Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 57 of 105
Found at i:10709210 original size:14 final size:15
Alignment explanation
Indices: 10709170--10709211 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10709160 GATTAATATA
*
10709170 AATAATAATATTATT
1 AATAATTATATTATT
*
10709185 AAT-ATGATATTATT
1 AATAATTATATTATT
10709199 AATAATTA-ATTAT
1 AATAATTATATTAT
10709212 ATATAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AATAATTATATTATT
Found at i:10711312 original size:16 final size:16
Alignment explanation
Indices: 10711291--10711343 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10711281 GAAAGTGCAT
10711291 AAATTGAAA-TTGAAAG
1 AAATTGAAACTT-AAAG
10711307 AAATTGAAACTTAAAG
1 AAATTGAAACTTAAAG
* *
10711323 AACTAAGAAAGCTTAAAG
1 AAAT-TGAAA-CTTAAAG
10711341 AAA
1 AAA
10711344 ACTAGAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 16 0.52
17 6 0.19
18 9 0.29
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATTGAAACTTAAAG
Found at i:10715770 original size:145 final size:144
Alignment explanation
Indices: 10715520--10715878 Score: 420
Period size: 146 Copynumber: 2.5 Consensus size: 144
10715510 TTCCCATTTT
* * * * * * *
10715520 TGTGATTTTAAA-ACACAAAAAATCATGAAATATTATAAAATTGAGATCTGGAAAGTTTTCATGA
1 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATTGAGATCTGAAAAG-TTTCATGA
* * ** *
10715584 AAATTCGAGCTAGGAAAAGCCAAATTATGAAAATCCCTTATAAAGGTATTTTGGTAATTTCACAC
65 AAATCCAAGCTAGGAAAAGCCAAATTACAAAAATCCCTTATAAAGGTATTTTGATAATTTCACA-
10715649 TTTTT-GGGGTACCGC
129 TTTTTCGGGGTACCGC
* * *
10715664 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATCGATATCTGAAAAGTTTCATAAA
1 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAA
* * * * *
10715729 AATCCAAGCT-CGAGAAAGTCATATTACAAAAATACCTTTATAAGGGTATTTTGATAATTTCACA
66 AATCCAAGCTAGGA-AAAGCCAAATTACAAAAAT-CCCTTATAAAGGTATTTTGATAATTTCACA
**
10715793 TTTTTCGGGGGTATTGC
129 TTTTTC-GGGGTACCGC
* *
10715810 TGTGATTTCAAATGCACCAAAAATTATAACATATTATGAAATTAAGATCT-AAAACGTTTCATGA
1 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATTGAGATCTGAAAA-GTTTCATGA
10715874 AAATC
65 AAATC
10715879 TAGCTCAAAA
Statistics
Matches: 182, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
143 2 0.01
144 47 0.26
145 66 0.36
146 67 0.37
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (144 bp):
TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAA
AATCCAAGCTAGGAAAAGCCAAATTACAAAAATCCCTTATAAAGGTATTTTGATAATTTCACATT
TTTCGGGGTACCGC
Found at i:10715927 original size:146 final size:145
Alignment explanation
Indices: 10715520--10715944 Score: 400
Period size: 145 Copynumber: 2.9 Consensus size: 145
10715510 TTCCCATTTT
* * * * * * ** * *
10715520 TGTGATTTTAAA-ACACAAAAAATCATGAAATATTATAAAATTGAGATCTGGAAAGTTTTCATGA
1 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATCAAGATCTGAAAAG-TTTCATAA
* * * * ** *
10715584 AAATTCGAGCTAGGAAAAGCCAAATTATGAAAAT-CCCTTATAA-AGGTATTTTGGTAATTTCAC
65 AAATCCAAGCTCGAAAAAGCCAAATTACAAAAATACCCTTATAAGA-GCATTTT-GTAATTTCAC
10715647 ACTTTTT-GGGGTACCGC
128 ACTTTTTCGGGGTACCGC
* *
10715664 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATCGATATCTGAAAAGTTTCATAAA
1 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATCAAGATCTGAAAAGTTTCATAAA
* * * * * *
10715729 AATCCAAGCTCGAGAAAGTCATATTACAAAAATACCTTTATAAGGGTATTTTGATAATTTCACA-
66 AATCCAAGCTCGAAAAAGCCAAATTACAAAAATACCCTTATAAGAGCATTTTG-TAATTTCACAC
**
10715793 TTTTTCGGGGGTATTGC
130 TTTTTC-GGGGTACCGC
* * *
10715810 TGTGATTTCAAATGCACCAAAAATTATAACATATTATGAAATTAAGATCT-AAAACGTTTCATGA
1 TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATCAAGATCTGAAAA-GTTTCATAA
* * * *
10715874 AAAT-CTAGCTC-AAAAAGGCCAAATTTCAAAAATACCCCTTA-ACGAGCATTTTTGTAATTTTA
65 AAATCCAAGCTCGAAAAA-GCCAAATTACAAAAATA-CCCTTATAAGAGCA-TTTTGTAATTTCA
10715936 CACTTTTTC
127 CACTTTTTC
10715945 CAGTGCAATA
Statistics
Matches: 232, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
144 53 0.23
145 97 0.42
146 82 0.35
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (145 bp):
TGTGATTTCAAATGCACCAAAAATTATAAAATATTATGAAATCAAGATCTGAAAAGTTTCATAAA
AATCCAAGCTCGAAAAAGCCAAATTACAAAAATACCCTTATAAGAGCATTTTGTAATTTCACACT
TTTTCGGGGTACCGC
Found at i:10716559 original size:37 final size:37
Alignment explanation
Indices: 10716518--10716599 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
10716508 TAAAATCTTG
* ** * *
10716518 TTTGAAAATTGCTTTATCTAAACAGAGGTTTTGAAAC
1 TTTGAAAATGGCTCCATCTAAACAGAGGCTTTGAAAA
* *
10716555 TTTGAAAATGGCTCCCTCTAAATAGAGGCTTTGAAAA
1 TTTGAAAATGGCTCCATCTAAACAGAGGCTTTGAAAA
*
10716592 TTTAAAAA
1 TTTGAAAA
10716600 ATAAAATCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (37 bp):
TTTGAAAATGGCTCCATCTAAACAGAGGCTTTGAAAA
Found at i:10716565 original size:93 final size:93
Alignment explanation
Indices: 10716458--10716785 Score: 408
Period size: 93 Copynumber: 3.5 Consensus size: 93
10716448 TGCTCCCTCT
* *
10716458 AAACTTTGAAAATGGCTCCCCTTACACAAAGGCTTTGAAACTTTTAAAAATAAAATCTTGTTTGA
1 AAACTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTTTAAAAATAAAATCTTGTTTGA
** *
10716523 AAATTGCTTTATCTAAACAGAGGTTTTG
66 AAATTGCTTCCTCTAAATAGAGGTTTTG
* * * * * *
10716551 AAACTTTGAAAATGGCTCCCTCTAAATAGAGGCTTTGAAAATTTAAAAAATAAAATCTTTTTTGA
1 AAACTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTTTAAAAATAAAATCTTGTTTGA
* *
10716616 AAATTGCTTCCTCTAAATAAATGTTTTG
66 AAATTGCTTCCTCTAAATAGAGGTTTTG
* * *
10716644 AAACTTTGAAAATAGCTCCCCCTAAATAGAA-GCTTTGAAACTTTTAAACATAAAATCTTGTTTG
1 AAACTTTGAAAATGGCTCCCCCTAAACA-AAGGCTTTGAAACTTTTAAAAATAAAATCTTGTTTG
* * ***
10716708 AAAATAGCTTCCCCTAAATAGAGACCTTG
65 AAAATTGCTTCCTCTAAATAGAGGTTTTG
* * *
10716737 AAAC-TTCAGAAATGGCTCCCCCTAAACAAAGGCTTTGAAGCTTTGAAAA
1 AAACTTTGA-AAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTTTAAAA
10716786 TGACTCCTTC
Statistics
Matches: 199, Mismatches: 33, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
92 5 0.03
93 193 0.97
94 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (93 bp):
AAACTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTTTAAAAATAAAATCTTGTTTGA
AAATTGCTTCCTCTAAATAGAGGTTTTG
Found at i:10716669 original size:37 final size:37
Alignment explanation
Indices: 10716611--10716687 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
10716601 TAAAATCTTT
* * * *
10716611 TTTGAAAATTGCTTCCTCTAAATA-AATGTTTTGAAAC
1 TTTGAAAATAGCTCCCCCTAAATAGAA-GCTTTGAAAC
10716648 TTTGAAAATAGCTCCCCCTAAATAGAAGCTTTGAAAC
1 TTTGAAAATAGCTCCCCCTAAATAGAAGCTTTGAAAC
10716685 TTT
1 TTT
10716688 TAAACATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 33 0.94
38 2 0.06
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (37 bp):
TTTGAAAATAGCTCCCCCTAAATAGAAGCTTTGAAAC
Found at i:10717005 original size:22 final size:22
Alignment explanation
Indices: 10716975--10717016 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10716965 GCTTGAAGGA
*
10716975 CTTATAGATTATGCCCAGAGAT
1 CTTAGAGATTATGCCCAGAGAT
*
10716997 CTTAGAGATTATGCCTAGAG
1 CTTAGAGATTATGCCCAGAG
10717017 GTTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTAGAGATTATGCCCAGAGAT
Found at i:10717077 original size:22 final size:22
Alignment explanation
Indices: 10717052--10717093 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10717042 AAATTCAGCT
*
10717052 CAAAAGACTTACGAATCTTATC
1 CAAAAGACTTACAAATCTTATC
10717074 CAAAAGACTTACAAATCTTA
1 CAAAAGACTTACAAATCTTA
10717094 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.26
Consensus pattern (22 bp):
CAAAAGACTTACAAATCTTATC
Found at i:10717083 original size:106 final size:106
Alignment explanation
Indices: 10716894--10717084 Score: 285
Period size: 106 Copynumber: 1.8 Consensus size: 106
10716884 GAATAAAACA
* *
10716894 AGAGATCATGCCTAGAGGTTTTACAAATCTCAAAATTAAAATAGATTAAGCTCAAAAGACTTACA
1 AGAGATCATGCCTAGAGGTTTTAAAAATCTCAAAATTAAAATAAATTAAGCTCAAAAGACTTACA
** *
10716959 AATCTTGCTTGAAGGACTTATAGATTATGCCCAGAGATCTT
66 AATCTTGCTCAAAAGACTTATAGATTATGCCCAGAGATCTT
* * *
10717000 AGAGATTATGCCTAGAGGTTTTAAAAATCTCAAAATTAAAATAAATTCAGCTCAAAAGACTTACG
1 AGAGATCATGCCTAGAGGTTTTAAAAATCTCAAAATTAAAATAAATTAAGCTCAAAAGACTTACA
*
10717065 AATCTT-ATCCAAAAGACTTA
66 AATCTTGCT-CAAAAGACTTA
10717085 CAAATCTTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
105 1 0.01
106 74 0.99
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (106 bp):
AGAGATCATGCCTAGAGGTTTTAAAAATCTCAAAATTAAAATAAATTAAGCTCAAAAGACTTACA
AATCTTGCTCAAAAGACTTATAGATTATGCCCAGAGATCTT
Found at i:10717121 original size:62 final size:61
Alignment explanation
Indices: 10717024--10717150 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 61
10717014 GAGGTTTTAA
* *
10717024 AAATCTCAAAATTAAAATAAATTCAGCTCAAAAGACTTACGAATCTTATCC-AAAAGACTTAC
1 AAATCTCAAAATTAAAATAAATTCAGCTCAAAAGACTTA-AAATCTT-GCCTAAAAGACTTAC
* * * * *
10717086 AAATCTTAAAATTAAAATAGATTTAGCT-AGGAAGACTTAAAATCTTGCCTGAAAGACTTAC
1 AAATCTCAAAATTAAAATAAATTCAGCTCA-AAAGACTTAAAATCTTGCCTAAAAGACTTAC
10717147 AAAT
1 AAAT
10717151 TATGCCTGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 2 0.04
61 21 0.38
62 33 0.59
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (61 bp):
AAATCTCAAAATTAAAATAAATTCAGCTCAAAAGACTTAAAATCTTGCCTAAAAGACTTAC
Found at i:10717143 original size:21 final size:22
Alignment explanation
Indices: 10717117--10717158 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10717107 TTTAGCTAGG
10717117 AAGACTTA-AAATCT-TGCCTGA
1 AAGACTTACAAAT-TATGCCTGA
10717138 AAGACTTACAAATTATGCCTG
1 AAGACTTACAAATTATGCCTG
10717159 GAGGTGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (22 bp):
AAGACTTACAAATTATGCCTGA
Found at i:10717519 original size:37 final size:38
Alignment explanation
Indices: 10717456--10717538 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 38
10717446 TAAAATCTTG
* * *
10717456 TTTGAAAATTGCTCCCTCCAAGTAAAGATTTTGAAA-T
1 TTTGAAAATGGCTCCCTCCAAATAAAGACTTTGAAACT
