Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 91 of 120
Found at i:27072738 original size:15 final size:15
Alignment explanation
Indices: 27072718--27072749 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27072708 CAAAATAAGC
27072718 TAGTTTAAATATAAT
1 TAGTTTAAATATAAT
27072733 TAGTTTAAATATAAT
1 TAGTTTAAATATAAT
27072748 TA
1 TA
27072750 CATACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TAGTTTAAATATAAT
Found at i:27076792 original size:30 final size:30
Alignment explanation
Indices: 27076733--27076812 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
27076723 ACACAAAGTG
*
27076733 CTTGGAAACTATAA-CACTAGTACATAGTA
1 CTTGGAAACTATAATCACCAGTACATAGTA
* * *
27076762 CTTGGAAACTGTAATCACCGGTATATAGTA
1 CTTGGAAACTATAATCACCAGTACATAGTA
* *
27076792 CCTGGAAACTAAAATCACCAG
1 CTTGGAAACTATAATCACCAG
27076813 CACCTAGTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 13 0.31
30 29 0.69
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (30 bp):
CTTGGAAACTATAATCACCAGTACATAGTA
Found at i:27080378 original size:26 final size:26
Alignment explanation
Indices: 27080334--27080432 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
27080324 TATCATCCTT
* ** *
27080334 ATTTTACCTTTAGCGAAATTTTGACG
1 ATTTTACCCTTAGTAAAATTTTGATG
*
27080360 ATTTTACCCTTGGTAAAATTTTGATG
1 ATTTTACCCTTAGTAAAATTTTGATG
27080386 ATTTTACCCTTAGTAAAATTTTGATG
1 ATTTTACCCTTAGTAAAATTTTGATG
* *
27080412 ATTTTGCCCCTAGTAAAATTT
1 ATTTTACCCTTAGTAAAATTT
27080433 CGAGAAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTAGTAAAATTTTGATG
Found at i:27080592 original size:6 final size:6
Alignment explanation
Indices: 27080581--27080619 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
27080571 GCAAATGAAT
*
27080581 CATTTC CATTTC CATTTC CATTTC CATTTT CATTTC CAT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CAT
27080620 ATCTAGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.31, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:27090638 original size:20 final size:20
Alignment explanation
Indices: 27090604--27090657 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
27090594 TATCTAAATA
*
27090604 TTTAATATTATAATTTTATATT
1 TTTAAT-TTA-AATTTAATATT
27090626 TTTAATTTAAATTTAATATT
1 TTTAATTTAAATTTAATATT
*
27090646 TTTATTTTAAAT
1 TTTAATTTAAAT
27090658 AAATCTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 21 0.70
21 3 0.10
22 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATTTAAATTTAATATT
Found at i:27093878 original size:28 final size:26
Alignment explanation
Indices: 27093841--27093928 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 26
27093831 AATATGAAAA
*
27093841 ATCAAGATTCATCCTTTCATTTCTCATC
1 ATCAAAATTCAT-CTTTCATTT-TCATC
* *
27093869 ATCAAAATTCAT-TTGGTAATTGTTCTTC
1 ATCAAAATTCATCTT--TCATT-TTCATC
27093897 ATC-AAATTCATCTCTTCATTTTCATC
1 ATCAAAATTCATCT-TTCATTTTCATC
27093923 ATCAAA
1 ATCAAA
27093929 GTCTTTTTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
26 10 0.20
27 14 0.29
28 23 0.47
29 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (26 bp):
ATCAAAATTCATCTTTCATTTTCATC
Found at i:27094709 original size:16 final size:16
Alignment explanation
Indices: 27094685--27094715 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27094675 GTTTATTTGC
27094685 ATTTAAAATTTTTTTA
1 ATTTAAAATTTTTTTA
*
27094701 ATTTCAAATTTTTTT
1 ATTTAAAATTTTTTT
27094716 CAATATGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTAAAATTTTTTTA
Found at i:27095663 original size:3 final size:3
Alignment explanation
Indices: 27095657--27095681 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27095647 GACCACCACA
27095657 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
27095682 CGACAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27102010 original size:41 final size:39
Alignment explanation
Indices: 27101942--27102055 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 39
27101932 GAGTTTTTGG
*
27101942 GGTCTTTAGCGGCATTTTCTGAAAAGCGCCGCTAATGCTC
1 GGTCTTTAGCGGCGTTTT-TGAAAAGCGCCGCTAATGCTC
*
27101982 AGGTCTTTAGCGGCGTTTTTGAATAAGCGCTGCTAATGCTC
1 -GGTCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTC
*
27102023 -GTACCTTTAGCGGCGTTTTTGAGGAAGCGCCGC
1 GGT--CTTTAGCGGCGTTTTTGA-AAAGCGCCGC
27102056 AAAAACATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
39 2 0.03
40 4 0.06
41 59 0.91
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (39 bp):
GGTCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
Found at i:27102200 original size:26 final size:26
Alignment explanation
Indices: 27102152--27102202 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
27102142 AAAATGGATA
** * *
27102152 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
27102178 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
27102203 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:27102837 original size:89 final size:89
Alignment explanation
Indices: 27102687--27102890 Score: 365
Period size: 89 Copynumber: 2.3 Consensus size: 89
27102677 NNNNNNNNNN
* * *
27102687 ATTAAATAATGTTTAAGGGTTA-GGGTTAGTGATTTAGGGTCGAGTTAGGGTTTAGGATTTAGAT
1 ATTAAATAATGTTTAGGGGTTAGGGGTTAGTGATTCAGGGTCGACTTAGGGTTTAGGATTTAGAT
27102751 TAATTAGTGTTTTTTAATTTATAT
66 TAATTAGTGTTTTTTAATTTATAT
27102775 ATTAAATAATGTTTAGGGGTTAGGGGTTAGTGATTCAGGGTCGACTTAGGGTTTAGGATTTAGAT
1 ATTAAATAATGTTTAGGGGTTAGGGGTTAGTGATTCAGGGTCGACTTAGGGTTTAGGATTTAGAT
27102840 TAATTAGTGTTTTTTAATTTATAT
66 TAATTAGTGTTTTTTAATTTATAT
*
27102864 ATTAAATAATGTTTAGGGTTTAGGGGT
1 ATTAAATAATGTTTAGGGGTTAGGGGT
27102891 AGGGGTTTGG
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 21 0.19
89 90 0.81
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.44
Consensus pattern (89 bp):
ATTAAATAATGTTTAGGGGTTAGGGGTTAGTGATTCAGGGTCGACTTAGGGTTTAGGATTTAGAT
TAATTAGTGTTTTTTAATTTATAT
Found at i:27103361 original size:2 final size:2
Alignment explanation
Indices: 27103349--27103392 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
27103339 TATTTAAGAG
27103349 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27103390 AT A
1 AT A
27103393 GATCACTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27103686 original size:23 final size:22
Alignment explanation
Indices: 27103639--27103693 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
27103629 TAATTTTATC
27103639 AAAAACTTT--TAAATATTACT
1 AAAAACTTTAATAAATATTACT
* *
27103659 TAAAACTTTAATAATTATTTACT
1 AAAAACTTTAATAAATA-TTACT
*
27103682 AAAAATTTTAAT
1 AAAAACTTTAAT
27103694 GAAAATACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 8 0.29
22 5 0.18
23 15 0.54
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAACTTTAATAAATATTACT
Found at i:27105904 original size:33 final size:33
Alignment explanation
Indices: 27105867--27105929 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
27105857 GATCTTTAAG
**
27105867 TTGGTTATATTTTTTTTGTATAGTTTAATTTTT
1 TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
27105900 TTGGTTATATTTTAGTTGTATAGTTTAATT
1 TTGGTTATATTTTAGTTGTATAGTTTAATT
27105930 ATTATTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (33 bp):
TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
Found at i:27106988 original size:9 final size:9
Alignment explanation
Indices: 27106976--27107806 Score: 190
Period size: 9 Copynumber: 92.1 Consensus size: 9
27106966 TTAAAATAGT
27106976 TAACTTACA
1 TAACTTACA
27106985 TAACTTA-A
1 TAACTTACA
27106993 TGAA-TTA-A
1 T-AACTTACA
* *
27107001 T-ATTATATA
1 TAACT-TACA
27107010 TAACTTACA
1 TAACTTACA
27107019 TAACTTAC-
1 TAACTTACA
27107027 -AACTTACA
1 TAACTTACA
27107035 TAACTTACA
1 TAACTTACA
*
27107044 TTAATATTAAACA
1 -TAA-CTT--ACA
*
27107057 TAAATTACA
1 TAACTTACA
27107066 TAACTTACA
1 TAACTTACA
*
27107075 TTAATATTATACA
1 -T-A-ACT-TACA
*
27107088 TAAATTACA
1 TAACTTACA
27107097 TAACTTA-A
1 TAACTTACA
27107105 TTAA-TTA-A
1 -TAACTTACA
*
27107113 T-ATTATACA
1 TAACT-TACA
*
27107122 TAAATTACA
1 TAACTTACA
27107131 TAACTTA-A
1 TAACTTACA
27107139 TTAA-TTA-A
1 -TAACTTACA
*
27107147 T-ATTATACA
1 TAACT-TACA
*
27107156 TAAATTACA
1 TAACTTACA
27107165 TAACTTACA
1 TAACTTACA
*
27107174 TTAATATTATACA
1 -T-A-ACT-TACA
*
27107187 TAAATTACA
1 TAACTTACA
27107196 TAACTTA-A
1 TAACTTACA
27107204 TTAA-TTA-A
1 -TAACTTACA
*
27107212 T-ATTATACA
1 TAACT-TACA
*
27107221 TAAATTACA
1 TAACTTACA
*
27107230 TAACTTGCA
1 TAACTTACA
*
27107239 TTAATATTATACA
1 -T-A-ACT-TACA
*
27107252 TAAATTACA
1 TAACTTACA
*
27107261 TGACTTA-A
1 TAACTTACA
27107269 TTAA-TTA-A
1 -TAACTTACA
* *
27107277 T-ATTATACC
1 TAACT-TACA
*
27107286 TAAGTTACA
1 TAACTTACA
27107295 TAACTTACA
1 TAACTTACA
*
27107304 TTAATGCAATACA
1 -TAA--C-TTACA
*
27107317 TAAATTACA
1 TAACTTACA
27107326 TAACTTA-A
1 TAACTTACA
27107334 TTAA-TTA-A
1 -TAACTTACA
*
27107342 T-ATTATACA
1 TAACT-TACA
27107351 TAACTTACA
1 TAACTTACA
*
27107360 TAAGTTAC-
1 TAACTTACA
27107368 -AACTTACA
1 TAACTTACA
* *
27107376 CAACTTACTT
1 TAACTTAC-A
***
27107386 TTTTTTA-A
1 TAACTTACA
*
27107394 TTA-TT-CA
1 TAACTTACA
*
27107401 TAAATTACA
1 TAACTTACA
27107410 TAACTTACA
1 TAACTTACA
*
27107419 TTAATGCAATACA
1 -TAA--C-TTACA
*
27107432 TAAATTACA
1 TAACTTACA
27107441 TAACTTA-A
1 TAACTTACA
*
27107449 TTAA-ATA-A
1 -TAACTTACA
*
27107457 T-ATTATACA
1 TAACT-TACA
27107466 TAACTTACA
1 TAACTTACA
27107475 TAACTTAC-
1 TAACTTACA
27107483 -AACTTACA
1 TAACTTACA
*
27107491 TAACTTACTT
1 TAACTTAC-A
***
27107501 TTTTTTA-A
1 TAACTTACA
*
27107509 TTA-TT-CA
1 TAACTTACA
*
27107516 TAAATTACA
1 TAACTTACA
27107525 TAACTTACA
1 TAACTTACA
*
27107534 TTAATGCAATACA
1 -TAA--C-TTACA
*
27107547 TAAATTACA
1 TAACTTACA
27107556 TAACTTA-A
1 TAACTTACA
27107564 TTAA-TTA-A
1 -TAACTTACA
*
27107572 T-ATTATACA
1 TAACT-TACA
27107581 TAACTTACA
1 TAACTTACA
27107590 TAACTTACA
1 TAACTTACA
***
27107599 TTTGTTTA-A
1 -TAACTTACA
*
27107608 TTA-TT-CA
1 TAACTTACA
*
27107615 TAAATTACA
1 TAACTTACA
*
27107624 TAACTTACT
1 TAACTTACA
* *
27107633 TAATTTTCA
1 TAACTTACA
*
27107642 TAA--TAAA
1 TAACTTACA
27107649 TAACTTACA
1 TAACTTACA
27107658 TAACTTACA
1 TAACTTACA
*
27107667 TTAATATTATACA
1 -T-A-ACT-TACA
*
27107680 TAAATTACA
1 TAACTTACA
27107689 TAACTTA-A
1 TAACTTACA
27107697 TTAA-TATACA
1 -TAACT-TACA
*
27107707 TAAATTACA
1 TAACTTACA
27107716 TAACTTACA
1 TAACTTACA
*
27107725 TTAATATTATACA
1 -T-A-ACT-TACA
*
27107738 TAAATTACA
1 TAACTTACA
**
27107747 TAACTTAGT
1 TAACTTACA
27107756 TAA-TT-CA
1 TAACTTACA
*
27107763 T-ATTATACA
1 TAACT-TACA
27107772 TAACTTACA
1 TAACTTACA
27107781 TAACTTAC-
1 TAACTTACA
27107789 -AACTTACA
1 TAACTTACA
27107797 TAACTTACA
1 TAACTTACA
27107806 T
1 T
27107807 TTTTAATTAT
Statistics
Matches: 628, Mismatches: 88, Indels: 212
0.68 0.09 0.23
Matches are distributed among these distances:
6 9 0.01
7 63 0.10
8 74 0.12
9 345 0.55
10 58 0.09
