Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 92 of 206
Found at i:26688643 original size:87 final size:88
Alignment explanation
Indices: 26688480--26688706 Score: 305
Period size: 87 Copynumber: 2.6 Consensus size: 88
26688470 ACGGTGTATC
* * * ** * * * *
26688480 GACGATCATCGATCAATGAAAAGGGATGGAT-TTGACCATTGACTATGAAAAGGGATAGTTTTGA
1 GACGACCATCAATTAATGAAAAGGGATGG-TGACGACCATCGAATATGAAAAGAGATAGTTTCGA
* *
26688544 CTATCGATTATGAAAAGGGATGGT
65 CTATCAAATATGAAAAGGGATGGT
*
26688568 GACGACCATCAATT-ATGAAAAGGGATGGTGACGACCATCGTATATGAAAAGAGATAGTTTCGAC
1 GACGACCATCAATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGAGATAGTTTCGAC
26688632 TATCAAATATGAAAAGGGATGGT
66 TATCAAATATGAAAAGGGATGGT
* *
26688655 GACGACCATCGATTAATGAAAAGGGATGGTGACGGCCATCGAATATGAAAAG
1 GACGACCATCAATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAG
26688707 GGATGGTTAC
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
86 1 0.01
87 75 0.61
88 46 0.38
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.23
Consensus pattern (88 bp):
GACGACCATCAATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGAGATAGTTTCGAC
TATCAAATATGAAAAGGGATGGT
Found at i:26688660 original size:29 final size:29
Alignment explanation
Indices: 26688495--26688724 Score: 239
Period size: 29 Copynumber: 7.9 Consensus size: 29
26688485 TCATCGATCA
** * *
26688495 ATGAAAAGGGATGGAT-TTGACCATTGACT
1 ATGAAAAGGGATGG-TGACGACCATCGAAT
* *** * *
26688524 ATGAAAAGGGATAGTTTTGACTATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
26688553 ATGAAAAGGGATGGTGACGACCATC-AATT
1 ATGAAAAGGGATGGTGACGACCATCGAA-T
*
26688582 ATGAAAAGGGATGGTGACGACCATCGTAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* * ** * *
26688611 ATGAAAAGAGATAGTTTCGACTATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
*
26688640 ATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
*
26688669 AATGAAAAGGGATGGTGACGGCCATCGAAT
1 -ATGAAAAGGGATGGTGACGACCATCGAAT
*
26688699 ATGAAAAGGGATGGTTACGACCATCG
1 ATGAAAAGGGATGGTGACGACCATCG
26688725 TTAGCACACT
Statistics
Matches: 168, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
28 2 0.01
29 138 0.82
30 28 0.17
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:26689753 original size:13 final size:13
Alignment explanation
Indices: 26689735--26689765 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26689725 GCACACAGGG
26689735 GTGTGGCTTGGCC
1 GTGTGGCTTGGCC
*
26689748 GTGTGGCTTGGCT
1 GTGTGGCTTGGCC
26689761 GTGTG
1 GTGTG
26689766 ACCTAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (13 bp):
GTGTGGCTTGGCC
Found at i:26693683 original size:9 final size:9
Alignment explanation
Indices: 26693665--26693698 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
26693655 ACTATTTTTT
*
26693665 ATTAAATAA
1 ATTAATTAA
26693674 ATTAATTAA
1 ATTAATTAA
*
26693683 ATTAACTAA
1 ATTAATTAA
26693692 ATTAATT
1 ATTAATT
26693699 TTGTCAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTAATTAA
Found at i:26693722 original size:17 final size:18
Alignment explanation
Indices: 26693689--26693722 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26693679 TTAAATTAAC
26693689 TAAATTAATTTTGTCAAT
1 TAAATTAATTTTGTCAAT
*
26693707 TAAATT-ATTTTTTCAA
1 TAAATTAATTTTGTCAA
26693723 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAATTAATTTTGTCAAT
Found at i:26696857 original size:18 final size:18
Alignment explanation
Indices: 26696834--26696868 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26696824 TAGTTATCAA
26696834 TGCTACCTCTACCTCTAC
1 TGCTACCTCTACCTCTAC
* *
26696852 TGCTACGTCTAGCTCTA
1 TGCTACCTCTACCTCTA
26696869 TATGAATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.37, G:0.11, T:0.34
Consensus pattern (18 bp):
TGCTACCTCTACCTCTAC
Found at i:26697734 original size:18 final size:18
Alignment explanation
Indices: 26697713--26697753 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
26697703 GATGAAAATA
*
26697713 TTAATTAAACTAATTAAC
1 TTAATTAAACTAACTAAC
*
26697731 TTAATTAACCTAACTAAC
1 TTAATTAAACTAACTAAC
*
26697749 CTAAT
1 TTAAT
26697754 GGAATTTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAATTAAACTAACTAAC
Found at i:26700763 original size:18 final size:17
Alignment explanation
Indices: 26700730--26700763 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
26700720 ACTTATTACC
*
26700730 CGAAAAATATAAAAACA
1 CGAAAAATAAAAAAACA
26700747 CGAAAATATAAAAAAAC
1 CGAAAA-ATAAAAAAAC
26700764 TAAGCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.12, G:0.06, T:0.12
Consensus pattern (17 bp):
CGAAAAATAAAAAAACA
Found at i:26707289 original size:12 final size:12
Alignment explanation
Indices: 26707266--26707300 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
26707256 TTTTTCAGTG
*
26707266 GCAGTAGTTGGT
1 GCAGTAGCTGGT
*
26707278 GCAGTGGCTGGT
1 GCAGTAGCTGGT
26707290 GCAGTAGCTGG
1 GCAGTAGCTGG
26707301 GACATTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.46, T:0.26
Consensus pattern (12 bp):
GCAGTAGCTGGT
Found at i:26725873 original size:130 final size:130
Alignment explanation
Indices: 26725504--26725891 Score: 689
Period size: 130 Copynumber: 3.0 Consensus size: 130
26725494 TTAGAGTTAG
* * *
26725504 AGAATAAAGCTCATTGGGCTTTGAAGCAGTTGAACTTTGATCTTAAGAAAGTGGGTCAAAGAAGG
1 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
*
26725569 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCGAAAATGTGTAA
66 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
26725634 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGC-A-----TCAGAGAAGG
1 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
26725693 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
66 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
26725758 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
1 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
*
26725823 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATAAGAATGCCAAAATGTGTAA
66 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
26725888 AGAA
1 AGAA
26725892 AGATCAAAGA
Statistics
Matches: 247, Mismatches: 5, Indels: 12
0.94 0.02 0.05
Matches are distributed among these distances:
124 121 0.49
125 1 0.00
129 1 0.00
130 124 0.50
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (130 bp):
AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
Found at i:26729549 original size:28 final size:28
Alignment explanation
Indices: 26729509--26729569 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
26729499 CATCAAGCAT
*
26729509 CATTCTCTCTTTTTCTCTTAGCCTTTTC
1 CATTCTCACTTTTTCTCTTAGCCTTTTC
26729537 CATTCTCACTTTTTCTCTTAGCCTTTTC
1 CATTCTCACTTTTTCTCTTAGCCTTTTC
26729565 CATTC
1 CATTC
26729570 CCACACTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.10, C:0.33, G:0.03, T:0.54
Consensus pattern (28 bp):
CATTCTCACTTTTTCTCTTAGCCTTTTC
Found at i:26738702 original size:26 final size:27
Alignment explanation
Indices: 26738664--26738723 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
26738654 AAAAACGCCT
*
26738664 TTGTGGCGTAATATGAAA-GAAAGCCC
1 TTGTGGCGGAATATGAAAGGAAAGCCC
* *
26738690 TTGTGGCGGAATATGAAAGGAATGCCT
1 TTGTGGCGGAATATGAAAGGAAAGCCC
26738717 TTGTGGC
1 TTGTGGC
26738724 AAAATTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (27 bp):
TTGTGGCGGAATATGAAAGGAAAGCCC
Found at i:26744971 original size:104 final size:103
Alignment explanation
Indices: 26744759--26745127 Score: 591
Period size: 104 Copynumber: 3.6 Consensus size: 103
26744749 TGTATATAAA
** *
26744759 AGGGGTTGCTGTGTGCTGATTCCCCGATTCA-TGG-GGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
26744821 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
26744861 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
* *
26744926 TTGAAATGAAAAGGGGGTTGCTATGTTCTTATTCCCCCG
65 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
26744965 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
26745030 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * **
26745069 AGGGGTTGCTATGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
26745128 ATAACGGTTA
Statistics
Matches: 251, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
102 25 0.10
103 33 0.13
104 159 0.63
105 33 0.13
106 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:26748451 original size:43 final size:43
Alignment explanation
Indices: 26748373--26748464 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
26748363 GAAACACGAG
* *
26748373 CGTGTGTCTCAGCCGTGTGACTTACACAACCTAGCTATACGGC
1 CGTGTGTCTCAGCCATGTGACTTACACAACCTAGCTACACGGC
* * *** *
26748416 TGTGTGTCTCAGCCATGTGAGTTACATGGCTTAGCTACACGGC
1 CGTGTGTCTCAGCCATGTGACTTACACAACCTAGCTACACGGC
26748459 CGTGTG
1 CGTGTG
26748465 ACCCTTACAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.28
Consensus pattern (43 bp):
CGTGTGTCTCAGCCATGTGACTTACACAACCTAGCTACACGGC
Found at i:26751710 original size:29 final size:30
Alignment explanation
Indices: 26751664--26751722 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
26751654 TAATTGGATC
26751664 AAATCAAAATTTAATGTATAAAATTGCACA
1 AAATCAAAATTTAATGTATAAAATTGCACA
*
26751694 AAATCACAATTT-ATGTATAAAATTGCACA
1 AAATCAAAATTTAATGTATAAAATTGCACA
