Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 79 of 136
Found at i:25854309 original size:19 final size:19
Alignment explanation
Indices: 25854281--25854317 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25854271 TCATGTTAAT
*
25854281 TTTTAAAATTTTTTAATAC
1 TTTTAAAATTTTTAAATAC
*
25854300 TTTTATAATTTTTAAATA
1 TTTTAAAATTTTTAAATA
25854318 TTTAATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAATTTTTAAATAC
Found at i:25873551 original size:140 final size:139
Alignment explanation
Indices: 25873114--25873663 Score: 687
Period size: 140 Copynumber: 3.9 Consensus size: 139
25873104 TAGTGCTTTT
* * *
25873114 ATTCTTGAGT-TCTAGGTTTGATTCCTCT-CATGCTCACATTTGTATTTTTTTTATTTCATGTTG
1 ATTCTTGAGTCTCGA-GTTGGATTCCTCTAC-TACTCACATTTGTA--TTTTTTATTTCATGTTG
* *
25873177 CTTTAAGCTTTCTAAATTTTTAATTAATGTTTTTTAACATATTAGGTT-TTTCGTTAGATGGTTA
62 CTTCAAGCTTTTTAAATTTTTAATTAAT-TTTTTTAACATATTA-GTTCTTTCGTTAGATGGTTA
25873241 GATAGTTGTAATTAC
125 GATAGTTGTAATTAC
* * * * * *
25873256 ATCCTTAAGTCTTGAGTTGGATTCATCTACTACTCACATTTGTATTTTTTGTCTCATGTTGCTTC
1 ATTCTTGAGTCTCGAGTTGGATTCCTCTACTACTCACATTTGTATTTTTTATTTCATGTTGCTTC
* * *
25873321 AATCTTTTTAAATTTTTAATTAA-TTTTTTAACATATTAATTCTTTGGTTAGATGGTTAGATAGT
66 AAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAGT
* **
25873385 TATTGTTAC
131 TGTAATTAC
* * * * *
25873394 A-TCTTTGAGTCTCGAGTTTGATTTCTCTCCTACTCAAACTTGTATTTTTTATTTCATGTTGCTT
1 ATTC-TTGAGTCTCGAGTTGGATTCCTCTACTACTCACATTTGTATTTTTTATTTCATGTTGCTT
* *
25873458 CAAGCTTTTTAAATTTTTAATTAATGTTTTTTAACATATTAGTTTTTTCGTTAGATGGTTACATA
65 CAAGCTTTTTAAATTTTTAATTAAT-TTTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATA
25873523 GTTGTAATTAC
129 GTTGTAATTAC
* *
25873534 ATTCTTGAGTCTCGAGTTGGATTCCTCTACTAATCACATTTGTATTTTTCATTTCATGTTGCTTC
1 ATTCTTGAGTCTCGAGTTGGATTCCTCTACTACTCACATTTGTATTTTTTATTTCATGTTGCTTC
* * * * *
25873599 AAGCTTTTTTTATTATTTTAATTAATATTTTTAACATGTTAGCTCCTTTCGTTAGATGGTTAGAT
66 AAGC-TTTTTAAAT-TTTTAATTAATTTTTTTAACATATTAG-TTCTTTCGTTAGATGGTTAGAT
25873664 GATTGCGAAT
Statistics
Matches: 348, Mismatches: 50, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
137 3 0.01
138 116 0.33
140 141 0.41
141 23 0.07
142 62 0.18
143 3 0.01
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (139 bp):
ATTCTTGAGTCTCGAGTTGGATTCCTCTACTACTCACATTTGTATTTTTTATTTCATGTTGCTTC
AAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAGT
TGTAATTAC
Found at i:25873818 original size:22 final size:21
Alignment explanation
Indices: 25873748--25873824 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
25873738 TTTCAAGCTT
25873748 TTTTTTATTTTTAATTAATCT-
1 TTTTTTATTTTTAATTAAT-TA
* *
25873769 TTTGATGATATTTT--TTAATTA
1 TTT-TTTAT-TTTTAATTAATTA
25873790 -TTTTTATTTTTAATTAATGTA
1 TTTTTTATTTTTAATTAAT-TA
25873811 TTTTTTATTTTTAA
1 TTTTTTATTTTTAA
25873825 CCTTTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
18 4 0.09
19 3 0.07
20 8 0.18
21 10 0.22
22 16 0.36
23 4 0.09
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTTATTTTTAATTAATTA
Found at i:25878784 original size:19 final size:18
Alignment explanation
Indices: 25878760--25878805 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
25878750 ACGTCTCTTT
*
25878760 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTACAT-CA
25878779 TTTGCATTTCATTACATCA
1 TTTGCA-TTCATTACATCA
*
25878798 TATGCATT
1 TTTGCATT
25878806 AGACACCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTACATCA
Found at i:25883692 original size:44 final size:44
Alignment explanation
Indices: 25883641--25883830 Score: 220
Period size: 44 Copynumber: 4.3 Consensus size: 44
25883631 AGCAGACGGC
* * * *
25883641 GAAGTAGATCGAAGAAAGCAAATCTTATCTTTATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
* * *
25883685 GAAGTAGATTGAAGAAAACAGATCTTGGCTTCATGTACTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
* *** * *
25883729 GAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTACTGG-CGT
* *
25883774 GAAGTAGATCGAAGAAAGCAGGTCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
25883818 GAAGTAGATCGAA
1 GAAGTAGATCGAA
25883831 TATCGCAGAT
Statistics
Matches: 120, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
44 85 0.71
45 35 0.29
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
Found at i:25883840 original size:89 final size:89
Alignment explanation
Indices: 25883685--25883847 Score: 236
Period size: 89 Copynumber: 1.8 Consensus size: 89
25883675 GTATTGGCGT
*
25883685 GAAGTAGATTGAAGAAAACAGATCTTGGCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAACAGATCTTGGCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
*
25883750 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTGGTCTTCCCATACTGGTGGC
* * * * * * **
25883774 GAAGTAGATCGAAGAAAGCAGGTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATCGCAG
1 GAAGTAGATCGAAGAAAACAGATCTTGGCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
25883839 ATCTGGTCT
66 ATCTGGTCT
25883848 CTCTGAAGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAAACAGATCTTGGCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
ATCTGGTCTTCCCATACTGGTGGC
Found at i:25890537 original size:26 final size:26
Alignment explanation
Indices: 25890508--25890559 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
25890498 CCTGGCTGAG
25890508 TTGTCCTTTGGATATGATCAAGTAAT
1 TTGTCCTTTGGATATGATCAAGTAAT
25890534 TTGTCCTTTGGATATGATCAAGTAAT
1 TTGTCCTTTGGATATGATCAAGTAAT
25890560 ATGCATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
TTGTCCTTTGGATATGATCAAGTAAT
Found at i:25890574 original size:26 final size:25
Alignment explanation
Indices: 25890515--25890567 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
25890505 GAGTTGTCCT
* *
25890515 TTGGATATGATCAAGTAATTTGTCCT
1 TTGGATATGATCAAGTAATATG-CCA
25890541 TTGGATATGATCAAGTAATATG-CA
1 TTGGATATGATCAAGTAATATGCCA
25890565 TTG
1 TTG
25890568 AAGATATCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.16
26 21 0.84
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (25 bp):
TTGGATATGATCAAGTAATATGCCA
Found at i:25901799 original size:50 final size:50
Alignment explanation
Indices: 25901662--25901802 Score: 147
Period size: 50 Copynumber: 2.8 Consensus size: 50
25901652 TTTTCTGTAC
* * * * ** **
25901662 TGCCAATGTCATATCCCAGATATGATCTTACATAAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *** *
25901712 TGCCTATGCCATGTCCCAGACATAGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
25901762 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
25901803 ATTCCCTTAA
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:25904660 original size:20 final size:20
Alignment explanation
Indices: 25904637--25904715 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
25904627 GTACAGTCAT
25904637 GGGCACCAAAGTGCGAACAG
1 GGGCACCAAAGTGCGAACAG
* * *
25904657 GGGCA-CATACGTGCAAATAG
1 GGGCACCA-AAGTGCGAACAG
* * * *
25904677 GGACACCAAAGTG-TATATAT
1 GGGCACCAAAGTGCGA-ACAG
25904697 GGGCACCAAAGTGCGAACA
1 GGGCACCAAAGTGCGAACA
25904716 ATGGCACATA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
19 3 0.07
20 39 0.87
21 3 0.07
ACGTcount: A:0.37, C:0.22, G:0.29, T:0.13
Consensus pattern (20 bp):
GGGCACCAAAGTGCGAACAG
Found at i:25904699 original size:60 final size:60
Alignment explanation
Indices: 25904635--25904822 Score: 259
Period size: 60 Copynumber: 3.1 Consensus size: 60
25904625 ACGTACAGTC
*
25904635 ATGGGCACCAAAGTGCGAACAGGGGCACATACGTGCAAATAGGGACACCAAAGTGTATAT
1 ATGGGCACCAAAGTGCGAACAGGGGCACATACGTGCAAATAGGGACACCAGAGTGTATAT
** *
25904695 ATGGGCACCAAAGTGCGAACAATGGCACATACGTGCAAACAGGGACACCAGAGTGTATAT
1 ATGGGCACCAAAGTGCGAACAGGGGCACATACGTGCAAATAGGGACACCAGAGTGTATAT
* ** * * ** * *
25904755 AGGGGCATTAAAGTGCGAATAGGAGCACAGGCGTGCAAATAGAGACACCAGAGTGTATAC
1 ATGGGCACCAAAGTGCGAACAGGGGCACATACGTGCAAATAGGGACACCAGAGTGTATAT
25904815 ATGGGCAC
1 ATGGGCAC
25904823 GCAGGGGCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 110 1.00
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.15
Consensus pattern (60 bp):
ATGGGCACCAAAGTGCGAACAGGGGCACATACGTGCAAATAGGGACACCAGAGTGTATAT
Found at i:25904878 original size:57 final size:56
Alignment explanation
Indices: 25904809--25904928 Score: 204
Period size: 57 Copynumber: 2.1 Consensus size: 56
25904799 ACACCAGAGT
*
25904809 GTATACATGGGCACGCAGGGGCACAGTTGTGCAAACAAAGGGCACTTCTTCATTTCC
1 GTATACATGGGCACGCAGGGGCACAATTGTGCAAAC-AAGGGCACTTCTTCATTTCC
* *
25904866 GTATACATGGGCACGTAGGGGCACAATTGTGCAAACAAGGGCACTTCTTCATTTCT
1 GTATACATGGGCACGCAGGGGCACAATTGTGCAAACAAGGGCACTTCTTCATTTCC
25904922 GTATACA
1 GTATACA
25904929 ATGGAACTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
56 26 0.43
57 34 0.57
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (56 bp):
GTATACATGGGCACGCAGGGGCACAATTGTGCAAACAAGGGCACTTCTTCATTTCC
Found at i:25905011 original size:85 final size:85
Alignment explanation
Indices: 25904866--25905029 Score: 285
Period size: 85 Copynumber: 1.9 Consensus size: 85