11 15 0.02
12 30 0.05
13 34 0.05
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.39
Consensus pattern (9 bp):
TAACTTACA
Found at i:27107032 original size:16 final size:16
Alignment explanation
Indices: 27107011--27107043 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27107001 TATTATATAT
27107011 AACTTACATAACTTAC
1 AACTTACATAACTTAC
27107027 AACTTACATAACTTAC
1 AACTTACATAACTTAC
27107043 A
1 A
27107044 TTAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:27107065 original size:47 final size:49
Alignment explanation
Indices: 27106977--27107074 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 49
27106967 TAAAATAGTT
* * *
27106977 AACTTACATAACTTAATGAATTAATATTATATATAACTTACATAACTTAC
1 AACTTACATAACTTAA-GAATTAATATTAAACATAAATTACATAACTTAC
*
27107027 AACTTACATAACTT-A-CATTAATATTAAACATAAATTACATAACTTAC
1 AACTTACATAACTTAAGAATTAATATTAAACATAAATTACATAACTTAC
27107074 A
1 A
27107075 TTAATATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 29 0.66
49 1 0.02
50 14 0.32
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (49 bp):
AACTTACATAACTTAAGAATTAATATTAAACATAAATTACATAACTTAC
Found at i:27107123 original size:65 final size:65
Alignment explanation
Indices: 27107043--27107789 Score: 486
Period size: 65 Copynumber: 11.5 Consensus size: 65
27107033 CATAACTTAC
*
27107043 ATTAATATTAAACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
*
27107108 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTT-A
1 ATTAATATTATACATAAATTACATAACTT-A--CATTAATATTATACATAAATTACATAACTTAA
*
27107172 --C
63 TTA
*
27107173 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAAC-T--
1 ATTAATATTATACATAAATTACATAACTT-A--CATTAATATTATACATAAATTACATAACTTAA
**
27107235 TGC
63 TTA
* * * *
27107238 ATTAATATTATACATAAATTACATGACTTAATTAATTAATATTATACCTAAGTTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTT-A--CATTAATATTATACATAAATTACATAACTTA-
27107303 ATTA
62 ATTA
** * * *
27107307 A-T-GCA--ATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATAAGTTAC
1 ATTAATATTATACATAAATTACATAACTT-A--CATTAATATTATACATAAATTACATAACTT--
27107368 AACTTACACA
61 AA-TT----A
* * * * * ***
27107378 ACTTACTTTTTTTTA-ATTATTCATAAATTACATAACTTACATTAATGCAATACATAAATTACAT
1 A-TTA--ATATTATACA-TA--AATT----ACATAACTTACATTAATATTATACATAAATTACAT
27107442 AACTTAATTA
56 AACTTAATTA
* * * * * ***
27107452 AATAATATTATACATAACTTACATAACTTAC----A-ACT-TACATAACTTACTTTTTTTTAATT
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTAC-ATAACTTAATT
27107511 -
65 A
* * * **
27107511 ATTCATA-AATTACATAACTTAC---A-TTA-A-T-GCA--ATACATAAATTACATAACTTAATT
1 ATTAATATTA-TACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATT
27107566 A
65 A
* ** * *
27107567 ATTAATATTATACATAACTTACATAACTTACATTTGTTTAATTATTCATAAATTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTACA-TT-AAT-ATTATACATAAATTACATAACTTAA
27107632 TTA
63 TTA
* * * *
27107635 ATT-TTCATAATAAATAACTTACATAACTTACATTAATATTATACATAAATTACATAAC----TT
1 ATTAAT-ATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATT
27107695 A
65 A
*
27107696 ATT-A-A-TATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
* *
27107758 ATTCATATTATACATAACTTACATAACTTACA
1 ATTAATATTATACATAAATTACATAACTTACA
27107790 ACTTACATAA
Statistics
Matches: 557, Mismatches: 66, Indels: 118
0.75 0.09 0.16
Matches are distributed among these distances:
55 10 0.02
56 30 0.05
57 2 0.00
58 48 0.09
59 30 0.05
60 11 0.02
61 8 0.01
62 6 0.01
63 2 0.00
64 2 0.00
65 252 0.45
66 5 0.01
67 8 0.01
68 80 0.14
69 3 0.01
71 9 0.02
72 1 0.00
73 3 0.01
74 2 0.00
77 1 0.00
78 6 0.01
79 2 0.00
80 2 0.00
81 24 0.04
83 1 0.00
84 9 0.02
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (65 bp):
ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
Found at i:27107132 original size:43 final size:34
Alignment explanation
Indices: 27107043--27107787 Score: 559
Period size: 34 Copynumber: 21.9 Consensus size: 34
27107033 CATAACTTAC
* *
27107043 ATTAATATTAAACATAAATTACATAACTT-A--C
1 ATTAATATTATACATAAATTACATAACTTAATTA
27107074 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
27107108 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
27107142 ATTAATATTATACATAAATTACATAACTT-A--C
1 ATTAATATTATACATAAATTACATAACTTAATTA
27107173 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
**
27107207 ATTAATATTATACATAAATTACATAAC-T--TGC
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
27107238 ATTAATATTATACATAAATTACATGACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* *
27107272 ATTAATATTATACCTAAGTTACATAACTTACATTA
1 ATTAATATTATACATAAATTACATAACTTA-ATTA
**
27107307 A-T-GCA--ATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* *
27107337 ATTAATATTATACATAACTTACATAAGTTACAACTTA
1 ATTAATATTATACATAAATTACATAACTT--AA-TTA
* *** * *
27107374 CA-CAACTTACTT-TTTTTTAATTATTCATAAATTACA-TA
1 -ATTAA--TA-TTATACATAAATTA--CATAACTTA-ATTA
*
27107412 ACTTACATTAATGCAATACATAAATTACATAACTTAATTA
1 A-TTA-A-T-AT--TATACATAAATTACATAACTTAATTA
* *
27107452 AATAATATTATACATAACTTACATAACTTACAACTTA
1 ATTAATATTATACATAAATTACATAACTT--AA-TTA
*** * *
27107489 CA-TAACTTACTT-TTTTTTAATTATTCATAAATTACA-TA
1 -ATTAA--TA-TTATACATAAATTA--CATAACTTA-ATTA
*
27107527 ACTTACATTAATGCAATACATAAATTACATAACTTAATTA
1 A-TTA-A-T-AT--TATACATAAATTACATAACTTAATTA
* *
27107567 ATTAATATTATACATAACTTACATAACTTACATTT
1 ATTAATATTATACATAAATTACATAACTTA-ATTA
* * * *
27107602 GTTTA-ATTATTCATAAATTACATAACTTACTTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* * * * *
27107635 ATT-TTCATAATAAATAACTTACATAACTT-A--C
1 ATTAAT-ATTATACATAAATTACATAACTTAATTA
27107666 ATTAATATTATACATAAATTACATAAC----TTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
27107696 ATT-A-A-TATACATAAATTACATAACTT-A-C-
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
27107724 ATTAATATTATACATAAATTACATAACTTAGTTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* *
27107758 ATTCATATTATACATAACTTACATAACTTA
1 ATTAATATTATACATAAATTACATAACTTA
27107788 CAACTTACAT
Statistics
Matches: 573, Mismatches: 76, Indels: 127
0.74 0.10 0.16
Matches are distributed among these distances:
27 19 0.03
28 4 0.01
29 2 0.00
30 9 0.02
31 146 0.25
32 5 0.01
33 7 0.01
34 245 0.43
35 11 0.02
36 8 0.01
37 15 0.03
38 8 0.01
39 34 0.06
40 32 0.06
41 14 0.02
42 14 0.02
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (34 bp):
ATTAATATTATACATAAATTACATAACTTAATTA
Found at i:27107397 original size:50 final size:50
Alignment explanation
Indices: 27107343--27107533 Score: 157
Period size: 50 Copynumber: 3.5 Consensus size: 50
27107333 ATTAATTAAT
* * *
27107343 ATTATACATAACTTACATAAGTTACAACTTACACAACTTACTTTTTTTTA
1 ATTATACATAAATTACATAACTTACAACTTACATAACTTACTTTTTTTTA
* * * * *
27107393 ATTATTCATAAATTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAAATAA
1 ATTATACATAAATTACATAACTTAC---AA--C-TTACATAACTTAC-T---TT--TT--TTTA
*
27107457 TATTATACATAACTTACATAACTTACAACTTACATAACTTACTTTTTTTTA
1 -ATTATACATAAATTACATAACTTACAACTTACATAACTTACTTTTTTTTA
*
27107508 ATTATTCATAAATTACATAACTTACA
1 ATTATACATAAATTACATAACTTACA
27107534 TTAATGCAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
50 46 0.42
51 2 0.02
53 4 0.04
55 3 0.03
56 10 0.09
57 1 0.01
58 1 0.01
59 11 0.10
60 3 0.03
62 4 0.04
64 2 0.02
65 23 0.21
ACGTcount: A:0.43, C:0.16, G:0.01, T:0.40
Consensus pattern (50 bp):
ATTATACATAAATTACATAACTTACAACTTACATAACTTACTTTTTTTTA
Found at i:27107416 original size:115 final size:115
Alignment explanation
Indices: 27107290--27107598 Score: 591
Period size: 115 Copynumber: 2.7 Consensus size: 115
27107280 TATACCTAAG
27107290 TTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
*
27107355 TTACATAAGTTACAACTTACACAACTTACTTTTTTTTAATTATTCATAAA
66 TTACATAACTTACAACTTACACAACTTACTTTTTTTTAATTATTCATAAA
*
27107405 TTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAAATAATATTATACATAAC
1 TTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
*
27107470 TTACATAACTTACAACTTACATAACTTACTTTTTTTTAATTATTCATAAA
66 TTACATAACTTACAACTTACACAACTTACTTTTTTTTAATTATTCATAAA
27107520 TTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
27107585 TTACATAACTTACA
66 TTACATAACTTACA
27107599 TTTGTTTAAT
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 190 1.00
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.39
Consensus pattern (115 bp):
TTACATAACTTACATTAATGCAATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
TTACATAACTTACAACTTACACAACTTACTTTTTTTTAATTATTCATAAA
Found at i:27107421 original size:25 final size:25
Alignment explanation
Indices: 27107393--27107498 Score: 58
Period size: 25 Copynumber: 4.0 Consensus size: 25
27107383 CTTTTTTTTA
27107393 ATTATTCATAAATTACATAACTTAC
1 ATTATTCATAAATTACATAACTTAC
27107418 ATTAATGCAATACATAAATTACATAACTTA-
1 ATT-AT----T-CATAAATTACATAACTTAC
*
27107448 ATTA--AATAATATTATACATAACTTAC
1 ATTATTCATAA-A-T-TACATAACTTAC
* * *
27107474 ATAACTT-ACAACTTACATAACTTAC
1 ATTA-TTCATAAATTACATAACTTAC
27107499 TTTTTTTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 26
0.68 0.04 0.28
Matches are distributed among these distances:
22 4 0.06
23 1 0.02
24 1 0.02
25 26 0.41
26 6 0.09
28 3 0.05
29 1 0.02
30 4 0.06
31 18 0.28
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (25 bp):
ATTATTCATAAATTACATAACTTAC
Found at i:27107488 original size:16 final size:16
Alignment explanation
Indices: 27107467--27107498 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27107457 TATTATACAT
27107467 AACTTACATAACTTAC
1 AACTTACATAACTTAC
27107483 AACTTACATAACTTAC
1 AACTTACATAACTTAC
27107499 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:27107656 original size:25 final size:28
Alignment explanation
Indices: 27107505--27107570 Score: 60
Period size: 31 Copynumber: 2.2 Consensus size: 28
27107495 TTACTTTTTT
*
27107505 TTAATTATTCATAAATTACATAACTTAC
1 TTAATTATTCATAAATTAAATAACTTAC
* * * *
27107533 ATTAATGCAATACATAAATTACATAACTTAA
1 -TTAAT--TATTCATAAATTAAATAACTTAC
27107564 TTAATTA
1 TTAATTA
27107571 ATATTATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 5 0.16
30 5 0.16
31 20 0.65
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAATTATTCATAAATTAAATAACTTAC
Found at i:27107794 original size:16 final size:16
Alignment explanation
Indices: 27107773--27107805 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27107763 TATTATACAT
27107773 AACTTACATAACTTAC
1 AACTTACATAACTTAC
27107789 AACTTACATAACTTAC
1 AACTTACATAACTTAC
27107805 A
1 A
27107806 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:27111242 original size:66 final size:65
Alignment explanation
Indices: 27111135--27111300 Score: 226
Period size: 66 Copynumber: 2.5 Consensus size: 65
27111125 GAGCAAATTA
* * * *
27111135 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
27111199 G
65 G
*
27111200 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
