCCTTCG
* *
158873 GGCCATTAGTAAGTCTTTCGAGCATGGTGCTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAGC
158938 AGGATGATAAGTCCTTCGGG
196 AGGATGATAAGTCCTTCGGG
*
158958 CCATCCATAAGACCTTCGGGCAGGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTT
158989 TCACCAGGAT
Statistics
Matches: 426, Mismatches: 20, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
203 11 0.03
204 43 0.10
205 2 0.00
210 1 0.00
212 1 0.00
213 54 0.13
214 124 0.29
215 190 0.45
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (215 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTTTCACAAGAATTTGAAAATGAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCATGATTTGTAAGTCCTTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAGC
AGGATGATAAGTCCTTCGGG
Found at i:158963 original size:41 final size:42
Alignment explanation
Indices: 158862--158973 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
158852 TCATGATTTG
** * * *
158862 TAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGGTGCT
1 TAAGTCCTTCGGGCCATCCGTAAGCCTTTAGAGCATGGTGCA
* *
158904 TAAATCCTTCGGGTCATCCGTAAGCCTTTAGAGCA-GGATG-A
1 TAAGTCCTTCGGGCCATCCGTAAGCCTTTAGAGCATGG-TGCA
*
158945 TAAGTCCTTCGGGCCATCCATAAGACCTT
1 TAAGTCCTTCGGGCCATCCGTAAG-CCTT
158974 CGGGCAGGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
41 23 0.40
42 35 0.60
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCCGTAAGCCTTTAGAGCATGGTGCA
Found at i:159722 original size:30 final size:32
Alignment explanation
Indices: 159660--159724 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
159650 TTGTTACCCG
*
159660 TGCTTCACCGTTCCCAACGGAGCAGCAACTCA
1 TGCTTCACCGTTCCCAACGGAGCAACAACTCA
*
159692 TGCTTCACCGTTCCC-AC-GAGCAACAGCTCA
1 TGCTTCACCGTTCCCAACGGAGCAACAACTCA
159722 TGC
1 TGC
159725 ACCCTGCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 14 0.45
31 2 0.06
32 15 0.48
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.20
Consensus pattern (32 bp):
TGCTTCACCGTTCCCAACGGAGCAACAACTCA
Found at i:159727 original size:27 final size:30
Alignment explanation
Indices: 159664--159727 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
159654 TACCCGTGCT
*
159664 TCACCGTTCCCAACGGAGCAGCAACTCATG
1 TCACCGTTCCCAACGGAGCAACAACTCATG
*
159694 CTTCACCGTTCCC-AC-GAGCAACAGCTCATG
1 --TCACCGTTCCCAACGGAGCAACAACTCATG
159724 -CACC
1 TCACC
159728 CTGCTCCACG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 4 0.13
30 13 0.43
31 2 0.07
32 11 0.37
ACGTcount: A:0.25, C:0.41, G:0.17, T:0.17
Consensus pattern (30 bp):
TCACCGTTCCCAACGGAGCAACAACTCATG
Found at i:166710 original size:29 final size:30
Alignment explanation
Indices: 166668--166757 Score: 76
Period size: 30 Copynumber: 3.0 Consensus size: 30
166658 TAAATTTTGG
* *
166668 TTAGTGACCAAAAT-GCAATTTTTAAAAGT
1 TTAGTGACCAAAATAGAAATTTATAAAAGT
* * *
166697 TTAGTGGCTAAAATATAAATTTATAAAAGT
1 TTAGTGACCAAAATAGAAATTTATAAAAGT
* * * *
166727 TTAGGGACCTGAAATATAATTTTA-AAAAGT
1 TTAGTGACC-AAAATAGAAATTTATAAAAGT
166757 T
1 T
166758 ATATATTTGG
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 12 0.24
30 25 0.51
31 12 0.24
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (30 bp):
TTAGTGACCAAAATAGAAATTTATAAAAGT
Found at i:166745 original size:31 final size:30
Alignment explanation
Indices: 166684--166757 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
166674 ACCAAAATGC
*
166684 AATTTTTAAAAGTTTAGTGGCTAAAATATA
1 AATTTATAAAAGTTTAGTGGCTAAAATATA
*
166714 AATTTATAAAAGTTTAG-GGACCTGAAATATA
1 AATTTATAAAAGTTTAGTGG--CTAAAATATA
*
166745 ATTTTA-AAAAGTT
1 AATTTATAAAAGTT
166758 ATATATTTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 2 0.05
30 23 0.59
31 14 0.36
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.38
Consensus pattern (30 bp):
AATTTATAAAAGTTTAGTGGCTAAAATATA
Found at i:169617 original size:25 final size:25
Alignment explanation
Indices: 169547--169669 Score: 178
Period size: 25 Copynumber: 5.0 Consensus size: 25
169537 CCAAGGGTGT
169547 GTTCAGTTTT-GCAGTTACGACTGC
1 GTTCAGTTTTAGCAGTTACGACTGC
169571 GTTCAGTTTT-GCAGTTACGACTGC
1 GTTCAGTTTTAGCAGTTACGACTGC
*
169595 GTTCAGTTTTAGCAGTTAAGACTGC
1 GTTCAGTTTTAGCAGTTACGACTGC
* * *
169620 GTTTAGTTTTAGCAGTTACGGCTGT
1 GTTCAGTTTTAGCAGTTACGACTGC
* *
169645 GTTCAGTTTAAGCAGTTACAACTGC
1 GTTCAGTTTTAGCAGTTACGACTGC
169670 ATATTGTGCA
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 34 0.39
25 54 0.61
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (25 bp):
GTTCAGTTTTAGCAGTTACGACTGC
Found at i:169659 original size:50 final size:48
Alignment explanation
Indices: 169544--169662 Score: 166
Period size: 49 Copynumber: 2.4 Consensus size: 48
169534 GCACCAAGGG
* *
169544 TGTGTTCAGTTTTGCAGTTACGACTGCGTTCAGTTTTGCAGTTACGAC
1 TGTGTTCAGTTTAGCAGTTAAGACTGCGTTCAGTTTTGCAGTTACGAC
* * *
169592 TGCGTTCAGTTTTAGCAGTTAAGACTGCGTTTAGTTTTAGCAGTTACGGC
1 TGTGTTCAG-TTTAGCAGTTAAGACTGCGTTCAGTTTT-GCAGTTACGAC
169642 TGTGTTCAGTTTAAGCAGTTA
1 TGTGTTCAGTTT-AGCAGTTA
169663 CAACTGCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 8 0.13
49 28 0.45
50 26 0.42
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.39
Consensus pattern (48 bp):
TGTGTTCAGTTTAGCAGTTAAGACTGCGTTCAGTTTTGCAGTTACGAC
Found at i:173646 original size:18 final size:18
Alignment explanation
Indices: 173610--173662 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
173600 GTATGCATTG
173610 AGCTATGAA-CTTGAAAATA
1 AGCTATGAATC-T-AAAATA
173629 AGCTATGAATCTAAAATA
1 AGCTATGAATCTAAAATA
* * *
173647 AGTTTTGAGTCTAAAA