25904856 CTTCATTTCC
*
25904866 GTATACATGGGCACGTAGGGGCACAATTGTGCAAACAAGGGCACTTCTTCATTTCTGTATACAAT
1 GTATACATGGGCACGCAGGGGCACAATTGTGCAAACAAGGGCACTTCTTCATTTCTGTATACAAT
25904931 GGAACTCATTACATCAGAGT
66 GGAACTCATTACATCAGAGT
*
25904951 GTATACATGGGCACGCAGGGGCACAGTTGTGCAAACAAGGGCACTTCTTCATTT-TCGTATACAA
1 GTATACATGGGCACGCAGGGGCACAATTGTGCAAACAAGGGCACTTCTTCATTTCT-GTATACAA
*
25905015 TGGAACTCGTTACAT
65 TGGAACTCATTACAT
25905030 TCATAGATAA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
84 1 0.01
85 74 0.99
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (85 bp):
GTATACATGGGCACGCAGGGGCACAATTGTGCAAACAAGGGCACTTCTTCATTTCTGTATACAAT
GGAACTCATTACATCAGAGT
Found at i:25923185 original size:20 final size:18
Alignment explanation
Indices: 25923156--25923209 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
25923146 TTTTAAAAAC
25923156 AATTTAACTTTGATTGAAA
1 AATTTAAC-TTGATTGAAA
25923175 AATTCTAACTTGATTGAAA
1 AATT-TAACTTGATTGAAA
*
25923194 CCATTTTAACTTGATT
1 --AATTTAACTTGATT
25923210 TAAAGGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 14 0.45
20 14 0.45
21 3 0.10
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (18 bp):
AATTTAACTTGATTGAAA
Found at i:25923187 original size:19 final size:19
Alignment explanation
Indices: 25923152--25923209 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
25923142 CTTGTTTTAA
25923152 AAACAATTTAACTTTGATTG
1 AAACAATTTAAC-TTGATTG
25923172 AAA-AATTCTAACTTGATTG
1 AAACAATT-TAACTTGATTG
*
25923191 AAACCATTTTAACTTGATT
1 AAA-CAATTTAACTTGATT
25923210 TAAAGGTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 14 0.41
20 17 0.50
21 3 0.09
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (19 bp):
AAACAATTTAACTTGATTG
Found at i:25925268 original size:22 final size:23
Alignment explanation
Indices: 25925225--25925268 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
25925215 ATTGTTGAAA
*
25925225 TGTTGAAAAACTTGAAGCAATGT
1 TGTTGAAAAACTTGAAGAAATGT
* *
25925248 TGTTG-AAATCTTGATGAAATG
1 TGTTGAAAAACTTGAAGAAATG
25925269 GAGTTAGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (23 bp):
TGTTGAAAAACTTGAAGAAATGT
Found at i:25925499 original size:20 final size:20
Alignment explanation
Indices: 25925429--25925499 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
25925419 AAACCCGATA
* *
25925429 GGTATCGATATTTTTTAAGAT
1 GGTATCGATA-ATTTTAAAAT
*
25925450 GGTATCGATAATTTTATAA-
1 GGTATCGATAATTTTAAAAT
* *
25925469 GTATATTGATAATTTTAAAAT
1 G-GTATCGATAATTTTAAAAT
25925490 GGTATCGATA
1 GGTATCGATA
25925500 CAAAATCACA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.70
21 11 0.28
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (20 bp):
GGTATCGATAATTTTAAAAT
Found at i:25927432 original size:91 final size:91
Alignment explanation
Indices: 25927277--25927459 Score: 366
Period size: 91 Copynumber: 2.0 Consensus size: 91
25927267 CACTTTCATC
25927277 TAGCTTATCCTAAAAACCCACTTAGTACCTATAGTAGATTTTTCACTAGGCCTTTCAACTAGGGT
1 TAGCTTATCCTAAAAACCCACTTAGTACCTATAGTAGATTTTTCACTAGGCCTTTCAACTAGGGT
25927342 CCATGCATTACTTCTCTCAAATTGAT
66 CCATGCATTACTTCTCTCAAATTGAT
25927368 TAGCTTATCCTAAAAACCCACTTAGTACCTATAGTAGATTTTTCACTAGGCCTTTCAACTAGGGT
1 TAGCTTATCCTAAAAACCCACTTAGTACCTATAGTAGATTTTTCACTAGGCCTTTCAACTAGGGT
25927433 CCATGCATTACTTCTCTCAAATTGAT
66 CCATGCATTACTTCTCTCAAATTGAT
25927459 T
1 T
25927460 TAACTCATCT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (91 bp):
TAGCTTATCCTAAAAACCCACTTAGTACCTATAGTAGATTTTTCACTAGGCCTTTCAACTAGGGT
CCATGCATTACTTCTCTCAAATTGAT
Found at i:25927825 original size:20 final size:18
Alignment explanation
Indices: 25927770--25927827 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
25927760 CTGACTTGTT
25927770 TTGAAAATAGTTTAACTTTGA
1 TTGAAAAT--TTTAAC-TTGA
25927791 TTGAAAATTTCTAACTTGA
1 TTGAAAATTT-TAACTTGA
25927810 TTGAAACCATTTTAACTT
1 TTGAAA--ATTTTAACTT
25927828 AATTTAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 12 0.35
20 10 0.29
21 12 0.35
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (18 bp):
TTGAAAATTTTAACTTGA
Found at i:25927959 original size:22 final size:25
Alignment explanation
Indices: 25927934--25927981 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
25927924 TTTGTTCAAC
25927934 TTTAATTT-TTAT-TCAAAA-ATAT
1 TTTAATTTGTTATATCAAAACATAT
25927956 TTTAATTTGTTATATCAAAACATAT
1 TTTAATTTGTTATATCAAAACATAT
25927981 T
1 T
25927982 ATCAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.35
23 4 0.17
24 6 0.26
25 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTAATTTGTTATATCAAAACATAT
Found at i:25930557 original size:40 final size:40
Alignment explanation
Indices: 25930502--25930602 Score: 175
Period size: 40 Copynumber: 2.5 Consensus size: 40
25930492 AATTTCAGAA
*
25930502 CACCGGCATTAAGCCTGCTAGACATTAAGTTTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
*
25930542 CACCGGCATTAAGCCTGCTAAACATTAAGTCTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
*
25930582 CACCGACATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
25930603 GTACAGAACC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
Found at i:25937442 original size:40 final size:40
Alignment explanation
Indices: 25937326--25937426 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
25937316 AATTTCAGAA
25937326 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
*
25937366 CACCGGCATTAAGCCTGCTAAACATTAAGTCTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
*
25937406 CACCGACATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
25937427 GTACAGAACC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
Found at i:25940270 original size:51 final size:50
Alignment explanation
Indices: 25940148--25940390 Score: 240
Period size: 51 Copynumber: 4.8 Consensus size: 50
25940138 TATCATTCGA
* * * * *
25940148 TACATGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AAATTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TTCCGG
* * * *
25940198 TTCACGTAGTAGCCTGCACATAGTACTACACGCGTGACCATTAATATCTGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAAT-TCCGG
* *
25940249 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTA-AT-TCCGG
* * * * * * *
25940300 TACGCATAGTAGCCTGCACATAGTACTATACATGCGACCTTTCATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATTCCGG
**
25940350 TACACGTAGTAGCCAACACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
25940391 CACTTTCACT
Statistics
Matches: 155, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
50 76 0.49
51 77 0.50
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATTCCGG
Found at i:25940354 original size:101 final size:100
Alignment explanation
Indices: 25940140--25940386 Score: 298
Period size: 101 Copynumber: 2.5 Consensus size: 100
25940130 TTAACTATTA
* * * * * *
25940140 TCATT-CGATACATGTAGTAGCCTTCACATAGTACTACACACGTGATCAAAATTTTCGGTTCACG
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAATATCCGGTACACA
* *
25940204 TAGTAGCCTGCACATAGTACTACACGCGTGACCAT
66 TAGTAGCCTGCACATAGTACTACACACGCGACCAT
* * * ** *
25940239 TAATATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
1 TCAT-TCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAAATATCCGGTACA
* * *
25940304 CATAGTAGCCTGCACATAGTACTATACATGCGACCTT
64 CATAGTAGCCTGCACATAGTACTACACACGCGACCAT
* *
25940341 TCATTCCGGTACACGTAGTAGCCAACACATAGTACTACACACGTGA
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA
25940387 CCATCACTTT
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 1 0.01
101 77 0.62
102 43 0.35
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAATATCCGGTACACA
TAGTAGCCTGCACATAGTACTACACACGCGACCAT
Found at i:25945046 original size:11 final size:11
Alignment explanation
Indices: 25945017--25945046 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25945007 GATGCTCTAG
*
25945017 TAATTAAGTTC
1 TAATTAATTTC
25945028 TAATTAATTTC
1 TAATTAATTTC
25945039 TAATTAAT
1 TAATTAAT
25945047 GATGAGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (11 bp):
TAATTAATTTC
Found at i:25945596 original size:4 final size:4
Alignment explanation
Indices: 25945587--25945611 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
25945577 AAGATGAAGG
25945587 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
25945612 AATCAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:25946282 original size:52 final size:52
Alignment explanation
Indices: 25946219--25946322 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
25946209 TTTAGTAATG
25946219 ATGTATATATATGTAATATGCGCATTTTTGTTTAAAAAAATAAAAAGGGAAT
1 ATGTATATATATGTAATATGCGCATTTTTGTTTAAAAAAATAAAAAGGGAAT
25946271 ATGTATATATATGTAATATGCGCATTTTTGTTTAAAAAAATAAAAAGGGAAT
1 ATGTATATATATGTAATATGCGCATTTTTGTTTAAAAAAATAAAAAGGGAAT
25946323 CACATTAGTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (52 bp):
ATGTATATATATGTAATATGCGCATTTTTGTTTAAAAAAATAAAAAGGGAAT
Found at i:25946659 original size:44 final size:44
Alignment explanation
Indices: 25946595--25946735 Score: 203