27111265 G
65 G
* * *
27111266 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGC
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGC
27111301 AAAGGCGGCA
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.02
66 84 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:27111332 original size:21 final size:21
Alignment explanation
Indices: 27111303--27111388 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
27111293 AGAGAAGCAA
* * *
27111303 AGGCGGCAGCGAGAGAAGTAC
1 AGGCTGCAGCGAGGGAAGTAG
* *
27111324 AAGCTGCAGCGAGGGAAGCAG
1 AGGCTGCAGCGAGGGAAGTAG
**
27111345 AGGCTATAGCGAGGGAAGTAG
1 AGGCTGCAGCGAGGGAAGTAG
*
27111366 AGGCTGCAGCGAGGGAAGCAG
1 AGGCTGCAGCGAGGGAAGTAG
27111387 AG
1 AG
27111389 CAGCGTCAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.33, C:0.16, G:0.44, T:0.07
Consensus pattern (21 bp):
AGGCTGCAGCGAGGGAAGTAG
Found at i:27111333 original size:42 final size:42
Alignment explanation
Indices: 27111287--27111385 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 42
27111277 AGCAGATGCG
* * *
27111287 GCAGCAAGAGAAGCAAAGGCGGCAGCGAGAGAAGTACAAGCT
1 GCAGCGAGGGAAGCAAAGGCGACAGCGAGAGAAGTACAAGCT
* * * * * *
27111329 GCAGCGAGGGAAGCAGAGGCTATAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGCAAAGGCGACAGCGAGAGAAGTACAAGCT
27111371 GCAGCGAGGGAAGCA
1 GCAGCGAGGGAAGCA
27111386 GAGCAGCGTC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.41, T:0.06
Consensus pattern (42 bp):
GCAGCGAGGGAAGCAAAGGCGACAGCGAGAGAAGTACAAGCT
Found at i:27111851 original size:44 final size:43
Alignment explanation
Indices: 27111720--27111855 Score: 164
Period size: 43 Copynumber: 3.1 Consensus size: 43
27111710 AGGTGTTGGC
* * * * * *
27111720 CTTTAGTGGCATTTTTGGTAAAAGCGCCGCTAAATATAAGGGT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGT
* * *
27111763 CTTTAGCGGCGTTTGTGGAAAAAGTGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGT
* *
27111806 CTTTAGCGGCGTTTGTGGGGAAAAGCGCCGCTAGAGATCAGGGT
1 CTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGATCAGGGT
27111850 CTTTAG
1 CTTTAG
27111856 AGGTGCTTCC
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 50 0.64
44 28 0.36
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGT
Found at i:27112052 original size:31 final size:31
Alignment explanation
Indices: 27112017--27112088 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
27112007 CTTTTCAAAG
*
27112017 CGCCGCTAAAAGTATTTGCGGCGCTAAAAAA
1 CGCCGCTAAAAGTATTTGCGGCACTAAAAAA
*
27112048 CGCCGCTAAAAGTATTTGCGGCACTAAAAAG
1 CGCCGCTAAAAGTATTTGCGGCACTAAAAAA
27112079 CGCCGCTAAA
1 CGCCGCTAAA
27112089 GGCCTAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (31 bp):
CGCCGCTAAAAGTATTTGCGGCACTAAAAAA
Found at i:27112101 original size:22 final size:22
Alignment explanation
Indices: 27112073--27112116 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
27112063 TTGCGGCACT
27112073 AAAAAGCGCCGC-TAAAGGCCTA
1 AAAAAGCGCCGCTTAAA-GCCTA
27112095 AAAAAGCGCCGCTTAAAGCCTA
1 AAAAAGCGCCGCTTAAAGCCTA
27112117 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.41, C:0.27, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTTAAAGCCTA
Found at i:27115376 original size:9 final size:9
Alignment explanation
Indices: 27115362--27115392 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27115352 GTTAAACGAA
27115362 TCGAGTTAT
1 TCGAGTTAT
*
27115371 TCGAGTTAA
1 TCGAGTTAT
27115380 TCGAGTTAT
1 TCGAGTTAT
27115389 TCGA
1 TCGA
27115393 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:27115462 original size:9 final size:9
Alignment explanation
Indices: 27115445--27115481 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27115435 TGAGTTTTCG
27115445 AATTCGAAT
1 AATTCGAAT
*
27115454 AACTCGAAT
1 AATTCGAAT
27115463 AATTCGAAT
1 AATTCGAAT
27115472 AATTCGAAT
1 AATTCGAAT
27115481 A
1 A
27115482 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:27121606 original size:5 final size:5
Alignment explanation
Indices: 27121596--27121627 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
27121586 TCTTGTAAAT
27121596 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG AT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG AT
27121628 GTAATCTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (5 bp):
ATTTG
Found at i:27124479 original size:51 final size:52
Alignment explanation
Indices: 27124407--27124593 Score: 207
Period size: 53 Copynumber: 3.5 Consensus size: 52
27124397 AAATTTTTTT
* * *
27124407 TTGGGTGTTGGCACACTAATGGCCGGCACCCTTGTACCAGATTTTAAAAAAA
1 TTGGGTGCTGGGACACTAATGGCCGGCACCCTTGTACCAGATTTAAAAAAAA
* *
27124459 TT-GGTGCTGGGACACTAATGGCCGACATCCTTGTACCAGAATTTAAAAAAAA
1 TTGGGTGCTGGGACACTAATGGCCGGCACCCTTGTACCAG-ATTTAAAAAAAA
* * * * * *
27124511 TTAGATGCTGGGACACTGATAGCCGGCACTCTTGTATCAGATTTAAAAAAAAA
1 TTGGGTGCTGGGACACTAATGGCCGGCACCCTTGTACCAGATTT-AAAAAAAA
*
27124564 TTTGGGGTG-TCGAGACACTAATGGCCGGCA
1 -TT-GGGTGCT-GGGACACTAATGGCCGGCA
27124594 ACCACTTAGT
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
51 33 0.29
52 19 0.17
53 38 0.34
54 3 0.03
55 19 0.17
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (52 bp):
TTGGGTGCTGGGACACTAATGGCCGGCACCCTTGTACCAGATTTAAAAAAAA
Found at i:27127349 original size:22 final size:22
Alignment explanation
Indices: 27127324--27127374 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
27127314 TAGTGGTCAA
27127324 CGGTGGTCGGCGA-TGGAACTTG
1 CGGTGGTCGG-GAGTGGAACTTG
* * *
27127346 CGGTGGTTGGTAGTGGAATTTG
1 CGGTGGTCGGGAGTGGAACTTG
27127368 CGGTGGT
1 CGGTGGT
27127375 GAGACAACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.12, C:0.12, G:0.47, T:0.29
Consensus pattern (22 bp):
CGGTGGTCGGGAGTGGAACTTG
Found at i:27127832 original size:28 final size:29
Alignment explanation
Indices: 27127808--27127868 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
27127798 CATTTTTATT
27127808 TTTTATTAC-TTTATTT-ATTTATTTTAAC
1 TTTTA-TACTTTTATTTAATTTATTTTAAC
*
27127836 TTTTATACTTTTATTTAATTTAATTTACAC
1 TTTTATACTTTTATTTAATTTATTTTA-AC
27127866 TTT
1 TTT
27127869 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 3 0.10
28 12 0.41
29 9 0.31
30 5 0.17
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTATACTTTTATTTAATTTATTTTAAC
Found at i:27127869 original size:29 final size:27
Alignment explanation
Indices: 27127808--27127882 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 27
27127798 CATTTTTATT
*
27127808 TTTTATTACTTTATTTATTTATTTTAAC
1 TTTTA-TACTTTATTTATTTAATTTAAC
27127836 TTTTATAC--T-TTTATTTAATTTAA-
1 TTTTATACTTTATTTATTTAATTTAAC
* *
27127859 -TTTACACTTTATTTATTTATTTTA
1 TTTTATACTTTATTTATTTAATTTA
27127883 CTCTATTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 6 0.15
24 14 0.34
25 13 0.32
27 3 0.07
28 5 0.12
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTATACTTTATTTATTTAATTTAAC
Found at i:27131026 original size:54 final size:54
Alignment explanation
Indices: 27130860--27131029 Score: 135
Period size: 56 Copynumber: 3.1 Consensus size: 54
27130850 CCCTAACCAA
* * * *
27130860 AAAATTTTTT-TTGTATCTGATAAAGTGGGTGTCGGCCATCTATGTGCTAGCACCC
1 AAAATTTTTTATT-T-TCTGGTAAAGTGGGTGTTGGCCATCTATGTGCCAGAACCC
* * * * * * * * * * **
27130915 AAAAATATTATATTTTTTTGTAATAATATGGTGTTGGCAATCAAAGTCCCCCAACCC
1 -AAAATTTTTTATTTTCTGGTAA-AGT-GGGTGTTGGCCATCTATGTGCCAGAACCC
*
27130972 AAAATTTTTTATTTTCTGGTAAAGTGGGTGTTGGCCATCTATGTGCCAGTACCC
1 AAAATTTTTTATTTTCTGGTAAAGTGGGTGTTGGCCATCTATGTGCCAGAACCC
27131026 AAAA
1 AAAA
27131030 AAAAAATTTT
Statistics
Matches: 82, Mismatches: 29, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
54 25 0.30
55 7 0.09
56 29 0.35
57 21 0.26
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (54 bp):
AAAATTTTTTATTTTCTGGTAAAGTGGGTGTTGGCCATCTATGTGCCAGAACCC
Found at i:27132907 original size:9 final size:9
Alignment explanation
Indices: 27132893--27132923 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27132883 GTTAAACGAA
27132893 TCGAGTTAT
1 TCGAGTTAT
*
27132902 TCGAGTTAA
1 TCGAGTTAT
27132911 TCGAGTTAT
1 TCGAGTTAT
27132920 TCGA
1 TCGA
27132924 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:27133003 original size:9 final size:9
Alignment explanation
Indices: 27132976--27133021 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
27132966 TGAGTTTTCG
*
27132976 AATTTGAAT
1 AATTCGAAT
27132985 AACTTC-AAT
1 AA-TTCGAAT
27132994 AATTCGAAT
1 AATTCGAAT
27133003 AATTCGAAT
1 AATTCGAAT
27133012 AATTCGAAT
1 AATTCGAAT
27133021 A
1 A
27133022 TCAAACTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
8 3 0.09
9 29 0.85
10 2 0.06
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (9 bp):
AATTCGAAT
Found at i:27136374 original size:19 final size:19
Alignment explanation
Indices: 27136346--27136385 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27136336 TTATTCATAA
27136346 AATTAGATAATAAAAATAT
1 AATTAGATAATAAAAATAT
* *
27136365 AATTATATAATATAAATAT
1 AATTAGATAATAAAAATAT
27136384 AA
1 AA
27136386 ATTTTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AATTAGATAATAAAAATAT
Found at i:27137647 original size:8 final size:9
Alignment explanation
Indices: 27137624--27137666 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
27137614 TACGTTTTTT
27137624 TATTTTTAA
1 TATTTTTAA
27137633 TAATTTTTAA
1 T-ATTTTTAA
27137643 T-TTTTTAA
1 TATTTTTAA
27137651 TAGTTTTATAA
1 TA-TTTT-TAA
27137662 TATTT
1 TATTT
27137667 GAAACCACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.27
9 1 0.03
10 16 0.53
11 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TATTTTTAA
Found at i:27137647 original size:18 final size:19
Alignment explanation
Indices: 27137626--27137662 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
27137616 CGTTTTTTTA
27137626 TTTTTAATAATTTT-TAAT
1 TTTTTAATAATTTTATAAT
*
27137644 TTTTTAATAGTTTTATAAT
1 TTTTTAATAATTTTATAAT
27137663 ATTTGAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTAATAATTTTATAAT
Found at i:27141858 original size:34 final size:34
Alignment explanation
Indices: 27141814--27141879 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 34
27141804 CAGTAAAATA
27141814 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACT-GAAAATATTTTAC
*
27141848 TTTTCTGTAAAATGATTTACTGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAATATTTT
27141880 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTACTGAAAATATTTTAC
Found at i:27148078 original size:2 final size:2
Alignment explanation
Indices: 27148066--27148100 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
27148056 TACCAACATG
*
27148066 TA TA CA 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 TA T
27148101 TCAATTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27154989 original size:2 final size:2
Alignment explanation
