Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 216 of 235
Found at i:73286492 original size:79 final size:79
Alignment explanation
Indices: 73286397--73286553 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
73286387 AGTTTCCTAG
*
73286397 TTGGAAAATTTTAATATTGCAATGTTTTTAATATTATCCTCATAAAT-TTTCATATTTAATATTT
1 TTGGAAAATATTAATATTGCAATGTTTTTAATATTATCCTCATAAATATTT-ATATTTAATATTT
*
73286461 ACGGATTTGATTTAA
65 ACGGACTTGATTTAA
73286476 TTGGAAAATATTAATATTGCAATGTTTTTAATATTATCCTCATAAATATTTATATTTAATATTTA
1 TTGGAAAATATTAATATTGCAATGTTTTTAATATTATCCTCATAAATATTTATATTTAATATTTA
73286541 CGGACTTGATTTA
66 CGGACTTGATTTA
73286554 CAAAAATGGG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 72 0.96
80 3 0.04
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (79 bp):
TTGGAAAATATTAATATTGCAATGTTTTTAATATTATCCTCATAAATATTTATATTTAATATTTA
CGGACTTGATTTAA
Found at i:73289746 original size:21 final size:22
Alignment explanation
Indices: 73289717--73289763 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
73289707 CAGAAGGAGT
*
73289717 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
73289739 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
73289760 GAGT
1 GAGT
73289764 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:73298801 original size:27 final size:27
Alignment explanation
Indices: 73298763--73298818 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
73298753 GTTTGTGTTT
73298763 AATCTAGGAATAGTTCTAATTAAAAAA
1 AATCTAGGAATAGTTCTAATTAAAAAA
73298790 AATCTAGGAATAGTTCTAATTAAAAAA
1 AATCTAGGAATAGTTCTAATTAAAAAA
73298817 AA
1 AA
73298819 ACTACTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.29
Consensus pattern (27 bp):
AATCTAGGAATAGTTCTAATTAAAAAA
Found at i:73304970 original size:21 final size:22
Alignment explanation
Indices: 73304941--73304982 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
73304931 CGTGCATCTA
* *
73304941 GATTGTTTTAAT-TCATATAAG
1 GATTATTTTAATCTAATATAAG
73304962 GATTATTTTAATCTAATATAA
1 GATTATTTTAATCTAATATAA
73304983 CAATTTTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (22 bp):
GATTATTTTAATCTAATATAAG
Found at i:73310595 original size:3 final size:3
Alignment explanation
Indices: 73310587--73310626 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
73310577 AATATATCAA
73310587 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
73310627 ACAACTAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:73311203 original size:16 final size:16
Alignment explanation
Indices: 73311179--73311212 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73311169 TTAATTTCTT
* *
73311179 TTGTTTAATTTATTTA
1 TTGTATAATTAATTTA
73311195 TTGTATAATTAATTTA
1 TTGTATAATTAATTTA
73311211 TT
1 TT
73311213 TATTGAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTGTATAATTAATTTA
Found at i:73312692 original size:18 final size:18
Alignment explanation
Indices: 73312665--73312739 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
73312655 TACGACTATT
73312665 TACGGTACTATTTACGTA
1 TACGGTACTATTTACGTA
*
73312683 TACGGCACTATTTACGTA
1 TACGGTACTATTTACGTA
* *
73312701 TACGATACTATTTATGTA
1 TACGGTACTATTTACGTA
* * *
73312719 TACAGTACTGTTCACGTA
1 TACGGTACTATTTACGTA
73312737 TAC
1 TAC
73312740 AGTAGTTGGG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (18 bp):
TACGGTACTATTTACGTA
Found at i:73325297 original size:3 final size:3
Alignment explanation
Indices: 73325279--73325329 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
73325269 TTAAATATCC
* * * * *
73325279 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
73325326 TTA T
1 TTA T
73325330 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:73339853 original size:44 final size:45
Alignment explanation
Indices: 73339786--73340385 Score: 553
Period size: 44 Copynumber: 13.6 Consensus size: 45
73339776 AAGTCATTAA
* * *
73339786 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
73339830 AGCAGGTCCTATCTTCCTATATTGGTAG-GAAG-AGGATCGAAGA-
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTA-GATCGAAGAT
* * * * * * *
73339873 CGTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
73339918 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
73339962 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * *
73340006 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
73340050 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
73340094 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * *
73340138 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
73340182 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * * *
73340226 AGCAGGTCCTATCTTCCTACATTGATAG-GAAGTGGATCCAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
73340270 -GCAGATCTTGTCTTCCCATATTGGTGGCGAATTAAATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * ** * * *
73340314 AGCAGATCTTATTTTTATATATTGAT-GTGAAATAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* *
73340358 AGCAGATCCTGCCTTCCTATATTGGTAG
1 AGCAGATCTTGTCTTCCTATATTGGTAG
73340386 GAAATGGATT
Statistics
Matches: 438, Mismatches: 103, Indels: 29
0.77 0.18 0.05
Matches are distributed among these distances:
43 88 0.20
44 263 0.60
45 87 0.20
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
Found at i:73340021 original size:132 final size:132
Alignment explanation
Indices: 73339784--73340394 Score: 1024
Period size: 132 Copynumber: 4.6 Consensus size: 132
73339774 TGAAGTCATT
*
73339784 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* * *
73339849 TATTGGTAGGAAGAGGATCGAAGACGTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
73339914 AG
131 AG
73339916 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
73339981 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
73340046 AG
131 AG
73340048 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
73340113 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
73340178 AG
131 AG
*
73340180 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* * * * * *
73340245 CATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAATTAAATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
73340310 AG
131 AG
* * * * ** * * **
73340312 AAAGCAGATCTTATTTTTATATATTGATGTGAAATAGATCAAAGATAGCAGATCCTGCCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
*
73340377 TATTGGTAGGAAATGGAT
66 TATTGGTAGGAAGTGGAT
73340395 TGAAAAACAG
Statistics
Matches: 454, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 454 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
AG
Found at i:73346939 original size:31 final size:31
Alignment explanation
Indices: 73346904--73346966 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
73346894 GTAATTGCAT
73346904 GAATTAATTATCGGGTTAAATCTAAATGTAG
1 GAATTAATTATCGGGTTAAATCTAAATGTAG
73346935 GAATTAATTATCGGGTTAAATCTAAATGTAG
1 GAATTAATTATCGGGTTAAATCTAAATGTAG
73346966 G
1 G
73346967 TGTTCATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (31 bp):
GAATTAATTATCGGGTTAAATCTAAATGTAG
Found at i:73348588 original size:15 final size:15
Alignment explanation
Indices: 73348561--73348594 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
73348551 TTTTCGTATC
*
73348561 TTTA-CATACTTTAA
1 TTTATCATAATTTAA
73348575 TTTATCATAATTTAA
1 TTTATCATAATTTAA
73348590 TTTAT
1 TTTAT
73348595 ATTTTACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTATCATAATTTAA
Found at i:73354202 original size:78 final size:77
Alignment explanation
Indices: 73354108--73354256 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 77
73354098 ATAAAATATG
* * * *
73354108 GTTTTAATTAATAATAAAACAAAATGGTATGAGGAAGTAGTTTTAATTAACAATAAAGCAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGAAGTAGTTTTAATTAACAATAAAACAAAATA
*
73354173 GTATGGGGAAGTA
65 GCATGGGGAAGTA
* * * * *
73354186 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTGGTTTTGATTAATAATAAAACAAAGTAG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGAAGTAGTTTTAATTAACAATAAAACAAAATAG
73354251 CATGGG
66 CATGGG
73354257 TGGAGTGGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 33 0.54
78 28 0.46
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (77 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGAAGTAGTTTTAATTAACAATAAAACAAAATAG
CATGGGGAAGTA
Found at i:73354240 original size:38 final size:38
Alignment explanation
Indices: 73354108--73354256 Score: 190
Period size: 39 Copynumber: 3.9 Consensus size: 38
73354098 ATAAAATATG
* * * *