Period size: 44 Copynumber: 3.2 Consensus size: 44
25946585 ACCATTGAAA
* * * *
25946595 TTCTTACCTAAACAATCAACCAAGACAATTATATTACATGTCCAT
1 TTCTTACCAAAACAATCAACCAA-ACAATTATAATGCATGTTCAT
*
25946640 TTCTTACC-AAACAATCAACCAAACATTTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
* *
25946683 TTATTACCAAAACAATCAATCAAACAATTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
25946727 TTCTTACCA
1 TTCTTACCA
25946736 TTTAACAACT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
43 24 0.28
44 55 0.63
45 8 0.09
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (44 bp):
TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
Found at i:25947520 original size:42 final size:44
Alignment explanation
Indices: 25947474--25947570 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
25947464 TCCTAGATAG
* * * *
25947474 GGTCTTACACGT-AATCATATA-CGATGCCAAAGTCCCAGTCTT
1 GGTCTTACACGTAAACCATAAATCGATGCCAAAGTCCCAGACCT
* * * *
25947516 GGTCTTACATGTAAACCTTAAATTGATGCCAACGTCCCAGACCT
1 GGTCTTACACGTAAACCATAAATCGATGCCAAAGTCCCAGACCT
25947560 GGTCTTACACG
1 GGTCTTACACG
25947571 AATTCACATT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 11 0.25
43 6 0.14
44 27 0.61
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (44 bp):
GGTCTTACACGTAAACCATAAATCGATGCCAAAGTCCCAGACCT
Found at i:25956426 original size:16 final size:16
Alignment explanation
Indices: 25956405--25956435 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25956395 GGTGGTGTGA
25956405 GTGTAGGTGTGTGGGT
1 GTGTAGGTGTGTGGGT
25956421 GTGTAGGTGTGTGGG
1 GTGTAGGTGTGTGGG
25956436 CCACACGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.58, T:0.35
Consensus pattern (16 bp):
GTGTAGGTGTGTGGGT
Found at i:25956954 original size:53 final size:53
Alignment explanation
Indices: 25956885--25956991 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
25956875 ATATGGTGTG
25956885 TAAGGATGGGTGGGTGTTTTTAAGCCTACATGGTGTGATGAGATGGTCGGAGA
1 TAAGGATGGGTGGGTGTTTTTAAGCCTACATGGTGTGATGAGATGGTCGGAGA
25956938 TAAGGATGGGTGGGTGTTTTTAAGCCTACATGGTGTGATGAGATGGTCGGAGA
1 TAAGGATGGGTGGGTGTTTTTAAGCCTACATGGTGTGATGAGATGGTCGGAGA
25956991 T
1 T
25956992 GGTGCTTAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.22, C:0.07, G:0.39, T:0.31
Consensus pattern (53 bp):
TAAGGATGGGTGGGTGTTTTTAAGCCTACATGGTGTGATGAGATGGTCGGAGA
Found at i:25966821 original size:8 final size:9
Alignment explanation
Indices: 25966803--25966829 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
25966793 CAATTCCTCC
25966803 TTTATTTTT
1 TTTATTTTT
25966812 TTTATTTTT
1 TTTATTTTT
25966821 TTTATTTTT
1 TTTATTTTT
25966830 GAATCTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:25968542 original size:47 final size:45
Alignment explanation
Indices: 25968473--25968571 Score: 162
Period size: 47 Copynumber: 2.2 Consensus size: 45
25968463 ATTGACTTTG
25968473 ATTCTTTAATTGAAATTTCTTTGATTCTTGCTCGGTTAATCTATC
1 ATTCTTTAATTGAAATTTCTTTGATTCTTGCTCGGTTAATCTATC
* *
25968518 TTATTCTTTAATTGGAATTTCTTTGATTCTTGCTTGGTTAATCTATC
1 --ATTCTTTAATTGAAATTTCTTTGATTCTTGCTCGGTTAATCTATC
25968565 ATTCTTT
1 ATTCTTT
25968572 CAACTCTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
45 7 0.14
47 43 0.86
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (45 bp):
ATTCTTTAATTGAAATTTCTTTGATTCTTGCTCGGTTAATCTATC
Found at i:25968548 original size:23 final size:23
Alignment explanation
Indices: 25968468--25968548 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
25968458 TGTTGATTGA
*
25968468 CTTTGATTCTTTAATTGAAATTT
1 CTTTGATTCTTTAATTGGAATTT
** *
25968491 CTTTGATTC-TTGCTCGGTTAATCTAT
1 CTTTGATTCTTTAATTGG--AAT-T-T
25968517 C-TT-ATTCTTTAATTGGAATTT
1 CTTTGATTCTTTAATTGGAATTT
25968538 CTTTGATTCTT
1 CTTTGATTCTT
25968549 GCTTGGTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
21 2 0.05
22 7 0.16
23 18 0.41
24 7 0.16
25 8 0.18
26 2 0.05
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.56
Consensus pattern (23 bp):
CTTTGATTCTTTAATTGGAATTT
Found at i:25980766 original size:289 final size:289
Alignment explanation
Indices: 25980247--25980824 Score: 1156
Period size: 289 Copynumber: 2.0 Consensus size: 289
25980237 TAAATACGAC
25980247 CAAGCAATTTTGTGATAAGAGAGATGCTAAAAAGGTCATAAGTGTCAGTGAAGAAACCCATTCCA
1 CAAGCAATTTTGTGATAAGAGAGATGCTAAAAAGGTCATAAGTGTCAGTGAAGAAACCCATTCCA
25980312 ACAATCACAATTGCAGTGAAATGGTACCATTGTGTCTTTGCTGCATCCAACGCATTAAGAACTCC
66 ACAATCACAATTGCAGTGAAATGGTACCATTGTGTCTTTGCTGCATCCAACGCATTAAGAACTCC
25980377 AAGCTGGTTTGCCATTTCTGTCTTTTTTTACCTGAAACCAAATCAAGTAGGAAATTAACAAAACA
131 AAGCTGGTTTGCCATTTCTGTCTTTTTTTACCTGAAACCAAATCAAGTAGGAAATTAACAAAACA
25980442 TAGGAATTCTGGGTTTTCTCTGAATAAACAATCCCATGTCAAATAAAAATGGAAAAAGCCCGAAG
196 TAGGAATTCTGGGTTTTCTCTGAATAAACAATCCCATGTCAAATAAAAATGGAAAAAGCCCGAAG
25980507 TTGAACAAAAATGGTTCAGCCATTGAAAT
261 TTGAACAAAAATGGTTCAGCCATTGAAAT
25980536 CAAGCAATTTTGTGATAAGAGAGATGCTAAAAAGGTCATAAGTGTCAGTGAAGAAACCCATTCCA
1 CAAGCAATTTTGTGATAAGAGAGATGCTAAAAAGGTCATAAGTGTCAGTGAAGAAACCCATTCCA
25980601 ACAATCACAATTGCAGTGAAATGGTACCATTGTGTCTTTGCTGCATCCAACGCATTAAGAACTCC
66 ACAATCACAATTGCAGTGAAATGGTACCATTGTGTCTTTGCTGCATCCAACGCATTAAGAACTCC
25980666 AAGCTGGTTTGCCATTTCTGTCTTTTTTTACCTGAAACCAAATCAAGTAGGAAATTAACAAAACA
131 AAGCTGGTTTGCCATTTCTGTCTTTTTTTACCTGAAACCAAATCAAGTAGGAAATTAACAAAACA
25980731 TAGGAATTCTGGGTTTTCTCTGAATAAACAATCCCATGTCAAATAAAAATGGAAAAAGCCCGAAG
196 TAGGAATTCTGGGTTTTCTCTGAATAAACAATCCCATGTCAAATAAAAATGGAAAAAGCCCGAAG
25980796 TTGAACAAAAATGGTTCAGCCATTGAAAT
261 TTGAACAAAAATGGTTCAGCCATTGAAAT
25980825 AAACTGTTTT
Statistics
Matches: 289, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
289 289 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (289 bp):
CAAGCAATTTTGTGATAAGAGAGATGCTAAAAAGGTCATAAGTGTCAGTGAAGAAACCCATTCCA
ACAATCACAATTGCAGTGAAATGGTACCATTGTGTCTTTGCTGCATCCAACGCATTAAGAACTCC
AAGCTGGTTTGCCATTTCTGTCTTTTTTTACCTGAAACCAAATCAAGTAGGAAATTAACAAAACA
TAGGAATTCTGGGTTTTCTCTGAATAAACAATCCCATGTCAAATAAAAATGGAAAAAGCCCGAAG
TTGAACAAAAATGGTTCAGCCATTGAAAT
Found at i:25990721 original size:19 final size:19
Alignment explanation
Indices: 25990697--25990744 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
25990687 AATACGTGTT
25990697 TGAATAGAAATGAACAAAA
1 TGAATAGAAATGAACAAAA
*
25990716 TGAATAGAAATGAACGAAA
1 TGAATAGAAATGAACAAAA
25990735 TGAATAGAAA
1 TGAATAGAAA
25990745 AATATAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.19, T:0.17
Consensus pattern (19 bp):
TGAATAGAAATGAACAAAA
Found at i:25990846 original size:6 final size:6
Alignment explanation
Indices: 25990838--25990903 Score: 87
Period size: 6 Copynumber: 11.0 Consensus size: 6
25990828 CTAAAAATAG
* * * * *
25990838 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGA AAATGG AAACGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
25990886 AAATGA AAATGA AAATGA
1 AAATGA AAATGA AAATGA
25990904 TCCATTTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.61, C:0.02, G:0.23, T:0.15
Consensus pattern (6 bp):
AAATGA
Found at i:25990865 original size:24 final size:24
Alignment explanation
Indices: 25990838--25990902 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
25990828 CTAAAAATAG
* * *
25990838 AAATGGAAATGGAAATGGAAATGA
1 AAATGAAAATGAAAATGGAAACGA
25990862 AAATGAAAATGAAAATGGAAACGA
1 AAATGAAAATGAAAATGGAAACGA
25990886 AAATGAAAATGAAAATG
1 AAATGAAAATGAAAATG
25990903 ATCCATTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.60, C:0.02, G:0.23, T:0.15
Consensus pattern (24 bp):
AAATGAAAATGAAAATGGAAACGA
Found at i:25991084 original size:26 final size:26
Alignment explanation
Indices: 25991048--25991109 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
25991038 ACATATTTTC
*
25991048 TTAAAATTTTACCAGGGGCAAAATCG
1 TTAAAATTTTACCAGGAGCAAAATCG
* *
25991074 TTAAAATTTTACCAGGAGTAAAATTG
1 TTAAAATTTTACCAGGAGCAAAATCG
*
25991100 TCAAAATTTT
1 TTAAAATTTT
25991110 CCTAGAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (26 bp):
TTAAAATTTTACCAGGAGCAAAATCG
Found at i:26003965 original size:15 final size:16
Alignment explanation
Indices: 26003936--26003965 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26003926 CAAACGTGCT
26003936 TTAACACATTATCAAA
1 TTAACACATTATCAAA
26003952 TTAACACA-TATCAA
1 TTAACACATTATCAA
26003966 CAAGATACCA
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:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:26012043 original size:19 final size:17
Alignment explanation
Indices: 26012001--26012044 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
26011991 TGAATTCGGT
*
26012001 CGTGTGGGCCACATGGG
1 CGTGTGGGCCACACGGG
*
26012018 TGTGTGGGCTCTACACGGG
1 CGTGTGGGC-C-ACACGGG
26012037 CGTGTGGG
1 CGTGTGGG
26012045 AATATTGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 1 0.05
19 13 0.59
ACGTcount: A:0.09, C:0.20, G:0.48, T:0.23
Consensus pattern (17 bp):
CGTGTGGGCCACACGGG
Found at i:26019944 original size:17 final size:17
Alignment explanation