Indices: 27154982--27155015 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
27154972 CTGTTTCTTT
* *
27154982 TC TC TC TC CC TC TC AC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27155016 GGGATTGGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.53, G:0.00, T:0.44
Consensus pattern (2 bp):
TC
Found at i:27156593 original size:2 final size:2
Alignment explanation
Indices: 27156588--27156642 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
27156578 ATATACATAT
27156588 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
27156630 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
27156643 TATATATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:27156647 original size:2 final size:2
Alignment explanation
Indices: 27156642--27156666 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27156632 ACACACACAC
27156642 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27156667 CACACACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27156701 original size:2 final size:2
Alignment explanation
Indices: 27156696--27156753 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
27156686 TCACTCACAC
27156696 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27156738 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
27156754 ATTGATGGAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27167618 original size:19 final size:20
Alignment explanation
Indices: 27167594--27167637 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27167584 TTTCTACTTC
*
27167594 TTCTTCTC-GTATGTTTCTT
1 TTCTTCTCTGTACGTTTCTT
*
27167613 TTCTTCTCTTTACGTTTCTT
1 TTCTTCTCTGTACGTTTCTT
27167633 TTCTT
1 TTCTT
27167638 TTCTTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.05, C:0.23, G:0.07, T:0.66
Consensus pattern (20 bp):
TTCTTCTCTGTACGTTTCTT
Found at i:27168160 original size:25 final size:25
Alignment explanation
Indices: 27168132--27168192 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
27168122 GTGTTATAAT
* *
27168132 GTTCATGTTTTGGTTTCTGTATTAG
1 GTTCATGTTTTGGTTTCAGTATTAA
27168157 GTTCATGTTTTGGTTTCAGTATTAA
1 GTTCATGTTTTGGTTTCAGTATTAA
*
27168182 GTTGATGTTTT
1 GTTCATGTTTT
27168193 CCATTTGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.15, C:0.07, G:0.23, T:0.56
Consensus pattern (25 bp):
GTTCATGTTTTGGTTTCAGTATTAA
Found at i:27168174 original size:13 final size:13
Alignment explanation
Indices: 27168133--27168174 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
27168123 TGTTATAATG
27168133 TTCATGTTTTGGT
1 TTCATGTTTTGGT
*
27168146 TTC-TGTATTAGG-
1 TTCATGT-TTTGGT
27168158 TTCATGTTTTGGT
1 TTCATGTTTTGGT
27168171 TTCA
1 TTCA
27168175 GTATTAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.12, C:0.10, G:0.21, T:0.57
Consensus pattern (13 bp):
TTCATGTTTTGGT
Found at i:27169797 original size:29 final size:32
Alignment explanation
Indices: 27169757--27169816 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 32
27169747 TCTTTGCTTC
*
27169757 TTTCTTTAATTT-GGCCC-AATTAT-TTCCTT
1 TTTCTTTAATTTAGCCCCAAATTATATTCCTT
27169786 TTTCTTCT-ATTTAGCCCCAAATTATATTCCT
1 TTTCTT-TAATTTAGCCCCAAATTATATTCCT
27169817 GCACAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 10 0.38
30 5 0.19
31 6 0.23
32 5 0.19
ACGTcount: A:0.20, C:0.23, G:0.05, T:0.52
Consensus pattern (32 bp):
TTTCTTTAATTTAGCCCCAAATTATATTCCTT
Found at i:27177945 original size:31 final size:32
Alignment explanation
Indices: 27177886--27177950 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
27177876 GGCAAATTAC
27177886 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27177918 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27177949 AA
1 AA
27177951 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:27181262 original size:18 final size:18
Alignment explanation
Indices: 27181220--27181262 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
27181210 TTTCGAAAAA
27181220 TATTTTTTTTGTTCAAAT
1 TATTTTTTTTGTTCAAAT
* * *
27181238 AATTTTTTTTTGTTTAAGT
1 TA-TTTTTTTTGTTCAAAT
27181257 TATTTT
1 TATTTT
27181263 ATTCCACTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (18 bp):
TATTTTTTTTGTTCAAAT
Found at i:27186875 original size:41 final size:41
Alignment explanation
Indices: 27186818--27186926 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 41
27186808 GACTATACGT
*
27186818 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
27186859 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* * *
27186900 CTAGCTGGCCAAGTGCTGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
27186927 TTAAATTAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 57 0.92
42 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:27188031 original size:16 final size:15
Alignment explanation
Indices: 27187998--27188030 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
27187988 TAACTCATCA
27187998 TTTAATTTTAATATT
1 TTTAATTTTAATATT
27188013 TTTAACTTTTAAT-TT
1 TTTAA-TTTTAATATT
27188028 TTT
1 TTT
27188031 TTTCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATTTTAATATT
Found at i:27193942 original size:91 final size:91
Alignment explanation
Indices: 27193817--27194024 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
27193807 TTGATTTTAG
*
27193817 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
27193882 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATATTAATTATTTTAAATTATA
*
27193909 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
27193974 TGTAATATTTATTATTTTAAATTATA
66 TGTAATATTAATTATTTTAAATTATA
* * * *
27194000 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
27194025 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:27193944 original size:44 final size:44
Alignment explanation
Indices: 27193817--27193955 Score: 122
Period size: 47 Copynumber: 3.0 Consensus size: 44
27193807 TTGATTTTAG
*
27193817 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTA
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTA-GAAATTA
* * * ** *
27193863 TATA-TCATTATTAA-ATTATATTTAATATTAATTATTTTA-AATTGTA
1 TAAATTCA-TA-TAAGA--AAATTTATTATTAAGAATTTTAGAAAT-TA
27193909 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTA-GAAATTA
27193954 TA
1 TA
27193956 TATTATTATT
Statistics
Matches: 71, Mismatches: 13, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
44 18 0.25
45 13 0.18
46 17 0.24
47 22 0.31
48 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (44 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTAGAAATTA
Found at i:27193986 original size:27 final size:28
Alignment explanation
Indices: 27193928--27193999 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
27193918 ATAAGAAAAT
*
27193928 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATTATATA
* *
27193958 TTATTATTAAATTATATGTAA-TATTTA
1 TTATTATTAAATTATATGAAATTATATA
27193985 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
27194000 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 10 0.26
28 10 0.26
29 1 0.03
30 8 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATTATATA
Found at i:27193991 original size:47 final size:47
Alignment explanation
Indices: 27193849--27193992 Score: 138
Period size: 47 Copynumber: 3.1 Consensus size: 47
27193839 ATTATTAAGA
*
27193849 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
* * * **
27193896 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTATTAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATATTAATT
* * *
27193940 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATATTTATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
27193987 ATTTTA
1 ATTTTA
27193993 AATTATACAA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.32
45 8 0.11
46 8 0.11
47 28 0.38
48 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
Found at i:27193999 original size:44 final size:43
Alignment explanation
Indices: 27193857--27193999 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
27193847 GAATTTTATG
*
27193857 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATATTAATTATTTT
* ** * ** *
27193901 AAATTGTATAAATTCATATAAGAAAATT-TATTATTAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAATATTAATTATT-TT
*
27193948 AAATTATATATTATTATTAAATTATATGTAATATTTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATATTAATTATTTT
27193992 AAATTATA
1 AAATTATA
27194000 CAAATTCATA
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 10 0.14
46 9 0.12
47 15 0.20
48 3 0.04
49 6 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATATTAATTATTTT
Found at i:27194721 original size:45 final size:44
Alignment explanation
Indices: 27194632--27194726 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
27194622 TTACACCTCT
*
27194632 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
27194676 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
27194721 ATTACA
1 ATTACA
27194727 CCTCTATTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:27194726 original size:16 final size:16
Alignment explanation
Indices: 27194705--27194774 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
27194695 TTGATTTGCT
*
27194705 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
27194721 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
27194737 ATTACACATCTAATCC
1 ATTACACCTCTAATCC
*
27194753 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
27194769 AATACA
1 ATTACA
27194775 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:27195596 original size:60 final size:61
Alignment explanation
Indices: 27195479--27195608 Score: 244
Period size: 60 Copynumber: 2.1 Consensus size: 61
27195469 ATCTAGTAGA
27195479 CAAGTTCAGATACCAAAGTGAACGAAAAAAAAAGTACAGGTACCAAAGTGGACTTAGTTGC
1 CAAGTTCAGATACCAAAGTGAACGAAAAAAAAAGTACAGGTACCAAAGTGGACTTAGTTGC
*
27195540 CAAGTTCAGATACCAAAGTGAACG-AAAAAAAAGTATAGGTACCAAAGTGGACTTAGTTGC
1 CAAGTTCAGATACCAAAGTGAACGAAAAAAAAAGTACAGGTACCAAAGTGGACTTAGTTGC
27195600 CAAGTTCAG
1 CAAGTTCAG
27195609 GGGCTAAAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
60 44 0.65
61 24 0.35
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (61 bp):
CAAGTTCAGATACCAAAGTGAACGAAAAAAAAAGTACAGGTACCAAAGTGGACTTAGTTGC
Found at i:27197336 original size:95 final size:96
Alignment explanation
Indices: 27197173--27197365 Score: 327
Period size: 95 Copynumber: 2.0 Consensus size: 96
27197163 AATATAATGC
*
27197173 TTAGACCCAACCCACACCCTACCCGGTCCATCAACATCTCATAATAATACAGTCACTGAAAGGTG
1 TTAGACCCAACCCACACCCGACCCGGTCCATCAACATCTCATAATAATACAGTCACTGAAAGGTG
*
27197238 AAATGTTGTGATAGTGCTTGGAC-TTTTCTT
66 AAATGTTGTGATAATGCTTGGACTTTTTCTT
* *
27197268 TTAGACCCAGCCCACACCCGACCCGGTCCATCAACATCTCATAATAATATAGTCACTGATAA-GT
1 TTAGACCCAACCCACACCCGACCCGGTCCATCAACATCTCATAATAATACAGTCACTGA-AAGGT
27197332 GAAATGTTGTGATAATGCTTGGACTTTTTCTT
65 GAAATGTTGTGATAATGCTTGGACTTTTTCTT