73354108 GTTTTAATTAATAATAAAACAAAATGGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGGAGTA
* *
73354147 GTTTTAATTAACAATAAAGCAAAATAGTATGGGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGG-AGTA
*
73354186 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
* * *
73354224 GTTTTGATTAATAATAAAACAAAGTAGCATGGG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGG
73354257 TGGAGTGGAA
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 35 0.35
39 64 0.65
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
Found at i:73366238 original size:24 final size:24
Alignment explanation
Indices: 73366206--73366253 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
73366196 GAAGCATCAT
73366206 AAGCACTAAGGCAATAGGTTGACA
1 AAGCACTAAGGCAATAGGTTGACA
73366230 AAGCACTAAGGCAATAGGTTGACA
1 AAGCACTAAGGCAATAGGTTGACA
73366254 GACATCAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (24 bp):
AAGCACTAAGGCAATAGGTTGACA
Found at i:73367752 original size:21 final size:20
Alignment explanation
Indices: 73367713--73367752 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
73367703 CACTAAATTA
*
73367713 TTAATAAATTTACATTTTAT
1 TTAATAAATTTAAATTTTAT
*
73367733 TTAATTAATTTAAAATTTTA
1 TTAATAAATTT-AAATTTTA
73367753 AAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATAAATTTAAATTTTAT
Found at i:73374941 original size:3 final size:3
Alignment explanation
Indices: 73374933--73374970 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
73374923 AATAGGAAGA
*
73374933 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
73374971 ATTTATTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:73376650 original size:44 final size:42
Alignment explanation
Indices: 73376548--73376838 Score: 123
Period size: 44 Copynumber: 6.8 Consensus size: 42
73376538 CCTTTATTTT
* * * * *
73376548 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATACTGGCCTC
* * *
73376591 AATCTGCCCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCCTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGA-TACTGGCCTC
* *** *
73376635 GATCTGCTCCACTGTAAGCTCAGGGAGA-ATAGAT-CTGAAATTTTTT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATA-AGATACTG----GCCTC
* * * *
73376681 AGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CCTGG--TGC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATACTGGCCT-C
* * * * *
73376722 GATCTGCTCTACTGTAACTTCAGAGAGATAAGAT-C---CTTT
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATACTGGCCTC
* * ****
73376761 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTATATTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGA-TACTGGCCTC
*
73376805 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGAT
73376839 CTGCAATTCT
Statistics
Matches: 188, Mismatches: 40, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
39 28 0.15
40 4 0.02
41 27 0.14
42 3 0.02
43 30 0.16
44 64 0.34
45 1 0.01
46 30 0.16
47 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (42 bp):
AATCTGCTCCACTGTAACTCAGGGAGATAAGATACTGGCCTC
Found at i:73391542 original size:17 final size:18
Alignment explanation
Indices: 73391508--73391548 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
73391498 ATCATTCAAC
73391508 TATTTAAAAAATATAATT
1 TATTTAAAAAATATAATT
* *
73391526 TTTTTAAATAA-ATAATT
1 TATTTAAAAAATATAATT
73391543 TATTTA
1 TATTTA
73391549 TATATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTAAAAAATATAATT
Found at i:73397637 original size:17 final size:17
Alignment explanation
Indices: 73397615--73397648 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
73397605 TTTGTTGCTC
73397615 AGATTTATGATAACAAG
1 AGATTTATGATAACAAG
* *
73397632 AGATTTCTGATACCAAG
1 AGATTTATGATAACAAG
73397649 GTCCTAGCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
AGATTTATGATAACAAG
Found at i:73400691 original size:9 final size:9
Alignment explanation
Indices: 73400674--73400731 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
73400664 AGAAATTCAA
73400674 AAAAATTTT
1 AAAAATTTT
*
73400683 AAAATTTTT
1 AAAAATTTT
*
73400692 AAATAATTTG
1 AAA-AATTTT
73400702 AAAATATTTAT
1 AAAA-ATTT-T
*
73400713 AAAAAAATTT
1 -AAAAATTTT
73400723 AAAAATTTT
1 AAAAATTTT
73400732 CATATATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 20 0.51
10 12 0.31
11 3 0.08
12 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
AAAAATTTT
Found at i:73402830 original size:18 final size:20
Alignment explanation
Indices: 73402790--73402832 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
73402780 TCATTATGTA
*
73402790 TATATATCATAATATTACAT
1 TATATATCATAATATAACAT
*
73402810 TATA-ATCATATTATAAC-T
1 TATATATCATAATATAACAT
73402828 TATAT
1 TATAT
73402833 TCTTGGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.25
19 11 0.55
20 4 0.20
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATATCATAATATAACAT
Found at i:73403922 original size:18 final size:18
Alignment explanation
Indices: 73403894--73403940 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
73403884 ATGGATATTC
*
73403894 ATATAACTTTTAAATATA
1 ATATAATTTTTAAATATA
*
73403912 ATATAATTTTT-TATATA
1 ATATAATTTTTAAATATA
*
73403929 A-ATTATTTTTAA
1 ATATAATTTTTAA
73403941 TTCTGTCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATAATTTTTAAATATA
Found at i:73408053 original size:29 final size:29
Alignment explanation
Indices: 73408021--73408081 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
73408011 CTAATTATTA
** * *
73408021 AAAAAATATAATTTTTAAAAAGTAAATAT
1 AAAAAATATAAAATTTAAAAAATAAAAAT
*
73408050 AAAATATATAAAATTTAAAAAATAAAAAT
1 AAAAAATATAAAATTTAAAAAATAAAAAT
73408079 AAA
1 AAA
73408082 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAAATATAAAATTTAAAAAATAAAAAT
Found at i:73409395 original size:23 final size:23
Alignment explanation
Indices: 73409351--73409394 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
73409341 TTTTCATAAC
73409351 ATATTAATATTATTCTTAATATA
1 ATATTAATATTATTCTTAATATA
*
73409374 ATATTAAT-TTA-TCTTTATATA
1 ATATTAATATTATTCTTAATATA
73409395 TTACATACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATTAATATTATTCTTAATATA
Found at i:73409955 original size:60 final size:60
Alignment explanation
Indices: 73409862--73409987 Score: 234
Period size: 60 Copynumber: 2.1 Consensus size: 60
73409852 CACTTATTTG
*
73409862 GCCCTTCAAATTTATTAAAAAAAATTATTTTAGTCTTCTATTTGATTTTTCACATTCTTA
1 GCCCTTCAAATTTATAAAAAAAAATTATTTTAGTCTTCTATTTGATTTTTCACATTCTTA
*
73409922 GCCCTTCAAATTTATAAAAAAAAATTATTTTAGTCTTTTATTTGATTTTTCACATTCTTA
1 GCCCTTCAAATTTATAAAAAAAAATTATTTTAGTCTTCTATTTGATTTTTCACATTCTTA
73409982 GCCCTT
1 GCCCTT
73409988 AAACTTACTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.48
Consensus pattern (60 bp):
GCCCTTCAAATTTATAAAAAAAAATTATTTTAGTCTTCTATTTGATTTTTCACATTCTTA
Found at i:73410191 original size:18 final size:18
Alignment explanation
Indices: 73410170--73410215 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
73410160 TTAAAAATCA
73410170 TTATAAAA-TTTTATAATT
1 TTATAAAATTTTTAT-ATT
*
73410188 TTATAATATTTTTATATT
1 TTATAAAATTTTTATATT
*
73410206 TTAAAAAATT
1 TTATAAAATT
73410216 AATTAAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATAAAATTTTTATATT
Found at i:73414300 original size:3 final size:3
Alignment explanation
Indices: 73414292--73414335 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
73414282 TACTATGGCT
73414292 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
73414336 CGGGTTGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73417650 original size:30 final size:29
Alignment explanation
Indices: 73417614--73417674 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
73417604 CATTATCTTT
*
73417614 AAAGTTAAATTTGACTCTCAACCTTTCAAA
1 AAAGTTAAATTTGA-TCACAACCTTTCAAA
* *
73417644 AAAGTTAAATTTGATCACGAGCTTTCAAA
1 AAAGTTAAATTTGATCACAACCTTTCAAA
73417673 AA
1 AA
73417675 GAGACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (29 bp):
AAAGTTAAATTTGATCACAACCTTTCAAA
Found at i:73435362 original size:13 final size:13
Alignment explanation
Indices: 73435325--73435364 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
73435315 AGTTTAACAA
73435325 TACTTTTGAAAAG
1 TACTTTTGAAAAG
*
73435338 TAC-TGTGAAAAAG
1 TACTTTTG-AAAAG
73435351 TACTTTTGAAAAG
1 TACTTTTGAAAAG
73435364 T
1 T
73435365 TTGATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:73438661 original size:63 final size:63
Alignment explanation
Indices: 73438562--73438687 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
