Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 49 of 210
Found at i:17286015 original size:15 final size:15
Alignment explanation
Indices: 17285995--17286024 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17285985 TTAACTATTT
*
17285995 TTATTATTATTGTTA
1 TTATTATTAATGTTA
17286010 TTATTATTAATGTTA
1 TTATTATTAATGTTA
17286025 CCATAACTAT
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TTATTATTAATGTTA
Found at i:17291704 original size:22 final size:21
Alignment explanation
Indices: 17291663--17291704 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17291653 AAACAACAAT
**
17291663 ACATATAAAATAAAGTAATGC
1 ACATATAAAATAAACCAATGC
17291684 ACATATAAAAATAAACCAATG
1 ACATAT-AAAATAAACCAATG
17291705 TATATTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (21 bp):
ACATATAAAATAAACCAATGC
Found at i:17293214 original size:50 final size:50
Alignment explanation
Indices: 17293154--17293721 Score: 411
Period size: 50 Copynumber: 11.4 Consensus size: 50
17293144 GTGATGTCGA
* * * * *
17293154 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACAACGCCTG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
* * * * * ** * *
17293204 GGAAGTAAGATTTGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
* * * * *
17293254 GGAAGCGAGATTCACTGTTGTGGCGTTAATCTGTTCCACTACACCGTCAG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
** * * ** * *
17293304 GGAAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
* * * * * *
17293354 GGATGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
* ** ** * *
17293404 GGAAGTAAGATTCGCTGTTGTACCTTTAATCAT-TTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATC-TGTTCCACTGCAACGTCAG
* * * * *
17293454 GGAAGCAAGATTCACCGATGTGGCTTTAATTTGTTCCACTGC-ACTGCCAG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAAC-GTCAG
** * * * * ** * *
17293504 GGAAATAAGATCCGCTGTTGTAGCTTTCATCTTTTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
* * * * *
17293554 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
** * * ** * *
17293604 GGAAATAAGATTTGCTGTTGTGGCTTTAATCTTTTTAACTGGAATGTCAG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
* * * * * *
17293654 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCAG
1 GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
** *
17293704 GGAAATAAGATTTGCTGT
1 GGAAGCAAGATTCGCTGT
17293722 CTTCACCGAT
Statistics
Matches: 374, Mismatches: 140, Indels: 8
0.72 0.27 0.02
Matches are distributed among these distances:
49 2 0.01
50 370 0.99
51 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCAACGTCAG
Found at i:17293307 original size:100 final size:100
Alignment explanation
Indices: 17293127--17293721 Score: 866
Period size: 100 Copynumber: 6.0 Consensus size: 100
17293117 TAACTCGTAA
* ** * * * * * *
17293127 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * * *
17293192 CTACAACGCCTGGGAAGTAAGATTTGTTGTTGTAG
66 CTACACCGCCAGGGAAATAAGATTCGCTGTTGTAG
* * * *
17293227 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACTGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
17293292 CTACACCGTCAGGGAAATAAGATTCGCTGTTGTAG
66 CTACACCGCCAGGGAAATAAGATTCGCTGTTGTAG
*
17293327 CTTTAATCTTTTTAACTGCAATGTCGGGGATGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
17293392 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAC
66 CTACACCGCCAGGGAAATAAGATTCGCTGTTGTAG
* *
17293427 CTTTAATCATTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATTTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
17293492 CTGCACTGCCAGGGAAATAAGATCCGCTGTTGTAG
66 CTACACCGCCAGGGAAATAAGATTCGCTGTTGTAG
*
17293527 CTTTCATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
17293592 CTGCACCGCCAGGGAAATAAGATTTGCTGTTGTGG
66 CTACACCGCCAGGGAAATAAGATTCGCTGTTGTAG
* *
17293627 CTTTAATCTTTTTAACTGGAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* *
17293692 CTACATCGCCAGGGAAATAAGATTTGCTGT
66 CTACACCGCCAGGGAAATAAGATTCGCTGT
17293722 CTTCACCGAT
Statistics
Matches: 452, Mismatches: 43, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 452 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
CTACACCGCCAGGGAAATAAGATTCGCTGTTGTAG
Found at i:17294979 original size:8 final size:7
Alignment explanation
Indices: 17294959--17295023 Score: 80
Period size: 7 Copynumber: 9.0 Consensus size: 7
17294949 TTAGCCTCTC
17294959 CATTTTT
1 CATTTTT
17294966 -ACTTTTT
1 CA-TTTTT
17294973 CATTTTTT
1 CA-TTTTT
17294981 CATTTTT
1 CATTTTT
17294988 CA-TTTT
1 CATTTTT
17294994 CATTTTTT
1 CA-TTTTT
17295002 CATTTTT
1 CATTTTT
17295009 CATTTTT
1 CATTTTT
17295016 CATATTTT
1 CAT-TTTT
17295024 TTCTAACTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
6 7 0.13
7 27 0.52
8 18 0.35
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:17294993 original size:21 final size:21
Alignment explanation
Indices: 17294959--17295024 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 21
17294949 TTAGCCTCTC
*
17294959 CATTTTTACTTTTTCATTTTTT
1 CATTTTT-CATTTTCATTTTTT
17294981 CATTTTTCATTTTCATTTTTT
1 CATTTTTCATTTTCATTTTTT
17295002 CATTTTTCATTTTTCATATTTTT
1 CATTTTTCA-TTTTCAT-TTTTT
17295025 TCTAACTCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 22 0.54
22 14 0.34
23 5 0.12
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTTCATTTTCATTTTTT
Found at i:17295602 original size:24 final size:24
Alignment explanation
Indices: 17295570--17295618 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17295560 ACAGTGATGA
17295570 ACTATGGTATCTGATTTTGAATTG
1 ACTATGGTATCTGATTTTGAATTG
17295594 ACTATGGTATCTGATTTTGAATTG
1 ACTATGGTATCTGATTTTGAATTG
17295618 A
1 A
17295619 TCACAGACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (24 bp):
ACTATGGTATCTGATTTTGAATTG
Found at i:17300899 original size:22 final size:22
Alignment explanation
Indices: 17300874--17300917 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17300864 TCAAAATAAT
**
17300874 AAAATAAAGTAATGCATATATA
1 AAAATAAACCAATGCATATATA
*
17300896 AAAATAAACCAATGTATATATA
1 AAAATAAACCAATGCATATATA
17300918 TGAAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (22 bp):
AAAATAAACCAATGCATATATA
Found at i:17305306 original size:15 final size:15
Alignment explanation
Indices: 17305286--17305314 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17305276 AATAAAAGAT
17305286 ATGAAAATCGATTTG
1 ATGAAAATCGATTTG
17305301 ATGAAAATCGATTT
1 ATGAAAATCGATTT
17305315 CCTCCTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
ATGAAAATCGATTTG
Found at i:17305809 original size:2 final size:2
Alignment explanation
Indices: 17305802--17305827 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17305792 TACCTTCATT
17305802 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
17305828 CACCTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17313549 original size:48 final size:48
Alignment explanation
Indices: 17313478--17313573 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
17313468 CGAAGATAAC
17313478 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
1 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
17313526 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
1 CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
17313574 AACTTTGTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (48 bp):
CACAAAATGCATTAGGATCTTGAATGTAAGAAGAAAAGCTTGGAAAGA
Found at i:17316983 original size:18 final size:18
Alignment explanation
Indices: 17316957--17316999 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
17316947 AAAAGTTGTT
*
17316957 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
17316975 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
17316993 TTTATAT
1 TTTATAT
17317000 TTTTAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:17322451 original size:16 final size:18
Alignment explanation
Indices: 17322425--17322472 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
17322415 ATTAATTAAC
17322425 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
17322442 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
*
17322459 CTAATTCTAATTTT
1 -TAAAT-TAATTTT
17322473 GTTACCGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 13 0.50
18 3 0.12
20 7 0.27
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:17325009 original size:12 final size:12
Alignment explanation
Indices: 17324992--17325071 Score: 58
Period size: 12 Copynumber: 6.4 Consensus size: 12
17324982 AATAAAATAT
*
17324992 TATTAAGATAAA
1 TATTAAAATAAA
17325004 TATTAAAATAAA
1 TATTAAAATAAA
*
17325016 T-TTAATATTAAA
1 TATTAA-AATAAA
17325028 TCTATTAAAATAAA
1 --TATTAAAATAAA
*
17325042 T-TTAATATTAAA
1 TATTAA-AATAAA
17325054 TCTATTAAAAT-AA
1 --TATTAAAATAAA
17325067 TATTA
1 TATTA
