Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 42
Found at i:6318467 original size:38 final size:35
Alignment explanation
Indices: 6318331--6318494 Score: 138
Period size: 33 Copynumber: 4.5 Consensus size: 35
6318321 CTTTTGGTTG
* *
6318331 AAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGG
1 AAATGAAAATCGCAA-GCG--AA-GAGAATCGCAACGC-A
** *
6318371 AAATGACTATCGCAA-CG-AGAGAATCGCAACGCG
1 AAATGAAAATCGCAAGCGAAGAGAATCGCAACGCA
**
6318404 AAATGACTATCGCAA-CG-AGAGAATCGCAACGCA
1 AAATGAAAATCGCAAGCGAAGAGAATCGCAACGCA
*
6318437 AAATGAAAATCGCAACGCGAAATGAAAATCGCAACGCA
1 AAATGAAAATCGCAA-GCG-AA-GAGAATCGCAACGCA
*
6318475 AAATGAAAATCACAATGCGA
1 AAATGAAAATCGCAA-GCGA
6318495 TTTTGGTTTC
Statistics
Matches: 110, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
33 46 0.42
34 14 0.13
35 3 0.03
37 2 0.02
38 32 0.29
40 13 0.12
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (35 bp):
AAATGAAAATCGCAAGCGAAGAGAATCGCAACGCA
Found at i:6318559 original size:20 final size:19
Alignment explanation
Indices: 6318490--6318560 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
6318480 AAAATCACAA
**
6318490 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
6318509 TGCGATTTTTATTTCTCGT
1 TGCGATTTTTATTTCGCGT
**
6318528 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
6318548 TGCGATTTTTATT
1 TGCGATTTTTATT
6318561 CTCGAAACTA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 28 0.65
20 15 0.35
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:6319137 original size:20 final size:20
Alignment explanation
Indices: 6319076--6319207 Score: 124
Period size: 20 Copynumber: 6.5 Consensus size: 20
6319066 GCTATGTAAA
* *
6319076 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
* *
6319096 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
*
6319116 TCGCATTGCGATTTCCGTAT
1 TCGCATTGCGATTTACGTAT
* *
6319136 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
** *
6319157 TCGCATTGCGATTTATTTAA
1 TCGCATTGCGATTTACGTAT
*
6319177 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
6319197 TCGCATTGCGA
1 TCGCATTGCGA
6319208 ATTGGAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 2 0.02
20 77 0.80
21 17 0.18
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:6319168 original size:41 final size:40
Alignment explanation
Indices: 6319114--6319207 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 40
6319104 CGATAGTAAG
* * *
6319114 ATTCGCATTGCGATTTCCGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
** * *
6319154 AATTCGCATTGCGATTTATTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
6319195 ATTCGCATTGCGA
1 ATTCGCATTGCGA
6319208 ATTGGAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 13 0.28
41 33 0.72
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:6323069 original size:23 final size:23
Alignment explanation
Indices: 6323043--6323103 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
6323033 TTTTTTTAAT
6323043 TTTTTTATTAATTAAAAAATTCC
1 TTTTTTATTAATTAAAAAATTCC
*
6323066 TTTTTTATTAATTAAAAAATTCT
1 TTTTTTATTAATTAAAAAATTCC
6323089 TTTTTTATTAATTAA
1 TTTTTTATTAATTAA
6323104 CAAGTTGGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTTATTAATTAAAAAATTCC
Found at i:6323238 original size:14 final size:14
Alignment explanation
Indices: 6323199--6323239 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6323189 AGTTCGTTTG
*
6323199 TTTTACTGAAAATA
1 TTTTACGGAAAATA
*
6323213 TTTTTCGGAAAATA
1 TTTTACGGAAAATA
*
6323227 TTTTACGTAAAAT
1 TTTTACGGAAAAT
6323240 GAATTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (14 bp):
TTTTACGGAAAATA
Found at i:6323513 original size:31 final size:29
Alignment explanation
Indices: 6323424--6323574 Score: 71
Period size: 31 Copynumber: 5.1 Consensus size: 29
6323414 AAATAATTCA
* **
6323424 TTTATT-ATCAAAATATT-ATTTTTATAAT
1 TTTATTAATAAAAATATTAATAATTAT-AT
*
6323452 TTTATTAATAAAAATATTAATATTGGTATAT
1 TTTATTAATAAAAATATTAATAAT--TATAT
6323483 TTTATTAAAATAAAAATATT-ATAAATTATAT
1 TTTATT--AATAAAAATATTAAT-AATTATAT
* * * * *
6323514 TAATTATTTATTAAAGTA-TAGT-GTTATAT
1 T--TTATTAATAAAAATATTAATAATTATAT
* * * *
6323543 TATATT-TTAAAAATATTAATTAGTATAT
1 TTTATTAATAAAAATATTAATAATTATAT
6323571 TTTA
1 TTTA
6323575 AATATCTTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
26 6 0.06
27 7 0.07
28 14 0.15
29 17 0.18
30 5 0.05
31 22 0.23
32 5 0.05
33 19 0.20
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTATTAATAAAAATATTAATAATTATAT
Found at i:6323593 original size:23 final size:23
Alignment explanation
Indices: 6323544--6323594 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
6323534 GTGTTATATT
**
6323544 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
6323567 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
6323590 ATATT
1 ATATT
6323595 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:6323795 original size:22 final size:23
Alignment explanation
Indices: 6323767--6323813 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
6323757 TTGATTATTT
6323767 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
6323789 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
6323812 TA
1 TA
6323814 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:6323818 original size:22 final size:22
Alignment explanation
Indices: 6323775--6323818 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6323765 TTTATTATAA
*
6323775 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
6323797 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
6323819 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:6323859 original size:24 final size:23
Alignment explanation
Indices: 6323832--6323877 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
6323822 TTAAATATTT
6323832 TAATCATT-AATATTTTGATTAAAA
1 TAAT-ATTAAATATTTT-ATTAAAA
6323856 TAATATTAAAATATTTTATTAA
1 TAATATT-AAATATTTTATTAA
6323878 TATTAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.15
24 9 0.45
25 8 0.40
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATATTAAATATTTTATTAAAA
Found at i:6328917 original size:21 final size:21
Alignment explanation
Indices: 6328891--6328930 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6328881 AACTTCAAAT
*
6328891 AATAATAATAATAATTCTTCA
1 AATAATAAAAATAATTCTTCA
6328912 AATAATAAAAATAATTCTT
1 AATAATAAAAATAATTCTT
6328931 GACTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATAAAAATAATTCTTCA
Found at i:6342060 original size:31 final size:31
Alignment explanation
Indices: 6342019--6342083 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
6342009 GAAGATGACA
6342019 CTCTTACACACACATTATCGTCGGAGTTCGT
1 CTCTTACACACACATTATCGTCGGAGTTCGT
*
6342050 CTCTTGCACACACATTATCGTCGGAGTTCGT
1 CTCTTACACACACATTATCGTCGGAGTTCGT
6342081 CTC
1 CTC
6342084 GGCTCGTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (31 bp):
CTCTTACACACACATTATCGTCGGAGTTCGT
Found at i:6344849 original size:15 final size:16
Alignment explanation
Indices: 6344816--6344849 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6344806 TGCAACTCAT
6344816 TTTTAAGTTACATCCCA
1 TTTTAAGTTACA-CCCA
6344833 TTTTAAGTTAC-CCCA
1 TTTTAAGTTACACCCA
6344848 TT
1 TT
6344850 CTTAGGTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTTAAGTTACACCCA
Found at i:6348524 original size:33 final size:33
Alignment explanation
Indices: 6348482--6348550 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
6348472 CCCTTTTATC
*
6348482 AACAATGGATATATGGCTCGTGCTATGATCATG
1 AACAATGGATATATGGCTCGTGCCATGATCATG
6348515 AACAATGGATATATGGCTCGTGCCATGATCATG
1 AACAATGGATATATGGCTCGTGCCATGATCATG
6348548 AAC
1 AAC
6348551 TTGGCTCCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (33 bp):
AACAATGGATATATGGCTCGTGCCATGATCATG
Found at i:6349398 original size:20 final size:20
Alignment explanation
Indices: 6349373--6349422 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
6349363 TAGAAGAATA
*
6349373 AGAAGAAAAAAATAACCTGT
1 AGAAGAAAAAAATAACCTGG
6349393 AGAAGAAAAAAATAACCTGG
1 AGAAGAAAAAAATAACCTGG
6349413 AGAAGAAAAA
1 AGAAGAAAAA
6349423 GAAGGGGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.64, C:0.08, G:0.18, T:0.10
Consensus pattern (20 bp):
AGAAGAAAAAAATAACCTGG
Found at i:6350712 original size:32 final size:32
Alignment explanation
Indices: 6350676--6350795 Score: 132
Period size: 32 Copynumber: 3.8 Consensus size: 32
6350666 GACACATGAC
* *
6350676 ACACTACTGTGCATTATTTGAATACAACACTA
1 ACACTATTGTGCATTATTTGAATGCAACACTA
* * *
6350708 ACACTGTTGTGCCTTTTTTGAATGCAACACTA
1 ACACTATTGTGCATTATTTGAATGCAACACTA
* * *
6350740 ACACTATTGTGCATTATATGAATGCAACATTG
1 ACACTATTGTGCATTATTTGAATGCAACACTA
* * * *
6350772 ACATTGTCGTGCATTATCTGAATG
1 ACACTATTGTGCATTATTTGAATG
6350796 TGACCCTCTT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (32 bp):
ACACTATTGTGCATTATTTGAATGCAACACTA
Found at i:6350794 original size:64 final size:64
Alignment explanation
Indices: 6350676--6350795 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 64