73438552 AAAATATCAC
*
73438562 ATCATCACATGGACAAAAGTTGTGAAAAGTAAACAAATTCTAAGACTAATGGAACAAAAAAAA
1 ATCATCACACGGACAAAAGTTGTGAAAAGTAAACAAATTCTAAGACTAATGGAACAAAAAAAA
73438625 ATCATCACACGGACAAAAGTTGTGAAAAGTAAACAAATTCTAAGACTAATGGAACAAAAAAAA
1 ATCATCACACGGACAAAAGTTGTGAAAAGTAAACAAATTCTAAGACTAATGGAACAAAAAAAA
73438688 TCAGGGACTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.18
Consensus pattern (63 bp):
ATCATCACACGGACAAAAGTTGTGAAAAGTAAACAAATTCTAAGACTAATGGAACAAAAAAAA
Found at i:73439160 original size:14 final size:14
Alignment explanation
Indices: 73439137--73439167 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
73439127 TACATGTATG
*
73439137 TATGTTTATATATA
1 TATGTATATATATA
73439151 TATGTATATATATA
1 TATGTATATATATA
73439165 TAT
1 TAT
73439168 ACTGACCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:73443287 original size:28 final size:26
Alignment explanation
Indices: 73443256--73443319 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
73443246 GTAATTCAAA
73443256 AAAATTAT-AGAAACATAAAGAATTATTT
1 AAAATTATAAGAAACATAAAG--TT-TTT
*
73443284 AAAATTTATTAAGAATCATAAAGTTTTT
1 AAAA-TTA-TAAGAAACATAAAGTTTTT
73443312 AAAATTAT
1 AAAATTAT
73443320 TAAAATTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 1 0.03
27 3 0.09
28 11 0.34
29 5 0.16
30 1 0.03
31 11 0.34
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (26 bp):
AAAATTATAAGAAACATAAAGTTTTT
Found at i:73444202 original size:26 final size:27
Alignment explanation
Indices: 73444166--73444218 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
73444156 TGTCAGCTAG
* *
73444166 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
73444192 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
73444219 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:73445552 original size:48 final size:48
Alignment explanation
Indices: 73445488--73445635 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
73445478 TTGATGTACA
*
73445488 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
73445536 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** *
73445584 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
73445632 AGAT
1 AGAT
73445636 GTGTATATAT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:73447514 original size:29 final size:32
Alignment explanation
Indices: 73447472--73447535 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
73447462 TAGAAAAGAT
73447472 AAAATTATACTTTAACCCCT-AAAAATAATAA
1 AAAATTATACTTTAACCCCTAAAAAATAATAA
* *
73447503 AAAATTA-A-TTTAATCCCTAAAAAATTATAA
1 AAAATTATACTTTAACCCCTAAAAAATAATAA
73447533 AAA
1 AAA
73447536 TAGAGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 9 0.30
30 14 0.47
31 7 0.23
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (32 bp):
AAAATTATACTTTAACCCCTAAAAAATAATAA
Found at i:73456061 original size:11 final size:11
Alignment explanation
Indices: 73456045--73456069 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73456035 TTTTTATTCC
73456045 CACATATTACT
1 CACATATTACT
73456056 CACATATTACT
1 CACATATTACT
73456067 CAC
1 CAC
73456070 TAAAAATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (11 bp):
CACATATTACT
Found at i:73459639 original size:19 final size:20
Alignment explanation
Indices: 73459595--73459640 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
73459585 TCTAAAATTT
*
73459595 TTAAAAAATTTTAAGAAGT-
1 TTAAAAAATATTAAGAAGTC
* *
73459614 GTAAAAAAAATTAAGAAGTC
1 TTAAAAAATATTAAGAAGTC
73459634 TTAAAAA
1 TTAAAAA
73459641 TAAATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (20 bp):
TTAAAAAATATTAAGAAGTC
Found at i:73460516 original size:17 final size:17
Alignment explanation
Indices: 73460496--73460530 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
73460486 TAGATTTATA
*
73460496 ATATTTTAATATTTTTT
1 ATATTTTAATAATTTTT
*
73460513 ATATTTTCATAATTTTT
1 ATATTTTAATAATTTTT
73460530 A
1 A
73460531 ATAATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTTTAATAATTTTT
Found at i:73465976 original size:95 final size:95
Alignment explanation
Indices: 73465868--73466053 Score: 372
Period size: 95 Copynumber: 2.0 Consensus size: 95
73465858 TTTTTCCTAT
73465868 AAAAATCTAGGTTATTGCTTGCAAAAAATTGAGTTTTTTCTTTTTTTCTTAAAAATAAAATTAAT
1 AAAAATCTAGGTTATTGCTTGCAAAAAATTGAGTTTTTTCTTTTTTTCTTAAAAATAAAATTAAT
73465933 TTTATCTTATCAAAATTAGGTGATTACTAC
66 TTTATCTTATCAAAATTAGGTGATTACTAC
73465963 AAAAATCTAGGTTATTGCTTGCAAAAAATTGAGTTTTTTCTTTTTTTCTTAAAAATAAAATTAAT
1 AAAAATCTAGGTTATTGCTTGCAAAAAATTGAGTTTTTTCTTTTTTTCTTAAAAATAAAATTAAT
73466028 TTTATCTTATCAAAATTAGGTGATTA
66 TTTATCTTATCAAAATTAGGTGATTA
73466054 AAATGAGTGT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.45
Consensus pattern (95 bp):
AAAAATCTAGGTTATTGCTTGCAAAAAATTGAGTTTTTTCTTTTTTTCTTAAAAATAAAATTAAT
TTTATCTTATCAAAATTAGGTGATTACTAC
Found at i:73473245 original size:15 final size:16
Alignment explanation
Indices: 73473214--73473246 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73473204 GGACTAGTTC
*
73473214 AAAAGTGCTTTTAGAA
1 AAAAGTGCTGTTAGAA
73473230 AAAAGTGCTGTT-GAA
1 AAAAGTGCTGTTAGAA
73473245 AA
1 AA
73473247 GTTGTGCGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (16 bp):
AAAAGTGCTGTTAGAA
Found at i:73475050 original size:29 final size:29
Alignment explanation
Indices: 73475017--73475076 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
73475007 AAATATGACA
73475017 TGATACAAAATAACTTGAGAGAGGAAAAG
1 TGATACAAAATAACTTGAGAGAGGAAAAG
73475046 TGATACAAAATAACTTGAGAGAGGAAAAG
1 TGATACAAAATAACTTGAGAGAGGAAAAG
73475075 TG
1 TG
73475077 GAATAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.07, G:0.25, T:0.18
Consensus pattern (29 bp):
TGATACAAAATAACTTGAGAGAGGAAAAG
Found at i:73485169 original size:15 final size:15
Alignment explanation
Indices: 73485149--73485179 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
73485139 AGAAACATAG
73485149 AGGCATTGAGATACC
1 AGGCATTGAGATACC
73485164 AGGCATTGAGATACC
1 AGGCATTGAGATACC
73485179 A
1 A
73485180 ATAATCCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (15 bp):
AGGCATTGAGATACC
Found at i:73486102 original size:26 final size:26
Alignment explanation
Indices: 73486065--73486226 Score: 297
Period size: 26 Copynumber: 6.2 Consensus size: 26
73486055 TGATACAAAT
*
73486065 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
73486091 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73486117 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73486143 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73486169 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
73486195 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73486221 TGATAA
1 TGATAA
73486227 GAATTTCATG
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:73488383 original size:35 final size:34
Alignment explanation
Indices: 73488337--73488446 Score: 96
Period size: 35 Copynumber: 3.2 Consensus size: 34
73488327 TTGACTTGGC
*
73488337 TTTATTAATGGAAAATTTAGGTCTTCATTTTTCGT
1 TTTATTAATGGAAAATTTAAGTCTTCA-TTTTCGT
* * ** * * *
73488372 TTTATTCATGGAAATTTTACTTCTTTGATTTTGGA
1 TTTATTAATGGAAAATTTAAGTC-TTCATTTTCGT
* *
73488407 TTTATTAATGGAAACTTTAAGTCTTCAGTTT-GCT
1 TTTATTAATGGAAAATTTAAGTCTTCATTTTCG-T
73488441 TTTATT
1 TTTATT
73488447 CTTGTAAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
33 1 0.02
34 12 0.20
35 43 0.73
36 3 0.05
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.53
Consensus pattern (34 bp):
TTTATTAATGGAAAATTTAAGTCTTCATTTTCGT
Found at i:73488431 original size:70 final size:68
Alignment explanation
Indices: 73488332--73488474 Score: 187
Period size: 70 Copynumber: 2.1 Consensus size: 68
73488322 TTATCTTGAC
* * * * **
73488332 TTGGCTTTATTAATGGAAAATTTAGGTCTTCATTTTTCGTTTTATTCATGGAAATTTTACTTCTT
1 TTGGATTTATTAATGGAAAATTTAAGTCTTCAGTTTGC-TTTTATTCATGGAAATTTTAAGT-TT
73488397 TGATT
64 TGATT
* * *
73488402 TTGGATTTATTAATGGAAACTTTAAGTCTTCAGTTTGCTTTTATTCTTGTAAATTTTAAGTTTTG
1 TTGGATTTATTAATGGAAAATTTAAGTCTTCAGTTTGCTTTTATTCATGGAAATTTTAAGTTTTG
73488467 ATT
66 ATT
73488470 TTGGA
1 TTGGA
73488475 AATTTTAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 12 0.19
69 19 0.30
70 33 0.52
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.52
Consensus pattern (68 bp):
TTGGATTTATTAATGGAAAATTTAAGTCTTCAGTTTGCTTTTATTCATGGAAATTTTAAGTTTTG
ATT
Found at i:73488588 original size:25 final size:26
Alignment explanation
Indices: 73488560--73488613 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