27197364 TT
1 TT
27197366 TCTTTTATAG
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
95 81 0.88
96 11 0.12
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (96 bp):
TTAGACCCAACCCACACCCGACCCGGTCCATCAACATCTCATAATAATACAGTCACTGAAAGGTG
AAATGTTGTGATAATGCTTGGACTTTTTCTT
Found at i:27199285 original size:18 final size:18
Alignment explanation
Indices: 27199258--27199293 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27199248 TTGCTATACT
* *
27199258 TTTATTTTTTTTGAGCAA
1 TTTATATTTTTCGAGCAA
27199276 TTTATATTTTTCGAGCAA
1 TTTATATTTTTCGAGCAA
27199294 GGCGAGCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (18 bp):
TTTATATTTTTCGAGCAA
Found at i:27200874 original size:14 final size:15
Alignment explanation
Indices: 27200847--27200888 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
27200837 CATGCAAGCC
*
27200847 TATTAATTATAATT-
1 TATTAATTAAAATTA
*
27200861 TATTAAATAAAATTA
1 TATTAATTAAAATTA
*
27200876 TCTTAATTAAAAT
1 TATTAATTAAAAT
27200889 ATTTAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATTAAAATTA
Found at i:27214802 original size:17 final size:15
Alignment explanation
Indices: 27214780--27214815 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
27214770 ATAATAATTT
27214780 AAAATTCAAAAATTCAA
1 AAAATTC-AAAATT-AA
27214797 AAAATTCAAAATTAA
1 AAAATTCAAAATTAA
27214812 AAAA
1 AAAA
27214816 AATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATTCAAAATTAA
Found at i:27214818 original size:17 final size:17
Alignment explanation
Indices: 27214780--27214816 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
27214770 ATAATAATTT
*
27214780 AAAATTCAAAAATTCAA
1 AAAATTCAAAAATTAAA
27214797 AAAATTC-AAAATTAAA
1 AAAATTCAAAAATTAAA
27214813 AAAA
1 AAAA
27214817 ATATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATTCAAAAATTAAA
Found at i:27221198 original size:10 final size:10
Alignment explanation
Indices: 27221173--27221218 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
27221163 ACTGGAAAAA
27221173 TTTAAAAATT
1 TTTAAAAATT
27221183 CTTTAAAAATT
1 -TTTAAAAATT
*
27221194 GTTAAAAATT
1 TTTAAAAATT
* *
27221204 ATTAAGAATT
1 TTTAAAAATT
27221214 TTTAA
1 TTTAA
27221219 TTTCTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 21 0.68
11 10 0.32
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (10 bp):
TTTAAAAATT
Found at i:27221740 original size:21 final size:19
Alignment explanation
Indices: 27221705--27221748 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
27221695 CAAAACAAAA
*
27221705 TTTTAAATTTTTTTACTAAT
1 TTTTAAATTTATTTA-TAAT
*
27221725 TTTTATAATTTATTTATAGT
1 TTTTA-AATTTATTTATAAT
27221745 TTTT
1 TTTT
27221749 GCAGGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAAATTTATTTATAAT
Found at i:27233158 original size:13 final size:13
Alignment explanation
Indices: 27233140--27233164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27233130 TGTCCTACTG
27233140 AGTTTTTTTGATA
1 AGTTTTTTTGATA
27233153 AGTTTTTTTGAT
1 AGTTTTTTTGAT
27233165 GAGGTAGCAT
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:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
AGTTTTTTTGATA
Found at i:27237102 original size:15 final size:15
Alignment explanation
Indices: 27237084--27237132 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 15
27237074 CTATAAAACC
27237084 TTTATTATTAAAATA
1 TTTATTATTAAAATA
*
27237099 TTTATAATTGTAATAAATA
1 TTTATTA-T-T-A-AAATA
27237118 TTTATTATTAAAATA
1 TTTATTATTAAAATA
27237133 ATATTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
17 2 0.07
18 2 0.07
19 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTTATTATTAAAATA
Found at i:27237132 original size:19 final size:19
Alignment explanation
Indices: 27237094--27237137 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
27237084 TTTATTATTA
**
27237094 AAATATTTATAATTGTAAT
1 AAATATTTATAATTAAAAT
*
27237113 AAATATTTATTATTAAAAT
1 AAATATTTATAATTAAAAT
27237132 -AATATT
1 AAATATT
27237138 AAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATATTTATAATTAAAAT
Found at i:27241821 original size:18 final size:17
Alignment explanation
Indices: 27241772--27241822 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
27241762 ATTTAAAATG
*
27241772 AAAAATTATAAAATATTT
1 AAAAAATATAAAA-ATTT
*
27241790 AAAAAAT-TATAAATTT
1 AAAAAATATAAAAATTT
*
27241806 ATAAAACTATAAAAATT
1 A-AAAAATATAAAAATT
27241823 CAAGAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 13 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAATATAAAAATTT
Found at i:27242132 original size:4 final size:4
Alignment explanation
Indices: 27242125--27242154 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
27242115 AAAAAGTACA
27242125 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
27242155 TAACCTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:27244134 original size:125 final size:123
Alignment explanation
Indices: 27243949--27244299 Score: 540
Period size: 125 Copynumber: 2.8 Consensus size: 123
27243939 TAATTTCGAG
* *
27243949 TTGACATTTCTGATCAAATAGTATAAAATCGCTTCTAACAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
27244014 AAATCGCGCCCTCGTGGATGCACTTTAGCTACAGTAGGTCATGGAAGAAATAATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAA--TTTTT
* * *
27244074 TTGACATTTCTGAGAAAATAGTATAAAATCGCTTCTAGTAGGATGCTATTTGAGAAGAATTTGTA
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
27244139 AAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTCGGTCATGGAAGAAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
* * *
27244197 TTGACGTTTTTGAGCAAATAGTATAAAATCGTTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
27244262 AAAATCACGCCCTTGTGGACGCGCTTTTGCTACAGTAG
66 -AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
27244300 CATGTTTGGG
Statistics
Matches: 205, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
123 64 0.31
124 33 0.16
125 108 0.53
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (123 bp):
TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
Found at i:27247373 original size:54 final size:54
Alignment explanation
Indices: 27247312--27247493 Score: 152
Period size: 54 Copynumber: 3.2 Consensus size: 54
27247302 TAAGTTCGTG
*
27247312 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATA
* *** ** ** * * * *
27247366 AAATTATTAATTGTTAGTACCAGTCA--AAACATTTTTCTAAATCTAACATTATGTGAATGTA
1 AAATTATTAATTGATA--AATTGT-ATTAATGATTAGT-AAAAT-TATCA-AAT-T--ATATA
27247427 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATA
27247481 AAATTATTAATTG
1 AAATTATTAATTG
27247494 TTAGTACCAG
Statistics
Matches: 92, Mismatches: 25, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
54 32 0.35
55 5 0.05
56 8 0.09
57 7 0.08
58 7 0.08
59 8 0.09
60 6 0.07
61 19 0.21
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (54 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATA
Found at i:27247492 original size:17 final size:17
Alignment explanation
Indices: 27247425--27247492 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
27247415 TATGTGAATG
*
27247425 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
27247441 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
27247460 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
27247479 TAAAATTATTAATT
1 TAAAATTATTAATT
27247493 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:27247612 original size:46 final size:46
Alignment explanation
Indices: 27247549--27248133 Score: 440
Period size: 45 Copynumber: 13.1 Consensus size: 46
27247539 AGTAAAATTA
*
27247549 TTAATTTAGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
1 TTAA-TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
* ***
27247596 TTAATTAGGTTAGGGTTTTTAATTTAAGGGGGTTAGGG---TT--T
1 TTAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
* * * *
27247637 TT-A--AGTTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
*** * *** *
27247680 TTAAGGGGGTTAGGGTTTTTAAGTT-TAGGGGGTTAGGATTTTTAAGT
1 TTAATTAGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAA-T
* * ** *
27247727 TT-A-GAGTTTAAAGATTTTAATTAAATTAGGTTAGGGTTTTTAAGT
1 TTAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-T
* *
27247772 TT-A--GGGTTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAG
1 TTAATTAGG-TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAT
*** *
27247816 TTAAAGGGGTTAGGGTTTTTAAGTT---TAAGGTTTAGGGTTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAA-TTAAATTAGG-TTAGGG-TTTTTAAT
* *
27247862 TTAATTAGGTTAGGG-TTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
* *
27247907 TT-A--GGGTTTAGGG-TTTTAATTAAATTAGGTTAGAGTTTTTAA-
1 TTAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
* *
27247949 GT--TTAGGTTTAGGGTTTTTAATTAAATTAGGTTGGGGTTTTTAAT
1 TTAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
* * *
27247994 TAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
* ***
27248039 TTAATTAGGTTAGGGTTTTAAAGTT-AAGGGGGTTAGGGTTTTTAAGT
1 TTAATTAGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAA-T
* *
27248086 TT-A--GGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
27248130 TTAA
1 TTAA
27248134 GGGTATTAAT
Statistics
Matches: 439, Mismatches: 65, Indels: 70
0.76 0.11 0.12
Matches are distributed among these distances:
38 27 0.06
40 1 0.00
41 5 0.01
42 3 0.01
43 46 0.10
44 47 0.11
45 149 0.34
46 139 0.32
47 22 0.05
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (46 bp):
TTAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
Found at i:27247621 original size:28 final size:23
Alignment explanation
Indices: 27247548--27248130 Score: 344
Period size: 23 Copynumber: 26.1 Consensus size: 23
27247538 AAGTAAAATT
* *
27247548 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
27247571 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27247594 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* ***
27247617 ATTTAAGGGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
27247640 AGT---TTAGGGTT---TTTAATTTA
1 ATTAAATTA-GGTTAGGGTT--TTTA
**
27247660 ATTAGGTTAGG--A---TTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
***
27247678 AGTT-AAGGGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *** *
27247701 AGTT-TAGGGGGTTAGGATTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* ** *
27247724 AGT---TTAGAGTTTAAAGATTTTA
1 ATTAAATTAG-G-TTAGGGTTTTTA
27247746 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27247769 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
27247791 AGTT-AATTAGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
**
27247814 AGTTAAA-GGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
27247837 AGTT---TAAGGTTTAGGGTTTTTTA
1 A-TTAAATTAGG-TTAGGG-TTTTTA
*