26751723 TTAGGTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTAATGTATAAAATTGCACA
Found at i:26757218 original size:30 final size:30
Alignment explanation
Indices: 26757184--26757248 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
26757174 ACTTGTTTTG
26757184 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
26757214 TTGTTAATTTTGTTATTATTTTATAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
26757244 TTGTT
1 TTGTT
26757249 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:26760126 original size:30 final size:31
Alignment explanation
Indices: 26760081--26760140 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26760071 GGAGGTGGGA
*
26760081 TGAGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGAGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
26760112 TGAG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGAGAAGGGAATAAAAATTTTAGGGGAAAA
26760141 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGAGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:26760425 original size:23 final size:24
Alignment explanation
Indices: 26760363--26760425 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
26760353 TATTCGAATT
*
26760363 ATTCGAGTT-ATTCGAATTCGAAA
1 ATTCGAGTTGATTCGAACTCGAAA
* * * *
26760386 ACTCAACTCGATTCGAACTCG-AA
1 ATTCGAGTTGATTCGAACTCGAAA
26760409 ATTCGAGTTGATTCGAA
1 ATTCGAGTTGATTCGAA
26760426 TAACTCGAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (24 bp):
ATTCGAGTTGATTCGAACTCGAAA
Found at i:26762020 original size:52 final size:53
Alignment explanation
Indices: 26761932--26762033 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
26761922 TCCTTAAATT
*
26761932 TTCCCATATGATGTCATAACCCACCAATTACGGTCTTACACAATATGGTCTTC
1 TTCCCATATGATGCCATAACCCACCAATTACGGTCTTACACAATATGGTCTTC
* ** *
26761985 TTCCCATATGAT-CCATAACCCACCAGTTATTGTCTTACACGATATGGTC
1 TTCCCATATGATGCCATAACCCACCAATTACGGTCTTACACAATATGGTC
26762034 ATTCAGTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 32 0.73
53 12 0.27
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCCCATATGATGCCATAACCCACCAATTACGGTCTTACACAATATGGTCTTC
Found at i:26763252 original size:17 final size:16
Alignment explanation
Indices: 26763232--26763296 Score: 53
Period size: 17 Copynumber: 4.0 Consensus size: 16
26763222 TATGTATATA
26763232 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
* *
26763249 TAATAATTATTAAAAA
1 TAATAAATATTAAAAT
* *
26763265 T-ATAAAAATTAAATT
1 TAATAAATATTAAAAT
26763280 TAATGATAATA-TAAAAT
1 TAAT-A-AATATTAAAAT
26763297 ATGTAGTGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 11 0.30
16 8 0.22
17 15 0.41
18 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:26763677 original size:19 final size:18
Alignment explanation
Indices: 26763650--26763685 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
26763640 TGGATTTAGA
26763650 TTTAGATATATATTATATG
1 TTTAGATATATA-TATATG
*
26763669 TTTATATATATATATAT
1 TTTAGATATATATATAT
26763686 AAAAAACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAGATATATATATATG
Found at i:26763930 original size:20 final size:19
Alignment explanation
Indices: 26763902--26763994 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 19
26763892 AATGATTAAA
26763902 TAATCAAATATTAATAAAAAT
1 TAAT-AAATATT-ATAAAAAT
*
26763923 TAATAAATATT-TAACAA-
1 TAATAAATATTATAAAAAT
* *
26763940 TATTAAA-ATTGATATAAACT
1 TAATAAATATT-ATA-AAAAT
26763960 T-ATAAATATTATAAAAAT
1 TAATAAATATTATAAAAAT
* *
26763978 ATAACAAATATAATAAA
1 -TAATAAATATTATAAA
26763995 TTCTATAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
16 3 0.05
17 6 0.11
18 11 0.19
19 10 0.18
20 23 0.40
21 4 0.07
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
TAATAAATATTATAAAAAT
Found at i:26763994 original size:37 final size:37
Alignment explanation
Indices: 26763901--26764018 Score: 91
Period size: 37 Copynumber: 3.1 Consensus size: 37
26763891 AAATGATTAA
*
26763901 ATAATCAAATATTAATAAAAATTAATAAATATT-TAACAAT
1 ATAA-CAAATA-TAAT-AAAATT-ATAAATATTATAAAAAT
* *
26763941 ATTA-AAAT-TGATATAAACTTATAAATATTATAAAAAT
1 ATAACAAATAT-A-ATAAAATTATAAATATTATAAAAAT
*
26763978 ATAACAAATATAATAAATTCTATAAA-ATTAATAAAATAT
1 ATAACAAATATAATAAAAT-TATAAATATT-ATAAAA-AT
26764017 AT
1 AT
26764019 TTAAAATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
36 10 0.15
37 24 0.37
38 23 0.35
39 5 0.08
40 3 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
ATAACAAATATAATAAAATTATAAATATTATAAAAAT
Found at i:26764043 original size:20 final size:20
Alignment explanation
Indices: 26763998--26764056 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
26763988 TAATAAATTC
* *
26763998 TATAAAA-TTAATAAAATATA
1 TATAAAATTTTATAAAA-ACA
*
26764018 TTTAAAATTTTATAAAAACA
1 TATAAAATTTTATAAAAACA
26764038 TATAAAATTTCT-TAAAAAC
1 TATAAAATTT-TATAAAAAC
26764057 TTTATAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAAATTTTATAAAAACA
Found at i:26777689 original size:27 final size:27
Alignment explanation
Indices: 26777651--26777703 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
26777641 TCAAAAAAGG
26777651 GATTGTCCAAGTTTAAACTTAGAATTT
1 GATTGTCCAAGTTTAAACTTAGAATTT
*
26777678 GATTGTCCAAGTTTAAACTTGGAATT
1 GATTGTCCAAGTTTAAACTTAGAATT
26777704 CTTTAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GATTGTCCAAGTTTAAACTTAGAATTT
Found at i:26779747 original size:29 final size:30
Alignment explanation
Indices: 26779714--26779770 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
26779704 ACAACCTGGA
* *
26779714 CACACGGCCATGTCC-TTGCCTGTGTGGCT
1 CACACGCCCATGTCCTTTGCCCGTGTGGCT
26779743 CACACGCCCATGTCCTTTGCCCGTGTGG
1 CACACGCCCATGTCCTTTGCCCGTGTGG
26779771 TTCTGGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.11, C:0.37, G:0.26, T:0.26
Consensus pattern (30 bp):
CACACGCCCATGTCCTTTGCCCGTGTGGCT
Found at i:26791562 original size:6 final size:6
Alignment explanation
Indices: 26791551--26791588 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
26791541 GTTAATAAAG
26791551 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT AC
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT AC
26791589 GCGTGCACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (6 bp):
ACACAT
Found at i:26796380 original size:26 final size:26
Alignment explanation
Indices: 26796347--26796398 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
26796337 GTGGATGCTT
* *
26796347 AGAAGTTGTTAGCTAGGACTCTTAGA
1 AGAAGTTGCTAGCTAGGACTCCTAGA
*
26796373 AGAAGTTGCTAGGTAGGACTCCTAGA
1 AGAAGTTGCTAGCTAGGACTCCTAGA
26796399 GTAAAATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (26 bp):
AGAAGTTGCTAGCTAGGACTCCTAGA
Found at i:26802811 original size:37 final size:38
Alignment explanation
Indices: 26802746--26802825 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 38
26802736 AAAATTTTCC
* * *
26802746 AAAAATAAAAAAAATCAAAACATGAGAAA-TCATTTTA
1 AAAAATAAAAAAAATCAAAACATAAGAAAGCCATTTAA
** * *
26802783 AAAAATAAAAATTATTAAAATATAAGAAAGCCATTTAA
1 AAAAATAAAAAAAATCAAAACATAAGAAAGCCATTTAA
26802821 AAAAA
1 AAAAA
26802826 AGTGTTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
37 24 0.69
38 11 0.31
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (38 bp):
AAAAATAAAAAAAATCAAAACATAAGAAAGCCATTTAA
Found at i:26803750 original size:14 final size:14
Alignment explanation
Indices: 26803733--26803761 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26803723 ATTATCTAAT
26803733 GGTCTTATGAGAAG
1 GGTCTTATGAGAAG
26803747 GGTCTTATGAGAAG
1 GGTCTTATGAGAAG
26803761 G
1 G
26803762 ATCGCCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.28
Consensus pattern (14 bp):
GGTCTTATGAGAAG
Found at i:26813811 original size:14 final size:15
Alignment explanation
Indices: 26813787--26813817 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26813777 AATAACAAAA
26813787 AAAATATTTTAATAT
1 AAAATATTTTAATAT
26813802 AAAA-ATTTTAATAT
1 AAAATATTTTAATAT
26813816 AA
1 AA
26813818 TTTAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATTTTAATAT
Found at i:26813885 original size:30 final size:30
Alignment explanation
Indices: 26813800--26813913 Score: 110
Period size: 30 Copynumber: 3.8 Consensus size: 30
26813790 ATATTTTAAT
*
26813800 ATAAAAATTTTAATATAATTTAATAT-AAA
1 ATAAAAATTTTAATATATTTTAATATAAAA
** * *
26813829 ATATTATTTTTAA-AT-TTCATGAAATATAAAA
1 ATAAAAATTTTAATATATT--T-TAATATAAAA
26813860 ATAAAATATTTTAA-ATATTTTAATATAAAA
1 ATAAAA-ATTTTAATATATTTTAATATAAAA
26813890 ATAAAAATTTTAATATATATTTAA
1 ATAAAAATTTTAATATAT-TTTAA
26813914 ATATTATTCT
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.01
28 2 0.03
29 18 0.26
30 24 0.35
31 13 0.19
32 8 0.12
33 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
ATAAAAATTTTAATATATTTTAATATAAAA
Found at i:26813914 original size:20 final size:20
Alignment explanation
Indices: 26813865--26813914 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
26813855 TAAAAATAAA
*
26813865 ATAT-TTTAAATATTTTAAT
1 ATATATTTAAAAATTTTAAT
* **
26813884 ATAAAAATAAAAATTTTAAT
1 ATATATTTAAAAATTTTAAT
26813904 ATATATTTAAA
1 ATATATTTAAA
26813915 TATTATTCTT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATTTAAAAATTTTAAT
Found at i:26813951 original size:20 final size:21
