Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold6
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: 4312818
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 226954 characters in sequence are not A, C, G, or T
File 5 of 14
Found at i:1549506 original size:13 final size:13
Alignment explanation
Indices: 1549478--1549511 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1549468 AGTATTGGAC
*
1549478 TTTTATTATATTTA
1 TTTTA-TATATATA
1549492 TTTTATATATATA
1 TTTTATATATATA
1549505 TTTTATA
1 TTTTATA
1549512 ATTGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATATATATA
Found at i:1556625 original size:107 final size:109
Alignment explanation
Indices: 1556493--1556709 Score: 404
Period size: 107 Copynumber: 2.0 Consensus size: 109
1556483 CTAGTTAACC
1556493 ATTTATTTTAAATATGAAATTTAAAAAATATATTAACTTAGAAAATAGTAATAAGGTATACAGTT
1 ATTTATTTTAAATATGAAATTTAAAAAATATATTAACTTAGAAAATAGTAATAAGGTATACAGTT
1556558 TAGTATATGCTAATAATTAAAATAAATAGTA-TATAATTTAAAAA
66 TAGTATATGCTAATAATTAAAATAAATA-TAGTATAATTTAAAAA
1556602 ATTTATTTT-AA-ATGAAATTTAAAAAATATATTAACTTAGAAAATAGTAATAAGGTATACAGTT
1 ATTTATTTTAAATATGAAATTTAAAAAATATATTAACTTAGAAAATAGTAATAAGGTATACAGTT
1556665 TAGTATATGCTAATAATTAAAATAAATATAGTATAATTTAAAAA
66 TAGTATATGCTAATAATTAAAATAAATATAGTATAATTTAAAAA
1556709 A
1 A
1556710 CTATTTGATT
Statistics
Matches: 107, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
106 2 0.02
107 94 0.88
108 2 0.02
109 9 0.08
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (109 bp):
ATTTATTTTAAATATGAAATTTAAAAAATATATTAACTTAGAAAATAGTAATAAGGTATACAGTT
TAGTATATGCTAATAATTAAAATAAATATAGTATAATTTAAAAA
Found at i:1568300 original size:18 final size:19
Alignment explanation
Indices: 1568277--1568313 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1568267 TATAGTCAAT
*
1568277 AAAAAT-AAACATTATCTA
1 AAAAATAAAACATAATCTA
1568295 AAAAATAAAACATAATCTA
1 AAAAATAAAACATAATCTA
1568314 TCATCTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATAAAACATAATCTA
Found at i:1568572 original size:29 final size:29
Alignment explanation
Indices: 1568539--1568595 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1568529 TAGGTTGAAA
* *
1568539 GATTGAAGATTTGAAGTTGGTTGGATAAT
1 GATTGAAGATTTAAAATTGGTTGGATAAT
*
1568568 GATTGAATATTTAAAATTGGTTGGATAA
1 GATTGAAGATTTAAAATTGGTTGGATAA
1568596 AGATCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (29 bp):
GATTGAAGATTTAAAATTGGTTGGATAAT
Found at i:1568663 original size:15 final size:15
Alignment explanation
Indices: 1568622--1568665 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
1568612 TATATTGTTA
1568622 AAATTTTGTAATTATTTT
1 AAATTTTG--ATT-TTTT
1568640 AAA-TTTGATTTTTT
1 AAATTTTGATTTTTT
1568654 AAATTTTGATTT
1 AAATTTTGATTT
1568666 ATCTAGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.28
15 11 0.44
17 4 0.16
18 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (15 bp):
AAATTTTGATTTTTT
Found at i:1575657 original size:17 final size:17
Alignment explanation
Indices: 1575637--1575669 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1575627 CAGAAAACTA
1575637 AAAGAAAAAAAAAAGAG
1 AAAGAAAAAAAAAAGAG
*
1575654 AAAGGAAAAAAAAAGA
1 AAAGAAAAAAAAAAGA
1575670 AAATAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAAGAG
Found at i:1576074 original size:22 final size:22
Alignment explanation
Indices: 1576049--1576104 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
1576039 CACCCTTACC
* *
1576049 AACCACCACCTTTCCAA-AACCT
1 AACCACCACCTTTACAACAA-CA
*
1576071 AACCATCACCTTTACAACAACA
1 AACCACCACCTTTACAACAACA
1576093 AACC-CCACCTTT
1 AACCACCACCTTT
1576105 TCCCCCATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 7 0.24
22 20 0.69
23 2 0.07
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.20
Consensus pattern (22 bp):
AACCACCACCTTTACAACAACA
Found at i:1577758 original size:113 final size:113
Alignment explanation
Indices: 1577542--1577748 Score: 256
Period size: 114 Copynumber: 1.8 Consensus size: 113
1577532 CATTAGGGAC
** * * *
1577542 ATGTCAAGTTGAGTAACCAGGGTGAGGTGCTTGATTGTCATCTCATTTCGTGTCAAAAGATTTGG
1 ATGTCAAGTTGAGTAACCAGGGTGAGGTGCTTGATTGTCATCTCATTTCGCATCAAAAAACTTGA
** *
1577607 CTGTGTCTCGAATTCGTAAAAAAATAAATAAACAAAAAATATATAATA
66 CTGTGTCTCGAATAAGTAAAAAAAGAAATAAACAAAAAATATATAATA
* * *
1577655 ATGTCGAGTTGAGTAACCGGGGTGAGGTGCTTAGGTTGTCATCTCATTTCGCATCAAAAAACTTG
1 ATGTCAAGTTGAGTAACCAGGGTGAGGTGCTT-GATTGTCATCTCATTTCGCATCAAAAAACTTG
* *
1577720 AACT-TGT-TATGAATAAGTTAAAAAAGAAA
65 -ACTGTGTCT-CGAATAAGTAAAAAAAGAAA
1577749 AATAAAAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
113 31 0.40
114 45 0.58
115 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (113 bp):
ATGTCAAGTTGAGTAACCAGGGTGAGGTGCTTGATTGTCATCTCATTTCGCATCAAAAAACTTGA
CTGTGTCTCGAATAAGTAAAAAAAGAAATAAACAAAAAATATATAATA
Found at i:1577772 original size:3 final size:3
Alignment explanation
Indices: 1577766--1577799 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1577756 AAAAGAAAGG
1577766 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1577800 TATTGAGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1578253 original size:28 final size:29
Alignment explanation
Indices: 1578220--1578278 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
1578210 AAATTGATAT
* *
1578220 ATTGAAGATTTGAAGTTGGCT-GATAAAG
1 ATTGAAGATTGGAAATTGGCTGGATAAAG
*
1578248 ATTGAAGATTGGAAATTGGTTGGATAAAG
1 ATTGAAGATTGGAAATTGGCTGGATAAAG
1578277 AT
1 AT
1578279 CAAATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (29 bp):
ATTGAAGATTGGAAATTGGCTGGATAAAG
Found at i:1578337 original size:18 final size:18
Alignment explanation
Indices: 1578316--1578350 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1578306 CTGTAATTAG
1578316 TTTAAATTTGATCTTTAT
1 TTTAAATTTGATCTTTAT
*
1578334 TTTAAATTTGATTTTTA
1 TTTAAATTTGATCTTTA
1578351 AATTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTAAATTTGATCTTTAT
Found at i:1578349 original size:13 final size:14
Alignment explanation
Indices: 1578333--1578361 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1578323 TTGATCTTTA
1578333 TTTTAAA-TTTGAT
1 TTTTAAATTTTGAT
1578346 TTTTAAATTTTGAT
1 TTTTAAATTTTGAT
1578360 TT
1 TT
1578362 ATGTAGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTAAATTTTGAT
Found at i:1579944 original size:16 final size:16
Alignment explanation
Indices: 1579919--1579949 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1579909 GTGTAATTTG
*
1579919 GTTTTTTTTTTTTGTA
1 GTTTTGTTTTTTTGTA
1579935 GTTTTGTTTTTTTGT
1 GTTTTGTTTTTTTGT
1579950 GACATTGATG
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:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (16 bp):
GTTTTGTTTTTTTGTA
Found at i:1584143 original size:16 final size:15
Alignment explanation
Indices: 1584122--1584160 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
1584112 TAATTTATTA
1584122 AATAAAAATTATTTT
1 AATAAAAATTATTTT
*
1584137 AATTAAACTATTATTTT
1 AA-TAAA-AATTATTTT
1584154 AATAAAA
1 AATAAAA
1584161 TGTTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.10
16 8 0.40
17 10 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAAAATTATTTT
Found at i:1594159 original size:108 final size:108
Alignment explanation
Indices: 1594003--1594389 Score: 526
Period size: 108 Copynumber: 3.6 Consensus size: 108
1593993 TTCCCTCGAA
* * * * *
1594003 GGGTAAAATTACCGAAATACCCTAGATGGGTAAAATGATTGAATTACCCTCAATGGGTAAAATTA
1 GGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTAAAATTA
* * *
1594068 CTGAAATACCCTCGATAGGTAAAATTATCAAAATACCCCTGAT
66 CTGAAATATCCTCGATGGGTAAAATTACCAAAATACCCCTGAT
* * *
1594111 GGATAAAATTACCGAAATACCATCGATGGGTAAAATTACTGAAATACCCTCGATGGGTAAAATGA
1 GGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTAAAATTA
** ** * *
1594176 CTGAAATATCCTCGATGGGTAAAATGGCTGAAATACTCTTGAT
66 CTGAAATATCCTCGATGGGTAAAATTACCAAAATACCCCTGAT
* *
1594219 GGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTA
1 GGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTAAAATTA
**
1594284 CCAAAATATCCTCGATGGGTAAAATTACCAAAATACCCCTGAT
66 CTGAAATATCCTCGATGGGTAAAATTACCAAAATACCCCTGAT
* * *
1594327 GGGTAAAATTATCGAAATACCCTCGATGAGTAAAATTA-TCGAAATACCC-CTATAGGGTAAAAT
1 GGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACT-GAAATACCCTCGAT-GGGTAAAAT
1594390 GACCGTTATA
Statistics
Matches: 244, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
107 3 0.01
108 241 0.99
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (108 bp):
GGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCGATGGGTAAAATTA
CTGAAATATCCTCGATGGGTAAAATTACCAAAATACCCCTGAT
Found at i:1594309 original size:27 final size:27
Alignment explanation
Indices: 1593954--1594394 Score: 474
Period size: 27 Copynumber: 16.3 Consensus size: 27
1593944 AATGGGCCAC
* * * **
1593954 AAATGACCGAATTACCCCCGAAAGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* * * * *
1593981 AAATGACTGAATTTCCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
*
1594008 AAATTACCGAAATACCCTAGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* ** * *
1594035 AAATGATTGAATTACCCTCAATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* *
1594062 AAATTACTGAAATACCCTCGATAGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* * *
1594089 AAATTATCAAAATACCC-CTGATGGATA
1 AAATTACCGAAATACCCTC-GATGGGTA
*
1594116 AAATTACCGAAATACCATCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
*
1594143 AAATTACTGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* * *
1594170 AAATGACTGAAATATCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
** * * *
1594197 AAATGGCTGAAATACTCTTGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
*
1594224 AAATTATCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
1594251 AAATTACCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* *
1594278 AAATTACCAAAATATCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
*
1594305 AAATTACCAAAATACCC-CTGATGGGTA
1 AAATTACCGAAATACCCTC-GATGGGTA
* *
1594332 AAATTATCGAAATACCCTCGATGAGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* *
1594359 AAATTATCGAAATACCC-CTATAGGGTA
1 AAATTACCGAAATACCCTCGAT-GGGTA
*
1594386 AAATGACCG
1 AAATTACCG
1594395 TTATACCCCT
Statistics
Matches: 354, Mismatches: 55, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
26 5 0.01
27 347 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATGGGTA
Found at i:1594627 original size:26 final size:26
Alignment explanation
Indices: 1594591--1594685 Score: 111
Period size: 26 Copynumber: 3.7 Consensus size: 26
1594581 CAAGTACTAT
*
1594591 TACTAGCAGCTTTGCTGTGTTACTGA
1 TACTGGCAGCTTTGCTGTGTTACTGA
* ** * *
1594617 TACTGGTAGCTTTGCTGCATTAATGT
1 TACTGGCAGCTTTGCTGTGTTACTGA
*
1594643 TATTGGCAGCTTTGCTGTGTTACT-A
1 TACTGGCAGCTTTGCTGTGTTACTGA
1594668 TTACTGGCAGCTTTGCTG
1 -TACTGGCAGCTTTGCTG
1594686 CAATATTAGT
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGTGTTACTGA
Found at i:1594829 original size:30 final size:30
Alignment explanation
Indices: 1594795--1594940 Score: 204
Period size: 30 Copynumber: 4.9 Consensus size: 30
1594785 TGCATTTGCA
1594795 CTGTTACTGTATTGGGCTAAGGCCCACACT
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
1594825 CTGTTACTGTATTGGGCTAAGGCCCACACT
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
* *
1594855 CTGTTACTGTATTGTGCTAAGGCCCAAACT
1 CTGTTACTGTATTGGGCTAAGGCCCACACT
* * *
1594885 CTGTTACTGTATTGGGTTATGGCCCCCACAT
1 CTGTTACTGTATTGGGCTAAGGCCCACAC-T
* * *
1594916 -TGCTACTGTATAGGGCTCAGGCCCA
1 CTGTTACTGTATTGGGCTAAGGCCCA
1594941 GACTGATTCT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
30 101 0.99
31 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (30 bp):
CTGTTACTGTATTGGGCTAAGGCCCACACT
Found at i:1600788 original size:24 final size:26
Alignment explanation
Indices: 1600754--1600818 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 26
1600744 CTCTTTATTT
*
1600754 TTTATTTAAATAATATAA-AAAATTA
1 TTTATTAAAATAATATAACAAAATTA
1600779 -TTATTAAAATAATATAACTTCAAAATTA
1 TTTATTAAAATAATATAA---CAAAATTA
1600807 TTTATTAAAATA
1 TTTATTAAAATA
1600819 CCATGAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 16 0.47
28 7 0.21