6350666 GACACATGAC
* * * * *
6350676 ACACTACTGTGCATTATTTGAATACAACACTAACACTGTTGTGCCTTTTTTGAATGCAACACTA
1 ACACTACTGTGCATTATATGAATACAACACTAACACTGTCGTGCATTATCTGAATGCAACACTA
* * * * *
6350740 ACACTATTGTGCATTATATGAATGCAACATTGACATTGTCGTGCATTATCTGAATG
1 ACACTACTGTGCATTATATGAATACAACACTAACACTGTCGTGCATTATCTGAATG
6350796 TGACCCTCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 46 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (64 bp):
ACACTACTGTGCATTATATGAATACAACACTAACACTGTCGTGCATTATCTGAATGCAACACTA
Found at i:6353187 original size:15 final size:15
Alignment explanation
Indices: 6353157--6353198 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
6353147 AATAATTTTA
6353157 ATTCTCTAAGTACCG
1 ATTCTCTAAGTACCG
6353172 ATTCTACTAAGT-CCG
1 ATTCT-CTAAGTACCG
*
6353187 ATTCTCCAAGTA
1 ATTCTCTAAGTA
6353199 ATCTGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.21
15 13 0.54
16 6 0.25
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (15 bp):
ATTCTCTAAGTACCG
Found at i:6353791 original size:19 final size:20
Alignment explanation
Indices: 6353756--6353801 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
6353746 CAATCATTTT
*
6353756 CAACCAAACAACAAATA-AA
1 CAACTAAACAACAAATATAA
6353775 CAACTAAACAA-ATAATATAA
1 CAACTAAACAACA-AATATAA
6353795 C-ACTAAA
1 CAACTAAA
6353802 TAGAGACACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.04
19 20 0.83
20 3 0.12
ACGTcount: A:0.65, C:0.22, G:0.00, T:0.13
Consensus pattern (20 bp):
CAACTAAACAACAAATATAA
Found at i:6357605 original size:19 final size:19
Alignment explanation
Indices: 6357556--6357594 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6357546 TTTTAATCCT
6357556 TTAAAAGTATTACTCAAAA
1 TTAAAAGTATTACTCAAAA
6357575 TTAAAAGTATTACTCAAAA
1 TTAAAAGTATTACTCAAAA
6357594 T
1 T
6357595 AAAGGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
TTAAAAGTATTACTCAAAA
Found at i:6368577 original size:9 final size:9
Alignment explanation
Indices: 6368546--6368579 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
6368536 ACGACGATCG
6368546 AAAAACCCA
1 AAAAACCCA
*
6368555 AAATAACCCC
1 AAA-AACCCA
6368565 AAAAACCCA
1 AAAAACCCA
6368574 AAAAAC
1 AAAAAC
6368580 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.65, C:0.32, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAACCCA
Found at i:6368935 original size:4 final size:4
Alignment explanation
Indices: 6368926--6368956 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6368916 ACACAAAAGA
6368926 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
6368957 ACTGAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:6369482 original size:3 final size:3
Alignment explanation
Indices: 6369474--6369521 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
6369464 AATGATATTT
*
6369474 ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6369522 TAGGGTATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6374622 original size:27 final size:26
Alignment explanation
Indices: 6374570--6374640 Score: 133
Period size: 26 Copynumber: 2.7 Consensus size: 26
6374560 GACAGATTAT
6374570 ATGAATCTATTAGATTTTTTTGAAAA
1 ATGAATCTATTAGATTTTTTTGAAAA
6374596 ATGAATCTATTAGATTTTTTTGAAAA
1 ATGAATCTATTAGATTTTTTTGAAAA
6374622 ATTGAATCTATTAGATTTT
1 A-TGAATCTATTAGATTTT
6374641 GAAGAGAGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 27 0.61
27 17 0.39
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (26 bp):
ATGAATCTATTAGATTTTTTTGAAAA
Found at i:6389391 original size:30 final size:30
Alignment explanation
Indices: 6389357--6389639 Score: 166
Period size: 30 Copynumber: 9.7 Consensus size: 30
6389347 TTGACACTTG
* * *
6389357 AATATATTTTTTAAGTCAAGATAAGATTAA
1 AATATATTTTTTAAGTTAAGATAAAAATAA
*
6389387 AATAT-TTTTTTAAGTTAAAATAAAAATAA
1 AATATATTTTTTAAGTTAAGATAAAAATAA
* *
6389416 AATATATTTTTTAAATCAAGATAAAAATAA
1 AATATATTTTTTAAGTTAAGATAAAAATAA
** *
6389446 AATATATTTGATAATTTAAGAT---AAT--
1 AATATATTTTTTAAGTTAAGATAAAAATAA
* * *
6389471 --T-T-TTTTTTAAAGTTGAGTCCCATTAAGATAAA
1 AATATATTTTTT-AAGTTAAG----ATAAAAAT-AA
* * *
6389503 AATATATTTTTAAAAGTAAAAATAAAAATAA
1 AATATATTTTT-TAAGTTAAGATAAAAATAA
* * * * *
6389534 AATATATTATCTAAATTAAGATAAGATTAA
1 AATATATTTTTTAAGTTAAGATAAAAATAA
*
6389564 AATATA-TTTTTAAG-T-AGATATGAGAAT--
1 AATATATTTTTTAAGTTAAGATA--AAAATAA
*
6389591 AATATATATTTTAAGTTAAGATAAAAATAA
1 AATATATTTTTTAAGTTAAGATAAAAATAA
*
6389621 AATATA-TTTTTAAATTAAG
1 AATATATTTTTTAAGTTAAG
6389640 TTTGATATCA
Statistics
Matches: 191, Mismatches: 38, Indels: 49
0.69 0.14 0.18
Matches are distributed among these distances:
21 4 0.02
22 7 0.04
23 1 0.01
26 2 0.01
27 14 0.07
28 12 0.06
29 48 0.25
30 74 0.39
31 11 0.06
32 6 0.03
34 1 0.01
35 1 0.01
36 10 0.05
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (30 bp):
AATATATTTTTTAAGTTAAGATAAAAATAA
Found at i:6389622 original size:57 final size:59
Alignment explanation
Indices: 6389501--6389633 Score: 162
Period size: 57 Copynumber: 2.3 Consensus size: 59
6389491 CATTAAGATA
* *
6389501 AAAATATATTTTTAAAAGTAAAAATAAAAATAAAATATATTATCTAAATTAAGATAAGATT
1 AAAATATATTTTT--AAGTAAAAATAAAAATAAAATATATTATCTAAATTAAGATAAAAAT
* * * * * *
6389562 AAAATATATTTTTAAGTAGATATGAGAATAATATATATT-T-TAAGTTAAGATAAAAAT
1 AAAATATATTTTTAAGTAAAAATAAAAATAAAATATATTATCTAAATTAAGATAAAAAT
6389619 AAAATATATTTTTAA
1 AAAATATATTTTTAA
6389634 ATTAAGTTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 29 0.45
58 1 0.02
59 21 0.33
61 13 0.20
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.38
Consensus pattern (59 bp):
AAAATATATTTTTAAGTAAAAATAAAAATAAAATATATTATCTAAATTAAGATAAAAAT
Found at i:6389623 original size:118 final size:113
Alignment explanation
Indices: 6389357--6389634 Score: 274
Period size: 118 Copynumber: 2.4 Consensus size: 113
6389347 TTGACACTTG
* * * * *
6389357 AATATATTTTTTAAGTCAAGATAAGATTAAAATAT-TTTTT-TAAGTTAAAATAAAAATAAAATA
1 AATATATTTTTTAAGTTAAGATAAAAATAAAATATATTTTTAAAAGTAAAAATAAAAATAAAATA
* * * *
6389420 TATTTTTTAAATCAAGATAAAAATAAAATATATTTGATAATTTAAGAT
66 TATTATCTAAATCAAGATAAAAATAAAATATATTTAATAATATAAGAT
* * * *
6389468 AAT-TTTTTTTTAAAGTTGAGTCCCATTAAGATAAAAATATATTTTTAAAAGTAAAAATAAAAAT
1 AATATATTTTTT-AAGTTAAG----ATAAAAAT-AAAATATATTTTTAAAAGTAAAAATAAAAAT
* * * *
6389532 AAAATATATTATCTAAATTAAGATAAGATTAAAATATATTTTTAAGTAGATATGAGAAT
60 AAAATATATTATCTAAATCAAGATAAAAATAAAATATA--TTTAA-TA-ATATAAG-AT
*
6389591 AATATATATTTTAAGTTAAGATAAAAATAAAATATATTTTTAAA
1 AATATATTTTTTAAGTTAAGATAAAAATAAAATATATTTTTAAA
6389635 TTAAGTTTGA
Statistics
Matches: 131, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
110 7 0.05
111 9 0.07
115 4 0.03
116 7 0.05
117 5 0.04
118 64 0.49
119 6 0.05
120 4 0.03
121 2 0.02
122 5 0.04
123 12 0.09
124 6 0.05
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (113 bp):
AATATATTTTTTAAGTTAAGATAAAAATAAAATATATTTTTAAAAGTAAAAATAAAAATAAAATA
TATTATCTAAATCAAGATAAAAATAAAATATATTTAATAATATAAGAT
Found at i:6391178 original size:2 final size:2
Alignment explanation
Indices: 6391171--6391195 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6391161 ACTTGTGCCA
6391171 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
6391196 GGGCTAGGTT
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:6396597 original size:23 final size:23
Alignment explanation
Indices: 6396569--6396628 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
6396559 ACATAGAATT
* *
6396569 TGTCCCGAAGGACCACACATATA
1 TGTCCCGAAAGACCACACATAGA
6396592 TGTCCCGAAAGA-C-CACATAGA
1 TGTCCCGAAAGACCACACATAGA
*
6396613 TGTCCCGAATGACCAC
1 TGTCCCGAAAGACCAC
6396629 TCCTTAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.56
22 2 0.06
23 12 0.38
ACGTcount: A:0.33, C:0.32, G:0.18, T:0.17
Consensus pattern (23 bp):
TGTCCCGAAAGACCACACATAGA
Found at i:6396708 original size:21 final size:21
Alignment explanation
Indices: 6396634--6396713 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
6396624 ACCACTCCTT
* *
6396634 AAGGATTACATATATATTTCA
1 AAGGATCACATATATATTCCA
* * * * *
6396655 AAGGACCAAATATGTGTCCCA
1 AAGGATCACATATATATTCCA
* * *
6396676 AAGAAGCGCATATATATTCCA
1 AAGGATCACATATATATTCCA
*
6396697 AAGGATTACATATATAT
1 AAGGATCACATATATAT
6396714 ATCCCGAAGA
Statistics
Matches: 41, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (21 bp):
AAGGATCACATATATATTCCA
Found at i:6400560 original size:21 final size:21
Alignment explanation
Indices: 6400527--6400583 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
6400517 AGTTTTAGGG
**
6400527 TTATTTCAAAATATTTATGTTT
1 TTATTT-AAAATATTTATAATT
*
6400549 TTATTTAAAATATGTATAATT
1 TTATTTAAAATATTTATAATT
6400570 TT-TTTAAAAT-TTTA
1 TTATTTAAAATATTTA
6400584 AGTAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 8 0.26
21 14 0.45
22 6 0.19
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TTATTTAAAATATTTATAATT
Found at i:6402140 original size:64 final size:63
Alignment explanation
Indices: 6402024--6402185 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 63