1 AGCTATGAATCTAAAA
173663 ACAAGTTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 19 0.63
19 10 0.33
20 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (18 bp):
AGCTATGAATCTAAAATA
Found at i:173758 original size:19 final size:19
Alignment explanation
Indices: 173712--173769 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
173702 GTATGGATTA
173712 TGAAAATGAAATGTGAAAG
1 TGAAAATGAAATGTGAAAG
*
173731 TGAATATGAAA-GTGAAAAAG
1 TGAAAATGAAATGTG--AAAG
* *
173751 -GAAAATGAGATATGAAAG
1 TGAAAATGAAATGTGAAAG
173769 T
1 T
173770 TTTATATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
18 7 0.23
19 18 0.58
20 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (19 bp):
TGAAAATGAAATGTGAAAG
Found at i:176395 original size:8 final size:8
Alignment explanation
Indices: 176379--176427 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
176369 TTTTTAAATC
176379 ATTATTTT
1 ATTATTTT
*
176387 ATTAGTTT
1 ATTATTTT
176395 ATTATTTT
1 ATTATTTT
176403 ATTATTTT
1 ATTATTTT
176411 -TCT-TTTT
1 AT-TATTTT
176418 -TTATTTT
1 ATTATTTT
176425 ATT
1 ATT
176428 TTGTTCTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 1 0.03
7 10 0.28
8 25 0.69
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (8 bp):
ATTATTTT
Found at i:176400 original size:16 final size:15
Alignment explanation
Indices: 176379--176423 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
176369 TTTTTAAATC
176379 ATTATTTTATTAGTTT
1 ATTATTTTATTA-TTT
176395 ATTATTTTATTATTT
1 ATTATTTTATTATTT
* *
176410 -TTCTTTTTTTATTT
1 ATTATTTTATTATTT
176424 TATTTTGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 12 0.44
15 3 0.11
16 12 0.44
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (15 bp):
ATTATTTTATTATTT
Found at i:176441 original size:22 final size:22
Alignment explanation
Indices: 176396--176441 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
176386 TATTAGTTTA
* *
176396 TTATTTTATTATTTTTCTTTTT
1 TTATTTTATTATTGTTCTTCTT
176418 TTATTTTATT-TTGTTCTATCTT
1 TTATTTTATTATTGTTCT-TCTT
176440 TT
1 TT
176442 CAATTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (22 bp):
TTATTTTATTATTGTTCTTCTT
Found at i:177831 original size:21 final size:21
Alignment explanation
Indices: 177804--177856 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
177794 AGCAATATCA
*
177804 CAAGAAAAGTTGGTTACATCC
1 CAAGAAAAGTTAGTTACATCC
* * * *
177825 TAGGAAAAGCTAGTTGCATCC
1 CAAGAAAAGTTAGTTACATCC
177846 CAAGAAAAGTT
1 CAAGAAAAGTT
177857 CCAAAGTTGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (21 bp):
CAAGAAAAGTTAGTTACATCC
Found at i:179278 original size:6 final size:6
Alignment explanation
Indices: 179267--179332 Score: 53
Period size: 6 Copynumber: 10.3 Consensus size: 6
179257 TAACCCATTA
* *
179267 TTATTT TTATTT TTCATTT GTTCAATTT TTATTT TCAATT TTATTT TT-TTT
1 TTATTT TTATTT TT-ATTT -TT--ATTT TTATTT TTATTT TTATTT TTATTT
*
179318 ATTTTTT TTATTT TT
1 -TTATTT TTATTT TT
179333 TAGGTACGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 3 0.06
6 31 0.63
7 7 0.14
8 4 0.08
9 4 0.08
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:179322 original size:8 final size:9
Alignment explanation
Indices: 179305--179333 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
179295 TTATTTTCAA
179305 TTTTATTTT
1 TTTTATTTT
179314 TTTTATTTT
1 TTTTATTTT
179323 TTTTATTTT
1 TTTTATTTT
179332 TT
1 TT
179334 AGGTACGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:179578 original size:29 final size:29
Alignment explanation
Indices: 179503--179633 Score: 114
Period size: 29 Copynumber: 4.7 Consensus size: 29
179493 GAAATACATT
*
179503 GTTCGAACAGTGCAAAAAAAACTGACTTG
1 GTTCGAACAGTGCAGAAAAAACTGACTTG
179532 GTTCGAACAGTGCAGAAAAAA-TAGACTTG
1 GTTCGAACAGTGCAGAAAAAACT-GACTTG
* * *
179561 GTTCGAACTGTGCTG--AAAA--G--TTC
1 GTTCGAACAGTGCAGAAAAAACTGACTTG
** *
179584 GAACAGAACAGTGCAGAAAAAACTGATTTG
1 GTTC-GAACAGTGCAGAAAAAACTGACTTG
* *
179614 GTTCGAACATTGAAGAAAAA
1 GTTCGAACAGTGCAGAAAAA
179634 TACATAGTAG
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
23 4 0.05
24 9 0.11
25 1 0.01
26 4 0.05
27 4 0.05
28 2 0.02
29 53 0.65
30 4 0.05
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (29 bp):
GTTCGAACAGTGCAGAAAAAACTGACTTG
Found at i:181745 original size:42 final size:42
Alignment explanation
Indices: 181634--181746 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
181624 TAATTTATAA
*
181634 TTGTTTTAGGTATTTTAGTTTAAATAGATGTTTGTATTCCAATT
1 TTGTTTTAGGTATTTTAGTTTAAATAG-TATTTGTATT-CAATT
** * * * *
181678 AGGATTTAGG-ATATTATTTTAAATAGTATTT-TACTT-TATCT
1 TTGTTTTAGGTATTTTAGTTTAAATAGTATTTGTA-TTCAAT-T
181719 TTGTTTTAGGTATTTTAGTTTAAATAGT
1 TTGTTTTAGGTATTTTAGTTTAAATAGT
181747 TTTAAGTGTT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.04
41 10 0.19
42 21 0.39
43 14 0.26
44 7 0.13
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (42 bp):
TTGTTTTAGGTATTTTAGTTTAAATAGTATTTGTATTCAATT
Found at i:190430 original size:830 final size:828
Alignment explanation
Indices: 188815--190471 Score: 2536
Period size: 829 Copynumber: 2.0 Consensus size: 828
188805 ATAGTCCACC
* * *
188815 CGAGAGCTTTTTTGTGATGTGAAAAAATATTCAACAAACTACCCTCTTTCTCAGGAGTTAGACTA
1 CGAGAGATTTTTTGTGATGTGAAAAAACATTCAACAAACTACCCTCTTGCTCAGGAGTTAGACTA
* * * * * *
188880 TAAGACATTATAACTGGTAAAGTATCATCACTACCTAGATAAGGATATTTTAAATGTGATGGCAA
66 GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAAGCATATTTTAAATATGATAGAAA