* *
10717493 TTTGAAAATGGCTCCCAT-TAAATAAAGGCTTTGAAACT
1 TTTGAAAATGGCTCCC-TCCAAATAAAGACTTTGAAACT
10717531 TTT-AAAAT
1 TTTGAAAAT
10717539 CTTGTTTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
37 34 0.87
38 5 0.13
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.35
Consensus pattern (38 bp):
TTTGAAAATGGCTCCCTCCAAATAAAGACTTTGAAACT
Found at i:10718529 original size:18 final size:18
Alignment explanation
Indices: 10718492--10718541 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
10718482 ATTATGAGTC
** *
10718492 ATTTTTTTTTTTGTTTTT
1 ATTTTTTTTTTAATTATT
10718510 ATTTTTTTTTTAATTATT
1 ATTTTTTTTTTAATTATT
*
10718528 ATTATATTTTTTAA
1 ATT-TTTTTTTTAA
10718542 GACTTGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (18 bp):
ATTTTTTTTTTAATTATT
Found at i:10719348 original size:35 final size:35
Alignment explanation
Indices: 10719302--10719371 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
10719292 TACCCTGGTC
10719302 ACATTAGCATAAGAAGCTA-TTTCGACCCATTTTGT
1 ACATTAGCATAAGAAGCTACTTT-GACCCATTTTGT
10719337 ACATTAGCATAAGAAGCTACTTTGACCCATTTTGT
1 ACATTAGCATAAGAAGCTACTTTGACCCATTTTGT
10719372 GAAATAGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 31 0.91
36 3 0.09
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (35 bp):
ACATTAGCATAAGAAGCTACTTTGACCCATTTTGT
Found at i:10720173 original size:62 final size:62
Alignment explanation
Indices: 10720076--10720199 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
10720066 TTCAACTTAG
* *
10720076 AATCTCTCATTTCTTATTCACCATATAGTTGATAGATTACAAAGGCTGAGTCTCTATAGGCT
1 AATCTCTCATTTCTCATTCACCATATAGTTGATAGATTACAAAGGCTGAGTCTCCATAGGCT
*
10720138 AATCTCTCATTTCTCATTCACCATGTAGTTGATAGATTACAAAGGCTGAGTCTCCATAGGCT
1 AATCTCTCATTTCTCATTCACCATATAGTTGATAGATTACAAAGGCTGAGTCTCCATAGGCT
10720200 TCTAACACTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (62 bp):
AATCTCTCATTTCTCATTCACCATATAGTTGATAGATTACAAAGGCTGAGTCTCCATAGGCT
Found at i:10729368 original size:3 final size:3
Alignment explanation
Indices: 10729362--10729400 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10729352 ACTGTTGTTG
10729362 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10729401 CCATTAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10730992 original size:20 final size:20
Alignment explanation
Indices: 10730967--10731008 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10730957 TTGTATTGAA
*
10730967 TATTTTCTTAAATACTCTAT
1 TATTTTCCTAAATACTCTAT
10730987 TATTTTCCTAAATACTCTAT
1 TATTTTCCTAAATACTCTAT
10731007 TA
1 TA
10731009 CTTTGGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTTTCCTAAATACTCTAT
Found at i:10733445 original size:33 final size:33
Alignment explanation
Indices: 10733394--10733470 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
10733384 TTTAAATGCA
* * * *
10733394 TAAAAAATCATGAAATATTATGAAATTGAGATT
1 TAAAAAGTTATGAAATATTATAAAATTGAGATC
* *
10733427 TGAAAAGTTATGAGATATTATAAAATTGAGATC
1 TAAAAAGTTATGAAATATTATAAAATTGAGATC
10733460 TAAAAAGTTAT
1 TAAAAAGTTAT
10733471 ATGAAAATCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.34
Consensus pattern (33 bp):
TAAAAAGTTATGAAATATTATAAAATTGAGATC
Found at i:10733572 original size:179 final size:178
Alignment explanation
Indices: 10733263--10733614 Score: 442
Period size: 179 Copynumber: 2.0 Consensus size: 178
10733253 AATCATGAAA
* * *
10733263 ATATTATGAAAATGAGATCTGAAAAGTTTCATGAAAATCCAAATTCAAGAAAGCCAAATTTCAAA
1 ATATTATGAAAATGAGATCTAAAAAGTTTCATGAAAATCCAAATTCAAAAAAGCCAAATTACAAA
* * * * * * *
10733328 AATACCTTTATAGGGGTATTTTGGTAATTTCACTCTTTTTAGGGTACTATTGTGATTTTAAATGC
66 AATACCCTTATAGGGATATTTTGGTAATTTCACACTTTTTAGAGTACTATTATAATTTCAAATGC
* *
10733393 ATAAAAAATCATGAAATATTATGAAATTGAGATTTGAAAAGTTATGAG
131 ACAAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTATGAG
* * ***
10733441 ATATTAT-AAAATTGAGATCTAAAAAGTTAT-ATGAAAATCTAAGCTTCAAAAAATTTAAATTAC
1 ATATTATGAAAA-TGAGATCTAAAAAGTT-TCATGAAAATCCAA-ATTCAAAAAAGCCAAATTAC
* *
10733504 AAAAATACCCTTATTA-GGATATTTTGGTAATTTCACACTTTTT-GCAGTATTGTTATAATTTCA
63 AAAAATACCCTTA-TAGGGATATTTTGGTAATTTCACACTTTTTAG-AGTACTATTATAATTTCA
* *
10733567 AATGCACCAAAAATCATGAAATATTATGAAATTAAGATTTTAAAAGTT
126 AATGCACAAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTT
10733615 TCATGAAAAT
Statistics
Matches: 148, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
177 4 0.03
178 34 0.23
179 108 0.73
180 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (178 bp):
ATATTATGAAAATGAGATCTAAAAAGTTTCATGAAAATCCAAATTCAAAAAAGCCAAATTACAAA
AATACCCTTATAGGGATATTTTGGTAATTTCACACTTTTTAGAGTACTATTATAATTTCAAATGC
ACAAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTATGAG
Found at i:10734411 original size:21 final size:20
Alignment explanation
Indices: 10734385--10734424 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10734375 ATTCTGATGC
10734385 ATCAAGAATCATCTAAGATTG
1 ATCAAGAATCATC-AAGATTG
*
10734406 ATCAAGAATTATCAAGATT
1 ATCAAGAATCATCAAGATT
10734425 CTTTAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
ATCAAGAATCATCAAGATTG
Found at i:10745075 original size:541 final size:538
Alignment explanation
Indices: 10744043--10745113 Score: 1455
Period size: 541 Copynumber: 2.0 Consensus size: 538
10744033 AATACCTTTA
* * * * *
10744043 CTTTGAGCCTAATAAATCCTTTTTCTTGTTTGTTGACCCATATCAAATAAGCTCAACCTTTTCTT
1 CTTTAAGCCTAATAAATCCTTTTTCTTGTTTATTAACCCATATCAAATAAACTCAACCTTTTCTC
** * *
10744108 ATGAATTAACTTTTTTTCTTACCCAACTTTCATTGCTTATGTATGTTAGGGACAAGAAAAGAGAA
66 ATGAATTAACTTTTTTTCTTACCCAACTCACATTGCTTA-GTATGTTAAGGACAAGAAAAGAAAA
** ** *
10744173 CAAATCATATTAGAGAGGTAGGGAGATGTAAGAAAGAGAAAAAAAAGGCCAAAATGGCTAAAAAA
130 CAAATCATATTAGAGAGGTAGAAAGATCAAAGAAAGAGAAAAAAAAGGCCAAAATGACT-AAAAA
* *
10744238 AATAAAAAAAAATGAAAAAGCTAAAAATTGTTACATAAAAATAAGGAAGAAAAATAAAGCTGCCT
194 AATAAAAAAAAATGAAAAAGCCAAAAATAGTTACATAAAAATAAGGAAGAAAAATAAAGCTGCCT
* * *
10744303 CAAGCCTTGTCAAAGTTCTCAACTCCAAGTTTGAGTAAGTAAAAGGTTGTAAGCCTAAAAGTTTT
259 CAAGCCTTGTCAAACTTCTCAACTCCAAGTTTGAGTAAGTAAAAGGTTATAAGCCTAAAAGTTTC
* *
10744368 TTTTTCCTACCCTAATCCCAGCCTTACATTATAAGCTTATAATTAATTTTAAGTCAAACATGTAA
324 TTTTTCCTACCCTAATCCCAGCCTTACATTACAAGCTAATAATTAATTTTAAGTCAAACATGTAA
* * * *
10744433 GCTTACATTAGTGGAGAGGGATTGAGGAAAGTGAACATATGAAGTATGTTTTATTCCTTATTTGA
389 GCCTACATTAGTGAAGAGGGATTGAGGAAAGTGAACATATGAAGTATGCTTTATTCCTTATTCGA
** *
10744498 TATATGATGGCATGGTATACATACTTTTTCCTTAGATTACATGCATGGATTAGAGATAGTTTGAT
454 TATATGATGGCATAATATACATACTTCTTCCTTAGATTACATGCATGGATTAGAGATAGTTTGAT
*
10744563 TTCACTTGTTCAAAAGTTTG
519 TTCACATGTTCAAAAGTTTG
* * *
10744583 CTTTAAGCCTAATAAATTCTTTTTTCTTTTTTATTAACCCATATCAAATAAAC-CCACCTTTTCT
1 CTTTAAGCCTAATAAA-TCCTTTTTCTTGTTTATTAACCCATATCAAATAAACTCAACCTTTTCT
* *
10744647 CATGAATTAACTTTTTTTCTTACCTAACTCACATTGCTTA-TATGTTAAGGACAATAAAAGAAAA
65 CATGAATTAACTTTTTTTCTTACCCAACTCACATTGCTTAGTATGTTAAGGACAAGAAAAGAAAA
* *
10744711 CAAATCATATTA-AGGAGGTAGAAACGTTCAAAG-AAGAG-AAAAAAA-TCCAAAATGACT-AAA
130 CAAATCATATTAGA-GAGGTAGAAA-GATCAAAGAAAGAGAAAAAAAAGGCCAAAATGACTAAAA
*
10744771 AAATAAAAAAAAATGAAAAAGCCAAAAATAGTTACATAGAAAA-AAGGGAAGAAAAATAAAGTTG
193 AAATAAAAAAAAATGAAAAAGCCAAAAATAGTTACATA-AAAATAA-GGAAGAAAAATAAAGCTG
* * * * *
10744835 CTTCAAGCCTTGTCAAACTTCTCAAGTTCAAG-TTGAGTAAG-AAAAGGGTTATAAGCTTAATA-
256 CCTCAAGCCTTGTCAAACTTCTCAACTCCAAGTTTGAGTAAGTAAAA-GGTTATAAGCCTAAAAG
* *
10744897 TTTCCTTTTTCCTACCCTAA-CCCAAGCTTTACATTACAAGCCCATAATGACCTATTGATTTTAA
320 TTT-CTTTTTCCTACCCTAATCCC-AGCCTTACATTACAAG--C-TAAT-A---ATTAATTTTAA
** *
10744961 GTCAAGTATGTAAGCCTACATTAGTGAAGAGGGATTGAGGAAAGTGAACCTATGAAGTATGCTTT
376 GTCAAACATGTAAGCCTACATTAGTGAAGAGGGATTGAGGAAAGTGAACATATGAAGTATGCTTT
* * *
10745026 ATTCCTTATTCGATATGTGATGGCATAATATACATACTTCTTGCTTAGATTACATGGATGGATTA
441 ATTCCTTATTCGATATATGATGGCATAATATACATACTTCTTCCTTAGATTACATGCATGGATTA
10745091 GAGATAGTTTGATTTCACATGTT
506 GAGATAGTTTGATTTCACATGTT
10745114 TGAAAGTGGC
Statistics
Matches: 466, Mismatches: 50, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
533 10 0.02
534 92 0.20
535 49 0.11
536 11 0.02
537 11 0.02
538 47 0.10
539 5 0.01
540 61 0.13
541 180 0.39
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (538 bp):
CTTTAAGCCTAATAAATCCTTTTTCTTGTTTATTAACCCATATCAAATAAACTCAACCTTTTCTC
ATGAATTAACTTTTTTTCTTACCCAACTCACATTGCTTAGTATGTTAAGGACAAGAAAAGAAAAC
AAATCATATTAGAGAGGTAGAAAGATCAAAGAAAGAGAAAAAAAAGGCCAAAATGACTAAAAAAA
TAAAAAAAAATGAAAAAGCCAAAAATAGTTACATAAAAATAAGGAAGAAAAATAAAGCTGCCTCA
AGCCTTGTCAAACTTCTCAACTCCAAGTTTGAGTAAGTAAAAGGTTATAAGCCTAAAAGTTTCTT
TTTCCTACCCTAATCCCAGCCTTACATTACAAGCTAATAATTAATTTTAAGTCAAACATGTAAGC
CTACATTAGTGAAGAGGGATTGAGGAAAGTGAACATATGAAGTATGCTTTATTCCTTATTCGATA
TATGATGGCATAATATACATACTTCTTCCTTAGATTACATGCATGGATTAGAGATAGTTTGATTT
CACATGTTCAAAAGTTTG
Found at i:10747416 original size:22 final size:21
Alignment explanation
Indices: 10747391--10747441 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
10747381 AATCAATACA
10747391 TATGCAAAAATAGAATCTAAAT
1 TATGCAAAAATA-AATCTAAAT
*
10747413 TATGC-AAATTAAATCTAAAT
1 TATGCAAAAATAAATCTAAAT
* *
10747433 CATACAAAA
1 TATGCAAAA
10747442 CTAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 12 0.48
21 8 0.32
22 5 0.20
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (21 bp):
TATGCAAAAATAAATCTAAAT
Found at i:10748236 original size:21 final size:21
Alignment explanation
Indices: 10748212--10748252 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10748202 TGAAAGATTA
10748212 ATCTAAAACAAAACATAAACT
1 ATCTAAAACAAAACATAAACT
10748233 ATCTAAAACAAAACATAAAC
1 ATCTAAAACAAAACATAAAC
10748253 CAAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (21 bp):
ATCTAAAACAAAACATAAACT
Found at i:10749575 original size:43 final size:43
Alignment explanation
Indices: 10749481--10749575 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
10749471 ATCAAGATTA