29 11 0.32
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTATTAAAATAATATAACAAAATTA
Found at i:1601495 original size:177 final size:177
Alignment explanation
Indices: 1600947--1602530 Score: 1988
Period size: 177 Copynumber: 8.9 Consensus size: 177
1600937 TAATGTGTCT
* *
1600947 AATCACCATTTAAAATGGTAAACAGTGATTTCGTTTTTGCTTCTTCTTTTTTTGAATTATAAGAG
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTTCTT-TT-TTTTTTT-AATTATAAGAG
* * *
1601012 GAGGGCAAAACTCTAACAGCAATGCGACTAGTGCTAAATCACCATTTGAAATAATATAACTTCAA
63 GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAA
* * * *
1601077 AATTATTTATTAAAATAGCATGAAATGAACTGTACCAATGGGATATGCTA
128 AATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATA
* *
1601127 AATCACCATTTAAAATGGTAAAAGGTGATTTCGTTTTTGTTTTTTTTTTTTTGTTTGTTTGAATT
1 AATCACCATTTAAAATGGTAAACGGTGATTTC------G-TTTTTTCTTTTT-TTT-TTT-AATT
* ** * * * *
1601192 ATAAGAGGAATGCAAAACTCTAACAATAATGCAGTTAGTGCTAAATCACCATTTAAAATAGTGTA
56 ATAAGAGGAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATA
* * * *
1601257 ACTTCAAAATTATTTATTAAAATAGCATGAGATGAACCGTACTAATGGGTTCTGCTA
121 ACTTCAAAATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATA
*
1601314 AATCACCATTTAAAATGGTAAATGGTGATTTCGTTTTTTCTTTTTTTTTTTAATTATAAGAGGAA
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTTCTTTTTTTTTTTAATTATAAGAGGAA
* * * *
1601379 GGCAAAACTCTAACAACAATACGGCTAGTGCTAAATCACCATTAAAAATAGTATAACTTCAAAAT
66 GGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAAT
* ** *
1601444 TATTTATTAAAGTAGCATGAAATGAACAAAACTAACGGGATCTGATA
131 TATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATA
* * *
1601491 AATCATCATTTAAAATGGTAAACGGTGATTTCACTTTTTGCTTTTTTTTTTTTGAATTATAAGAG
1 AATCACCATTTAAAATGGTAAACGGTGATTTC-GTTTTTTC-TTTTTTTTTTT-AATTATAAGAG
* * * ** * * *
1601556 GAGGGCAAAACTTTAACAACAATTTGTCCAGTGCTAAATCACCATTTAAAATAAATATAAATTCA
63 GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAAT-AATATAACTTCA
*
1601621 AAATTATTTATTAAAATACCATGAAATGAACAGTACTAATGGGATCT-ACTA
127 AAATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGA-TA
*
1601672 AATCACCTTTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTTTTTGAATTATAA
1 AATCACCATTTAAAATGGTAAACGGTGATTTCG-TTTT--TTC--TTTTTTTTTTT-AATTATAA
* * * *
1601737 GAGGAAGGCAAAACTCTTACAGCAATGGGGCTAGTGCTAAATCACAATTTAAAATAGTATAACTT
60 GAGGAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTT
* *
1601802 CAAAATTATTTATTAAAATAGCGTGAAATGAACAGTACTAATGGGGTCT-ACTA
125 CAAAATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGA-TA
* * ** * * *
1601855 AATCACCCTTTAAAATGTTAAACAATGATTTTG-TTTTTGTTTTTGTTTTTAATTATAAGAGGAA
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTTCTTTTTTTTTTTAATTATAAGAGGAA
* *
1601919 GGCAAAACTCTAATAGCAATGCGCCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAAT
66 GGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAAT
* * * *
1601984 TATTTATTAAAGTAGCATGAAATGAATAGTACTAATGAGATCTGCTA
131 TATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATA
* * *
1602031 AATCACCATTTAAAATGGTAAAC---GA--T-GATTTTGCTTTTGTTTTTTTATTTATAAGAGGA
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTTCTTTT-TTTTTTTAATTATAAGAGGA
* * * * *
1602090 TGGAAAAATTCTAACAGCAATGTGTCTAGTGCTAAATCA-CATTTAAAATAATATAACTTCAAAA
65 AGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAA
* * * *
1602154 TTATTTATTAAAATAACATGAAATGAATAGTACTAATGAGATCTGCTA
130 TTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATA
* * * * *
1602202 AATCACCTTTTAAATTGGTAAACGATGATTTCATTTTTTCTTTTTCTTTTTAATTATAAGAGGAA
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTTCTTTTTTTTTTTAATTATAAGAGGAA
* *
1602267 GGCAAAACTCTAACAGCAATGCGGCTAATGCTAAATCACCATTTAAAATAGTATAACTTCAAAAT
66 GGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAAT
* *
1602332 TATTTATTAAAATAGTATGAAATGAATAGTACTAATGGGATCTGCA-A
131 TATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTG-ATA
* * *
1602379 AATCACCATTTAAAATGGTAAGCGGTGATTTTGTTTTTGCTTCTTTCTTTTTTTAATTATAAGAG
1 AATCACCATTTAAAATGGTAAACGGTGATTTCG-TTTT--TTCTTTTTTTTTTTAATTATAAGAG
** * *
1602444 G-AGGGTAAACTCTAACAACAATGAGGCTAGTGCTAAATCACCATTT-AAATAATATAACTTCAA
63 GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAA
1602507 AATTATTTATTAAAATAGCATGAA
128 AATTATTTATTAAAATAGCATGAA
1602531 TCACCCTTTA
Statistics
Matches: 1234, Mismatches: 138, Indels: 66
0.86 0.10 0.05
Matches are distributed among these distances:
170 1 0.00
171 101 0.08
172 51 0.04
173 2 0.00
174 2 0.00
176 186 0.15
177 254 0.21
178 52 0.04
179 56 0.05
180 122 0.10
181 92 0.07
183 88 0.07
184 67 0.05
185 1 0.00
186 6 0.00
187 153 0.12
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (177 bp):
AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTTCTTTTTTTTTTTAATTATAAGAGGAA
GGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAAT
TATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATA
Found at i:1601724 original size:364 final size:358
Alignment explanation
Indices: 1600947--1602530 Score: 2058
Period size: 364 Copynumber: 4.4 Consensus size: 358
1600937 TAATGTGTCT
* * *
1600947 AATCACCATTTAAAATGGTAAACAGTGATTTCGTTTTTGCTTCTTCTTTTTTTGAATTATAAGAG
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTTTAATTATAAGAG
* * *
1601012 GAGGGCAAAACTCTAACAGCAATGCGACTAGTGCTAAATCACCATTTGAAATAATATAACTTCAA
66 GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAA
* * * *
1601077 AATTATTTATTAAAATAGCATGAAATGAACTGTACCAATGGGATATGCTAAATCACCATTTAAAA
131 AATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATAAATCACCATTTAAAA
* * * *
1601142 TGGTAAAAGGTGATTTC-GTTTTTGTTTTTTTTTTTTTGTTTGTTTGAATTATAAGAGGAATGCA
196 TGGTAAACGATGATTTCAGTTTTTG-------CTTTTT-TTT-TTT-AATTATAAGAGGAAGGCA
* * * *
1601206 AAACTCTAACAATAATGCAGT-TAGTGCTAAATCACCATTTAAAATAGTGTAACTTCAAAATTAT
251 AAACTCTAACAACAATGC-GTCCAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAATTAT
* * *
1601270 TTATTAAAATAGCATGAGATGAACCGTACTAATGGGTTCTGCTA
315 TTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGCTA
*
1601314 AATCACCATTTAAAATGGTAAATGGTGATTTCG-TTTT--TTCTTTTTTTTTTTAATTATAAGAG
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTTTAATTATAAGAG
* * * *
1601376 GAAGGCAAAACTCTAACAACAATACGGCTAGTGCTAAATCACCATTAAAAATAGTATAACTTCAA
66 GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAA
* ** * *
1601441 AATTATTTATTAAAGTAGCATGAAATGAACAAAACTAACGGGATCTGATAAATCATCATTTAAAA
131 AATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATAAATCACCATTTAAAA
* * * *
1601506 TGGTAAACGGTGATTTCACTTTTTGCTTTTTTTTTTTTGAATTATAAGAGGAGGGCAAAACTTTA
196 TGGTAAACGATGATTTCAGTTTTTGC-TTTTTTTTTTT-AATTATAAGAGGAAGGCAAAACTCTA
** *
1601571 ACAACAATTTGTCCAGTGCTAAATCACCATTTAAAATAAATATAAATTCAAAATTATTTATTAAA
259 ACAACAATGCGTCCAGTGCTAAATCACCATTTAAAAT-AATATAACTTCAAAATTATTTATTAAA
* *
1601636 ATACCATGAAATGAACAGTACTAATGGGATCTACTA
323 ATAGCATGAAATGAACAGTACTAATGGGATCTGCTA
*
1601672 AATCACCTTTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTTTTTGAATTATAA
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTC--TTTTTTTTTTT-AATTATAA
* * * *
1601737 GAGGAAGGCAAAACTCTTACAGCAATGGGGCTAGTGCTAAATCACAATTTAAAATAGTATAACTT
63 GAGGAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTT
* * *
1601802 CAAAATTATTTATTAAAATAGCGTGAAATGAACAGTACTAATGGGGTCT-ACTAAATCACCCTTT
128 CAAAATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGA-TAAATCACCATTT
* * * *
1601866 AAAATGTTAAACAATGATTT-TGTTTTTG-TTTTTGTTTTTAATTATAAGAGGAAGGCAAAACTC
192 AAAATGGTAAACGATGATTTCAGTTTTTGCTTTTTTTTTTTAATTATAAGAGGAAGGCAAAACTC
* *
1601929 TAATAGCAATGCG-CCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAATTATTTATTA
257 TAACAACAATGCGTCC-AGTGCTAAATCACCATTTAAAATAATATAACTTCAAAATTATTTATTA
* * *
1601993 AAGTAGCATGAAATGAATAGTACTAATGAGATCTGCTA
321 AAATAGCATGAAATGAACAGTACTAATGGGATCTGCTA
* * *
1602031 AATCACCATTTAAAATGGTAAAC---GA--T-GATTTTGC-T-TTTGTTTTTTTATTTATAAGAG
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTTTAATTATAAGAG
* * * * *
1602088 GATGGAAAAATTCTAACAGCAATGTGTCTAGTGCTAAATCA-CATTTAAAATAATATAACTTCAA
66 GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAA
* * * * * *
1602152 AATTATTTATTAAAATAACATGAAATGAATAGTACTAATGAGATCTGCTAAATCACCTTTTAAAT
131 AATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATAAATCACCATTTAAAA
* *
1602217 TGGTAAACGATGATTTCA-TTTTTTCTTTTTCTTTTTAATTATAAGAGGAAGGCAAAACTCTAAC
196 TGGTAAACGATGATTTCAGTTTTTGCTTTTTTTTTTTAATTATAAGAGGAAGGCAAAACTCTAAC
* * * * *
1602281 AGCAATGCGGCTAATGCTAAATCACCATTTAAAATAGTATAACTTCAAAATTATTTATTAAAATA
261 AACAATGCGTCCAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAATTATTTATTAAAATA
* * *
1602346 GTATGAAATGAATAGTACTAATGGGATCTGCAA
326 GCATGAAATGAACAGTACTAATGGGATCTGCTA
* * *
1602379 AATCACCATTTAAAATGGTAAGCGGTGATTTTGTTTTTGCTTCTTTCTTTTTTTAATTATAAGAG
1 AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTTTAATTATAAGAG
** * *
1602444 G-AGGGTAAACTCTAACAACAATGAGGCTAGTGCTAAATCACCATTT-AAATAATATAACTTCAA
66 GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAA
1602507 AATTATTTATTAAAATAGCATGAA
131 AATTATTTATTAAAATAGCATGAA
1602531 TCACCCTTTA
Statistics
Matches: 1075, Mismatches: 117, Indels: 62
0.86 0.09 0.05
Matches are distributed among these distances:
347 96 0.09
348 193 0.18
349 11 0.01
351 2 0.00
352 1 0.00
353 8 0.01
354 8 0.01
355 73 0.07
356 30 0.03
357 57 0.05
358 89 0.08
359 90 0.08
360 54 0.05
361 13 0.01
363 18 0.02
364 291 0.27
365 6 0.01
366 4 0.00
367 31 0.03
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (358 bp):
AATCACCATTTAAAATGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTTTAATTATAAGAG
GAAGGCAAAACTCTAACAGCAATGCGGCTAGTGCTAAATCACCATTTAAAATAATATAACTTCAA
AATTATTTATTAAAATAGCATGAAATGAACAGTACTAATGGGATCTGATAAATCACCATTTAAAA
TGGTAAACGATGATTTCAGTTTTTGCTTTTTTTTTTTAATTATAAGAGGAAGGCAAAACTCTAAC
AACAATGCGTCCAGTGCTAAATCACCATTTAAAATAATATAACTTCAAAATTATTTATTAAAATA
GCATGAAATGAACAGTACTAATGGGATCTGCTA
Found at i:1602714 original size:97 final size:100
Alignment explanation
Indices: 1602529--1602715 Score: 308
Period size: 97 Copynumber: 1.9 Consensus size: 100
1602519 AAATAGCATG
*
1602529 AATCACCCTTTAAAATGGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTTGAATTATAAGAG
1 AATCACCATTTAAAATGGGTAAACGGTGATTTCGTTTTTGCTTC-TTTTTTTTGAATTATAAGAG
* *
1602594 GAAGGCAAAACTCTAATAGTAATGCGGCTAGTGCTA
65 GAAGGCAAAACTCTAACAATAATGCGGCTAGTGCTA
1602630 AATCACCATTTAAAAT-GGTAAACGGTGATTTCGTTTTTGCTTC-TTTTTTT-AATTATAAGAGG
1 AATCACCATTTAAAATGGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTGAATTATAAGAGG
*
1602692 AAGGCAAAAGTCTAACAATAATGC
66 AAGGCAAAACTCTAACAATAATGC
1602716 AAGTAGTGCA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
97 33 0.40
98 7 0.09
100 27 0.33
101 15 0.18
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.36
Consensus pattern (100 bp):
AATCACCATTTAAAATGGGTAAACGGTGATTTCGTTTTTGCTTCTTTTTTTTGAATTATAAGAGG
AAGGCAAAACTCTAACAATAATGCGGCTAGTGCTA
Found at i:1604001 original size:17 final size:18
Alignment explanation
Indices: 1603969--1604002 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1603959 TAATTTTTAA
1603969 TTGTTCATTTTCATTTTG
1 TTGTTCATTTTCATTTTG
*
1603987 TTGTT-ATTTTTATTTT
1 TTGTTCATTTTCATTTT
1604003 ATTTTTATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.74
Consensus pattern (18 bp):
TTGTTCATTTTCATTTTG
Found at i:1604010 original size:17 final size:17
Alignment explanation
Indices: 1603963--1604010 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
1603953 ATGTTTTAAT
1603963 TTTTAATTGTTCATTTTCA
1 TTTT-ATTGTT-ATTTTCA
* *
1603982 TTTTGTTGTTATTTTTA
1 TTTTATTGTTATTTTCA
*
1603999 TTTTATTTTTAT
1 TTTTATTGTTAT
1604011 GCTATTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 16 0.64
18 5 0.20
19 4 0.16
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTATTGTTATTTTCA
Found at i:1604232 original size:18 final size:19
Alignment explanation
Indices: 1604205--1604256 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
1604195 GTATATTCTA
*
1604205 TGTAAGTTATATATTATTT
1 TGTAATTTATATATTATTT
* *
1604224 TG-ACTTTAT-TTTCTATTT
1 TGTAATTTATATAT-TATTT
1604242 TGTAATTTATATATT
1 TGTAATTTATATATT
1604257 TTATGTTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