17325072 TTTTTGAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
11 13 0.24
12 23 0.42
13 2 0.04
14 9 0.16
15 8 0.15
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (12 bp):
TATTAAAATAAA
Found at i:17326274 original size:11 final size:12
Alignment explanation
Indices: 17326244--17326276 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
17326234 GTCATAAGTG
17326244 AATTAATTCACA
1 AATTAATTCACA
*
17326256 AATGAATTCA-A
1 AATTAATTCACA
17326267 AATTAATTCA
1 AATTAATTCA
17326277 TATTGGGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:17326732 original size:60 final size:60
Alignment explanation
Indices: 17326659--17326779 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
17326649 ATAATTCAAA
17326659 TACATAGAAAACAATTACATGTTTACTACAATATGATCACATTTCCTAACAATCTCCCAC
1 TACATAGAAAACAATTACATGTTTACTACAATATGATCACATTTCCTAACAATCTCCCAC
17326719 TACATAGAAAACAATTACATGTTTACTACAATATGATCACATTTCCTAACAATCTCCCAC
1 TACATAGAAAACAATTACATGTTTACTACAATATGATCACATTTCCTAACAATCTCCCAC
17326779 T
1 T
17326780 TGCCCTAGTG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.31
Consensus pattern (60 bp):
TACATAGAAAACAATTACATGTTTACTACAATATGATCACATTTCCTAACAATCTCCCAC
Found at i:17327511 original size:60 final size:61
Alignment explanation
Indices: 17327418--17327546 Score: 190
Period size: 60 Copynumber: 2.1 Consensus size: 61
17327408 GAATCTGTTG
* *
17327418 GTAAAAAATAAAAAGTAAAAATCACTAGCAACTATTTTCTACTTTA-TTTTAATTTTTGAT
1 GTAAAAAATAAAAAATAAAAATCACTAGCAACTATTTTCAACTTTATTTTTAATTTTTGAT
* * *
17327478 GTAAAAAATAAAAAATAAAAAAT-ACTAGCAACTATTTTCAATTTTATTTTTATTTTTTTAT
1 GTAAAAAATAAAAAAT-AAAAATCACTAGCAACTATTTTCAACTTTATTTTTAATTTTTGAT
17327539 GTAAAAAA
1 GTAAAAAA
17327547 AAAGACAACA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
60 36 0.58
61 26 0.42
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (61 bp):
GTAAAAAATAAAAAATAAAAATCACTAGCAACTATTTTCAACTTTATTTTTAATTTTTGAT
Found at i:17340342 original size:29 final size:29
Alignment explanation
Indices: 17340300--17340362 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
17340290 GCCATTGATG
* *
17340300 AAAATATAAAAAAATTTAAAATTATTTTA
1 AAAAAATAAAAAAAATTAAAATTATTTTA
* *
17340329 AAAAAATATAAAAAATTATAATTATTTTA
1 AAAAAATAAAAAAAATTAAAATTATTTTA
17340358 AAAAA
1 AAAAA
17340363 TGGATTTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAAAATAAAAAAAATTAAAATTATTTTA
Found at i:17340818 original size:21 final size:21
Alignment explanation
Indices: 17340771--17340825 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
17340761 TCCCTATATT
17340771 TAATTTTA-TATTAAATTAAA
1 TAATTTTATTATTAAATTAAA
*
17340791 AACATTTTATTACTTAAATT-AA
1 TA-ATTTTATTA-TTAAATTAAA
17340813 TAATTTTGATTAT
1 TAATTTT-ATTAT
17340826 AAAAACAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 12 0.41
22 9 0.31
23 7 0.24
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
TAATTTTATTATTAAATTAAA
Found at i:17346657 original size:185 final size:185
Alignment explanation
Indices: 17346345--17346723 Score: 704
Period size: 185 Copynumber: 2.0 Consensus size: 185
17346335 CACAGGTTTA
*
17346345 AAGCAAACGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAGTGAAAGCTCAGTAA
1 AAGCAAATGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAGTGAAAGCTCAGTAA
*
17346410 TACTTTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
66 TACTGTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
* *
17346475 GTCAAAAAAATGGGATGTGAATACAATTAAAGAAAATAACATAGAAGAGGAAATG
131 GTAAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
17346530 AAGCAAATGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAGTGAAAGCTCAGTAA
1 AAGCAAATGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAGTGAAAGCTCAGTAA
*
17346595 TACTGTAGTAAAATGACAAAAGCAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
66 TACTGTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
17346660 GTAAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
131 GTAAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
*
17346715 AAGCCAATG
1 AAGCAAATG
17346724 CTCTGATAAT
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
185 188 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (185 bp):
AAGCAAATGTAAGATGCTTTGCACATAGCAGTAAAAATCGAAGGGTAGGAGTGAAAGCTCAGTAA
TACTGTAGTAAAATGACAAAAACAAACTAGCATTTCACTCCATCTAGTAAAAGCATATTAAATGA
GTAAAAAAAATGGGATGTGAATACAATTAAAGAAAAGAACATAGAAGAGGAAATG
Found at i:17347352 original size:3 final size:3
Alignment explanation
Indices: 17347344--17347375 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
17347334 CCAGTGAAAT
17347344 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
17347376 AGAATAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:17348635 original size:18 final size:19
Alignment explanation
Indices: 17348608--17348644 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17348598 AGCACCACGA
*
17348608 CCCCTCCCACGACCACCAG
1 CCCCTCCCACCACCACCAG
17348627 CCCCT-CCACCACCACCAG
1 CCCCTCCCACCACCACCAG
17348645 ATGCACCTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.65, G:0.08, T:0.05
Consensus pattern (19 bp):
CCCCTCCCACCACCACCAG
Found at i:17350462 original size:17 final size:16
Alignment explanation
Indices: 17350440--17350471 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17350430 NNNNNNTGAG
17350440 ATAATTATATATTTAAA
1 ATAATTATA-ATTTAAA
17350457 ATAATTATAATTTAA
1 ATAATTATAATTTAA
17350472 TTTATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:17350852 original size:34 final size:33
Alignment explanation
Indices: 17350766--17350853 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
17350756 ATGAACCCCA
* *
17350766 AACCCAAACCCTTGAACCCTAAATTTGAATCATG
1 AACCCAAACCC-TGAACCTTAAATTTAAATCATG
**
17350800 AACCCTAAACTTTGAACCTTAAATCTTAAATC-TCG
1 AACCC-AAACCCTGAACCTTAAAT-TTAAATCAT-G
*
17350835 AACCCAAACCCTAAACCTT
1 AACCCAAACCCTGAACCTT
17350854 GAGGTTTGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
34 28 0.64
35 16 0.36
ACGTcount: A:0.39, C:0.31, G:0.06, T:0.25
Consensus pattern (33 bp):
AACCCAAACCCTGAACCTTAAATTTAAATCATG
Found at i:17360958 original size:23 final size:23
Alignment explanation
Indices: 17360932--17360982 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
17360922 GATACACGAG
17360932 GTGCCTGAAATACGACACATAAA
1 GTGCCTGAAATACGACACATAAA
* *
17360955 GTGCCTGATATATGACACATAAA
1 GTGCCTGAAATACGACACATAAA
17360978 GTGCC
1 GTGCC
17360983 AGATCGGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (23 bp):
GTGCCTGAAATACGACACATAAA
Found at i:17362401 original size:23 final size:23
Alignment explanation
Indices: 17362367--17362410 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17362357 AAGTATGTAT
17362367 ATATATTAATTACAAATGTATAC
1 ATATATTAATTACAAATGTATAC
* *
17362390 ATATATTTATTACACATGTAT
1 ATATATTAATTACAAATGTAT
17362411 TTATAATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATATTAATTACAAATGTATAC
Found at i:17366942 original size:5 final size:5
Alignment explanation
Indices: 17366916--17366986 Score: 88
Period size: 5 Copynumber: 14.2 Consensus size: 5
17366906 AAGTATATTT
* * * *
17366916 TATCA TTTCA TAACG TATCA TAACA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* *
17366966 TAACA TAACA TATCA TATCA T
1 TATCA TATCA TATCA TATCA T
17366987 GTCCTACCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (5 bp):
TATCA
Found at i:17367231 original size:7 final size:7
Alignment explanation
Indices: 17367211--17367254 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
17367201 AAACACATGC
17367211 ATATCAT
1 ATATCAT
17367218 A-ATCAT
1 ATATCAT
17367224 ATATCAT
1 ATATCAT
*
17367231 ACATACAT
1 ATAT-CAT
17367239 ATATCAT
1 ATATCAT
17367246 ATATCAT
1 ATATCAT
17367253 AT
1 AT
17367255 GGCATACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.18
7 21 0.64
8 6 0.18
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATCAT
Found at i:17367244 original size:22 final size:22
Alignment explanation
Indices: 17367210--17367253 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17367200 AAAACACATG
17367210 CATATCATAATCATATATCATA
1 CATATCATAATCATATATCATA
17367232 CATA-CATATATCATATATCATA
1 CATATCATA-ATCATATATCATA
17367254 TGGCATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (22 bp):
CATATCATAATCATATATCATA
Found at i:17367260 original size:29 final size:28
Alignment explanation
Indices: 17367211--17367266 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
17367201 AAACACATGC
*
17367211 ATATCATAATCATATATCATACATACAT
1 ATATCATAATCATATAGCATACATACAT
*
17367239 ATATCATATATCATATGGCATACATACA
1 ATATCATA-ATCATATAGCATACATACA
17367267 CATGTACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (28 bp):