6402014 TCTGGGCAAG
* * * *
6402024 GTGTATCGATGCATATTGAATGTGCATCGATGCACTCTTTAAAGAATAAACATCGAATGCAA-TT
1 GTGTATCGATGCATA-AGGA-GTGCATCGATGCACCCTTTAAAGAATAAACATCGAAGGCAATTT
* *
6402088 GAT-TCATCGATGCATAAGGAGTGCATCGATGCATCCCTTT-AA-AATGAAAACATTGAAGGTAA
1 G-TGT-ATCGATGCATAAGGAGTGCATCGATGCA-CCCTTTAAAGAAT--AAACATCGAAGGCAA
6402150 TTT
61 TTT
* *
6402153 GTGTATCGATGCATGAGTAGTGCATCGATGCAC
1 GTGTATCGATGCATAAGGAGTGCATCGATGCAC
6402186 TGTAGAATGC
Statistics
Matches: 83, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
62 3 0.04
63 16 0.19
64 48 0.58
65 16 0.19
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (63 bp):
GTGTATCGATGCATAAGGAGTGCATCGATGCACCCTTTAAAGAATAAACATCGAAGGCAATTT
Found at i:6402933 original size:15 final size:15
Alignment explanation
Indices: 6402913--6402942 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6402903 GAATGATATA
*
6402913 ATAAGAAGCTATGAG
1 ATAAGAAGATATGAG
6402928 ATAAGAAGATATGAG
1 ATAAGAAGATATGAG
6402943 TTTATGTGAT
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:0.50, C:0.03, G:0.27, T:0.20
Consensus pattern (15 bp):
ATAAGAAGATATGAG
Found at i:6403178 original size:30 final size:30
Alignment explanation
Indices: 6403144--6403213 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
6403134 GGTTCTTCGG
* **
6403144 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACAAAGGATCTTTAT
* *
6403174 GACCTCTGGATAGTTACAAATGATCTTTAT
1 GACCTCTGGACAGTTACAAAGGATCTTTAT
6403204 GACCTCTGGA
1 GACCTCTGGA
6403214 TAGGTCCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACAAAGGATCTTTAT
Found at i:6406130 original size:45 final size:45
Alignment explanation
Indices: 6406054--6406156 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
6406044 CATACTGAAT
* *
6406054 GTGCATCGATGCA-CTCTTTAAAGAAGAAACATCGAATGCAATTG
1 GTGCATCGATGCATCCCTTTAAAGAAGAAACATCGAAGGCAATTG
* * *
6406098 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTT
1 GTGCATCGATGCATCCCTTTAAAGAAG-AAACATCGAAGGCAATTG
*
6406143 GTGTATCGATGCAT
1 GTGCATCGATGCAT
6406157 GAGTAGTGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 15 0.29
45 36 0.71
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (45 bp):
GTGCATCGATGCATCCCTTTAAAGAAGAAACATCGAAGGCAATTG
Found at i:6407210 original size:30 final size:30
Alignment explanation
Indices: 6407140--6407212 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
6407130 GGTTTTTCGG
* *
6407140 GACCTATGGACAGTTACCAAGGATCTTTAT
1 GACCTCTGGATAGTTACCAAGGATCTTTAT
**
6407170 GACCTCTGGATAGTTACTGAGGATCTTTAT
1 GACCTCTGGATAGTTACCAAGGATCTTTAT
6407200 GACCTCTGGATAG
1 GACCTCTGGATAG
6407213 GTCCTTCGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCAAGGATCTTTAT
Found at i:6414672 original size:78 final size:77
Alignment explanation
Indices: 6414531--6414675 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 77
6414521 GAAACTGCAA
* * * * * * *
6414531 TGGTCTTTTTCTGCAAATATCTGTCTGATAAACATTCTAGTTTTTTGGGCATTTAACGCAAATGT
1 TGGTCTTTTTCTGCAAATATCTGCCTGAAAAACATCCTAGGTTTTTAGACATTTAACACAAATGT
6414596 GATTCAATTCAG
66 GATTCAATTCAG
*
6414608 TGGTCTTTTTCTGCAAATATCTGCCTGACAAAACATCCTAGGTTTTTAGACATTTAACATAAATG
1 TGGTCTTTTTCTGCAAATATCTGCCTGA-AAAACATCCTAGGTTTTTAGACATTTAACACAAATG
6414673 TGA
65 TGA
6414676 CTAAAATTGG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 27 0.46
78 32 0.54
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (77 bp):
TGGTCTTTTTCTGCAAATATCTGCCTGAAAAACATCCTAGGTTTTTAGACATTTAACACAAATGT
GATTCAATTCAG
Found at i:6418160 original size:20 final size:20
Alignment explanation
Indices: 6418137--6418175 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6418127 TTTTTTAAAA
* *
6418137 TAAAATATATATTTTTCTTT
1 TAAAATATAAACTTTTCTTT
6418157 TAAAATATAAACTTTTCTT
1 TAAAATATAAACTTTTCTT
6418176 ATTTTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAATATAAACTTTTCTTT
Found at i:6418439 original size:31 final size:30
Alignment explanation
Indices: 6418400--6418670 Score: 200
Period size: 31 Copynumber: 8.3 Consensus size: 30
6418390 AAATTATTGT
6418400 ATATTATATAGTTTTGGAAAACATTTTGAAA
1 ATATTATATAGTTTT-GAAAACATTTTGAAA
* * * *
6418431 ATAGTATATAGTTCTGAAAATATTTTAAAAA
1 ATATTATATAGTTTTGAAAACATTTT-GAAA
6418462 ATATTATATAGTTTTAGAAAACATTTTGAAA
1 ATATTATATAGTTTT-GAAAACATTTTGAAA
* * * *
6418493 ATAATATATAGTTTTGAAAATAATTTAAAAATGTTAT
1 ATATTATATAGTTTTGAAAA-CATTT-----TG-AAA
6418530 ATATTATATAGTTTTGGAAAACATTTTGAAA
1 ATATTATATAGTTTT-GAAAACATTTTGAAA
* * *
6418561 AGAGTATATAGTTTTGAAAATATTTTGGAAAA
1 ATATTATATAGTTTTGAAAACATTTT-G-AAA
*
6418593 TATTATATATTATATTGTTTTGGAAAACGTTTTGAAA
1 -A-TAT-TA-TATA--GTTTT-GAAAACATTTTGAAA
* * * * *
6418630 ATAATATTTAGTTTTGTAAATAATTTGAAAA
1 ATATTATATAGTTTTGAAAACATTTTG-AAA
6418661 ATATTATATA
1 ATATTATATA
6418671 TTATATAGTT
Statistics
Matches: 189, Mismatches: 31, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
30 33 0.17
31 81 0.43
32 15 0.08
33 4 0.02
34 3 0.02
35 4 0.02
36 7 0.04
37 22 0.12
38 11 0.06
39 9 0.05
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (30 bp):
ATATTATATAGTTTTGAAAACATTTTGAAA
Found at i:6418449 original size:69 final size:68
Alignment explanation
Indices: 6418366--6418731 Score: 510
Period size: 69 Copynumber: 5.4 Consensus size: 68
6418356 TATGTCATAT
* *
6418366 TATATAGTTTTGAAAATATTTTGAAAATTATTGTATATTATATAGTTTTGGAAAACATTTTGAAA
1 TATATAGTTTTGAAAATAATTTGAAAA-TATTATATATTATATAGTTTTGGAAAACATTTTGAAA
6418431 ATAG
65 ATAG
* * *
6418435 TATATAGTTCTGAAAAT-ATTT-TAAA-A--A-ATATTATATAGTTTTAGAAAACATTTTGAAAA
1 TATATAGTTTTGAAAATAATTTGAAAATATTATATATTATATAGTTTTGGAAAACATTTTGAAAA
*
6418494 TAA
66 TAG
* *
6418497 TATATAGTTTTGAAAATAATTTAAAAATGTTATATATTATATAGTTTTGGAAAACATTTTGAAAA
1 TATATAGTTTTGAAAATAATTTGAAAATATTATATATTATATAGTTTTGGAAAACATTTTGAAAA
*
6418562 GAG
66 TAG
* * *
6418565 TATATAGTTTTGAAAATATTTTGGAAAATATTATATATTATATTGTTTTGGAAAACGTTTTGAAA
1 TATATAGTTTTGAAAATAATTT-GAAAATATTATATATTATATAGTTTTGGAAAACATTTTGAAA
*
6418630 ATAA
65 ATAG
* * *
6418634 TATTTAGTTTTGTAAATAATTTGAAAAATATTATATATTATATAGTTTTGAAAAACATTTTGAAA
1 TATATAGTTTTGAAAATAATTTG-AAAATATTATATATTATATAGTTTTGGAAAACATTTTGAAA
6418699 ATAG
65 ATAG
*
6418703 TATATAGTTTTGAAAATAAATTGAAAATA
1 TATATAGTTTTGAAAATAATTTGAAAATA
6418732 AATTGAAAAA
Statistics
Matches: 260, Mismatches: 29, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
62 49 0.19
63 4 0.02
64 3 0.01
65 1 0.00
67 4 0.02
68 63 0.24
69 136 0.52
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (68 bp):
TATATAGTTTTGAAAATAATTTGAAAATATTATATATTATATAGTTTTGGAAAACATTTTGAAAA
TAG
Found at i:6418728 original size:11 final size:11
Alignment explanation
Indices: 6418712--6418744 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
6418702 GTATATAGTT
6418712 TTGAAAATAAA
1 TTGAAAATAAA
6418723 TTGAAAATAAA
1 TTGAAAATAAA
6418734 TTGAAAA-AAA
1 TTGAAAATAAA
6418744 T
1 T
6418745 ATATTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (11 bp):
TTGAAAATAAA
Found at i:6418819 original size:12 final size:12
Alignment explanation
Indices: 6418802--6418835 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6418792 TTTTGGTATA
6418802 TTTATTGTTATT
1 TTTATTGTTATT
6418814 TTTATTGTTA-T
1 TTTATTGTTATT
6418825 TTTATT-TTATT
1 TTTATTGTTATT
6418836 ATTGATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 8 0.38
12 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTATTGTTATT
Found at i:6419956 original size:22 final size:22
Alignment explanation
Indices: 6419928--6420009 Score: 128
Period size: 22 Copynumber: 3.7 Consensus size: 22
6419918 GCATGTGAAA
*
6419928 TATGTCCTGAAGGACCTGTGAG
1 TATGTCCCGAAGGACCTGTGAG
6419950 TATGTCCCGAAGGACCTGTGAG
1 TATGTCCCGAAGGACCTGTGAG
* *
6419972 TATGTCCCGAATGACCTATGAG
1 TATGTCCCGAAGGACCTGTGAG
*
6419994 TATGTCCCGAAAGACC
1 TATGTCCCGAAGGACC
6420010 GCGTAGATCC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (22 bp):
TATGTCCCGAAGGACCTGTGAG
Found at i:6421918 original size:26 final size:25
Alignment explanation
Indices: 6421871--6421919 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
6421861 TTAAATTTAG
**
6421871 CTTCAAATTTAACTTATCAACTCTT
1 CTTCAAATTTAACTTAAAAACTCTT
*
6421896 CTTCAAGATTTCACTTAAAAACTC
1 CTTCAA-ATTTAACTTAAAAACTC
6421920 ATAATCTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (25 bp):
CTTCAAATTTAACTTAAAAACTCTT
Found at i:6425476 original size:19 final size:20
Alignment explanation
Indices: 6425454--6425498 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
6425444 ACGTTTGGTA
6425454 TTTAAATT-A-TTATTATTTT
1 TTTAAATTAAGTT-TTATTTT
*
6425473 TTT-ACTTAAGTTTTATTTT
1 TTTAAATTAAGTTTTATTTT
6425492 TTTAAAT
1 TTTAAAT
6425499 CATACCTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.14
19 14 0.67
20 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTAAATTAAGTTTTATTTT
Found at i:6429306 original size:21 final size:22
Alignment explanation
Indices: 6429282--6429328 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
6429272 TTCGAGTTCT