Alignment explanation
Indices: 26813912--26813956 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
26813902 ATATATATTT
*
26813912 AAATATTATTCTTTTGATATA
1 AAATATTATTCTTTTAATATA
*
26813933 AAATATTATTC-TTTAATATT
1 AAATATTATTCTTTTAATATA
26813953 AAAT
1 AAAT
26813957 TGATGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATATTATTCTTTTAATATA
Found at i:26813955 original size:21 final size:22
Alignment explanation
Indices: 26813906--26813955 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
26813896 ATTTTAATAT
* *
26813906 ATATTTAAATATTATTCTTTTG
1 ATATTAAAATATTATTCTTTTA
26813928 ATA-TAAAATATTATTC-TTTA
1 ATATTAAAATATTATTCTTTTA
26813948 ATATTAAA
1 ATATTAAA
26813956 TTGATGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTAAAATATTATTCTTTTA
Found at i:26814899 original size:21 final size:20
Alignment explanation
Indices: 26814857--26814907 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
26814847 ATATGTATGA
*
26814857 AAAAT-ATAATTATATTTAT
1 AAAATAATAATTAAATTTAT
*
26814876 AAATTCAATAATTAAATTGT-T
1 AAAAT-AATAATTAAATT-TAT
26814897 AAAATAATAAT
1 AAAATAATAAT
26814908 GGTATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 15 0.58
22 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATAATAATTAAATTTAT
Found at i:26815678 original size:18 final size:19
Alignment explanation
Indices: 26815652--26815691 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
26815642 GGTAAAAGCT
* *
26815652 ATTATAATTA-TAATTTAA
1 ATTACAATTACTAATTAAA
26815670 ATTACAATTACTAATTAAA
1 ATTACAATTACTAATTAAA
26815689 ATT
1 ATT
26815692 GGTGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTACAATTACTAATTAAA
Found at i:26830448 original size:41 final size:41
Alignment explanation
Indices: 26830404--26830553 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
26830394 TTTAACATAT
* * * *
26830404 TCACCGGCATTTAGCTTGCTAGGCTTATAGCCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
26830445 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
** *
26830486 TCACCAACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
26830527 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
26830554 AAGTCCGAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:26833452 original size:15 final size:15
Alignment explanation
Indices: 26833432--26833463 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26833422 CATTTCACTG
*
26833432 TTATGTCTTTTTTAT
1 TTATGTCTTTTATAT
26833447 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
26833462 TT
1 TT
26833464 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:26835118 original size:37 final size:35
Alignment explanation
Indices: 26835072--26835203 Score: 90
Period size: 37 Copynumber: 3.5 Consensus size: 35
26835062 TCGTATTTTA
*
26835072 TTAATTTAATATTAAAGTGATTATCTTAATATTTAAT
1 TTAATTTAAT-TTAAAGT-ATTATCTTAAAATTTAAT
* *
26835109 TTAATTTAATTTAATGTTTATTTATC-TAAGATTTAAT
1 TTAATTTAATTTAAAG--TA-TTATCTTAAAATTTAAT
*
26835146 ATTAAATGTAATTTAAA-T-TTATCTTGATAAATATTAGAT
1 -TT-AATTTAATTTAAAGTATTATCTT-A-AAAT-TTA-AT
*
26835185 TAAATTTAATATTAAAGTA
1 TTAATTTAAT-TTAAAGTA
26835204 ATTAAGTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
34 5 0.07
35 1 0.01
36 7 0.09
37 31 0.41
38 17 0.23
39 14 0.19
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (35 bp):
TTAATTTAATTTAAAGTATTATCTTAAAATTTAAT
Found at i:26841114 original size:8 final size:8
Alignment explanation
Indices: 26841094--26841124 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
26841084 TTAGCATAGT
26841094 TTTTCATTA
1 TTTTCA-TA
26841103 TTTTCATA
1 TTTTCATA
26841111 TTTTCATA
1 TTTTCATA
26841119 TTTTCA
1 TTTTCA
26841125 AATAATAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTCATA
Found at i:26844170 original size:25 final size:25
Alignment explanation
Indices: 26843983--26844215 Score: 87
Period size: 24 Copynumber: 9.4 Consensus size: 25
26843973 TGACTCTTTG
*
26843983 TGAGCTTCCCG--ATATGGCTCGCT-
1 TGAGCTTCCCGTTATATGGCTC-ATA
* * *
26844006 TGAACTTCCCGTTAT-TAAGCT-ATC
1 TGAGCTTCCCGTTATAT-GGCTCATA
* *
26844030 TGGAGCTTCCCATTAT-TGGCTC-TT
1 T-GAGCTTCCCGTTATATGGCTCATA
* * *
26844054 TGGAGCTACCTGTTAT-TAGCTCATA
1 T-GAGCTTCCCGTTATATGGCTCATA
* * *
26844079 TGAGCTTCCTG-AATATGGCTCTTA
1 TGAGCTTCCCGTTATATGGCTCATA
* **
26844103 TGAGCTTCCCGATATAAAGCTCGA-A
1 TGAGCTTCCCGTTATATGGCTC-ATA
* * * *
26844128 TAAGC-TCCTGTTACATGGCTCACA
1 TGAGCTTCCCGTTATATGGCTCATA
* *
26844152 TGAGCTTCCCGTTATATGGCTTGAGA
1 TGAGCTTCCCGTTATATGGC-TCATA
*
26844178 -GAGTGCTTCCCGTTA-ATGTGCTCTTA
1 TGA--GCTTCCCGTTATATG-GCTCATA
26844204 TGAGCATTCCCG
1 TGAGC-TTCCCG
26844216 AATATGAATT
Statistics
Matches: 157, Mismatches: 35, Indels: 33
0.70 0.16 0.15
Matches are distributed among these distances:
23 14 0.09
24 66 0.42
25 48 0.31
26 14 0.09
27 15 0.10
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGTTATATGGCTCATA
Found at i:26845746 original size:52 final size:50
Alignment explanation
Indices: 26845584--26845868 Score: 234
Period size: 50 Copynumber: 5.5 Consensus size: 50
26845574 ACATGCCAAA
** * *
26845584 GCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACGGGGGA-GTTCTCATAT-CGGTGCCCAT
* * * * * **
26845633 GACATATCCCAGATATGATCTTTTCATGGGAGTTCTCATAATCGGGTGCCCCAT
1 GCCATGTCCCAGACATGGTC-TTACGGGGGAGTTCTCAT-ATC-GGTG-CCCAT
26845687 GCCATGTCCCAGACATGGTCTTACGGGGGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTAC--GGGGGAGTTCTCATATCGGTGCCCAT
** * * *
26845739 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACGGGGGAGTTCTCATATCGGTGCCCAT
** ** *
26845789 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACGGGGGAGTTCTCAT-A--TC--GG-TGCCCAT
26845845 GCCATGTCCCAGACATGGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
26845869 ATGGGATCTC
Statistics
Matches: 198, Mismatches: 23, Indels: 23
0.81 0.09 0.09
Matches are distributed among these distances:
49 19 0.10
50 71 0.36
51 1 0.01
52 29 0.15
53 11 0.06
54 23 0.12
55 14 0.07
56 30 0.15
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACGGGGGAGTTCTCATATCGGTGCCCAT
Found at i:26846250 original size:30 final size:30
Alignment explanation
Indices: 26846216--26846273 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26846206 CCTCGACTCT
*
26846216 AACTTTGAAAAAATTACAATTTTGCCCCTA
1 AACTTTGAAAAAATTACAATTTTACCCCTA
* * *
26846246 AACTTTTACATAATTACAATTTTACCCC
1 AACTTTGAAAAAATTACAATTTTACCCC
26846274 AAAGCTCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
AACTTTGAAAAAATTACAATTTTACCCCTA
Found at i:26847182 original size:14 final size:14
Alignment explanation
Indices: 26847163--26847190 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26847153 ATCATTACCC
26847163 ATATATATATATGT
1 ATATATATATATGT
26847177 ATATATATATATGT
1 ATATATATATATGT
26847191 CGAAACCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:26848272 original size:15 final size:16
Alignment explanation
Indices: 26848243--26848281 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
26848233 CAAAAAGTTA
*
26848243 GAAATGAATACTATAT
1 GAAATGAATAATATAT
26848259 GAAAT-AATAATATAT
1 GAAATGAATAATATAT
26848274 -AAATGAAT
1 GAAATGAAT
26848282 TTTCAGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (16 bp):
GAAATGAATAATATAT
Found at i:26849941 original size:16 final size:17
Alignment explanation
Indices: 26849901--26849941 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
26849891 TTTTTGGACT
26849901 ATTATTTTATTTTATTTG
1 ATTA-TTTATTTTATTTG
*
26849919 GTT-TTTATTTT-TTTG
1 ATTATTTATTTTATTTG
26849934 ATTATTTA
1 ATTATTTA
26849942 ATCTGCATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.30
16 12 0.60
18 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (17 bp):
ATTATTTATTTTATTTG
Found at i:26849984 original size:2 final size:2
Alignment explanation
Indices: 26849977--26850004 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26849967 GGGTAGTACA
26849977 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
26850005 GAAATACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26851735 original size:3 final size:3
Alignment explanation
Indices: 26851727--26851801 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
26851717 AAGGAGCAAG
26851727 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26851775 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
26851802 CATTCTTTGC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26852890 original size:27 final size:28
Alignment explanation
Indices: 26852859--26852922 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
26852849 TTTTTTCTTC
* *
26852859 TTGGTACCTAAA-TTTTTTTTTTCATAAG
1 TTGGTACCTAAACTATTTTTTTCCA-AAG
*
26852887 -TGGTACTTAAACTATTTTTTTCCAAAG
1 TTGGTACCTAAACTATTTTTTTCCAAAG
26852914 TTGGTACCT
1 TTGGTACCT
26852923 TTGTCAGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (28 bp):
TTGGTACCTAAACTATTTTTTTCCAAAG
Found at i:26857854 original size:25 final size:24
Alignment explanation
Indices: 26857783--26857978 Score: 96
Period size: 25 Copynumber: 7.9 Consensus size: 24
26857773 GGAAGCTGAT
* * *
26857783 AAGAGCCATAGTCAGAAAGCTCATG
1 AAGAGCCATAATCAGGAAGCTC-CG
* *
26857808 -CGAGCCAATAA-CAGGTAGCTCCG
1 AAGAGCC-ATAATCAGGAAGCTCCG
*