ATATCATAATCATATAGCATACATACAT
Found at i:17370386 original size:43 final size:43
Alignment explanation
Indices: 17370325--17370410 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
17370315 TGCTATGAGT
17370325 ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
1 ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
* *
17370368 ATGTTTCTTGGATTATTATGTAATAGTCACTACATTACTCGTA
1 ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
17370411 GTGATTACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (43 bp):
ATGTTTCTTGGATTATTATGTAAAAGTCACAACATTACTCGTA
Found at i:17375790 original size:26 final size:27
Alignment explanation
Indices: 17375761--17375813 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
17375751 TGATTAAGTT
*
17375761 AATAAAATAAGAAA-ATA-TGAAAAATA
1 AATAAAATAA-AAATATATTCAAAAATA
17375787 AATAAAATAAAAATATATTCAAAAATA
1 AATAAAATAAAAATATATTCAAAAATA
17375814 CAAAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 13 0.54
27 8 0.33
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (27 bp):
AATAAAATAAAAATATATTCAAAAATA
Found at i:17376676 original size:34 final size:34
Alignment explanation
Indices: 17376633--17376700 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17376623 TCAACTAGGT
17376633 GTAGCCACTAGATATTTATACACATTTTTATTGC
1 GTAGCCACTAGATATTTATACACATTTTTATTGC
17376667 GTAGCCACTAGATATTTATACACATTTTTATTGC
1 GTAGCCACTAGATATTTATACACATTTTTATTGC
17376701 TAAAATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (34 bp):
GTAGCCACTAGATATTTATACACATTTTTATTGC
Found at i:17376740 original size:13 final size:13
Alignment explanation
Indices: 17376722--17376800 Score: 71
Period size: 13 Copynumber: 6.5 Consensus size: 13
17376712 TAGATTTTTC
*
17376722 CTAAATACTATCA
1 CTAAATATTATCA
*
17376735 CTAAATA--AT-T
1 CTAAATATTATCA
17376745 CTAAATATTATCA
1 CTAAATATTATCA
* *
17376758 GTAAATATTATTA
1 CTAAATATTATCA
*
17376771 CTAAATA--AT-T
1 CTAAATATTATCA
17376781 CTAAATATTATCA
1 CTAAATATTATCA
17376794 CTAAATA
1 CTAAATA
17376801 ATTCAAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
10 14 0.26
11 4 0.08
12 4 0.08
13 31 0.58
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:17376763 original size:36 final size:36
Alignment explanation
Indices: 17376722--17376800 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
17376712 TAGATTTTTC
17376722 CTAAATACTATCACTAAATAATTCTAAATATTATCA
1 CTAAATACTATCACTAAATAATTCTAAATATTATCA
* * *
17376758 GTAAATATTATTACTAAATAATTCTAAATATTATCA
1 CTAAATACTATCACTAAATAATTCTAAATATTATCA
17376794 CTAAATA
1 CTAAATA
17376801 ATTCAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (36 bp):
CTAAATACTATCACTAAATAATTCTAAATATTATCA
Found at i:17376785 original size:23 final size:23
Alignment explanation
Indices: 17376759--17376809 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
17376749 ATATTATCAG
*
17376759 TAAATATTATTACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
17376782 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
*
17376805 AAAAT
1 TAAAT
17376810 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTC
Found at i:17381216 original size:27 final size:27
Alignment explanation
Indices: 17381195--17381350 Score: 204
Period size: 27 Copynumber: 5.8 Consensus size: 27
17381185 AGGTATAACA
*
17381195 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
17381222 GTCATTTTATCCTATGAGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
17381249 ATCATTTTGCCTTATGAGGCTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
17381276 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
17381303 GTCATTTTACCCTATAGAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
17381330 GTCATTTTACCCTATGGGGGT
1 GTCATTTTACCCTATGGGGGT
17381351 CTCGGTGCAG
Statistics
Matches: 110, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:17386984 original size:23 final size:24
Alignment explanation
Indices: 17386926--17386984 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
17386916 TACGAAAAAT
*
17386926 AAATAAAATAAA-AATATATTCAA
1 AAATAAAATAAATAATATATTAAA
*
17386949 AAATAAAAAAAATAA-AT-TTAAGA
1 AAATAAAATAAATAATATATTAA-A
17386972 AAATAAAATAAAT
1 AAATAAAATAAAT
17386985 GGATAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 3 0.10
23 26 0.84
24 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATAAAATAAATAATATATTAAA
Found at i:17387842 original size:13 final size:13
Alignment explanation
Indices: 17387824--17387866 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17387814 TAGATTTTTC
17387824 CTAAATATTATCA
1 CTAAATATTATCA
*
17387837 CTAAATA--AT-T
1 CTAAATATTATCA
17387847 CTAAATATTATCA
1 CTAAATATTATCA
17387860 CTAAATA
1 CTAAATA
17387867 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:17387875 original size:23 final size:23
Alignment explanation
Indices: 17387824--17387873 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
17387814 TAGATTTTTC
17387824 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
17387847 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
17387870 -TAAA
1 CTAAA
17387874 ATTTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:17388453 original size:18 final size:19
Alignment explanation
Indices: 17388430--17388478 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
17388420 AATCGTGTCT
17388430 TTCATTTTCAAAAT-ATTA
1 TTCATTTTCAAAATCATTA
*
17388448 TTCATTTAC-AAATCATTA
1 TTCATTTTCAAAATCATTA
*
17388466 TTCAATTTCAAAA
1 TTCATTTTCAAAA
17388479 CCTTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 19 0.73
19 3 0.12
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (19 bp):
TTCATTTTCAAAATCATTA
Found at i:17397686 original size:309 final size:309
Alignment explanation
Indices: 17397127--17397744 Score: 1236
Period size: 309 Copynumber: 2.0 Consensus size: 309
17397117 GAAGGTGGAC
17397127 GATTTAAGTTTTAATTTCCTTTAAATTTATATGTTTTATATATTATTTTTAATATTAAAATAATA
1 GATTTAAGTTTTAATTTCCTTTAAATTTATATGTTTTATATATTATTTTTAATATTAAAATAATA
17397192 TAATAATGTTAAAATAAGAAAACCTAAGGTTTTCTTCTTCATTTTGGTTTATTCACCACCAAATT
66 TAATAATGTTAAAATAAGAAAACCTAAGGTTTTCTTCTTCATTTTGGTTTATTCACCACCAAATT
17397257 GACCATGGACATGCTTCAAGGTTCGGTTATGGCTATACCTTTGCATGGTAAACCATCTTTCACCC
131 GACCATGGACATGCTTCAAGGTTCGGTTATGGCTATACCTTTGCATGGTAAACCATCTTTCACCC
17397322 ATTTCTTTTAATTTTTATGTTTTTGAAATCGTTGCAACTAGGTTCAGCTAGCTCGTACCTTCGTT
196 ATTTCTTTTAATTTTTATGTTTTTGAAATCGTTGCAACTAGGTTCAGCTAGCTCGTACCTTCGTT
17397387 TTTGAAATGTTAAAGATTTTGAATGTTACCATTGATGAATATTTGTGAT
261 TTTGAAATGTTAAAGATTTTGAATGTTACCATTGATGAATATTTGTGAT
17397436 GATTTAAGTTTTAATTTCCTTTAAATTTATATGTTTTATATATTATTTTTAATATTAAAATAATA
1 GATTTAAGTTTTAATTTCCTTTAAATTTATATGTTTTATATATTATTTTTAATATTAAAATAATA
17397501 TAATAATGTTAAAATAAGAAAACCTAAGGTTTTCTTCTTCATTTTGGTTTATTCACCACCAAATT
66 TAATAATGTTAAAATAAGAAAACCTAAGGTTTTCTTCTTCATTTTGGTTTATTCACCACCAAATT
17397566 GACCATGGACATGCTTCAAGGTTCGGTTATGGCTATACCTTTGCATGGTAAACCATCTTTCACCC
131 GACCATGGACATGCTTCAAGGTTCGGTTATGGCTATACCTTTGCATGGTAAACCATCTTTCACCC
17397631 ATTTCTTTTAATTTTTATGTTTTTGAAATCGTTGCAACTAGGTTCAGCTAGCTCGTACCTTCGTT
196 ATTTCTTTTAATTTTTATGTTTTTGAAATCGTTGCAACTAGGTTCAGCTAGCTCGTACCTTCGTT
17397696 TTTGAAATGTTAAAGATTTTGAATGTTACCATTGATGAATATTTGTGAT
261 TTTGAAATGTTAAAGATTTTGAATGTTACCATTGATGAATATTTGTGAT
17397745 TTTAGATGTT
Statistics
Matches: 309, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
309 309 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (309 bp):
GATTTAAGTTTTAATTTCCTTTAAATTTATATGTTTTATATATTATTTTTAATATTAAAATAATA
TAATAATGTTAAAATAAGAAAACCTAAGGTTTTCTTCTTCATTTTGGTTTATTCACCACCAAATT
GACCATGGACATGCTTCAAGGTTCGGTTATGGCTATACCTTTGCATGGTAAACCATCTTTCACCC
ATTTCTTTTAATTTTTATGTTTTTGAAATCGTTGCAACTAGGTTCAGCTAGCTCGTACCTTCGTT
TTTGAAATGTTAAAGATTTTGAATGTTACCATTGATGAATATTTGTGAT
Found at i:17398486 original size:36 final size:34
Alignment explanation
Indices: 17398417--17398515 Score: 90
Period size: 36 Copynumber: 2.8 Consensus size: 34
17398407 AGTTGAACTA
* * *
17398417 GCTCTTATGAGCATCGTTGTGTTTCGGAAGGATTT
1 GCTCGTATGAGCATCG-TGTGTTTTGGAAGGATTG
* *
17398452 GTTCGTATGAGCATCTAGTGTGTTTTGGAGGGATTG
1 GCTCGTATGAGCATC--GTGTGTTTTGGAAGGATTG
**
17398488 GCTCGGGTGAGCATCCGGTGTGTTTTGG
1 GCTCGTATGAGCAT-C-GTGTGTTTTGG
17398516 TTGAACTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
35 13 0.25
36 37 0.71
37 2 0.04
ACGTcount: A:0.14, C:0.13, G:0.35, T:0.37
Consensus pattern (34 bp):
GCTCGTATGAGCATCGTGTGTTTTGGAAGGATTG
Found at i:17413510 original size:18 final size:18
Alignment explanation
Indices: 17413487--17413522 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17413477 ATGAGGTGGC
17413487 AGGAGTTTGAGGTGGTTT
1 AGGAGTTTGAGGTGGTTT
17413505 AGGAGTTTGAGGTGGTTT
1 AGGAGTTTGAGGTGGTTT