188945 AGGTTTAAGGTCTAAGGTAGGTGCATGTTATAGTAAAGCTTTTAGAGGTATAAATTCATTAAAGT
131 AGGTTTAAGGTCTAAGGTAGGTGCATGTTATAGTAAAGCTTTTAGAGGTATAAATTCATTAAAGT
* * * *
189010 CAAGGGGTTTGAATCTCATACCTGGTTTATCTTGCAGTAAGCTTGAATGGTCCTCCTCCAATGGA
196 CAAGGGGTTTAAATCTCATACCTGGTCTATCTTGCAGTAAGCTAGAATAGTCCTCCTCCAATGGA
* *
189075 CAGTCCTAGGTCTCCGCATTTGTTTAATCTACAACAAATCTTTCATTTGCCTTAATCGAAAAAAA
261 CAGTCCTAGGTCTCCGCATTTGTTTAATCTACAACAAATCTTTCATTTGCCTCAATCAAAAAAAA
* * * * * *
189140 TTGCCTAGGCAAATATTTTTGTATGCCTTTTTCTAAAAAAATCGTCTGGGCCAAAATTATTTTGT
326 TTGCATAGGCAAATATTTTTGTATGCCATTTCCTAAAAAAATCATCTAGGCCAAAATTATTGTGT
*
189205 CCCTCTGACTGTAAATATCACCATGGAGAAAAGTTTTACCCTCCTCTATATGAGAAATATTATCC
391 CCCTCTGACTGTAAATATCACCATGGAGAAAACTTTTACCCTCCTCTATATGAGAAATATTATCC
* *
189270 TGGCACAGAGTATCATACTCATCCAGATGTAAAAATTTACCTTGGCCAATTTTTTTGTTCTATCT
456 TGGCACAGAGTATCATACTCATCCAAATGTAAAAATTTA-CTTGGCCAATTTTTCTGTTCTATCT
* *
189335 TCTTCATTTGGCTCCATGTCTCCAATGCAATGACATTCTTCATAATCATCAAAATATATAAGAGT
520 TCTTCATTTGGCTCCATGTCTCCAATGCAACGACATTCTTCAGAATCATCAAAATATATAAGAGT
*
189400 GTTGAAAACATTGAGAGTGACGCTTTGATCAGCCACCCGCATTGTGAACTCTTCCTTCTCACAGT
585 ATTGAAAACATTGAGAGTGACGCTTTGATCAGCCACCCGCATTGTGAACTCTTCCTTCTCACAGT
*
189465 CTATTAGGATGTTCCCAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTCATCAACC
650 CTATTAGGATGTACCCAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTCATCAACC
* * *
189530 TCACATTCCAGAATGAGAAAATCTGCCGGAACGACAAACTTGTCCACTTTAACGATTACATCCTC
715 TCACAGTCCAGAATGAGAAAATCTACCGGAAAGACAAACTTGTCCACTTTAACGATTACATCCTC
189595 AATTCTGCCCTC-GAGACGAACATGTGATATGTCATCCAGTTACAAAACT
780 AATTCTGCCCTCGGA-ACGAACATGTGATATGTCATCCAGTTACAAAACT
* * * *
189644 CGAGAGATTTTTTGTGCTGTGACAAAACATTCAACAAACTGCCCTCTTGCTCAGGGGTTAGACTA
1 CGAGAGATTTTTTGTGATGTGAAAAAACATTCAACAAACTACCCTCTTGCTCAGGAGTTAGACTA
*
189709 GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAATCATATTTTAAATATGATAGAAA
66 GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAAGCATATTTTAAATATGATAGAAA
* * * * *
189774 AGGTTTAAGGTCTAAGGTAGGTGTATGTTGTAG-AGAAGGTTTTGGAGTTATAAATTCA-TAAAG
131 AGGTTTAAGGTCTAAGGTAGGTGCATGTTATAGTA-AAGCTTTTAGAGGTATAAATTCATTAAAG
* * * *
189837 TTAAGGGGTTTAAATCTCATACCTGGTCTATCTTGTAGTAAGCTAGATTATTCCTCCTCCAATGG
195 TCAAGGGGTTTAAATCTCATACCTGGTCTATCTTGCAGTAAGCTAGAATAGTCCTCCTCCAATGG
* * * * **
189902 ATAGTCCTCGGTCTCCGCATTTGTTTTATCTTCAGTAAATCTTTCATTTGCCTCAATCAAAAAAA
260 ACAGTCCTAGGTCTCCGCATTTGTTTAATCTACAACAAATCTTTCATTTGCCTCAATCAAAAAAA
* *
189967 ATTTGCATAGGCAAATATTTTT-TGATGTCATTTCCTAAAAAAATCATCTAGGCTAAAATTATTG
325 A-TTGCATAGGCAAATATTTTTGT-ATGCCATTTCCTAAAAAAATCATCTAGGCCAAAATTATTG
* *
190031 TGTCCCTCTGACTGTATAATATCGCCATGGAG-AAACTTTTACCCTGCTCTATATGAGAAATATT
388 TGTCCCTCTGACTGTA-AATATCACCATGGAGAAAACTTTTACCCTCCTCTATATGAGAAATATT
*
190095 ATCCTGGCACAGAGTATCATACTCGTCCAAATGTAAAAATTTA-TTGTAGCCAGATTTTTCTGTT
452 ATCCTGGCACAGAGTATCATACTCATCCAAATGTAAAAATTTACTTG--GCCA-ATTTTTCTGTT
* * *
190159 CTATCTTCTTCATTTGGCTTCATGTCTCCAATGCAACGACATTCTTCAGAATCATCAACATATTT
514 CTATCTTCTTCATTTGGCTCCATGTCTCCAATGCAACGACATTCTTCAGAATCATCAAAATATAT
* * * *
190224 AAGAGTATTGAAAACATTGATAGTGACTCTTTGATCAGCCACTCGTATTGTGAACTC-TCCTTTC
579 AAGAGTATTGAAAACATTGAGAGTGACGCTTTGATCAGCCACCCGCATTGTGAACTCTTCC-TTC
* * *
190288 TCACAGTCTATTAGGATGTACCCCGTAGCTAAGAAGGGTCGCCCAAGAATAATATGTGCATTTTC
643 TCACAGTCTATTAGGATGTACCCAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTC
* * * *
190353 ATCAACCTCACAGTCTAGAATGAGGAAATCTATCGGAAAGACAAACTTTTCCACTTTAACGATTA
708 ATCAACCTCACAGTCCAGAATGAGAAAATCTACCGGAAAGACAAACTTGTCCACTTTAACGATTA
*
190418 CATCCTCAATTCTTCCCTCGGAACGAACATGTGATATGTCATCCAGTTACAAAA
773 CATCCTCAATTCTGCCCTCGGAACGAACATGTGATATGTCATCCAGTTACAAAA
190472 TTACGGCTGT
Statistics
Matches: 748, Mismatches: 71, Indels: 17
0.89 0.08 0.02
Matches are distributed among these distances:
827 3 0.00
828 122 0.16
829 313 0.42
830 308 0.41
831 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (828 bp):
CGAGAGATTTTTTGTGATGTGAAAAAACATTCAACAAACTACCCTCTTGCTCAGGAGTTAGACTA
GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAAGCATATTTTAAATATGATAGAAA
AGGTTTAAGGTCTAAGGTAGGTGCATGTTATAGTAAAGCTTTTAGAGGTATAAATTCATTAAAGT
CAAGGGGTTTAAATCTCATACCTGGTCTATCTTGCAGTAAGCTAGAATAGTCCTCCTCCAATGGA
CAGTCCTAGGTCTCCGCATTTGTTTAATCTACAACAAATCTTTCATTTGCCTCAATCAAAAAAAA
TTGCATAGGCAAATATTTTTGTATGCCATTTCCTAAAAAAATCATCTAGGCCAAAATTATTGTGT
CCCTCTGACTGTAAATATCACCATGGAGAAAACTTTTACCCTCCTCTATATGAGAAATATTATCC
TGGCACAGAGTATCATACTCATCCAAATGTAAAAATTTACTTGGCCAATTTTTCTGTTCTATCTT
CTTCATTTGGCTCCATGTCTCCAATGCAACGACATTCTTCAGAATCATCAAAATATATAAGAGTA
TTGAAAACATTGAGAGTGACGCTTTGATCAGCCACCCGCATTGTGAACTCTTCCTTCTCACAGTC
TATTAGGATGTACCCAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTCATCAACCT
CACAGTCCAGAATGAGAAAATCTACCGGAAAGACAAACTTGTCCACTTTAACGATTACATCCTCA
ATTCTGCCCTCGGAACGAACATGTGATATGTCATCCAGTTACAAAACT
Found at i:196535 original size:18 final size:18
Alignment explanation
Indices: 196512--196573 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
196502 TTATCATGGC
196512 TTTGATATGATTATTATG
1 TTTGATATGATTATTATG
* *
196530 TTTGATATTGTTTATCATGG
1 TTTGATA-TGATTATTAT-G
*
196550 CTTTGATATGACTATTATG
1 -TTTGATATGATTATTATG
196569 TTTGA
1 TTTGA
196574 AATTGTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 12 0.33
19 9 0.25
20 8 0.22
21 7 0.19
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (18 bp):
TTTGATATGATTATTATG
Found at i:196536 original size:39 final size:39
Alignment explanation
Indices: 196477--196596 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