26857831 AAGAGCCACTAATCGGGAAGCTCCG
1 AAGAGCCA-TAATCAGGAAGCTCCG
* * * **
26857856 GATAGCCATATATCAGAAAG-T-TT
1 AAGAGCCATA-ATCAGGAAGCTCCG
*
26857879 AAGCGAGCCAT-ATCAGGAAGCTCTG
1 AA--GAGCCATAATCAGGAAGCTCCG
* *
26857904 GAGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCA-TAATCAGGAAGCTC-CG
* * *
26857930 AAGAGCCTTTAATCGGGAAGCTCATG
1 AAGAGCC-ATAATCAGGAAGCTC-CG
*
26857956 AAGAGCCATATATCAGGACGCTC
1 AAGAGCCATA-ATCAGGAAGCTC
26857979 ATAAAAGTTG
Statistics
Matches: 128, Mismatches: 29, Indels: 27
0.70 0.16 0.15
Matches are distributed among these distances:
23 17 0.13
24 26 0.20
25 48 0.38
26 37 0.29
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (24 bp):
AAGAGCCATAATCAGGAAGCTCCG
Found at i:26857864 original size:73 final size:73
Alignment explanation
Indices: 26857786--26857926 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
26857776 AGCTGATAAG
* * * *
26857786 AGCCATA-GTCAGAAAGCTCATGCGAGCCAATAACAGGTAGCTCCGAAGAGCCACTAATCGGGAA
1 AGCCATATATCAGAAAGCTCAAGCGAGCC-ATAACAGGAAGCTCCGAAGAGCCACTAATCAGGAA
26857850 GCTCCGGAT
65 GCTCCGGAT
* * * * * *
26857859 AGCCATATATCAGAAAGTTTAAGCGAGCCATATCAGGAAGCTCTGGAGAGCCATTAATCAGGAAG
1 AGCCATATATCAGAAAGCTCAAGCGAGCCATAACAGGAAGCTCCGAAGAGCCACTAATCAGGAAG
26857924 CTC
66 CTC
26857927 ACAAAGAGCC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 40 0.70
74 17 0.30
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (73 bp):
AGCCATATATCAGAAAGCTCAAGCGAGCCATAACAGGAAGCTCCGAAGAGCCACTAATCAGGAAG
CTCCGGAT
Found at i:26857980 original size:26 final size:27
Alignment explanation
Indices: 26857890--26857980 Score: 100
Period size: 26 Copynumber: 3.5 Consensus size: 27
26857880 AGCGAGCCAT
*
26857890 ATCAGGAAGCTC-TGGAGAGCCAT-TA
1 ATCAGGAAGCTCATGAAGAGCCATATA
** *
26857915 ATCAGGAAGCTCACAAAGAGCC-TTTA
1 ATCAGGAAGCTCATGAAGAGCCATATA
*
26857941 ATCGGGAAGCTCATGAAGAGCCATAT-
1 ATCAGGAAGCTCATGAAGAGCCATATA
*
26857967 ATCAGGACGCTCAT
1 ATCAGGAAGCTCAT
26857981 AAAAGTTGCG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
25 13 0.24
26 39 0.72
27 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
ATCAGGAAGCTCATGAAGAGCCATATA
Found at i:26862497 original size:20 final size:20
Alignment explanation
Indices: 26862472--26862521 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
26862462 TTAGGTTGGA
26862472 TAAATTATATGAGTTTGTTT
1 TAAATTATATGAGTTTGTTT
26862492 TAAATTATATGAGTTTGTTT
1 TAAATTATATGAGTTTGTTT
*
26862512 TAAATAATAT
1 TAAATTATAT
26862522 CATTGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (20 bp):
TAAATTATATGAGTTTGTTT
Found at i:26863775 original size:56 final size:55
Alignment explanation
Indices: 26863704--26863895 Score: 161
Period size: 56 Copynumber: 3.3 Consensus size: 55
26863694 TTATTGTTAA
26863704 ATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAGTATTAAATATTCTT
1 ATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAGTATTAAATATTCTT
* * * * * * * *
26863759 ATATGAATTTACTAAAATCATAATATATAATACTACAAAAAATAATTTA-AAATAATTATTATT
1 ATAT-AATTTA--ATAA--A-AATATATAAT-TTA-ATAAAAT-TTTTAGTATTAAATATTCTT
* * *
26863822 AAATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAACATTCTT
1 --ATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAGTATTAAATATTCTT
*
26863879 ATATGAATTTACTAAAA
1 ATAT-AATTTAATAAAA
26863896 TCATAATATA
Statistics
Matches: 104, Mismatches: 20, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
55 8 0.08
56 20 0.19
57 15 0.14
58 4 0.04
59 10 0.10
60 2 0.02
61 10 0.10
62 5 0.05
63 16 0.15
64 10 0.10
65 4 0.04
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (55 bp):
ATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAGTATTAAATATTCTT
Found at i:26863824 original size:120 final size:120
Alignment explanation
Indices: 26863692--26863953 Score: 461
Period size: 120 Copynumber: 2.2 Consensus size: 120
26863682 ATAAATAATA
* * *
26863692 AATTATTGTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAGTATTAAATATTC
1 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAACATTC
26863757 TTATATGAATTTACTAAAATCATAATATATAATACTACAAAAAATAATTTAAAAT
66 TTATATGAATTTACTAAAATCATAATATATAATACTACAAAAAATAATTTAAAAT
*
26863812 AATTATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAACATTC
1 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAACATTC
* *
26863877 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
66 TTATATGAATTTACTAAAATCATAATATATAATACTACAAAAAATAATTTAAAAT
*
26863932 AATTATTATTAAACATAATTTA
1 AATTATTATTAAATATAATTTA
26863954 TAATCTACTT
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 135 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAACATTC
TTATATGAATTTACTAAAATCATAATATATAATACTACAAAAAATAATTTAAAAT
Found at i:26863904 original size:61 final size:59
Alignment explanation
Indices: 26863719--26863919 Score: 165
Period size: 61 Copynumber: 3.3 Consensus size: 59
26863709 ATTTAATAAA
*
26863719 AATATATAATTTAATAAAATTTTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTT-ATAAAATTATTAGTATTAAA-ATTCTTATATGAATTTACTAAAATCAT
* * * * ** * * * ** * *
26863780 AATATATAATACTACAAAA--AATAAT-TTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAAT-TTATAAAATTATTAGTATTAAAATTCTTA-TA-TGAATTTACTAAAATCAT
*
26863839 AATATATAATTTGATAAAATTCTTAGTATTAAACATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTT-ATAAAATTATTAGTATTAAA-ATTCTTATATGAATTTACTAAAATCAT
*
26863900 AATATATAATACTATAAAAT
1 AATATATAAT-TTATAAAAT
26863920 ATAATTTAAA
Statistics
Matches: 102, Mismatches: 29, Indels: 18
0.68 0.19 0.12
Matches are distributed among these distances:
57 5 0.05
58 8 0.08
59 29 0.28
61 46 0.45
62 9 0.09
63 5 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (59 bp):
AATATATAATTTATAAAATTATTAGTATTAAAATTCTTATATGAATTTACTAAAATCAT
Found at i:26863905 original size:59 final size:58
Alignment explanation
Indices: 26863722--26863905 Score: 162
Period size: 57 Copynumber: 3.1 Consensus size: 58
26863712 TAATAAAAAT
26863722 ATATAATTTAATAAAATTTTTAGTATTAAATATTCTTATATGAATTTACTAAAATCATAA
1 ATATAATTTAATAAAA-TTTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT-A
* * * * * * *
26863782 TATATAATACTACAAAAAATAATTTA-AAATAATTATTATTAAATAT-AATTTAATAAAA--AT-
1 -ATATAAT-TTA-ATAAAAT--TTTAGTATTAAATATTCTT--ATATGAATTTACTAAAATCATA
* *
26863842 ATATAATTTGATAAAATTCTTAGTATTAAACATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATT-TTAGTATTAAATATTCTTATATGAATTTACTAAAATCATA
26863901 ATATA
1 ATATA
26863906 TAATACTATA
Statistics
Matches: 95, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
55 5 0.05
56 14 0.15
57 15 0.16
58 3 0.03
59 12 0.13
61 7 0.07
62 5 0.05
63 15 0.16
64 15 0.16
65 4 0.04
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
ATATAATTTAATAAAATTTTAGTATTAAATATTCTTATATGAATTTACTAAAATCATA
Found at i:26866208 original size:51 final size:50
Alignment explanation
Indices: 26866131--26866235 Score: 174
Period size: 51 Copynumber: 2.1 Consensus size: 50
26866121 ATGCTGGTTT
* *
26866131 TGATACCCTATCTTGATACGTGCAACAAATGGACACTTAAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTT-AATATAAACAAA
*
26866182 TGATACCCTATCTTGATACATACAACACATGGACACTTAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
26866232 TGAT
1 TGAT
26866236 TTATAGCTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 16 0.31
51 35 0.69
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (50 bp):
TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
Found at i:26866886 original size:227 final size:227
Alignment explanation
Indices: 26866491--26866944 Score: 863
Period size: 227 Copynumber: 2.0 Consensus size: 227
26866481 GATAGCCGAT
* *
26866491 TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCATAACTCAGTGTGAA
1 TGGATCCTTTGCTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
*
26866556 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGGGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGAGCCAATCCCA
26866621 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
131 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
26866686 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
196 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
*
26866718 TGGATCCTTTGTTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
1 TGGATCCTTTGCTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
*
26866783 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGAGCCAATCCCA
26866848 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
131 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
26866913 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
196 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
26866945 CAATGCTGGA
Statistics
Matches: 222, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
227 222 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (227 bp):
TGGATCCTTTGCTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGAGCCAATCCCA
AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
AACCACCTTCGGCCCTATTTGTCAAGAATCGA
Found at i:26867568 original size:2 final size:2
Alignment explanation
Indices: 26867561--26867595 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26867551 TAAGTGAATA
26867561 AT AT 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 AT AT A