* *
10749481 TAAGAAGAGATGTGCATTCTCATGAAGGATACAAAAAAGCTTG
1 TAAGAAGAGATGTGCATTCTCATGAAGGATACAAAAAACCTCG
* * * *
10749524 TAAGAAGAGATGTGCATTTTCATGAATGATATAAAAGACCTCG
1 TAAGAAGAGATGTGCATTCTCATGAAGGATACAAAAAACCTCG
10749567 TTAA-AAGAG
1 -TAAGAAGAG
10749576 TTGATCACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 42 0.93
44 3 0.07
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (43 bp):
TAAGAAGAGATGTGCATTCTCATGAAGGATACAAAAAACCTCG
Found at i:10755019 original size:11 final size:11
Alignment explanation
Indices: 10754982--10755087 Score: 59
Period size: 11 Copynumber: 8.9 Consensus size: 11
10754972 AGGTTTTCCC
*
10754982 TTTTCTTTTTCT
1 TTTTATTTTT-T
* *
10754994 TTTTCTTGTTCT
1 TTTTATT-TTTT
10755006 TTTTATTTTTT
1 TTTTATTTTTT
**
10755017 TTTTATTTTGA
1 TTTTATTTTTT
10755028 TTTTATTTATTT
1 TTTTATTT-TTT
*
10755040 TATGTTGATTTTTA
1 T-T-TT-ATTTTTT
*
10755054 TGTTATTTTTT
1 TTTTATTTTTT
* *
10755065 ATGTTAGTTTTAT
1 -TTTTA-TTTTTT
10755078 TTTTATTTTT
1 TTTTATTTTT
10755088 ATGATATTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
11 30 0.41
12 27 0.36
13 8 0.11
14 5 0.07
15 4 0.05
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:10755031 original size:12 final size:11
Alignment explanation
Indices: 10755005--10755089 Score: 68
Period size: 11 Copynumber: 7.6 Consensus size: 11
10754995 TTTCTTGTTC
*
10755005 TTTTTATTTTT
1 TTTTTATTTTA
10755016 TTTTTATTTTGA
1 TTTTTATTTT-A
10755028 -TTTTA-TTTA
1 TTTTTATTTTA
*
10755037 -TTTTATGTTGA
1 TTTTTAT-TTTA
*
10755048 TTTTTATGTTA
1 TTTTTATTTTA
*
10755059 TTTTTTATGTTA
1 -TTTTTATTTTA
*
10755071 GTTTTATTTTTA
1 TTTTTA-TTTTA
10755083 TTTTTAT
1 TTTTTAT
10755090 GATATTTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
9 6 0.10
10 3 0.05
11 26 0.43
12 26 0.43
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:10755042 original size:20 final size:22
Alignment explanation
Indices: 10755017--10755062 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
10755007 TTTATTTTTT
*
10755017 TTTTATTTTGA-TTTTAT-TTA
1 TTTTATGTTGATTTTTATGTTA
10755037 TTTTATGTTGATTTTTATGTTA
1 TTTTATGTTGATTTTTATGTTA
10755059 TTTT
1 TTTT
10755063 TTATGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 6 0.26
22 7 0.30
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTATGTTGATTTTTATGTTA
Found at i:10755076 original size:35 final size:33
Alignment explanation
Indices: 10755028--10755104 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 33
10755018 TTTATTTTGA
*
10755028 TTTTATTTATTTTATGTTGATTTTTATGTTATT
1 TTTTATTTATTTTATGTTGATTTTTATGATATT
* *
10755061 TTTTATGTTAGTTTTATTTTTATTTTTATGATATT
1 TTTTAT-TTA-TTTTATGTTGATTTTTATGATATT
10755096 TTGTTATTT
1 TT-TTATTT
10755105 TATATTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 6 0.16
34 3 0.08
35 25 0.66
36 4 0.11
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (33 bp):
TTTTATTTATTTTATGTTGATTTTTATGATATT
Found at i:10755083 original size:6 final size:6
Alignment explanation
Indices: 10754982--10755089 Score: 60
Period size: 6 Copynumber: 18.0 Consensus size: 6
10754972 AGGTTTTCCC
* * * * * *
10754982 TTTTCT TTTTCT TTTTCT TGTTCT TTTTAT TTTT-T TTTTAT TTTGAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * * *
10755029 TTTATTT ATTTTAT GTTGAT TTTTA- TGTTAT TTTT-T ATGTTAG TTTTAT
1 TTT-TAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
10755078 TTTTAT TTTTAT
1 TTTTAT TTTTAT
10755090 GATATTTTGT
Statistics
Matches: 79, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
5 10 0.13
6 63 0.80
7 3 0.04
8 3 0.04
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:10755721 original size:29 final size:28
Alignment explanation
Indices: 10755688--10755779 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 28
10755678 AAAATAATAT
*
10755688 AATAAAAAAGATAAAAACAATAAACAGTA
1 AATAAAAAA-ATAAAAACAATAAAAAGTA
* * *
10755717 AATAATAACAAA-ACATACAATAAAAATTA
1 AATAA-AA-AAATAAAAACAATAAAAAGTA
* * * *
10755746 ATTAATTAATATAAAAACAATAAATAGTA
1 AATAA-AAAAATAAAAACAATAAAAAGTA
10755775 AATAA
1 AATAA
10755780 TAACAAAATA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
28 2 0.04
29 41 0.85
30 3 0.06
31 2 0.04
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (28 bp):
AATAAAAAAATAAAAACAATAAAAAGTA
Found at i:10755760 original size:58 final size:58
Alignment explanation
Indices: 10755698--10755813 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
10755688 AATAAAAAAG
10755698 ATAAAAACAATAAACAGTAAATAATAACAAAACATACAATAAAAATTAATTAATTAAT
1 ATAAAAACAATAAACAGTAAATAATAACAAAACATACAATAAAAATTAATTAATTAAT
* *
10755756 ATAAAAACAATAAATAGTAAATAATAACAAAATATACAATAAAAATTAATTAATTAAT
1 ATAAAAACAATAAACAGTAAATAATAACAAAACATACAATAAAAATTAATTAATTAAT
10755814 TAATTAAATC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.26
Consensus pattern (58 bp):
ATAAAAACAATAAACAGTAAATAATAACAAAACATACAATAAAAATTAATTAATTAAT
Found at i:10755780 original size:29 final size:29
Alignment explanation
Indices: 10755698--10755812 Score: 103
Period size: 29 Copynumber: 4.0 Consensus size: 29
10755688 AATAAAAAAG
*
10755698 ATAAAAACAATAAACAGTAAATAA-TAAC
1 ATAAAAACAATAAAAAGTAAATAATTAAC
* * *
10755726 A-AAACATACAATAAAAATTAATTAATTAAT
1 ATAAA-A-ACAATAAAAAGTAAATAATTAAC
*
10755756 ATAAAAACAATAAATAGTAAATAA-TAAC
1 ATAAAAACAATAAAAAGTAAATAATTAAC
* *
10755784 A-AAATATACAATAAAAATTAATTAATTAA
1 ATAAA-A-ACAATAAAAAGTAAATAATTAA
10755813 TTAATTAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
27 6 0.09
28 7 0.10
29 45 0.65
30 8 0.12
31 3 0.04
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (29 bp):
ATAAAAACAATAAAAAGTAAATAATTAAC
Found at i:10756788 original size:2 final size:2
Alignment explanation
Indices: 10756783--10756829 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
10756773 CATCAATAGA
10756783 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10756825 CT CT C
1 CT CT C
10756830 AATAGGCATA
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:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:10759336 original size:13 final size:13
Alignment explanation
Indices: 10759318--10759342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10759308 ATTTTCATTG
10759318 TGATACTTGAATA
1 TGATACTTGAATA
10759331 TGATACTTGAAT
1 TGATACTTGAAT
10759343 TATTGATTCA
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):
TGATACTTGAATA
Found at i:10767779 original size:21 final size:20
Alignment explanation
Indices: 10767754--10767812 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
10767744 AGGAATTGGT
*
10767754 TTGGTTTGGGTTTGGTTAGAG
1 TTGGTTT-GATTTGGTTAGAG
*
10767775 TTGGTTTGATTTGGGTTAGGG
1 TTGGTTTGATTT-GGTTAGAG
*
10767796 TTGGTTTAGTTTTGGTT
1 TTGGTTT-GATTTGGTT
10767813 CATTTAGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.08, C:0.00, G:0.39, T:0.53
Consensus pattern (20 bp):
TTGGTTTGATTTGGTTAGAG
Found at i:10767889 original size:18 final size:16
Alignment explanation
Indices: 10767860--10767898 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
10767850 ATTTATTCAA
10767860 TTTGGGTTGGTTTAGGG
1 TTTGGGTTGGTTTA-GG
10767877 TTTGGGATTGGTTTAGG
1 TTTGGG-TTGGTTTAGG
10767894 TTTGG
1 TTTGG
10767899 TTAGGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.08, C:0.00, G:0.44, T:0.49
Consensus pattern (16 bp):
TTTGGGTTGGTTTAGG
Found at i:10767970 original size:11 final size:11
Alignment explanation
Indices: 10767934--10767972 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
10767924 TTTGTAGGGA
10767934 TTGGTTT-GGT
1 TTGGTTTAGGT
* *
10767944 TTGGGTTAGGG
1 TTGGTTTAGGT
10767955 TTGGTTTAGGT
1 TTGGTTTAGGT
10767966 TTGGTTT
1 TTGGTTT
10767973 GATTTTGGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.05, C:0.00, G:0.41, T:0.54
Consensus pattern (11 bp):
TTGGTTTAGGT
Found at i:10768046 original size:20 final size:19
Alignment explanation
Indices: 10768021--10768079 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
10768011 GTTTGAATTG
10768021 GGTTTGGGCTTTAAGGGTTT
1 GGTTTGGG-TTTAAGGGTTT
*
10768041 GGTTTGGAGTTTAAAGGTTT
1 GGTTTGG-GTTTAAGGGTTT
* *
10768061 TGTTT-GGTTTAAGGTTTT
1 GGTTTGGGTTTAAGGGTTT
10768079 G
1 G
10768080 AAGGGATTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 10 0.30
19 1 0.03
20 21 0.64
21 1 0.03
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.49
Consensus pattern (19 bp):
GGTTTGGGTTTAAGGGTTT
Found at i:10768260 original size:20 final size:20
Alignment explanation
Indices: 10768237--10768281 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10768227 TACAGTTTAT
*
10768237 GGTTTACATAAAGGTTTAAG
1 GGTTTACATAAAGGTTTAAA
* * *
10768257 GGTTTGCATGAGGGTTTAAA
1 GGTTTACATAAAGGTTTAAA
10768277 GGTTT
1 GGTTT
10768282 GCATGAACAA
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:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (20 bp):
GGTTTACATAAAGGTTTAAA
Found at i:10768282 original size:20 final size:20
Alignment explanation
Indices: 10768249--10768287 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10768239 TTTACATAAA
*
10768249 GGTTTAAGGGTTTGCATGAG
1 GGTTTAAAGGTTTGCATGAG
10768269 GGTTTAAAGGTTTGCATGA
1 GGTTTAAAGGTTTGCATGA
10768288 ACAATGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.36, T:0.36
Consensus pattern (20 bp):
GGTTTAAAGGTTTGCATGAG
Found at i:10770917 original size:50 final size:51
Alignment explanation
Indices: 10770859--10770982 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 51
10770849 TAAACAAAAG
*
10770859 TTTTGAAACTTTAAAAATCTTAACTTTT-GAAAGTTACTCTAAATAGAGAC
1 TTTTGAAACTTTAAAAATCTTAACTTTTAGAAAGCTACTCTAAATAGAGAC
* * * *
10770909 TTTTGAAACTTTAGAAATCTCATCTTTTAGAAAGCTCCTCTAAATAGAGAC
1 TTTTGAAACTTTAAAAATCTTAACTTTTAGAAAGCTACTCTAAATAGAGAC
*
10770960 -TTTGAAACTTTAAAAATGTTAAC
1 TTTTGAAACTTTAAAAATCTTAAC
10770983 ACATTCTACC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 44 0.69
51 20 0.31