17413523 CAAACTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (18 bp):
AGGAGTTTGAGGTGGTTT
Found at i:17415033 original size:27 final size:27
Alignment explanation
Indices: 17414980--17415200 Score: 173
Period size: 27 Copynumber: 8.2 Consensus size: 27
17414970 CAAACTAGAA
* * *
17414980 AAAATAACCGAAATA-CCTCTATAGGGT
1 AAAATTACTGAAATACCCTCGAT-GGGT
* *
17415007 AGAATGACTGAAATACCCTCGATGGGT
1 AAAATTACTGAAATACCCTCGATGGGT
** * *
17415034 AAAATTACCAAAATACCC-CAAATAGGT
1 AAAATTACTGAAATACCCTC-GATGGGT
17415061 AAAATTACTGAAATACCC-CTGATGGGT
1 AAAATTACTGAAATACCCTC-GATGGGT
* * *
17415088 AAAATTACCGAAATACCATCCATGGGT
1 AAAATTACTGAAATACCCTCGATGGGT
* * * **
17415115 AAAATTACTAAAATACCCCCAAAAGGT
1 AAAATTACTGAAATACCCTCGATGGGT
* *
17415142 AAAATGACTGAAATACCCTTGATGGGT
1 AAAATTACTGAAATACCCTCGATGGGT
* *
17415169 AAAGTTA-TCGAAATACCC-CTATAGGGT
1 AAAATTACT-GAAATACCCTCGAT-GGGT
17415196 AAAAT
1 AAAAT
17415201 GATCATTATA
Statistics
Matches: 152, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
26 4 0.03
27 141 0.93
28 7 0.05
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.23
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGATGGGT
Found at i:17415143 original size:54 final size:53
Alignment explanation
Indices: 17414980--17415200 Score: 196
Period size: 54 Copynumber: 4.1 Consensus size: 53
17414970 CAAACTAGAA
* * * * *
17414980 AAAATAACCGAAATACCTCTATAGGGTAGAATGACTGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCTCCAT-GGGTAAAATTACTGAAATACCCCCGATGGGT
* * *
17415034 AAAATTACCAAAATACC-CCAAATAGGTAAAATTACTGAAATACCCCTGATGGGT
1 AAAATTACCGAAATACCTCC--ATGGGTAAAATTACTGAAATACCCCCGATGGGT
* * **
17415088 AAAATTACCGAAATACCATCCATGGGTAAAATTACTAAAATACCCCCAAAAGGT
1 AAAATTACCGAAATACC-TCCATGGGTAAAATTACTGAAATACCCCCGATGGGT
* * ** * *
17415142 AAAATGACTGAAATACCCTTGATGGGTAAAGTTA-TCGAAATA-CCCCTATAGGGT
1 AAAATTACCGAAATA-CCTCCATGGGTAAAATTACT-GAAATACCCCCGAT-GGGT
17415196 AAAAT
1 AAAAT
17415201 GATCATTATA
Statistics
Matches: 136, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
53 7 0.05
54 123 0.90
55 4 0.03
56 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.23
Consensus pattern (53 bp):
AAAATTACCGAAATACCTCCATGGGTAAAATTACTGAAATACCCCCGATGGGT
Found at i:17415196 original size:81 final size:79
Alignment explanation
Indices: 17414966--17415200 Score: 258
Period size: 81 Copynumber: 2.9 Consensus size: 79
17414956 CTACACCAAG
** * * * * * *
17414966 ACCCCAAACTAGAAAAAATAACCGAAATACCTCT-ATAGGGTAGAATGACTGAAATACCCTCGAT
1 ACCCCAAA-TAGGTAAAATGACTGAAATACCCCTGAT-GGGTAAAATTACCGAAATACCC-C-AT
17415030 GGGTAAAATTACCAAAAT
62 GGGTAAAATTACCAAAAT
*
17415048 ACCCCAAATAGGTAAAATTACTGAAATACCCCTGATGGGTAAAATTACCGAAATACCATCCATGG
1 ACCCCAAATAGGTAAAATGACTGAAATACCCCTGATGGGTAAAATTACCGAAATACC--CCATGG
*
17415113 GTAAAATTACTAAAAT
64 GTAAAATTACCAAAAT
* * *
17415129 ACCCCCAAA-AGGTAAAATGACTGAAATACCCTTGATGGGTAAAGTTATCGAAATACCCCTATAG
1 A-CCCCAAATAGGTAAAATGACTGAAATACCCCTGATGGGTAAAATTACCGAAATACCCC-AT-G
17415193 GGTAAAAT
63 GGTAAAAT
17415201 GATCATTATA
Statistics
Matches: 134, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.01
80 2 0.01
81 111 0.83
82 18 0.13
83 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (79 bp):
ACCCCAAATAGGTAAAATGACTGAAATACCCCTGATGGGTAAAATTACCGAAATACCCCATGGGT
AAAATTACCAAAAT
Found at i:17419384 original size:37 final size:37
Alignment explanation
Indices: 17419306--17419396 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 37
17419296 GTGCCGAGGT
** *
17419306 GTGTTATCGGTTGGATTAGCTCTCAGGAGTGTTTGGT
1 GTGTTATCGGTTGGATTAGCTCTCAGGAGCATTTGGC
* * * * *
17419343 GTGTTATTGGTTGGATTATCTCTTATGAGCATTTTGC
1 GTGTTATCGGTTGGATTAGCTCTCAGGAGCATTTGGC
*
17419380 GTGTT-TCGATTGGATTA
1 GTGTTATCGGTTGGATTA
17419397 CTTATGTACT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 10 0.23
37 34 0.77
ACGTcount: A:0.15, C:0.10, G:0.30, T:0.45
Consensus pattern (37 bp):
GTGTTATCGGTTGGATTAGCTCTCAGGAGCATTTGGC
Found at i:17421825 original size:17 final size:17
Alignment explanation
Indices: 17421803--17421835 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17421793 TGGCTAAAAA
17421803 TTTTAT-TTTATTTTTAC
1 TTTTATCTTT-TTTTTAC
17421820 TTTTATCTTTTTTTTA
1 TTTTATCTTTTTTTTA
17421836 GTTTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTTTTTTAC
Found at i:17422164 original size:115 final size:115
Alignment explanation
Indices: 17421930--17422240 Score: 302
Period size: 115 Copynumber: 2.8 Consensus size: 115
17421920 ATAGACTCAT
* * * **
17421930 TCCATTGGAGCAAAATCTATTT-TCATTGGACCGAAACTAGGCAGAGAGTTTACTAAG----TTT
1 TCCATTGGAGCGAAACCTGTTTCT-ATTGGAGTGAAACTAGGCAGAGAGTTTACTAAGTTTTTTT
* * * *
17421990 TCTGTTGGAATGGAATCTGTTTTTGTTGGAGCAAACTTAGTTTGCTAGTTT
65 TCTGTTGGAATGGAATCTATTTCTATTGGAGCAAACTTAGTTTGCTAGTTA
* *
17422041 TCCATTGGAGC-ATAACCTGTTTCTATTGGAGTGAAACTAGGTAGAGAGTTTGCTAAGTTTTTTT
1 TCCATTGGAGCGA-AACCTGTTTCTATTGGAGTGAAACTAGGCAGAGAGTTTACTAAGTTTTTTT
* * * *
17422105 TTTTTTGGAATGGAATCTATTTCTATTGGAGTGAAA-TTAGTTTTCTAGTTA
65 TCTGTTGGAATGGAATCTATTTCTATTGGAG-CAAACTTAGTTTGCTAGTTA
** ** * * *
17422156 TCTGTTGGAGCGAAATTTGTTTCTTTTGGAGTGAAACTAGGCAGAAAATTTACTAAG----TTTT
1 TCCATTGGAGCGAAACCTGTTTCTATTGGAGTGAAACTAGGCAGAGAGTTTACTAAGTTTTTTTT
* *
17422217 CTATTGGAATGAAATCTATTTCTA
66 CTGTTGGAATGGAATCTATTTCTA
17422241 GTGTAGCGAA
Statistics
Matches: 166, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
110 1 0.01
111 72 0.43
112 1 0.01
115 88 0.53
116 4 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (115 bp):
TCCATTGGAGCGAAACCTGTTTCTATTGGAGTGAAACTAGGCAGAGAGTTTACTAAGTTTTTTTT
CTGTTGGAATGGAATCTATTTCTATTGGAGCAAACTTAGTTTGCTAGTTA
Found at i:17422348 original size:5 final size:5
Alignment explanation
Indices: 17422340--17422407 Score: 61
Period size: 5 Copynumber: 13.4 Consensus size: 5
17422330 GGCAATTCAA
*
17422340 TTTAT TTTAT TTTATT TATTAT TTTA- TTTAT TATT-T ATTTAT ATTAT
1 TTTAT TTTAT TTTA-T T-TTAT TTTAT TTTAT T-TTAT -TTTAT TTTAT
*
17422387 CTT-T TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TT
17422408 ACTTTGGGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
4 7 0.13
5 35 0.66
6 8 0.15
7 3 0.06
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:17422363 original size:12 final size:12
Alignment explanation
Indices: 17422346--17422402 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
17422336 TCAATTTATT
17422346 TTATTTTATTTA
1 TTATTTTATTTA
17422358 TTATTTTATTTA
1 TTATTTTATTTA
17422370 TTA-TTTATTTA
1 TTATTTTATTTA
* * *
17422381 -TATTATCTTTT
1 TTATTTTATTTA
17422392 TTATTTTATTT
1 TTATTTTATTT
17422403 TATTTACTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
10 2 0.05
11 13 0.34
12 23 0.61
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTTTATTTA
Found at i:17422500 original size:21 final size:21
Alignment explanation
Indices: 17422470--17422536 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
17422460 AGAATGGAGG
*
17422470 CCACTTTGGGTATCATGATAT
1 CCACTGTGGGTATCATGATAT
17422491 CCACTGTGGGTATCATGATAT
1 CCACTGTGGGTATCATGATAT
*
17422512 CCACTGTGGGTATCACGATAT
1 CCACTGTGGGTATCATGATAT
17422533 CCAC
1 CCAC
17422537 CTACCAAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (21 bp):
CCACTGTGGGTATCATGATAT
Found at i:17426809 original size:7 final size:7
Alignment explanation
Indices: 17426797--17426832 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
17426787 CCTCAAGTCA
17426797 TTTTCAT
1 TTTTCAT
17426804 TTTTCAT
1 TTTTCAT
17426811 TTTTCA-
1 TTTTCAT
17426817 TTTTCA-
1 TTTTCAT
17426823 TTTTCAT
1 TTTTCAT
17426830 TTT
1 TTT
17426833 CAATTTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:17426812 original size:13 final size:13
Alignment explanation
Indices: 17426794--17426832 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
17426784 ATTCCTCAAG
17426794 TCATTTTCATTTT
1 TCATTTTCATTTT
17426807 TCATTTTTCA-TTT
1 TCA-TTTTCATTTT
17426820 TCATTTTCATTTT
1 TCATTTTCATTTT
17426833 CAATTTGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:17426838 original size:7 final size:6
Alignment explanation
Indices: 17426794--17426834 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
17426784 ATTCCTCAAG
17426794 TCATTT TCATTTT TCATTTT TCATTT TCATTT TCATTT TCA
1 TCATTT TCA-TTT TCA-TTT TCATTT TCATTT TCATTT TCA
17426835 ATTTGGAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 21 0.62
7 13 0.38
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
TCATTT
Found at i:17426936 original size:51 final size:51
Alignment explanation
Indices: 17426818--17426943 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 51
17426808 CATTTTTCAT
* * *
17426818 TTTCATTT-T-CATTTTCAATTTGGAGAAAACCACATTCATTTCCAAATGA
1 TTTCATTTCTCCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGA
** *
17426867 TTTCATTTCTCCATTTTCATTTTAGAGAAAACCTTAATCATTTTCAAATG-
1 TTTCATTTCTCCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGA
17426917 TTTCCTATTTCTCCATTTCATCATTTT
1 TTT-C-ATTTCTCCATTT--TCATTTT
17426944 TGTTTATTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
49 8 0.12
50 4 0.06
51 34 0.52
52 12 0.18
54 7 0.11
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.47
Consensus pattern (51 bp):
TTTCATTTCTCCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGA
Found at i:17431995 original size:6 final size:6
Alignment explanation
Indices: 17431984--17432020 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
17431974 GTACCTGCTC
17431984 CGGTCT CGGTCT CGGTCT CGGTCT CGGTCT CGGTCT C
1 CGGTCT CGGTCT CGGTCT CGGTCT CGGTCT CGGTCT C
17432021 TATCTCGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.32, T:0.32
Consensus pattern (6 bp):
CGGTCT
Found at i:17432026 original size:18 final size:18
Alignment explanation
Indices: 17431987--17432027 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
17431977 CCTGCTCCGG
*
17431987 TCTCGGTCTCGGTCTCGG
1 TCTCGGTCTCGGTCTCGA
*
17432005 TCTCGGTCTCGGTCTCTA
1 TCTCGGTCTCGGTCTCGA
17432023 TCTCG
1 TCTCG
17432028 CTCATAATTA
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:0.02, C:0.34, G:0.27, T:0.37
Consensus pattern (18 bp):
TCTCGGTCTCGGTCTCGA
Found at i:17439705 original size:21 final size:21
Alignment explanation
Indices: 17439672--17439712 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17439662 CCTCTTAAAT
* *
17439672 AGATGCAATTATTAAAGTAAG
1 AGATACAACTATTAAAGTAAG
*
17439693 AGATACAACTATTTAAGTAA
1 AGATACAACTATTAAAGTAA
17439713 TATCTCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (21 bp):
AGATACAACTATTAAAGTAAG
Found at i:17440599 original size:160 final size:161
Alignment explanation
Indices: 17440413--17440733 Score: 635
Period size: 160 Copynumber: 2.0 Consensus size: 161
17440403 AATAATAAAA
17440413 TTACATTTTGGCATCCCAAAATGATAAAAATTGATTTAATTATTTAAAAATTATAAAGGTATAGA
1 TTACATTTTGGCATCCCAAAATGATAAAAATTGATTTAATTATTTAAAAATTATAAAGGTATAGA
17440478 TTATTAAAATGATGAATTTACATTTTTACTATCATAAAAATATATAATTTAATTTTGCGGCCTTA
66 TTATTAAAATGATGAATTTACATTTTTACTATCATAAAAATATATAATTTAATTTTGCGGCCTTA
17440543 AAAAAAATTCTAACTCCGTCACTAGTTACCT
131 AAAAAAATTCTAACTCCGTCACTAGTTACCT
17440574 TTACATTTT-GCATCCCAAAATGATAAAAATTGATTTAATTATTTAAAAATTATAAAGGTATAGA
1 TTACATTTTGGCATCCCAAAATGATAAAAATTGATTTAATTATTTAAAAATTATAAAGGTATAGA
17440638 TTATTAAAATGATGAATTTACATTTTTACTATCATAAAAATATATAATTTAATTTTGCGGCCTTA
66 TTATTAAAATGATGAATTTACATTTTTACTATCATAAAAATATATAATTTAATTTTGCGGCCTTA
17440703 AAAAAAATTCTAACTCCGTCACTAGTTACCT
131 AAAAAAATTCTAACTCCGTCACTAGTTACCT
17440734 ATTAGGTAAT
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 151 0.94
161 9 0.06
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (161 bp):
TTACATTTTGGCATCCCAAAATGATAAAAATTGATTTAATTATTTAAAAATTATAAAGGTATAGA
TTATTAAAATGATGAATTTACATTTTTACTATCATAAAAATATATAATTTAATTTTGCGGCCTTA
AAAAAAATTCTAACTCCGTCACTAGTTACCT
Found at i:17441998 original size:40 final size:40
Alignment explanation
Indices: 17441911--17442000 Score: 130
Period size: 39 Copynumber: 2.3 Consensus size: 40
17441901 GGGATGTGTC
* *
17441911 AGCAAATCGCGTCCACGTCAGCGCGATTACTTACGTGGCA
1 AGCAAATCGCGTCCACGTAAGCGCGATTACTGACGTGGCA
*
17441951 A-CAAATCGCGTCCACGTAAGCGCGATTTGCTGACGTGG-A
1 AGCAAATCGCGTCCACGTAAGCGCGA-TTACTGACGTGGCA
17441990 AGCAAATCGCG
1 AGCAAATCGCG
17442001 CTTACGTGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
39 25 0.56
40 20 0.44
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.19
Consensus pattern (40 bp):
AGCAAATCGCGTCCACGTAAGCGCGATTACTGACGTGGCA
Found at i:17455857 original size:16 final size:16
Alignment explanation
Indices: 17455836--17455874 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
17455826 AACCGTTTTT
17455836 TAGTGGTGTCGAAAAA
1 TAGTGGTGTCGAAAAA
*
17455852 TAGTGGTGTCGAAAAG
1 TAGTGGTGTCGAAAAA
17455868 TAGTGGT
1 TAGTGGT
17455875 TTCGGGACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.28
Consensus pattern (16 bp):
TAGTGGTGTCGAAAAA
Found at i:17459387 original size:12 final size:12
Alignment explanation
Indices: 17459370--17459395 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17459360 GTGCCACTGA
17459370 AAACAAATAAAT
1 AAACAAATAAAT
17459382 AAACAAATAAAT
1 AAACAAATAAAT
17459394 AA
1 AA
17459396 GATCATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAACAAATAAAT
Found at i:17459627 original size:2 final size:2
Alignment explanation
Indices: 17459620--17459648 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17459610 AACAGAAGGG
17459620 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
17459649 TATGCATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17460739 original size:49 final size:47
Alignment explanation
Indices: 17460680--17460806 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 47
17460670 GCTGAAATAG
* *
17460680 AAGAACAAGGGACGAGATTTTGGGGTTTTCCAGCAACGAAAAGAT-TGAGA
1 AAGAA-AAGGGA-GAGATTTTGGGGTTTTCAAGCAAAG-AAAG-TCTGAGA
* * *
17460730 AAGAAAAGGGATGGGATTTTAGGG-TTTCAAGCAAAGAAAGTCTGGGA
1 AAGAAAAGGGA-GAGATTTTGGGGTTTTCAAGCAAAGAAAGTCTGAGA
*
17460777 AAGAAAAGGGAAATGATTTTTGGGGTTTTC
1 AAGAAAAGGGAGA-GA-TTTTGGGGTTTTC
17460807 TTTTTAAGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
46 1 0.02
47 21 0.33
48 17 0.27
49 20 0.31
50 5 0.08
ACGTcount: A:0.37, C:0.08, G:0.31, T:0.24
Consensus pattern (47 bp):
AAGAAAAGGGAGAGATTTTGGGGTTTTCAAGCAAAGAAAGTCTGAGA
Found at i:17460954 original size:40 final size:41
Alignment explanation
Indices: 17460889--17460983 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 41
17460879 AAAGTAAAAA
*
17460889 ACCTTTTACGGC-TTTGTTAACACAAACACCACTATTGCTT
1 ACCTTTTGCGGCATTTGTTAACACAAACACCACTATTGCTT
* *
17460929 ACCTTTTGCGGCATTT-TT-ACGACAAACGCCACTATTTCTT
1 ACCTTTTGCGGCATTTGTTAAC-ACAAACACCACTATTGCTT
*
17460969 ACCTTTTGCTGCATT
1 ACCTTTTGCGGCATT
17460984 GCGGCATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.04
40 44 0.90
41 3 0.06
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (41 bp):
ACCTTTTGCGGCATTTGTTAACACAAACACCACTATTGCTT
Found at i:17471692 original size:23 final size:23
Alignment explanation
Indices: 17471664--17471715 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
17471654 TTTACCGATC
17471664 AGGCACTTTATGTGTCGTATATT
1 AGGCACTTTATGTGTCGTATATT
* *
17471687 GGGCACTTTATGTGTCGTATTTT
1 AGGCACTTTATGTGTCGTATATT
17471710 AGGCAC
1 AGGCAC
17471716 CTCGTGTGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.40
Consensus pattern (23 bp):
AGGCACTTTATGTGTCGTATATT
Found at i:17471723 original size:23 final size:22
Alignment explanation
Indices: 17471674--17471745 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
17471664 AGGCACTTTA
* * **
17471674 TGTGTCGTATATTGGGCACTTTA
1 TGTGTCGTAT-TTAGGCACCTCG
17471697 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTA-TTTAGGCACCTCG
* * *
17471720 TGTGCCGTA-TCAGACACCTCG
1 TGTGTCGTATTTAGGCACCTCG
17471741 TGTGT
1 TGTGT
17471746 TGTTTCAAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 14 0.35
23 25 0.62
24 1 0.03
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (22 bp):
TGTGTCGTATTTAGGCACCTCG
Found at i:17482966 original size:21 final size:22
Alignment explanation
Indices: 17482941--17482981 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17482931 AAGTTTAAAT
17482941 AATCCAATT-GATGCATATTCA
1 AATCCAATTAGATGCATATTCA
* *
17482962 AATCCCATTATATGCATATT
1 AATCCAATTAGATGCATATT
17482982 TTAATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (22 bp):
AATCCAATTAGATGCATATTCA
Found at i:17484226 original size:48 final size:47
Alignment explanation
Indices: 17484129--17484227 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 47
17484119 ACACTCTAGT
*
17484129 TTGTGGATGAACCACCAATACTTGCAAATAAACTATTAGTACTAAAAA
1 TTGTGGATGAACCACCAATACTTGCAAATAAAATATTAGTAC-AAAAA
* * * *
17484177 TTGTGGATGAACCACCAGTATTTTCAAATAAAAATATTTGTA-AATAAA
1 TTGTGGATGAACCACCAATACTTGCAAAT-AAAATATTAGTACAA-AAA
17484225 TTG
1 TTG
17484228 CCACTTGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
47 2 0.05
48 32 0.73
49 10 0.23
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (47 bp):
TTGTGGATGAACCACCAATACTTGCAAATAAAATATTAGTACAAAAA
Found at i:17486226 original size:20 final size:21
Alignment explanation
Indices: 17486188--17486226 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
17486178 GAATTTTTTA
**
17486188 ATTTAATTTAATTTTAAATGT
1 ATTTAATTTAATTAAAAATGT
17486209 ATTT-ATTTAATTAAAAAT
1 ATTTAATTTAATTAAAAAT
17486227 ATCATGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTAATTTAATTAAAAATGT
Found at i:17490296 original size:21 final size:21
Alignment explanation
Indices: 17490271--17490315 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17490261 TTTCTCCACC
* * * *
17490271 GTTAGGTTTTGAGTTTTTAGG
1 GTTAGGGTTTAAGGTTTAAGG
17490292 GTTAGGGTTTAAGGTTTAAGG
1 GTTAGGGTTTAAGGTTTAAGG
17490313 GTT
1 GTT
17490316 TTAAGGTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.47
Consensus pattern (21 bp):
GTTAGGGTTTAAGGTTTAAGG
Found at i:17490320 original size:16 final size:15
Alignment explanation
Indices: 17490295--17490324 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17490285 TTTTAGGGTT
17490295 AGGGTTTAAGGTTTA
1 AGGGTTTAAGGTTTA
17490310 AGGGTTTTAAGGTTT
1 AGGG-TTTAAGGTTT
17490325 TAGAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
AGGGTTTAAGGTTTA
Found at i:17490768 original size:124 final size:125
Alignment explanation
Indices: 17490375--17490807 Score: 679
Period size: 124 Copynumber: 3.5 Consensus size: 125
17490365 TTTATGGTTT
* *
17490375 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCGTTTTTGCTACAGTTGGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGT
* *
17490440 CCTGAAAAAATAATTTCGAGTTGACGTTTTTGAGAAAATAGTATAAAAAAAACGCTTCAAGC
66 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAAAACGCTTCAAGC
* *
17490502 AGGATGCTTTATCAGAAGAATTTCTAAAATCCCGCCCACGTGGACGCGCTTTTGCTACAGTTGGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGT
* * *
17490567 CTTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAACAGTATAAAAAACGCTTCAAGC
66 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
* * * *
17490627 AGGATGCTTTATTAGAAGAATTTCTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAATAGGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGT
*
17490692 CCT-AAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGT
66 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
* * * *
17490751 AGGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCTCGTGGATGCTCTTTTGCTA
1 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTA
17490808 TAGTAGCATG
Statistics
Matches: 281, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
124 104 0.37
125 77 0.27
127 100 0.36
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (125 bp):
AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGT
CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGC
Found at i:17492892 original size:22 final size:22
Alignment explanation
Indices: 17492867--17492941 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
17492857 AAATAGGGAT
17492867 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
17492889 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
**
17492911 TTGAGAGGAAA-TTGAGAAAATAA
1 TTGAGA-GAAATTTGAGAGGA-AA
17492934 TTGAGAGA
1 TTGAGAGA
17492942 GTATTAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
22 34 0.72
23 13 0.28
ACGTcount: A:0.47, C:0.01, G:0.31, T:0.21
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:17492902 original size:11 final size:11
Alignment explanation
Indices: 17492883--17492927 Score: 81
Period size: 11 Copynumber: 4.1 Consensus size: 11
17492873 GAAATTTGGA
17492883 AGGAAATTGAG
1 AGGAAATTGAG
*
17492894 AGCAAATTGAG
1 AGGAAATTGAG
17492905 AGGAAATTGAG
1 AGGAAATTGAG
17492916 AGGAAATTGAG
1 AGGAAATTGAG
17492927 A
1 A
17492928 AAATAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.47, C:0.02, G:0.33, T:0.18
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:17492904 original size:33 final size:33
Alignment explanation
Indices: 17492867--17492941 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 33
17492857 AAATAGGGAT
**
17492867 TTGAGAGAAATTTG-GAAGGAAATTGAGAGCA-AA
1 TTGAGAGAAA-TTGAG-AGGAAATTGAGAAAATAA
17492900 TTGAGAGGAAATTGAGAGGAAATTGAGAAAATAA
1 TTGAGA-GAAATTGAGAGGAAATTGAGAAAATAA
17492934 TTGAGAGA
1 TTGAGAGA
17492942 GTATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.47, C:0.01, G:0.31, T:0.21
Consensus pattern (33 bp):
TTGAGAGAAATTGAGAGGAAATTGAGAAAATAA
Found at i:17493094 original size:34 final size:38
Alignment explanation
Indices: 17493051--17493127 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 38
17493041 ATGCGCGGGG
17493051 AAAACGCGTCCCC-AGGG-GCG-TG-CTACGTGGCAAC
1 AAAACGCGTCCCCGAGGGCGCGTTGCCTACGTGGCAAC
17493085 AAAACGCGTCCCCGAGGGCGCGCTTTGCCTACGTGGCAAC
1 AAAACGCGTCCCCGAGGGCGCG--TTGCCTACGTGGCAAC
17493125 AAA
1 AAA
17493128 GCCCGTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
34 13 0.35
35 4 0.11
36 3 0.08
39 2 0.05
40 15 0.41
ACGTcount: A:0.25, C:0.32, G:0.30, T:0.13
Consensus pattern (38 bp):
AAAACGCGTCCCCGAGGGCGCGTTGCCTACGTGGCAAC
Found at i:17495376 original size:30 final size:32
Alignment explanation
Indices: 17495324--17495383 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
17495314 GAATCTTTAG
*
17495324 TTTTTAGGATTTTTAAGCTTTTTTTTTTTGTC
1 TTTTTAGGATTTTTAAGATTTTTTTTTTTGTC
*
17495356 TTTTT-GGA-TTTTATGATTTTTTTTTTTG
1 TTTTTAGGATTTTTAAGATTTTTTTTTTTG
17495384 AATTTATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 18 0.69
31 3 0.12
32 5 0.19
ACGTcount: A:0.12, C:0.03, G:0.13, T:0.72
Consensus pattern (32 bp):
TTTTTAGGATTTTTAAGATTTTTTTTTTTGTC
Found at i:17495398 original size:29 final size:30
Alignment explanation
Indices: 17495342--17495398 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
17495332 ATTTTTAAGC
** * *
17495342 TTTTTTTTTTTGTCTTTTTGGATTTTATGA
1 TTTTTTTTTTTGAATTTATGGATATTATGA
17495372 TTTTTTTTTTTGAATTTAT-GATATTAT
1 TTTTTTTTTTTGAATTTATGGATATTAT
17495399 TTTGAAGTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 7 0.30
30 16 0.70
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.72
Consensus pattern (30 bp):
TTTTTTTTTTTGAATTTATGGATATTATGA
Found at i:17495401 original size:22 final size:21
Alignment explanation
Indices: 17495356--17495401 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
17495346 TTTTTTTGTC
* *
17495356 TTTTTGGATTTTATGATTTTT
1 TTTTTGGAATTTATGATTTAT
*
17495377 TTTTTTGAATTTATGATATTAT
1 TTTTTGGAATTTATGAT-TTAT
17495399 TTT
1 TTT
17495402 GAAGTGGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.70
Consensus pattern (21 bp):
TTTTTGGAATTTATGATTTAT
Found at i:17510194 original size:11 final size:11
Alignment explanation
Indices: 17510178--17510231 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
17510168 AACTTGCAAA
17510178 TTGATGTTTAG
1 TTGATGTTTAG
*
17510189 TTGATG--TAA
1 TTGATGTTTAG
*
17510198 TTAATGTTTAG
1 TTGATGTTTAG
*
17510209 TTGATG--TAA
1 TTGATGTTTAG
17510218 TTGATGTTTAG
1 TTGATGTTTAG
17510229 TTG
1 TTG
17510232 TCACTTAAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (11 bp):
TTGATGTTTAG
Found at i:17510204 original size:20 final size:20
Alignment explanation
Indices: 17510176--17510231 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
17510166 GGAACTTGCA
17510176 AATTGATGTTTAGTTGATGT
1 AATTGATGTTTAGTTGATGT
*
17510196 AATTAATGTTTAGTTGATGT
1 AATTGATGTTTAGTTGATGT
17510216 AATTGATGTTTAGTTG
1 AATTGATGTTTAGTTG
17510232 TCACTTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (20 bp):
AATTGATGTTTAGTTGATGT
Found at i:17518611 original size:5 final size:5
Alignment explanation
Indices: 17518601--17518626 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17518591 TGAGCATTCG
17518601 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
17518627 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:17520755 original size:23 final size:23
Alignment explanation
Indices: 17520697--17520756 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
17520687 TTATGGTTGT
* * *
17520697 GATAATATTTAGAATTCTTTAGT
1 GATAATATTTAGGATTATTTAGA
*
17520720 GATAATATTTAGGGTTATTTAGA
1 GATAATATTTAGGATTATTTAGA
17520743 GATAATATTTAGGA
1 GATAATATTTAGGA
17520757 AAAATCTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (23 bp):
GATAATATTTAGGATTATTTAGA
Found at i:17524583 original size:4 final size:4
Alignment explanation
Indices: 17524574--17524604 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
17524564 TAACCCACAT
17524574 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
17524605 TAATATTTAA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:17530046 original size:22 final size:23
Alignment explanation
Indices: 17530007--17530051 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
17529997 GAGATCTTTC
17530007 CATGGTTTAGCTAGTTTTTATAG
1 CATGGTTTAGCTAGTTTTTATAG
17530030 CATGGTTTAG-TAGTTTTTATAG
1 CATGGTTTAGCTAGTTTTTATAG
17530052 ACGATTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (23 bp):
CATGGTTTAGCTAGTTTTTATAG
Found at i:17534425 original size:23 final size:23
Alignment explanation
Indices: 17534401--17534475 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