27247860 ATTTAATTAGGTTAGGG-TTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27247882 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27247905 AGTT--A--GGGTTTAGGG-TTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
*
27247925 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27247948 AGT---TTAGGTTTAGGGTTTTTA
1 ATTAAATTAGG-TTAGGGTTTTTA
*
27247969 ATTAAATTAGGTTGGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
27247992 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27248015 ATTTAATTAGGTTA-GGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
27248037 AGTT-AATTAGGTTAGGGTTTTAA
1 A-TTAAATTAGGTTAGGGTTTTTA
***
27248060 AGTT-AAGGGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
27248083 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
27248105 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
27248128 ATT
1 ATT
27248131 TAAGGGTATT
Statistics
Matches: 452, Mismatches: 59, Indels: 98
0.74 0.10 0.16
Matches are distributed among these distances:
18 9 0.02
19 4 0.01
20 26 0.06
21 31 0.07
22 95 0.21
23 253 0.56
24 20 0.04
25 14 0.03
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:27247647 original size:38 final size:38
Alignment explanation
Indices: 27247605--27247735 Score: 129
Period size: 38 Copynumber: 3.2 Consensus size: 38
27247595 TTTAATTAGG
*
27247605 TTAGGGTTTTTAATTTAAGGGGGTTAGGGTTTTTAAGT
1 TTAGGGTTTTTAATTTAAGGGGGTTAGGATTTTTAAGT
***
27247643 TTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAGTT
1 TTAGGGTTTTTAATTTAAGGGGGTTAGGATTTTTAAG-T
27247682 AAGGGGGTTAGGGTTTTTAAGTTT-AGGGGGTTAGGATTTTTAAGT
1 -------TTAGGGTTTTTAA-TTTAAGGGGGTTAGGATTTTTAAGT
*
27247727 TTAGAGTTT
1 TTAGGGTTT
27247736 AAAGATTTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
38 41 0.54
39 1 0.01
45 1 0.01
46 30 0.39
47 3 0.04
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (38 bp):
TTAGGGTTTTTAATTTAAGGGGGTTAGGATTTTTAAGT
Found at i:27247659 original size:14 final size:15
Alignment explanation
Indices: 27247628--27247659 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27247618 TTTAAGGGGG
27247628 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGT
27247643 TTAGGGTTTTTAA-T
1 TTAGGGTTTTTAAGT
27247657 TTA
1 TTA
27247660 ATTAGGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (15 bp):
TTAGGGTTTTTAAGT
Found at i:27247812 original size:136 final size:133
Alignment explanation
Indices: 27247580--27248133 Score: 478
Period size: 136 Copynumber: 4.2 Consensus size: 133
27247570 AATTAAATTA
* * * * ***
27247580 GGTTAGGG-TTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAAGGGGGTTAGGGTTTTT-A---
1 GGTTAGGGATTTTTAATTTAATGAGGTTA-AGATTTTAATTAAATTAGGTTAGGGTTTTTAAGTT
*
27247640 A--GTTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAGTTAAGGGGGTTAGGGTTTTTAAG
65 AGGGTTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAG
*
27247703 TTTAGGG
128 TTTA-AG
*
27247710 GGTTA-GGATTTTTAAGTTT-A-GAGTTTAAAGATTTTAATTAAATTAGGTTAGGGTTTTTAAGT
1 GGTTAGGGATTTTTAA-TTTAATGAGGTT-AAGATTTTAATTAAATTAGGTTAGGGTTTTTAAG-
27247772 TTAGGGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTA
63 TTAGGGTTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAGTT-AAGGGGTTAGGGTTTTTA
27247837 AGTTTAAG
126 AGTTTAAG
* * * * * *
27247845 GTTTAGGGTTTTTTAATTTAATTAGGTTAGGGTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
1 GGTTAGGGATTTTTAATTTAATGAGGTTAAGATTTTAATTAAATTAGGTTAGGGTTTTTAAGTTA
* * *
27247910 GGGTTTAGGG-TTTTAATTAAATTAGGTTAGAGTTTTTAAGTTTA-GGTTTAGGGTTTTTAA-TT
66 GGGTTTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTT
* *
27247972 AAATTA
130 TAA--G
* * * * * *
27247978 GGTT-GGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGTTTTTAAGTT
1 GGTTAGGGATTTTTAATTTAATGAGGTTA-AGATTTTAATTAAATTAGGTTAGGGTTTTTAAGTT
* * *** * * *
27248041 AATTAGG-TTAGGGTTTTAAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTTA
65 -A--GGGTTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTA
* *
27248105 A-TTAAATTA
126 AGTTTAA--G
27248114 GGTTAGGG-TTTTTAATTTAA
1 GGTTAGGGATTTTTAATTTAA
27248134 GGGTATTAAT
Statistics
Matches: 364, Mismatches: 35, Indels: 44
0.82 0.08 0.10
Matches are distributed among these distances:
129 30 0.08
130 15 0.04
131 7 0.02
132 49 0.13
133 28 0.08
134 35 0.10
135 49 0.13
136 142 0.39
137 9 0.02
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.48
Consensus pattern (133 bp):
GGTTAGGGATTTTTAATTTAATGAGGTTAAGATTTTAATTAAATTAGGTTAGGGTTTTTAAGTTA
GGGTTTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTTT
AAG
Found at i:27248013 original size:155 final size:158
Alignment explanation
Indices: 27247779--27248080 Score: 413
Period size: 155 Copynumber: 1.9 Consensus size: 158
27247769 AGTTTAGGGT
* *
27247779 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTTTAA
1 TTAGAGTTTTTAAGTT-ATTAGGTTAGGGTTTTTAAGTTAAAGAGGTTAGGGTTTTTAAGTTTAA
* *
27247844 GGTTTAGGGTTTTTTAATTTAATTAGGTTAGGGTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT
65 GGTTTAGGGTTTTTTAATTTAATTAGGTTAGGGTTTTAAGTTAATTAGGTTAGGGTTTTAAAGTT
*
27247909 -A-GGGTTTAGGGTTTTAATTAAATTAGG
130 AAGGGGGTTAGGGTTTTAATTAAATTAGG
* *
27247936 TTAGAGTTTTTAAG-T-TTAGGTTTAGGGTTTTTAA-TTAAATTAGGTTGGGGTTTTTAA-TTAA
1 TTAGAGTTTTTAAGTTATTAGG-TTAGGGTTTTTAAGTTAAA-GAGGTTAGGGTTTTTAAGTT--
* *
27247997 ATTAGG-TTAGGG-TTTTTAATTTAATTAGGTTAGGTTTTTAAGTTAATTAGGTTAGGGTTTTAA
62 -TAAGGTTTAGGGTTTTTTAATTTAATTAGGTTAGGGTTTTAAGTTAATTAGGTTAGGGTTTTAA
27248060 AGTTAAGGGGGTTAGGGTTTT
126 AGTTAAGGGGGTTAGGGTTTT
27248081 TAAGTTTAGG
Statistics
Matches: 129, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
154 12 0.09
155 79 0.61
156 8 0.06
157 30 0.23
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (158 bp):
TTAGAGTTTTTAAGTTATTAGGTTAGGGTTTTTAAGTTAAAGAGGTTAGGGTTTTTAAGTTTAAG
GTTTAGGGTTTTTTAATTTAATTAGGTTAGGGTTTTAAGTTAATTAGGTTAGGGTTTTAAAGTTA
AGGGGGTTAGGGTTTTAATTAAATTAGG
Found at i:27248073 original size:68 final size:68
Alignment explanation
Indices: 27247641--27248130 Score: 396
Period size: 68 Copynumber: 7.2 Consensus size: 68
27247631 GGGTTTTTAA
* * ***
27247641 GTTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAGTTAAGGGGGTTAGGGTTTTTAAG-T-
1 GTTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
27247704 TTAGGG
65 TTA--G
* * * ** * *
27247710 GGTTAGGATTTTTAAGT--TTAGAGTTTAAAGATTTTAATTAAATTAGGTTAGGGTTTTTAAG-T
1 GTTTAGGGTTTTTAATTAATTAG-G-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT
27247772 -TTAGG
64 ATTA-G
* ***
27247777 GTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTT-
1 GTTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
*
27247841 TAAG
65 TTAG
27247845 GTTTAGGGTTTTTTAATTTAATTAGGTTAGGG-TTTTAATTTAATTAGGTTAGGGTTTTTAAGTT
1 GTTTAGGG-TTTTTAA-TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT
*
27247909 A--GG
64 ATTAG
* *
27247912 GTTTAGGG-TTTTAATTAAATTAGGTTAGAGTTTTTAA-GT--TTAGGTTTAGGGTTTTTAA-TT
1 GTTTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAATTTAATTAGG-TTAGGGTTTTTAAGTT
27247972 AAATTAG
64 --ATTAG
*
27247979 G-TTGGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT-
27248042 ATTAG
64 ATTAG
* *** * *
27248047 G-TTAGGGTTTTAAAGTTAAGGGGGTTAGGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTTAA-T
1 GTTTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGT
27248107 TAAATTAG
63 T--ATTAG
27248115 G-TTAGGGTTTTTAATT
1 GTTTAGGGTTTTTAATT
27248131 TAAGGGTATT
Statistics
Matches: 353, Mismatches: 43, Indels: 52
0.79 0.10 0.12
Matches are distributed among these distances:
63 7 0.02
64 15 0.04
65 20 0.06
66 17 0.05
67 62 0.18
68 174 0.49
69 49 0.14
70 9 0.03
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (68 bp):
GTTTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAT
TAG
Found at i:27248679 original size:18 final size:18
Alignment explanation
Indices: 27248656--27248691 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27248646 CGGAAAAGGG
*
27248656 TACATATAAGGGTTAGGA
1 TACATATAAGGGCTAGGA
27248674 TACATATAAGGGCTAGGA
1 TACATATAAGGGCTAGGA
27248692 AACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
TACATATAAGGGCTAGGA
Found at i:27249555 original size:20 final size:20
Alignment explanation
Indices: 27249530--27249567 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27249520 TTTATTTTTA
27249530 AAAATCT-ATATAATAATTGT
1 AAAATCTAATATAA-AATTGT
27249550 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
27249568 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:27250521 original size:11 final size:11
Alignment explanation
Indices: 27250505--27250546 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
27250495 AAAAAAGGAG
27250505 TTAAGAGAAAC
1 TTAAGAGAAAC
*
27250516 TTAAGAGGAAC
1 TTAAGAGAAAC
*
27250527 TTAAGAGGAAC
1 TTAAGAGAAAC
27250538 TTAAGAGAA
1 TTAAGAGAA
27250547 TTTTTGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:27255589 original size:19 final size:19
Alignment explanation
Indices: 27255545--27255607 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
27255535 TTTCTTAACA
*
27255545 AAAATTAAAAATAATTTTCA
1 AAAATTAAAAATAATTTT-T
*
27255565 AAAATTCAAAATAATTTTT
1 AAAATTAAAAATAATTTTT
*
27255584 AAAATTAAAAAT-ATTTAT
1 AAAATTAAAAATAATTTTT
27255602 AAAATT
1 AAAATT
27255608 TACAAAATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.28
19 11 0.28
20 17 0.44
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTAAAAATAATTTTT
Found at i:27255614 original size:39 final size:42
Alignment explanation
Indices: 27255545--27255629 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 42
27255535 TTTCTTAACA
27255545 AAAATTAAAAATAATTTTCAAAAATTCAAAA-T-A-ATTTTT
1 AAAATTAAAAATAATTTTCAAAAATTCAAAATTCATATTTTT
*
27255584 AAAATTAAAAAT-ATTTAT-AAAATTTACAAAATTCATATTTTT
1 AAAATTAAAAATAATTT-TCAAAAATT-CAAAATTCATATTTTT
27255626 AAAA
1 AAAA
27255630 AAATTTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
38 10 0.25
39 18 0.45
40 1 0.03
41 1 0.03
42 10 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (42 bp):
AAAATTAAAAATAATTTTCAAAAATTCAAAATTCATATTTTT
Found at i:27270954 original size:24 final size:23
Alignment explanation
Indices: 27270906--27270954 Score: 55
Period size: 24 Copynumber: 2.0 Consensus size: 23
27270896 TTTTGTAAAA
*
27270906 AAAAAAAAATTAAACTCTATAAGT
1 AAAAAAAAATTAAAC-ATATAAGT
27270930 AAAAAAAAATATAAA-ATATAGAGT
1 AAAAAAAAAT-TAAACATATA-AGT
27270954 A
1 A
27270955 GCCTTTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (23 bp):
AAAAAAAAATTAAACATATAAGT
Found at i:27275619 original size:10 final size:10
Alignment explanation
Indices: 27275606--27275630 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27275596 TTTTTTAATT
27275606 TAAAACTATA
1 TAAAACTATA
27275616 TAAAACTATA
1 TAAAACTATA
27275626 TAAAA
1 TAAAA
27275631 TTATTAATTA
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAACTATA
Found at i:27275649 original size:30 final size:28