196467 GAAGTTATCA
* *
196477 ATATGACTATTGTGTATGATATTGTTTATCATGGCTTTG
1 ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
*
196516 ATATGATTATTATGTTTGATATTGTTTATCATGGCTTTG
1 ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
* * *
196555 ATATGACTATTATGTTTGAAATTGTTTTTCATGGTTTTG
1 ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
196594 ATA
1 ATA
196597 AAATCATGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (39 bp):
ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
Found at i:209208 original size:2 final size:2
Alignment explanation
Indices: 209201--209231 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
209191 GAATGGCCGG
209201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
209232 CTATTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:210294 original size:85 final size:85
Alignment explanation
Indices: 210131--210294 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 85
210121 ACAATCACGC
* * * * *
210131 CACACGAATGTGTGTCATCTTTTTTAATGATGTGTGCTTCAATGACACGCAATGTAAGTCATACA
1 CACACGAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAA
* **
210196 TGCGTGTCATAAATTTATGA
66 TACGCATCATAAATTTATGA
* *
210216 CACACGAATGTGTGTCGTCTTCATTT-ATGACGGGGGCTTCAATGACGCGCAATG-AGAGTCATA
1 CACACGAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGCAATGTA-AGTCATA
*
210279 AATACGCATCGTAAAT
64 AATACGCATCATAAAT
210295 GCGCGTTATA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.94
86 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (85 bp):
CACACGAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAA
TACGCATCATAAATTTATGA
Found at i:217700 original size:29 final size:30
Alignment explanation
Indices: 217654--217711 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
217644 ATTTCAAAAT
217654 TATAATTATGAAAAAAAATATTAATTTATA
1 TATAATTATGAAAAAAAATATTAATTTATA
* * *
217684 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAAAAAAATATTAATTTAT
217712 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TATAATTATGAAAAAAAATATTAATTTATA
Found at i:217881 original size:113 final size:113
Alignment explanation
Indices: 217679--217897 Score: 264
Period size: 113 Copynumber: 1.9 Consensus size: 113
217669 AAATATTAAT
* * * *
217679 TTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGTACCT
1 TTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATAACATCCAGTACCT
* *
217744 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTATTA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTATTA
** * *
217792 TTATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATTAGAAAATAAACATCCAGTTG
1 TTATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-AACATCCAG-TA
** * *
217856 TTTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATAAATA
63 CCTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATA
217898 TTAAAAGGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
112 6 0.07
113 60 0.67
114 13 0.15
115 10 0.11
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (113 bp):
TTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATAACATCCAGTACCT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTATTA
Found at i:219074 original size:16 final size:16
Alignment explanation
Indices: 219053--219087 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
219043 GTGCGGCTAT
219053 GGTATCATAACCCTAG
1 GGTATCATAACCCTAG
219069 GGTATCATAACCCTAG
1 GGTATCATAACCCTAG
219085 GGT
1 GGT
219088 TTGCATCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (16 bp):
GGTATCATAACCCTAG
Found at i:219274 original size:3 final size:3
Alignment explanation
Indices: 219268--219331 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
219258 TAATATTTAT
* *
219268 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
219315 TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
219332 TTCAAATGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
2 4 0.07
3 48 0.89
4 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:219291 original size:30 final size:30
Alignment explanation
Indices: 219255--219323 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
219245 ATTGGGCCTG
*
219255 TAATAATATTTATTAATAA-TAAAATAATAA
1 TAATAATATTAATT-ATAATTAAAATAATAA
* *
219285 TAATAATAATAATTATAATTATAATAATAA
1 TAATAATATTAATTATAATTAAAATAATAA
219315 TAATAATAT
1 TAATAATAT
219324 AAATAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TAATAATATTAATTATAATTAAAATAATAA
Found at i:219698 original size:120 final size:120
Alignment explanation
Indices: 219553--219875 Score: 549
Period size: 120 Copynumber: 2.7 Consensus size: 120
219543 GTAATCTAGC
* *
219553 AAAGGTTGAATAAGCTCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAATTTTTCTCATTATGA
1 AAAGGTCGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAATTTTTCTCATTATGA
219618 ATTCCTTCTGGAAATGCTGATGATGATATATCTCTTTCTTTGATAGAGTCATGCA
66 ATTCCTTCTGGAAATGCTGATGATGATATATCTCTTTCTTTGATAGAGTCATGCA
219673 AAAGGTCGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAATTTTTCTCATTATGA
1 AAAGGTCGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAATTTTTCTCATTATGA
219738 ATTCCTTCTGGAAATGCTGATGATGATATATCTCTTTCTTTGATAGAGTCATGCA
66 ATTCCTTCTGGAAATGCTGATGATGATATATCTCTTTCTTTGATAGAGTCATGCA
* *
219793 AAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
1 AAAGGTCGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAATTTTTCTCATT
*
219858 ATGAACTTTC-TCTGGAAA
62 ATGAA-TTCCTTCTGGAAA
219876 AGTTGATCCA