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (51 bp):
TTTTGAAACTTTAAAAATCTTAACTTTTAGAAAGCTACTCTAAATAGAGAC
Found at i:10771899 original size:84 final size:84
Alignment explanation
Indices: 10771789--10772004 Score: 227
Period size: 84 Copynumber: 2.6 Consensus size: 84
10771779 TGAAGGTTTA
* * * * * **
10771789 ATAAATCTCAAAATTGAAACAAATTCAGCTCAAAAGACTTATAAATCTTACCTGGAAGACCTTA-
1 ATAAATCTCAAAATTAAAATAAATTCAGCTAAAAAAACTTACAAATCTTACCTAAAAGA-CTTAG
** *
10771853 AGACTATGCCCTGAGGTCTT
65 AGACTATGCCCAAAGGCCTT
** * *
10771873 ATAAATCTCAAAATTAAAATTGATTCAACTAAAAAAACTTACAAATCTTGCCTAAAAGACTTAGA
1 ATAAATCTCAAAATTAAAATAAATTCAGCTAAAAAAACTTACAAATCTTACCTAAAAGACTTAGA
*
10771938 GATTATGCCCAAAGGCCTT
66 GACTATGCCCAAAGGCCTT
* * ** *
10771957 ACAAATCTCAAAACTAAAATAAATTCAGCTTAGGAAAACTTACGAATC
1 ATAAATCTCAAAATTAAAATAAATTCAGC-TAAAAAAACTTACAAATC
10772005 GTTCAAAATT
Statistics
Matches: 107, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
83 4 0.04
84 88 0.82
85 15 0.14
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (84 bp):
ATAAATCTCAAAATTAAAATAAATTCAGCTAAAAAAACTTACAAATCTTACCTAAAAGACTTAGA
GACTATGCCCAAAGGCCTT
Found at i:10772060 original size:79 final size:80
Alignment explanation
Indices: 10771977--10772135 Score: 180
Period size: 80 Copynumber: 2.0 Consensus size: 80
10771967 AAACTAAAAT
* * *
10771977 AAATTCAGCTTAGGAAAACTTACG-AATCGTTCA-AAATTTAAGATTTTG-TTAAAGGTCTTGAA
1 AAATTCAGCTT--GAAAACTTACGAAATCATTCATAAATCTAAGAGTTTGCTTAAAGGTCTTGAA
*
10772039 AATCTTTCAAAAATCTA
64 AATCATTCAAAAATCTA
** *** **
10772056 AAATTTTGCTTGAAGGTTTTGGAAATCATTCATAAATCTAAGAGTTTGCTTAAAGGTCTTGAAAA
1 AAATTCAGCTTGAAAACTTACGAAATCATTCATAAATCTAAGAGTTTGCTTAAAGGTCTTGAAAA
10772121 TCATTCAAAAATCTA
66 TCATTCAAAAATCTA
10772136 TGATTTTGTC
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
77 6 0.09
78 8 0.12
79 22 0.33
80 30 0.45
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (80 bp):
AAATTCAGCTTGAAAACTTACGAAATCATTCATAAATCTAAGAGTTTGCTTAAAGGTCTTGAAAA
TCATTCAAAAATCTA
Found at i:10772093 original size:40 final size:39
Alignment explanation
Indices: 10772001--10772177 Score: 185
Period size: 40 Copynumber: 4.5 Consensus size: 39
10771991 AAAACTTACG
* *
10772001 AATCGTTC-AAAATTTAAGATTTTGTTAAAGGTCTTGAA
1 AATCATTCAAAAATCTAAGATTTTGTTAAAGGTCTTGAA
* * * * *
10772039 AATCTTTCAAAAATCTAAAATTTTGCTTGAAGGTTTTGGA
1 AATCATTCAAAAATCTAAGATTTTG-TTAAAGGTCTTGAA
* *
10772079 AATCATTCATAAATCTAAGAGTTTGCTTAAAGGTCTTGAA
1 AATCATTCAAAAATCTAAGATTTTG-TTAAAGGTCTTGAA
* ** *
10772119 AATCATTCAAAAATCTATGATTTTGTCTGGAGGTCTTGGA
1 AATCATTCAAAAATCTAAGATTTTGT-TAAAGGTCTTGAA
*
10772159 AATCATTAAAAAAATCTAA
1 AATCATT-CAAAAATCTAA
10772178 TATTCAACCT
Statistics
Matches: 114, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
38 7 0.06
39 15 0.13
40 83 0.73
41 9 0.08
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (39 bp):
AATCATTCAAAAATCTAAGATTTTGTTAAAGGTCTTGAA
Found at i:10772120 original size:80 final size:78
Alignment explanation
Indices: 10772001--10772170 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 78
10771991 AAAACTTACG
* * * *
10772001 AATCGTTCAAAATTTAAGATTTTGTTAAAGGTCTTGAAAATCTTTCAAAAATCTAAAATTTTG-C
1 AATCATTCAAAATCTAAGAGTTTGTTAAAGGTCTTGAAAATCATTCAAAAATCTAAAATTTTGTC
*
10772065 TTGAAGGTTTTGGA
66 -TGAAGGTCTTGGA
**
10772079 AATCATTCATAAATCTAAGAGTTTGCTTAAAGGTCTTGAAAATCATTCAAAAATCTATGATTTTG
1 AATCATTCA-AAATCTAAGAGTTTG-TTAAAGGTCTTGAAAATCATTCAAAAATCTAAAATTTTG
*
10772144 TCTGGAGGTCTTGGA
64 TCTGAAGGTCTTGGA
*
10772159 AATCATTAAAAA
1 AATCATTCAAAA
10772171 AATCTAATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 8 0.10
79 16 0.20
80 55 0.69
81 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (78 bp):
AATCATTCAAAATCTAAGAGTTTGTTAAAGGTCTTGAAAATCATTCAAAAATCTAAAATTTTGTC
TGAAGGTCTTGGA
Found at i:10773557 original size:119 final size:116
Alignment explanation
Indices: 10773354--10773868 Score: 622
Period size: 119 Copynumber: 4.4 Consensus size: 116
10773344 TTTTGTGTAG
** * * * * *
10773354 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATTCTTTT-AAAACTTTAATTTCGAGAAAA
1 GAAAAATTGATACTTTCAACTTTTCC-CCAAAAATATTTTTTTGAAAA-TTTATTTTCAAGGAAA
*
10773418 ATTGATACTTTCAACTTTTCCTCAAAAGTTTATTTTTTTGAAAATTTATTTTTAA
64 ATTGATACTTTCAACTTTTCCTCAAAA--ATATTTTTTTGAAAATTTATTTTTAA
* * * *
10773473 G-GAAATAGATACTTTCAATTTTTCCCCAAAAATATTTTTTTGGAAACTTTTATTTTCAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAA-ATTTATTTTCAAGGAAA
*
10773537 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTTAA
64 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTA-TTTTTAA
* *
10773591 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGGAAAAT
* * *
10773656 TGATACTTTCAACTTTTCC-CAAAAAAATGTTTTTTTTTAAACTTTGATTTTTAA
66 TGATACTTTCAACTTTTCCTC--AAAAAT-ATTTTTTTGAAAATTT-ATTTTTAA
* *** *
10773710 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGGAAAAT
* ***
10773775 TGACACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * * *
10773826 GGAAAATTGACACTTTCAATTTTTTCCCAAAAAATATTTTTTT
1 GAAAAATTGATACTTTCAA-CTTTTCCCCAAAAATATTTTTTT
10773869 TATTTTTATT
Statistics
Matches: 346, Mismatches: 39, Indels: 24
0.85 0.10 0.06
Matches are distributed among these distances:
116 26 0.08
117 94 0.27
118 44 0.13
119 180 0.52
120 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (116 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:10773630 original size:58 final size:57
Alignment explanation
Indices: 10773354--10773867 Score: 568
Period size: 59 Copynumber: 8.7 Consensus size: 57
10773344 TTTTGTGTAG
* * * **
10773354 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATTCTTTT-AAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATT-TTTTGAAAA-TTTATTTTTAA
*
10773413 GAAAAATTGATACTTTCAACTTTTCCTCAAAAGTTTATTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAA--ATA-TTTTTTGAAAATTTATTTTTAA
* * * * * *
10773473 G-GAAATAGATACTTTCAATTTTTCCCCAAAAATATTTTTTTGGAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT-GAAA-ATTTATTTTTAA
* *
10773532 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAATTTA-TTTTTAA
10773591 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAATTTATTTTTAA
* * * *
10773649 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAAATGTTTTTTTTTAAACTTTGATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC--AAAAA--TATTTTTTGAAAATTT-ATTTTTAA
**
10773710 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAAATTTATTTTTAA
* * **
10773768 GGAAAATTGACACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAAATTTATTTTTAA
* * *
10773826 GGAAAATTGACACTTTCAATTTTTTCC-CAAAAAATATTTTTT
1 GAAAAATTGATACTTTCAA-CTTTTCCTC-AAAAATATTTTTT
10773868 TTATTTTTAT
Statistics
Matches: 404, Mismatches: 35, Indels: 33
0.86 0.07 0.07
Matches are distributed among these distances:
57 10 0.02
58 135 0.33
59 151 0.37
60 67 0.17
61 40 0.10
62 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAA
Found at i:10773877 original size:58 final size:58
Alignment explanation
Indices: 10773356--10773879 Score: 565
Period size: 58 Copynumber: 8.9 Consensus size: 58
10773346 TTGTGTAGGA
* * * * * ** *
10773356 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAATTCTTTTAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATT-TTTTTAAATTTTATTTTTAAGG
** *
10773415 AAAATTGATACTTTCAACTTTTCCTCAAAAGTTTATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-AATATTTTTTT-AAATTTTATTTTTAAGG
* * * *
10773475 -AAATAGATACTTTCAATTTTTCC-CCAAAAATATTTTTTTGGAAACTTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTT--AAA-TTTTATTTTTAAGG
*
10773534 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAATTTTATTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTT-AAATTTTA-TTTTTAAGG
*
10773593 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTT-AAATTTTATTTTTAAGG
* * *
10773651 AAAATTGATACTTTCAACTTTTCC-CAAAAAAATGTTTTTTTTTAAACTTTGATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAA--TATTTTTTTAAA-TTTTATTTTTAAGG
*** * *
10773712 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAATTTTATTTTTAAGG
* *** * *
10773770 AAAATTGACACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAATTTTATTTTTAAGG
* * * *
10773828 AAAATTGACACTTTCAATTTTTTCC-CAAAAAATATTTTTTTTATTTTTATTT
1 AAAATTGATACTTTCAA-CTTTTCCTCAAAAAATATTTTTTTAAATTTTATTT
10773880 AAAGAAAATA
Statistics
Matches: 408, Mismatches: 43, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
57 10 0.02
58 150 0.37
59 145 0.36
60 53 0.13
61 49 0.12
62 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAATTTTATTTTTAAGG
Found at i:10773907 original size:13 final size:12
Alignment explanation
Indices: 10773891--10773943 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 12
10773881 AAGAAAATAG
10773891 AATAATAAAACAA
1 AATAATAAAA-AA
10773904 AATAATAAAAAA
1 AATAATAAAAAA
*
10773916 AAGTAA-AACAAA
1 AA-TAATAAAAAA
*
10773928 AATAA-AAATAA
1 AATAATAAAAAA
10773939 AATAA
1 AATAA
10773944 AGACAAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 12 0.33
12 11 0.31
13 13 0.36
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:10773922 original size:23 final size:23
Alignment explanation
Indices: 10773894--10773952 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
10773884 AAAATAGAAT
10773894 AATAAAACAAAATAATAAAAA-AA
1 AATAAAACAAAA-AATAAAAATAA
*
10773917 AGTAAAAC-AAAAATAAAAATAA
1 AATAAAACAAAAAATAAAAATAA
10773939 AATAAAGACAAAAA
1 AATAAA-ACAAAAA
10773953 GAATATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 8 0.26
22 10 0.32
23 9 0.29
24 4 0.13
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (23 bp):
AATAAAACAAAAAATAAAAATAA
Found at i:10773928 original size:11 final size:10
Alignment explanation
Indices: 10773902--10773944 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
10773892 ATAATAAAAC
*
10773902 AAAATAATAA
1 AAAAAAATAA
*
10773912 AAAAAAGTAA
1 AAAAAAATAA