26867596 AAGAAGATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26868486 original size:32 final size:33
Alignment explanation
Indices: 26868436--26868500 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
26868426 ATCTTATAAG
*
26868436 ACATATGGGAGGGGTCTAAAAATTAAAATAATT
1 ACATATGGGAGGGATCTAAAAATTAAAATAATT
26868469 ACATAT-GGAGGGATCTAAAAATTAAAATAATT
1 ACATATGGGAGGGATCTAAAAATTAAAATAATT
26868501 TTACACATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.81
33 6 0.19
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (33 bp):
ACATATGGGAGGGATCTAAAAATTAAAATAATT
Found at i:26869452 original size:3 final size:3
Alignment explanation
Indices: 26869446--26869471 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26869436 CACATCGTCC
26869446 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
26869472 ATCGAGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:26874553 original size:26 final size:26
Alignment explanation
Indices: 26874503--26874553 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
26874493 TTGGATGATT
*
26874503 GAACGATTGAAATTTTAAGGGAAAGG
1 GAACGATTGAAATTTTAAGGAAAAGG
*
26874529 GAACGGTTGAAATTTT-AGAGAAAAG
1 GAACGATTGAAATTTTAAG-GAAAAG
26874554 ATATCGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.24
Consensus pattern (26 bp):
GAACGATTGAAATTTTAAGGAAAAGG
Found at i:26875704 original size:13 final size:14
Alignment explanation
Indices: 26875680--26875709 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
26875670 TACAAAATAT
26875680 GTATATATATATAA
1 GTATATATATATAA
26875694 GTATA-ATATATAA
1 GTATATATATATAA
26875707 GTA
1 GTA
26875710 AATTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (14 bp):
GTATATATATATAA
Found at i:26875805 original size:19 final size:18
Alignment explanation
Indices: 26875762--26875808 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
26875752 ATAAGTATAC
26875762 ATATAT-AAAATAAATAA
1 ATATATAAAAATAAATAA
* *
26875779 ATAAATAAAAATGAATGAA
1 ATATATAAAAATAAAT-AA
26875798 ATATATAAAAA
1 ATATATAAAAA
26875809 AACTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 5 0.20
18 8 0.32
19 12 0.48
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (18 bp):
ATATATAAAAATAAATAA
Found at i:26876081 original size:3 final size:3
Alignment explanation
Indices: 26876073--26876101 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26876063 TTAATATAGA
26876073 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26876102 GAGAAAGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26890722 original size:34 final size:34
Alignment explanation
Indices: 26890678--26890748 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
26890668 TTCTAAGCGC
*
26890678 GTTAGGGTTTTGTTTATTTAAA-TTAGGATTTAGG
1 GTTAGGGTTTTGTTTATTTAAAGTAAGG-TTTAGG
*
26890712 GTTAGTGTTTTGTTTATTTAAAGTAAGGTTTAGG
1 GTTAGGGTTTTGTTTATTTAAAGTAAGGTTTAGG
26890746 GTT
1 GTT
26890749 TTTTTGAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.51
Consensus pattern (34 bp):
GTTAGGGTTTTGTTTATTTAAAGTAAGGTTTAGG
Found at i:26891335 original size:40 final size:41
Alignment explanation
Indices: 26891284--26891388 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 41
26891274 AAGCGCCACA
* *
26891284 AAAAATCGAGCATTAGCGGCGATTTAGCCA-AAGCACCGCT
1 AAAAATAGAGCATTAGCGGCGATTTACCCAGAAGCACCGCT
** * * *
26891324 AAAGGTAGAGCATCAGCGGAGATTT-CCCAGAAGCGCCGCT
1 AAAAATAGAGCATTAGCGGCGATTTACCCAGAAGCACCGCT
* *
26891364 AAAAATAG-GAATTAGCGGCGTTTTA
1 AAAAATAGAGCATTAGCGGCGATTTA
26891389 TATAAAGCGC
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
39 15 0.30
40 35 0.70
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (41 bp):
AAAAATAGAGCATTAGCGGCGATTTACCCAGAAGCACCGCT
Found at i:26891503 original size:41 final size:41
Alignment explanation
Indices: 26891445--26891683 Score: 261
Period size: 41 Copynumber: 5.8 Consensus size: 41
26891435 ATTTTTTAAA
*
26891445 CCTTTAGCGGCGTTTTTATCTAAGTGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * *
26891485 ATCTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
*
26891527 CCTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * * *
26891567 ATCTTTAGCCGG-GTTTTTATCTGAGCGCCACTAATTCTCTGG
1 -CCTTTAG-CGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * * **
26891609 CCTTTAGCGGCATTTGTAGCTAAGCGCCGCTAATGCAT-TTA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCTGG
** *
26891650 CCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
26891684 AGTAACAAAA
Statistics
Matches: 165, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
40 5 0.03
41 152 0.92
42 8 0.05
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
Found at i:26891657 original size:82 final size:81
Alignment explanation
Indices: 26891445--26891644 Score: 310
Period size: 82 Copynumber: 2.4 Consensus size: 81
26891435 ATTTTTTAAA
* * *
26891445 CCTTTAGCGGCGTTTTTATCTAAGTGCCGCTAATGCTCGGATCTTTAGCAGCGTTTTTATCTAAG
1 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTAAG
*
26891510 CGCCGCTAATTCTCTGG
65 CGCCACTAATTCTCTGG
*
26891527 CCTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTT-ATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTAAG
26891592 CGCCACTAATTCTCTGG
65 CGCCACTAATTCTCTGG
* *
26891609 CCTTTAGCGGCATTTGTAGCTAAGCGCCGCTAATGC
1 CCTTTAGCGGCGTTT-TATCTAAGCGCCGCTAATGC
26891645 ATTTACCTTT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
81 4 0.04
82 104 0.95
83 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTAAGC
GCCACTAATTCTCTGG
Found at i:26891676 original size:82 final size:81
Alignment explanation
Indices: 26891445--26891683 Score: 295
Period size: 82 Copynumber: 2.9 Consensus size: 81
26891435 ATTTTTTAAA
* * * *
26891445 CCTTTAGCGGCGTTTTTATCTAAGTGCCGCTAATGCTCGGATCTTTAGCAGCGTTTTTATCTAAG
1 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTACCGAAG
26891510 CGCCGCTAATTCTCTGG
65 CGCCGCTAATTCTCTGG
*
26891527 CCTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGG-GTTTTTATCTG-
1 CCTTTAGCGGCGTTTT-ATCTAAGCGCCGCTAATGCTCGGATCTTTAG-CGGCGTTTTTA-CCGA
*
26891590 AGCGCCACTAATTCTCTGG
63 AGCGCCGCTAATTCTCTGG
* * ** * *
26891609 CCTTTAGCGGCATTTGTAGCTAAGCGCCGCTAATGCAT-TTACCTTTAGCGGCGTTTTTGCCGAA
1 CCTTTAGCGGCGTTT-TATCTAAGCGCCGCTAATGC-TCGGATCTTTAGCGGCGTTTTTACCGAA
26891673 GCGCCGCTAAT
64 GCGCCGCTAAT
26891684 AGTAACAAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
81 9 0.07
82 123 0.90
83 4 0.03
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTACCGAAGC
GCCGCTAATTCTCTGG
Found at i:26892498 original size:21 final size:21
Alignment explanation
Indices: 26892472--26892540 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
26892462 CAACTTAAAA
*
26892472 CAGAGGCGACAGCGAGGGAAG
1 CAGAGGCGACAGCGAGAGAAG
*
26892493 CAGAGGCTACAGCGAGAGAAG
1 CAGAGGCGACAGCGAGAGAAG
26892514 CAGAGGTCG-CAGCGAGAGAAG
1 CAGAGG-CGACAGCGAGAGAAG
26892535 CAGAGG
1 CAGAGG
26892541 TTCAAAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 43 0.98
22 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.43, T:0.03
Consensus pattern (21 bp):
CAGAGGCGACAGCGAGAGAAG
Found at i:26893076 original size:42 final size:43
Alignment explanation
Indices: 26892973--26893242 Score: 248
Period size: 43 Copynumber: 6.3 Consensus size: 43
26892963 GTTTGTGAAA
* * * **
26892973 TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCG-TTTGTAGA
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
*
26893015 TGAAGCGCCGCTAAAGAACATTACTTTTAGTGGCGTTTTTTACC
1 T-AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
* *
26893059 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
* * * * * *
26893101 TAAACGCCGCTAAAGATCATGTTC-TTTAGCAG-TTTTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTTTTTACC
* * * *
26893143 CAAGCGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTACC
* * * *
26893186 TAAGCGCTGCTAAAGAACATGA-TCATTAGTGGCGTTTTTT-CC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTACC
*
26893228 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
26893243 TTAGCGACGT
Statistics
Matches: 193, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
42 87 0.45
43 99 0.51
44 7 0.04
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
Found at i:26893109 original size:85 final size:84
Alignment explanation
Indices: 26892974--26893242 Score: 267
Period size: 85 Copynumber: 3.2 Consensus size: 84
26892964 TTTGTGAAAT
* * * ***
26892974 AAGCGCCGCGAAAGAACACTACTTTTAGCGGCG-TTTGTAGATGAAGCGCCGCTAAAGAACATTA
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCCT-AAGCGCCGCTAAAGAACATTA
26893038 CTTTTAGTGGCGTTTTTTACC
65 CTTTTAGTGGCGTTTTTT-CC
* * * *
26893059 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCCTAAACGCCGCTAAAGATCATGTT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACAT-TA
** **
26893124 C-TTTAGCAGTTTTTTTTCCC
65 CTTTTAGTGGCGTTTTTT-CC
* * * *
26893144 AAGCGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATTA
*
26893208 -TCATTAGTGGCGTTTTTTCC
65 CT-TTTAGTGGCGTTTTTTCC
*
26893228 TAAGCGCCGCAAAAG
1 -AAGCGCCGCTAAAG
26893243 TTAGCGACGT
Statistics
Matches: 149, Mismatches: 29, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
84 3 0.02
85 139 0.93