Indices: 26019905--26019937 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26019895 AATTATGTTT
26019905 TGTTTTTAGGACTTTTA
1 TGTTTTTAGGACTTTTA
*
26019922 TGTTTTTATGACTTTT
1 TGTTTTTAGGACTTTT
26019938 TATTTTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (17 bp):
TGTTTTTAGGACTTTTA
Found at i:26023940 original size:11 final size:11
Alignment explanation
Indices: 26023924--26023950 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26023914 ATTCCTTCAC
26023924 TTTATGACATT
1 TTTATGACATT
26023935 TTTATGACATT
1 TTTATGACATT
26023946 TTTAT
1 TTTAT
26023951 ATATTAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (11 bp):
TTTATGACATT
Found at i:26047897 original size:25 final size:25
Alignment explanation
Indices: 26047843--26047897 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
26047833 AATTATTAAA
*
26047843 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
26047868 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
26047892 TATTAA
1 T-TTAA
26047898 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:26052749 original size:14 final size:12
Alignment explanation
Indices: 26052719--26052744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26052709 ATCATTATTT
26052719 TAACATAAAAAA
1 TAACATAAAAAA
26052731 TAACATAAAAAA
1 TAACATAAAAAA
26052743 TA
1 TA
26052745 TAACAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (12 bp):
TAACATAAAAAA
Found at i:26056632 original size:21 final size:24
Alignment explanation
Indices: 26056608--26056665 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 24
26056598 GCCCTTTTTC
*
26056608 TTTTTATTATTTTTA-T-TCA-TA
1 TTTTTATTATTATTAGTATCATTA
*
26056629 TTTTTTTTATTATTAGTATCATTA
1 TTTTTATTATTATTAGTATCATTA
*
26056653 TTTTT-TTGTTATT
1 TTTTTATTATTATT
26056666 TTTTATTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 1 0.03
23 10 0.32
24 7 0.23
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTTTATTATTATTAGTATCATTA
Found at i:26056640 original size:24 final size:24
Alignment explanation
Indices: 26056608--26056695 Score: 76
Period size: 23 Copynumber: 3.7 Consensus size: 24
26056598 GCCCTTTTTC
26056608 TTTTTATTATTTTTATTCATATTT
1 TTTTTATTATTTTTATTCATATTT
**
26056632 TTTTTATTATTAGTA-TCAT-TATT
1 TTTTTATTATTTTTATTCATAT-TT
*
26056655 TTTTTGTTATTTTTTATT-ACTATTT
1 TTTTTATTA-TTTTTATTCA-TATTT
* *
26056680 ATTTTATT-TTCTTATT
1 TTTTTATTATTTTTATT
26056696 ATTTTTCTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.02
23 21 0.41
24 18 0.35
25 10 0.20
26 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTTATTATTTTTATTCATATTT
Found at i:26056703 original size:12 final size:12
Alignment explanation
Indices: 26056611--26056720 Score: 68
Period size: 12 Copynumber: 9.2 Consensus size: 12
26056601 CTTTTTCTTT
26056611 TTATTATTTTTA
1 TTATTATTTTTA
*
26056623 TTCA-TATTTTTT
1 TT-ATTATTTTTA
**
26056635 TTATTATTAGTA
1 TTATTATTTTTA
*
26056647 TCATTATTTTT-
1 TTATTATTTTTA
*
26056658 TTGTTATTTTTTA
1 TTATTA-TTTTTA
*
26056671 TTACTATTTATT-
1 TTATTATTT-TTA
*
26056683 TTATT-TTCTTA
1 TTATTATTTTTA
26056694 TTATT-TTTCTTA
1 TTATTATTT-TTA
* *
26056706 GTATTAATTTTA
1 TTATTATTTTTA
26056718 TTA
1 TTA
26056721 AGTTCTTGTT
Statistics
Matches: 73, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
10 2 0.03
11 14 0.19
12 48 0.66
13 9 0.12
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:26056716 original size:32 final size:33
Alignment explanation
Indices: 26056650--26056719 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 33
26056640 ATTAGTATCA
* * *
26056650 TTATTTTTTTGTTATTTTTTATTACTATTTATT
1 TTATTTTCTTATTATTTTTTATTACTATTAATT
* *
26056683 TTATTTTCTTATTA-TTTTTCTTAGTATTAATT
1 TTATTTTCTTATTATTTTTTATTACTATTAATT
26056715 TTATT
1 TTATT
26056720 AAGTTCTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (33 bp):
TTATTTTCTTATTATTTTTTATTACTATTAATT
Found at i:26056746 original size:15 final size:16
Alignment explanation
Indices: 26056719--26056748 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26056709 TTAATTTTAT
26056719 TAAGTTCTTGTTTTTG
1 TAAGTTCTTGTTTTTG
26056735 TAAGTT-TTGTTTTT
1 TAAGTTCTTGTTTTT
26056749 AGTTTTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.03, G:0.17, T:0.67
Consensus pattern (16 bp):
TAAGTTCTTGTTTTTG
Found at i:26058241 original size:6 final size:6
Alignment explanation
Indices: 26058226--26058263 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
26058216 TTATTTCATG
26058226 TTTA-T TTTATT TTTATT TTTATT GCTTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT --TTTATT TTTATT T
26058264 CTTAGACTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 20 0.67
8 6 0.20
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:26058256 original size:14 final size:12
Alignment explanation
Indices: 26058226--26058263 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
26058216 TTATTTCATG
26058226 TTTA-TTTTATT
1 TTTATTTTTATT
26058237 TTTATTTTTATT
1 TTTATTTTTATT
26058249 GCTTTATTTTTATT
1 --TTTATTTTTATT
26058263 T
1 T
26058264 CTTAGACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.17
12 8 0.33
14 12 0.50
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:26060004 original size:19 final size:19
Alignment explanation
Indices: 26059980--26060021 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
26059970 CCCGCTGAAT
26059980 ATTTTTTAATTTTTATTGG
1 ATTTTTTAATTTTTATTGG
26059999 ATTTTTTAATTTTTATTGG
1 ATTTTTTAATTTTTATTGG
26060018 ATTT
1 ATTT
26060022 CGTATTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (19 bp):
ATTTTTTAATTTTTATTGG
Found at i:26060030 original size:19 final size:19
Alignment explanation
Indices: 26059986--26060030 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
26059976 GAATATTTTT
**
26059986 TAATTTTTATTGGATTTTT
1 TAATTTTTATTGGATTTCG
26060005 TAATTTTTATTGGATTTCG
1 TAATTTTTATTGGATTTCG
26060024 T-ATTTTT
1 TAATTTTT
26060031 CAATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (19 bp):
TAATTTTTATTGGATTTCG
Found at i:26062600 original size:47 final size:46
Alignment explanation
Indices: 26062528--26062648 Score: 158
Period size: 47 Copynumber: 2.6 Consensus size: 46
26062518 AAGTGTGGGG
*
26062528 ATATTTGATAAGTGATAAAAGTAACATATTTTAAT-CTCA-T-TCTTA
1 ATATTTGATAAGTGATAAAAGTAACATATTTT-ATGCTAAGTAT-TTA
*
26062573 ATGAGTTTGATAAGTGATAAAAGTAACATATTTTATGCTAAGGTATTTG
1 AT-A-TTTGATAAGTGATAAAAGTAACATATTTTATGCTAA-GTATTTA
26062622 ATATTTGATAAGTGATAAAAGTAACAT
1 ATATTTGATAAGTGATAAAAGTAACAT
26062649 GAATCCTAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
45 2 0.03
46 3 0.04
47 56 0.82
48 1 0.01
49 5 0.07
50 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (46 bp):
ATATTTGATAAGTGATAAAAGTAACATATTTTATGCTAAGTATTTA
Found at i:26069073 original size:30 final size:31
Alignment explanation
Indices: 26069032--26069093 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
26069022 AAACCTTTTT
*
26069032 ACTTTCCCCCCAAAACTTTTAC-TCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACACCCCTCCC
*
26069062 ACTTTCTCCCCAAAACTTTTACACCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACACCCCTCCC
26069093 A
1 A
26069094 TCTCACCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACACCCCTCCC
Found at i:26074767 original size:84 final size:85
Alignment explanation
Indices: 26074676--26074844 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 85
26074666 TAGGTCCTTT
26074676 TATAATTTATAAAATTTTAAATTAGTATTGGTAAAATTGTATTTTCGCTCCCCAAAATTGATAAA
1 TATAATTTATAAAATTTTAAATTAGTATTGGTAAAATTGTATTTTCGCTCCCCAAAATTGATAAA
26074741 AAATTGA-TTAATCTTTTAA
66 AAATTGATTTAATCTTTTAA
26074760 TATAATTTATAAAATTTTAAATTAGTATTGGTAAAATTGTATTTTCGCTCCCCAAAATTGATAAA
1 TATAATTTATAAAATTTTAAATTAGTATTGGTAAAATTGTATTTTCGCTCCCCAAAATTGATAAA
26074825 AAATTGATTTAATCTTTTAA
66 AAATTGATTTAATCTTTTAA
26074845 AAATTATAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 72 0.86
85 12 0.14
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (85 bp):
TATAATTTATAAAATTTTAAATTAGTATTGGTAAAATTGTATTTTCGCTCCCCAAAATTGATAAA
AAATTGATTTAATCTTTTAA
Found at i:26075015 original size:29 final size:31
Alignment explanation
Indices: 26074955--26075014 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
26074945 CCCTAGTTTC
* *
26074955 ACATATATATTTGTATCATAATAAAAATTTT
1 ACATATATAATTGTACCATAATAAAAATTTT
*
26074986 ACATATATAATTGTACCA-AATCAAAATTT
1 ACATATATAATTGTACCATAATAAAAATTT
26075015 ATGTATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (31 bp):
ACATATATAATTGTACCATAATAAAAATTTT
Found at i:26086200 original size:12 final size:12
Alignment explanation
Indices: 26086185--26086210 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26086175 TGGAGGAACA
26086185 GATGGAAATGAT
1 GATGGAAATGAT
26086197 GATGGAAATGAT
1 GATGGAAATGAT
26086209 GA
1 GA
26086211 CTACAATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (12 bp):
GATGGAAATGAT
Found at i:26094698 original size:42 final size:42
Alignment explanation
Indices: 26094651--26094817 Score: 196