*
6429282 ATTTTATAATTTGAA-TATAAA
1 ATTTTATAAGTTGAATTATAAA
*
6429303 ATTTTTTAAGTTGAATTTATAAA
1 ATTTTATAAGTTGAA-TTATAAA
6429326 ATT
1 ATT
6429329 ACAAATCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
23 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTTTATAAGTTGAATTATAAA
Found at i:6429528 original size:12 final size:13
Alignment explanation
Indices: 6429506--6429534 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6429496 GGTCGGGTAA
6429506 CGGGGATTTTTTT
1 CGGGGATTTTTTT
6429519 CGGGGA-TTTTTT
1 CGGGGATTTTTTT
6429531 CGGG
1 CGGG
6429535 TCGGGTTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.07, C:0.10, G:0.38, T:0.45
Consensus pattern (13 bp):
CGGGGATTTTTTT
Found at i:6429578 original size:2 final size:2
Alignment explanation
Indices: 6429571--6429640 Score: 96
Period size: 2 Copynumber: 37.5 Consensus size: 2
6429561 CCCCGCCCCG
6429571 AT AT AT AT AT AT AT AT AT AT AT AT -T 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
*
6429612 AT AT AT AT AT -T TT AT AT -T A- AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6429641 AAATATTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
1 5 0.08
2 57 0.92
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6429646 original size:27 final size:29
Alignment explanation
Indices: 6429571--6429649 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 29
6429561 CCCCGCCCCG
*
6429571 ATATATATATATATATATATATATTATAT
1 ATATATATATATATATATATATTTTATAT
6429600 ATATATATATATATATATATATTTTATAT
1 ATATATATATATATATATATATTTTATAT
*
6429629 -TA-AT-TATATATA-AAATATTTT
1 ATATATATATATATATATATATTTT
6429650 TGGATTCGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.17
26 8 0.17
27 2 0.04
28 2 0.04
29 28 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
ATATATATATATATATATATATTTTATAT
Found at i:6436873 original size:23 final size:23
Alignment explanation
Indices: 6436845--6436905 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
6436835 CCCCCATGAG
6436845 GGAACCGATTCCCCCTTTGAAGA
1 GGAACCGATTCCCCCTTTGAAGA
* *
6436868 GGAACCGATTCCCCTTTTGAAGG
1 GGAACCGATTCCCCCTTTGAAGA
6436891 GGAACCGATTCCCCC
1 GGAACCGATTCCCCC
6436906 CCACAGGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (23 bp):
GGAACCGATTCCCCCTTTGAAGA
Found at i:6439539 original size:21 final size:21
Alignment explanation
Indices: 6439513--6439553 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6439503 CATATTGCTC
6439513 AGAGGGAACCGATTCCCCCCA
1 AGAGGGAACCGATTCCCCCCA
*
6439534 AGAGGGTACCGATTCCCCCC
1 AGAGGGAACCGATTCCCCCC
6439554 TGAATGGTTT
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:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (21 bp):
AGAGGGAACCGATTCCCCCCA
Found at i:6444076 original size:13 final size:13
Alignment explanation
Indices: 6444058--6444101 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
6444048 TACAAAACTC
*
6444058 TCATATATCATTT
1 TCATATTTCATTT
*
6444071 TCATATTTCACTT
1 TCATATTTCATTT
*
6444084 TCACATTTCATTT
1 TCATATTTCATTT
6444097 TCATA
1 TCATA
6444102 ATTCGTACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.52
Consensus pattern (13 bp):
TCATATTTCATTT
Found at i:6444118 original size:28 final size:26
Alignment explanation
Indices: 6444065--6444121 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 26
6444055 CTCTCATATA
*
6444065 TCATTTTCATATTTCACTTTCACATT
1 TCATTTTCATAATTCACTTTCACATT
6444091 TCATTTTCATAATTCGTACTTTCACATT
1 TCATTTTCATAATTC--ACTTTCACATT
6444119 TCA
1 TCA
6444122 AAACTCATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 14 0.50
28 14 0.50
ACGTcount: A:0.25, C:0.23, G:0.02, T:0.51
Consensus pattern (26 bp):
TCATTTTCATAATTCACTTTCACATT
Found at i:6444219 original size:19 final size:18
Alignment explanation
Indices: 6444157--6444206 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
6444147 GTTTCCGGAC
6444157 TCATAACTTATTTCATAT
1 TCATAACTTATTTCATAT
6444175 TCATAACTTAATTTCATAT
1 TCATAACTT-ATTTCATAT
*
6444194 TCATAGCTTATTT
1 TCATAACTTATTT
6444207 TCAAGTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (18 bp):
TCATAACTTATTTCATAT
Found at i:6447053 original size:15 final size:15
Alignment explanation
Indices: 6447033--6447085 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
6447023 AAAACACCTA
6447033 ACTTTTGAAAATTAT
1 ACTTTTGAAAATTAT
**** *
6447048 ACTTTTGATCCCTAA
1 ACTTTTGAAAATTAT
6447063 ACTTTTGAAAATTAT
1 ACTTTTGAAAATTAT
6447078 ACTTTTGA
1 ACTTTTGA
6447086 TCCCTAAACT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (15 bp):
ACTTTTGAAAATTAT
Found at i:6447096 original size:15 final size:15
Alignment explanation
Indices: 6447048--6447100 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
6447038 TGAAAATTAT
6447048 ACTTTTGATCCCTAA
1 ACTTTTGATCCCTAA
**** *
6447063 ACTTTTGAAAATTAT
1 ACTTTTGATCCCTAA
6447078 ACTTTTGATCCCTAA
1 ACTTTTGATCCCTAA
6447093 ACTTTTGA
1 ACTTTTGA
6447101 AAATTACCTT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (15 bp):
ACTTTTGATCCCTAA
Found at i:6447134 original size:29 final size:30
Alignment explanation
Indices: 6447032--6447127 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
6447022 CAAAACACCT
6447032 AACTTTTGAAAATTATACTTTTGATCCCTA
1 AACTTTTGAAAATTATACTTTTGATCCCTA
6447062 AACTTTTGAAAATTATACTTTTGATCCCTA
1 AACTTTTGAAAATTATACTTTTGATCCCTA
*
6447092 AACTTTTGAAAATTA-CCTTTTGATCCCTA
1 AACTTTTGAAAATTATACTTTTGATCCCTA
*
6447121 AATTTTT
1 AACTTTT
6447128 CCAAATTCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 19 0.30
30 45 0.70
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (30 bp):
AACTTTTGAAAATTATACTTTTGATCCCTA
Found at i:6448215 original size:27 final size:27
Alignment explanation
Indices: 6448185--6448261 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
6448175 GTTAGATGAG
6448185 AAAT-AATAAATAAATATTAAAT-AAAT
1 AAATAAATAAA-AAATATTAAATAAAAT
* *
6448211 CAAATGAA-AAAAAATAATAAAATAAAAT
1 -AAATAAATAAAAAAT-ATTAAATAAAAT
6448239 AAATAAAATAAAAGAATATTAAA
1 AAAT-AAATAAAA-AATATTAAA
6448262 GTTTTGAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
26 4 0.10
27 17 0.41
28 8 0.20
29 9 0.22
30 3 0.07
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (27 bp):
AAATAAATAAAAAATATTAAATAAAAT
Found at i:6448229 original size:22 final size:22
Alignment explanation
Indices: 6448207--6448249 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6448197 AATATTAAAT
*
6448207 AAATCAAATGAAAAAAAATAATA
1 AAATAAAAT-AAAAAAAATAATA
*
6448230 AAATAAAATAAATAAAATAA
1 AAATAAAATAAAAAAAATAA
6448250 AAGAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAAATAAAAAAAATAATA
Found at i:6448243 original size:14 final size:14
Alignment explanation
Indices: 6448192--6448251 Score: 63
Period size: 14 Copynumber: 4.2 Consensus size: 14
6448182 GAGAAATAAT
6448192 AAATAAATATTAAAT-
1 AAATAAATA--AAATA
6448207 AAATCAAATGAAAA-A
1 AAAT-AAAT-AAAATA
6448222 AAAT-AATAAAATA
1 AAATAAATAAAATA
6448235 AAATAAATAAAATA
1 AAATAAATAAAATA
6448249 AAA
1 AAA
6448252 GAATATTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.10
13 8 0.20
14 12 0.30
15 11 0.28
16 4 0.10
17 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:6450109 original size:106 final size:106
Alignment explanation
Indices: 6449924--6451332 Score: 2137
Period size: 106 Copynumber: 13.6 Consensus size: 106
6449914 TATTGTTCCA
* ** * * *
6449924 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
6449989 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6450030 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * *
6450095 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGCCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
6450136 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
6450201 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6450242 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCAGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
6450307 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6450348 AGTCCAATATCCTTCGTTGAGAAGTTGAAATT-G----G-AA-----AAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
6450402 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6450443 AGTTCAATATCCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
6450496 CAGCGGTCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
6450537 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG----GAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
6450598 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
6450639 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
6450703 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6450744 AGTCCAATATCCTTCGTGGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
6450809 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
6450850 AGT-CAAGATCCTTCGTTGAGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
6450913 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
6450954 AGTCCAATATCCTTCGTGGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