17534391 ATTTTTAAAT
17534401 TTTA-AATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
* *
17534423 TTTAGAAGTATTTAGTAATAATA
1 TTTAGAATTATTTAGTGATAATA
** *
17534446 TTTAGGGTTATTTAGGGATAATA
1 TTTAGAATTATTTAGTGATAATA
17534469 TTTAGAA
1 TTTAGAA
17534476 AAAAATTTAG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 4 0.09
23 39 0.91
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (23 bp):
TTTAGAATTATTTAGTGATAATA
Found at i:17534426 original size:13 final size:12
Alignment explanation
Indices: 17534408--17534473 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 12
17534398 AATTTTAAAT
17534408 TATTTAGTGATAA
1 TATTTAG-GATAA
*
17534421 TATTTA-GA-AG
1 TATTTAGGATAA
*
17534431 TATTTAGTAATAA
1 TATTTAG-GATAA
*
17534444 TATTTAGGGT--
1 TATTTAGGATAA
17534454 TATTTAGGGATAA
1 TATTTA-GGATAA
17534467 TATTTAG
1 TATTTAG
17534474 AAAAAAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
10 13 0.32
11 5 0.12
12 3 0.07
13 20 0.49
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (12 bp):
TATTTAGGATAA
Found at i:17537561 original size:9 final size:9
Alignment explanation
Indices: 17537544--17537580 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17537534 TGAGTTTTCG
17537544 AATTCGAAT
1 AATTCGAAT
*
17537553 AACTCGAAT
1 AATTCGAAT
17537562 AATTCGAAT
1 AATTCGAAT
17537571 AATTCGAAT
1 AATTCGAAT
17537580 A
1 A
17537581 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17539130 original size:16 final size:16
Alignment explanation
Indices: 17539109--17539140 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17539099 TTATAATATA
*
17539109 TTGTATTATGTTATTT
1 TTGTATTATGTAATTT
17539125 TTGTATTATGTAATTT
1 TTGTATTATGTAATTT
17539141 ATAACAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (16 bp):
TTGTATTATGTAATTT
Found at i:17540311 original size:30 final size:28
Alignment explanation
Indices: 17540269--17540374 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 28
17540259 AAAAACATAA
17540269 AAAATTATAAAAATGATTATAAATTAATT
1 AAAATTATAAAAAT-ATTATAAATTAATT
* *
17540298 ACAATTCATAAAAA-A-TATATA-TAA--
1 AAAATT-ATAAAAATATTATAAATTAATT
*
17540322 AAAATTATAAAAATTATTAGAAATTAATT
1 AAAATTATAAAAA-TATTATAAATTAATT
*
17540351 AAAAATCAT-AAAAT-TTATAAATTA
1 -AAAATTATAAAAATATTATAAATTA
17540375 TTATAAAGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
23 7 0.11
24 5 0.08
25 1 0.02
26 7 0.11
27 17 0.27
28 2 0.03
29 9 0.15
30 14 0.23
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATTATAAAAATATTATAAATTAATT
Found at i:17540351 original size:11 final size:10
Alignment explanation
Indices: 17540268--17540356 Score: 58
Period size: 10 Copynumber: 8.6 Consensus size: 10
17540258 AAAAAACATA
17540268 AAAAATTA-T
1 AAAAATTATT
*
17540277 AAAAATGATT
1 AAAAATTATT
*
17540287 ATAAATTAATT
1 AAAAATT-ATT
* *
17540298 -ACAATTCATA
1 AAAAATT-ATT
17540308 AAAAATATATAT
1 AAAAAT-TAT-T
17540320 AAAAAATTA-T
1 -AAAAATTATT
17540330 AAAAATTATT
1 AAAAATTATT
*
17540340 AGAAATTAATT
1 AAAAATT-ATT
17540351 AAAAAT
1 AAAAAT
17540357 CATAAAATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
9 15 0.25
10 20 0.33
11 17 0.28
12 3 0.05
13 6 0.10
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAATTATT
Found at i:17540412 original size:16 final size:16
Alignment explanation
Indices: 17540391--17540424 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
17540381 AGCAATTGAA
17540391 AAACATAGTCTAACAC
1 AAACATAGTCTAACAC
17540407 AAACATAGTCTAACAC
1 AAACATAGTCTAACAC
17540423 AA
1 AA
17540425 GCTCAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (16 bp):
AAACATAGTCTAACAC
Found at i:17541788 original size:26 final size:26
Alignment explanation
Indices: 17541745--17541802 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17541735 TCCTATCCCT
* * *
17541745 ATTTTACCCTAAATAAAATTTTGACG
1 ATTTTACCCTAAACAAAAGTTTGACA
* *
17541771 ATTTTACCCTTAGCAAAAGTTTGACA
1 ATTTTACCCTAAACAAAAGTTTGACA
17541797 ATTTTA
1 ATTTTA
17541803 ACATTGATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (26 bp):
ATTTTACCCTAAACAAAAGTTTGACA
Found at i:17545115 original size:19 final size:19
Alignment explanation
Indices: 17545080--17545117 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17545070 ACTGTCATTT
*
17545080 CTTCAAATGCACCAAATTG
1 CTTCAAATGCACAAAATTG
17545099 CTTCAAATTG-ACAAAATTG
1 CTTCAAA-TGCACAAAATTG
17545118 TGTAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (19 bp):
CTTCAAATGCACAAAATTG
Found at i:17548909 original size:21 final size:22
Alignment explanation
Indices: 17548883--17548923 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
17548873 GCCAACTCCA
17548883 CTTCATC-GTCTCCA-CAAATAT
1 CTTCATCTG-CTCCAGCAAATAT
17548904 CTTCATCTGCTCCAGCAAAT
1 CTTCATCTGCTCCAGCAAAT
17548924 GGATCTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.34, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTCATCTGCTCCAGCAAATAT
Found at i:17553538 original size:106 final size:107
Alignment explanation
Indices: 17553413--17553625 Score: 419
Period size: 106 Copynumber: 2.0 Consensus size: 107
17553403 TAATATAATC
17553413 TTTATATTATTTTAGATAGTTTTGGATAAAAGATATATATGATACTTTAAATATCTTATTTTTTA
1 TTTATATTATTTTAGATAGTTTTGGATAAAAGATATATATGATACTTTAAATATCTTATTTTTTA
17553478 AATTTTTTAATAAAATAAAATTAACTTAATATTTTCTTAGTT
66 AATTTTTTAATAAAATAAAATTAACTTAATATTTTCTTAGTT
17553520 TTTATATTA-TTTAGATAGTTTTGGATAAAAGATATATATGATACTTTAAATATCTTATTTTTTA
1 TTTATATTATTTTAGATAGTTTTGGATAAAAGATATATATGATACTTTAAATATCTTATTTTTTA
17553584 AATTTTTTAATAAAATAAAATTAACTTAATATTTTCTTAGTT
66 AATTTTTTAATAAAATAAAATTAACTTAATATTTTCTTAGTT
17553626 ATCTATTTAC
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 97 0.92
107 9 0.08
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (107 bp):
TTTATATTATTTTAGATAGTTTTGGATAAAAGATATATATGATACTTTAAATATCTTATTTTTTA
AATTTTTTAATAAAATAAAATTAACTTAATATTTTCTTAGTT
Found at i:17556057 original size:3 final size:3
Alignment explanation
Indices: 17556049--17556081 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
17556039 AGATTGTTCA
17556049 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17556082 TAGCACCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17559991 original size:16 final size:16
Alignment explanation
Indices: 17559970--17560000 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17559960 TAGAAAATCT
17559970 AATCTTATAATATTAC
1 AATCTTATAATATTAC
*
17559986 AATCTTCTAATATTA
1 AATCTTATAATATTA
17560001 AGATATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
AATCTTATAATATTAC
Found at i:17560022 original size:55 final size:55
Alignment explanation
Indices: 17559952--17560055 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
17559942 ATCTTGATCC
* * * *
17559952 TTTAAGATTAGAAAATCTAATCTTATAATATTACAATCTTCTAATATTAAGATAT
1 TTTAAGATTACAAAATCAAATCTTATAAGATTACAATCTTCTAAGATTAAGATAT
*
17560007 TTTAAGATTACAAAATCAAATCTTTTAAGATTACAATCTTCTAAGATTA
1 TTTAAGATTACAAAATCAAATCTTATAAGATTACAATCTTCTAAGATTA
17560056 CTTCCATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (55 bp):
TTTAAGATTACAAAATCAAATCTTATAAGATTACAATCTTCTAAGATTAAGATAT
Found at i:17560046 original size:16 final size:16
Alignment explanation
Indices: 17560025--17560056 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17560015 TACAAAATCA
*
17560025 AATCTTTTAAGATTAC
1 AATCTTCTAAGATTAC
17560041 AATCTTCTAAGATTAC
1 AATCTTCTAAGATTAC
17560057 TTCCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
AATCTTCTAAGATTAC
Found at i:17574858 original size:24 final size:22
Alignment explanation
Indices: 17574811--17574864 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
17574801 TATTTTAGAA
*
17574811 TTTTT-AAATAAAATTATAATT
1 TTTTTAAAATAAAATTATAAAT
*
17574832 TTTTTAAAATATAAATTTTGAAAT
1 TTTTTAAAATA-AAATTAT-AAAT
17574856 TTTTATAAA
1 TTTT-TAAA
17574865 TATTTTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 6 0.22
24 7 0.26
25 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTTAAAATAAAATTATAAAT
Found at i:17575012 original size:145 final size:146
Alignment explanation
Indices: 17574850--17575140 Score: 575
Period size: 145 Copynumber: 2.0 Consensus size: 146
17574840 ATATAAATTT
17574850 TGAAATTTTTATAAATATTTTGAATTAAATTTTTTTTTTAATTTTTGAAAAATATTTTAATTTTA
1 TGAAATTTTTATAAATATTTTGAATTAAATTTTTTTTTTAATTTTTGAAAAATATTTTAATTTTA
17574915 TTTGTAATTTTTGTTAAGAGGAATCAATATGCTTATTTTCAAAGTTGACAAAGACTAAAAATGTA
66 TTTGTAATTTTTGTTAAGAGGAATCAATATGCTTATTTTCAAAGTTGACAAAGACTAAAAATGTA
17574980 TTTACACAATTCTATG
131 TTTACACAATTCTATG
17574996 TGAAATTTTT-TAAATATTTTGAATTAAATTTTTTTTTTAATTTTTGAAAAATATTTTAATTTTA
1 TGAAATTTTTATAAATATTTTGAATTAAATTTTTTTTTTAATTTTTGAAAAATATTTTAATTTTA