10773922 AACAAAAATAA
1 AA-AAAAATAA
10773933 AAATAAAATAA
1 AAA-AAAATAA
10773944 A
1 A
10773945 GACAAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:10773993 original size:4 final size:4
Alignment explanation
Indices: 10773979--10774019 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
10773969 TAATCTAATA
* *
10773979 AAAT AAAAT AAAT AAAT AGAC AAAT AAAT AAAT AAAT AAAT
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
10774020 TCAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:10774904 original size:19 final size:18
Alignment explanation
Indices: 10774880--10774936 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
10774870 CTAGCCTTCC
10774880 AAAATAAAAATCAGATAAA
1 AAAATAAAAAT-AGATAAA
*
10774899 AAAATAATAGATA-ATTAAA
1 AAAATAA-AAATAGA-TAAA
*
10774918 AAAATAATAATAAGATAAA
1 AAAATAAAAAT-AGATAAA
10774937 TTAACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 3 0.10
19 24 0.77
20 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATAAAAATAGATAAA
Found at i:10774948 original size:25 final size:24
Alignment explanation
Indices: 10774896--10774986 Score: 93
Period size: 24 Copynumber: 3.9 Consensus size: 24
10774886 AAAATCAGAT
10774896 AAAAA-AATAAT-AGAT-AATTAA
1 AAAAATAATAATAAGATAAATTAA
10774917 AAAAATAATAATAAGATAAATTAA
1 AAAAATAATAATAAGATAAATTAA
* *
10774941 CAATAAT-ATTATAAGATAAA-TAA
1 -AAAAATAATAATAAGATAAATTAA
*
10774964 AAAAATAAAAATAGCAGATAAAT
1 AAAAATAATAATA--AGATAAAT
10774987 ATGAGATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.09
22 11 0.19
23 11 0.19
24 18 0.32
25 12 0.21
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (24 bp):
AAAAATAATAATAAGATAAATTAA
Found at i:10775099 original size:28 final size:28
Alignment explanation
Indices: 10775050--10775147 Score: 67
Period size: 28 Copynumber: 3.4 Consensus size: 28
10775040 AAAAATAAAA
* *
10775050 AATAAAAATATATATATTAATAAATAGT
1 AATAAAAATAAATATATAAATAAATAGT
* *
10775078 AATAATAAATAAATA-ATAAATACATAGG
1 AATAA-AAATAAATATATAAATAAATAGT
* *
10775106 ATATAAAGGA-AAATATATACATAAAATA-T
1 A-ATAAA-AATAAATATATAAAT-AAATAGT
10775135 AAAATAAAAATAA
1 --AATAAAAATAA
10775148 CAAAAATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
28 22 0.42
29 19 0.36
30 11 0.21
31 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (28 bp):
AATAAAAATAAATATATAAATAAATAGT
Found at i:10775133 original size:13 final size:12
Alignment explanation
Indices: 10775115--10775158 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
10775105 GATATAAAGG
10775115 AAAATATATACAT
1 AAAATATA-ACAT
*
10775128 AAAATATAAAAT
1 AAAATATAACAT
10775140 AAAA-ATAACA-
1 AAAATATAACAT
10775150 AAAATATAA
1 AAAATATAA
10775159 AACAAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.14
11 9 0.32
12 7 0.25
13 8 0.29
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATATAACAT
Found at i:10775143 original size:25 final size:25
Alignment explanation
Indices: 10775092--10775166 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
10775082 ATAAATAAAT
* ** **
10775092 AATAAATACATAGGATATAAAGGAA
1 AATATATACATAAAATATAAAACAA
*
10775117 AATATATACATAAAATATAAAATAA
1 AATATATACATAAAATATAAAACAA
10775142 AA-ATA-ACA-AAAATATAAAACAA
1 AATATATACATAAAATATAAAACAA
10775164 AAT
1 AAT
10775167 TGGGCTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
22 15 0.35
23 3 0.07
24 3 0.07
25 22 0.51
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (25 bp):
AATATATACATAAAATATAAAACAA
Found at i:10775327 original size:11 final size:10
Alignment explanation
Indices: 10775313--10775341 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
10775303 AACATTTTCA
10775313 TTTTTTTTTG
1 TTTTTTTTTG
10775323 TTTTTTTTTG
1 TTTTTTTTTG
10775333 TTTTTTTTT
1 TTTTTTTTT
10775342 ACCAAAGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:10775441 original size:41 final size:41
Alignment explanation
Indices: 10775348--10775601 Score: 355
Period size: 42 Copynumber: 6.1 Consensus size: 41
10775338 TTTTACCAAA
* * * *
10775348 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-ATAAATT
* * * *
10775391 GCTCCTCTAATCAGAGGCTCAACGGCTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
*
10775432 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
*
10775474 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
10775515 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
* *
10775557 GCTCCTTTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAATAAATT
10775599 GCT
1 GCT
10775602 TTTTGACAAT
Statistics
Matches: 195, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 76 0.39
42 87 0.45
43 32 0.16
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
Found at i:10775503 original size:83 final size:83
Alignment explanation
Indices: 10775348--10775601 Score: 366
Period size: 83 Copynumber: 3.0 Consensus size: 83
10775338 TTTTACCAAA
* * * * * * * *
10775348 GCTCCTCTAAGCAGAGGCTCAACGAC-TTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACC
* *
10775412 ACGGCTTTGGAAAATAAATT
64 ACGACTTTGGAAAGTAAATT
10775432 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
10775497 GACTTTGGAAAGTAAATT
66 GACTTTGGAAAGTAAATT
* *
10775515 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
10775580 GACTTTGAGAAAGTAAATT
66 GACTTTG-GAAAGTAAATT
10775599 GCT
1 GCT
10775602 TTTTGACAAT
Statistics
Matches: 156, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
83 111 0.71
84 40 0.26
85 5 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGGAAAGTAAATT
Found at i:10775877 original size:30 final size:30
Alignment explanation
Indices: 10775843--10775913 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
10775833 AAAATAGTGT
10775843 ATGCTATGCAATGTGCATGAATTTTAATGC
1 ATGCTATGCAATGTGCATGAATTTTAATGC
10775873 ATGCTATGCAATGTGCATGAATTTTAATGC
1 ATGCTATGCAATGTGCATGAATTTTAATGC
10775903 ATGCTATGCAA
1 ATGCTATGCAA
10775914 ATGTTGGCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (30 bp):
ATGCTATGCAATGTGCATGAATTTTAATGC
Found at i:10776644 original size:9 final size:9
Alignment explanation
Indices: 10776625--10776656 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
10776615 TCCTTTTTCA
10776625 TTCACTTTTT
1 TTCA-TTTTT
10776635 TTCATTTTT
1 TTCATTTTT
10776644 TTCATTTTT
1 TTCATTTTT
10776653 TTCA
1 TTCA
10776657 AGCATAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (9 bp):
TTCATTTTT
Found at i:10787119 original size:60 final size:58
Alignment explanation
Indices: 10787050--10787504 Score: 565
Period size: 59 Copynumber: 7.7 Consensus size: 58
10787040 TTGTGCAAGA
* *
10787050 AAAATTGATACTTTCAACTTTTCCTCAAAAGTTTATTTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA--ATATTTTTTTGAAAATTTATTTTTAAGG
*
10787110 AAAATTGATACTTTCAACTTTTCCTCAAAAATTAATTTTTTTGAAAATTAATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAAATTTA-TTTTTAAGG
* *
10787171 AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTA-TTTTTAAGG
* *
10787230 AAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* * * * *
10787287 AAAATTAATACTTTCAACTTTTCC-CAAAAAAATGTTTTTTTTCAAACTTTGATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC--AAAAAT-ATTTTTTTGAAAATTT-ATTTTTAAGG
* * * *** *
10787348 AAAATTGACACCTTCAATTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* * * *
10787406 AAAATTGATACTTTCAACTTTT-CTCTAAAAATATTCTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAATTT-ATTTTTAAGG
*
10787465 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
10787505 TATTTTTATT
Statistics
Matches: 346, Mismatches: 37, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.00
57 34 0.10
58 66 0.19
59 111 0.32
60 66 0.19
61 67 0.19
62 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:10787173 original size:18 final size:16
Alignment explanation
Indices: 10787137--10787176 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10787127 CTTTTCCTCA
*
10787137 AAAATTAATTTTTTTG
1 AAAATTAATTTTTTGG
10787153 AAAATTAATTTTTTAAGG
1 AAAATTAATTTTTT--GG
10787171 AAAATT
1 AAAATT
10787177 GATACTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.67
18 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
AAAATTAATTTTTTGG
Found at i:10787539 original size:18 final size:17
Alignment explanation
Indices: 10787516--10787587 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 17
10787506 ATTTTTATTT
*
10787516 AAACAAAATAGAATAATA
1 AAACAAAATAAAATAA-A
10787534 AAACAAAATAAAATAAA
1 AAACAAAATAAAATAAA
* *
10787551 AAAAAGTAAAGTAAAACAAA
1 AAACA--AAA-TAAAATAAA
10787571 AATA-AAAATAAAATAAA
1 AA-ACAAAATAAAATAAA
10787588 GATAAAAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.28
18 18 0.39
19 3 0.07
20 11 0.24
21 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (17 bp):
AAACAAAATAAAATAAA
Found at i:10787541 original size:5 final size:5
Alignment explanation
Indices: 10787530--10787594 Score: 60
Period size: 5 Copynumber: 12.4 Consensus size: 5
10787520 AAAATAGAAT
* * *
10787530 AATAA AACAA AATAA AATAA AA-AA AAGTAA AGTAA AACAAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AA-TAA AATAA AA-TAA AAT-AA
10787577 AATAA AATAA AGATAA AA
1 AATAA AATAA A-ATAA AA
10787595 AGAATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
4 4 0.08
5 28 0.57
6 17 0.35
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:10787592 original size:11 final size:10
Alignment explanation
Indices: 10787530--10787594 Score: 60
Period size: 11 Copynumber: 6.2 Consensus size: 10
10787520 AAAATAGAAT
*
10787530 AATAAAACAA
1 AATAAAATAA
10787540 AATAAAATAA
1 AATAAAATAA
10787550 AA-AAAAGTAA
1 AATAAAA-TAA
* *
10787560 AGTAAAACAAA
1 AATAAAA-TAA
10787571 AATAAAAATAA
1 AAT-AAAATAA
10787582 AATAAAGATAA
1 AATAAA-ATAA
10787593 AA
1 AA
10787595 AGAATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 4 0.09
10 18 0.40
11 19 0.42
12 4 0.09
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (10 bp):