17 2 0.08
18 12 0.48
19 9 0.36
20 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (19 bp):
TGTAATTTATATATTATTT
Found at i:1604745 original size:21 final size:21
Alignment explanation
Indices: 1604721--1604760 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1604711 CAAAATAACG
*
1604721 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
1604742 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
1604761 TAGAAAAGGT
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:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:1605146 original size:18 final size:19
Alignment explanation
Indices: 1605125--1605160 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1605115 TTTTTAAAAA
1605125 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
1605143 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
1605161 TAAAAATTAT
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:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:1605160 original size:19 final size:18
Alignment explanation
Indices: 1605125--1605173 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1605115 TTTTTAAAAA
*
1605125 TATAAAT-TTTAGAATTT
1 TATAAATATTTTGAATTT
1605142 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
1605161 TAAAAATTATTTT
1 TATAAA-TATTTT
1605174 CAAAAGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:1605167 original size:18 final size:21
Alignment explanation
Indices: 1605130--1605173 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
1605120 AAAAATATAA
*
1605130 ATTTTAGAATTTCTATAAA-T
1 ATTTTAGAATTTCTAAAAATT
1605150 ATTTT-GAATTT-TAAAAATT
1 ATTTTAGAATTTCTAAAAATT
1605169 ATTTT
1 ATTTT
1605174 CAAAAGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTAGAATTTCTAAAAATT
Found at i:1606214 original size:2 final size:2
Alignment explanation
Indices: 1606202--1606237 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1606192 TTACTCAACC
*
1606202 AT AT AT GT 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
1606238 GTATTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1611429 original size:26 final size:26
Alignment explanation
Indices: 1611400--1611554 Score: 163
Period size: 26 Copynumber: 6.0 Consensus size: 26
1611390 CTTTTGTGGC
*
1611400 ATTCTATATGATAGCCTTTATGGTGT
1 ATTCTGTATGATAGCCTTTATGGTGT
* * *
1611426 ATTCTGTATGATAACCTTTTTGGCGT
1 ATTCTGTATGATAGCCTTTATGGTGT
* *
1611452 ATT-TGCATGATAGACTTTATGGTGT
1 ATTCTGTATGATAGCCTTTATGGTGT
*
1611477 ATTTTGTATGATAGCCTTTATGGCT-T
1 ATTCTGTATGATAGCCTTTATGG-TGT
* * *
1611503 ATTTTGTATGGTAGCCTTTGTGGTGT
1 ATTCTGTATGATAGCCTTTATGGTGT
* * *
1611529 ATTCAGTATGTTA-CCTTTGTGGTGT
1 ATTCTGTATGATAGCCTTTATGGTGT
1611554 A
1 A
1611555 ACCTATTTGA
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
25 34 0.31
26 75 0.68
27 1 0.01
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (26 bp):
ATTCTGTATGATAGCCTTTATGGTGT
Found at i:1611470 original size:51 final size:52
Alignment explanation
Indices: 1611407--1611546 Score: 176
Period size: 51 Copynumber: 2.7 Consensus size: 52
1611397 GGCATTCTAT
*
1611407 ATGATAGCCTTTATGGTGTATTCTGTATGATAACCTTTTTGGCGTA-TTTGC
1 ATGATAGCCTTTATGGTGTATTCTGTATGATAACCTTTATGGCGTATTTTGC
* * * * *
1611458 ATGATAGACTTTATGGTGTATTTTGTATGATAGCCTTTATGGCTTATTTTGT
1 ATGATAGCCTTTATGGTGTATTCTGTATGATAACCTTTATGGCGTATTTTGC
* * * *
1611510 ATGGTAGCCTTTGTGGTGTATTCAGTATG-TTACCTTT
1 ATGATAGCCTTTATGGTGTATTCTGTATGATAACCTTT
1611547 GTGGTGTAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
51 47 0.63
52 28 0.37
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.47
Consensus pattern (52 bp):
ATGATAGCCTTTATGGTGTATTCTGTATGATAACCTTTATGGCGTATTTTGC
Found at i:1624300 original size:132 final size:132
Alignment explanation
Indices: 1624063--1624495 Score: 706
Period size: 132 Copynumber: 3.3 Consensus size: 132
1624053 NNNNNNNNNN
1624063 GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTAAAGATTATA
1 GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTAAAGATTATA
* * *
1624128 GGATCTTATCT-CCTAAGCAGTAGTGAAGCAGATTGAAGACGGTGAATCTTATCTTTCCAAGATA
66 -GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
1624192 GTG
130 GTG
*
1624195 GGAAGCATATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTAAAGATTATA
1 GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTAAAGATTATA
* *
1624260 GATCTTATCTCCCTAAGCAGTAGTGGAGCTGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
66 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
*
1624325 TA
131 TG
* *
1624327 TGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGTAGTAGCGGAGAAGGTTAAAGATTATA
1 GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTAAAGATTATA
* * *
1624392 GATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGTCGGCGAATCTTATCTTTCCAAGACAG
66 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1624457 TG
131 TG
* ** *
1624459 GGAAGTAGATTTAAGCCACCAAATCTTATCTCCCTAA
1 GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAA
1624496 AGTTGCAGTG
Statistics
Matches: 279, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 10 0.04
132 269 0.96
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (132 bp):
GGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTAAAGATTATA
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
TG
Found at i:1625980 original size:18 final size:18
Alignment explanation
Indices: 1625957--1626007 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
1625947 AATCTATATA
1625957 TATGT-ATATTTATTTTTT
1 TATGTAATATTT-TTTTTT
1625975 TATGTACATATTTTTTTTT
1 TATGTA-ATATTTTTTTTT
* **
1625994 CAACTAATATTTTT
1 TATGTAATATTTTT
1626008 CTCATGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 13 0.46
19 9 0.32
20 6 0.21
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
TATGTAATATTTTTTTTT
Found at i:1625985 original size:28 final size:27
Alignment explanation
Indices: 1625928--1625985 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
1625918 TATATTTTTC
*
1625928 ATATGTAATTATTTTTTTAAATCTATAT
1 ATATGTAATTATTTTTTT-AATCTACAT
*
1625956 ATATGTATATTTATTTTTTT-ATGTACAT
1 ATATGTA-A-TTATTTTTTTAATCTACAT
1625984 AT
1 AT
1625986 TTTTTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 15 0.58
29 1 0.04
30 10 0.38
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (27 bp):
ATATGTAATTATTTTTTTAATCTACAT
Found at i:1626045 original size:26 final size:29
Alignment explanation
Indices: 1626014--1626077 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 29
1626004 TTTTCTCATG
1626014 TTTATATATATACATA-TATTT-ATT-TT
1 TTTATATATATACATATTATTTAATTATT
* *
1626040 TTTATA-ATGTAGATATTATTTAATTATT
1 TTTATATATATACATATTATTTAATTATT
1626068 TTTA-ATATAT
1 TTTATATATAT
1626078 TTATGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 7 0.23
26 11 0.35
27 4 0.13
28 9 0.29
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTATATATATACATATTATTTAATTATT
Found at i:1629181 original size:34 final size:34
Alignment explanation
Indices: 1629143--1629212 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
1629133 CCTCACTCAT
*
1629143 TCATCATTCTCTCCTCTCTCAAATCTCTTTGCTA
1 TCATCATTCTCTCCTCTCTCAAATCTCTTAGCTA
1629177 TCATCATTCTCTCCTCTCTCAAATCTCTTAGCTA
1 TCATCATTCTCTCCTCTCTCAAATCTCTTAGCTA
1629211 TC
1 TC
1629213 TTTCCCCCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.19, C:0.36, G:0.03, T:0.43
Consensus pattern (34 bp):
TCATCATTCTCTCCTCTCTCAAATCTCTTAGCTA
Found at i:1630006 original size:21 final size:22
Alignment explanation
Indices: 1629977--1630017 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1629967 AGTTTATTTA
1629977 TGTTATAATTGTTAC-AAAATTG
1 TGTTATAATT-TTACTAAAATTG
1629999 TGTT-TAATTTTACTAAAAT
1 TGTTATAATTTTACTAAAAT
1630018 CTATTTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (22 bp):
TGTTATAATTTTACTAAAATTG
Found at i:1631717 original size:14 final size:14
Alignment explanation
Indices: 1631698--1631727 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1631688 GGGGAGCCAT
1631698 AGTTAGGGTTTTCA
1 AGTTAGGGTTTTCA
1631712 AGTTAGGGTTTTCA
1 AGTTAGGGTTTTCA
1631726 AG
1 AG
1631728 CTTCCAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (14 bp):
AGTTAGGGTTTTCA
Found at i:1632371 original size:18 final size:17
Alignment explanation
Indices: 1632338--1632376 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
1632328 TTTTATAAAT
1632338 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
1632356 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
1632373 TGTG
1 TGTG
1632377 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:1639807 original size:25 final size:25
Alignment explanation
Indices: 1639654--1639818 Score: 181
Period size: 25 Copynumber: 6.6 Consensus size: 25
1639644 GTACATGTAT
*
1639654 GCTCATACGAGCTGTA-AACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
1639678 GCTC-TTCTGAGCTAAATAACGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* *
1639703 GCTCCTTCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
1639728 GCTCCTTCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * *
1639753 ACTCCTCCAAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
1639778 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
1639803 GCTCATAAGAGCTGAA
1 GCTCATACGAGCTGAA
1639819 ATCGGTAGCC
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
23 2 0.02
24 10 0.08
25 108 0.88
26 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:1640588 original size:12 final size:12
Alignment explanation
Indices: 1640573--1640598 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1640563 AAGATCAAGA
1640573 TGGAGGTGGAGG
1 TGGAGGTGGAGG
1640585 TGGAGGTGGAGG
1 TGGAGGTGGAGG
1640597 TG
1 TG
1640599 AAGATGAAGA
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:0.15, C:0.00, G:0.65, T:0.19
Consensus pattern (12 bp):
TGGAGGTGGAGG
Found at i:1660529 original size:16 final size:16
Alignment explanation
Indices: 1660508--1660539 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1660498 GTTTCGTTGC
*
1660508 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
1660524 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
1660540 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:1660825 original size:51 final size:52
Alignment explanation
Indices: 1660767--1660906 Score: 160
Period size: 51 Copynumber: 2.7 Consensus size: 52
1660757 CCGGTTCACC
* *
1660767 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTATCTGATACACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATACACA
* * * * * *
1660818 TAGTAGCCTGCATATAGTACTATACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATCAGCTATCCGATACACA
*
1660869 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCA
1660907 TTCNNNNNNN
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
50 2 0.03
51 66 0.93
52 2 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATACACA
Found at i:1673880 original size:51 final size:51
Alignment explanation
Indices: 1673704--1673928 Score: 190
Period size: 51 Copynumber: 4.4 Consensus size: 51
1673694 TTTAGTGGTT
* * * * *
1673704 TGCACATAGTACCAC-CGATGTGACCATTGTCATTTGATACACGTAGTAGCC
1 TGCACATAGTACTACAC-ACGTGACCAATGTCATTCGATACACATAGTAGCC
* * * * * * *
1673755 TACACATAGTACTACAGACGTGATCAA-G-CTTTCCAGTTCACATATTAGCC
1 TGCACATAGTACTACACACGTGACCAATGTCATTCGA-TACACATAGTAGCC
* * * * *
1673805 TGTACATAGTACTATACACATGACCAAGGTCATTCGGTACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCAATGTCATTCGATACACATAGTAGCC
* * *
1673856 TGCACATAGTACTACACATGTGACCATTATC-TATCGATACA-AGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCAATGTCAT-TCGATACACA-TAGTAGCC
*
1673907 TGCACTTAGTACTACACACGTG
1 TGCACATAGTACTACACACGTG
1673929 TTCATAGGTA
Statistics
Matches: 135, Mismatches: 33, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
49 4 0.03
50 35 0.26
51 92 0.68
52 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (51 bp):
TGCACATAGTACTACACACGTGACCAATGTCATTCGATACACATAGTAGCC
Found at i:1686498 original size:40 final size:40
Alignment explanation
Indices: 1686449--1686683 Score: 292
Period size: 40 Copynumber: 5.9 Consensus size: 40
1686439 CCAGATAGAG
* * * *