17575060 TTTGTAATTTTTGTTAAGAGGAATCAATATGCTTATTTTCAAAGTTGACAAAGACTAAAAATGTA
66 TTTGTAATTTTTGTTAAGAGGAATCAATATGCTTATTTTCAAAGTTGACAAAGACTAAAAATGTA
17575125 TTTACACAATTCTATG
131 TTTACACAATTCTATG
17575141 ATTTAAATTA
Statistics
Matches: 145, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 135 0.93
146 10 0.07
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (146 bp):
TGAAATTTTTATAAATATTTTGAATTAAATTTTTTTTTTAATTTTTGAAAAATATTTTAATTTTA
TTTGTAATTTTTGTTAAGAGGAATCAATATGCTTATTTTCAAAGTTGACAAAGACTAAAAATGTA
TTTACACAATTCTATG
Found at i:17575047 original size:23 final size:25
Alignment explanation
Indices: 17575001--17575052 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
17574991 CTATGTGAAA
*
17575001 TTTTTTAAATATTTTGAATTAAATTT
1 TTTTTTAAATATTTTGAA-TAAATAT
*
17575027 TTTTTTTAAT-TTTTGAA-AAATAT
1 TTTTTTAAATATTTTGAATAAATAT
17575050 TTT
1 TTT
17575053 AATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
25 7 0.29
26 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTAAATATTTTGAATAAATAT
Found at i:17575051 original size:25 final size:26
Alignment explanation
Indices: 17575001--17575052 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
17574991 CTATGTGAAA
*
17575001 TTTTTTAAATATTTTGAATTAAATTT
1 TTTTTTAAATATTTTGAATAAAATTT
*
17575027 TTTTTTTAAT-TTTTGAA-AAATATTT
1 TTTTTTAAATATTTTGAATAAA-ATTT
17575052 T
1 T
17575053 AATTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 12 0.52
26 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTTTAAATATTTTGAATAAAATTT
Found at i:17582763 original size:1 final size:1
Alignment explanation
Indices: 17582759--17582791 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
17582749 AAATAAAAGC
17582759 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17582792 GAGATGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17587004 original size:6 final size:6
Alignment explanation
Indices: 17586993--17587018 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17586983 GTCGTCTGTA
17586993 TGCTTT TGCTTT TGCTTT TGCTTT TG
1 TGCTTT TGCTTT TGCTTT TGCTTT TG
17587019 TTTATAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.19, T:0.65
Consensus pattern (6 bp):
TGCTTT
Found at i:17607437 original size:17 final size:17
Alignment explanation
Indices: 17607417--17607449 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17607407 TATGAATGAA
17607417 AAATGTTAG-GGCAATTG
1 AAATGTT-GTGGCAATTG
17607434 AAATGTTGTGGCAATT
1 AAATGTTGTGGCAATT
17607450 TTGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (17 bp):
AAATGTTGTGGCAATTG
Found at i:17615147 original size:32 final size:32
Alignment explanation
Indices: 17615110--17615171 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
17615100 TGTTCTAAGT
*
17615110 TTTTTGTACATAATTAAATATTTTTATTTTGAA
1 TTTTGGTA-ATAATTAAATATTTTTATTTTGAA
*
17615143 TTTTGGTAGTAATTAAATATTTTTATTTT
1 TTTTGGTAATAATTAAATATTTTTATTTT
17615172 TAATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (32 bp):
TTTTGGTAATAATTAAATATTTTTATTTTGAA
Found at i:17617103 original size:27 final size:27
Alignment explanation
Indices: 17617073--17617130 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
17617063 ATCAGAATAG
* *
17617073 TAAACATGAGGTAGTTCACCGAGACAC
1 TAAACACGAGGTAGTCCACCGAGACAC
* *
17617100 TAAACACGGGGTAGTCCATCGAGACAC
1 TAAACACGAGGTAGTCCACCGAGACAC
17617127 TAAA
1 TAAA
17617131 TACAATGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
TAAACACGAGGTAGTCCACCGAGACAC
Found at i:17619861 original size:138 final size:138
Alignment explanation
Indices: 17619613--17619881 Score: 493
Period size: 138 Copynumber: 1.9 Consensus size: 138
17619603 TAGAAAAATG
* *
17619613 AATTATATTCTTTCCGAAAGAATATTAATTTCCATATCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
*
17619678 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
17619743 CATATAGT
131 CATATAGT
* *
17619751 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
17619816 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
17619881 C
131 C
17619882 CAAATTGATA
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 126 1.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
CATATAGT
Found at i:17621995 original size:50 final size:50
Alignment explanation
Indices: 17621810--17621996 Score: 203
Period size: 50 Copynumber: 3.6 Consensus size: 50
17621800 GGTAAAGAGA
* * * *
17621810 TCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCATTGAGGTTATGAGAAG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGA---TATGAGAAG
* * * * * *
17621866 TCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAG
*
17621916 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAG
* *
17621966 TCCCACGTAAGACCATATCTGGGATATGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCA
17621997 GCAGTACAAG
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 78 0.68
53 2 0.02
55 1 0.01
56 34 0.30
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAG
Found at i:17632899 original size:65 final size:65
Alignment explanation
Indices: 17632819--17632942 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 65
17632809 TTAATATTAC
*
17632819 AATAATATTATTTTTGGAATAATTAATCTGAAATCAAATTCTCTAG-TAGAGTTCCAGTAAGGTA
1 AATAATATTATTTTTGGAATAATTAATCTGAAATCAAATTCT-TAGATAGAGTCCCAGTAAGGTA
17632883 A
65 A
* *
17632884 AATAATATTATTTTTGGAATAGTTAATCTGAAATCAAATTCTTTGATAGAGTCCCAGTA
1 AATAATATTATTTTTGGAATAATTAATCTGAAATCAAATTCTTAGATAGAGTCCCAGTA
17632943 GAAGTGTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 2 0.04
65 53 0.96
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (65 bp):
AATAATATTATTTTTGGAATAATTAATCTGAAATCAAATTCTTAGATAGAGTCCCAGTAAGGTAA
Found at i:17645646 original size:51 final size:50
Alignment explanation
Indices: 17645588--17645772 Score: 194
Period size: 51 Copynumber: 3.7 Consensus size: 50
17645578 TCGGTTCACA
* * * *
17645588 TAGTAGCCTGCACATAGTACTATACATGTGACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCTGGTACACG
* ** * * *
17645639 TAGTAGCCTACACATAGTACTACACACGTGATTGA-AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCTGGTACACG
* * * *
17645690 TAGTAGCCTGGACATAGTACTACACATGCGACC-TATCATTTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCTGGTACACG
17645740 TAGTAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
17645773 TACCAAATTC
Statistics
Matches: 107, Mismatches: 23, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
49 1 0.01
50 41 0.38
51 64 0.60
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCTGGTACACG
Found at i:17645762 original size:101 final size:101
Alignment explanation
Indices: 17645586--17645770 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
17645576 ACTCGGTTCA
* * *
17645586 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTTTCATCTGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATCTGATACACGTAGTAGCCTACA
17645651 CATAGTACTACACACGTGATTGAAGCTATCTGGTACG
65 CATAGTACTACACACGTGATTGAAGCTATCTGGTACG
* * * *
17645688 CATAGTAGCCTGGACATAGTACTACACATGCGACC-TATCATTTTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TCTGATACACGTAGTAGCCTACA
17645752 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
17645771 CCTACCAAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATCTGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATTGAAGCTATCTGGTACG
Found at i:17651690 original size:13 final size:13
Alignment explanation
Indices: 17651672--17651697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17651662 TGCAAACATT
17651672 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
17651685 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
17651698 GAGAAGAAGC
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:17657458 original size:9 final size:9
Alignment explanation
Indices: 17657441--17657489 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
17657431 GTAGTGATTC
*
17657441 AATTTGGTT
1 AATTCGGTT
17657450 AATTCGGTT
1 AATTCGGTT
*
17657459 AATTCAGTT
1 AATTCGGTT
* *
17657468 AATTTGGCT
1 AATTCGGTT
17657477 AATTCGGTT
1 AATTCGGTT
17657486 AATT
1 AATT
17657490 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:17665282 original size:40 final size:40
Alignment explanation
Indices: 17665238--17665328 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
17665228 CATAGATGCA
* * ** * *
17665238 AAACAGGGGCACATATGTGCAGCCAGGGACACTGAAGTGT
1 AAACAGGGGCACAGACGTGCAAACAGGGACACCGAAATGT
*
17665278 AAACAGGGGCACAGCCGTGCAAACAGGGACACCGAAATGT
1 AAACAGGGGCACAGACGTGCAAACAGGGACACCGAAATGT
*
17665318 ATACAGGGGCA
1 AAACAGGGGCA
17665329 TTGAAGTGCG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.32, T:0.11
Consensus pattern (40 bp):
AAACAGGGGCACAGACGTGCAAACAGGGACACCGAAATGT
Done.