73488550 TACTACTTTT
73488560 TAATTACCTAG-AAAATATTTAAACA
1 TAATTACCTAGAAAAATATTTAAACA
*** *
73488585 TAATTTTTTAGAAAAATATTTAAATA
1 TAATTACCTAGAAAAATATTTAAACA
73488611 TAA
1 TAA
73488614 ACATATAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (26 bp):
TAATTACCTAGAAAAATATTTAAACA
Found at i:73490485 original size:22 final size:23
Alignment explanation
Indices: 73490435--73490485 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
73490425 TCAAACATAA
73490435 ATAATA-AATTTTATAAACTTAT
1 ATAATATAATTTTATAAACTTAT
*
73490457 A-ACTATAATTTTAT-AA-TTAT
1 ATAATATAATTTTATAAACTTAT
73490477 ATTAATATA
1 A-TAATATA
73490486 TAATTTCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 14 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAATATAATTTTATAAACTTAT
Found at i:73494070 original size:30 final size:31
Alignment explanation
Indices: 73494011--73494074 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
73494001 ATTAACAAGT
73494011 AAATGCCTCTAAAATAATAAAAAAAAATTAAC
1 AAATGCCTCTAAAATAAT-AAAAAAAATTAAC
*
73494043 AAATGCCT-TAAAAATAAT-AACAAAATTAAC
1 AAATGCCTCT-AAAATAATAAAAAAAATTAAC
73494073 AA
1 AA
73494075 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 13 0.43
31 1 0.03
32 16 0.53
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (31 bp):
AAATGCCTCTAAAATAATAAAAAAAATTAAC
Found at i:73496591 original size:16 final size:16
Alignment explanation
Indices: 73496558--73496591 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73496548 AGTTTTTGTT
* *
73496558 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
73496574 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
73496590 AA
1 AA
73496592 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:73499261 original size:21 final size:21
Alignment explanation
Indices: 73499235--73499275 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73499225 AGATGAACGA
* *
73499235 TACTCCATAGTAGGTGGAGTG
1 TACTCCAAAATAGGTGGAGTG
73499256 TACTCCAAAATAGGTGGAGT
1 TACTCCAAAATAGGTGGAGT
73499276 TTGAGTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (21 bp):
TACTCCAAAATAGGTGGAGTG
Found at i:73500406 original size:156 final size:155
Alignment explanation
Indices: 73500123--73500411 Score: 542
Period size: 156 Copynumber: 1.9 Consensus size: 155
73500113 TAGACAAGGA
* *
73500123 GTTTGTAAGCTGAACAAATCGCTATATGGATTGAAGTAATCCCGAGGCAGTGGTACAAGCTATTT
1 GTTTGTAAGCTGAACAAATCGCTATATGGATTGAAGCAATCCCGAGGCAGTGGTACAAGCGATTT
*
73500188 GATAGCTTTATGAGAAGGCAGAAGTACACAAGAAGCAAATATGACAATTGTGTGTATTTGCAGAA
66 GATAGCTTTATGAGAAGGCAGAAGTACACAAGAAGCAAATATGACAATTGTGTATATTTGCAGAA
73500253 GCTAGATGCTGGTGGTAGAAATTGG
131 GCTAGATGCTGGTGGTAGAAATTGG
73500278 GTTTGTAAGCTGAACAAATCGCTATATGGATTGAAGCAATCCCCGAGGCAGTGGTACAAGCGATT
1 GTTTGTAAGCTGAACAAATCGCTATATGGATTGAAGCAAT-CCCGAGGCAGTGGTACAAGCGATT
73500343 TGATAGCTTTATGAGAAGGCAGAAGTACACAAGAAGCAAATATGACAATTGTGTATATTTGCAGA
65 TGATAGCTTTATGAGAAGGCAGAAGTACACAAGAAGCAAATATGACAATTGTGTATATTTGCAGA
73500408 AGCT
130 AGCT
73500412 GCATGACGGA
Statistics
Matches: 130, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
155 39 0.30
156 91 0.70
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (155 bp):
GTTTGTAAGCTGAACAAATCGCTATATGGATTGAAGCAATCCCGAGGCAGTGGTACAAGCGATTT
GATAGCTTTATGAGAAGGCAGAAGTACACAAGAAGCAAATATGACAATTGTGTATATTTGCAGAA
GCTAGATGCTGGTGGTAGAAATTGG
Found at i:73504469 original size:35 final size:35
Alignment explanation
Indices: 73504430--73504502 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
73504420 AAATTGAAAT
*
73504430 TAAATTAAAAATATATATTTATACTTAAATAACTC
1 TAAATTAAAAAAATATATTTATACTTAAATAACTC
73504465 TAAATTAAAAAAATATATTTATACTTAAATAACTC
1 TAAATTAAAAAAATATATTTATACTTAAATAACTC
73504500 TAA
1 TAA
73504503 CATATGCAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.38
Consensus pattern (35 bp):
TAAATTAAAAAAATATATTTATACTTAAATAACTC
Found at i:73504596 original size:11 final size:11
Alignment explanation
Indices: 73504582--73504606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73504572 ATATCCAAAT
73504582 AATAATAGTAA
1 AATAATAGTAA
73504593 AATAATAGTAA
1 AATAATAGTAA
73504604 AAT
1 AAT
73504607 GGTAGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (11 bp):
AATAATAGTAA
Found at i:73506833 original size:5 final size:5
Alignment explanation
Indices: 73506823--73506854 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
73506813 TTATTTGTGA
73506823 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
73506855 GAACACACAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:73506848 original size:9 final size:9
Alignment explanation
Indices: 73506824--73506854 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
73506814 TATTTGTGAA
73506824 AAATAAAAT
1 AAATAAAAT
73506833 AAAATAAAAT
1 -AAATAAAAT
73506843 AAATAAAAT
1 AAATAAAAT
73506852 AAA
1 AAA
73506855 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:73512510 original size:46 final size:46
Alignment explanation
Indices: 73512410--73512629 Score: 332
Period size: 46 Copynumber: 4.8 Consensus size: 46
73512400 TTTGACATGA
* * * * * * *
73512410 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * *
73512457 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
73512503 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
73512549 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
73512595 TGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATT
73512630 CCCGCGAACC
Statistics
Matches: 161, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
46 133 0.83
47 28 0.17
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:73512735 original size:54 final size:54
Alignment explanation
Indices: 73512653--73512783 Score: 262
Period size: 54 Copynumber: 2.4 Consensus size: 54
73512643 CCTTTACAGT
73512653 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
73512707 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
73512761 GGGATTACCAGTCCAGGCTAAAT
1 GGGATTACCAGTCCAGGCTAAAT
73512784 TCAGACCCTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
Found at i:73515989 original size:28 final size:28
Alignment explanation
Indices: 73515957--73516014 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
73515947 GGAGGCTTGT
73515957 GAAGTATGTCAGCTAGGAAACCAAATCA
1 GAAGTATGTCAGCTAGGAAACCAAATCA
* *
73515985 GAAGTATGTCAGCTAGGAAAGCAAGTCA
1 GAAGTATGTCAGCTAGGAAACCAAATCA
73516013 GA
1 GA
73516015 CTTCCATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (28 bp):
GAAGTATGTCAGCTAGGAAACCAAATCA
Found at i:73519689 original size:19 final size:19
Alignment explanation
Indices: 73519665--73519702 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
73519655 AGATGAACAA
73519665 ATCTAAGATTGCATATCAT
1 ATCTAAGATTGCATATCAT
73519684 ATCTAAGATTGCATATCAT
1 ATCTAAGATTGCATATCAT
73519703 TGAAGATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
ATCTAAGATTGCATATCAT
Found at i:73519710 original size:17 final size:19
Alignment explanation
Indices: 73519669--73519710 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
73519659 GAACAAATCT
*
73519669 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
73519688 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
73519705 AAGATT
1 AAGATT
73519711 AGATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:73523114 original size:9 final size:9
Alignment explanation
Indices: 73523096--73523141 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
73523086 AAGTTGGCCT
*
73523096 ACATGCAGC
1 ACATGAAGC
*
73523105 ACATGTAGC
1 ACATGAAGC
73523114 ACATGAAGC
1 ACATGAAGC
73523123 ACATGAAGC
1 ACATGAAGC
73523132 ACATGAAGC
1 ACATGAAGC
73523141 A
1 A
73523142 GCCAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.13
Consensus pattern (9 bp):
ACATGAAGC
Found at i:73535134 original size:18 final size:18
Alignment explanation
Indices: 73535111--73535167 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
73535101 CCCAACTACT
73535111 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
73535129 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
73535147 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
73535165 GTA
1 GTA
73535168 AACGGTCGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:73537148 original size:15 final size:15
Alignment explanation
Indices: 73537128--73537159 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
73537118 AAGTTTGTCA
73537128 AATTATTCAATTCTG
1 AATTATTCAATTCTG
73537143 AATTATTCAATTCTG