Statistics
Matches: 193, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
120 147 0.76
123 6 0.03
124 37 0.19
125 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (120 bp):
AAAGGTCGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAATTTTTCTCATTATGA
ATTCCTTCTGGAAATGCTGATGATGATATATCTCTTTCTTTGATAGAGTCATGCA
Found at i:220241 original size:113 final size:113
Alignment explanation
Indices: 219790--220239 Score: 657
Period size: 113 Copynumber: 4.0 Consensus size: 113
219780 ATAGAGTCAT
* * * * *
219790 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
*
219855 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTTAA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAA
* * *
219903 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
* ** * ** * * *
219968 ATTATGAACTCTAACTGGCATTGTTGATCCACCGAGTGATGAATTTAA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAA
* *
220016 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTTCTTCTTCAGATGAGTTCTCCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
* * *
220081 ATTATGAATTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAA
* * *
220129 GCAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCATGTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
*
220194 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTT
220240 GAATCTTTGC
Statistics
Matches: 301, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 301 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAA
Found at i:221398 original size:19 final size:17
Alignment explanation
Indices: 221374--221422 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
221364 AATCCAAAAG
221374 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
221393 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
221409 AATAAATTGAATTT
1 AATAAATTGAATTT
221423 AGAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 3 0.11
19 11 0.41
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:221791 original size:10 final size:10
Alignment explanation
Indices: 221776--221810 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
221766 TTGACCCTCC
221776 TTTTTTCTCT
1 TTTTTTCTCT
*
221786 TTTTTTTTCT
1 TTTTTTCTCT
221796 TTTTTTCT-T
1 TTTTTTCTCT
221805 TTTTTT
1 TTTTTT
221811 TTCATTTCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:221798 original size:18 final size:18
Alignment explanation
Indices: 221777--221811 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
221767 TGACCCTCCT
221777 TTTTTCTCTTTTTTTTTC
1 TTTTTCTCTTTTTTTTTC
*
221795 TTTTTTTCTTTTTTTTT
1 TTTTTCTCTTTTTTTTT
221812 TCATTTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTCTCTTTTTTTTTC
Found at i:221812 original size:19 final size:20
Alignment explanation
Indices: 221776--221813 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
221766 TTGACCCTCC
221776 TTTTTTCTCTTTTTTTTTCT
1 TTTTTTCTCTTTTTTTTTCT
221796 TTTTTTCT-TTTTTTTTTC
1 TTTTTTCTCTTTTTTTTTC
221814 ATTTCAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTCTCTTTTTTTTTCT
Found at i:225359 original size:16 final size:17
Alignment explanation
Indices: 225338--225373 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
225328 TAAATAAATG
225338 AAAAA-TAATGAATGTA
1 AAAAAGTAATGAATGTA
225354 AAAAATGTAATGAATGTA
1 AAAAA-GTAATGAATGTA
225372 AA
1 AA
225374 GAATGATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
18 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (17 bp):
AAAAAGTAATGAATGTA
Found at i:225366 original size:18 final size:18
Alignment explanation
Indices: 225343--225378 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
225333 AAATGAAAAA
225343 TAATGAATGTAAAAAATG
1 TAATGAATGTAAAAAATG
*
225361 TAATGAATGTAAAGAATG
1 TAATGAATGTAAAAAATG
225379 ATTGCCATTT
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:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (18 bp):
TAATGAATGTAAAAAATG
Found at i:232539 original size:28 final size:28
Alignment explanation
Indices: 232487--232544 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
232477 ATATTAATAA
232487 AATAATATATATAAAATACTATGAAAAT
1 AATAATATATATAAAATACTATGAAAAT
* *
232515 AATAAGTATATATAAAA-ATTTTGAAAAT
1 AATAA-TATATATAAAATACTATGAAAAT
232543 AA
1 AA
232545 AGAATTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
AATAATATATATAAAATACTATGAAAAT
Found at i:232553 original size:29 final size:29
Alignment explanation
Indices: 232492--232568 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
232482 AATAAAATAA
*
232492 TATATATAAAATACTATGAAAATAATAAG
1 TATATATAAAATACTATGAAAATAAGAAG
* * *
232521 TATATATAAAA-ATTTTGAAAATAAAGAAT
1 TATATATAAAATACTATGAAAAT-AAGAAG
* *
232550 TATAAATTAAATA-TATGAA
1 TATATATAAAATACTATGAA
232569 TTTTTAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 9 0.23
29 29 0.74
30 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.34
Consensus pattern (29 bp):
TATATATAAAATACTATGAAAATAAGAAG
Found at i:233062 original size:31 final size:29
Alignment explanation
Indices: 233014--233072 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
233004 ATTTCAAAAT
233014 TATAATTATGAAAAAAATATATTAATTTATA
1 TATAATTATGAAAAAAATAT-TT-ATTTATA
*
233045 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAA-AAAATATTTATTTAT
233073 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATGAAAAAAATATTTATTTATA
Found at i:233236 original size:114 final size:113
Alignment explanation
Indices: 233040--233259 Score: 284