6451019 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
6451060 AGT-CAAGATCCTTCGTTGAGAAGTTGAAATTGGCTCTGAAATTGAGG-AA-TATTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GGAAATTGTTTATTGACAA
* **
6451122 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATAT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
6451164 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
6451229 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
6451270 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTGTTTGTTGACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
6451333 GACAACTTTT
Statistics
Matches: 1198, Mismatches: 76, Indels: 58
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.00
88 3 0.00
89 4 0.00
90 1 0.00
94 73 0.06
95 75 0.06
96 1 0.00
99 1 0.00
100 4 0.00
101 3 0.00
102 96 0.08
104 113 0.09
105 265 0.22
106 558 0.47
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:6450736 original size:105 final size:105
Alignment explanation
Indices: 6450468--6451332 Score: 1339
Period size: 105 Copynumber: 8.2 Consensus size: 105
6450458 GTTGTGAAGT
* * *
6450468 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAGCTTGTGTTGT
1 TGAAATTGAGAAA-TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
6450533 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG---
65 CTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
6450571 -GAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
6450635 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
6450676 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATC
1 TGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
6450741 TGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATTGGCTC
66 TAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
6450781 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAA-TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
6450846 CTAGAGT-CAAGATCCTTCGTTGAGAAGTTGAAATTGGCTC
65 CTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
6450886 TGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
6450951 TGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATTGGCTC
66 TAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
6450991 TGAAATTGGGAAATTGTTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAA-TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
6451056 CTAGAGT-CAAGATCCTTCGTTGAGAAGTTGAAATTGGCTC
65 CTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
6451096 TGAAATTGAGGAATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTA
1 TGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
6451161 TATAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
6451201 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
6451266 CTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
65 CTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
6451307 CGAAATTG-GAAAATTGTTTGTTGACA
1 TGAAATTGAG-AAA-TGTTTATTGACA
6451333 GACAACTTTT
Statistics
Matches: 703, Mismatches: 47, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
102 95 0.14
104 111 0.16
105 268 0.38
106 229 0.33
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (105 bp):
TGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:6455079 original size:12 final size:13
Alignment explanation
Indices: 6455062--6455090 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6455052 CTTAATAGCG
6455062 AAAATTAAAA-TT
1 AAAATTAAAATTT
6455074 AAAATTAAAATTT
1 AAAATTAAAATTT
6455087 AAAA
1 AAAA
6455091 ATCCAATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:6455187 original size:27 final size:27
Alignment explanation
Indices: 6455157--6455233 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
6455147 GTTAGATGAG
6455157 AAAT-AATAAATAAATATTAAAT-AAAT
1 AAATAAATAAA-AAATATTAAATAAAAT
* *
6455183 CAAATGAA-AAAAAATAATAAAATAAAAT
1 -AAATAAATAAAAAAT-ATTAAATAAAAT
6455211 AAATAAAATAAAAGAATATTAAA
1 AAAT-AAATAAAA-AATATTAAA
6455234 GTTTTGAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
26 4 0.10
27 17 0.41
28 8 0.20
29 9 0.22
30 3 0.07
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (27 bp):
AAATAAATAAAAAATATTAAATAAAAT
Found at i:6455201 original size:22 final size:22
Alignment explanation
Indices: 6455179--6455221 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6455169 AATATTAAAT
*
6455179 AAATCAAATGAAAAAAAATAATA
1 AAATAAAAT-AAAAAAAATAATA
*
6455202 AAATAAAATAAATAAAATAA
1 AAATAAAATAAAAAAAATAA
6455222 AAGAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAAATAAAAAAAATAATA
Found at i:6455215 original size:14 final size:14
Alignment explanation
Indices: 6455164--6455223 Score: 63
Period size: 14 Copynumber: 4.2 Consensus size: 14
6455154 GAGAAATAAT
6455164 AAATAAATATTAAAT-
1 AAATAAATA--AAATA
6455179 AAATCAAATGAAAA-A
1 AAAT-AAAT-AAAATA
6455194 AAAT-AATAAAATA
1 AAATAAATAAAATA
6455207 AAATAAATAAAATA
1 AAATAAATAAAATA
6455221 AAA
1 AAA
6455224 GAATATTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.10
13 8 0.20
14 12 0.30
15 11 0.28
16 4 0.10
17 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:6456561 original size:51 final size:51
Alignment explanation
Indices: 6456482--6456605 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 51
6456472 TGAGTTTACC
* * * * * *
6456482 AAAATA-ATATTTTTATTCAAACTCATCATGTCAAGATGATAAGTTCT-AAT
1 AAAATATATTTTTTTATTAAAATTCATCATATCAAGATAAAAAGTT-TGAAT
*
6456532 AAAATATATTTTTTTATTAAAATTTATCATATCAAGATAAAAAGTTTGAAT
1 AAAATATATTTTTTTATTAAAATTCATCATATCAAGATAAAAAGTTTGAAT
6456583 AAAAT-T-TTTTTTTATTAAAATTC
1 AAAATATATTTTTTTATTAAAATTC
6456606 GATACTTTGA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
49 16 0.25
50 8 0.12
51 40 0.62
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.44
Consensus pattern (51 bp):
AAAATATATTTTTTTATTAAAATTCATCATATCAAGATAAAAAGTTTGAAT
Found at i:6464493 original size:21 final size:21
Alignment explanation
Indices: 6464467--6464509 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6464457 ATTCTGGGTT
* *
6464467 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
6464488 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
6464509 A
1 A
6464510 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:6464584 original size:67 final size:68
Alignment explanation
Indices: 6464489--6464640 Score: 225
Period size: 68 Copynumber: 2.2 Consensus size: 68
6464479 ACCCATTCAA
* * *
6464489 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
6464553 GGG
66 GGG
* * * *
6464556 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
6464621 GGG
66 GGG
*
6464624 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
6464641 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
67 26 0.34
68 50 0.66
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGG
Found at i:6464985 original size:29 final size:29
Alignment explanation
Indices: 6464943--6465014 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
6464933 CATATTATGA
* **
6464943 TACATAACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* * *
6464972 TACATGACGTGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
6465001 TACATGACATGAAT
1 TACATGACATGAAT
6465015 ATGCAGAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:6465380 original size:22 final size:22
Alignment explanation
Indices: 6465306--6465372 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
6465296 TTATGGACAT
6465306 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6465328 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6465350 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6465372 A
1 A
6465373 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:6471446 original size:21 final size:21
Alignment explanation
Indices: 6471420--6471462 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6471410 ATTCTGGGTT
* *
6471420 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
6471441 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
6471462 A
1 A
6471463 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:6471536 original size:66 final size:66
Alignment explanation
Indices: 6471420--6471589 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 66
6471410 ATTCTGGGTT
* * * *
6471420 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGC
6471484 TAG
64 TAG
* * * *
6471487 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCTT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTA
6471552 G
66 G
* *
6471553 A-GGGAATCGATACCCCCAGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCC
6471590 ATGAGAAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 36 0.39
66 40 0.43
67 16 0.17
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (66 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTA
G
Found at i:6471934 original size:29 final size:29
Alignment explanation
Indices: 6471892--6471963 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