AATAAAATAA
Found at i:10787625 original size:4 final size:4
Alignment explanation
Indices: 10787618--10787648 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
10787608 AACCTAATCT
*
10787618 AATA AATA AACA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AAT
10787649 TCAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:10788643 original size:14 final size:13
Alignment explanation
Indices: 10788616--10788645 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
10788606 ATGTATATAT
10788616 TAATAAATAGTAA
1 TAATAAATAGTAA
10788629 TAATAAATAAGTAA
1 TAATAAAT-AGTAA
10788643 TAA
1 TAA
10788646 ATACATAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
TAATAAATAGTAA
Found at i:10791691 original size:24 final size:24
Alignment explanation
Indices: 10791659--10791707 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10791649 AATTCAAAGA
10791659 TAGAATAGACTTCATATGTTTACT
1 TAGAATAGACTTCATATGTTTACT
10791683 TAGAATAGACTTCATATGTTTACT
1 TAGAATAGACTTCATATGTTTACT
10791707 T
1 T
10791708 TCCCTATCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (24 bp):
TAGAATAGACTTCATATGTTTACT
Found at i:10794921 original size:16 final size:17
Alignment explanation
Indices: 10794900--10794937 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10794890 TAAATTTGAG
10794900 ACAAATACTAGACC-AA
1 ACAAATACTAGACCAAA
* *
10794916 ACAAATAGTATACCAAA
1 ACAAATACTAGACCAAA
10794933 ACAAA
1 ACAAA
10794938 ATTTTATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.61, C:0.21, G:0.05, T:0.13
Consensus pattern (17 bp):
ACAAATACTAGACCAAA
Found at i:10796640 original size:20 final size:19
Alignment explanation
Indices: 10796601--10796641 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10796591 AGTAAAGTTT
*
10796601 AGGGTTTGGTTAAGGTTTA
1 AGGGTTTGGTTAAGGATTA
*
10796620 AGGGTTTAGGTTTAGGATTA
1 AGGGTTT-GGTTAAGGATTA
10796640 AG
1 AG
10796642 ATTGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (19 bp):
AGGGTTTGGTTAAGGATTA
Found at i:10796660 original size:12 final size:12
Alignment explanation
Indices: 10796597--10796670 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 12
10796587 TATGAGTAAA
*
10796597 GTTTAGGGTTTG
1 GTTTAAGGTTTG
10796609 G-TTAAGGTTTAAGG
1 GTTTAAGGTTT---G
10796623 GTTT-AGGTTTAG
1 GTTTAAGGTTT-G
* *
10796635 GATTAA-GATTG
1 GTTTAAGGTTTG
*
10796646 GTTTAGGGTTTG
1 GTTTAAGGTTTG
10796658 GTTTAAGGTTTG
1 GTTTAAGGTTTG
10796670 G
1 G
10796671 GTACATTTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
11 13 0.27
12 24 0.50
13 1 0.02
14 8 0.17
15 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (12 bp):
GTTTAAGGTTTG
Found at i:10796856 original size:11 final size:11
Alignment explanation
Indices: 10796840--10796868 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10796830 TTGATTTGGT
10796840 TTGGTTTAGGG
1 TTGGTTTAGGG
10796851 TTGG-TTAGGG
1 TTGGTTTAGGG
10796861 TTGGTTTA
1 TTGGTTTA
10796869 TGTTTTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.10, C:0.00, G:0.41, T:0.48
Consensus pattern (11 bp):
TTGGTTTAGGG
Found at i:10797000 original size:6 final size:6
Alignment explanation
Indices: 10796983--10797015 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10796973 GTTGATTTAG
*
10796983 GGTTTT GG-TTT GGTTTT GGTTTT GGGTTT GGTT
1 GGTTTT GGTTTT GGTTTT GGTTTT GGTTTT GGTT
10797016 AAGGTTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.39, T:0.61
Consensus pattern (6 bp):
GGTTTT
Found at i:10797021 original size:18 final size:17
Alignment explanation
Indices: 10796983--10797022 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
10796973 GTTGATTTAG
**
10796983 GGTTTTGGTTTGGTTTT
1 GGTTTTGGTTTGGTTAA
10797000 GGTTTTGGGTTTGGTTAA
1 GGTTTT-GGTTTGGTTAA
10797018 GGTTT
1 GGTTT
10797023 ACCGTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.05, C:0.00, G:0.38, T:0.57
Consensus pattern (17 bp):
GGTTTTGGTTTGGTTAA
Found at i:10797078 original size:26 final size:26
Alignment explanation
Indices: 10797049--10797098 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
10797039 TTTGGAAGGA
10797049 TTGGTTCGGTTTAGGTTAGGGTTGGT
1 TTGGTTCGGTTTAGGTTAGGGTTGGT
* *
10797075 TTGGTTTGGTTTGGGTTAGGGTTG
1 TTGGTTCGGTTTAGGTTAGGGTTG
10797099 TTTTAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.06, C:0.02, G:0.44, T:0.48
Consensus pattern (26 bp):
TTGGTTCGGTTTAGGTTAGGGTTGGT
Found at i:10797107 original size:26 final size:26
Alignment explanation
Indices: 10797056--10797107 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
10797046 GGATTGGTTC
*
10797056 GGTTTAGGTTAGGGTTGGTTTGGTTT
1 GGTTTAGGTTAGGGTTGGTTTAGTTT
* *
10797082 GGTTTGGGTTAGGGTTGTTTTAGTTT
1 GGTTTAGGTTAGGGTTGGTTTAGTTT
10797108 AGGATAGGTT
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:0.08, C:0.00, G:0.40, T:0.52
Consensus pattern (26 bp):
GGTTTAGGTTAGGGTTGGTTTAGTTT
Found at i:10797117 original size:26 final size:26
Alignment explanation
Indices: 10797060--10797128 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
10797050 TGGTTCGGTT
* *
10797060 TAGGTTAGGGTTGGTTTGGTTTGGTT
1 TAGGTTAGGGTTGGTTTAGTTTGGTA
* *
10797086 TGGGTTAGGGTTGTTTTAGTTTAGG-A
1 TAGGTTAGGGTTGGTTTAGTTT-GGTA
*
10797112 TAGGTTTAGGTTTGGTT
1 TAGG-TTAGGGTTGGTT
10797129 GGGGTTTGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.49
Consensus pattern (26 bp):
TAGGTTAGGGTTGGTTTAGTTTGGTA
Found at i:10797307 original size:29 final size:31
Alignment explanation
Indices: 10797263--10797333 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 31
10797253 GGTTTATTAA
* * *
10797263 AGTTTTGGGTTGGTTTAGGGTTT-A-GGTTT
1 AGTTTAGGGTTAGTTTAGGATTTGATGGTTT
*
10797292 GGTTTAGGGTTAGTTTAGGATTTGATGGTTT
1 AGTTTAGGGTTAGTTTAGGATTTGATGGTTT
*
10797323 ATTTTAGGGTT
1 AGTTTAGGGTT
10797334 TAAGGGTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.56
30 1 0.03
31 14 0.41
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (31 bp):
AGTTTAGGGTTAGTTTAGGATTTGATGGTTT
Found at i:10797341 original size:20 final size:19
Alignment explanation
Indices: 10797274--10797347 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 19
10797264 GTTTTGGGTT
*
10797274 GGTTTAGGGTTTAGGTTT--
1 GGTTTAGGGTTTA-TTTTAG
*
10797292 GGTTTAGGG-TTAGTTTAG
1 GGTTTAGGGTTTATTTTAG
* *
10797310 GATTTGATGGTTTATTTTAG
1 GGTTT-AGGGTTTATTTTAG
10797330 GGTTTAAGGGTTTGATTT
1 GGTTT-AGGGTTT-ATTT
10797348 GGGGATTGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 4 0.09
17 3 0.07
18 13 0.29
19 3 0.07
20 18 0.40
21 4 0.09
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (19 bp):
GGTTTAGGGTTTATTTTAG
Found at i:10797391 original size:20 final size:20
Alignment explanation
Indices: 10797360--10797404 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
10797350 GGATTGGTTT
10797360 GGGTTTAGGGTTTACAT-AA
1 GGGTTTAGGGTTTACATAAA
10797379 GGGTTTAAGGGTTTACATAAA
1 GGGTTT-AGGGTTTACATAAA
10797400 GGGTT
1 GGGTT
10797405 GCATAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 7 0.29
ACGTcount: A:0.27, C:0.04, G:0.33, T:0.36
Consensus pattern (20 bp):
GGGTTTAGGGTTTACATAAA
Found at i:10798710 original size:24 final size:23
Alignment explanation
Indices: 10798674--10798728 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
10798664 AATAAAAAGG
*
10798674 CCCAATAACGGATTGATCCTCAAAA
1 CCCATTAACGGATT--TCCTCAAAA
*
10798699 CCCATTAA-GGATTTCCTTAAAA
1 CCCATTAACGGATTTCCTCAAAA
*
10798721 CTCATTAA
1 CCCATTAA
10798729 TGACCCAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.56
24 5 0.19
25 7 0.26
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.27
Consensus pattern (23 bp):
CCCATTAACGGATTTCCTCAAAA
Found at i:10798761 original size:3 final size:3
Alignment explanation
Indices: 10798753--10798842 Score: 80
Period size: 3 Copynumber: 30.7 Consensus size: 3
10798743 CAATTAAACA
*
10798753 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * *
10798799 AAC AA- AAA AAT AA- AAA AAT AAT ACT -AT AAT CTAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
10798841 AA
1 AA
10798843 ATAAATAAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
2 7 0.10
3 60 0.83
4 5 0.07
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:10801229 original size:10 final size:10
Alignment explanation
Indices: 10801214--10801243 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10801204 AAAATACCTA
10801214 GAAAATCTAG
1 GAAAATCTAG
10801224 GAAAATCTAG
1 GAAAATCTAG
*
10801234 GAATATCTAG
1 GAAAATCTAG
10801244 TAGCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (10 bp):
GAAAATCTAG
Found at i:10803390 original size:20 final size:21
Alignment explanation
Indices: 10803365--10803411 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
10803355 CAAATTTCTT
10803365 TGAAATAAAAGAAA-AATAAA
1 TGAAATAAAAGAAATAATAAA
* *
10803385 TGAAATGAAATAAATAAT-AA
1 TGAAATAAAAGAAATAATAAA
10803405 -GAAATAA
1 TGAAATAA
10803412 TGGATGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (21 bp):
TGAAATAAAAGAAATAATAAA
Found at i:10808824 original size:3 final size:3
Alignment explanation
Indices: 10808803--10808846 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
10808793 GAGTCAATTT
* * * *
10808803 TTA TTA CTA TTA CTA TTA TTA TTT TTA TTA TTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10808847 TGTTATAGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10808825 original size:12 final size:11
Alignment explanation
Indices: 10808804--10808902 Score: 55
Period size: 12 Copynumber: 8.8 Consensus size: 11
10808794 AGTCAATTTT
*
10808804 TATTACTATTA
1 TATTATTATTA
10808815 CTATTATTATT-
1 -TATTATTATTA
10808826 T-TTATTATTA
1 TATTATTATTA
10808836 GTATTATTATT-
1 -TATTATTATTA
* *
10808847 TGTTA-TAGTA
1 TATTATTATTA
*
10808857 TAGTATGTTACGTTA
1 TA-T-TATTA--TTA
*
10808872 TATTGTTATTA
1 TATTATTATTA
10808883 TATTA-TATTA
1 TATTATTATTA
10808893 TATTTATTAT
1 TA-TTATTAT