Period size: 114 Copynumber: 1.9 Consensus size: 113
233030 ATATATTAAT
* *
233040 TTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCC
1 TTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACTTCCAGGTGCC
* *
233105 TTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAACAATTA
66 TTAAGACAGCTCCTTTCTT-AATATTAAAAAATAAATAAATAACAATTA
** *
233154 TTATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGA-TATCCAGTT
1 TTATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACT-TCCAGGT
** * *
233217 GTTTTAAGACTGC-CCTTTCTTAATATTGAAAAATAAATAAATA
63 GCCTTAAGACAGCTCCTTTCTTAATATTAAAAAATAAATAAATA
233260 TTAAAACAGG
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
113 26 0.28
114 49 0.53
115 17 0.18
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (113 bp):
TTATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACTTCCAGGTGCC
TTAAGACAGCTCCTTTCTTAATATTAAAAAATAAATAAATAACAATTA
Found at i:235385 original size:16 final size:16
Alignment explanation
Indices: 235360--235412 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
235350 AAATTTTTTA
235360 TTTCAATTACT-TAAC
1 TTTCAATTACTCTAAC
235375 TTTCAAATTACTCCTAA-
1 TTTC-AATTACT-CTAAC
*
235392 TTT-AATTGCTCTAAC
1 TTTCAATTACTCTAAC
235407 TTTCAA
1 TTTCAA
235413 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 4 0.12
15 13 0.41
16 9 0.28
17 3 0.09
18 3 0.09
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTCAATTACTCTAAC
Found at i:241350 original size:136 final size:136
Alignment explanation
Indices: 241040--241351 Score: 486
Period size: 136 Copynumber: 2.3 Consensus size: 136
241030 CCTTTAATAC
* ** *
241040 GAGTTCTTCTCATTATGAACTCT--TTTGGAAATGTCAATCCCTCTAACGAGGCGTCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCTAACGAGGCATCACTGATTC
* *
241103 AAAATGTCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
66 AAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
241168 TCGGAT
131 TCGGAT
** ** *
241174 GAGTTCTTCTCATTATGAACTCTCCATTAAAAATACTGATCCCTC-AAGCGAGGTATCACTGATT
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCTAA-CGAGGCATCACTGATT
*
241238 CAAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCT
65 CAAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT
241303 GTCGGAT
130 GTCGGAT
241310 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCC
241352 ATCTCTTTCT
Statistics
Matches: 159, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
134 23 0.14
135 2 0.01
136 134 0.84
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (136 bp):
GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCTAACGAGGCATCACTGATTC
AAAATGCCATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
TCGGAT
Found at i:242234 original size:8 final size:8
Alignment explanation
Indices: 242215--242270 Score: 58
Period size: 8 Copynumber: 6.6 Consensus size: 8
242205 CATTTTTCTA
*
242215 TTTTCATT
1 TTTTTATT
242223 TTTTTATTTT
1 TTTTTA--TT
242233 TTTTTCATT
1 TTTTT-ATT
* *
242242 TTTTCATC
1 TTTTTATT
242250 TTTTTATT
1 TTTTTATT
242258 TTTTTATT
1 TTTTTATT
242266 TTTTT
1 TTTTT
242271 CTTCAAGCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 26 0.65
9 6 0.15
10 7 0.17
11 1 0.03
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:242266 original size:35 final size:35
Alignment explanation
Indices: 242207--242275 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
242197 CAAACCCTCA
242207 TTTTTCTATTTTCATTTTTTTATTTTTTT-TTCAT
1 TTTTTCTATTTTCATTTTTTTATTTTTTTCTTCAT
* *
242241 TTTTTCATCTTTTTATTTTTTTATTTTTTTCTTCA
1 TTTTTC-TATTTTCATTTTTTTATTTTTTTCTTCA
242276 AGCATAGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 6 0.19
35 21 0.68
36 4 0.13
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (35 bp):
TTTTTCTATTTTCATTTTTTTATTTTTTTCTTCAT
Found at i:242270 original size:27 final size:27
Alignment explanation
Indices: 242207--242262 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
242197 CAAACCCTCA
* *
242207 TTTTTC-TATTTTCATTTTTTTATTTT
1 TTTTTCATTTTTTCATCTTTTTATTTT
242233 TTTTTCATTTTTTCATCTTTTTATTTT
1 TTTTTCATTTTTTCATCTTTTTATTTT
242260 TTT
1 TTT
242263 ATTTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTTCATTTTTTCATCTTTTTATTTT
Found at i:256217 original size:2 final size:2
Alignment explanation
Indices: 256210--256239 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
256200 GGGTGTCTAC
256210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
256240 TGATTAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:256525 original size:24 final size:25
Alignment explanation
Indices: 256496--256551 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
256486 TCCTAGTTAT
* * * *
256496 ATTTATAATTTTATAGAG-TTATTA
1 ATTTATAATATTAAAGAGATCATGA
256520 ATTTATAATATTAAAGAGATCATGA
1 ATTTATAATATTAAAGAGATCATGA
256545 ATTTATA
1 ATTTATA
256552 TAAGGTCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (25 bp):
ATTTATAATATTAAAGAGATCATGA
Found at i:257127 original size:60 final size:59
Alignment explanation
Indices: 257059--257172 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
257049 CAAATGATCC
* * * *
257059 CTCAATTATAAG-ATGTTATTTTGTTTAGTCCCCCTACTAATAAAAGTTATAAAATAGTAT
1 CTCAATTAT-AGTATGTTATTCTGTTGAGT-CCCCGACTAATAAAAGTTACAAAATAGTAT
* * *
257119 CTCAATTATAGTGTGTTGTTCTGTTGAGTCCCCGACTATTAAAAGTTACAAAAT
1 CTCAATTATAGTATGTTATTCTGTTGAGTCCCCGACTAATAAAAGTTACAAAAT
257173 GGTCACTTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 24 0.52
60 22 0.48
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (59 bp):