6471882 CATATTATGA
* **
6471892 TACATAACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* * *
6471921 TACATGACGTGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
6471950 TACATGACATGAAT
1 TACATGACATGAAT
6471964 ATGCAGAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:6472329 original size:22 final size:22
Alignment explanation
Indices: 6472255--6472321 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
6472245 TTATGGACAT
6472255 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6472277 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6472299 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6472321 A
1 A
6472322 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:6474850 original size:211 final size:213
Alignment explanation
Indices: 6474464--6474861 Score: 604
Period size: 211 Copynumber: 1.9 Consensus size: 213
6474454 ACTTGATTTT
* * *
6474464 ATTCGAAATAAATTTAAATTAAGTTCGAGTTGTAAAATATGACTCGTCAACTTGAATAACTCAAA
1 ATTCGAAAAAAATTCAAATTAAGTTCGAGTTGTAAAATATGACTCGTCAACTCGAATAACTCAAA
*** * *
6474529 ATTTTTTGACTTGACTAGACTCGATCAAATGTTCACCCCTAATTACACCCTCATGTGGTCGAACA
66 AAAATTTAACTTGACT--A-TCGATCAAATGGTCACCCCTAATTACACCCTCATGTGGTCGAACA
* * *
6474594 AGTGCTTGGACAACATAATCAGAATCAAGTCTAACGGAATTATGGACAAATATTGATGTTGCATG
128 AGTGCTTAGACAACATAATCAGAATCAAGTCAAACGAAATTATGGACAAATATTGATGTTGCATG
6474659 TGTTTGATTTGACTCGACTCG
193 TGTTTGATTTGACTCGACTCG
6474680 ATTC-AAAAAAATTCAAATTAAGTTCGAGTTGTAAAATATGACTCGTCAACTCGAATAACTCAAA
1 ATTCGAAAAAAATTCAAATTAAGTTCGAGTTGTAAAATATGACTCGTCAACTCGAATAACTCAAA
** *
6474744 AAAATTTAACTTGACT-T-GATTGAATGGTCACCCCTAATTATCACCCTCATGTGGTCGATCAAG
66 AAAATTTAACTTGACTATCGATCAAATGGTCACCCCTAATTA-CACCCTCATGTGGTCGAACAAG
*
6474807 TGCTTAGACAACATAATCAGAATCAAGTCAAATGAAATTATGGACAAATATTGAT
130 TGCTTAGACAACATAATCAGAATCAAGTCAAACGAAATTATGGACAAATATTGAT
6474862 TTTATATATT
Statistics
Matches: 166, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
210 20 0.12
211 73 0.44
215 69 0.42
216 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (213 bp):
ATTCGAAAAAAATTCAAATTAAGTTCGAGTTGTAAAATATGACTCGTCAACTCGAATAACTCAAA
AAAATTTAACTTGACTATCGATCAAATGGTCACCCCTAATTACACCCTCATGTGGTCGAACAAGT
GCTTAGACAACATAATCAGAATCAAGTCAAACGAAATTATGGACAAATATTGATGTTGCATGTGT
TTGATTTGACTCGACTCG
Found at i:6481104 original size:35 final size:35
Alignment explanation
Indices: 6481064--6481175 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
6481054 AAAATAGTCC
*
6481064 TCAATTTCATTCTAAACCCCAATTTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
6481099 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
** * * * *
6481134 TCAATTAAATTTTAAACCTCAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
6481169 TCAATTT
1 TCAATTT
6481176 AAGGTTTAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:6481239 original size:35 final size:35
Alignment explanation
Indices: 6481171--6481245 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
6481161 AAAATACTTC
* * *
6481171 AATTTAAGGTTTAGAATGTAATTGAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
* *
6481206 AATTTAGGGTTTAGAATGAAATT-AAGGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTGAA-GTATTTTGA
6481241 AATTT
1 AATTT
6481246 TGAACATGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
Found at i:6485927 original size:157 final size:156
Alignment explanation
Indices: 6485628--6485941 Score: 603
Period size: 156 Copynumber: 2.0 Consensus size: 156
6485618 GGCCCAAATC
6485628 ACATGACCCAAGTGACCAGCTGCCCAAACCAGTAGGATTAGGGTTTGTGTAAAACCCTAATCTCT
1 ACATGACCCAAGTGACCAGCTGCCCAAACCAGTAGGATTAGGGTTTGTGTAAAACCCTAATCTCT
6485693 CAACCTTTCATCCAGCCGCCAACAATGGTGACCGTGGATCTAGATGAGATCCAACGGTCCACAGC
66 CAACCTTTCATCCAGCCGCCAACAATGGTGACCGTGGATCTAGATGAGATCCAACGGTCCACAGC
6485758 AAATGGTATCCAAGGGTTGCCCAGAA
131 AAATGGTATCCAAGGGTTGCCCAGAA
6485784 ACATGACCCAAGTGACCAGCTGCCCAAACCAGTATGGATTAGGGTTTGTGT-AAACCCTAATCTC
1 ACATGACCCAAGTGACCAGCTGCCCAAACCAGTA-GGATTAGGGTTTGTGTAAAACCCTAATCTC
6485848 TCAACCTTTCATCCAGCCGCCAACAATGGTGACCGTTGGATCTAGATGAGATCCAACGGTCCACA
65 TCAACCTTTCATCCAGCCGCCAACAATGGTGACCG-TGGATCTAGATGAGATCCAACGGTCCACA
6485913 GCAAATGGTATCCAAGGGTTGCCCAGAA
129 GCAAATGGTATCCAAGGGTTGCCCAGAA
6485941 A
1 A
6485942 ACCCTAGCAA
Statistics
Matches: 156, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
156 82 0.53
157 74 0.47
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (156 bp):
ACATGACCCAAGTGACCAGCTGCCCAAACCAGTAGGATTAGGGTTTGTGTAAAACCCTAATCTCT
CAACCTTTCATCCAGCCGCCAACAATGGTGACCGTGGATCTAGATGAGATCCAACGGTCCACAGC
AAATGGTATCCAAGGGTTGCCCAGAA
Found at i:6487119 original size:19 final size:18
Alignment explanation
Indices: 6487095--6487130 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6487085 TATTACTATA
*
6487095 ATTATTATTTAATTTTTCT
1 ATTATTATAT-ATTTTTCT
6487114 ATTATTATATATTTTTC
1 ATTATTATATATTTTTC
6487131 CCTCTCTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATTATATATTTTTCT
Found at i:6497533 original size:1 final size:1
Alignment explanation
Indices: 6497527--6497564 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
6497517 CGTTAAGTTG
*
6497527 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6497565 CGTTTAGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:6498607 original size:106 final size:106
Alignment explanation
Indices: 6498353--6498814 Score: 716
Period size: 105 Copynumber: 4.4 Consensus size: 106
6498343 AGGTTTTACC
*
6498353 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCACG
* * *
6498418 ACGAAGGGACCGCTGGTTGTCAACGAA-CATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
*
6498458 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCACG
6498523 ACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
*
6498564 CGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCACG
6498629 ACGAAGGGACCGCTGGTTGTCAACAAATAATTT-CCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
* * *
6498669 CGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCAC--AAGCTCAACTTCA
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGAC-G-ACGTAAGTTCAACTTCA
* * ** * * *
6498732 CGACGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTC
64 CGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
* *
6498775 CAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
6498815 TGAACAATAC
Statistics
Matches: 334, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
105 182 0.54
106 150 0.45
107 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (106 bp):
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTT
Found at i:6498729 original size:211 final size:210
Alignment explanation
Indices: 6498352--6498814 Score: 723
Period size: 211 Copynumber: 2.2 Consensus size: 210
6498342 CAGGTTTTAC
6498352 CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
* *
6498417 GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
66 GACGAAGGGACCGCTGGTTGTCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
* * **
6498482 GAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
131 GAAGGATATTGGACTCAAGACGACG-AAGCTCAACTTCACGACGAAGGGACCGCTGACTGTCAAC
*
6498547 AAATAATTTCCCAATT
195 AAACAATTTCCCAATT
* * *
6498563 TCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGTAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
* *
6498628 GACGAAGGGACCGCTGGTTGTCAACAAATAATTTC-CAATTTCGGAGCCAATTTCAACTTCACAG
66 GACGAAGGGACCGCTGGTTGTCAACAAA-AATTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
* *
6498692 CGAAGGATATTGGACTCAAGACAGCAC-AAGCTCAACTTCACGACGAAGGGGCGGCTGACTGTCA
130 CGAAGGATATTGGACTCAAGAC-G-ACGAAGCTCAACTTCACGACGAAGGGACCGCTGACTGTCA
*
6498756 ACAAACAATTTCCCAGTT
193 ACAAACAATTTCCCAATT
* *
6498774 CCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
6498815 TGAACAATAC
Statistics
Matches: 230, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
211 222 0.97
212 6 0.03
213 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (210 bp):
CCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
GAAGGATATTGGACTCAAGACGACGAAGCTCAACTTCACGACGAAGGGACCGCTGACTGTCAACA
AACAATTTCCCAATT
Found at i:6500804 original size:19 final size:21
Alignment explanation
Indices: 6500780--6500818 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
6500770 TATTACTATA
6500780 ATTATTATT-TA-ATTTTTCT
1 ATTATTATTATATATTTTTCT
6500799 ATTATTATTATATATTTTTC
1 ATTATTATTATATATTTTTC
6500819 CCTCTCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATTATTATATATTTTTCT
Found at i:6500805 original size:22 final size:21
Alignment explanation
Indices: 6500775--6500818 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6500765 TTTTGTATTA
*
6500775 CTATAATTATTATTTAATTTTT
1 CTATAATTATTATAT-ATTTTT
*
6500797 CTATTATTATTATATATTTTT
1 CTATAATTATTATATATTTTT
6500818 C
1 C
6500819 CCTCTCTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
CTATAATTATTATATATTTTT
Found at i:6502508 original size:30 final size:30
Alignment explanation