Alignment explanation
Indices: 27275615--27275673 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
27275605 TTAAAACTAT
*
27275615 ATAAAACTA-TATAAAATTATTAATTATTAA
1 ATAAAAATAGTAT-AAATTATT-ATT-TTAA
27275645 ATAAAAATAGTATAAATTATTATTTTAA
1 ATAAAAATAGTATAAATTATTATTTTAA
27275673 A
1 A
27275674 AATATAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 5 0.19
29 3 0.11
30 16 0.59
31 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
ATAAAAATAGTATAAATTATTATTTTAA
Found at i:27275877 original size:20 final size:20
Alignment explanation
Indices: 27275852--27275901 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
27275842 ACAAATTATC
*
27275852 TTGGTAAATTGTTAGATATT
1 TTGGTAAATCGTTAGATATT
*
27275872 TTGGTAGATCGTTAGATATT
1 TTGGTAAATCGTTAGATATT
27275892 TTGGTAAATC
1 TTGGTAAATC
27275902 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
TTGGTAAATCGTTAGATATT
Found at i:27277425 original size:30 final size:29
Alignment explanation
Indices: 27277361--27277416 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
27277351 CCCAAATCGA
* *
27277361 TTAAAAATAATTTTTCTAATAAAAATTAC
1 TTAAAAATAAATTTTCTAACAAAAATTAC
27277390 TTAAAAATAAATTTTC-AACAAACAATT
1 TTAAAAATAAATTTTCTAACAAA-AATT
27277417 GATATAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.38
Consensus pattern (29 bp):
TTAAAAATAAATTTTCTAACAAAAATTAC
Found at i:27279162 original size:18 final size:19
Alignment explanation
Indices: 27279139--27279177 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
27279129 GAAACTCTAT
27279139 ATCCTTC-AGGGATTTT-AA
1 ATCCTTCTA-GGATTTTCAA
27279157 ATCCTTCTAGGATTTTCAA
1 ATCCTTCTAGGATTTTCAA
27279176 AT
1 AT
27279178 AAAATTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (19 bp):
ATCCTTCTAGGATTTTCAA
Found at i:27286709 original size:2 final size:2
Alignment explanation
Indices: 27286702--27286728 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27286692 TCTTATAATT
27286702 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
27286729 AAATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27288577 original size:12 final size:12
Alignment explanation
Indices: 27288556--27288584 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27288546 ATTTTTTTAT
27288556 AATT-AGGAAAA
1 AATTAAGGAAAA
27288567 AATTAAGGAAAA
1 AATTAAGGAAAA
27288579 AATTAA
1 AATTAA
27288585 TCTTATGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (12 bp):
AATTAAGGAAAA
Found at i:27290571 original size:17 final size:18
Alignment explanation
Indices: 27290551--27290597 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
27290541 ATTTTTCGAA
27290551 AAATAA-ATTTTTTGTTC
1 AAATAATATTTTTTGTTC
*
27290568 AAATAATTTTTTTTGTTC
1 AAATAATATTTTTTGTTC
27290586 AAAT--TATTTTTT
1 AAATAATATTTTTT
27290598 TCCTGTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 14 0.52
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (18 bp):
AAATAATATTTTTTGTTC
Found at i:27290614 original size:20 final size:18
Alignment explanation
Indices: 27290558--27290617 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
27290548 GAAAAATAAA
27290558 TTTTTTGTTCAAATAATT
1 TTTTTTGTTCAAATAATT
*
27290576 TTTTTTGTTCAAATTATT
1 TTTTTTGTTCAAATAATT
**
27290594 TTTTTCCTGTTGGAATAATT
1 TTTTT--TGTTCAAATAATT
27290614 TTTT
1 TTTT
27290618 GAAAAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
18 22 0.61
20 14 0.39
ACGTcount: A:0.22, C:0.07, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTTTGTTCAAATAATT
Found at i:27294806 original size:66 final size:66
Alignment explanation
Indices: 27294708--27294833 Score: 166
Period size: 66 Copynumber: 1.9 Consensus size: 66
27294698 GCTGTAGATG
* * *
27294708 GAGTTCGTCATATTTTCTTGTTGCCTCTGCTTC-CTTCGCTACTACCTCCGCTTTAAGTTGTAGC
1 GAGTTCATCATATTTTCTTGTAGCCTCTGCTTCTC-TCGATACTACCTCCGCTTTAAGTTGTAGC
27294772 TA
65 TA
* * *
27294774 GAGTTCATTATATTTTCTT-TGAGCCTCTGCTTCTCTCGATGCTACCTCCGTTTTAAGTTG
1 GAGTTCATCATATTTTCTTGT-AGCCTCTGCTTCTCTCGATACTACCTCCGCTTTAAGTTG
27294834 AGCAATTTGC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 1 0.02
66 50 0.96
67 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.44
Consensus pattern (66 bp):
GAGTTCATCATATTTTCTTGTAGCCTCTGCTTCTCTCGATACTACCTCCGCTTTAAGTTGTAGCT
A
Found at i:27299993 original size:45 final size:45
Alignment explanation
Indices: 27299942--27301391 Score: 484
Period size: 45 Copynumber: 31.6 Consensus size: 45
27299932 CTTCGATCCA
* * *
27299942 CTCCACTACAACTTCAGGGAGATAAGACTTGCTATCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
* * * * * *
27299987 CTCCACTACAAATTCAGGAAGATAAGACTTGCTATGGTAAATTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTA---T--CTTCAATCTG
* * * * * *
27300037 AC-CTACTGCAACCTCAGAGG-TATAGGA-TT-C-ATCATTTTAATCCG
1 -CTCCACTGCAACTTCAG-GGAGATAAGACTTGCTATC--TTCAATCTG
* * * * *
27300081 CTCCACTACAACTTCAGGAAGAGAGGA-TTAG-TAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAATCTG
* * * *
27300125 CTCCATTGTAACTTCAGGGAGATAAG-GTT--TATGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTAT--CTTCAATCTG
* *
27300169 CTCCACTGCAACTTCAGGGAGATAAGATTTATAGCCTATCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-T-G-CTATCTTCAATCTG
* * * * * *
27300218 CTCTACTGCAACTTGAGGGAGATAAGA-TTGATTATTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTATCTTCAATCTG
* * ** * * *
27300263 CTCTACTACAACTTCAGGGAGATAAGGTTTG--AT-AT-GATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
* * ** *
27300304 CTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTACAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-T--GCT--ATCTTCAATCTG
* * *
27300355 TTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAATCTG
* * * * * *
27300400 CTCTACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTA---T--CTTCAATCTG
* * * *
27300450 AC-CTACTGCAACTTCAGAGGTG-TAGGA-TT-C-ATCTTTTTAATCTG
1 -CTCCACTGCAACTTCAG-GGAGATAAGACTTGCTATC--TTCAATCTG
* ** *
27300494 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAGCTTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAA-GACT-T-GC-TATCTTCAATCTG
* * *
27300543 CTTCACTGCAACTTCAGGGAGATAAGA-TTAGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAATCTG
* * * *
27300588 TTCCACTACAACTTTAGGGAGATAAGACTTGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
* * * * * *
27300633 CTCCACTACAATTTCAAGGAGATATGACTTGCTATTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
* * * * * *
27300678 TTCCACTGCAAATTCAGGGAGATAAGAC-TGATTTATTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG--CTATCTTCAATCTG
* * ** * *
27300724 CTCCACTACAACTTCAGGAAGATAAGGTTTGGTA---T-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
* * ** *
27300765 CTCTACTGCAACTAT-AGAGAGATAAGATCTATAATTTATAGCTTCAATTTG
1 CTCCACTGCAACT-TCAGGGAGATAAGA-CT-T--GCTAT--CTTCAATCTG
* ** * * *
27300816 TTCCACTAAAACTTCAGGGAAATAAGA-TTCACTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAATCTG
** * *
27300861 CTCCACCACAATTTCAAGGAGATAAGACTTGCTATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
* * * *
27300906 -TCCCACTGCAACTTCAAGGG-GATAAGA-TTAG-TAGCCTCAATTTA
1 CT-CCACTGCAACTTC-AGGGAGATAAGACTT-GCTATCTTCAATCTG
* * ** * *
27300950 CTCCACTGCAACTTCAAGGAGATAAGA-TTCGACTTTGGTAAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G-CTATCTTCAATCTG
* * * *
27300996 ATCCGACCTATTGCAACTTCAGAGG-TATAGGATTTGTCGT-T-TT-AAT-TCG
1 CTCC-A-C---TGCAACTTCAG-GGAGATAAGACTTG-C-TATCTTCAATCT-G
* * * **
27301045 CTCCACTCCAACTTCAGGGAGATAGGATATATAATTTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-T--GCTAT--CTTCAATCTG
* * * * * * *
27301096 TTCCTCTGCAACTTCAGGGAAATGAG-TTTGCTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
* * * *
27301140 CTCCATTGCAACTTCAGGGAGATAAGA-TT-CGTAACTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGC-TATCTTCAATCTG
* * *
27301184 CCCCACTGCAACTTCAGTGG-GATAAGA-TTAGCTA---T-GATCTT
1 CTCCACTGCAACTTCAG-GGAGATAAGACTT-GCTATCTTCAATCTG
* * * **
27301225 CTCTACTGTAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-T--GCTAT--CTTCAATCTG
* * * * *
27301276 TTCCACTGCAACTTCAAGGAAATAAGA-TTCGCTATCCTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTCAATCTG
* *
27301321 CTCCACTGCAACTTCAAGGAGATAAAACTTG-T-TGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTAT-CTTCAATCTG
* *
27301365 -TCCCATTGCAACTTCAGGGGGATAAGA
1 CT-CCACTGCAACTTCAGGGAGATAAGA
27301392 TTTGTGGTTT
Statistics
Matches: 1053, Mismatches: 235, Indels: 235
0.69 0.15 0.15
Matches are distributed among these distances:
40 1 0.00
41 76 0.07
42 8 0.01
43 19 0.02
44 264 0.25
45 319 0.30
46 70 0.07
47 18 0.02
48 11 0.01
49 81 0.08
50 52 0.05
51 128 0.12
52 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTG
Found at i:27300380 original size:137 final size:138
Alignment explanation
Indices: 27300134--27300425 Score: 315
Period size: 137 Copynumber: 2.1 Consensus size: 138
27300124 GCTCCATTGT
* * * *
27300134 AACTTCAGGGAGATAAGGTTTATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 AACTTCAGGGAGATAAGGTTTATGGATATAATCTACTCCACTGCAACTTCAGAGAGATAAGATTT
* * * * * * * * *
27300199 ATAGCCTATCTTCAATTTGCTCTACTGCAACTTGAGGGAGATAAGATT-GATTATTTTTAACCTG
66 ATAGACTAACTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCG-CTATCTTCAACCTG
27300263 CTCTACTAC
130 CTCTACTAC
* *
27300272 AACTTCAGGGAGATAAGG-TT-T-GATATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCT
1 AACTTCAGGGAGATAAGGTTTATGGATATAATCTACTCCACTGCAACTTCAGAGAGATAAGAT-T
** * **
27300334 GTAATTTAC-AACTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTC
65 -T-ATAGACTAACTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAACC
*
27300398 TGCTCTACTGC
128 TGCTCTACTAC
*
27300409 AACTTTAGGGAGATAAG
1 AACTTCAGGGAGATAAG
27300426 ACTTGTTATG
Statistics
Matches: 128, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
135 33 0.26
136 2 0.02
137 71 0.55
138 22 0.17
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (138 bp):
AACTTCAGGGAGATAAGGTTTATGGATATAATCTACTCCACTGCAACTTCAGAGAGATAAGATTT
ATAGACTAACTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAACCTGC
TCTACTAC
Found at i:27300858 original size:228 final size:225
Alignment explanation
Indices: 27300222--27301393 Score: 840
Period size: 228 Copynumber: 5.1 Consensus size: 225
27300212 AATTTGCTCT
* *
27300222 ACTGCAACTTGAGGGAGATAAGATTGATTATTTTTAACCTGCTCTACTACAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTGATTATTTTTAACCTGCTCCACTACAACTTCAGGGAGATA
* * *
27300287 AGGTTTGATATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTACAACTTCAAT
66 AGGTTTGGTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-TAATTTA-TACTTCAAT
* * *
27300352 CTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCTACTGCAACTTT-A
129 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAA-TTTCA
* * * *