Period size: 42 Copynumber: 4.0 Consensus size: 42
26094641 AAGGAAAAAA
*
26094651 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * *
26094693 TTCATTGCATTTAGAGACCTAGGTGTGGAGGTCCATTCACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * **
26094735 TTCATTGCATCTAGAGACCTAGGTGTGGAGGTCTGTTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
26094777 TTC--TA-GTTTAGAGGCTCAGGTGTGGAGGTCCGTTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
26094816 TT
1 TT
26094818 TTTAGTTTAC
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 30 0.27
40 1 0.01
42 79 0.72
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (42 bp):
TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
Found at i:26095404 original size:20 final size:20
Alignment explanation
Indices: 26095372--26095410 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26095362 ACTACATGCA
26095372 TTCTATTTCTTTTTTTTTTC
1 TTCTATTTCTTTTTTTTTTC
26095392 TTCTACTTT-TTTTTTTTTT
1 TTCTA-TTTCTTTTTTTTTT
26095411 GCCATAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTATTTCTTTTTTTTTTC
Found at i:26095882 original size:23 final size:21
Alignment explanation
Indices: 26095842--26095905 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 21
26095832 TTTAATCTTT
*
26095842 AAGAAAATAGTTTTTTTTTTAAA
1 AAGAAAA-A-TTTGTTTTTTAAA
* *
26095865 AAGAGAAATTTTAGTTTTTGAAA
1 AAGA-AAAATTT-GTTTTTTAAA
*
26095888 AATAAAAATTTGTTTTTT
1 AAGAAAAATTTGTTTTTT
26095906 TAAGTTGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 6 0.18
22 9 0.27
23 15 0.45
24 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (21 bp):
AAGAAAAATTTGTTTTTTAAA
Found at i:26095886 original size:145 final size:150
Alignment explanation
Indices: 26095575--26095906 Score: 435
Period size: 145 Copynumber: 2.2 Consensus size: 150
26095565 TTGGGAAAAG
* * * *
26095575 TTTAGATTTT-AACAAATAAAAATTTG-TTTTTTTAGTTATTTTTAAGGAAAGTTTAAATTTTTA
1 TTTAGTTTTTGAA-AAATAAAAATTTGTTTTTTTTAGTCATTTCT-----AAGTTTAAAATTTTA
* * * *
26095638 AAACAAAGTTTTGATTTTTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATATTTTAAAAAAAAT
60 AAACAAAGTTTTGATTTTTTTTTTCAACTACTCCAAAATAAAAGCTTTAATACTTTAAAAAAAAT
26095703 AGTGTTTTTCTTTAAAAAAAAGAAAT
125 AGTGTTTTTCTTTAAAAAAAAGAAAT
* *
26095729 TTTAGTTTTTGAAAATTAAAAATTTGTTTTTTTTAGTCATTTCTAAGTTTAAAATTTTAAAACAG
1 TTTAGTTTTTGAAAAATAAAAATTTGTTTTTTTTAGTCATTTCTAAGTTTAAAATTTTAAAACAA
* *
26095794 AGTTTTGA-TTTTTTTTTCAACTACTCCAAAATAACAGCTTTAAT-CTTT-AAGAAAATAGT-TT
66 AGTTTTGATTTTTTTTTTCAACTACTCCAAAATAAAAGCTTTAATACTTTAAAAAAAATAGTGTT
* *
26095855 TTT-TTTTAAAAAGAGAAAT
131 TTTCTTTAAAAAAAAGAAAT
26095874 TTTAGTTTTTGAAAAATAAAAATTTGTTTTTTT
1 TTTAGTTTTTGAAAAATAAAAATTTGTTTTTTT
26095907 AAGTTGAAAA
Statistics
Matches: 161, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
145 46 0.29
146 5 0.03
147 10 0.06
148 3 0.02
149 32 0.20
150 27 0.17
154 21 0.13
155 17 0.11
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (150 bp):
TTTAGTTTTTGAAAAATAAAAATTTGTTTTTTTTAGTCATTTCTAAGTTTAAAATTTTAAAACAA
AGTTTTGATTTTTTTTTTCAACTACTCCAAAATAAAAGCTTTAATACTTTAAAAAAAATAGTGTT
TTTCTTTAAAAAAAAGAAAT
Found at i:26095916 original size:27 final size:27
Alignment explanation
Indices: 26095882--26095937 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
26095872 ATTTTAGTTT
* *
26095882 TTGAAAAATAAAAATTTGTTTTTTTAAG
1 TTGAAAAACAAAAA-TTGATTTTTTAAG
26095910 TTGAAAAACAAAAATTGATTTTTTAAG
1 TTGAAAAACAAAAATTGATTTTTTAAG
26095937 T
1 T
26095938 CATTTTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (27 bp):
TTGAAAAACAAAAATTGATTTTTTAAG
Found at i:26096600 original size:10 final size:9
Alignment explanation
Indices: 26096582--26096650 Score: 61
Period size: 10 Copynumber: 7.1 Consensus size: 9
26096572 CACTTGTATA
26096582 ATTTTATTT
1 ATTTTATTT
26096591 ATTCTTATTT
1 ATT-TTATTT
26096601 CATTTTATTT
1 -ATTTTATTT
26096611 ATTTTCATGTTT
1 ATTTT-A--TTT
26096623 ATTTATATTT
1 ATTT-TATTT
26096633 ATATTT-TTT
1 AT-TTTATTT
26096642 ATTTT-TTT
1 ATTTTATTT
26096650 A
1 A
26096651 AACATTCCCC
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.13
9 13 0.25
10 19 0.36
11 5 0.09
12 8 0.15
13 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (9 bp):
ATTTTATTT
Found at i:26096623 original size:16 final size:15
Alignment explanation
Indices: 26096598--26096646 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
26096588 TTTATTCTTA
26096598 TTTCATTTTATTTAT
1 TTTCATTTTATTTAT
26096613 TTTCATGTTTATTTAT
1 TTTCAT-TTTATTTAT
26096629 ATTT-ATATTT-TTTAT
1 -TTTCAT-TTTATTTAT
26096644 TTT
1 TTT
26096647 TTTAAACATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 14 0.45
17 3 0.10
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTCATTTTATTTAT
Found at i:26111635 original size:6 final size:6
Alignment explanation
Indices: 26111626--26111656 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
26111616 AAAATTTAAA
26111626 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
26111657 GTACTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:26111950 original size:5 final size:5
Alignment explanation
Indices: 26111940--26111964 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26111930 ACTATTTATA
26111940 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
26111965 AATTTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:26116846 original size:86 final size:86
Alignment explanation
Indices: 26116561--26116970 Score: 435
Period size: 86 Copynumber: 4.8 Consensus size: 86
26116551 TTAAGTCTTT
* ** * * ** * *
26116561 GTTTGGAAACAAAATC-AAGATCAAATAAAATCAGTTAAACATCGGGAATAAATCCTGAAACAGA
1 GTTTGGAAACAAAATCAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAAA
* *
26116625 --TTATTCAA--TT--TTCTA
66 TTTTATTTAACTTTAATTCTC
* * * * ** * * *
26116640 ATTTGGAAACAAAATC-AAAATCGAATAAAATTTGTTAAACGATGGGAATAAATCCAGAAATAGA
1 GTTTGGAAACAAAATCAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAAA
*
26116704 TTTTATTTAATTTTAATTTCTC
66 TTTTATTTAACTTTAA-TTCTC
*
26116726 GTTTTGGAAACAAAATCAAAATTGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAA
1 G-TTTGGAAACAAAATCAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAA
*
26116791 ATTTTATTTAACTTTAATTCTT
65 ATTTTATTTAACTTTAATTCTC
* * *
26116813 GTTTGG-AACTAAAATCAAAAATGGAATAAAATCTGTTGAACGGCGAGAATAAATCTCGAAACAG
1 GTTTGGAAAC-AAAATCAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAA
26116877 ATTTTATTTAACTTTAATTCTC
65 ATTTTATTTAACTTTAATTCTC
* * * *
26116899 ATTTGGAAATAAAATCAAAAAAT-GAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAACAA
1 GTTTGGAAACAAAATC-AAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAA
*
26116963 ATCTTATT
65 ATTTTATT
26116971 CAATTTTTAT
Statistics
Matches: 282, Mismatches: 37, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
79 54 0.19
81 7 0.02
83 2 0.01
85 3 0.01
86 134 0.48
87 28 0.10
88 54 0.19
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (86 bp):
GTTTGGAAACAAAATCAAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAAA
TTTTATTTAACTTTAATTCTC
Found at i:26117470 original size:20 final size:20
Alignment explanation
Indices: 26117432--26117484 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
26117422 ATTAAAGGAG
* * *
26117432 AAATTAAATCAATTTGATTA
1 AAATCAAATCAAATAGATTA
*
26117452 AAATCAAATCAAATAGATTG
1 AAATCAAATCAAATAGATTA
*
26117472 GAATCAAAT-AAAT
1 AAATCAAATCAAAT
26117485 CAGGATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.30
Consensus pattern (20 bp):
AAATCAAATCAAATAGATTA
Found at i:26118218 original size:22 final size:20
Alignment explanation
Indices: 26118190--26118230 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
26118180 TCCCTGCATA
*
26118190 AAAGTTTCATTTGTTTAATTTC
1 AAAGTTT-ATTT-TATAATTTC
26118212 AAAGTTTATTTTATAATTT
1 AAAGTTTATTTTATAATTT
26118231 AAGATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
AAAGTTTATTTTATAATTTC
Found at i:26123632 original size:26 final size:27
Alignment explanation
Indices: 26123603--26123654 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
26123593 GGTCCTTATG
26123603 AACTTTCC-ATTAACATATTCATGGAA
1 AACTTTCCAATTAACATATTCATGGAA
*
26123629 AACTTTCCATATTAAGATATTCATGG
1 AACTTTCCA-ATTAACATATTCATGG
26123655 CGGAGTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.35
28 15 0.65
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (27 bp):
AACTTTCCAATTAACATATTCATGGAA
Found at i:26123686 original size:28 final size:28
Alignment explanation
Indices: 26123661--26123754 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
26123651 ATGGCGGAGT
26123661 TTCCACA-TTAAGATCGTCCTAACGGAC
1 TTCCACATTTAAGATCGTCCTAACGGAC
* * * *
26123688 TTCCACATTTAAAATGGTACTGACGGAC
1 TTCCACATTTAAGATCGTCCTAACGGAC
26123716 TTCCACATTTAAGATCGTCCTGAA-GGAC
1 TTCCACATTTAAGATCGTCCT-AACGGAC
26123744 TTCCACATTTA
1 TTCCACATTTA
26123755 TGATAATGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 7 0.12
28 49 0.86
29 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (28 bp):
TTCCACATTTAAGATCGTCCTAACGGAC