CTCAATTATAGTATGTTATTCTGTTGAGTCCCCGACTAATAAAAGTTACAAAATAGTAT
Found at i:257351 original size:28 final size:28
Alignment explanation
Indices: 257307--257364 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
257297 CACCGTCATC
* *
257307 GTTTCAAGCACTGGCTCAATGACATAAT
1 GTTTCAAGCACTAGCTCAACGACATAAT
257335 GTTTCAAGCACTAGCTCAACGACATAAT
1 GTTTCAAGCACTAGCTCAACGACATAAT
257363 GT
1 GT
257365 AAACGGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (28 bp):
GTTTCAAGCACTAGCTCAACGACATAAT
Found at i:257590 original size:60 final size:59
Alignment explanation
Indices: 257517--257672 Score: 222
Period size: 60 Copynumber: 2.6 Consensus size: 59
257507 TGACTGATCG
* * *
257517 TTTTATAATTTTTAATAGTCTAAAGACTTAACAAAACATCGACTTATAATTGATAGATTA
1 TTTTATAATTTTTAATAGT-TAAAGACTTAACAAAACACCGACTTATAATTAATAAATTA
* *
257577 TTTTATAATTTTTAATAGTTTGAAGACTAAACAAAACACCGACTTATAATTAATAAATTA
1 TTTTATAATTTTTAATAG-TTAAAGACTTAACAAAACACCGACTTATAATTAATAAATTA
* *
257637 TTTTATAATTTTTAATAGATGAGAGACTTAACAAAA
1 TTTTATAATTTTTAATAG-TTAAAGACTTAACAAAA
257673 TAATATCTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
60 84 0.99
61 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (59 bp):
TTTTATAATTTTTAATAGTTAAAGACTTAACAAAACACCGACTTATAATTAATAAATTA
Found at i:258836 original size:16 final size:16
Alignment explanation
Indices: 258817--258864 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
258807 TTTTTTACAT
258817 ATATCAATTTTATCAA
1 ATATCAATTTTATCAA
*
258833 ATAT---TTTTA-CAT
1 ATATCAATTTTATCAA
258845 ATATCAATTTTATCAA
1 ATATCAATTTTATCAA
258861 ATAT
1 ATAT
258865 TATTGGACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.23
13 5 0.19
15 5 0.19
16 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATCAATTTTATCAA
Found at i:258844 original size:28 final size:28
Alignment explanation
Indices: 258808--258865 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
258798 TATTTATATT
258808 TTTTTACATATATCAATTTTATCAAATA
1 TTTTTACATATATCAATTTTATCAAATA
258836 TTTTTACATATATCAATTTTATCAAATA
1 TTTTTACATATATCAATTTTATCAAATA
258864 TT
1 TT
258866 ATTGGACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTTTACATATATCAATTTTATCAAATA
Found at i:258996 original size:19 final size:17
Alignment explanation
Indices: 258965--259024 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
258955 GTATGTCAAG
258965 ATATA-AATTTTTTAAA
1 ATATATAATTTTTTAAA
258981 ATATATAATTTTTTTTAAA
1 ATATATAA--TTTTTTAAA
**
259000 ATATATAAACTTTTAAA
1 ATATATAATTTTTTAAA
259017 ATATATAA
1 ATATATAA
259025 CAATTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.13
17 17 0.44
19 17 0.44
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATAATTTTTTAAA
Found at i:262125 original size:87 final size:87
Alignment explanation
Indices: 261979--262149 Score: 306
Period size: 87 Copynumber: 2.0 Consensus size: 87
261969 TTTTTTTGCG
* * *
261979 TGCTCGTTATAGTCACGGTAAGCCATTGACTTTTTTTTATTTCAATTTCGGTATGCGATTCTGAA
1 TGCTCGTTATAGTCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
262044 TACTTCCATTTTAGTCCCCGTA
66 TACTTCCATTTTAGTCCCCGTA
262066 TGCTCGTTATAGTCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
1 TGCTCGTTATAGTCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
*
262131 TGCTTCCATTTTAGTCCCC
66 TACTTCCATTTTAGTCCCC
262150 TTATTTTTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (87 bp):
TGCTCGTTATAGTCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
TACTTCCATTTTAGTCCCCGTA
Found at i:262545 original size:21 final size:21
Alignment explanation
Indices: 262430--262545 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
262420 GCGAAATAAA
**
262430 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
262450 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
262470 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
262491 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
262511 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
262533 AATCGCAACGCGA
1 AATCGCAACGCGA
262546 ACACATAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:262558 original size:20 final size:20
Alignment explanation
Indices: 262533--262644 Score: 172
Period size: 20 Copynumber: 5.6 Consensus size: 20
262523 GATTTTCCAG
* *
262533 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
262553 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
262573 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
262593 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
262613 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
262633 AATCGCAACGCG
1 AATCGCAACGCG
262645 ATTTTTAAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
20 83 0.98
21 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:263063 original size:33 final size:33
Alignment explanation
Indices: 263024--263094 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
263014 TTCACTTAGA
263024 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
263057 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
263090 TTTCA
1 TTTCA
263095 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:263200 original size:21 final size:20
Alignment explanation
Indices: 263174--263280 Score: 102
Period size: 21 Copynumber: 5.5 Consensus size: 20
263164 TGCAGAAGAG
263174 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
263195 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
263215 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