1686449 GCTCGTAAGAGTTGATCCAACTGAAACACACCAAACAAAA
1 GCTCATAAGAGTTGATCCAACCGAAACACGCCAAACAGAA
* * * * *
1686489 GCTCATAAGAGTTTATCCAACCAAAAAACGCCAAATAAAA
1 GCTCATAAGAGTTGATCCAACCGAAACACGCCAAACAGAA
* *
1686529 GCTCATAAGAGTTGATCCAACCGAAACACACTAAACAGAA
1 GCTCATAAGAGTTGATCCAACCGAAACACGCCAAACAGAA
* * * *
1686569 GCTCATAAGAGCTGATTCAACCGAAAGACGCTAAACAGAA
1 GCTCATAAGAGTTGATCCAACCGAAACACGCCAAACAGAA
* *
1686609 GCTCATAAGAGCTGATCCAACCAAAACACGCCAAACAGAA
1 GCTCATAAGAGTTGATCCAACCGAAACACGCCAAACAGAA
*
1686649 GCTCATGAGAGTTGATCCAACC-AGAACACGCCAAA
1 GCTCATAAGAGTTGATCCAACCGA-AACACGCCAAA
1686684 TAGAGAGTAT
Statistics
Matches: 170, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 1 0.01
40 169 0.99
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (40 bp):
GCTCATAAGAGTTGATCCAACCGAAACACGCCAAACAGAA
Found at i:1687359 original size:18 final size:18
Alignment explanation
Indices: 1687336--1687373 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1687326 AAAAATCACT
1687336 TAACAA-AATACTTTAAAA
1 TAACAACAATA-TTTAAAA
1687354 TAACAACTAATATTTAAAA
1 TAACAAC-AATATTTAAAA
1687373 T
1 T
1687374 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
TAACAACAATATTTAAAA
Found at i:1688169 original size:167 final size:169
Alignment explanation
Indices: 1687968--1688306 Score: 454
Period size: 172 Copynumber: 2.0 Consensus size: 169
1687958 TCTTAGGGTG
* * *
1687968 TTACCACTTGAACTTTATAAATCGCTTATATAACATAAATTA-TCAAATCAAAAACCTTTTT-A-
1 TTACCACTTGAACTTAATAAATCGATTATATAACATAAATCACT-AAATCAAAAACCTTTTTAAC
1688030 ATATTTGACTCGTAAATATTAAATAATAAT-TTTACAAACTTACTCGTCAGATTTGGTGGCCCTG
65 ATATTTGACTCGTAAATATTAAATAATAATATTTACAAACTTACTCGTCAGATTT-GTGGCCCTG
* * * *
1688094 AAACTACTATTTCCGACACCACTGAAAAACGGGCTGTTACA
129 AAACCACTATTTCCGACAACACTGAAAAACAGGCTATTACA
1688135 TTACCACTTGAACTTAATAAATC-ATTCATATAACATAAATCACTAAATCAAAAACCTTTTTAAA
1 TTACCACTTGAACTTAATAAATCGATT-ATATAACATAAATCACTAAATCAAAAACCTTTTT--A
* * ** *
1688199 ACCATGTTTGACTTGTAAATATTAAATAATAATATTTATGAACTTACTCGTCAGGTTTGTGGCCC
63 A-CATATTTGACTCGTAAATATTAAATAATAATATTTACAAACTTACTCGTCAGATTTGTGGCCC
* * *
1688264 TGAAACCATTATTTTCGACAACAGTGAAAAACAGGCTATTACA
127 TGAAACCACTATTTCCGACAACACTGAAAAACAGGCTATTACA
1688307 ACTTCCCCCC
Statistics
Matches: 149, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
166 2 0.01
167 53 0.36
168 1 0.01
170 1 0.01
172 71 0.48
173 21 0.14
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (169 bp):
TTACCACTTGAACTTAATAAATCGATTATATAACATAAATCACTAAATCAAAAACCTTTTTAACA
TATTTGACTCGTAAATATTAAATAATAATATTTACAAACTTACTCGTCAGATTTGTGGCCCTGAA
ACCACTATTTCCGACAACACTGAAAAACAGGCTATTACA
Found at i:1690001 original size:28 final size:28
Alignment explanation
Indices: 1689970--1690034 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
1689960 TACGACATGC
1689970 AGTAACAGTCAGAGCCTTAGCCCTAAGT
1 AGTAACAGTCAGAGCCTTAGCCCTAAGT
*
1689998 AGTAACAGTCTGAGCCTTAGCCCTAAGT
1 AGTAACAGTCAGAGCCTTAGCCCTAAGT
1690026 AGTAACAGT
1 AGTAACAGT
1690035 GTAATGTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (28 bp):
AGTAACAGTCAGAGCCTTAGCCCTAAGT
Found at i:1690460 original size:27 final size:27
Alignment explanation
Indices: 1690430--1690730 Score: 333
Period size: 27 Copynumber: 11.1 Consensus size: 27
1690420 TATAACAGTT
*
1690430 ATTTTACCCTAT-GGGGGTATTTCGATC
1 ATTTTACCCT-TCGAGGGTATTTCGATC
*
1690457 ATTTTACCCTTC-AGGGGTATTTCGTTC
1 ATTTTACCCTTCGA-GGGTATTTCGATC
* * * *
1690484 ATTTTACCCTTCGAAGGCATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
1690511 ATTTTTACCCTT-TAGGAGTATTTCGGTC
1 A-TTTTACCCTTCGAGG-GTATTTCGATC
*
1690539 A-TTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
*
1690565 ATTTTACTCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
1690592 ATTTTACCCTTCGAAGGTATTTCGTTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
**
1690619 ATTTTACCCTTAAAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
*
1690646 ATTTTACCCTTC-AGGGGTGTTTCGATC
1 ATTTTACCCTTCGA-GGGTATTTCGATC
* * *
1690673 ATTTTACCCTTCGAGTGTATTCCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * *
1690700 ATTTTACCCTTCAAGGGCATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
1690727 ATTT
1 ATTT
1690731 GCCCATGAAT
Statistics
Matches: 233, Mismatches: 32, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
26 21 0.09
27 190 0.82
28 22 0.09
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATC
Found at i:1692061 original size:50 final size:51
Alignment explanation
Indices: 1691951--1692077 Score: 159
Period size: 50 Copynumber: 2.5 Consensus size: 51
1691941 AAAGGTCGCA
* * * * *
1691951 TGTGTGGTACTATGTGCAGGCTATTATGCGTATCGGATAGATTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGAATCGAAAAGATTCGATCACG
* *
1692002 TGTGTAGTACTATGTGCAGGCTACTATGTGAA-CTGAAAAG-TTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGAATC-GAAAAGATTCGATCACG
*
1692052 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
1692078 CGTGTATCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 35 0.52
51 32 0.48
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGAATCGAAAAGATTCGATCACG
Found at i:1701605 original size:72 final size:72
Alignment explanation
Indices: 1701488--1701632 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
1701478 TTATGCAGAA
1701488 ATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAATTAATATATAAATTATAA
1 ATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAATTAATATATAAATTATAA
1701553 ATAATAT
66 ATAATAT
1701560 ATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAATTAATATATAAATTATAA
1 ATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAATTAATATATAAATTATAA
1701625 ATAATAT
66 ATAATAT
1701632 A
1 A
1701633 ATTATATATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (72 bp):
ATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAATTAATATATAAATTATAA
ATAATAT
Found at i:1712688 original size:27 final size:27
Alignment explanation
Indices: 1712643--1712956 Score: 351
Period size: 27 Copynumber: 11.3 Consensus size: 27
1712633 GGGTATAACT
*
1712643 GTCATTTTACCCTACGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
1712670 ATCATTTTACCCTTTGAGGGCATTTTGATCATTTCG
1 GTCATTTTACCCTTCGA-GG------G-T-ATTTCG
1712706 GTCATTTTACCCTTCCG-GGGTATTTCG
1 GTCATTTTACCCTT-CGAGGGTATTTCG
** * *
1712733 GTCATTTTACCCTTTAAGGATATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
1712760 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
1712787 ATCATTTTACCCTTCTAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
1712814 GTCATGTTACCCTTCGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
1712841 GTCATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
1712868 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
1712895 GTCATTTTACCATTCAAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
1712922 GTCATTTTACCCTTCAAGGGCATTTCT
1 GTCATTTTACCCTTCGAGGGTATTTCG
1712949 GTCATTTT
1 GTCATTTT
1712957 CCCATGAATC
Statistics
Matches: 244, Mismatches: 32, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
27 216 0.89
28 3 0.01
29 1 0.00
34 1 0.00
35 3 0.01
36 19 0.08
37 1 0.00
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:1712738 original size:36 final size:36
Alignment explanation
Indices: 1712664--1712739 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
1712654 CTACGAGGGT
* *
1712664 ATTTCGATCATTTTACCCTTTGAGGGCATTTTGATC
1 ATTTCGATCATTTTACCCTTCGAGGGCATTTCGATC
* * *
1712700 ATTTCGGTCATTTTACCCTTCCG-GGGTATTTCGGTC
1 ATTTCGATCATTTTACCCTT-CGAGGGCATTTCGATC
1712736 ATTT
1 ATTT
1712740 TACCCTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (36 bp):
ATTTCGATCATTTTACCCTTCGAGGGCATTTCGATC
Found at i:1715308 original size:30 final size:30
Alignment explanation
Indices: 1715272--1715433 Score: 109
Period size: 30 Copynumber: 5.4 Consensus size: 30
1715262 ACCAAAAACA
1715272 ATGAAAAGGGATGCTGACGACCATCGAAAT
1 ATGAAAAGGGATGCTGACGACCATCGAAAT
* *** *
1715302 ATGAAAAGGGATGGCT-TCGGTTATCGAACT
1 ATGAAAAGGGAT-GCTGACGACCATCGAAAT
** ***
1715332 ATGAAAAGGGATAGCT-TTGGTTATC-AAATT
1 ATGAAAAGGGAT-GCTGACGACCATCGAAA-T
* *
1715362 ATGAAAAGGGATGGTGAAGACCATCGAACA-
1 ATGAAAAGGGATGCTGACGACCATCGAA-AT
* * *
1715392 ATGAAAAGGGATGGTGGCAACCATC-AAATT
1 ATGAAAAGGGATGCTGACGACCATCGAAA-T
1715422 ATGAAAAGGGAT
1 ATGAAAAGGGAT
1715434 AGCTTTGGCT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.01
29 6 0.06
30 95 0.88
31 5 0.05
32 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.22
Consensus pattern (30 bp):
ATGAAAAGGGATGCTGACGACCATCGAAAT
Found at i:1715425 original size:90 final size:90
Alignment explanation
Indices: 1715272--1715441 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 90
1715262 ACCAAAAACA
* * **** *
1715272 ATGAAAAGGGATGCTGACGACCATCGAAATATGAAAAGGGATGGCTTCGGTTATCGAACTATGAA
1 ATGAAAAGGGATGCTGAAGACCATCGAAATATGAAAAGGGATGGCTGCAACCATCAAACTATGAA
1715337 AAGGGATAGCTTTGGTTATCAAATT
66 AAGGGATAGCTTTGGTTATCAAATT
* *
1715362 ATGAAAAGGGATGGTGAAGACCATCGAACA-ATGAAAAGGGATGG-TGGCAACCATCAAATTATG
1 ATGAAAAGGGATGCTGAAGACCATCGAA-ATATGAAAAGGGATGGCT-GCAACCATCAAACTATG
1715425 AAAAGGGATAGCTTTGG
64 AAAAGGGATAGCTTTGG
1715442 CTTTTGAACT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 1 0.01
90 67 0.97
91 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGCTGAAGACCATCGAAATATGAAAAGGGATGGCTGCAACCATCAAACTATGAA
AAGGGATAGCTTTGGTTATCAAATT
Found at i:1723099 original size:21 final size:21
Alignment explanation
Indices: 1723059--1723115 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1723049 TGAAAAGTGT
* *
1723059 TGTGGCTGCATCTGATTTTGG
1 TGTGGATGCATCTGACTTTGG
* *
1723080 TGTGGATGCATCTGGCTTTGT
1 TGTGGATGCATCTGACTTTGG
*
1723101 TTTGGATGCATCTGA
1 TGTGGATGCATCTGA
1723116 GTGTGCTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.14, G:0.32, T:0.42
Consensus pattern (21 bp):
TGTGGATGCATCTGACTTTGG
Found at i:1730012 original size:447 final size:447
Alignment explanation
Indices: 1729178--1730075 Score: 1643
Period size: 447 Copynumber: 2.0 Consensus size: 447
1729168 GGTACGTACA
1729178 AGTTACTCCCTTGAGAGATTAGATGAATTATACATTTCTTAGATTGTCAGATTGCACGGAGTACC
1 AGTTACTCCCTTGAGAGATTAGATGAATTATACATTTCTTAGATTGTCAGATTGCACGGAGTACC
*
1729243 AGTTTCCATCATTTTGAATAGAGATTCGCGATTTGTGTCAAGATTTTGGAAAAAGTTACAGGAAG
66 AGTTTCCATCATTTTGAATAGAGATCCGCGATTTGTGTCAAGATTTTGGAAAAAGTTACAGGAAG
* * *
1729308 CTCTTGGTATGCGGTTGCATTTTAGAATTGCATCTCATCCTCAGACCGACGATCAGTTTGAGCGA
131 CTCTTCGTATGCGGTTGCATTTTAGAACTGCATCTCATCCTCAGACCGACGATCAGTCTGAGCGA
*
1729373 GTAATTTAGATACTCGAGGATATGCTTTGTTGTTATGTATTAGAGTTTGAACGCAACTGGGAGAA
196 GTAATTTAGATACTCGAGGATATGCTTTGTTGTTATGTATTAGAGTTCGAACGCAACTGGGAGAA
1729438 ATATTTTCCATTGGTTGAATTCACGTAAAATAACAATTATCAGTCGAGCGTAAAGATGGCACCGT
261 ATATTTTCCATTGGTTGAATTCACGTAAAATAACAATTATCAGTCGAGCGTAAAGATGGCACCGT
*
1729503 ATGAAGATCTGTATGGTCGTAAATGCCAAAATCTGTTACACTAGACTAAGATCAGTGAGAAAAAG
326 ATGAAGATCTGTATGGTCATAAATGCCAAAATCTGTTACACTAGACTAAGATCAGTGAGAAAAAG
1729568 ATACACGTGGTTAATTTGATTCGTGAGACTAAAGAAAAAGTAAAAGTGATACGAGAT
391 ATACACGTGGTTAATTTGATTCGTGAGACTAAAGAAAAAGTAAAAGTGATACGAGAT
* *
1729625 AGTTACTCCCTTGAGAGATTATATGAATTATACATTTCTTAGATTGTTAGATTGCACGGAGTACC
1 AGTTACTCCCTTGAGAGATTAGATGAATTATACATTTCTTAGATTGTCAGATTGCACGGAGTACC
*
1729690 AGTTTCCATCATTTTGAATAGAGATCCGCGATTTGTGTCAAGATTTTGGAAAAAGTTATAGGAAG
66 AGTTTCCATCATTTTGAATAGAGATCCGCGATTTGTGTCAAGATTTTGGAAAAAGTTACAGGAAG
*
1729755 CTCTTCGTATGCGGTTGCATTTTAGAACTGCATTTCATCCTCAGACCGACGATCAGTCTGAGCGA
131 CTCTTCGTATGCGGTTGCATTTTAGAACTGCATCTCATCCTCAGACCGACGATCAGTCTGAGCGA
* *
1729820 GTAATTTAGATACTCGAGGATATGCTTTGTTGTTGTGTATTAGAGTTCGAACGCAGCTGGGAGAA
196 GTAATTTAGATACTCGAGGATATGCTTTGTTGTTATGTATTAGAGTTCGAACGCAACTGGGAGAA
*
1729885 ATATTTTCCATTGGTTGAATTCACGTAAAATAACAGTTATCAGTCGAGCGTAAAGATGGCACCGT
261 ATATTTTCCATTGGTTGAATTCACGTAAAATAACAATTATCAGTCGAGCGTAAAGATGGCACCGT
* *
1729950 ATGAAGCTCTGTATGGTCATAAATGCCAAAATCTGTTACACTAGACTGAGATCAGTGAGAAAAAG
326 ATGAAGATCTGTATGGTCATAAATGCCAAAATCTGTTACACTAGACTAAGATCAGTGAGAAAAAG
* *
1730015 ATACACGTGGTTAATTTGATTCGTGAGACTGAAGAAAAAGTAAAAGTGATCCGAGAT
391 ATACACGTGGTTAATTTGATTCGTGAGACTAAAGAAAAAGTAAAAGTGATACGAGAT
1730072 AGTT
1 AGTT
1730076 TGAAAGCAGC
Statistics