1 AATTATTCAATTCTG
73537158 AA
1 AA
73537160 ATTCAATCCC
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:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AATTATTCAATTCTG
Found at i:73539239 original size:13 final size:13
Alignment explanation
Indices: 73539221--73539250 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
73539211 ATGATCGAAT
73539221 ACAAAAAAAAATG
1 ACAAAAAAAAATG
*
73539234 ACAAAATAAAATG
1 ACAAAAAAAAATG
73539247 ACAA
1 ACAA
73539251 TGATAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (13 bp):
ACAAAAAAAAATG
Found at i:73539973 original size:3 final size:3
Alignment explanation
Indices: 73539967--73540006 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
73539957 TATCAAAAAC
73539967 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
73540007 ATGTATACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:73551527 original size:21 final size:21
Alignment explanation
Indices: 73551501--73551541 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73551491 ATCTGCTCAA
* *
73551501 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
73551522 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
73551542 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:73562870 original size:9 final size:9
Alignment explanation
Indices: 73562851--73562883 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
73562841 GATTTTATTT
73562851 AAAAATATAA
1 AAAAAT-TAA
73562861 AAAAATT-A
1 AAAAATTAA
73562869 AAAAATTAA
1 AAAAATTAA
73562878 AAAAAT
1 AAAAAT
73562884 ATATTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:73563436 original size:31 final size:31
Alignment explanation
Indices: 73563401--73563473 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
73563391 ACCCAGCTTC
*
73563401 AAAAAGTTATTAAAT-GAGCAA-TAAATTATTT
1 AAAAA-TT-TTAAATGGAGCAACTAAACTATTT
* *
73563432 AAAAATTTTCATTGGAGCAACTAAACTATTT
1 AAAAATTTTAAATGGAGCAACTAAACTATTT
73563463 AAAAGATTTTA
1 AAAA-ATTTTA
73563474 TTTAATTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.11
30 8 0.23
31 18 0.51
32 5 0.14
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (31 bp):
AAAAATTTTAAATGGAGCAACTAAACTATTT
Found at i:73576086 original size:24 final size:24
Alignment explanation
Indices: 73576023--73576074 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
73576013 TTTCTAGAAG
* * *
73576023 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
73576047 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
73576071 ATTT
1 ATTT
73576075 GGCTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:73602627 original size:21 final size:21
Alignment explanation
Indices: 73602603--73602672 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
73602593 GTTAAGAAAC
73602603 GAGAAGACAAAGTTGTGAATG
1 GAGAAGACAAAGTTGTGAATG
* **
73602624 GAGAAG-CTGATAGCTT-TGAAAC
1 GAGAAGAC--AAAG-TTGTGAATG
73602646 GAGAAGACAAAGTTGTGAATG
1 GAGAAGACAAAGTTGTGAATG
73602667 GAGAAG
1 GAGAAG
73602673 CTGATAGCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.08
21 19 0.50
22 13 0.34
23 3 0.08
ACGTcount: A:0.41, C:0.07, G:0.33, T:0.19
Consensus pattern (21 bp):
GAGAAGACAAAGTTGTGAATG
Found at i:73602659 original size:43 final size:43
Alignment explanation
Indices: 73602598--73602684 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
73602588 AAATTGTTAA
73602598 GAAACGAGAAGACAAAGTTGTGAATGGAGAAGCTGATAGCTTT
1 GAAACGAGAAGACAAAGTTGTGAATGGAGAAGCTGATAGCTTT
73602641 GAAACGAGAAGACAAAGTTGTGAATGGAGAAGCTGATAGCTTT
1 GAAACGAGAAGACAAAGTTGTGAATGGAGAAGCTGATAGCTTT
73602684 G
1 G
73602685 GCAATGACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.09, G:0.31, T:0.21
Consensus pattern (43 bp):
GAAACGAGAAGACAAAGTTGTGAATGGAGAAGCTGATAGCTTT
Found at i:73603946 original size:26 final size:26
Alignment explanation
Indices: 73603906--73603960 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
73603896 CAAACACATC
* *
73603906 CCATAGATACTACTCGATATCAAGCA
1 CCATAGATACCACTCAATATCAAGCA
73603932 CCATAGATACCACTCAATATCAAGCA
1 CCATAGATACCACTCAATATCAAGCA
73603958 CCA
1 CCA
73603961 CCATGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (26 bp):
CCATAGATACCACTCAATATCAAGCA
Found at i:73609100 original size:45 final size:45
Alignment explanation
Indices: 73609019--73609137 Score: 211
Period size: 45 Copynumber: 2.6 Consensus size: 45
73609009 ATAAAGCCTA
*
73609019 AAGGGATTGTATTTCAGGGGGGGATTTTTTGATATTTCAATGGGAG
1 AAGGGATTGTATTTTA-GGGGGGATTTTTTGATATTTCAATGGGAG
*
73609065 AAGGGATTGTATTTTAGGGGGGATTTTTTGATATTTGAATGGGAG
1 AAGGGATTGTATTTTAGGGGGGATTTTTTGATATTTCAATGGGAG
73609110 AAGGGATTGTATTTTAGGGGGGATTTTT
1 AAGGGATTGTATTTTAGGGGGGATTTTT
73609138 AGAGAGGAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 56 0.79
46 15 0.21
ACGTcount: A:0.24, C:0.02, G:0.35, T:0.39
Consensus pattern (45 bp):
AAGGGATTGTATTTTAGGGGGGATTTTTTGATATTTCAATGGGAG
Found at i:73609956 original size:15 final size:15
Alignment explanation
Indices: 73609938--73609987 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
73609928 AATTATTTTC
73609938 CTATTATTTATTATA
1 CTATTATTTATTATA
*
73609953 CTA-T-TTT-TTACA
1 CTATTATTTATTATA
73609965 CTATTATTTATTATA
1 CTATTATTTATTATA
73609980 CTTATTAT
1 C-TATTAT
73609988 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 7 0.24
13 4 0.14
14 4 0.14
15 8 0.28
16 6 0.21
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:73617927 original size:20 final size:20
Alignment explanation
Indices: 73617897--73617958 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
73617887 GTAAGTCATT
73617897 TAATCAATAATCAATAATCAA
1 TAAT-AATAATCAATAATCAA
73617918 TAATAATAATCAATAATCAA
1 TAATAATAATCAATAATCAA
* *
73617938 TAA-GATAAACCAATAATCAA
1 TAATAAT-AATCAATAATCAA
73617958 T
1 T
73617959 TAATCTCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 2 0.05
20 32 0.84
21 4 0.11
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (20 bp):
TAATAATAATCAATAATCAA
Found at i:73617958 original size:7 final size:7
Alignment explanation
Indices: 73617897--73617940 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
73617887 GTAAGTCATT
73617897 TAATCAA
1 TAATCAA
73617904 TAATCAA
1 TAATCAA
73617911 TAATCAA
1 TAATCAA
73617918 TAAT-AA
1 TAATCAA
73617924 TAATCAA
1 TAATCAA
73617931 TAATCAA
1 TAATCAA
73617938 TAA
1 TAA
73617941 GATAAACCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATCAA
Found at i:73624704 original size:5 final size:5
Alignment explanation
Indices: 73624694--73624721 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
73624684 TCTAAAGACG
73624694 AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AAT
73624722 AATAAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:73625975 original size:15 final size:15
Alignment explanation
Indices: 73625955--73625995 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
73625945 ATATTTATAT
*
73625955 ATTATTTTATAAAGA
1 ATTATTTTATAAAAA
73625970 ATTA--TTATAAAAA
1 ATTATTTTATAAAAA
73625983 ATTATTTTA-AAAA
1 ATTATTTTATAAAA
73625996 TTGATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATTTTATAAAAA
Found at i:73626060 original size:19 final size:19
Alignment explanation
Indices: 73626036--73626075 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
73626026 TAAATAATAA
73626036 TTAGCTTAATTATTAAGAG
1 TTAGCTTAATTATTAAGAG
73626055 TTAGCTTAATTATTAAGAG
1 TTAGCTTAATTATTAAGAG
73626074 TT
1 TT
73626076 GAATTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
TTAGCTTAATTATTAAGAG
Found at i:73626320 original size:17 final size:17
Alignment explanation
Indices: 73626298--73626330 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
73626288 ATAATGCACG
73626298 TTCAAATATTGAAAATC
1 TTCAAATATTGAAAATC
73626315 TTCAAATATTGAAAAT
1 TTCAAATATTGAAAAT
73626331 GACATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
TTCAAATATTGAAAATC
Found at i:73634092 original size:18 final size:18
Alignment explanation
Indices: 73634069--73634112 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
73634059 TCTACACTTC
*
73634069 TGAGCTCATCC-AAAGTTG
1 TGAGCTCA-CCTAAAGATG
73634087 TGAGCTCACCTAAAGATG
1 TGAGCTCACCTAAAGATG
*
73634105 CGAGCTCA
1 TGAGCTCA
73634113 ACTCAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (18 bp):
TGAGCTCACCTAAAGATG
Found at i:73637968 original size:21 final size:21
Alignment explanation
Indices: 73637942--73637982 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
73637932 ATCTGCTCAA
*