10808903 GATTTTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
9 11 0.16
10 13 0.19
11 12 0.17
12 21 0.30
13 7 0.10
14 1 0.01
15 4 0.06
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (11 bp):
TATTATTATTA
Found at i:10809794 original size:12 final size:11
Alignment explanation
Indices: 10809775--10809820 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
10809765 ATTTATTTTA
10809775 TATTTTGATTT
1 TATTTTGATTT
10809786 TAGTTTTGATTT
1 TA-TTTTGATTT
10809798 TATTTTTGA-TT
1 TA-TTTTGATTT
10809809 TATTTT-ATTT
1 TATTTTGATTT
10809819 TA
1 TA
10809821 CTAATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 1 0.03
10 8 0.25
11 6 0.19
12 17 0.53
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.72
Consensus pattern (11 bp):
TATTTTGATTT
Found at i:10809810 original size:11 final size:12
Alignment explanation
Indices: 10809769--10809814 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
10809759 ATTTTTATTT
10809769 ATTTTATATTTTG
1 ATTTTAT-TTTTG
*
10809782 ATTTTAGTTTTG
1 ATTTTATTTTTG
10809794 ATTTTATTTTTG
1 ATTTTATTTTTG
10809806 A-TTTATTTT
1 ATTTTATTTT
10809815 ATTTTACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 8 0.26
12 17 0.55
13 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.72
Consensus pattern (12 bp):
ATTTTATTTTTG
Found at i:10809844 original size:17 final size:16
Alignment explanation
Indices: 10809795--10809849 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
10809785 TTAGTTTTGA
10809795 TTTTATTTTTGATTTA-
1 TTTTATTTTT-ATTTAT
* *
10809811 TTTTA-TTTTACTAAT
1 TTTTATTTTTATTTAT
10809826 TTTTATTATTTATTTAT
1 TTTTATT-TTTATTTAT
10809843 TTTTATT
1 TTTTATT
10809850 GAGTAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 3 0.09
15 9 0.28
16 6 0.19
17 14 0.44
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTATTTAT
Found at i:10809857 original size:31 final size:31
Alignment explanation
Indices: 10809795--10809866 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
10809785 TTAGTTTTGA
*
10809795 TTTTATTTTTGATTTATTTTATTTTACTAAT
1 TTTTATTTTTGATTTATTTTATTTGACTAAT
*
10809826 TTTTATTATTT-ATTTATTTT-TATTGAGTAAT
1 TTTTATT-TTTGATTTATTTTAT-TTGACTAAT
*
10809857 TTAT-TTTTTG
1 TTTTATTTTTG
10809867 TTAAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
29 3 0.09
30 3 0.09
31 26 0.74
32 3 0.09
ACGTcount: A:0.22, C:0.01, G:0.06, T:0.71
Consensus pattern (31 bp):
TTTTATTTTTGATTTATTTTATTTGACTAAT
Found at i:10809858 original size:18 final size:17
Alignment explanation
Indices: 10809824--10809864 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
10809814 TATTTTACTA
* *
10809824 ATTTTTATTATTTATTT
1 ATTTTTATTAGTAATTT
10809841 ATTTTTATTGAGTAATTT
1 ATTTTTATT-AGTAATTT
10809859 ATTTTT
1 ATTTTT
10809865 TGTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (17 bp):
ATTTTTATTAGTAATTT
Found at i:10825802 original size:44 final size:44
Alignment explanation
Indices: 10825674--10825802 Score: 116
Period size: 44 Copynumber: 2.9 Consensus size: 44
10825664 AAAAAGAGTG
* * *
10825674 AAAAAAAGTTCAAGTTGAAAACCCAAAAA-ATAGGTATGAGTAAAAA
1 AAAAAAAGTTCAAGTTGAAAAACCAAAAAGGTAGCT-TGAGT--AAA
*** * * * *
10825720 AAAAAAAGTTCAAGTTGAAAGTTCGAAAGGGCAACTTGAGTAAA
1 AAAAAAAGTTCAAGTTGAAAAACCAAAAAGGTAGCTTGAGTAAA
* *
10825764 AAAAAGAGTTCAAGTTAAAAAACCAAAAAGGTAGCTTGA
1 AAAAAAAGTTCAAGTTGAAAAACCAAAAAGGTAGCTTGA
10825803 ACTAAACAGG
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
44 33 0.52
46 29 0.45
47 2 0.03
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (44 bp):
AAAAAAAGTTCAAGTTGAAAAACCAAAAAGGTAGCTTGAGTAAA
Found at i:10826688 original size:115 final size:116
Alignment explanation
Indices: 10826486--10826769 Score: 354
Period size: 116 Copynumber: 2.5 Consensus size: 116
10826476 ACTCATTTTT
* ** * * * * *
10826486 ATCTCAACTCTATCCAGATCATCTTTTAACTGTGGTTCGACCACAGTCACCTAGTGTTCAATTTT
1 ATCTCAACTCTGTCCAGATCATCTTTTAACCATGGTTCAACCACGGTCACCTAGCGTTCAATCTC
*
10826551 GGCTCGGTCCAAATCA-TTTTTTTTACTTATGATTCAATCTTAGTCATTTG
66 GGCTCGGACCAAATCATTTTTTTTTACTTATGATTCAATCTTAGTCATTTG
* * *
10826601 ATCTCAACTCTGTCCAAATCATCTTTTGACCATGGTTCAACCACGGTCACCTAGCGTTCGATCTC
1 ATCTCAACTCTGTCCAGATCATCTTTTAACCATGGTTCAACCACGGTCACCTAGCGTTCAATCTC
* * * * *
10826666 GGCTTGGACCAGATCATTTTTTTTTACTTGTGTTTCAATCTTATTCATTTG
66 GGCTCGGACCAAATCATTTTTTTTTACTTATGATTCAATCTTAGTCATTTG
** * * * *
10826717 ATCTTGACTCTGTCTAGATCATTTTTTTACCATGGTTCAATCACGGTCACCTA
1 ATCTCAACTCTGTCCAGATCATCTTTTAACCATGGTTCAACCACGGTCACCTA
10826770 ACCTTGACCT
Statistics
Matches: 144, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
115 67 0.47
116 77 0.53
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (116 bp):
ATCTCAACTCTGTCCAGATCATCTTTTAACCATGGTTCAACCACGGTCACCTAGCGTTCAATCTC
GGCTCGGACCAAATCATTTTTTTTTACTTATGATTCAATCTTAGTCATTTG
Found at i:10826907 original size:56 final size:56
Alignment explanation
Indices: 10826799--10826912 Score: 133
Period size: 56 Copynumber: 2.0 Consensus size: 56
10826789 TTAGGTCAGC
* * **
10826799 TTTCCAGACTTGTGATTCAATCCCAATCGTTTGATCTCGATTCAATTTAAATCATT
1 TTTCCAGACTTGCGATTCAATCCCAATCGTTTGATCTCAATTCAATCCAAATCATT
* * *
10826855 TTTCCAGACTTGCGATTTAATCCCAGTCGTTT-ATTCTCAACTT-AGTCCAAATCATT
1 TTTCCAGACTTGCGATTCAATCCCAATCGTTTGA-TCTCAA-TTCAATCCAAATCATT
10826911 TT
1 TT
10826913 CTAAAGTTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
55 1 0.02
56 46 0.94
57 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (56 bp):
TTTCCAGACTTGCGATTCAATCCCAATCGTTTGATCTCAATTCAATCCAAATCATT
Found at i:10827195 original size:111 final size:111
Alignment explanation
Indices: 10826955--10827224 Score: 283
Period size: 111 Copynumber: 2.4 Consensus size: 111
10826945 CTACGTTTAG
* * ** * *
10826955 TCTAGATC-ATTTTTTAGACTTATGGTTCAATCCCGATCGTTCGATCTCAGCTCAATCTAGATTG
1 TCTAGGTCAATTTTCTAGACTTACAGTTCAATCTCGATCGTTTGATCTCAGCTCAATCTAGATTG
* * ** * * *
10827019 TTTTCTAGATTTACAATTCAATCCCAATTGTTTGACCTTGACTTGA
66 TGTTCTAGACTTACAATTCAATCCCAATCATTCGACCTCGACTAGA
* * * * * *
10827065 TCTGGGTTAATTTTTTAGACTTGCAGTTCAATCTCGGTCGTTTGATCTCAGCTCAGTCTAGATTG
1 TCTAGGTCAATTTTCTAGACTTACAGTTCAATCTCGATCGTTTGATCTCAGCTCAATCTAGATTG
*** *
10827130 TGTTCTAGACTTATGGTTCAATCCCAATCATTCGACCTCGACTCAGT
66 TGTTCTAGACTTACAATTCAATCCCAATCATTCGACCTCGACT-AGA
* * *
10827177 TC-AGGTCAGTTTTCTAGACTTACAGTTTAATTTCGATCGTTTGATCTC
1 TCTAGGTCAATTTTCTAGACTTACAGTTCAATCTCGATCGTTTGATCTC
10827225 GGTTTGGTCC
Statistics
Matches: 129, Mismatches: 29, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
110 5 0.04
111 121 0.94
112 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (111 bp):
TCTAGGTCAATTTTCTAGACTTACAGTTCAATCTCGATCGTTTGATCTCAGCTCAATCTAGATTG
TGTTCTAGACTTACAATTCAATCCCAATCATTCGACCTCGACTAGA
Found at i:10827506 original size:15 final size:14
Alignment explanation
Indices: 10827462--10827509 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
10827452 AGTTACATTA
10827462 TATTGTTATTATAT
1 TATTGTTATTATAT
* *
10827476 TATATGATATGATAT
1 TAT-TGTTATTATAT
10827491 TATTGTTATTATTAT
1 TATTGTTATTA-TAT
10827506 TATT
1 TATT
10827510 AGTACAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (14 bp):
TATTGTTATTATAT
Found at i:10827522 original size:3 final size:3
Alignment explanation
Indices: 10827516--10827555 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
10827506 TATTAGTACA
* * *
10827516 ACT ACT ACT ACT ACT ACT ACT ACT ATT ATT ATT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
10827556 TTATTATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (3 bp):
ACT
Found at i:10827556 original size:15 final size:15
Alignment explanation
Indices: 10827518--10827564 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
10827508 TTAGTACAAC
* * *
10827518 TACTACTACTACTAC
1 TACTACTATTATTAT
10827533 TACTACTATTATTAT
1 TACTACTATTATTAT
10827548 TACTACTATTATTAT
1 TACTACTATTATTAT
10827563 TA
1 TA
10827565 TTTTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (15 bp):
TACTACTATTATTAT
Found at i:10828389 original size:5 final size:5
Alignment explanation
Indices: 10828375--10828442 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
10828365 TTCTATTCTA
* *
10828375 ATTTT AATTTT A-TTT ATTTTAT ATTTT GATTTAT ATTTT ATATT -TTAT
1 ATTTT -ATTTT ATTTT A-TTT-T ATTTT -ATTT-T ATTTT ATTTT ATTTT
10828423 ATTTT A-TTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT A
10828443 CTGATTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
4 10 0.20
5 20 0.39
6 18 0.35
7 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:10828399 original size:28 final size:26
Alignment explanation
Indices: 10828363--10828440 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 26
10828353 AAGTTTTCCT
*
10828363 TTTTCTATTCTAATTTTAATTTTATTTA
1 TTTTATATT-TAA-TTTAATTTTATTTA
*
10828391 TTTTATATTTTGATTTATATTTTA--TA
1 TTTTATA-TTTAATTTA-ATTTTATTTA
*
10828417 TTTTATATTTTATTT-ATTTTATTT
1 TTTTATATTTAATTTAATTTTATTT
10828441 TACTGATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
23 6 0.14
25 8 0.19
26 9 0.21
27 4 0.09
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (26 bp):
TTTTATATTTAATTTAATTTTATTTA
Found at i:10828401 original size:7 final size:7
Alignment explanation
Indices: 10828375--10828442 Score: 63
Period size: 7 Copynumber: 9.9 Consensus size: 7
10828365 TTCTATTCTA
10828375 ATTTTA-
1 ATTTTAT
10828381 ATTTTATTT
1 ATTTTA--T
10828390 ATTTTAT
1 ATTTTAT
*
10828397 ATTTT-G
1 ATTTTAT
10828403 A-TTTAT
1 ATTTTAT
10828409 ATTTTAT
1 ATTTTAT
10828416 ATTTTAT
1 ATTTTAT
10828423 ATTTTAT
1 ATTTTAT
*
10828430 -TTATTTT
1 ATT-TTAT
10828437 ATTTTA
1 ATTTTA
10828443 CTGATTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
5 3 0.06
6 10 0.20
7 30 0.59
8 2 0.04
9 6 0.12
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:10828409 original size:12 final size:11
Alignment explanation