86 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATTAC
TTTTAGTGGCGTTTTTTCC
Found at i:26893111 original size:43 final size:43
Alignment explanation
Indices: 26892973--26893242 Score: 257
Period size: 42 Copynumber: 6.3 Consensus size: 43
26892963 GTTTGTGAAA
* * * ***
26892973 TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCG-TTTGTAGA
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* *
26893015 TGAAGCGCCGCTAAAGAACATTACTTTTAGTGGCGTTTTTTACC
1 T-AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
*
26893059 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* * * * *
26893101 TAAACGCCGCTAAAGATCATGTTC-TTTAGCAG-TTTTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTTTTTTCC
* * *
26893143 CAAGCGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTTCC
* * * *
26893186 TAAGCGCTGCTAAAGAACATGA-TCATTAGTGGCG-TTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTTCC
*
26893228 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
26893243 TTAGCGACGT
Statistics
Matches: 193, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
42 93 0.48
43 93 0.48
44 7 0.04
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
Found at i:26901887 original size:18 final size:18
Alignment explanation
Indices: 26901866--26901913 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
26901856 TTATTCATTC
26901866 GATGGCTATTAAAAGTTG
1 GATGGCTATTAAAAGTTG
* **
26901884 GATGG-AAAAAAAAGTTG
1 GATGGCTATTAAAAGTTG
26901901 GATGGCTATTAAA
1 GATGGCTATTAAA
26901914 GTGGACTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (18 bp):
GATGGCTATTAAAAGTTG
Found at i:26905914 original size:18 final size:18
Alignment explanation
Indices: 26905891--26905949 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
26905881 AGTTTGTAAC
26905891 TGAGTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
* *
26905909 TGAGTTGGGGTACTCTCTTGC
1 TGAGTTGGGGTA-GC-C-TGT
*
26905930 TGATTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
26905948 TG
1 TG
26905950 TTGAGTTGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 2 0.06
21 13 0.39
ACGTcount: A:0.10, C:0.14, G:0.39, T:0.37
Consensus pattern (18 bp):
TGAGTTGGGGTAGCCTGT
Found at i:26905958 original size:21 final size:20
Alignment explanation
Indices: 26905891--26905960 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
26905881 AGTTTGTAAC
26905891 TGAGTTGGGGTAGCC--TGT
1 TGAGTTGGGGTAGCCTTTGT
*
26905909 TGAGTTGGGGTA-CTCTCTTGC
1 TGAGTTGGGGTAGC-CT-TTGT
*
26905930 TGATTTGGGGTAGCCTGTTGT
1 TGAGTTGGGGTAGCCT-TTGT
26905951 TGAGTTGGGG
1 TGAGTTGGGG
26905961 CAACCACTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
21 27 0.64
22 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.41, T:0.37
Consensus pattern (20 bp):
TGAGTTGGGGTAGCCTTTGT
Found at i:26906661 original size:28 final size:28
Alignment explanation
Indices: 26906630--26906684 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
26906620 CACACGCACC
*
26906630 TAAAAAACAGTCACTACATGCATATTAT
1 TAAAAAACACTCACTACATGCATATTAT
* *
26906658 TAAAAAATACTCACTGCATGCATATTA
1 TAAAAAACACTCACTACATGCATATTA
26906685 AAAAGTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAAAAACACTCACTACATGCATATTAT
Found at i:26906708 original size:26 final size:25
Alignment explanation
Indices: 26906679--26906762 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 25
26906669 CACTGCATGC
*
26906679 ATATTAAAAAGTAGTCAACAATATAT
1 ATATTAAAAA-TAGTCAACAACATAT
*
26906705 ATATTAAAAAATATTCATAC-ACATAT
1 ATATT-AAAAATAGTCA-ACAACATAT
*
26906731 -TA--AAAAATAGTCAACAACATGT
1 ATATTAAAAATAGTCAACAACATAT
26906753 ATATTAAAAA
1 ATATTAAAAA
26906763 ACAGTCATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
21 2 0.04
22 15 0.31
23 2 0.04
25 7 0.15
26 15 0.31
27 7 0.15
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.30
Consensus pattern (25 bp):
ATATTAAAAATAGTCAACAACATAT
Found at i:26906763 original size:26 final size:26
Alignment explanation
Indices: 26906655--26906769 Score: 98
Period size: 26 Copynumber: 4.6 Consensus size: 26
26906645 ACATGCATAT
* ** *
26906655 TATTAAAAAATACTC-ACTGCATGCA
1 TATTAAAAAATAGTCAACAACATGTA
* * *
26906680 TATTAAAAAGTAGTCAACAATATATA
1 TATTAAAAAATAGTCAACAACATGTA
*
26906706 TATTAAAAAATATTCATAC-AC----A
1 TATTAAAAAATAGTCA-ACAACATGTA
26906728 TATTAAAAAATAGTCAACAACATGTA
1 TATTAAAAAATAGTCAACAACATGTA
*
26906754 TATTAAAAAACAGTCA
1 TATTAAAAAATAGTCA
26906770 TACACACCAA
Statistics
Matches: 71, Mismatches: 12, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.03
22 18 0.25
25 13 0.18
26 36 0.51
27 2 0.03
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACAACATGTA
Found at i:26906832 original size:25 final size:25
Alignment explanation
Indices: 26906778--26906860 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 25
26906768 CATACACACC
26906778 AATAATCACTGCATGCATATTATTAAAA
1 AATAATCACTGCATGC--A-TATTAAAA
*
26906806 AATACTCACTGCATGCATATTAAAA
1 AATAATCACTGCATGCATATTAAAA
* ** *
26906831 AATAGTCAACAACATGTATATTAAAA
1 AATAATC-ACTGCATGCATATTAAAA
26906857 AATA
1 AATA
26906861 TTCATACACA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 14 0.29
26 20 0.41
28 15 0.31
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (25 bp):
AATAATCACTGCATGCATATTAAAA
Found at i:26906914 original size:25 final size:26
Alignment explanation
Indices: 26906886--26906954 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
26906876 AATCACTGCA
26906886 TGCATATTATTAAAAAAATACTC-AC
1 TGCATATTATTAAAAAAATACTCAAC
* *
26906911 TGCATACATATT-AAAAAATAGTCAAC
1 TGCATA-TTATTAAAAAAATACTCAAC
* *
26906937 AGCATGTATATTAAAAAA
1 TGCATAT-TATTAAAAAA
26906955 CAGTCATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 16 0.46
26 14 0.40
27 5 0.14
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (26 bp):
TGCATATTATTAAAAAAATACTCAAC
Found at i:26906925 original size:96 final size:95
Alignment explanation
Indices: 26906701--26906990 Score: 469
Period size: 96 Copynumber: 3.1 Consensus size: 95
26906691 AGTCAACAAT
* *
26906701 ATATATATTAAAAAATATTCA-T--ACACATATTAAAAAATAGTCAACAACATGTATATTAAAAA
1 ATAT-TATTAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAA
*
26906763 ACAGTCATACACACCAATAATCACTGCATGC
65 ACAGTCATACACACCAACAATCACTGCATGC
*
26906794 ATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGTATATTAAAAAA
1 ATATTATTAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAAA
* *
26906859 TATTCATACACACCAACAATCACTGCATGC
66 CAGTCATACACACCAACAATCACTGCATGC
*
26906889 ATATTATTAAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAGCATGTATATTAAAAA
1 ATATTATT-AAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAA
*
26906954 ACAGTCATACACACCAACAATCACTGCTTGC
65 ACAGTCATACACACCAACAATCACTGCATGC
26906985 ATATTA
1 ATATTA
26906991 AAAAACACTC
Statistics
Matches: 182, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
92 15 0.08
93 5 0.03
95 74 0.41
96 88 0.48
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (95 bp):
ATATTATTAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACAACATGTATATTAAAAAA
CAGTCATACACACCAACAATCACTGCATGC
Found at i:26906941 original size:26 final size:26
Alignment explanation
Indices: 26906893--26906960 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
26906883 GCATGCATAT
* *
26906893 TATTAAAAAAATACTC-ACTGCATACA
1 TATT-AAAAAATAGTCAACAGCATACA
**
26906919 TATTAAAAAATAGTCAACAGCATGTA
1 TATTAAAAAATAGTCAACAGCATACA
*
26906945 TATTAAAAAACAGTCA
1 TATTAAAAAATAGTCA
26906961 TACACACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.26
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACAGCATACA
Found at i:26908095 original size:6 final size:6
Alignment explanation
Indices: 26908081--26908119 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
26908071 TCGAAATTGT
* *
26908081 AATCGA AATCAA AATCAA AATCAA AATCGA AATCAA AAT
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AAT
26908120 TGAAATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:26908096 original size:12 final size:12
Alignment explanation
Indices: 26908081--26908125 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
26908071 TCGAAATTGT
26908081 AATCGAAATCAA
1 AATCGAAATCAA
*
26908093 AATCAAAATCAA
1 AATCGAAATCAA
26908105 AATCGAAATCAA
1 AATCGAAATCAA
*
26908117 AATTGAAAT
1 AATCGAAAT
26908126 TGAAATAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (12 bp):
AATCGAAATCAA
Found at i:26908131 original size:18 final size:18
Alignment explanation
Indices: 26908081--26908125 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
26908071 TCGAAATTGT
26908081 AATCGAAATCAAAATCAA
1 AATCGAAATCAAAATCAA
* *
26908099 AATCAAAATCGAAATCAA
1 AATCGAAATCAAAATCAA
*
26908117 AATTGAAAT
1 AATCGAAAT
26908126 TGAAATAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (18 bp):
AATCGAAATCAAAATCAA
Found at i:26910151 original size:2 final size:2
Alignment explanation
Indices: 26910146--26910192 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
26910136 TATTAAAACC
26910146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26910188 TA TA T
1 TA TA T
26910193 TACATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26911053 original size:24 final size:24