Indices: 6502474--6502538 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
6502464 TAGTGTATAC
* * * *
6502474 AAATTAGATTGAAAGGGTCAGCTATATAAT
1 AAATTAGACTGAAAGGATCACCTACATAAT
*
6502504 AAATTAGACTGAAATGATCACCTACATAAT
1 AAATTAGACTGAAAGGATCACCTACATAAT
6502534 AAATT
1 AAATT
6502539 TTTATAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (30 bp):
AAATTAGACTGAAAGGATCACCTACATAAT
Found at i:6503470 original size:30 final size:29
Alignment explanation
Indices: 6503424--6503480 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
6503414 GTCAATGTGA
6503424 CCACCAAACTTTTAATTGAA-TCAATCAGG
1 CCACCAAACTTTTAATT-AATTCAATCAGG
*
6503453 CCACCCAACTATTTAATTAATTCAATCA
1 CCACCAAACT-TTTAATTAATTCAATCA
6503481 AACAACCGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (29 bp):
CCACCAAACTTTTAATTAATTCAATCAGG
Found at i:6507426 original size:156 final size:154
Alignment explanation
Indices: 6507135--6507428 Score: 372
Period size: 156 Copynumber: 1.9 Consensus size: 154
6507125 GTCTCCCAAT
* * * ***
6507135 GGGCCACTCTCTCATGGCTTGGTTGCAAGTGGTCGCATGCGTCTCCTCAAGGTCCCTTGCGTGGC
1 GGGCCACTCTCTCAGGGCTGGGTTGCAAGTGGTCGCATGCGTCTCCTCAAGATCCCACCCGTGGC
* * * * *
6507200 CGACAAAGTCGCATGACATGCCACTCACGTAGGTATAGTAGGTAGGTGGTATTCAAATTATAAAA
66 CGACAAAATCGCATGACATGCCACTCACATAGGTACAGTAGGTAGGTGGCATTCAAATGATAAAA
*
6507265 GTTTAACCCATGTGTTTCCTAAAG
131 ATTTAACCCATGTGTTTCCTAAAG
* * * **
6507289 GGGCCACTCTCTCAGGGGCTGGGTTGCAAGTGGTCGTATGTGTTTCCTCGCGATCCCCACCCGTG
1 GGGCCACTCTCTCA-GGGCTGGGTTGCAAGTGGTCGCATGCGTCTCCTCAAGAT-CCCACCCGTG
* ** * *
6507354 GCCGACAAAATCGCATGGCATGCTTCTCACATAGGTACAGTAGGTAGTTGGCATTCGAATGATAA
64 GCCGACAAAATCGCATGACATGCCACTCACATAGGTACAGTAGGTAGGTGGCATTCAAATGATAA
6507419 AAATTTAACC
129 AAATTTAACC
6507429 GATACCCATA
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
154 14 0.12
155 31 0.27
156 71 0.61
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (154 bp):
GGGCCACTCTCTCAGGGCTGGGTTGCAAGTGGTCGCATGCGTCTCCTCAAGATCCCACCCGTGGC
CGACAAAATCGCATGACATGCCACTCACATAGGTACAGTAGGTAGGTGGCATTCAAATGATAAAA
ATTTAACCCATGTGTTTCCTAAAG
Found at i:6507830 original size:48 final size:48
Alignment explanation
Indices: 6507757--6507848 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
6507747 TATTTGAGGT
*
6507757 ATTTTACTATTGATTATTATGTTAATATTATTTTTATAAGTATATGTTA
1 ATTTTACGATTGATTATTATGTTAATATTATTTTTATAA-TATATGTTA
*
6507806 ATTTTACGATTG-TTGTTATGTTAATATTATTTTTATAATATAT
1 ATTTTACGATTGATTATTATGTTAATATTATTTTTATAATATAT
6507849 AATATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 5 0.12
48 25 0.61
49 11 0.27
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.58
Consensus pattern (48 bp):
ATTTTACGATTGATTATTATGTTAATATTATTTTTATAATATATGTTA
Found at i:6508557 original size:15 final size:15
Alignment explanation
Indices: 6508537--6508566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6508527 AATAAATAAC
6508537 TTAATTTAAATAAAT
1 TTAATTTAAATAAAT
*
6508552 TTAATTTAATTAAAT
1 TTAATTTAAATAAAT
6508567 AGTATTATTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTTAAATAAAT
Found at i:6510156 original size:17 final size:17
Alignment explanation
Indices: 6510134--6510170 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6510124 ATTCGAGTTT
*
6510134 GAGTTCGACCTTGAATC
1 GAGTTCGACCTTCAATC
*
6510151 GAGTTCGAGCTTCAATC
1 GAGTTCGACCTTCAATC
6510168 GAG
1 GAG
6510171 CTCTTGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (17 bp):
GAGTTCGACCTTCAATC
Found at i:6511262 original size:18 final size:18
Alignment explanation
Indices: 6511239--6511279 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6511229 TACTTCTAAC
*
6511239 ATTTTAAAATTATTATAT
1 ATTTTAAAATTATTAAAT
*
6511257 ATTTTAAAATTTTTAAAT
1 ATTTTAAAATTATTAAAT
6511275 ATTTT
1 ATTTT
6511280 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTAAAATTATTAAAT
Found at i:6518079 original size:36 final size:35
Alignment explanation
Indices: 6518038--6518107 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
6518028 CTTCTTATTA
* *
6518038 TGAAAACCCTAACCTCCAAAAAAATCAGAAACCCAT
1 TGAAAACCATAACCTCC-AAAAAATCAAAAACCCAT
* *
6518074 TGAAAATCATAACCTCCACAAAATCAAAAACCCA
1 TGAAAACCATAACCTCCAAAAAATCAAAAACCCA
6518108 AAAATCATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.51, C:0.30, G:0.04, T:0.14
Consensus pattern (35 bp):
TGAAAACCATAACCTCCAAAAAATCAAAAACCCAT
Found at i:6518113 original size:15 final size:16
Alignment explanation
Indices: 6518089--6518128 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
6518079 ATCATAACCT
6518089 CCACAAAATCAAAAAC
1 CCACAAAATCAAAAAC
* *
6518105 CCA-AAAATCATAACC
1 CCACAAAATCAAAAAC
6518120 CCACAAAAT
1 CCACAAAAT
6518129 GATTCTCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (16 bp):
CCACAAAATCAAAAAC
Found at i:6524525 original size:28 final size:27
Alignment explanation
Indices: 6524442--6524530 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 27
6524432 ACCCTTGTTT
* *
6524442 TAAATTGATCCTATATTTTTAACATTC
1 TAAATTGATCCCAAATTTTTAACATTC
* * **
6524469 TAATTTCATCTCCAAA-TTTGGACACTTC
1 TAAATTGATC-CCAAATTTTTAACA-TTC
6524497 TAAATTGATCCCAAATTTTTCAACATTC
1 TAAATTGATCCCAAATTTTT-AACATTC
6524525 TAAATT
1 TAAATT
6524531 CATTCATAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
27 19 0.40
28 26 0.54
29 3 0.06
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (27 bp):
TAAATTGATCCCAAATTTTTAACATTC
Found at i:6525509 original size:14 final size:14
Alignment explanation
Indices: 6525490--6525535 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
6525480 CGTTCGTGAA
*
6525490 CGTTCGGTTATATT
1 CGTTCGGTTATGTT
6525504 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
6525518 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
6525532 CGTT
1 CGTT
6525536 TATGTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:6525552 original size:24 final size:24
Alignment explanation
Indices: 6525505--6525555 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6525495 GGTTATATTC
* *
6525505 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
* *
6525529 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
6525553 GTT
1 GTT
6525556 TAACCCAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.55
Consensus pattern (24 bp):
GTTCGGTTATGTTCATTCAGTTAT
Found at i:6526648 original size:10 final size:10
Alignment explanation
Indices: 6526633--6526689 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 10
6526623 GGTCTCCAAT
6526633 GTTTATGTTC
1 GTTTATGTTC
6526643 GTTTATGTTC
1 GTTTATGTTC
6526653 G----TGTTC
1 GTTTATGTTC
6526659 GTTTATGTTC
1 GTTTATGTTC
6526669 G----TGTTC
1 GTTTATGTTC
6526675 GTTTATGTTC
1 GTTTATGTTC
6526685 GTTTA
1 GTTTA
6526690 CGAACATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
6 12 0.31
10 27 0.69
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.58
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:6526657 original size:16 final size:16
Alignment explanation
Indices: 6526638--6526686 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
6526628 CCAATGTTTA
6526638 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
6526654 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
6526670 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
6526686 T
1 T
6526687 TTACGAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:6529544 original size:15 final size:17
Alignment explanation
Indices: 6529516--6529547 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
6529506 TTTATTGTCG
6529516 TTTATAAATATAATTAA
1 TTTATAAATATAATTAA
6529533 TTTA-AAAT-TAATTAA
1 TTTATAAATATAATTAA
6529548 ATGATTTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATAAATATAATTAA
Found at i:6529660 original size:16 final size:16
Alignment explanation
Indices: 6529614--6529661 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6529604 GTACGATGTG
6529614 TATATATTATTTTAAA
1 TATATATTATTTTAAA
* *
6529630 -ATCTAATTTTTTTAAA
1 TATAT-ATTATTTTAAA
*
6529646 TATATATTATCTTAAA
1 TATATATTATTTTAAA
6529662 ATCATTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
15 3 0.12
16 19 0.76
17 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATATTATTTTAAA
Found at i:6534062 original size:12 final size:12
Alignment explanation
Indices: 6534046--6534102 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
6534036 ACACACTCGT
6534046 GAACATATATGC
1 GAACATATATGC
* * * *
6534058 AAACACATTTGT
1 GAACATATATGC
6534070 GAACATATATGC
1 GAACATATATGC
* * *
6534082 GAACACATTTGT
1 GAACATATATGC
6534094 GAACATATA
1 GAACATATA
6534103 CATGAACATG
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (12 bp):
GAACATATATGC
Found at i:6534062 original size:24 final size:24
Alignment explanation
Indices: 6534035--6534102 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
6534025 GCACTAAATG
* *
6534035 AACACACTCGTGAACATATATGCA
1 AACACATTTGTGAACATATATGCA
*
6534059 AACACATTTGTGAACATATATGCG
1 AACACATTTGTGAACATATATGCA
6534083 AACACATTTGTGAACATATA
1 AACACATTTGTGAACATATA