27300416 GGGAGATAAGACTTGTTATGGTAGATTTAATCCG-ACC
193 AGGAGATAAGACTTGCTAT--T---TTCAATCTGTACC
* * * * * * *
27300453 TACTGCAACTTCAGAGGTG-TAGGATTCA-TCTTTTTAATCTGCTCCACTGCAACTTTAGGGAGA
1 -ACTGCAACTTCAG-GGAGATAAGATTGATTATTTTTAACCTGCTCCACTACAACTTCAGGGAGA
* *
27300516 TAAGGTTT-GTAGCTTGTCTTCAATCTGCT-TCACTGCAACTTCAGGGAGATAAGA--TT-AGTT
64 TAAGGTTTGGTA---TG------ATCTGCTCT-ACTGCAACTTCAGAGAGATAAGATCTTAATTT
* * *
27300576 AT-CTTCAGTCTGTTCCACTACAACTTTAGGGAGATAAGACTT-GCTATCTTCAGTCTGCTCCAC
119 ATACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGCTCCAC
* * *
27300639 TACAATTTCAAGGAGATATGACTTGCTATTTTCAGTCTGTTCC
183 TACAATTTCAAGGAGATAAGACTTGCTATTTTCAATCTGTACC
* * *
27300682 ACTGCAAATTCAGGGAGATAAGACTGATTTATTTTTAACCTGCTCCACTACAACTTCAGGAAGAT
1 ACTGCAACTTCAGGGAGATAAGATTGA-TTATTTTTAACCTGCTCCACTACAACTTCAGGGAGAT
27300747 AAGGTTTGGTATGATCTGCTCTACTGCAACTAT-AGAGAGATAAGATCTATAATTTATAGCTTCA
65 AAGGTTTGGTATGATCTGCTCTACTGCAACT-TCAGAGAGATAAGATCT-TAATTTATA-CTTCA
* * * *
27300811 ATTTGTTCCACTAAAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACCACAATTTC
127 ATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAATTTC
* *
27300876 AAGGAGATAAGACTTGCTATCTTCAATCTGTCCC
192 AAGGAGATAAGACTTGCTATTTTCAATCTGTACC
* *** * ** * * *
27300910 ACTGCAACTTCAAGGG-GATAAGATT-AGTAGCCTCAATTTACTCCACTGCAACTTCAAGGAGAT
1 ACTGCAACTTC-AGGGAGATAAGATTGATTATTTTTAACCTGCTCCACTACAACTTCAGGGAGAT
* * * *
27300973 AAGATTCGACTTTGGTAAATTTGATCCGAC-CTATTGCAACTTCAGAG-GTATAGGAT-TT-GTC
65 AAG----G--TTTGGT--A--TGATCTG-CTCTACTGCAACTTCAGAGAG-ATAAGATCTTAAT-
* * * * * *** *
27301034 GT-T--TT-AAT-TCGCTCCACTCCAACTTCAGGGAGATAGGATATATAATTTATAGCTTCAATC
117 TTATACTTCAATCT-GTTCCACTACAACTTCAGGGAAATA--AGAT-T-CGCTAT--CTTCAGTC
* * * * * * * * *
27301094 TGTTCCTCTGCAACTTCAGGGAAATGAG-TTTGCTATCTTT-AGTCTGCT-CC
175 TGCTCCACTACAATTTCAAGGAGATAAGACTTGCTAT-TTTCAATCTG-TACC
* ** * * * *
27301144 ATTGCAACTTCAGGGAGATAAGATTCG--TAACTTTAATCTACCCCACTGCAACTTCAGTGG-GA
1 ACTGCAACTTCAGGGAGATAAGATT-GATTATTTTTAACCTGCTCCACTACAACTTCAG-GGAGA
* * * * *
27301206 TAAGATTAGCTATGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCA
64 TAAGGTTTGGTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-TAATTTATA-CTTCA
* * * * *
27301271 ATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCCTCAGTCTGCTCCACTGCAACTTC
127 ATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAATTTC
* * *
27301336 AAGGAGATAAAACTTG-T-TGCTTCAATCTGTCCC
192 AAGGAGATAAGACTTGCTAT-TTTCAATCTGTACC
* *
27301369 ATTGCAACTTCAGGGGGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
27301394 TGTGGTTTCA
Statistics
Matches: 745, Mismatches: 126, Indels: 145
0.73 0.12 0.14
Matches are distributed among these distances:
222 27 0.04
223 3 0.00
224 31 0.04
225 63 0.08
226 40 0.05
227 11 0.01
228 140 0.19
229 33 0.04
230 45 0.06
231 69 0.09
232 30 0.04
233 88 0.12
234 68 0.09
235 39 0.05
236 27 0.04
237 2 0.00
238 1 0.00
239 28 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (225 bp):
ACTGCAACTTCAGGGAGATAAGATTGATTATTTTTAACCTGCTCCACTACAACTTCAGGGAGATA
AGGTTTGGTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTAATTTATACTTCAATCT
GTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAATTTCAAGG
AGATAAGACTTGCTATTTTCAATCTGTACC
Found at i:27301178 original size:44 final size:45
Alignment explanation
Indices: 27301101--27301217 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 45
27301091 ATCTGTTCCT
* * * * * * *
27301101 CTGCAACTTCAGGGAAATGAG-TTTGCTATCTTTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATCTACCCCA
*
27301145 TTGCAACTTCAGGGAGATAAGATTCG-TAACTTTAATCTACCCCA
1 CTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATCTACCCCA
*
27301189 CTGCAACTTCAGTGG-GATAAGATTAGCTA
1 CTGCAACTTCAG-GGAGATAAGATTCGCTA
27301218 TGATCTTCTC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 53 0.88
45 7 0.12
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGATTCGCTAACTTTAATCTACCCCA
Found at i:27301389 original size:181 final size:180
Alignment explanation
Indices: 27301054--27301393 Score: 475
Period size: 181 Copynumber: 1.9 Consensus size: 180
27301044 GCTCCACTCC
* * * *
27301054 AACTTCAGGGAGATAGGATATATAATTTATAGCTTCAATCTGTTCCTCTGCAACTTCAGGGAAAT
1 AACTTCAGAGAGATAAGATATATAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAAT
* * * * * * * *
27301119 GAGTTTGCTATCTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGTAACTTTAATCTA
66 AAGTTCGCTATCCTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAAATTCGTAACTTCAATCTA
*
27301184 CCCCACTGCAACTTCAGTGGGATAAGATTAGCTATGATCTTCTCTACTGT
131 CCCCACTGCAACTTCAGGGGGATAAGATTAGCTATGATCTTCTCTACTGT
* *
27301234 AACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAAT
1 AACTTCAGAGAGATAAGATATATAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAAT
**
27301299 AAGATTCGCTATCCTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAAACTT-GTTGCTTCAATC
66 AAG-TTCGCTATCCTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAAA-TTCGTAACTTCAATC
** *
27301363 TGTCCCATTGCAACTTCAGGGGGATAAGATT
129 TACCCCACTGCAACTTCAGGGGGATAAGATT
27301394 TGTGGTTTCA
Statistics
Matches: 138, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
180 61 0.44
181 75 0.54
182 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (180 bp):
AACTTCAGAGAGATAAGATATATAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAAT
AAGTTCGCTATCCTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAAATTCGTAACTTCAATCTA
CCCCACTGCAACTTCAGGGGGATAAGATTAGCTATGATCTTCTCTACTGT
Found at i:27302265 original size:20 final size:21
Alignment explanation
Indices: 27302229--27302296 Score: 86
Period size: 20 Copynumber: 3.2 Consensus size: 21
27302219 GGCCTCTCCT
27302229 TTTTCTTTTTCTTTTTCTTTTC
1 TTTTC-TTTTCTTTTTCTTTTC
27302251 TTTTCTTTT-TTTTTCTTTTC
1 TTTTCTTTTCTTTTTCTTTTC
*
27302271 TATTCTTTTCATTTTTCATTTT-
1 TTTTCTTTTC-TTTTTC-TTTTC
27302293 TTTT
1 TTTT
27302297 AAAGTGAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 19 0.46
21 4 0.10
22 14 0.34
23 4 0.10
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTCTTTTCTTTTTCTTTTC
Found at i:27302269 original size:25 final size:26
Alignment explanation
Indices: 27302229--27302286 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
27302219 GGCCTCTCCT
*
27302229 TTTTCTTTTTCTTTTTCTTTTCTTTTC
1 TTTT-TTTTTCTTTTTCTATTCTTTTC
27302256 TTTTTTTTTC-TTTTCTATTCTTTTC
1 TTTTTTTTTCTTTTTCTATTCTTTTC
*
27302281 ATTTTT
1 TTTTTT
27302287 CATTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 19 0.66
26 6 0.21
27 4 0.14
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTTTTTCTTTTTCTATTCTTTTC
Found at i:27302292 original size:6 final size:5
Alignment explanation
Indices: 27302229--27302285 Score: 69
Period size: 5 Copynumber: 10.8 Consensus size: 5
27302219 GGCCTCTCCT
* *
27302229 TTTTC TTTTTC TTTTTC TTTTC TTTTC TTTTT TTTTC TTTTC TATTC TTTTC
1 TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
27302281 ATTTT
1 -TTTT
27302286 TCATTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 31 0.67
6 15 0.33
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:27302294 original size:25 final size:23
Alignment explanation
Indices: 27302229--27302294 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 23
27302219 GGCCTCTCCT
*
27302229 TTTTCTTTTTC-TTTTTCTTTTC
1 TTTTCTTTTTCTTTTTTCTATTC
*
27302251 TTTTCTTTTTTTTTCTTTTCTATTC
1 TTTTC-TTTTTCTT-TTTTCTATTC
27302276 TTTTCATTTTTCATTTTTT
1 TTTTC-TTTTTC-TTTTTT
27302295 TTAAAGTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.14
23 5 0.14
24 1 0.03
25 23 0.64
26 2 0.06
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTCTTTTTTCTATTC
Found at i:27315571 original size:5 final size:5
Alignment explanation
Indices: 27315563--27315594 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27315553 TTAATTTATT
27315563 TAATA TAATA TAATA TAATA TAATA T-ATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAA
27315595 ATCATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:27321688 original size:23 final size:23
Alignment explanation
Indices: 27321618--27321701 Score: 106
Period size: 21 Copynumber: 3.9 Consensus size: 23
27321608 CCTGATCAGT
27321618 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
**
27321639 A-ACGACACACGAAGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
*
27321659 ATACGACACATAAAGTGCTTGAG
1 ATACGACACATAAAGTGCCTGAG
27321682 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
27321702 AATCGGCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
20 9 0.17
21 24 0.45
23 20 0.38
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:27321698 original size:44 final size:41
Alignment explanation
Indices: 27321618--27321701 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 41
27321608 CCTGATCAGT
*
27321618 ATACGACACATAAGTGCCTGAAACGACACACGAAGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
27321659 ATACGACACATAAAGTGCTTGAGATACGACACATAAAGTGCCT
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCT
27321702 AATCGGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 11 0.30
42 9 0.24
43 1 0.03
44 16 0.43
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:27322629 original size:17 final size:18
Alignment explanation
Indices: 27322595--27322630 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27322585 TTAGCTATTC
*
27322595 TGTTTCTATTTCTTCTTT
1 TGTTTCTATTTATTCTTT
27322613 TGTTTCT-TTTATTCTTT
1 TGTTTCTATTTATTCTTT
27322630 T
1 T
27322631 ATTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (18 bp):
TGTTTCTATTTATTCTTT
Found at i:27322639 original size:17 final size:17
Alignment explanation
Indices: 27322597--27322638 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
27322587 AGCTATTCTG
* *
27322597 TTTCTATTTCTTCTTTTG
1 TTTCT-TTTATTCTTTTA
27322615 TTTCTTTTATTCTTTTA
1 TTTCTTTTATTCTTTTA
27322632 TTT-TTTT
1 TTTCTTTT
27322639 TTCCCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTCTTTTATTCTTTTA
Found at i:27322832 original size:5 final size:5
Alignment explanation
Indices: 27322824--27322855 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27322814 TTAATTTATT
27322824 TAATA TAATA TAATA TAATA TAATA T-ATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAA
27322856 ATCATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:27327156 original size:22 final size:22
Alignment explanation
Indices: 27327108--27327168 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
27327098 AGCATTAACA
* *
27327108 CAAAATAGTAGCAACATAATAG
1 CAAAATAGTAGCAAAACAATAG
* * *
27327130 TAAAATTGTAGCAAAACAATGG
1 CAAAATAGTAGCAAAACAATAG
27327152 CAAAA-AGTGAG-AAAACA
1 CAAAATAGT-AGCAAAACA
27327169 GTGGCGAAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.56, C:0.11, G:0.16, T:0.16
Consensus pattern (22 bp):
CAAAATAGTAGCAAAACAATAG
Done.