Alignment explanation
Indices: 26911021--26911098 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
26911011 AGGCCCAAAA
26911021 CTTTTATTTTTCTTCAAAAATTTC
1 CTTTTATTTTTCTTCAAAAATTTC
*
26911045 CTTTTATTTTTCTTCAAAAATCATCC
1 CTTTTATTTTTCTTCAAAAAT--TTC
26911071 CTTTTAATTTTT-TTCAAAAATTTC
1 CTTTT-ATTTTTCTTCAAAAATTTC
26911095 CTTT
1 CTTT
26911099 AAATTCTAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
24 27 0.55
26 16 0.33
27 6 0.12
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTTTATTTTTCTTCAAAAATTTC
Found at i:26911466 original size:45 final size:45
Alignment explanation
Indices: 26911415--26911504 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
26911405 CGGTAAGTGC
*
26911415 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
1 GCCTCAATCTCAATGTTTAGATCTTGAATCACTATAGAACTTCTA
26911460 GCCTCAATCTCAATGTTTAGATCTTGAATCACTATAGAACTTCTA
1 GCCTCAATCTCAATGTTTAGATCTTGAATCACTATAGAACTTCTA
26911505 TAACGATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (45 bp):
GCCTCAATCTCAATGTTTAGATCTTGAATCACTATAGAACTTCTA
Found at i:26911968 original size:27 final size:27
Alignment explanation
Indices: 26911920--26912059 Score: 147
Period size: 28 Copynumber: 5.1 Consensus size: 27
26911910 GTGTCCCTTG
* *
26911920 TTTTTCAGATTTTATAGTTTTTCCCCTA
1 TTTTTTAGATTTTACAG-TTTTCCCCTA
* * * *
26911948 TTTTTTAGATTTTATAGTTTTTCCTTT
1 TTTTTTAGATTTTACAGTTTTCCCCTA
* **
26911975 TTTTTTAGA-TTTAGAGTTTTCCTTTA
1 TTTTTTAGATTTTACAGTTTTCCCCTA
*
26912001 TTTTTTAGATTTTACAATTTTGCCCCTA
1 TTTTTTAGATTTTACAGTTTT-CCCCTA
* *
26912029 TTTTTTAGATTTTACAATTTTGCCCTA
1 TTTTTTAGATTTTACAGTTTTCCCCTA
26912056 TTTT
1 TTTT
26912060 CTAAGTTTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
26 22 0.23
27 34 0.35
28 41 0.42
ACGTcount: A:0.19, C:0.13, G:0.08, T:0.61
Consensus pattern (27 bp):
TTTTTTAGATTTTACAGTTTTCCCCTA
Found at i:26912075 original size:28 final size:27
Alignment explanation
Indices: 26911920--26912080 Score: 112
Period size: 27 Copynumber: 5.9 Consensus size: 27
26911910 GTGTCCCTTG
* * * *
26911920 TTTTTCAGATTTTATAGTTTTTCCCCTA
1 TTTTTAAGATTTTACA-ATTTTGCCCTA
* * * * * *
26911948 TTTTTTAGATTTTATAGTTTTTCCTTT
1 TTTTTAAGATTTTACAATTTTGCCCTA
* * * *
26911975 TTTTTTAGA-TTTAGAGTTTT-CCTTTA
1 TTTTTAAGATTTTACAATTTTGCC-CTA
*
26912001 TTTTTTAGATTTTACAATTTTGCCCCTA
1 TTTTTAAGATTTTACAATTTTG-CCCTA
*
26912029 TTTTTTAGATTTTACAATTTTGCCCTA
1 TTTTTAAGATTTTACAATTTTGCCCTA
*
26912056 TTTTCTAAG-TTTTACAAATTTGCCC
1 TTTT-TAAGATTTTACAATTTTGCCC
26912081 AAAATTTTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
25 2 0.02
26 21 0.18
27 49 0.42
28 42 0.36
29 2 0.02
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (27 bp):
TTTTTAAGATTTTACAATTTTGCCCTA
Found at i:26912687 original size:45 final size:45
Alignment explanation
Indices: 26912636--26912838 Score: 234
Period size: 45 Copynumber: 4.5 Consensus size: 45
26912626 TTGTGCATCT
* *
26912636 ACAGCCAAGTGGCAGATTTTATCTGCG-ATATTTTGCTATGTACCC
1 ACAGCCAAGTGGCAGATTTTATCTGTGAAT-TTTTGCTGTGTACCC
* * * *
26912681 ACAGCCAA-TGGCA-AGTTTCATCTATGAATTTTTGTTGTGTATCC
1 ACAGCCAAGTGGCAGA-TTTTATCTGTGAATTTTTGCTGTGTACCC
* *
26912725 ACAGCCTAGTGGTAGATTTTATCTGTG-ATATTTTGCTGTGTACCC
1 ACAGCCAAGTGGCAGATTTTATCTGTGAAT-TTTTGCTGTGTACCC
* * * *
26912770 ACAGCCTAGTGGCAGGTTTCATCTGTGAATTTTTGCTGTGTATCC
1 ACAGCCAAGTGGCAGATTTTATCTGTGAATTTTTGCTGTGTACCC
*
26912815 ACAGCCCAGTGGCAGATTTTATCT
1 ACAGCCAAGTGGCAGATTTTATCT
26912839 ACGAAACCAG
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
43 1 0.01
44 34 0.26
45 95 0.71
46 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (45 bp):
ACAGCCAAGTGGCAGATTTTATCTGTGAATTTTTGCTGTGTACCC
Found at i:26912736 original size:89 final size:90
Alignment explanation
Indices: 26912624--26912838 Score: 324
Period size: 89 Copynumber: 2.4 Consensus size: 90
26912614 CCTACAAATA
* *
26912624 TGTTGTGCATCTACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCC-A
1 TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCCTA
26912688 ATGGCAAGTTTCATCTATGAATTTT
66 ATGGCAAGTTTCATCTATGAATTTT
* * * *
26912713 TGTTGTGTATCCACAGCCTAGTGGTAGATTTTATCTGTGATATTTTGCTGTGTACCCACAGCCTA
1 TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCCTA
* * *
26912778 GTGGCAGGTTTCATCTGTGAATTTT
66 ATGGCAAGTTTCATCTATGAATTTT
* *
26912803 TGCTGTGTATCCACAGCCCAGTGGCAGATTTTATCT
1 TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCT
26912839 ACGAAACCAG
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
89 57 0.50
90 56 0.50
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (90 bp):
TGTTGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCCTA
ATGGCAAGTTTCATCTATGAATTTT
Found at i:26912826 original size:90 final size:89
Alignment explanation
Indices: 26912627--26912838 Score: 316
Period size: 90 Copynumber: 2.4 Consensus size: 89
26912617 ACAAATATGT
* *
26912627 TGTGCATCTACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCCAATGG
1 TGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCCAATGG
*
26912692 CAAGTTTCATCTATGAATTTTTGT
66 CAAGTTTCATCTATGAATTTTTGC
* * * * *
26912716 TGTGTATCCACAGCCTAGTGGTAGATTTTATCTGTGATATTTTGCTGTGTACCCACAGCCTAGTG
1 TGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCC-AATG
* *
26912781 GCAGGTTTCATCTGTGAATTTTTGC
65 GCAAGTTTCATCTATGAATTTTTGC
*
26912806 TGTGTATCCACAGCCCAGTGGCAGATTTTATCT
1 TGTGTATCCACAGCCAAGTGGCAGATTTTATCT
26912839 ACGAAACCAG
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 54 0.49
90 56 0.51
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (89 bp):
TGTGTATCCACAGCCAAGTGGCAGATTTTATCTGCGATATTTTGCTATGTACCCACAGCCAATGG
CAAGTTTCATCTATGAATTTTTGC
Found at i:26919211 original size:17 final size:17
Alignment explanation
Indices: 26919189--26919228 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
26919179 AGACTATCGA
26919189 AAGCTCGATCAGGTTGG
1 AAGCTCGATCAGGTTGG
*
26919206 AAGCTCGATCGGGTTGG
1 AAGCTCGATCAGGTTGG
26919223 AAGCTC
1 AAGCTC
26919229 ATCGGAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (17 bp):
AAGCTCGATCAGGTTGG
Found at i:26923282 original size:21 final size:21
Alignment explanation
Indices: 26923258--26923310 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
26923248 ACACTTGCTG
26923258 AATTAAAAGAACTTAAAACAC
1 AATTAAAAGAACTTAAAACAC
*
26923279 AATTATAAGAACTTAAAACAC
1 AATTAAAAGAACTTAAAACAC
*
26923300 AATTACAAGAA
1 AATTAAAAGAA
26923311 TTTACAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (21 bp):
AATTAAAAGAACTTAAAACAC
Found at i:26925902 original size:46 final size:43
Alignment explanation
Indices: 26925829--26925927 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
26925819 AATAATAACA
*
26925829 GATACACGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* * *
26925875 GATATCCGGTGGGATT-AGCACATAGCAATCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAGCAACCACCTTATAATCAAT
26925919 GATACCGGT
1 GATACCGGT
26925928 TCACATAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 13 0.28
45 2 0.04
46 21 0.45
47 6 0.13
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:26925991 original size:51 final size:52
Alignment explanation
Indices: 26925933--26926122 Score: 216
Period size: 51 Copynumber: 3.8 Consensus size: 52
26925923 CCGGTTCACA
*
26925933 TAGTAGCCTGCACATAGTACTACACATGTGA-CAATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAATCACTATCCGATACACG
* * * *
26925984 TAGTAGCCTGCACATAGTACTACACACGTGATCGAA--GCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAATCACTATCCGA-TACACG
* * * * *
26926035 TAGTAGCCTGCACAT-GTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAATCACTATCCGATACACG
26926084 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAATCACT
26926123 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
49 27 0.23
50 31 0.27
51 55 0.48
53 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAATCACTATCCGATACACG
Found at i:26926097 original size:100 final size:102
Alignment explanation
Indices: 26925931--26926114 Score: 302
Period size: 100 Copynumber: 1.8 Consensus size: 102
26925921 TACCGGTTCA
*
26925931 CATAGTAGCCTGCACATAGTACTACACATGTGACAATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACAATCACTATCCGATACACGTAGTAGCCTGCA
26925996 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* * *
26926033 CATAGTAGCCTGCACAT-GTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGA-CAATCACTATCCGATACACGTAGTAGCCTGC
26926095 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
26926115 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
100 40 0.52
101 15 0.19
102 22 0.29
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACAATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:26929184 original size:40 final size:41
Alignment explanation
Indices: 26929097--26929227 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
26929087 TTTTGAATCC
*
26929097 ATGAAAAGGTTGAAAAGGA-AGTTAT-CTAAAAGGGATAACAA
1 ATGAAAAGGTTGAAAAGGATA-TTATCCGAAAA-GGATAACAA
* *
26929138 ATGAAAAGGTTGAAAATGATA-TATCCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGATATTATCCGAAAAGGATAACAA
* * *
26929178 ATGAAAATGTTGAAAAGGATATTACCCGAAAAGGGTAACAA
1 ATGAAAAGGTTGAAAAGGATATTATCCGAAAAGGATAACAA
26929219 ATGAAAAGG
1 ATGAAAAGG