73637942 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
73637963 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
73637983 TCGCTTGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:73643426 original size:15 final size:15
Alignment explanation
Indices: 73643389--73643438 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
73643379 ATTTACTATA
73643389 TTATTTAT-TTTA-G
1 TTATTTATATTTATG
73643402 -TATTTAATATTTATG
1 TTATTT-ATATTTATG
73643417 TTATTTATATTTCAT-
1 TTATTTATATTT-ATG
73643432 TTATTTA
1 TTATTTA
73643439 CACATTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.16
13 2 0.06
14 4 0.12
15 14 0.44
16 7 0.22
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (15 bp):
TTATTTATATTTATG
Found at i:73650682 original size:26 final size:24
Alignment explanation
Indices: 73650652--73650701 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
73650642 TAAATAAAAA
*
73650652 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
73650678 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
73650702 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:73650721 original size:21 final size:21
Alignment explanation
Indices: 73650672--73650730 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
73650662 ATAATAAATC
*
73650672 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
73650692 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
73650714 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
73650731 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:73653490 original size:27 final size:27
Alignment explanation
Indices: 73653397--73653493 Score: 97
Period size: 28 Copynumber: 3.6 Consensus size: 27
73653387 GCTGCCAGAA
* * * *
73653397 CAGATA-TTGTGACAGAGTCACCAGAT
1 CAGATATTTGTGGCAGGGCCACCAAAT
* * * *
73653423 ACAGATAATTGTGGCAAGGCCACGAGAAA
1 -CAGATATTTGTGGCAGGGCCACCA-AAT
73653452 CAGATATTTGTGGCAGGGCCACCAAAT
1 CAGATATTTGTGGCAGGGCCACCAAAT
73653479 CAGATATTTGTGGCA
1 CAGATATTTGTGGCA
73653494 TAGCCATCAG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 23 0.40
28 33 0.58
29 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.22
Consensus pattern (27 bp):
CAGATATTTGTGGCAGGGCCACCAAAT
Found at i:73654746 original size:18 final size:18
Alignment explanation
Indices: 73654698--73654748 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
73654688 GGCTATAGAG
73654698 GAAAAGAAGAAGAAGAGGA
1 GAAAAGAAGAAG-AGAGGA
* *
73654717 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGGA
*
73654734 GAAAAGAAAAAGAGA
1 GAAAAGAAGAAGAGA
73654749 AAAGAATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGGA
Found at i:73655389 original size:15 final size:15
Alignment explanation
Indices: 73655366--73655395 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73655356 TAAACTAACC
*
73655366 TAAACATAATAATAA
1 TAAAAATAATAATAA
73655381 TAAAAATAATAATAA
1 TAAAAATAATAATAA
73655396 CAATAACGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATAATAATAA
Found at i:73658446 original size:39 final size:39
Alignment explanation
Indices: 73658402--73658513 Score: 197
Period size: 39 Copynumber: 2.9 Consensus size: 39
73658392 TACCAGCACA
*
73658402 AAGCCTGCGGGACTTTAGCCCGAATACATTTCCAACACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACG
* *
73658441 AAGCCTGCGGGACTTTAGCCCGGATACATTTCTAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACG
73658480 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
73658514 GTGTCTTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACG
Found at i:73663288 original size:20 final size:19
Alignment explanation
Indices: 73663243--73663311 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 19
73663233 CAACCCAATC
*
73663243 TTTATTTTTATTTTTTTATT
1 TTTATTTTTATTATTTTA-T
*
73663263 TATTATTTTCCT-TTATTTTCT
1 T-TTATTTT--TATTATTTTAT
73663284 TTTATTATTTATTATTTTAT
1 TTTATT-TTTATTATTTTAT
73663304 TTTATTTT
1 TTTATTTT
73663312 AGTTAAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.07
20 20 0.49
21 11 0.27
22 6 0.15
23 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTTATTATTTTAT
Found at i:73663294 original size:30 final size:30
Alignment explanation
Indices: 73663242--73663312 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
73663232 GCAACCCAAT
* *
73663242 CTTTATTTTTATTTTTTTATTTATTATTTTC
1 CTTTA-TTTTATTTTATTATTTATTATTTTA
*
73663273 CTTTATTTTCTTTTATTATTTATTATTTTA
1 CTTTATTTTATTTTATTATTTATTATTTTA
*
73663303 TTTTATTTTA
1 CTTTATTTTA
73663313 GTTAAATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (30 bp):
CTTTATTTTATTTTATTATTTATTATTTTA
Found at i:73663466 original size:42 final size:42
Alignment explanation
Indices: 73663420--73663524 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
73663410 ATCCATGGTA
*
73663420 CCAAACAATTTTATTCCAGCCCAAAATGCCATATCCCTGCT-G
1 CCAAACAATTCTATTCCAGCCCAAAATGCCATATCCCTG-TAG
* * * * *
73663462 CCAAACAGTTCTATTCTAGCCCAGAATGTCATATCTCTGTAG
1 CCAAACAATTCTATTCCAGCCCAAAATGCCATATCCCTGTAG
* * *
73663504 CCAAACAGTCCTATTTCAGCC
1 CCAAACAATTCTATTCCAGCC
73663525 TTAGAATCCC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.28
Consensus pattern (42 bp):
CCAAACAATTCTATTCCAGCCCAAAATGCCATATCCCTGTAG
Found at i:73670831 original size:79 final size:81
Alignment explanation
Indices: 73670729--73670913 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
73670719 GCTCCTCGTT
* *
73670729 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
73670792 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
73670809 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
73670873 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
73670889 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73670914 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:73670913 original size:40 final size:40
Alignment explanation
Indices: 73670729--73670913 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
73670719 GCTCCTCGTT
* *
73670729 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
73670769 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
73670809 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
73670848 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
73670889 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73670914 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:73677767 original size:12 final size:13
Alignment explanation
Indices: 73677747--73677773 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
73677737 ATGTCATACC
73677747 AAAATTTTTAATA
1 AAAATTTTTAATA
73677760 AAAATTTTTAATA
1 AAAATTTTTAATA
73677773 A
1 A
73677774 TGTTAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTTTAATA
Found at i:73679338 original size:7 final size:7
Alignment explanation
Indices: 73679326--73679351 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
73679316 TAGTCGATTG
73679326 GTATTTA
1 GTATTTA
73679333 GTATTTA
1 GTATTTA
73679340 GTATTTA
1 GTATTTA
73679347 GTATT
1 GTATT
73679352 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:73680007 original size:18 final size:18
Alignment explanation
Indices: 73679980--73680019 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
73679970 CAGGTGCGTT
* *
73679980 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
73679998 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
73680016 TCCT
1 TCCT
73680020 TTTTCCGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:73680612 original size:27 final size:27
Alignment explanation
Indices: 73680571--73680622 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
73680561 ACAAAACTTA
73680571 AACCCTTAACCTAAAAACCCTAACCGT
1 AACCCTTAACCTAAAAACCCTAACCGT
*
73680598 AACCCTTAACTTAAAAACCCTAACC
1 AACCCTTAACCTAAAAACCCTAACC
73680623 CTTAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCGT
Found at i:73680644 original size:22 final size:22
Alignment explanation
Indices: 73680569--73681259 Score: 805
Period size: 22 Copynumber: 31.8 Consensus size: 22
73680559 TGACAAAACT
*
73680569 TAAACCCTTAACCTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
73680591 TAACCGTAACCCTTAACTTAAAAACCC
1 T-A----AACCCTTAACTTAAAAACCC
*
73680618 T-AACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
73680639 TAAACCCTTAACTTAAAAACCA
1 TAAACCCTTAACTTAAAAACCC
*
73680661 TAAACCCTTAACCTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
73680683 T-AACTCTTAACTTAAAAATCT
1 TAAACCCTTAACTTAAAAACCC
* * *
73680704 TAAATCTTTAACTTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