Found at i:26123999 original size:57 final size:57
Alignment explanation
Indices: 26123908--26124058 Score: 241
Period size: 57 Copynumber: 2.6 Consensus size: 57
26123898 CTTAGTCCAA
*
26123908 CCGAACCTCCCTCAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
1 CCGAACCT-CCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
*
26123966 CTGAACCTCCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
1 CCGAACCTCCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
* *
26124023 CCGAACCTCCTCT-AAGCCACATACATATCATGCATA
1 CCGAACCTCCT-TAAAGCCACATAAATATAATGCATA
26124059 CATATGCAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
57 79 0.91
58 8 0.09
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (57 bp):
CCGAACCTCCTTAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
Found at i:26130215 original size:51 final size:51
Alignment explanation
Indices: 26130153--26130343 Score: 242
Period size: 51 Copynumber: 3.7 Consensus size: 51
26130143 TGAAAGTGAA
* * *
26130153 AGTGATGGTCACGTGTGTAGTACTATGGGCAGGCTACTACGTGTATCTGAT
1 AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGAT
* * * * * *
26130204 CGTGATAGTCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGAT
1 AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGAT
* *
26130255 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGAT
1 AG-TGATAG-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGAT
*
26130306 AGTGATAGTCACATGTGTAGTACTATGTGTAGGCTACT
1 AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACT
26130344 GTGTGAACCG
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
50 3 0.03
51 110 0.95
52 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
AGTGATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGAT
Found at i:26130354 original size:102 final size:102
Alignment explanation
Indices: 26130161--26130354 Score: 343
Period size: 102 Copynumber: 1.9 Consensus size: 102
26130151 AAAGTGATGG
*
26130161 TCACGTGTGTAGTACTATGGGCAGGCTACTACGTGTATCTGATCGTGATAGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGGGCAGGCTACTACGTGTATCTGATAGTGATAGTCACATGTGTAGTA
*
26130226 CTATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
66 CTATGTGTAGGCTACTATGCGAACCGGATAGCTTCGA
*
26130263 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCTGATAGTGATAGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGGGCAGGCTACTACGTGTATCTGATAGTGATAGTCACATGTGTAGTA
* *
26130328 CTATGTGTAGGCTACTGTGTGAACCGG
66 CTATGTGTAGGCTACTATGCGAACCGG
26130355 TATCATTAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGGGCAGGCTACTACGTGTATCTGATAGTGATAGTCACATGTGTAGTA
CTATGTGTAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:26132207 original size:37 final size:37
Alignment explanation
Indices: 26132157--26132233 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
26132147 TTCAGTTTGT
26132157 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
26132194 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
26132231 CTA
1 CTA
26132234 CTCAAAACTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (37 bp):
CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
Found at i:26135373 original size:28 final size:28
Alignment explanation
Indices: 26135215--26135374 Score: 137
Period size: 28 Copynumber: 5.8 Consensus size: 28
26135205 TTGATGGGTT
* * * *
26135215 TTCCACA-TTAAGATAGCCCTGGTGAAC
1 TTCCACATTTAAGATCGTCCTGATGGAC
* * *
26135242 TTTCCACA-TTAAGATCATCTTGACAGG-C
1 -TTCCACATTTAAGATCGTCCTGA-TGGAC
*
26135270 TTCCACATTTAAGATCGTCCTGACGGAC
1 TTCCACATTTAAGATCGTCCTGATGGAC
* * *
26135298 TTCCACATTTAAGATCCTCCTAATGGAT
1 TTCCACATTTAAGATCGTCCTGATGGAC
* *
26135326 TTTCACATTTAAGATCGTCCTGATAGAC
1 TTCCACATTTAAGATCGTCCTGATGGAC
* * *
26135354 TTCCAGATTTACGATTGTCCT
1 TTCCACATTTAAGATCGTCCT
26135375 AACGAGCTTC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 9 0.08
28 96 0.91
29 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (28 bp):
TTCCACATTTAAGATCGTCCTGATGGAC
Found at i:26135392 original size:56 final size:55
Alignment explanation
Indices: 26135243--26135392 Score: 149
Period size: 56 Copynumber: 2.7 Consensus size: 55
26135233 CTGGTGAACT
* * * *
26135243 TTCCACA-TTAAGATCATCTTGACAGGCTTCCACATTTAAGATCGTCCTGACGGAC
1 TTCCACATTTAAGATCCTCCTAAC-GGCTTCCACATTTAAGATCGTCCTGACAGAC
* * * *
26135298 TTCCACATTTAAGATCCTCCTAATGGATTTTCACATTTAAGATCGTCCTGATAGAC
1 TTCCACATTTAAGATCCTCCTAACGG-CTTCCACATTTAAGATCGTCCTGACAGAC
* * ** *
26135354 TTCCAGATTTACGATTGTCCTAACGAGCTTCCATATTTA
1 TTCCACATTTAAGATCCTCCTAACG-GCTTCCACATTTA
26135393 TGGTAATGCC
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
55 9 0.12
56 66 0.87
57 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (55 bp):
TTCCACATTTAAGATCCTCCTAACGGCTTCCACATTTAAGATCGTCCTGACAGAC
Found at i:26143628 original size:39 final size:39
Alignment explanation
Indices: 26143585--26143662 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
26143575 CCGTGGTAGG
26143585 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
1 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
26143624 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
1 TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
26143663 CTCTTCTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (39 bp):
TCTATGCTCGTAGACTGAGGGGCCGGTTTAGTTTAGACA
Found at i:26149333 original size:32 final size:32
Alignment explanation
Indices: 26149297--26149359 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
26149287 ATCATATCAA
**
26149297 TCCTTAAGA-TTGGCATTTATTATACAAATTGG
1 TCCTTAA-ATTTGGCATACATTATACAAATTGG
*
26149329 TCCTTAAATTTGGCATACGTTATACAAATTG
1 TCCTTAAATTTGGCATACATTATACAAATTG
26149360 ATTACTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (32 bp):
TCCTTAAATTTGGCATACATTATACAAATTGG
Found at i:26149567 original size:27 final size:26
Alignment explanation
Indices: 26149520--26149573 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
26149510 AAAAAAAGAC
*
26149520 ATATATATTCAAAATTATAAAAAATTA
1 ATATATATTCAAAAATAT-AAAAATTA
*
26149547 ATATATATTTGAAAAAT-TAAAAATTA
1 ATATATA-TTCAAAAATATAAAAATTA
26149573 A
1 A
26149574 AATAGTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 8 0.33
28 7 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
ATATATATTCAAAAATATAAAAATTA
Found at i:26149623 original size:28 final size:28
Alignment explanation
Indices: 26149582--26149644 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
26149572 AAAATAGTTA
*
26149582 AAATTTCAAAAATAAAAAAAATATTATG
1 AAATTTTAAAAATAAAAAAAATATTATG
* * * *
26149610 AAATTTTAATAATAATAAAAATATTCTT
1 AAATTTTAAAAATAAAAAAAATATTATG
26149638 AAATTTT
1 AAATTTT
26149645 TAGAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (28 bp):
AAATTTTAAAAATAAAAAAAATATTATG
Found at i:26149947 original size:24 final size:25
Alignment explanation
Indices: 26149920--26149983 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
26149910 ATTTGCAAAG
*
26149920 TATTTTTGAATTATTGA-ATTATTA
1 TATTTTTGAATTATTAACATTATTA
* * *
26149944 TATTTTTTAATTTTTAACTATTTTTA
1 TATTTTTGAATTATTAAC-ATTATTA
*
26149970 TTTTTTTGAATTAT
1 TATTTTTGAATTAT
26149984 ATATATTCAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (25 bp):
TATTTTTGAATTATTAACATTATTA
Found at i:26153128 original size:25 final size:26
Alignment explanation
Indices: 26153071--26153146 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
26153061 ACATGATTGA
*
26153071 GATATATTTGCATGTATATATAATAT
1 GATATATTTTCATGTATATATAATAT
* * *
26153097 GTTTATATTTTCATGTATCTA-ATTAT
1 G-ATATATTTTCATGTATATATAATAT
* *
26153123 GATATATTTTCCTCTATATATAAT
1 GATATATTTTCATGTATATATAAT
26153147 TTTTTTTAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 15 0.38
26 8 0.21
27 16 0.41
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (26 bp):
GATATATTTTCATGTATATATAATAT
Found at i:26153554 original size:5 final size:5
Alignment explanation
Indices: 26153544--26153572 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
26153534 TATAAATTCA
26153544 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
26153573 CAAATTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:26154036 original size:10 final size:11
Alignment explanation
Indices: 26154013--26154049 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
26154003 TGATGTATTA
26154013 TATTTTAAATT
1 TATTTTAAATT
*
26154024 TATTTT-TATT
1 TATTTTAAATT
26154034 TATTTTAAATT
1 TATTTTAAATT
26154045 TATTT
1 TATTT
26154050 AATGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTAAATT
Found at i:26157908 original size:14 final size:14
Alignment explanation
Indices: 26157870--26157953 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 14
26157860 GAACCCATCC
*
26157870 GTGCGAACCCTTAGGT
1 GTGCGAACCC-T-GAT
*
26157886 GTGCAAACCCTGAT
1 GTGCGAACCCTGAT
*
26157900 GTGCGAACCCTAGGT
1 GTGCGAACCCT-GAT
* * *
26157915 GAGTGAACCCTAAT
1 GTGCGAACCCTGAT
* *
26157929 GTGCGACCCCTAAT
1 GTGCGAACCCTGAT
*