26929228 ATGTGTTTGA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 30 0.38
41 47 0.60
42 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGATATTATCCGAAAAGGATAACAA
Found at i:26932045 original size:19 final size:19
Alignment explanation
Indices: 26932018--26932056 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26932008 TGTAGAAGTT
26932018 AGTCATTGTGGCACTAAAG
1 AGTCATTGTGGCACTAAAG
*
26932037 AGTCGTTGTGGCACTAAAG
1 AGTCATTGTGGCACTAAAG
26932056 A
1 A
26932057 TACTGCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (19 bp):
AGTCATTGTGGCACTAAAG
Found at i:26933887 original size:41 final size:41
Alignment explanation
Indices: 26933757--26933885 Score: 163
Period size: 41 Copynumber: 3.2 Consensus size: 41
26933747 TTTCGAACCC
* *
26933757 ATGAAAAGGTTGAAAAGGA-AGTTATTTGAAAAGGATAAAAA
1 ATGAAAAGGTTGAAAAGGATA-TTATCTGAAAAGGATAACAA
* * *
26933798 ATGAAAAGGTTGAAAAGGAT-GTATCCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGATATTATCTGAAAAGGATAACAA
* * *
26933838 ATGAAAATGTTGAAAAGGATATTAACTGAAAAGGGTAACAA
1 ATGAAAAGGTTGAAAAGGATATTATCTGAAAAGGATAACAA
26933879 ATGAAAA
1 ATGAAAA
26933886 TGATGTGTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 34 0.45
41 41 0.55
ACGTcount: A:0.52, C:0.04, G:0.23, T:0.21
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGATATTATCTGAAAAGGATAACAA
Found at i:26934955 original size:54 final size:55
Alignment explanation
Indices: 26934879--26935001 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 55
26934869 CGGGTATAGA
* *
26934879 GAGTTACAC-GTCTTGGCGACATGGCCATGTGATCCTGA-ACTACACGGTCAC-AGT
1 GAGTTACACGGTC-TGGCGACATGGCCATGTGA-CCTGATACTACACGGGCACAACT
* * * *
26934933 GAGTTACACGGTCTGGTC-ACATGGTCGTGTGACCTTATATTACACGGGCACAACT
1 GAGTTACACGGTCTGG-CGACATGGCCATGTGACCTGATACTACACGGGCACAACT
26934988 -AGTTACACGGTCTG
1 GAGTTACACGGTCTG
26935002 CGTACACTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
53 4 0.07
54 49 0.83
55 6 0.10
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (55 bp):
GAGTTACACGGTCTGGCGACATGGCCATGTGACCTGATACTACACGGGCACAACT
Found at i:26936126 original size:7 final size:7
Alignment explanation
Indices: 26936114--26936147 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
26936104 TTCTTCGTCA
26936114 TCACATC
1 TCACATC
26936121 TCACATC
1 TCACATC
26936128 TCACATC
1 TCACATC
* *
26936135 TTACATA
1 TCACATC
26936142 TCACAT
1 TCACAT
26936148 ATTGGTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (7 bp):
TCACATC
Found at i:26949111 original size:46 final size:46
Alignment explanation
Indices: 26949058--26949151 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
26949048 AAACAACTTC
26949058 GTCTTTCCACATCTACAATTTATTGTTTGCTATTGAGAATAACTAA
1 GTCTTTCCACATCTACAATTTATTGTTTGCTATTGAGAATAACTAA
*
26949104 GTCTTTCCACATCTACAATTTATTGTTTGTTATTGAGAATAACTAA
1 GTCTTTCCACATCTACAATTTATTGTTTGCTATTGAGAATAACTAA
26949150 GT
1 GT
26949152 ATCCTATGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.43
Consensus pattern (46 bp):
GTCTTTCCACATCTACAATTTATTGTTTGCTATTGAGAATAACTAA
Found at i:26949518 original size:23 final size:23
Alignment explanation
Indices: 26949488--26949533 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
26949478 GTCCACTTCA
*
26949488 AATGTACTAGTTAGAAGAGAGAT
1 AATGTACTAGTTAGAAGAAAGAT
26949511 AATGTACTAGTTAGAAGAAAGAT
1 AATGTACTAGTTAGAAGAAAGAT
26949534 GCTCGTCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (23 bp):
AATGTACTAGTTAGAAGAAAGAT
Found at i:26949785 original size:13 final size:13
Alignment explanation
Indices: 26949767--26949792 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26949757 AAGAAGCGCG
26949767 CACACACAAAAAA
1 CACACACAAAAAA
26949780 CACACACAAAAAA
1 CACACACAAAAAA
26949793 AAAATCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (13 bp):
CACACACAAAAAA
Found at i:26952962 original size:6 final size:6
Alignment explanation
Indices: 26952951--26953005 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
26952941 AAACAGAGGC
26952951 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
26952999 CATTTT C
1 CATTTT C
26953006 TTGAGAAATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (6 bp):
CATTTT
Found at i:26966400 original size:13 final size:13
Alignment explanation
Indices: 26966382--26966406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26966372 TTTAGCAATG
26966382 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
26966395 CTTTTGAAAAGT
1 CTTTTGAAAAGT
26966407 GTTGTGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:26966424 original size:26 final size:26
Alignment explanation
Indices: 26966395--26966444 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
26966385 TTGAAAAGTA
26966395 CTTTTGAAAAGTGTTGTGGAAAAGCG
1 CTTTTGAAAAGTGTTGTGGAAAAGCG
* * *
26966421 CTTTTGACAAGTGTTTTTGAAAAG
1 CTTTTGAAAAGTGTTGTGGAAAAG
26966445 TTTGGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (26 bp):
CTTTTGAAAAGTGTTGTGGAAAAGCG
Found at i:26966500 original size:16 final size:16
Alignment explanation
Indices: 26966479--26966530 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
26966469 TTTGGTTCGC
*
26966479 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
26966495 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
26966511 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
26966527 TGTA
1 TGTA
26966531 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26966578 original size:45 final size:44
Alignment explanation
Indices: 26966514--26966601 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 44
26966504 TTAGAGGTGT
*
26966514 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGC
1 AATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAATGC
* ***
26966559 AATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATG
26966602 GAATAGAGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 18 0.47
45 20 0.53
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATGC
Found at i:26966939 original size:16 final size:16
Alignment explanation
Indices: 26966896--26966941 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
26966886 CATAATATAG
*
26966896 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
26966912 ATTATT-AAATATATT
1 ATAATTAAAATATATT
26966927 ATAATTAAAATATAT
1 ATAATTAAAATATAT
26966942 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:26966948 original size:14 final size:15
Alignment explanation
Indices: 26966896--26966950 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
26966886 CATAATATAG
26966896 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
26966912 ATTATTAAATATATT
1 ATAATTAAATATATT
26966927 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
26966940 ATAATTTAATA
1 ATAATTAAATA
26966951 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:26967055 original size:14 final size:15
Alignment explanation
Indices: 26967016--26967057 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26967006 ATTTAGCATA
*
26967016 ATTATTATTAAATAT
1 ATTATAATTAAATAT
26967031 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
26967045 A-TATAATTTAATA
1 ATTATAATTAAATA
26967058 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:26967106 original size:37 final size:35
Alignment explanation
Indices: 26966937--26967106 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
26966927 ATAATTAAAA
*
26966937 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* * *
26966974 TATATGAATTTACTCAAATCATAAT-A-TAGATAATT
1 TATAT-AATTTAATAAAATCATAATAATTA-ATATTT
* * * *
26967009 TAGCATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TA-TATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
26967044 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
26967081 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
26967107 TATGATACTA
Statistics
Matches: 101, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 5 0.05
35 9 0.09
36 8 0.08
37 34 0.34
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:26967159 original size:107 final size:107
Alignment explanation
Indices: 26966850--26967113 Score: 485
Period size: 107 Copynumber: 2.5 Consensus size: 107
26966840 NNNNNNNNNN
26966850 CTTAATAATTAATATTCTT-TATGAATTTACTCAAATCATAATATAGATAATTTAACATAATTAT
1 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAACATAATTAT
26966914 TATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
66 TATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
*
26966956 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAGCATAATTAT
1 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAACATAATTAT
26967021 TATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
66 TATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
* *
26967063 CTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
1 CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
26967114 CTATAAAATA
Statistics
Matches: 153, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
106 19 0.12
107 130 0.85
108 4 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (107 bp):
CTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAACATAATTAT
TATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
Done.