73680726 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
73680748 TAAA-CCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
73680769 T-AACCCTTAACTT-AAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
73680789 TAACCCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
73680811 TAAACCCTTAAATTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
73680833 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
73680855 T-AACACTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
73680876 TAAATCATTAACTTAAAAATCC
1 TAAACCCTTAACTTAAAAACCC
* *
73680898 T-AACCATTAACTTAAAAATCC
1 TAAACCCTTAACTTAAAAACCC
* *
73680919 TAACCCCTTAACTTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
* *
73680941 TAAACCCTTAAATTAAAAACCA
1 TAAACCCTTAACTTAAAAACCC
*
73680963 TAAACCCTTAACTTAAAAAGCC
1 TAAACCCTTAACTTAAAAACCC
* *
73680985 TAAACTCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
**
73681007 TAAACAATTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
73681029 TAACCCCTTAACTTTAAAACCT
1 TAAACCCTTAACTTAAAAACCC
*
73681051 TAAACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
73681073 TAAACCCTTAAATTAAAAATCC
1 TAAACCCTTAACTTAAAAACCC
73681095 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
73681117 T-AACTCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* ****
73681138 TAAACGCTTAACTTAAAATTTG
1 TAAACCCTTAACTTAAAAACCC
*
73681160 T-AACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * * *
73681181 TAAACTCTTAACTT-TAAATCG
1 TAAACCCTTAACTTAAAAACCC
* *
73681202 T-AACCCTTAAATAAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
73681223 T-AACACTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
73681244 T-AACCCTTAACTTAAA
1 TAAACCCTTAACTTAAA
73681260 TATAATTTGA
Statistics
Matches: 568, Mismatches: 86, Indels: 31
0.83 0.13 0.05
Matches are distributed among these distances:
20 19 0.03
21 191 0.34
22 337 0.59
23 1 0.00
27 20 0.04
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (22 bp):
TAAACCCTTAACTTAAAAACCC
Found at i:73680648 original size:43 final size:43
Alignment explanation
Indices: 73680592--73681259 Score: 806
Period size: 43 Copynumber: 15.5 Consensus size: 43
73680582 TAAAAACCCT
* *
73680592 AACCGTAACCCTTAACTTAAAAACCCT-AACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
73680634 AACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * *
73680678 AACCCTAACTCTTAACTTAAAAATCTTAAATCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
73680721 AACCTTAAACCCTTAACTTAAAAACCCTAAA-CCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
73680764 AACCCTAACCCTTAACTT-AAAACCCTAACCCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
73680806 AACCCTAAACCCTTAAATTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
73680850 AACCCTAACACTTAACTTAAAAACCCTAAATCATTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
73680893 AATCCTAACCATTAACTTAAAAATCCTAACCCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
73680936 AACCTTAAACCCTTAAATTAAAAACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * **
73680980 AAGCCTAAACTCTTAACTTTAAAACCCTAAACAATTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
73681024 AACCCTAACCCCTTAACTTTAAAACCTTAAACCCTTAAATTAAA
1 AACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
73681068 AACCCTAAACCCTTAAATTAAAAATCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
73681112 AACCCTAACTCTTAACTTTAAAACCCTAAACGCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
**** * * *
73681155 ATTTGTAACCCTTAAATTAAAAACCCTAAACTCTTAACTT-TA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * *
73681197 AATCGTAACCCTTAAATAAAAAACCCT-AACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
73681239 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
73681260 TATAATTTGA
Statistics
Matches: 535, Mismatches: 81, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
41 21 0.04
42 78 0.15
43 221 0.41
44 213 0.40
45 2 0.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (43 bp):
AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
Found at i:73684867 original size:127 final size:125
Alignment explanation
Indices: 73684456--73684997 Score: 689
Period size: 126 Copynumber: 4.3 Consensus size: 125
73684446 TGTCCATGTG
* * *
73684456 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCG--ATTTTATACTATTTGCT
1 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
* * * *
73684519 CAAAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCTTCCACGA
66 CAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACGA
*
73684579 GGACGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTT-ACAGCGTTTTTTTATACTATTT
1 GG-CGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGA-AGCGTTTTTTTAAACTATTT
* * * * * * *
73684642 GCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAAGCACGTCCACGTG
63 GCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACG-A
* *
73684706 GGCACGATTTTACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
1 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
*
73684771 CAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAACTGTAGCAAAAGCGCATCCACGA
66 CAGAAACGTCAACTCAAAATTATTT-TTCCAGGACCTACTGTAGCAAAAGCGCATCCACGA
* * * *
73684832 CGGCGCTATTTCACAAATTATTCTCATAAAGCATCCTGCTTGAAGC-ATTTTTTAAACTATTTAC
1 -GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGC
* * * * *
73684896 TCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCGTACACGTG
65 TCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACG-A
* * * * * *
73684958 GGCGTGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
73684998 TGATTTTATC
Statistics
Matches: 365, Mismatches: 43, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
123 5 0.01
124 38 0.10
125 62 0.17
126 185 0.51
127 75 0.21
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (125 bp):
GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
CAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACGA
Found at i:73684904 original size:252 final size:250
Alignment explanation
Indices: 73684447--73684997 Score: 768
Period size: 252 Copynumber: 2.2 Consensus size: 250
73684437 GCAAAAACGT
* * *
73684447 GTCCATGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGATTTTATACT
1 GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGATTTTAAACT
* * * *
73684512 ATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCTTCCAC
66 ATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTGTAGCAAAAGCGCATCCAC
* * *
73684577 GAGGACGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTACAGCGTTTTTTTATACTATTT
131 GAGGACGCGATTTCACAAATTATTCTCAAATAGCATCCTGCTTACAGCGATTTTTTAAACTATTT
* * *
73684642 GCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAAGCAC
196 ACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTATAGCAAAAGCAC
* * *
73684697 GTCCACGTGGGCACGATTTTACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAA
1 GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCG--ATTTTAAA
*
73684762 CTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAACTGTAGCAAAAGCGCATC
64 CTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGACCAACTGTAGCAAAAGCGCATC
*
73684827 CACGACGG-CGCTATTTCACAAATTATTCTCATAA-AGCATCCTGCTTGA-AGC-ATTTTTTAAA
128 CACGA-GGACGCGATTTCACAAATTATTCTCA-AATAGCATCCTGCTT-ACAGCGATTTTTTAAA
* **
73684888 CTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGC
190 CTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTATAGCAAAAGCAC
* * * * * * *
73684949 GTACACGTGGGCGTGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
73684998 TGATTTTATC
Statistics
Matches: 265, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
250 51 0.19
252 141 0.53
253 68 0.26
254 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (250 bp):
GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGATTTTAAACT
ATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTGTAGCAAAAGCGCATCCAC
GAGGACGCGATTTCACAAATTATTCTCAAATAGCATCCTGCTTACAGCGATTTTTTAAACTATTT
ACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTATAGCAAAAGCAC
Found at i:73685128 original size:9 final size:9
Alignment explanation
Indices: 73685114--73685151 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
73685104 TTTTTTCTCC
73685114 AAAAATCCT
1 AAAAATCCT
73685123 AAAAATCCT
1 AAAAATCCT
73685132 AAAAA-CTCT
1 AAAAATC-CT
73685141 AAAAATCCT
1 AAAAATCCT
73685150 AA
1 AA
73685152 CCTGGGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATCCT
Found at i:73686547 original size:15 final size:15
Alignment explanation
Indices: 73686527--73686557 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
73686517 CAAGATTGTA
73686527 GCTTTAAATTGAATC
1 GCTTTAAATTGAATC
73686542 GCTTTAAATTGAATC
1 GCTTTAAATTGAATC
73686557 G
1 G
73686558 AGTTGTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (15 bp):
GCTTTAAATTGAATC
Found at i:73691114 original size:19 final size:19
Alignment explanation
Indices: 73691090--73691129 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
73691080 TGAGATTCAG
* *
73691090 ATATATTTTTTTTGATGGA
1 ATATATATTTTTTAATGGA
73691109 ATATATATTTTTTAATGGA
1 ATATATATTTTTTAATGGA
73691128 AT
1 AT
73691130 TTTATTTTCA
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:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
ATATATATTTTTTAATGGA
Found at i:73723293 original size:24 final size:24
Alignment explanation
Indices: 73723261--73723311 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
73723251 CTGGTTAAGG
*
73723261 TTCATTGTCCGCTTTTAGGGATCT
1 TTCATTGTCCGCTTCTAGGGATCT
73723285 TTCATTGTCCGCTTCTAGGGATCT
1 TTCATTGTCCGCTTCTAGGGATCT
73723309 TTC
1 TTC
73723312 TTGAATACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (24 bp):
TTCATTGTCCGCTTCTAGGGATCT
Found at i:73725891 original size:12 final size:12
Alignment explanation
Indices: 73725866--73725906 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
73725856 AGAAAAAGGA
*
73725866 AAAACAAAAGACT
1 AAAACTAAA-ACT
73725879 AAAACTAAAACT
1 AAAACTAAAACT
73725891 AAAACTAAAACT
1 AAAACTAAAACT
73725903 AAAA
1 AAAA
73725907 AGAAAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.71, C:0.15, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAACTAAAACT
Found at i:73725899 original size:18 final size:19
Alignment explanation
Indices: 73725866--73725906 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
73725856 AGAAAAAGGA
73725866 AAAACAAAAGACTAAAACT
1 AAAACAAAAGACTAAAACT
*
73725885 AAAACTAAA-ACTAAAACT
1 AAAACAAAAGACTAAAACT
73725903 AAAA
1 AAAA
73725907 AGAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.71, C:0.15, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAACAAAAGACTAAAACT
Found at i:73725912 original size:18 final size:18
Alignment explanation
Indices: 73725876--73725912 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
73725866 AAAACAAAAG
**
73725876 ACTAAAACTAAAACTAAA
1 ACTAAAACTAAAAAGAAA
73725894 ACTAAAACTAAAAAGAAA
1 ACTAAAACTAAAAAGAAA
73725912 A
1 A
73725913 TTATACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.14, G:0.03, T:0.14
Consensus pattern (18 bp):
ACTAAAACTAAAAAGAAA
Found at i:73730541 original size:53 final size:52
Alignment explanation
Indices: 73730483--73730633 Score: 116
Period size: 53 Copynumber: 3.1 Consensus size: 52
73730473 TTACATAAGC
*
73730483 AATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTTCATTTTAAT
1 AATGAATGCTTAGTAAGCTCGTATAAAC-TAAAACATAATATTACATTTTAAT
* * *
73730536 AATGAA--CTTTA-TAAG---G--TAAA-TATAA-GT-A-ATTACA--TAAGA-
1 AATGAATGC-TTAGTAAGCTCGTATAAACTAAAACATAATATTACATTTTA-AT
*
73730575 AATGAATGCTTAGTAAGCTCGTATAAACTTAAAACATAATATTCCATTTTAAT
1 AATGAATGCTTAGTAAGCTCGTATAAAC-TAAAACATAATATTACATTTTAAT
73730628 AATGAA
1 AATGAA
73730634 CTTTATAAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 36
0.62 0.07 0.31
Matches are distributed among these distances:
39 8 0.11
40 4 0.06
41 10 0.14
42 1 0.01
43 1 0.01
44 5 0.07
46 8 0.11
48 5 0.07
49 1 0.01
50 1 0.01
51 10 0.14
52 4 0.06
53 14 0.19
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (52 bp):
AATGAATGCTTAGTAAGCTCGTATAAACTAAAACATAATATTACATTTTAAT
Found at i:73730610 original size:92 final size:92
Alignment explanation
Indices: 73730467--73730652 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
73730457 AAGTAAAGGA
* *
73730467 AAGTAATTACATAAGCAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTTCATTT
1 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
73730532 TAATAATGAACTTTATAAGGTAAATAT
66 TAATAATGAACTTTATAAGGTAAATAT
*
73730559 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACTTAAAACATAATATTCCATTT
1 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
73730624 TAATAATGAACTTTATAAGGTAAATAT
66 TAATAATGAACTTTATAAGGTAAATAT
73730651 AA
1 AA
73730653 ACCTATACCA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (92 bp):
AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
TAATAATGAACTTTATAAGGTAAATAT
Found at i:73731388 original size:6 final size:6
Alignment explanation
Indices: 73731379--73731416 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
73731369 AACCATAACC
73731379 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
73731417 ACATCGTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCCT
Found at i:73740165 original size:22 final size:22
Alignment explanation
Indices: 73740140--73740193 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
73740130 ACATTTAGGG
73740140 CTTAATGTCGTGACACAAGACA
1 CTTAATGTCGTGACACAAGACA
73740162 CTTAATGTCGTGACACAAGACA
1 CTTAATGTCGTGACACAAGACA
*
73740184 CTTAGTGTCG
1 CTTAATGTCG
73740194 CGACTTCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (22 bp):
CTTAATGTCGTGACACAAGACA
Found at i:73740575 original size:13 final size:13
Alignment explanation
Indices: 73740557--73740582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73740547 GGGGTCACAC
73740557 GGCCGTGTGGTCA
1 GGCCGTGTGGTCA
73740570 GGCCGTGTGGTCA
1 GGCCGTGTGGTCA
73740583 AGCCATGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.46, T:0.23
Consensus pattern (13 bp):
GGCCGTGTGGTCA
Found at i:73741136 original size:18 final size:18
Alignment explanation
Indices: 73741115--73741152 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
73741105 CCAAATATAC
73741115 ATTCTAAATCAATCATCA
1 ATTCTAAATCAATCATCA
73741133 ATTCTAAATCAATCATCA
1 ATTCTAAATCAATCATCA
73741151 AT
1 AT
73741153 ATACCTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTCTAAATCAATCATCA
Found at i:73744918 original size:19 final size:19
Alignment explanation
Indices: 73744894--73744949 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
73744884 GTAGTAGAAA
73744894 TTTATTTTCTAGAATAAAT
1 TTTATTTTCTAGAATAAAT
*
73744913 TTTATTTTCTGGAATAAAT
1 TTTATTTTCTAGAATAAAT
*
73744932 TCTATTTTCTATGAATAA
1 TTTATTTTCTA-GAATAA
73744950 CAATTTTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 27 0.82
20 6 0.18
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTATTTTCTAGAATAAAT
Found at i:73747134 original size:13 final size:13
Alignment explanation
Indices: 73747116--73747141 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73747106 TCCAAAAAAA
73747116 TAATTAATTTAAC
1 TAATTAATTTAAC
73747129 TAATTAATTTAAC
1 TAATTAATTTAAC
73747142 CTAAACTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAATTTAAC
Found at i:73749139 original size:15 final size:15
Alignment explanation
Indices: 73749116--73749145 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73749106 ACGATAACAT
*
73749116 AGGTTAAGACCCATG
1 AGGTAAAGACCCATG
73749131 AGGTAAAGACCCATG
1 AGGTAAAGACCCATG
73749146 GTAGCTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (15 bp):
AGGTAAAGACCCATG
Found at i:73749295 original size:56 final size:56
Alignment explanation
Indices: 73749221--73749537 Score: 366
Period size: 56 Copynumber: 5.7 Consensus size: 56
73749211 ATCACAATAC
* * *
73749221 ATGAATGTATGTATGACCATGAGGTTAAAACCAATGGCAAGATCTAATATGAATAA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * * ** *
73749277 ATGAATATATGTAAGACCATGAGGTTAAGACCTATGGCAAGATCCGATATGACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * *
73749333 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGAAAGATCTGATATGACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * * ** * ** *
73749389 ATGAATGTATGTAAAACCATGTGGTTAAGACCCATGGCATTATATGAA-ATGTTTAT
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCT-AATATGACTAA
* * * *
73749445 ATGAATGTATGTAAGACCCTGAGGTTAAAACCCATGGCAAGATCTTATATGTCTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * *
73749501 ATGAATATATGTAAGACCATGTGGTTAAGACCCATGG
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGG
73749538 AATTATATGA
Statistics
Matches: 219, Mismatches: 40, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
55 1 0.00
56 217 0.99
57 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (56 bp):
ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
Done.