Matches: 434, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
447 434 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (447 bp):
AGTTACTCCCTTGAGAGATTAGATGAATTATACATTTCTTAGATTGTCAGATTGCACGGAGTACC
AGTTTCCATCATTTTGAATAGAGATCCGCGATTTGTGTCAAGATTTTGGAAAAAGTTACAGGAAG
CTCTTCGTATGCGGTTGCATTTTAGAACTGCATCTCATCCTCAGACCGACGATCAGTCTGAGCGA
GTAATTTAGATACTCGAGGATATGCTTTGTTGTTATGTATTAGAGTTCGAACGCAACTGGGAGAA
ATATTTTCCATTGGTTGAATTCACGTAAAATAACAATTATCAGTCGAGCGTAAAGATGGCACCGT
ATGAAGATCTGTATGGTCATAAATGCCAAAATCTGTTACACTAGACTAAGATCAGTGAGAAAAAG
ATACACGTGGTTAATTTGATTCGTGAGACTAAAGAAAAAGTAAAAGTGATACGAGAT
Found at i:1733303 original size:75 final size:76
Alignment explanation
Indices: 1733134--1733318 Score: 178
Period size: 75 Copynumber: 2.5 Consensus size: 76
1733124 TGGGCACACA
* * * *
1733134 ATCATCGG-TATACCCGACTAGCACTAGGCACAAACACCGTTGGTTTATCCAATTAGAGTTGGGC
1 ATCATCGGCTATACCCGACTAGCACTAGGCACAAACACCGTTGGTTCATCCAACTAGAGCTAGGC
1733198 TCACATTCAAC
66 TCACATTCAAC
* * * * * ** **
1733209 ATCATTGGC-ATATCTGACTAGCGCTGGGTGCAAACATTGTTGGTTCATCCAACTAGAGCTAGGC
1 ATCATCGGCTATACCCGACTAGCACTAGGCACAAACACCGTTGGTTCATCCAACTAGAGCTAGGC
** *
1733273 TCATTTTCAAT
66 TCACATTCAAC
** *
1733284 ATCATCGGCTA-ACCCGACTAGTGCTTGGCACAAAC
1 ATCATCGGCTATACCCGACTAGCACTAGGCACAAAC
1733319 TCCATTGCGA
Statistics
Matches: 85, Mismatches: 23, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
75 84 0.99
76 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (76 bp):
ATCATCGGCTATACCCGACTAGCACTAGGCACAAACACCGTTGGTTCATCCAACTAGAGCTAGGC
TCACATTCAAC
Found at i:1737843 original size:40 final size:40
Alignment explanation
Indices: 1737799--1737920 Score: 140
Period size: 40 Copynumber: 3.0 Consensus size: 40
1737789 AGACAAGGGT
*
1737799 ACGTAAATGCAATCAGGGGTACCGAAGTACAAACAGAGGC
1 ACGTAAGTGCAATCAGGGGTACCGAAGTACAAACAGAGGC
* * * *
1737839 ACGTAAGTGCTATTAGGGGTACCAAAATACAAACAG-GTGC
1 ACGTAAGTGCAATCAGGGGTACCGAAGTACAAACAGAG-GC
* * *
1737879 AC-TAATGTGCAAACAAGGGTATCGAAGTACAAACAGAGGC
1 ACGTAA-GTGCAATCAGGGGTACCGAAGTACAAACAGAGGC
1737919 AC
1 AC
1737921 TTCTTCATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 4 0.06
40 62 0.93
41 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (40 bp):
ACGTAAGTGCAATCAGGGGTACCGAAGTACAAACAGAGGC
Found at i:1739962 original size:15 final size:15
Alignment explanation
Indices: 1739944--1739973 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1739934 AGATGACGAC
1739944 GAAGAAGAAGAAGAG
1 GAAGAAGAAGAAGAG
*
1739959 GAAGACGAAGAAGAG
1 GAAGAAGAAGAAGAG
1739974 CCTTTCCCAA
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:0.57, C:0.03, G:0.40, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAGAAGAG
Found at i:1748952 original size:23 final size:23
Alignment explanation
Indices: 1748878--1748953 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 23
1748868 CTACCACAAA
1748878 ATCCCAACCCAATGCATATGCAAT
1 ATCCCAACCCAATGCATATGC-AT
*
1748902 ATGTCACACAATCTCAA-GCATAAT-CAT
1 A--TC-C-CAA-CCCAATGCAT-ATGCAT
1748929 ATCCCAACCCAATGCATATGCAT
1 ATCCCAACCCAATGCATATGCAT
1748952 AT
1 AT
1748954 ATTGATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 17
0.69 0.03 0.28
Matches are distributed among these distances:
22 6 0.14
23 12 0.29
24 2 0.05
25 2 0.05
26 2 0.05
27 4 0.10
28 8 0.19
29 6 0.14
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.24
Consensus pattern (23 bp):
ATCCCAACCCAATGCATATGCAT
Found at i:1752265 original size:43 final size:41
Alignment explanation
Indices: 1752146--1752377 Score: 175
Period size: 42 Copynumber: 5.5 Consensus size: 41
1752136 CTCGGTGGAT
* * * *
1752146 TCAGCACTTAGCAA-CCATCTTAAATTCAGTGATACAGGGAA
1 TCAGCACTTAGCAACCCCT-TTAAATTCAATAATACGGGGAA
* * * * *
1752187 TCAGCACATAGCAACCGCTTTCACAGTT-AAAAATACGGTGGAT
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAATAATACGG-GGAA
* * *
1752230 TCAGCATTTAGCAACCACCTTTATATTCAATAATACGGAGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAATAATACGGGGAA
* *
1752272 TCAGCACATAGCAACCCCTTTCACAA-TCAA-AGATATGGTGGAA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAATA-ATACGG-GGAA
* * * * *
1752315 TCAGCACTTAGCATCTACCTCTAAAGTCAATAATTCGGGGAA
1 TCAGCACTTAGCAAC-CCCTTTAAATTCAATAATACGGGGAA
1752357 TCAGCACTTAGCAACCCCTTT
1 TCAGCACTTAGCAACCCCTTT
1752378 TTTATTCAAT
Statistics
Matches: 147, Mismatches: 31, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
41 25 0.17
42 57 0.39
43 56 0.38
44 9 0.06
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTAAATTCAATAATACGGGGAA
Found at i:1752287 original size:85 final size:84
Alignment explanation
Indices: 1752138--1752377 Score: 293
Period size: 85 Copynumber: 2.8 Consensus size: 84
1752128 ATCCATTACT
* * *
1752138 CGGTGGATTCAGCACTTAGCAACCATC-TTAAATTCAGTGATACAGGGAATCAGCACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAATAATAC-GGGAATCAGCACATAGCAAC
* * *
1752202 CGCTTTCACAGTTAAAAATA
65 CCCTTTCACAATCAAAAATA
* *
1752222 CGGTGGATTCAGCATTTAGCAACCACCTTTATATTCAATAATACGGAGAATCAGCACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAATAATACGG-GAATCAGCACATAGCAAC
*
1752287 CCCTTTCACAATCAAAGATA
65 CCCTTTCACAATCAAAAATA
* * * * * * * *
1752307 TGGTGGAATCAGCACTTAGCATCTACCTCTAAAGTCAATAATTCGGGGAATCAGCACTTAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAATAATAC-GGGAATCAGCACATAGCAAC
1752372 CCCTTT
65 CCCTTT
1752378 TTTATTCAAT
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 27 0.20
85 105 0.78
86 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (84 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAATAATACGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAAAATA
Found at i:1759569 original size:43 final size:43
Alignment explanation
Indices: 1759521--1759709 Score: 147
Period size: 42 Copynumber: 4.5 Consensus size: 43
1759511 ATACGGGGAG
* * * *
1759521 CAGCACATAGCAACCCCTTTCACAGTCAAAAATATGGTGCATT
1 CAGCACATAGCAACCCCTTTCACAATCAAAAATACGGTGGAAT
* * * * **
1759564 CAGCACTTAGCAACCACCTTT-ATATTTAGTAATACGG-GGAAT
1 CAGCACATAGCAACC-CCTTTCACAATCAAAAATACGGTGGAAT
*
1759606 CAGCACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAAT
1 CAGCACATAGCAACCCCTTTCACAATCAAAAATACGGTGGAAT
* * * * * *
1759649 -AGCACTTAGCAACTACCTCT-A-AAGTCAATAATTCAG-GGAAT
1 CAGCACATAGCAAC-CCCTTTCACAA-TCAAAAATACGGTGGAAT
*
1759690 CAGCACTTAGCAACCCCTTT
1 CAGCACATAGCAACCCCTTT
1759710 TTTATTCAAT
Statistics
Matches: 115, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
41 16 0.14
42 61 0.53
43 33 0.29
44 5 0.04
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
CAGCACATAGCAACCCCTTTCACAATCAAAAATACGGTGGAAT
Found at i:1759626 original size:85 final size:85
Alignment explanation
Indices: 1759472--1759709 Score: 284
Period size: 84 Copynumber: 2.8 Consensus size: 85
1759462 ATCCGTTACT
* * * * *
1759472 CGGTGGATTCAACACTTATCAACCACC-TTAAATCCAGTGATACGGGG-AGCAGCACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
*
1759535 CCCTTTCACAGTCAAAAATA
66 CCCTTTCACAATCAAAAATA
* * * *
1759555 TGGTGCATTCAGCACTTAGCAACCACCTTTATATTTAGTAATACGGGGAATCAGCACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
*
1759620 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAAATA
* * * * * * * *
1759640 CGGTGGAAT-AGCACTTAGCAACTACCTCTAAAGTCAATAATTCAGGGAATCAGCACTTAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
1759704 CCCTTT
66 CCCTTT
1759710 TTTATTCAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
83 23 0.18
84 68 0.52
85 39 0.30
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (85 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAAATA
Found at i:1761837 original size:24 final size:24
Alignment explanation
Indices: 1761805--1761866 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
1761795 ACAAAGATTT
1761805 TTATACTAATAAATG-TCAAATATA
1 TTATACTAATAAATGCT-AAATATA
*
1761829 TTATGCTAATAAATGCTAAATATA
1 TTATACTAATAAATGCTAAATATA
1761853 TTATACTAATAAAT
1 TTATACTAATAAAT
1761867 AATAAATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 34 0.97
25 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (24 bp):
TTATACTAATAAATGCTAAATATA
Found at i:1761872 original size:24 final size:23
Alignment explanation
Indices: 1761805--1761873 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
1761795 ACAAAGATTT
*
1761805 TTATACTAATAAATGTCAAATATA
1 TTATACTAATAAATAT-AAATATA
* *
1761829 TTATGCTAATAAATGCTAAATATA
1 TTATACTAATAAAT-ATAAATATA
1761853 TTATACTAATAAATAATAAAT
1 TTATACTAATAAAT-ATAAAT
1761874 CTTCTAGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 38 0.97
25 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (23 bp):
TTATACTAATAAATATAAATATA
Found at i:1763926 original size:42 final size:44
Alignment explanation
Indices: 1763827--1763973 Score: 142
Period size: 43 Copynumber: 3.4 Consensus size: 44
1763817 AGTTATCATA
* * *
1763827 TAAGACCATGTCTGGGACGTTGGCATCGATTTGAGATTTACGTG
1 TAAGACCATGTCTGGGACATCGGCATCGATATGAGATTTACGTG
1763871 TAAGACCATGTCTGGGACATCGGCATC-ATAT-ACGATTT-CGTG
1 TAAGACCATGTCTGGGACATCGGCATCGATATGA-GATTTACGTG
* * * ** *
1763913 TAAGACCCTGTCTGGGATAGT-GGCATCCATATTTGA-TTACATG
1 TAAGACCATGTCTGGGACA-TCGGCATCGATATGAGATTTACGTG
* *
1763956 TAAGACCACGTTTGGGAC
1 TAAGACCATGTCTGGGAC
1763974 GTTGGCATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.34
43 32 0.37
44 25 0.29
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACATCGGCATCGATATGAGATTTACGTG
Found at i:1783173 original size:24 final size:24
Alignment explanation
Indices: 1783141--1783209 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
1783131 ATAAAGATTT
1783141 TTATACTAATAAATG-TCAAATATA
1 TTATACTAATAAATGCT-AAATATA
* *
1783165 TTATGCTAATATATGCTAAATATA
1 TTATACTAATAAATGCTAAATATA
*
1783189 TTATACTAATAAATACTAAAT
1 TTATACTAATAAATGCTAAAT
1783210 CTTCTAGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 38 0.97
25 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (24 bp):
TTATACTAATAAATGCTAAATATA
Found at i:1788429 original size:1 final size:1
Alignment explanation
Indices: 1788423--1788472 Score: 73
Period size: 1 Copynumber: 50.0 Consensus size: 1
1788413 CTTCAAGGGC
* * *
1788423 TTTTTTTTTTTTTTTTTTTTTTTTCTTTTTCTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1788473 GTCAATTTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:1792747 original size:12 final size:12
Alignment explanation
Indices: 1792730--1792762 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
1792720 AAATACACGT
1792730 AAATAACCTCAA
1 AAATAACCTCAA
1792742 AAATAACCTCAA
1 AAATAACCTCAA
1792754 AAATAACCT
1 AAATAACCT
1792763 AAGGTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAACCTCAA
Found at i:1801081 original size:24 final size:25
Alignment explanation
Indices: 1801054--1801100 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1801044 CTCAATGTTC
1801054 TTATTATT-TATTTATTTCTTCTTA
1 TTATTATTATATTTATTTCTTCTTA
* *
1801078 TTATTATTATCTTTATTTTTTCT
1 TTATTATTATATTTATTTCTTCT
1801101 CTTTAGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (25 bp):
TTATTATTATATTTATTTCTTCTTA
Found at i:1809336 original size:19 final size:19
Alignment explanation
Indices: 1809312--1809404 Score: 150
Period size: 19 Copynumber: 4.8 Consensus size: 19
1809302 AATCTTCAAG
1809312 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
1809331 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
1809350 GATATGCAATCTCAGATAT
1 GATATGCAATCTTAGATAT
*
1809369 GATATGTAATCTTAGATTAT
1 GATATGCAATCTTAGA-TAT
1809389 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
1809405 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:1809356 original size:38 final size:39
Alignment explanation
Indices: 1809312--1809427 Score: 171
Period size: 38 Copynumber: 2.9 Consensus size: 39
1809302 AATCTTCAAG
1809312 GATATGCAATCTTAGATATGATATGTAATCTTAGA-TAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATTAT
*
1809350 GATATGCAATCTCAGATATGATATGTAATCTTAGATTAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATTAT
*
1809389 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
1809428 GATTTAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
38 34 0.49
39 15 0.21
42 8 0.11
43 13 0.19