263237 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
263251 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
263270 TCGCAACGAGA
1 TCGCAACGAGA
263281 GAATCGTAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 25 0.36
22 10 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:263254 original size:14 final size:14
Alignment explanation
Indices: 263235--263291 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
263225 GAAAAATGAA
263235 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
263249 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
263268 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
263282 AATCGTAACG
1 AATCGCAACG
263292 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:263266 original size:33 final size:33
Alignment explanation
Indices: 263228--263307 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
263218 GCAACGAGAA
263228 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
*
263261 AAATGAAAATCGCAACGAGAGAATCGTAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
263294 AAACCAAAATCGCA
1 AAATGAAAATCGCA
263308 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:263325 original size:19 final size:19
Alignment explanation
Indices: 263303--263430 Score: 69
Period size: 19 Copynumber: 7.1 Consensus size: 19
263293 GAAACCAAAA
*
263303 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
263322 TCGCGTTGTGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
263336 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
263355 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
263369 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
263389 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
* *
263409 CTCTCGTTACGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
263429 TC
1 TC
263431 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
14 19 0.23
16 6 0.07
17 6 0.07
19 21 0.25
20 18 0.21
21 14 0.17
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:263348 original size:14 final size:14
Alignment explanation
Indices: 263325--263381 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
263315 TTTCATTTCG
*
263325 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
*
263339 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
263358 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
263372 CGTTGCGATT
1 CGTTGCGATT
263382 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:263350 original size:33 final size:33
Alignment explanation
Indices: 263308--263389 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
263298 CAAAATCGCA
*
263308 TTGCGATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
263341 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
263374 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
263390 TCTCGTTGCG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:263392 original size:21 final size:21
Alignment explanation
Indices: 263366--263430 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
263356 CGCGTTGCGA
263366 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
263387 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
*
263407 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
263428 TTC
1 TTC
263431 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:263427 original size:20 final size:20
Alignment explanation
Indices: 263332--263428 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
263322 TCGCGTTGTG
263332 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
263352 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
263365 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
263385 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
*
263406 ATTCTCTCGTTACGATTTTC
1 ATTCTCTCGTTGCGATTTTC
263426 ATT
1 ATT
263429 TCAACCAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
13 3 0.05
14 9 0.15
19 9 0.15
20 22 0.37
21 17 0.28
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.46
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:265267 original size:93 final size:93
Alignment explanation
Indices: 265108--265483 Score: 709
Period size: 93 Copynumber: 4.1 Consensus size: 93
265098 TAGATTGCTT
*
265108 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
265173 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
265201 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
265266 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
265294 AGTAAATTAGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
265359 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
265387 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
265452 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
265479 AGTAA
1 AGTAA
265484 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
92 6 0.02
93 272 0.98
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:265589 original size:33 final size:33
Alignment explanation
Indices: 265531--265654 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
265521 TAGTTTACTT
* * *
265531 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
265565 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
* *
265598 TCGTAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
265631 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
265655 TTGCGATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 69 0.85
34 12 0.15
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Done.