26157943 GAGCGAACCCT
1 GTGCGAACCCT
26157954 AGGCGTAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
14 33 0.61
15 12 0.22
16 9 0.17
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (14 bp):
GTGCGAACCCTGAT
Found at i:26157923 original size:29 final size:29
Alignment explanation
Indices: 26157870--26157954 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
26157860 GAACCCATCC
* * *
26157870 GTGCGAACCCTTAGGTGTGCAAACCCTGAT
1 GTGCGAACCC-TAGGTGAGCGAACCCTAAT
*
26157900 GTGCGAACCCTAGGTGAGTGAACCCTAAT
1 GTGCGAACCCTAGGTGAGCGAACCCTAAT
* *
26157929 GTGCGACCCCTA-ATGAGCGAACCCTA
1 GTGCGAACCCTAGGTGAGCGAACCCTA
26157955 GGCGTAAACC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 12 0.25
29 26 0.54
30 10 0.21
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (29 bp):
GTGCGAACCCTAGGTGAGCGAACCCTAAT
Found at i:26157954 original size:14 final size:14
Alignment explanation
Indices: 26157891--26157954 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
26157881 TAGGTGTGCA
* *
26157891 AACCCTGATGTGCG
1 AACCCTAATGAGCG
* *
26157905 AACCCTAGGTGAGTG
1 AACCCTA-ATGAGCG
*
26157920 AACCCTAATGTGCG
1 AACCCTAATGAGCG
*
26157934 ACCCCTAATGAGCG
1 AACCCTAATGAGCG
26157948 AACCCTA
1 AACCCTA
26157955 GGCGTAAACC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 28 0.72
15 11 0.28
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (14 bp):
AACCCTAATGAGCG
Found at i:26158022 original size:15 final size:15
Alignment explanation
Indices: 26157985--26158023 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
26157975 AACTCACATG
*
26157985 TGCAAACCCCTAAGG
1 TGCAAACCCCTAAGC
*
26158000 TGCAAACCCCTCAGC
1 TGCAAACCCCTAAGC
*
26158015 TGCGAACCC
1 TGCAAACCC
26158024 ATACGTGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.41, G:0.18, T:0.13
Consensus pattern (15 bp):
TGCAAACCCCTAAGC
Found at i:26167877 original size:13 final size:13
Alignment explanation
Indices: 26167839--26167874 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
26167829 ATTTACAAAA
26167839 ATTAATTATTATT
1 ATTAATTATTATT
26167852 ATTAATTATTATT
1 ATTAATTATTATT
26167865 A-TAATT-TTAT
1 ATTAATTATTAT
26167875 ATTTGTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 5 0.22
13 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTAATTATTATT
Found at i:26168071 original size:10 final size:10
Alignment explanation
Indices: 26168058--26168082 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26168048 AATTGTTTAG
26168058 AATTTATTAT
1 AATTTATTAT
26168068 AATTTATTAT
1 AATTTATTAT
26168078 AATTT
1 AATTT
26168083 CTTAGAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTTATTAT
Found at i:26182323 original size:7 final size:7
Alignment explanation
Indices: 26182311--26182337 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26182301 ATTTTACTCT
26182311 TAAACCC
1 TAAACCC
26182318 TAAACCC
1 TAAACCC
26182325 TAAACCC
1 TAAACCC
26182332 TAAACC
1 TAAACC
26182338 TACCACCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:26188442 original size:49 final size:51
Alignment explanation
Indices: 26188349--26188447 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 51
26188339 ATTGCGAAAT
** *
26188349 TATTTAAGCAATTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACCAAAGAAAACTGAAAAACAACTGAATTAATTAAACTAAG
*
26188400 TATTTAAGCAACCAAAGAAAA-T-TAAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACCAAAGAAAACTGAAAAACAACTGAATTAATTAAACTAA
26188448 ACATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 24 0.55
50 1 0.02
51 19 0.43
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (51 bp):
TATTTAAGCAACCAAAGAAAACTGAAAAACAACTGAATTAATTAAACTAAG
Found at i:26191923 original size:37 final size:37
Alignment explanation
Indices: 26191873--26191947 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
26191863 GATACTTACT
26191873 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
1 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
26191910 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
1 TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
26191947 T
1 T
26191948 ATCTCTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.44
Consensus pattern (37 bp):
TCAATTTCACTATCTCTGATACTTACTTCAATTTCAC
Found at i:26193042 original size:17 final size:18
Alignment explanation
Indices: 26193010--26193047 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
26193000 ACTATAGAAA
26193010 ATTAAATAGACCGGAATAT
1 ATTAAATAGACCGGAAT-T
26193029 ATTAAAT-G-CCGGAATT
1 ATTAAATAGACCGGAATT
26193045 ATT
1 ATT
26193048 TAAGCAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 1 0.05
19 7 0.37
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (18 bp):
ATTAAATAGACCGGAATT
Found at i:26193151 original size:51 final size:51
Alignment explanation
Indices: 26193041--26193194 Score: 249
Period size: 51 Copynumber: 3.0 Consensus size: 51
26193031 TAAATGCCGG
*
26193041 AATTATTTAAGCAACTAAAAAAAACTGAAAAAGCAACTTAATTAATTAAACT
1 AATTATTTAAGCAACTAAAGAAAACTGAAAAA-CAACTTAATTAATTAAACT
*
26193093 AAGTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
1 AATTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
* *
26193144 AATTATTTAAGCAACTAAAGAAAA-T-TAAAACAACTGAATTAATTAAACT
1 AATTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
26193193 AA
1 AA
26193195 ACATATTACA
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 24 0.25
50 1 0.01
51 42 0.43
52 30 0.31
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (51 bp):
AATTATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACT
Found at i:26194399 original size:9 final size:9
Alignment explanation
Indices: 26194385--26194410 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
26194375 AAATCTAATT
26194385 CAAATAAAA
1 CAAATAAAA
26194394 CAAATAAAA
1 CAAATAAAA
26194403 CAAATAAA
1 CAAATAAA
26194411 TAACTAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAATAAAA
Found at i:26203391 original size:21 final size:21
Alignment explanation
Indices: 26203352--26203391 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26203342 AATAATCAAG
* * *
26203352 TAGGTATCGGTATTTATGTGT
1 TAGGTATCGATACTAATGTGT
26203373 TAGGTATCGATACTAATGT
1 TAGGTATCGATACTAATGT
26203392 AAATATCGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (21 bp):
TAGGTATCGATACTAATGTGT
Found at i:26205581 original size:21 final size:21
Alignment explanation
Indices: 26205557--26205659 Score: 79
Period size: 21 Copynumber: 4.9 Consensus size: 21
26205547 GTTGCATGGG
*
26205557 CGTGTCTCTCAGTCACACGGC
1 CGTGTCCCTCAGTCACACGGC
*
26205578 CGTGTCCCTCAGTCACACGGG
1 CGTGTCCCTCAGTCACACGGC
* * *
26205599 CATGTGCCC-CAGTCACACAGT
1 CGTGT-CCCTCAGTCACACGGC
*
26205620 C-TAGACCCTCAGTCACACAGG-
1 CGT-GTCCCTCAGTCACAC-GGC
*
26205641 AGTGTACCC-CAGTCACACG
1 CGTGT-CCCTCAGTCACACG
26205660 ATTAAGACCC
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
20 5 0.07
21 54 0.81
22 8 0.12
ACGTcount: A:0.21, C:0.38, G:0.22, T:0.18
Consensus pattern (21 bp):
CGTGTCCCTCAGTCACACGGC
Found at i:26205612 original size:42 final size:42
Alignment explanation
Indices: 26205566--26205659 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
26205556 GCGTGTCTCT
* * *
26205566 CAGTCACACGGCCGT-GTCCCTCAGTCACACGGGCA-TGTGCCC
1 CAGTCACACGGCC-TAGACCCTCAGTCACACAGG-AGTGTACCC
* *
26205608 CAGTCACACAGTCTAGACCCTCAGTCACACAGGAGTGTACCC
1 CAGTCACACGGCCTAGACCCTCAGTCACACAGGAGTGTACCC
26205650 CAGTCACACG
1 CAGTCACACG
26205660 ATTAAGACCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.23, C:0.38, G:0.22, T:0.16
Consensus pattern (42 bp):
CAGTCACACGGCCTAGACCCTCAGTCACACAGGAGTGTACCC
Found at i:26206638 original size:23 final size:23
Alignment explanation
Indices: 26206612--26206672 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
26206602 TTCATTTAAC
*
26206612 TTAATCAAACATGTGCACGAACA
1 TTAATCGAACATGTGCACGAACA
* * *
26206635 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTGCACGAACA
*
26206658 TATAATTGAACATGT
1 T-TAATCGAACATGT
26206673 TAACGAAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAATCGAACATGTGCACGAACA
Found at i:26206671 original size:24 final size:23
Alignment explanation
Indices: 26206619--26206679 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
26206609 AACTTAATCA
*
26206619 AACATGTGCACGAACATTAAACG
1 AACATGTTCACGAACATTAAACG
* **
26206642 AACATGTTCATGAACATATAATTG
1 AACATGTTCACGAACAT-TAAACG
*
26206666 AACATGTTAACGAA
1 AACATGTTCACGAA
26206680 GAATGTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (23 bp):
AACATGTTCACGAACATTAAACG
Found at i:26207447 original size:24 final size:24
Alignment explanation
Indices: 26207402--26207447 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
26207392 ACAAATAACA
* *
26207402 AAAAACAAATAAATATAAAAATAT
1 AAAAACAAAGAAATAGAAAAATAT
* *
26207426 AAAAATAAAGAAATAGACAAAT
1 AAAAACAAAGAAATAGAAAAAT
26207448 TTTAAAGTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAACAAAGAAATAGAAAAATAT
Found at i:26210586 original size:14 final size:13
Alignment explanation
Indices: 26210567--26210613 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
26210557 TTTAAGAAAC
26210567 AAATAACAAATAAA
1 AAATAA-AAATAAA
*
26210581 AAATAAATATAAA
1 AAATAAAAATAAA
26210594 AATATAAAAATAAA
1 AA-ATAAAAATAAA
26210608 TAAATA
1 -AAATA
26210614 GACGAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.28
14 19 0.66
15 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:26210592 original size:20 final size:20
Alignment explanation
Indices: 26210569--26210609 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
26210559 TAAGAAACAA
26210569 ATAACAAATA-AAAAATAAAT
1 ATAA-AAATATAAAAATAAAT
26210589 ATAAAAATATAAAAATAAAT
1 ATAAAAATATAAAAATAAAT
26210609 A
1 A
26210610 AATAGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
ATAAAAATATAAAAATAAAT
Found at i:26214586 original size:9 final size:9
Alignment explanation
Indices: 26214572--26214607 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
26214562 AAATTTAAAC
26214572 AAAGAAAAG
1 AAAGAAAAG
26214581 AAAGAAAAG
1 AAAGAAAAG
26214590 AAAGAAAAG
1 AAAGAAAAG
*
26214599 ATAGAAAAG
1 AAAGAAAAG
26214608 GAGAAGAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:26218668 original size:189 final size:189
Alignment explanation
Indices: 26218348--26218723 Score: 635
Period size: 189 Copynumber: 2.0 Consensus size: 189
26218338 AAATTTTCTA
* * *
26218348 CATTATTGATTATTCGGTGGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGCCAG
1 CATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
*
26218413 ACGAAATCTAAGGAACTCATGGTGTGTAGCGGATGGTATGGGTAGGAACCTTTTTCCAATGCATC
66 ACGAAATCTAAGGAACTCATGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCAATGCATC
*
26218478 ATGTGCATGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTACG
131 ATGTGCACGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTACG
*
26218537 CATTATTGATTATTCAGTCGTTTTACGACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
1 CATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
* * * * *
26218602 ATGAAATCTGAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTGCATTGCATC
66 ACGAAATCTAAGGAACTCATGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCAATGCATC
* *
26218667 ATGTGCACGACATATTCGAATGTTATTGGTTTATGCTACGCATTGTATTTTTTTGTA
131 ATGTGCACGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTA
26218724 TTGAATGGCA
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
189 174 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (189 bp):
CATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAG
ACGAAATCTAAGGAACTCATGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCAATGCATC
ATGTGCACGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTGTTGTACG
Found at i:26220979 original size:17 final size:18
Alignment explanation
Indices: 26220957--26221019 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
26220947 TAAATTTAGC
*
26220957 AAAATAAGAACA-TAAAA
1 AAAATAAGAAAATTAAAA
26220974 AAAATAAGAAAATTAAAA
1 AAAATAAGAAAATTAAAA
*
26220992 ATAAATAATAAATATTCAAAA
1 A-AAATAAGAAA-ATT-AAAA
*
26221013 ATAATAA
1 AAAATAA
26221020 CTAAATAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.28
18 6 0.15
19 9 0.23
20 8 0.21
21 5 0.13
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAATAAGAAAATTAAAA
Found at i:26224946 original size:27 final size:27
Alignment explanation
Indices: 26224916--26225040 Score: 123
Period size: 27 Copynumber: 4.6 Consensus size: 27
26224906 ACCCTATAAA
26224916 GGTATTTCAGTAATTTTCCAAACTGAG
1 GGTATTTCAGTAATTTTCCAAACTGAG
*
26224943 GGTATTTC-GATAATTTTCCAAA-TCAGG
1 GGTATTTCAG-TAATTTTCCAAACTGA-G
* *
26224970 GGTACTTT-GGTAA-TTTCACAAATTGAG
1 GGTA-TTTCAGTAATTTTC-CAAACTGAG
* * * *
26224997 GGTATTTCGGTAATTTTACAAACCGAA
1 GGTATTTCAGTAATTTTCCAAACTGAG
26225024 GGTATTTCAGTAATTTT
1 GGTATTTCAGTAATTTT
26225041 GTAAACCAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.12
27 64 0.77
28 9 0.11
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTCCAAACTGAG
Found at i:26225037 original size:54 final size:52
Alignment explanation
Indices: 26224914--26225039 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 52
26224904 TAACCCTATA
* *
26224914 AAGGTATTTCAGTAATTTTCCAAACTGAGGGTATTTCGATAATTTTCCAAATC
1 AAGGTATTTCAGTAA-TTTCCAAACTGAGGGTATTTCGATAATTTTACAAACC
* * * *
26224967 AGGGGTACTTT-GGTAATTTCACAAATTGAGGGTATTTCGGTAATTTTACAAACC
1 A-AGGTA-TTTCAGTAATTTC-CAAACTGAGGGTATTTCGATAATTTTACAAACC
26225021 GAAGGTATTTCAGTAATTT
1 -AAGGTATTTCAGTAATTT
26225040 TGTAAACCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
53 8 0.13
54 48 0.80
55 4 0.07
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (52 bp):
AAGGTATTTCAGTAATTTCCAAACTGAGGGTATTTCGATAATTTTACAAACC
Found at i:26225046 original size:27 final size:26
Alignment explanation
Indices: 26224914--26225055 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 26
26224904 TAACCCTATA
* *
26224914 AAGGTATTTCAGTAATTTTCCAAACTG
1 AAGGTATTTCAGTAATTTTACAAAC-C
* * *
26224941 AGGGTATTTC-GATAATTTTCCAAATC
1 AAGGTATTTCAG-TAATTTTACAAACC
* * * **
26224967 AGGGGTACTTT-GGTAATTTCACAAATTG
1 A-AGGTA-TTTCAGTAATTTTACAAA-CC
* *
26224995 AGGGTATTTCGGTAATTTTACAAACC
1 AAGGTATTTCAGTAATTTTACAAACC
**
26225021 GAAGGTATTTCAGTAATTTTGTAAACC
1 -AAGGTATTTCAGTAATTTTACAAACC
*
26225048 AAAGTATT
1 AAGGTATT
26225056 CTAAACAAAG
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
26 12 0.13
27 76 0.81
28 6 0.06
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (26 bp):
AAGGTATTTCAGTAATTTTACAAACC
Found at i:26233760 original size:20 final size:20
Alignment explanation
Indices: 26233722--26233760 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26233712 CGTGATTTAG
*
26233722 AAAGTTATTCCTTTTAAAAA
1 AAAGTTATTCCTTTCAAAAA
26233742 AAAGTTATTACC-TTCAAAA
1 AAAGTTATT-CCTTTCAAAA
26233761 CTTTGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAGTTATTCCTTTCAAAAA
Found at i:26239589 original size:25 final size:25
Alignment explanation
Indices: 26239513--26239594 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
26239503 AGCTCATGTA
* * *
26239513 AGCATACCGATTTATAACTCGTGA-G
1 AGCATACCGATTCACAGCTCGT-ATG
26239538 AGCATACCGA-TCTACAGCTCG-AGTG
1 AGCATACCGATTC-ACAGCTCGTA-TG
26239563 AGCATACCGATTCACAGCTCGTATG
1 AGCATACCGATTCACAGCTCGTATG
26239588 AGCATAC
1 AGCATAC
26239595 ATGTACATGA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 44 0.90
26 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (25 bp):
AGCATACCGATTCACAGCTCGTATG
Found at i:26240892 original size:23 final size:23
Alignment explanation
Indices: 26240866--26240923 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
26240856 TCAATGAGTT
26240866 ACACGGGCATGACAAGGGATGGG
1 ACACGGGCATGACAAGGGATGGG
* * *
26240889 ACACAGGCATGGACATGGGTTGGG
1 ACACGGGCAT-GACAAGGGATGGG
*
26240913 ACACGGCCATG
1 ACACGGGCATG
26240924 TATCCCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.28, C:0.21, G:0.40, T:0.12
Consensus pattern (23 bp):
ACACGGGCATGACAAGGGATGGG
Found at i:26245373 original size:2 final size:2
Alignment explanation
Indices: 26245366--26245398 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26245356 CTCTTAAAAC
26245366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26245399 CAAAAGAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26253344 original size:20 final size:20
Alignment explanation
Indices: 26253301--26253345 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26253291 TTATACTTAG
* **
26253301 CACTTTGGTGCCCCTATTTG
1 CACTTTGGTGCCCCTACTCA
*
26253321 CACTTTGGTTCCCCTACTCA
1 CACTTTGGTGCCCCTACTCA
26253341 CACTT
1 CACTT
26253346 CAAGGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.36, G:0.13, T:0.38
Consensus pattern (20 bp):
CACTTTGGTGCCCCTACTCA
Found at i:26260265 original size:20 final size:18
Alignment explanation
Indices: 26260210--26260266 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
26260200 TTTTATTTCT
26260210 TTTATTTTTAATTCTTGTTTA
1 TTTA-TTTTAA-T-TTGTTTA
* *
26260231 TCTATTTTTATTTGTTTAA
1 TTTATTTTAATTTGTTT-A
26260250 TTTATTTTGAATTTGTT
1 TTTATTTT-AATTTGTT
26260267 GGTTGCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.20
19 9 0.30
20 12 0.40
21 3 0.10
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTATTTTAATTTGTTTA
Found at i:26267225 original size:33 final size:31
Alignment explanation
Indices: 26267188--26267273 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 31
26267178 TTTGGCCCTG
*
26267188 AGCCCAAAACAGTAATAGTATAGTGTAGGCCTT
1 AGCCCAATACAGTAATAGTATAGTG-A-GCCTT
* *
26267221 AGCCCAATACTGTAACAG--T-GTGAGCCTT
1 AGCCCAATACAGTAATAGTATAGTGAGCCTT
26267249 AGCCCAATACAGT-ATCAGTATAGTG
1 AGCCCAATACAGTAAT-AGTATAGTG
26267274 CAATAATGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.02
28 19 0.43
29 1 0.02
30 4 0.09
31 4 0.09
33 15 0.34
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (31 bp):
AGCCCAATACAGTAATAGTATAGTGAGCCTT
Done.