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (39 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATTAT
Found at i:1809422 original size:23 final size:22
Alignment explanation
Indices: 1809325--1809427 Score: 96
Period size: 19 Copynumber: 5.0 Consensus size: 22
1809315 ATGCAATCTT
1809325 AGATATGATATGTAATCTT---
1 AGATATGATATGTAATCTTAGA
* *
1809344 AGATATGATATGCAATC-T-C-
1 AGATATGATATGTAATCTTAGA
1809363 AGATATGATATGTAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
1809384 A-TTATGATATGCAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
1809405 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
1809428 GATTTAATTT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
18 1 0.01
19 32 0.46
20 18 0.26
21 2 0.03
22 5 0.07
23 12 0.17
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:1809655 original size:23 final size:23
Alignment explanation
Indices: 1809611--1809655 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1809601 TCTTATTTTG
* *
1809611 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
1809634 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
1809656 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:1809887 original size:3 final size:3
Alignment explanation
Indices: 1809879--1809920 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
1809869 ATCTTGTATC
* *
1809879 ATT ATT ATT ATC ATTT ATT ATT ATT ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT AT
1809921 ATTCATGCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1811286 original size:21 final size:21
Alignment explanation
Indices: 1811262--1811388 Score: 89
Period size: 21 Copynumber: 5.9 Consensus size: 21
1811252 AAGCAGTTAA
1811262 GGTTCACATATAATTTCTATG
1 GGTTCACATATAATTTCTATG
* *
1811283 GGTTCACATATAACTTCTACG
1 GGTTCACATATAATTTCTATG
* * *
1811304 TGTTCAAAT-TGCAATTCCTAT-
1 GGTTCACATAT--AATTTCTATG
* * *
1811325 AGTGTCTACATGAT-ATTTCTTCTA
1 GGT-TC-ACAT-ATAATTTC-TATG
*
1811349 GGTTCGCATATAATTTCTATG
1 GGTTCACATATAATTTCTATG
*
1811370 GGTTCACATATAACTTCTA
1 GGTTCACATATAATTTCTA
1811389 CATGTTCAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 18
0.70 0.15 0.16
Matches are distributed among these distances:
20 1 0.01
21 49 0.61
22 20 0.25
23 7 0.09
24 2 0.03
25 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (21 bp):
GGTTCACATATAATTTCTATG
Found at i:1811407 original size:87 final size:87
Alignment explanation
Indices: 1811261--1811444 Score: 298
Period size: 87 Copynumber: 2.1 Consensus size: 87
1811251 TAAGCAGTTA
* * *
1811261 AGGTTCACATATAATTTCTATGGGTTCACATATAACTTCTACGTGTTCAAATTGCAATTCCTATA
1 AGGTTCGCATATAATTTCTATGGGTTCACATATAACTTCTACATGTTCAAATTACAATTCCTATA
*
1811326 GTG-TCTACATGATATTTCTTCT
66 GTGCTC-ACATGATATTTCCTCT
1811348 AGGTTCGCATATAATTTCTATGGGTTCACATATAACTTCTACATGTTCAAATTACAATTCCTATA
1 AGGTTCGCATATAATTTCTATGGGTTCACATATAACTTCTACATGTTCAAATTACAATTCCTATA
*
1811413 GTGCTCGCATGATATTTCCTCT
66 GTGCTCACATGATATTTCCTCT
*
1811435 AGGTTTGCAT
1 AGGTTCGCAT
1811445 GTTATTCAGT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 88 0.98
88 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (87 bp):
AGGTTCGCATATAATTTCTATGGGTTCACATATAACTTCTACATGTTCAAATTACAATTCCTATA
GTGCTCACATGATATTTCCTCT
Found at i:1812000 original size:29 final size:28
Alignment explanation
Indices: 1811956--1812015 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
1811946 GTTTATAAAC
* *
1811956 GTTTGGGGCATTACTATAATTTTTCCAAA
1 GTTTAGGGCATGACTATAATTTTT-CAAA
1811985 GTTTAGGGCATGACTATAATTTTTCAAA
1 GTTTAGGGCATGACTATAATTTTTCAAA
1812013 GTT
1 GTT
1812016 GGCCGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (28 bp):
GTTTAGGGCATGACTATAATTTTTCAAA
Found at i:1815441 original size:27 final size:26
Alignment explanation
Indices: 1815395--1815445 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
1815385 TTTCTTTTTG
1815395 TTACTTAAGTTTAATATTATTTAATA
1 TTACTTAAGTTTAATATTATTTAATA
*
1815421 TTACTTAGGTTTTAATATTATTTAA
1 TTACTTAAG-TTTAATATTATTTAA
1815446 CATAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (26 bp):
TTACTTAAGTTTAATATTATTTAATA
Found at i:1817451 original size:123 final size:123
Alignment explanation
Indices: 1817204--1817694 Score: 689
Period size: 123 Copynumber: 4.0 Consensus size: 123
1817194 TTTTAGATCT
* *
1817204 TGGAAGAAATAATTTTGAGTTGACGTTTCTGATCAAATAGTATAAAATAGCTTCTAGCAGGATGC
1 TGGAAGAAATAATTTT--TTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGCAGGATGC
* * *
1817269 TATTTGAGAAGAATTTGTGAAATCGTGCCATCGTGGACGCGCTTTGGCTACAGTAGGTCA
64 TATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCA
** *
1817329 TCAAAGAAATAATTTTTTTGACATTTCTGAGCAAATAGTATAAAATAGCTTCTAGCAGGATGCTA
1 TGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGCAGGATGCTA
* * ** * *
1817394 TTTGAGAAGAATTTGTAAAATCGCGCCCTCGTAGACGTACTTTTGCTATAGTCGGTCA
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCA
* *
1817452 TGGAAGAAATAATTTTTTTGATGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
1 TGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGCAGGATGCTA
* *
1817517 TTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCC
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCA
** * * * *
1817575 TGGAA-AAATAATTTCGACTTGACGTTTTTGAGCAAACAGTATAAAATCGCTTCTAGCAGAATGC
1 TGGAAGAAATAATTT--TTTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGCAGGATGC
* *
1817639 T-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAGTAG
64 TATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
1817695 CATGTTTAGG
Statistics
Matches: 327, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
122 9 0.03
123 212 0.65
124 92 0.28
125 14 0.04
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (123 bp):
TGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGCAGGATGCTA
TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCA
Found at i:1821110 original size:45 final size:44
Alignment explanation
Indices: 1821042--1821443 Score: 490
Period size: 45 Copynumber: 8.9 Consensus size: 44
1821032 NNNNNNNNNN
*
1821042 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGG-T
* *
1821087 TTAAGGTTTTTAATTAAATTAGGTTAGTGTTTTTAAGTTTAAGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTT-AGGT
* *
1821132 TTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTATGTTAATTAGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAG-T--TTAGGT
*** *
1821178 TTAGGGTTTTTAAGTT-AAGGGGGTTAGCGTTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTA-GGT
1821223 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAAGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTT-AGGT
* * * *
1821268 TTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAGGTTTATGAT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTA-GGT
* *
1821313 TTAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAATTTAATTAGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-GT--TTAGGT
1821359 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTA-GGT
* *
1821404 TTAAGGTTTTTAATTAAATTAGGTTATGGTTTTTAA-TTTA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTA
1821444 AGGGTATTAA
Statistics
Matches: 309, Mismatches: 31, Indels: 35
0.82 0.08 0.09
Matches are distributed among these distances:
43 6 0.02
44 13 0.04
45 211 0.68
46 66 0.21
47 8 0.03
48 5 0.02
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.50
Consensus pattern (44 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGGT
Found at i:1821288 original size:136 final size:134
Alignment explanation
Indices: 1821042--1821438 Score: 530
Period size: 136 Copynumber: 2.9 Consensus size: 134
1821032 NNNNNNNNNN
* *
1821042 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGGTTTTAAGGTTTTTAATTAAATT
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATT
* * *
1821107 AGGTTAGTGTTTTTAAGTTTAAGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTATGTTA
65 AGGTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAGGTTA
*
1821172 ATTAGG
130 ATGA-G
*** *
1821178 TTAGGGTTTTTAAGTTAAGGGGGTTAGCGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATT
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATT
* * *
1821243 AGGTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAGGTTT
65 AGGTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAGGTTA
*
1821308 ATGAT
130 ATGAG
* *
1821313 TTAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTT-
1 TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAA-TTA
* * *
1821375 AATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTATGGTTTTTA
61 AATTAGGTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
1821439 ATTTAAGGGT
Statistics
Matches: 230, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
134 5 0.02
135 29 0.13
136 192 0.83
137 4 0.02
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (134 bp):
TTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTA
GGTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAGGTTAA
TGAG
Found at i:1821342 original size:181 final size:182
Alignment explanation
Indices: 1821042--1821446 Score: 631
Period size: 181 Copynumber: 2.2 Consensus size: 182
1821032 NNNNNNNNNN
*
1821042 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTT-AGGTTTTAAGGTTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAAGGTTTTAAGGTTTTTAATTAAAT
* *
1821106 TAGGTTAGTGTTTTTAAGTTTAAGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTT-ATGT
66 TAGGTTAGTGTTTTTAAGTTTAAGATTTAGAGTTTTTAATTAAATTAGATTAGGGTTTTTAAT-T
*
1821170 TAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGCGTTTTTAAGTTTAGGGT
130 TAATTAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGCGTTTTTAAGTTTAGGGT
* *
1821223 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAAGG-TTTAGGGTTTTTAATTTAAT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAAGGTTTTAAGGTTTTTAATTAAAT
* * *
1821287 TAGGTTAG-GATTTTTAGGTTTATGATTTAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAATT
66 TAGGTTAGTG-TTTTTAAGTTTAAGATTTAGAGTTTTTAATTAAATTAGATTAGGGTTTTTAATT
** *
1821351 TAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGT
130 TAATTAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGCGTTTTTAAGTTTAGGGT
* *
1821404 TTAAGGTTTTTAATTAAATTAGGTTATGGTTTTTAA-TTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAAGG
1821447 GTATTAATGG
Statistics
Matches: 207, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
180 8 0.04
181 194 0.94
182 5 0.02
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (182 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAAGGTTTTAAGGTTTTTAATTAAAT
TAGGTTAGTGTTTTTAAGTTTAAGATTTAGAGTTTTTAATTAAATTAGATTAGGGTTTTTAATTT
AATTAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGCGTTTTTAAGTTTAGGGT
Found at i:1821362 original size:28 final size:26
Alignment explanation
Indices: 1821313--1821399 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 26
1821303 GGTTTATGAT
*
1821313 TTAGGGTTTTTAATTAAATTAG--A-
1 TTAGGGTTTTTAATTTAATTAGTTAG
1821336 TTAGGGTTTTTAATTTAATTAG---G
1 TTAGGGTTTTTAATTTAATTAGTTAG
*
1821359 TTAGGGTTTTTAAGTTAATTAG---G
1 TTAGGGTTTTTAATTTAATTAGTTAG
1821382 TTAGGGTTTTTAAGTTTA
1 TTAGGGTTTTTAA-TTTA
1821400 GGGTTTAAGG
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
23 56 0.95
24 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.51
Consensus pattern (26 bp):
TTAGGGTTTTTAATTTAATTAGTTAG
Found at i:1821964 original size:18 final size:18
Alignment explanation
Indices: 1821941--1821976 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1821931 CGAAAAAGGG
*
1821941 TACATATAAGGGTTAGGA
1 TACATATAAGGGCTAGGA
1821959 TACATATAAGGGCTAGGA
1 TACATATAAGGGCTAGGA
1821977 AACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
TACATATAAGGGCTAGGA
Found at i:1822637 original size:7 final size:7
Alignment explanation
Indices: 1822627--1822651 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1822617 TTATATACAT
1822627 AATACTA
1 AATACTA
1822634 AATACTA
1 AATACTA
1822641 AATACTA
1 AATACTA
1822648 AATA
1 AATA
1822652 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:1823777 original size:12 final size:12
Alignment explanation
Indices: 1823753--1823795 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