Indices: 10828375--10828433 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 11
10828365 TTCTATTCTA
10828375 ATTTTAATTT-T
1 ATTTT-ATTTAT
10828386 A-TTTATTTTAT
1 ATTTTA-TTTAT
10828397 ATTTTGATTTAT
1 ATTTT-ATTTAT
10828409 ATTTTATATTTTAT
1 A-TTT-TA-TTTAT
10828423 ATTTTATTTAT
1 ATTTTATTTAT
10828434 TTTATTTTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
9 1 0.02
10 6 0.15
11 8 0.20
12 11 0.27
13 8 0.20
14 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
ATTTTATTTAT
Found at i:10828430 original size:19 final size:19
Alignment explanation
Indices: 10828387--10828431 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10828377 TTTAATTTTA
10828387 TTTATTTTATATTTTGATT
1 TTTATTTTATATTTTGATT
*
10828406 TATATTTTATATTTT-ATAT
1 TTTATTTTATATTTTGAT-T
10828425 TTTATTT
1 TTTATTT
10828432 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTATATTTTGATT
Found at i:10828452 original size:31 final size:27
Alignment explanation
Indices: 10828389--10828468 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 27
10828379 TAATTTTATT
10828389 TATTTTATATTTTGATTTA--TATTTTA
1 TATTTTATATTTT-ATTTATTTATTTTA
10828415 TATTTTATATTTTATTTATTTTATTTTA
1 TATTTTATATTTTATTTA-TTTATTTTA
*
10828443 CTGATTTT-TA--TTATTTATTTACTTTA
1 -T-ATTTTATATTTTATTTATTTATTTTA
10828469 ATTGAGTAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
25 5 0.10
26 21 0.44
27 7 0.15
28 7 0.15
29 3 0.06
30 5 0.10
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (27 bp):
TATTTTATATTTTATTTATTTATTTTA
Found at i:10829839 original size:13 final size:14
Alignment explanation
Indices: 10829816--10829844 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10829806 CAATTTTTAC
10829816 AAGGAAAACTAAAG
1 AAGGAAAACTAAAG
10829830 AAGG-AAACTAAAG
1 AAGGAAAACTAAAG
10829843 AA
1 AA
10829845 ATTAAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (14 bp):
AAGGAAAACTAAAG
Found at i:10833030 original size:2 final size:2
Alignment explanation
Indices: 10833023--10833052 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10833013 TACGACTTCT
10833023 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
10833053 AATCAAGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10834925 original size:16 final size:16
Alignment explanation
Indices: 10834906--10834937 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10834896 AAAAGTTTTA
10834906 AAATTTAAAATTAAAT
1 AAATTTAAAATTAAAT
*
10834922 AAATTTAATATTAAAT
1 AAATTTAAAATTAAAT
10834938 TAATCGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTAAAATTAAAT
Found at i:10836078 original size:2 final size:2
Alignment explanation
Indices: 10836071--10836104 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10836061 ATTGTAATAA
10836071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10836105 TGGAAAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10838866 original size:201 final size:199
Alignment explanation
Indices: 10838573--10839286 Score: 706
Period size: 201 Copynumber: 3.5 Consensus size: 199
10838563 TTTCGTCCGT
* ** * * *
10838573 TATTTATGAAAAAAAAATGTAATTAAAGGCAATAATCGTCACAAAA-ACATGAAAAATTCGATAT
1 TATTTAT--AAAAAAAATGTCATTAAAGGTTATAATCGTCACAAAATAAATGATAAATTTGATAT
* * * * * * *
10838637 ATTA-TGGACGAAAGGTAAATCATCACAATATTAGTGACA-AAATGTCGTCACCAATTATTGTAA
64 ATTAGT-GACGAAAAGTAAATCGTCACAATATTGGTGACACAATTATCGTCACAAATGATTGTAA
* * ** *
10838700 AATAATATCT-ACCATGACAATAAAATCATGCGTCACCTTATGCTTTAATTTTTGTGACGTTAGT
128 GAT-AT-TCTAAACATGACAATAAAATCAAACATCACCTTATGCTTT-ATTTTTGTGACGTTAGT
*
10838764 TTTTGTC-GAC
190 TTTTATCAG-C
* * * * *
10838774 TATTTATACATAAAAACGTCATTAAAAGTTATAATCGTCAAAAAATAAATGATAAATCTGATATA
1 TATTTATA-AAAAAAATGTCATTAAAGGTTATAATCGTCACAAAATAAATGATAAATTTGATATA
* * * *
10838839 TTAGTGACGAAAGGTAAATTGTCACAATATTGGTGACACAATTATCATCACAAATGATTATAAGA
65 TTAGTGACGAAAAGTAAATCGTCACAATATTGGTGACACAATTATCGTCACAAATGATTGTAAGA
* * * * * * * *
10838904 TCTTGCTAAACATGATAATAAAATCAAACATCACCTCATACTTT-CTTTTATGATGTTAGTTTTC
130 TATT-CTAAACATGACAATAAAATCAAACATCACCTTATGCTTTATTTTTGTGACGTTAGTTTTT
10838968 ATCAGC
194 ATCAGC
* *
10838974 TATTTATAAAGAACAATGTCATTGAAGGTTATAATCGTCACAAAATAAATGATACAATTTGATAT
1 TATTTATAAA-AAAAATGTCATTAAAGGTTATAATCGTCACAAAATAAATGATA-AATTTGATAT
* * * * *
10839039 ATTAATGACAAAAAGTAAATCGTCACAGTATTGGTAACATAATTATCGTCACAAATGATTGTAAG
64 ATTAGTGACGAAAAGTAAATCGTCACAATATTGGTGACACAATTATCGTCACAAATGATTGTAAG
* * * *
10839104 ATA-TCGTTAAACGTGACAATAAAATCAAACATCACATTATGTTTTATTTTTTTTGTGACGTTAA
129 ATATTC--TAAACATGACAATAAAATCAAACATCACCTTATGCTTTA---TTTTTGTGACGTTAG
*
10839168 TTTTTATTAGC
189 TTTTTATCAGC
* * * *
10839179 TATTTAT-GAAAAATTGTCATTAAAGGCTATAATCGTCACAAAATAAATGACTAACTTTGATATA
1 TATTTATAAAAAAAATGTCATTAAAGGTTATAATCGTCACAAAATAAATGA-TAAATTTGATATA
* * * * *
10839243 TTAGTGACGAAAAGTAAATCATCATAGTATTGATGACATAATTA
65 TTAGTGACGAAAAGTAAATCGTCACAATATTGGTGACACAATTA
10839287 ACATCACTAA
Statistics
Matches: 422, Mismatches: 75, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
199 3 0.01
200 96 0.23
201 158 0.37
202 50 0.12
203 85 0.20
204 3 0.01
205 27 0.06
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (199 bp):
TATTTATAAAAAAAATGTCATTAAAGGTTATAATCGTCACAAAATAAATGATAAATTTGATATAT
TAGTGACGAAAAGTAAATCGTCACAATATTGGTGACACAATTATCGTCACAAATGATTGTAAGAT
ATTCTAAACATGACAATAAAATCAAACATCACCTTATGCTTTATTTTTGTGACGTTAGTTTTTAT
CAGC
Found at i:10845585 original size:48 final size:50
Alignment explanation
Indices: 10845473--10845596 Score: 164
Period size: 48 Copynumber: 2.5 Consensus size: 50
10845463 AAGAATTTCT
*
10845473 AAATAGGCCCAAATGGTGG-AAATTTAGAAATTTTGAAAAAAAATATTTTA
1 AAATTGGCCCAAATGGTGGAAAATTTAGAAA-TTTGAAAAAAAATATTTTA
* *
10845523 AAATTGACCCAAATGGTGGAAAATTTAGAAA-TT-AAAAAAAATATTTTT
1 AAATTGGCCCAAATGGTGGAAAATTTAGAAATTTGAAAAAAAATATTTTA
* *
10845571 AATTTGGCCTAAATGGTGGAATAATT
1 AAATTGGCCCAAATGGTGGAA-AATT
10845597 AAATATATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 32 0.48
49 6 0.09
50 17 0.26
51 11 0.17
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.31
Consensus pattern (50 bp):
AAATTGGCCCAAATGGTGGAAAATTTAGAAATTTGAAAAAAAATATTTTA
Found at i:10849562 original size:18 final size:18
Alignment explanation
Indices: 10849541--10849582 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10849531 ATGAAAGAAG
* *
10849541 AAAAAAATTAAAAAATTA
1 AAAAAAAATAAAAAATGA
*
10849559 AAAAAAAATGAAAAATGA
1 AAAAAAAATAAAAAATGA
10849577 AAAAAA
1 AAAAAA
10849583 CTAGAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAAAAAATAAAAAATGA
Found at i:10849569 original size:35 final size:37
Alignment explanation
Indices: 10849526--10849598 Score: 107
Period size: 35 Copynumber: 2.0 Consensus size: 37
10849516 ATAATATGTG
*
10849526 AAAAAATGAAAGAA-GAAAAAAATTA-AAAA-ATTAAA
1 AAAAAATGAAA-AATGAAAAAAACTAGAAAAGATTAAA
10849561 AAAAAATGAAAAATGAAAAAAACTAGAAAAGATTAAA
1 AAAAAATGAAAAATGAAAAAAACTAGAAAAGATTAAA
10849598 A
1 A
10849599 TGAAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 2 0.06
35 21 0.62
36 4 0.12
37 7 0.21
ACGTcount: A:0.75, C:0.01, G:0.10, T:0.14
Consensus pattern (37 bp):
AAAAAATGAAAAATGAAAAAAACTAGAAAAGATTAAA
Found at i:10849589 original size:18 final size:17
Alignment explanation
Indices: 10849526--10849590 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
10849516 ATAATATGTG
10849526 AAAAAAT-GAAAGAA-GA
1 AAAAAATAGAAA-AATGA
*
10849542 AAAAAATTA-AAAAATTA
1 AAAAAA-TAGAAAAATGA
*
10849559 AAAAAAAATGAAAAATGA
1 AAAAAATA-GAAAAATGA
10849577 AAAAAACTAGAAAA
1 AAAAAA-TAGAAAA
10849591 GATTAAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 9 0.23
17 11 0.28
18 18 0.46
19 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAATAGAAAAATGA
Found at i:10849598 original size:19 final size:17
Alignment explanation
Indices: 10849541--10849598 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
10849531 ATGAAAGAAG
10849541 AAAAAAATTA-AAAAATT
1 AAAAAAA-TAGAAAAATT
* *
10849558 AAAAAAAAATGAAAAATG
1 AAAAAAATA-GAAAAATT
10849576 AAAAAAACTAGAAAAGATT
1 AAAAAAA-TAGAAAA-ATT
10849595 AAAA
1 AAAA
10849599 TGAAAGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.03
17 7 0.21
18 18 0.55
19 7 0.21
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (17 bp):
AAAAAAATAGAAAAATT
Found at i:10849609 original size:35 final size:33
Alignment explanation
Indices: 10849528--10849612 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 33
10849518 AATATGTGAA
*
10849528 AAAATGAAAG--AA-GAAAAAAATTAAAAAATT
1 AAAATGAAAGAAAATGAAAAAAACTAAAAAATT
**
10849558 AAAAAAAAATGAAAAATGAAAAAAACTAGAAAAGATT
1 AAAATGAAA-G-AAAATGAAAAAAACTA-AAAA-ATT
10849595 AAAATGAAAGAAAATGAA
1 AAAATGAAAGAAAATGAA
10849613 GACTCAGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
30 7 0.16
31 1 0.02
34 2 0.05
35 18 0.42
36 5 0.12
37 10 0.23
ACGTcount: A:0.73, C:0.01, G:0.12, T:0.14
Consensus pattern (33 bp):
AAAATGAAAGAAAATGAAAAAAACTAAAAAATT
Found at i:10850936 original size:22 final size:21
Alignment explanation
Indices: 10850911--10850968 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
10850901 GAATCTTTTG
10850911 ATGAGAATTTTTAAGTTCTCAA
1 ATGAGAATTTTTAAGTT-TCAA
* *
10850933 ATGAGAATCTTTGAA-TTTTAA
1 ATGAGAAT-TTTTAAGTTTCAA
*
10850954 ATGAGAATATTTAAG
1 ATGAGAATTTTTAAG
10850969 GTGTGAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.13
21 11 0.37
22 10 0.33
23 5 0.17
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (21 bp):
ATGAGAATTTTTAAGTTTCAA
Found at i:10851017 original size:21 final size:21
Alignment explanation
Indices: 10850988--10851041 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
10850978 CTAAAATTTG
10850988 TCAAATGTGAATCATT-AAATT
1 TCAAATGTGAATC-TTCAAATT
*
10851009 TCGAATGTGAATCTTCAAATT
1 TCAAATGTGAATCTTCAAATT
*
10851030 TCAAATGAGAAT
1 TCAAATGTGAAT
10851042 ATTTGAGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (21 bp):
TCAAATGTGAATCTTCAAATT
Done.