6534103 CATGAACATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.26
Consensus pattern (24 bp):
AACACATTTGTGAACATATATGCA
Found at i:6534109 original size:24 final size:23
Alignment explanation
Indices: 6534031--6534110 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 23
6534021 ACAAGCACTA
* *
6534031 AATGAACACACTCGTGAACATAT
1 AATGAACACATTTGTGAACATAT
6534054 -ATGCAAACACATTTGTGAACATAT
1 AATG--AACACATTTGTGAACATAT
6534078 -ATGCGAACACATTTGTGAACATAT
1 AAT--GAACACATTTGTGAACATAT
6534102 ACATGAACA
1 A-ATGAACA
6534111 TGTTCACAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.06
24 43 0.88
26 3 0.06
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (23 bp):
AATGAACACATTTGTGAACATAT
Found at i:6534567 original size:2 final size:2
Alignment explanation
Indices: 6534560--6534597 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6534550 TATTGTTTTA
6534560 AT 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
6534598 TTAACAATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6534571 original size:19 final size:20
Alignment explanation
Indices: 6534522--6534574 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
6534512 AATGATATAT
6534522 TTATATATGATAGTTTTAAAA
1 TTATATAT-ATAGTTTTAAAA
* * *
6534543 TTATAGATATTGTTTTAATA
1 TTATATATATAGTTTTAAAA
6534563 TATATATATATA
1 T-TATATATATA
6534575 TATATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
TTATATATATAGTTTTAAAA
Found at i:6536977 original size:103 final size:103
Alignment explanation
Indices: 6536794--6537006 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
6536784 TAATTTCCAT
* * *
6536794 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
6536859 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
6536897 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAATATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
*
6536962 GACTTCACACGTGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
6537000 AAGGACC
1 AAGGACC
6537007 GCGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:6538416 original size:22 final size:21
Alignment explanation
Indices: 6538385--6538444 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
6538375 TTCGCTTAAG
*
6538385 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
*
6538407 GGGTAGCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
6538427 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
6538445 CCCATAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 16 0.46
21 9 0.26
22 10 0.29
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:6539373 original size:16 final size:16
Alignment explanation
Indices: 6539334--6539376 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6539324 AACATCAGTT
*
6539334 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
6539350 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
6539367 CTTATCAATC
1 CTTATCAATC
6539377 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:6542141 original size:23 final size:23
Alignment explanation
Indices: 6542115--6542183 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
6542105 CACCACAGAT
*
6542115 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
6542138 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
6542161 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
6542184 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:6542370 original size:103 final size:103
Alignment explanation
Indices: 6542205--6542411 Score: 369
Period size: 103 Copynumber: 2.0 Consensus size: 103
6542195 CCATAAGGAT
* * *
6542205 CACATATCATTCCTTGAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTC
1 CACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTC
6542270 ACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
66 ACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
*
6542308 CACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTC
1 CACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTC
*
6542373 ACACATGTTCCAAAGAATACATATATGTCCCGAAGGAC
66 ACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
6542411 C
1 C
6542412 GCGTAGACCC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (103 bp):
CACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTC
ACACATGTTCCAAAGAATACATATATGTCCCGAAAGAC
Found at i:6543805 original size:22 final size:21
Alignment explanation
Indices: 6543780--6543839 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
6543770 TTCGCTTGAG
*
6543780 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
*
6543802 GGGTAGCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
6543822 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
6543840 CCCATAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 16 0.46
21 9 0.26
22 10 0.29
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:6546711 original size:22 final size:19
Alignment explanation
Indices: 6546686--6546737 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
6546676 TGTTAAGATT
6546686 TTATTTAATAATATATAATACA
1 TTATTTAATAATAT-TAAT--A
*
6546708 TTA-TTAATAAAATTAATA
1 TTATTTAATAATATTAATA
*
6546726 TTATTTATTAAT
1 TTATTTAATAAT
6546738 TCTATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.23
20 4 0.15
21 9 0.35
22 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATATTAATA
Found at i:6546753 original size:24 final size:23
Alignment explanation
Indices: 6546722--6546782 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
6546712 TAATAAAATT
*
6546722 AATATTATTTATTAATTCTATAAA
1 AATATTATTTATTAATTAT-TAAA
* *
6546746 AATATTA-TTATTAAATATTTAA
1 AATATTATTTATTAATTATTAAA
6546768 AATA-TATTTATTAAT
1 AATATTATTTATTAAT
6546783 AATTTTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 14 0.44
23 9 0.28
24 7 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATTATTTATTAATTATTAAA
Found at i:6546787 original size:22 final size:22
Alignment explanation
Indices: 6546685--6546787 Score: 61
Period size: 22 Copynumber: 4.6 Consensus size: 22
6546675 CTGTTAAGAT
* * *
6546685 TTTATTTAATAATATATAATACA
1 TTTA-TTAATAATTTAAAATATA
* *
6546708 -TTATTAATAAAATTAATAT-TA
1 TTTATTAAT-AATTTAAAATATA
** *
6546729 TTTATTAATTCTATAAAA-ATA
1 TTTATTAATAATTTAAAATATA
6546750 TTATTATTAA-ATATTTAAAATATA
1 -T-TTATTAATA-ATTTAAAATATA
6546774 TTTATTAATAATTT
1 TTTATTAATAATTT
6546788 TTAGAATATA
Statistics
Matches: 59, Mismatches: 13, Indels: 17
0.66 0.15 0.19
Matches are distributed among these distances:
21 12 0.20
22 29 0.49
23 15 0.25
24 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATTAATAATTTAAAATATA
Found at i:6546790 original size:24 final size:24
Alignment explanation
Indices: 6546742--6546812 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
6546732 ATTAATTCTA
*
6546742 TAAAA-ATATTATTATTAAATATT
1 TAAAATATATTATTAATAAATATT
*
6546765 TAAAATATATTTATTAAT-AATTTT
1 TAAAATATA-TTATTAATAAATATT
* *
6546789 TAGAATATAATA-TAATATAATATT
1 TAAAATATATTATTAATA-AATATT
6546813 ATAATTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 4 0.10
23 7 0.18
24 21 0.54
25 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (24 bp):
TAAAATATATTATTAATAAATATT
Found at i:6546921 original size:29 final size:30
Alignment explanation
Indices: 6546795--6546905 Score: 99
Period size: 30 Copynumber: 3.8 Consensus size: 30
6546785 TTTTTAGAAT
*
6546795 ATAATATAATATAATATTATAAT-TT--TTA
1 ATAAT-TAATATAATATTATAATATTGATAA
* * * * *
6546823 AT-ATTACA-ATAATATTCTTATCTTAATAC
1 ATAATTA-ATATAATATTATAATATTGATAA
*
6546852 ATAATTAATATAATATTCTAATATTGATAA
1 ATAATTAATATAATATTATAATATTGATAA
6546882 ATAATTAATATAAT-TTATAATATT
1 ATAATTAATATAATATTATAATATT
6546906 TTGATAATCT
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
26 13 0.19
27 5 0.07
28 2 0.03
29 13 0.19
30 35 0.51
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.47
Consensus pattern (30 bp):
ATAATTAATATAATATTATAATATTGATAA
Found at i:6546947 original size:28 final size:32
Alignment explanation
Indices: 6546894--6546952 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 32
6546884 AATTAATATA
6546894 ATTTATAATATTTTGATAATCTTAATATTTTT
1 ATTTATAATATTTTGATAATCTTAATATTTTT
6546926 ATTTATAA-ATTTT-ATAA-C-TAATATTTT
1 ATTTATAATATTTTGATAATCTTAATATTTT
6546953 AATAATGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 9 0.33
29 1 0.04
30 4 0.15
31 5 0.19
32 8 0.30
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (32 bp):
ATTTATAATATTTTGATAATCTTAATATTTTT
Found at i:6547006 original size:23 final size:24
Alignment explanation
Indices: 6546979--6547037 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
6546969 TAAATAATAT
6546979 TAAATAAATTATACTAATATTTAA
1 TAAATAAATTATACTAATATTTAA
* * *
6547003 -AAATAAA-AATATTAATTTTTAA
1 TAAATAAATTATACTAATATTTAA
6547025 TAAATAATATTAT
1 TAAATAA-ATTAT
6547038 TTATTACATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
22 12 0.43
23 13 0.46
24 1 0.04
25 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAATAAATTATACTAATATTTAA
Done.