1823743 ATTTTTACGG
1823753 TTTAAAAAA-AT
1 TTTAAAAAATAT
1823764 TTTAAAAAATAT
1 TTTAAAAAATAT
* *
1823776 TTTTAAAATTA-
1 TTTAAAAAATAT
1823787 TTTAAAAAA
1 TTTAAAAAA
1823796 AAGGGAGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:1823819 original size:11 final size:11
Alignment explanation
Indices: 1823803--1823853 Score: 84
Period size: 11 Copynumber: 4.6 Consensus size: 11
1823793 AAAAAGGGAG
*
1823803 TTAAGAGAAAC
1 TTAAGAGGAAC
1823814 TTAAGAGGAAC
1 TTAAGAGGAAC
*
1823825 TTAAAAGGAAC
1 TTAAGAGGAAC
1823836 TTAAGAGGAAC
1 TTAAGAGGAAC
1823847 TTAAGAG
1 TTAAGAG
1823854 AATTTTTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.24, T:0.20
Consensus pattern (11 bp):
TTAAGAGGAAC
Found at i:1823866 original size:33 final size:33
Alignment explanation
Indices: 1823794--1823889 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 33
1823784 TTATTTAAAA
* * *
1823794 AAAAGGGAGTTAAGAGAAACTTAAGAGGAACTT
1 AAAAGGAAATTAAGAGGAACTTAAGAGGAACTT
* *
1823827 AAAAGGAACTTAAGAGGAACTTAAGA-GAATTTT
1 AAAAGGAAATTAAGAGGAACTTAAGAGGAA-CTT
** * * *
1823860 TGAAGGAAATTGAGAGGAAATTGAGAGGAA
1 AAAAGGAAATTAAGAGGAACTTAAGAGGAA
1823890 ATATGAGAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
32 3 0.06
33 45 0.88
34 3 0.06
ACGTcount: A:0.48, C:0.04, G:0.28, T:0.20
Consensus pattern (33 bp):
AAAAGGAAATTAAGAGGAACTTAAGAGGAACTT
Found at i:1823879 original size:11 final size:11
Alignment explanation
Indices: 1823859--1823898 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
1823849 AAGAGAATTT
1823859 TTGA-AGGAAA
1 TTGAGAGGAAA
1823869 TTGAGAGGAAA
1 TTGAGAGGAAA
1823880 TTGAGAGGAAA
1 TTGAGAGGAAA
1823891 TATGAGAG
1 T-TGAGAG
1823899 ATGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 18 0.64
12 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:1832352 original size:13 final size:13
Alignment explanation
Indices: 1832323--1832353 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
1832313 TTTATAATTT
1832323 TTAATTTTTAAAA
1 TTAATTTTTAAAA
1832336 -TAATTTTTAAAA
1 TTAATTTTTAAAA
1832348 TTAATT
1 TTAATT
1832354 AAATGCTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTTTTAAAA
Found at i:1837234 original size:24 final size:20
Alignment explanation
Indices: 1837191--1837236 Score: 56
Period size: 24 Copynumber: 2.1 Consensus size: 20
1837181 TTGATATGTT
1837191 AGTGAAGGAAAATAAGAGAA
1 AGTGAAGGAAAATAAGAGAA
1837211 AGTGATAGGAAATACTATAGAGAA
1 AGTGA-AGGAAA-A-TA-AGAGAA
1837235 AG
1 AG
1837237 GGAATAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
22 1 0.05
23 2 0.09
24 8 0.36
ACGTcount: A:0.54, C:0.02, G:0.28, T:0.15
Consensus pattern (20 bp):
AGTGAAGGAAAATAAGAGAA
Found at i:1853780 original size:41 final size:42
Alignment explanation
Indices: 1853663--1853780 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 42
1853653 TCAGATTTAT
* * *
1853663 TGCCAGTGAAATAATTCAAACTTTATGTCTAGCA-GACTTGA
1 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGACTTGA
1853704 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGA-TTGA
1 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGACTTGA
* * * * *
1853745 TGCTGGTGAAATGTTTCGGGCTTTACGTCTAGCAGG
1 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGG
1853781 CTAATTGCTG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 66 0.97
42 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGACTTGA
Found at i:1853790 original size:41 final size:41
Alignment explanation
Indices: 1853668--1853793 Score: 121
Period size: 41 Copynumber: 3.1 Consensus size: 41
1853658 TTTATTGCCA
* * * * *
1853668 GTGAAATAATTCAAACTTTATGTCTAGCA-GACTTGATGCCG
1 GTGAAATATTTCAGACTTTACGTCTAGCAGGAC-TAATGCTG
* * *
1853709 GTGAAATATTTCAGACTTTATGTCTAGCAGGATTGATGCTG
1 GTGAAATATTTCAGACTTTACGTCTAGCAGGACTAATGCTG
* * *
1853750 GTGAAATGTTTCGGGCTTTACGTCTAGCAGG-CTAATTGCTG
1 GTGAAATATTTCAGACTTTACGTCTAGCAGGACTAA-TGCTG
1853791 GTG
1 GTG
1853794 TATTGAAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.03
41 69 0.95
42 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (41 bp):
GTGAAATATTTCAGACTTTACGTCTAGCAGGACTAATGCTG
Found at i:1855446 original size:53 final size:54
Alignment explanation
Indices: 1855377--1855479 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 54
1855367 AGAGAAATTG
* *
1855377 TCTTCATGTATTTGAAAATCGTCCATGCTGATCTATTTG-AATGAAAAAAAATA
1 TCTTCATGCATTTGAAAATCGTCCATGCTCATCTATTTGAAATGAAAAAAAATA
* * *
1855430 TCTTTATGCATTTGAAAATCGTCCATGCTCATGTATTTGAAATGAGAAAA
1 TCTTCATGCATTTGAAAATCGTCCATGCTCATCTATTTGAAATGAAAAAA
1855480 TGTCCCTATG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 35 0.80
54 9 0.20
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (54 bp):
TCTTCATGCATTTGAAAATCGTCCATGCTCATCTATTTGAAATGAAAAAAAATA
Found at i:1858953 original size:53 final size:50
Alignment explanation
Indices: 1858894--1859068 Score: 163
Period size: 53 Copynumber: 3.3 Consensus size: 50
1858884 TTAACACTGA
1858894 AATGCTTAGTCTCAGTATCACACCGAAGTGCTCATTACATAGTATTGCACCG
1 AATGCTTAGT-TCAGTATCACACCGAAGTGCTCATT-CATAGTATTGCACCG
* ** * * * *
1858946 AACTGCTTAGTTACAGTTTTGCACCGAAGTGCTCAGTCTTAGTATCGCATCG
1 AA-TGCTTAGTT-CAGTATCACACCGAAGTGCTCATTCATAGTATTGCACCG
* * *
1858998 AATAGCTCAATTCATAGTATCACACCGAAGTGCTCAATT-ATAGTTTTGCACCG
1 AAT-GCTTAGTTC--AGTATCACACCGAAGTGCTC-ATTCATAGTATTGCACCG
1859051 AAGTGCTTAGTCTCAGTA
1 AA-TGCTTAGT-TCAGTA
1859069 GTGCACATTA
Statistics
Matches: 96, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
51 2 0.02
52 27 0.28
53 62 0.65
54 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (50 bp):
AATGCTTAGTTCAGTATCACACCGAAGTGCTCATTCATAGTATTGCACCG
Found at i:1858964 original size:79 final size:79
Alignment explanation
Indices: 1858865--1859068 Score: 250
Period size: 79 Copynumber: 2.6 Consensus size: 79
1858855 AATATCGTAT
** * *
1858865 CGAAGTGCTCAGTTACAGTTTAACACTGAAATGCTTAGTCTCAGTATCACACCGAAGT-GCTC-A
1 CGAAGTGCTCAGTTACAGTTTTGCACCGAAGTGCTTAGTCTCAGTATCACACCGAA-TAGCTCAA
**
1858928 TTACATAGTATTGCAC
65 TT-CATAGTATCACAC
* * * * * *
1858944 CGAACTGCTTAGTTACAGTTTTGCACCGAAGTGCTCAGTCTTAGTATCGCATCGAATAGCTCAAT
1 CGAAGTGCTCAGTTACAGTTTTGCACCGAAGTGCTTAGTCTCAGTATCACACCGAATAGCTCAAT
1859009 TCATAGTATCACAC
66 TCATAGTATCACAC
* *
1859023 CGAAGTGCTCAATTATAGTTTTGCACCGAAGTGCTTAGTCTCAGTA
1 CGAAGTGCTCAGTTACAGTTTTGCACCGAAGTGCTTAGTCTCAGTA
1859069 GTGCACATTA
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 101 0.96
80 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (79 bp):
CGAAGTGCTCAGTTACAGTTTTGCACCGAAGTGCTTAGTCTCAGTATCACACCGAATAGCTCAAT
TCATAGTATCACAC
Found at i:1858978 original size:26 final size:26
Alignment explanation
Indices: 1858865--1859057 Score: 108
Period size: 26 Copynumber: 7.3 Consensus size: 26
1858855 AATATCGTAT
1858865 CGAAGTGCTCAGTTACAGT-TTAACAC
1 CGAAGTGCTCAGTTACAGTATT-ACAC
* * * *
1858891 TGAAATGCTTAGTCT-CAGTATCACAC
1 CGAAGTGCTCAGT-TACAGTATTACAC
*
1858917 CGAAGTGCTCA-TTACATAGTATTGCAC
1 CGAAGTGCTCAGTTAC--AGTATTACAC
* * * *
1858944 CGAACTGCTTAGTTACAGTTTTGCAC
1 CGAAGTGCTCAGTTACAGTATTACAC
* ** *
1858970 CGAAGTGCTCAGTCT-TAGTATCGCAT
1 CGAAGTGCTCAGT-TACAGTATTACAC
* * *
1858996 CGAA-TAGCTCAATTCATAGTATCACAC
1 CGAAGT-GCTCAGTT-ACAGTATTACAC
* * * *
1859023 CGAAGTGCTCAATTATAGTTTTGCAC
1 CGAAGTGCTCAGTTACAGTATTACAC
1859049 CGAAGTGCT
1 CGAAGTGCT
1859058 TAGTCTCAGT
Statistics
Matches: 132, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
24 1 0.01
25 4 0.03
26 81 0.61
27 41 0.31
28 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
CGAAGTGCTCAGTTACAGTATTACAC
Found at i:1871746 original size:23 final size:23
Alignment explanation
Indices: 1871709--1871763 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1871699 GAATTTACAT
1871709 AAAAATAATGTATGATAAATTCA
1 AAAAATAATGTATGATAAATTCA
* * *
1871732 AATAATAAT-TCATGATAATTTTA
1 AAAAATAATGT-ATGATAAATTCA
1871755 AAAAATAAT
1 AAAAATAAT
1871764 AATAGATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (23 bp):
AAAAATAATGTATGATAAATTCA
Found at i:1871804 original size:23 final size:23
Alignment explanation
Indices: 1871756--1871838 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
1871746 ATAATTTTAA
** *
1871756 AAAATAATAATAGATAATAAAGTT
1 AAAATAATAATA-AGGATAAACTT
* * *
1871780 AAAATAATATTAAGGGTAAATTT
1 AAAATAATAATAAGGATAAACTT
*
1871803 AAAATAATAATAATGATAAACTT
1 AAAATAATAATAAGGATAAACTT
*
1871826 AAAATAATGATAA
1 AAAATAATAATAA
1871839 ACCTAAAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
23 38 0.78
24 11 0.22
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.30
Consensus pattern (23 bp):
AAAATAATAATAAGGATAAACTT
Found at i:1871831 original size:17 final size:17
Alignment explanation
Indices: 1871811--1871850 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1871801 TTAAAATAAT
*
1871811 AATAATGATAAACTTAA
1 AATAATGATAAACCTAA
1871828 AATAATGATAAACCTAA
1 AATAATGATAAACCTAA
1871845 AATAAT
1 AATAAT
1871851 AATATACGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (17 bp):
AATAATGATAAACCTAA
Found at i:1871854 original size:23 final size:22
Alignment explanation
Indices: 1871756--1871868 Score: 74
Period size: 23 Copynumber: 5.1 Consensus size: 22
1871746 ATAATTTTAA
* *
1871756 AAAATAATAATAGATAATAAAGTT
1 AAAATAATAATA-ATGATAAA-CT
* * * *
1871780 AAAATAATATTAAGGGTAAATTT
1 AAAATAATAATAATGATAAA-CT
1871803 AAAATAATAATAATGATAAACT
1 AAAATAATAATAATGATAAACT
1871825 ----TAA-AATAATGATAAACCT
1 AAAATAATAATAATGATAAA-CT
*
1871843 AAAATAATAATATACGATAAAACT
1 AAAATAATAATA-ATGAT-AAACT
1871867 AA
1 AA
1871869 TATCAAGCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
17 12 0.17
18 5 0.07
22 4 0.06
23 28 0.39
24 19 0.27
25 3 0.04
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAATAATAATAATGATAAACT
Found at i:1885818 original size:31 final size:31
Alignment explanation
Indices: 1885760--1885818 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1885750 ATTTAACGGA
*
1885760 GAGTGACCAAAATATGAACGATTTAAAACGT
1 GAGTGACCAAAATATGAACGATCTAAAACGT
*
1885791 GAGTGACCAAAATA-GAAATGATCTAAAA
1 GAGTGACCAAAATATG-AACGATCTAAAA
1885819 TGCTAGTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (31 bp):
GAGTGACCAAAATATGAACGATCTAAAACGT
Found at i:1900790 original size:44 final size:43
Alignment explanation
Indices: 1900739--1901109 Score: 210
Period size: 44 Copynumber: 8.6 Consensus size: 43
1900729 CCAAGCCTTG
* *
1900739 TCTCCCTGAAGTTGCAGCGGAGCAGATTAGAGCCGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCC-ATAATCTTA
* * * *
1900783 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAGGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCATA-ATCTTA
* * * * * *
1900827 TCTCTCTGAAGTTGCAG-AGAGCAGATCACA-TC-TAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCATAATCTTA
* *
1900867 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-CA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG--AGCCATAATCTTA
* * * *
1900911 TC-CTTCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-AATTTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGA-T-TAGA-GCCATAATCTTA
* * **
1900956 TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCCA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCC-ATAATCTTA
* * * * * *
1901000 TCTCCCTGAAGCTGCAGTGGAGCGGATTAAAACCTTAGATATTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCATA-ATCTTA
** * * * * *
1901044 TCTTTCTGAAGTTGCAG-AGAGCATA-TCGCA-TC-TAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAG-AGCCATAATCTTA
1901084 TCTCCCTGAAG-TGACAGTGGAGCAGA
1 TCTCCCTGAAGTTG-CAGTGGAGCAGA
1901110 CTAAAGTTGA
Statistics
Matches: 258, Mismatches: 49, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
39 2 0.01
40 38 0.15
41 17 0.07
42 7 0.03
43 27 0.10
44 135 0.52
45 29 0.11
46 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCATAATCTTA
Found at i:1900829 original size:132 final size:132
Alignment explanation
Indices: 1900555--1900809 Score: 307
Period size: 132 Copynumber: 1.9 Consensus size: 132
1900545 ACCGAAGGGC
*
1900555 AAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
1 AAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
* * ** * * * *
1900620 CAGCAGAATAGGTTGAAAATTGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCAAAGACG
66 CAGCAGAACAGATTGAAAACCGTAGATCCTATCTCCTGAAGCAGCAGTGGAGCAGATCAAAGACC
1900685 GA
131 GA
* **
1900687 AAATCTTATCTTTCCTAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAAGTT
1 AAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTG-AGCA
* * * * **
1900752 GCAGCGGAGCAGATT-AGAGCCGATA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
65 GCAGCAGAACAGATTGAAAACCG-TAGATCCTATCT-CCTGAAGCAGCAGTGGAGCAGAT
1900810 TAAAACCTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
132 69 0.67
133 34 0.33
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (132 bp):
AAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
CAGCAGAACAGATTGAAAACCGTAGATCCTATCTCCTGAAGCAGCAGTGGAGCAGATCAAAGACC
GA
Found at i:1900876 original size:84 final size:86
Alignment explanation
Indices: 1900776--1900986 Score: 234
Period size: 84 Copynumber: 2.4 Consensus size: 86
1900766 TAGAGCCGAT
* *
1900776 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTAGGTCTTAT-CTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--AAGTCTTATCCT-TCTGAAGTT
* *
1900840 GCAGAGA-GCAGA-T-CACAT-CT
63 GCAGAGAGGCAGACTGAACATGCA
* * *
1900860 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCAAGTCTTATCCTTCTGAAGTTG
* *
1900925 CAGTGAGGCAGACTGAAGATGGCA
64 CAGAGAGGCAGACTGAACAT-GCA
* *
1900949 AATTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1900987 GCCGATAATC
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
84 57 0.54
85 7 0.07
86 4 0.04
87 4 0.04
89 34 0.32
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (86 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAGTCTTATCCTTCTGAAGTTGCA
GAGAGGCAGACTGAACATGCA
Found at i:1904590 original size:17 final size:17
Alignment explanation
Indices: 1904568--1904601 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1904558 CGTAACATTG
1904568 AATTATATTTGATTCTT
1 AATTATATTTGATTCTT
1904585 AATTATATTTGATTCTT
1 AATTATATTTGATTCTT
1904602 CTAAGTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
AATTATATTTGATTCTT
Found at i:1915296 original size:44 final size:45
Alignment explanation
Indices: 1915230--1915790 Score: 280
Period size: 44 Copynumber: 12.8 Consensus size: 45
1915220 GACATAAGTT
** * * *
1915230 TTTAATCCACTCCACTGAAACTTTAGGGAGATAGGA-TTGTCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCGGC
* * * **
1915274 TTTAATCTGCTCCACTGCAACTT-TGAGGAGATAAGATTTGCCATC
1 TTTAATCTGCTCCACTGCAACTTCAG-GGAGATAAGACTTGTCGGC
* * * ***
1915319 TTCAGTCTGC-CTCACCGCAACTTCA-GGAGGATAAGACTTGCTTTAC
1 TTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TCGGC
* * ** *
1915365 -TTAGTCTACTATACTGCAACTTCAGGGAGATAAGACTAGAT--GC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TCGGC
* * * * * *
1915408 ---GATCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTG-AGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTCGGC
** * *
1915448 TTTAATCCACTCCACTACAACTTCAGGGAGATAGGA-TTGTCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCGGC
* * * **
1915492 TTTAATCTGCTCCACTGCAACTT-TGAGGAGATAAGATTTGCCATC
1 TTTAATCTGCTCCACTGCAACTTCAG-GGAGATAAGACTTGTCGGC
* * *
1915537 TTCAGTCTGC-CTCACTGCAACTTCA-GGAGATAAGACTAGAT--GC
1 TTTAATCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTG-TCGGC
* * * * * *
1915580 ---GATCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTG-AGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTCGGC
* * *
1915620 TTTAATCTGCTCTACTGCAACTTCAAGGAGATAGGA-TTGTCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCGGC
* * * **
1915664 TTTAATCTGCTCCACTGCAACTTCAGGGAGATATGATTTGCCATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCGGC
* * * **
1915709 TTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCCTAC
1 TTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGTCGGC
*
1915754 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1915791 CGATCTGTTA
Statistics
Matches: 393, Mismatches: 88, Indels: 72
0.71 0.16 0.13
Matches are distributed among these distances:
39 13 0.03
40 38 0.10
41 5 0.01
43 20 0.05
44 185 0.47
45 128 0.33
46 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCGGC
Found at i:1915508 original size:218 final size:210
Alignment explanation
Indices: 1915166--1915573 Score: 683
Period size: 218 Copynumber: 1.9 Consensus size: 210
1915156 AGTCTGCTCC
1915166 ACTGCAACTTCAGGCAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGACATAAGTTT
1 ACTGCAACTTCAGGCAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGACATAAGTTT
*
1915231 TTAATCCACTCCACTGAAACTTTAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACT
66 TTAATCCACTCCACTGAAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACT
1915296 TTGAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACCGCAACTTCAGGAGGATAAGACTTGCT
131 TTGAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACCGCAACTTCAGGA-GATAAGACTTGCT
1915361 TTACTTAGTCTACTAT
195 TTACTTAGTCTACTAT
* * *
1915377 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATC
1 ACTGCAACTTCAGGCAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGACATAAG---
1915442 TGAGGTTTTAATCCACTCCACT-ACAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCA
63 T----TTTTAATCCACTCCACTGA-AACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCA
*
1915506 CTGCAACTTTGAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGATAAG
123 CTGCAACTTTGAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACCGCAACTTCAGGAGATAAG
1915571 ACT
188 ACT
1915574 AGATGCGATC
Statistics
Matches: 184, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
211 59 0.32
214 1 0.01
217 10 0.05
218 114 0.62
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (210 bp):
ACTGCAACTTCAGGCAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGACATAAGTTT
TTAATCCACTCCACTGAAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACT
TTGAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACCGCAACTTCAGGAGATAAGACTTGCTT
TACTTAGTCTACTAT
Found at i:1915589 original size:172 final size:172
Alignment explanation
Indices: 1915377--1915746 Score: 643
Period size: 172 Copynumber: 2.1 Consensus size: 172
1915367 AGTCTACTAT
1915377 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATC
1 ACTGCAACTTCA-GGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATC
*
1915442 TGAGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCAC
65 TGAGGTTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGCTCCAC
*
1915507 TGCAACTT-TGAGGAGATAAGATTTGCCATCTTCAGTCTGCCTC
130 TGCAACTTCAG-GGAGATAAGATTTGCCATCTTCAGTCTGCCTC
1915550 ACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCT
1 ACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCT
** * *
1915615 GAGGTTTTAATCTGCTCTACTGCAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGCTCCACT
66 GAGGTTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGCTCCACT
*
1915680 GCAACTTCAGGGAGATATGATTTGCCATCTTCAGTCTGCCTC
131 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTC
1915722 ACTGCAACTTCAGGAGGATAAGACT
1 ACTGCAACTTCAGGA-GATAAGACT
1915747 TGCCTACTTA
Statistics
Matches: 188, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
172 166 0.88
173 22 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (172 bp):
ACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCT
GAGGTTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGCTCCACT
GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTC
Found at i:1915598 original size:128 final size:128
Alignment explanation
Indices: 1915466--1915696 Score: 297
Period size: 128 Copynumber: 1.8 Consensus size: 128
1915456 ACTCCACTAC
* * * **
1915466 AACTTCAGGGAGATAGGAT-TGTCGGCTTTAATCTGCTCCACTGCAACTTTGAGGAGATAAGATT
1 AACTTCAGAGAGATAAGATCTG-AGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-T
* *
1915530 TGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGATAAGACTAGATGCGATCTGCTCTCTG
64 TGCCAGCTTCAATCTGCTC-CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTG
1915593 T
128 T
* * *
1915594 AACTTCAGAGAGATAAGATCTGAGGTTTTAATCTGCTCTACTGCAACTTCAAGGAGATAGGATTG
1 AACTTCAGAGAGATAAGATCTGAGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTG
* * *
1915659 TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
66 CCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
1915697 TGATTTGCCA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
127 26 0.30
128 59 0.68
129 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (128 bp):
AACTTCAGAGAGATAAGATCTGAGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTG
CCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGT
Found at i:1915730 original size:89 final size:88
Alignment explanation
Indices: 1915460--1915788 Score: 336
Period size: 89 Copynumber: 3.8 Consensus size: 88
1915450 TAATCCACTC
* * *
1915460 CACTACAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCACTGCAACTT-TGAGGAGA
1 CACTGCAACTTCA-GGAGATAAGACTTGTCGGC-TTAATCTGCTCCACTGCAACTTCAG-GGAGA
1915523 TAAGATTTGCCATCTTCAGTCTGCCT
63 TAAGATTTGCCATCTTCAGTCTGCCT
* * * * *
1915549 CACTGCAACTTCAGGAGATAAGACTAGAT--GC--GATCTGCT-CTCTGTAACTTCAGAGAGATA
1 CACTGCAACTTCAGGAGATAAGACTTG-TCGGCTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* *** * *
1915609 AGATCTGAGGT-TTTAATCTG-CT
65 AGATTTGCCATCTTCAGTCTGCCT
*
1915631 CTACTGCAACTTCAAGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 C-ACTGCAACTTC-AGGAGATAAGACTTGTCGGC-TTAATCTGCTCCACTGCAACTTCAGGGAGA
*
1915695 TATGATTTGCCATCTTCAGTCTGCCT
63 TAAGATTTGCCATCTTCAGTCTGCCT
* ** *
1915721 CACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGA-GATAAGACTTGTCGGCTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1915786 AGA
65 AGA
1915789 CTCGATCTGT
Statistics
Matches: 192, Mismatches: 33, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
82 4 0.02
83 20 0.10
84 34 0.18
85 8 0.04
87 7 0.04
88 39 0.20
89 71 0.37
90 9 0.05
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (88 bp):
CACTGCAACTTCAGGAGATAAGACTTGTCGGCTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGCCATCTTCAGTCTGCCT
Found at i:1916577 original size:24 final size:28
Alignment explanation
Indices: 1916550--1916609 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
1916540 AGTGTCCTGA
1916550 AAAGAA-AAAGTA-TT-CAAGAA-CAAC
1 AAAGAATAAAGTATTTACAAGAACCAAC
*
1916574 AAAGAATGAAGTATTTACAAGAACCAAC
1 AAAGAATAAAGTATTTACAAGAACCAAC
*
1916602 AAATAATA
1 AAAGAATA
1916610 TGAAGACTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.21
25 5 0.17
26 2 0.07
27 6 0.21
28 10 0.34
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.17
Consensus pattern (28 bp):
AAAGAATAAAGTATTTACAAGAACCAAC
Found at i:1928037 original size:21 final size:21
Alignment explanation
Indices: 1927998--1928038 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1927988 ATACTACAAA
* *
1927998 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
1928019 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
1928039 ATATATATAT
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:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:1940848 original size:17 final size:17
Alignment explanation
Indices: 1940826--1940861 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1940816 TATAGATGCC
1940826 ACAAAATTGGACATACA
1 ACAAAATTGGACATACA
1940843 ACAAAATTGGACATACA
1 ACAAAATTGGACATACA
1940860 AC
1 AC
1940862 GATAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (17 bp):
ACAAAATTGGACATACA
Found at i:1946188 original size:17 final size:17
Alignment explanation
Indices: 1946166--1946203 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1946156 TTATGTTATG
*
1946166 TTTTCTTTCTCTTTTCC
1 TTTTCTTTCTCTTTTCA
*
1946183 TTTTCTTTTTCTTTTCA
1 TTTTCTTTCTCTTTTCA
1946200 TTTT
1 TTTT
1946204 TAGTTTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTTCTCTTTTCA
Found at i:1947762 original size:12 final size:12
Alignment explanation
Indices: 1947745--1947779 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1947735 ATTGACATAA
1947745 GAATAGGAGTAG
1 GAATAGGAGTAG
* *
1947757 GAATAGAATTAG
1 GAATAGGAGTAG
1947769 GAATAGGAGTA
1 GAATAGGAGTA
1947780 AAGTTAGATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (12 bp):
GAATAGGAGTAG
Done.