Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 65 of 349
Found at i:19068761 original size:205 final size:205
Alignment explanation
Indices: 19068397--19068885 Score: 764
Period size: 205 Copynumber: 2.4 Consensus size: 205
19068387 ATCAGGCGGA
*
19068397 GAGCAGATCGAAGACATAGCTGATTTAGG-TTTCACGTGTTTACGTTGAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTT-GGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGA
* *
19068461 TTTGGAATTTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAG
65 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAG
* * * * *
19068526 ACACATAGCAGATCTAACCTTCAGATGTTTATACTTAAGTAGATCCAAGATGGTTTGGCATCCTT
130 ACACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTT
*
19068591 CTTCTTACAAG
195 CTGCTTACAAG
* * *
19068602 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGTAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * * *
19068667 TTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGTATCTCCACTTCGATGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
*
19068732 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTC
19068797 TGCTTACAAG
196 TGCTTACAAG
* *
19068807 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATAAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
*
19068872 TTGGCGTCTCTGTA
66 TTGGCATCTCTGTA
19068886 GCGGCGAAGA
Statistics
Matches: 258, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
204 2 0.01
205 256 0.99
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTC
TGCTTACAAG
Found at i:19068945 original size:44 final size:44
Alignment explanation
Indices: 19068897--19069655 Score: 634
Period size: 44 Copynumber: 17.2 Consensus size: 44
19068887 CGGCGAAGAG
* *
19068897 CAGATCGAAGATTGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
19068941 CAGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* ** *
19068985 GCAGATCAAAGATTTCAG-TATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
19069029 CA-AGTTGAAAACAGTAGATTTGACATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
19069073 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA-CGGTGAAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-G-AA
**
19069118 CAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
19069161 CA-AGTTGAAGATAACAGATTTGGCATCCCTGTGCTTATGGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
19069205 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAG-GGAA
** *
19069250 CAGATCGAAGATTTCAGCA--TGGCATCCCTATGCTTATAGGGAA
1 CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
19069293 CA-AGTTGAAAACAGCAGATTTGGTATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
19069337 CAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
***
19069381 GCAGATCGAAGATTTTAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
19069425 CA-AGTTGAAAACAACAAATTTGGCATCCATGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
19069469 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA-CGGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA
** * *
19069513 GCAGATCGAAGATTTCAGCA--TGGAATCCCTATGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* *
19069557 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
19069601 CA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATGGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
*
19069645 CAGATCAAAGA
1 CAGATCGAAGA
19069656 AGTAGATCAA
Statistics
Matches: 566, Mismatches: 117, Indels: 64
0.76 0.16 0.09
Matches are distributed among these distances:
42 9 0.02
43 59 0.10
44 409 0.72
45 85 0.15
46 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
Found at i:19069149 original size:132 final size:132
Alignment explanation
Indices: 19068910--19069633 Score: 1144
Period size: 132 Copynumber: 5.5 Consensus size: 132
19068900 ATCGAAGATT
* *
19068910 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGTAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * *
19068975 TTACAGTGAAGCAGATCAAAGATTTCAGTATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
19069040 CA
131 CA
* *
19069042 GTAGATTTGACATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
19069107 TTACGGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
19069172 TA
131 CA
* *
19069174 ACAGATTTGGCATCCCTGTGCTTATGGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
19069239 TTACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTATGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
19069304 CA
131 CA
* *
19069306 GCAGATTTGGTATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
19069371 TTACAGTGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
19069436 CA
131 CA
* * *
19069438 ACAAATTTGGCATCCATGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * * * *
19069503 TTACGGTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTATGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
19069568 TA
131 CA
* * * * * *
19069570 GCAGATTTGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTG
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTG
19069634 TTTATGGGGA
Statistics
Matches: 546, Mismatches: 45, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
131 1 0.00
132 545 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
TTACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
CA
Found at i:19069937 original size:13 final size:13
Alignment explanation
Indices: 19069919--19070070 Score: 113
Period size: 13 Copynumber: 12.6 Consensus size: 13
19069909 AAATATCTTT
19069919 ACTCCACTAAACC
1 ACTCCACTAAACC
19069932 ACT-C-C--AACC
1 ACTCCACTAAACC
19069941 ACTCCACTAAACC
1 ACTCCACTAAACC
19069954 ACT-C-C--AACC
1 ACTCCACTAAACC
19069963 ACTCCACTAAACC
1 ACTCCACTAAACC
*
19069976 ACTACACTAAACC
1 ACTCCACTAAACC
19069989 ACTCCACTAAACC
1 ACTCCACTAAACC
*
19070002 ACCCCAACCACTAAACC
1 A---C-TCCACTAAACC
19070019 AC-CC-C--AACC
1 ACTCCACTAAACC
*
19070028 AC-CCTACTAAATC
1 ACTCC-ACTAAACC
19070041 ACTCCACTAAACC
1 ACTCCACTAAACC
19070054 AC-CC-C--AACC
1 ACTCCACTAAACC
19070063 ACTCCACT
1 ACTCCACT
19070071 TGCCTACAAA
Statistics
Matches: 114, Mismatches: 5, Indels: 41
0.71 0.03 0.26
Matches are distributed among these distances:
9 28 0.25
10 4 0.04
11 8 0.07
12 6 0.05
13 53 0.46
14 3 0.03
16 1 0.01
17 11 0.10
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:19069944 original size:22 final size:22
Alignment explanation
Indices: 19069919--19070013 Score: 145
Period size: 22 Copynumber: 4.1 Consensus size: 22
19069909 AAATATCTTT
19069919 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
19069941 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
19069963 ACTCCACTAAACCACTACACTAAACC
1 ACTCCACTAAACCACT-C-C--AACC
*
19069989 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
19070011 ACT
1 ACT
19070014 AAACCACCCC
Statistics
Matches: 68, Mismatches: 1, Indels: 8
0.88 0.01 0.10
Matches are distributed among these distances:
22 45 0.66
23 1 0.01
24 2 0.03
25 1 0.01
26 19 0.28
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:19069991 original size:35 final size:35
Alignment explanation
Indices: 19069937--19070070 Score: 120
Period size: 35 Copynumber: 4.0 Consensus size: 35
19069927 AAACCACTCC
* *
19069937 AACCACTCCACTAAACCACTCCAACCACTCCACTA
1 AACCACTACACTAAACCACCCCAACCACTCCACTA
* * **
19069972 AACCACTACACTAAACCACTCC-ACTAAACCAC--
1 AACCACTACACTAAACCACCCCAACCACTCCACTA
*
19070004 --CC-CAACCACTAAACCACCCCAACCAC-CCTACTA
1 AACCACTA-CACTAAACCACCCCAACCACTCC-ACTA
* *
19070037 AATCACTCCACTAAACCACCCCAACCACTCCACT
1 AACCACTACACTAAACCACCCCAACCACTCCACT
19070071 TGCCTACAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
29 2 0.03
30 17 0.22
31 5 0.06
34 7 0.09
35 45 0.57
36 3 0.04
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (35 bp):
AACCACTACACTAAACCACCCCAACCACTCCACTA
Found at i:19070014 original size:17 final size:17
Alignment explanation
Indices: 19069992--19070029 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
19069982 CTAAACCACT
19069992 CCACTAAACCACCCCAA
1 CCACTAAACCACCCCAA
19070009 CCACTAAACCACCCCAA
1 CCACTAAACCACCCCAA
19070026 CCAC
1 CCAC
19070030 CCTACTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.55, G:0.00, T:0.05
Consensus pattern (17 bp):
CCACTAAACCACCCCAA
Found at i:19070053 original size:26 final size:25
Alignment explanation
Indices: 19069919--19070070 Score: 114
Period size: 22 Copynumber: 6.3 Consensus size: 25
19069909 AAATATCTTT
*
19069919 ACTCCACTAAACCACTC-C--AACC
1 ACTCCACTAAACCACCCACTAAACC
*
19069941 ACTCCACTAAACCACTC-C--AACC
1 ACTCCACTAAACCACCCACTAAACC
*
19069963 ACTCCACTAAACCACTACACTAAACC
1 ACTCCACTAAACCAC-CCACTAAACC
19069989 ACTCCACTAAACCACCCCAACCACTAAACC
1 ACTCCACTAAACCA---C--CCACTAAACC
*
19070019 AC-CC-C--AACCACCCTACTAAATC
1 ACTCCACTAAACCACCC-ACTAAACC
19070041 ACTCCACTAAACCACCC-C--AACC
1 ACTCCACTAAACCACCCACTAAACC
19070063 ACTCCACT
1 ACTCCACT
19070071 TGCCTACAAA
Statistics
Matches: 112, Mismatches: 5, Indels: 26
0.78 0.03 0.18
Matches are distributed among these distances:
21 2 0.02
22 57 0.51
23 4 0.04
24 3 0.03
26 31 0.28
28 1 0.01
29 3 0.03
30 11 0.10
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (25 bp):
ACTCCACTAAACCACCCACTAAACC
Found at i:19071229 original size:13 final size:14
Alignment explanation
Indices: 19071212--19071244 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19071202 GCCCAATACC
*
19071212 TAAAATAAAATAAA
1 TAAAATAAAAGAAA
19071226 -AAAATAAAAGAAA
1 TAAAATAAAAGAAA
19071239 TAAAAT
1 TAAAAT
19071245 CCAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAGAAA
Found at i:19071280 original size:9 final size:9
Alignment explanation
Indices: 19071266--19071324 Score: 64
Period size: 9 Copynumber: 6.1 Consensus size: 9
19071256 TACTCCACTA
19071266 AACCACTCC
1 AACCACTCC
*
19071275 AACCACTCT
1 AACCACTCC
19071284 AACCACTCCAC
1 AACCACT-C-C
*
19071295 TAAATCACTCC
1 --AACCACTCC
19071306 AACCACTCC
1 AACCACTCC
19071315 AACCACTCC
1 AACCACTCC
19071324 A
1 A
19071325 CTAAACCACC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 33 0.79
10 1 0.02
11 1 0.02
12 1 0.02
13 6 0.14
ACGTcount: A:0.36, C:0.49, G:0.00, T:0.15
Consensus pattern (9 bp):
AACCACTCC
Found at i:19071282 original size:22 final size:22
Alignment explanation
Indices: 19071257--19071359 Score: 85
Period size: 22 Copynumber: 4.9 Consensus size: 22
19071247 AAATATTTTT
19071257 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
19071279 ACT---CT-AACCACTCC-ACTA
1 ACTCCACTAAACCACTCCAAC-C
* *
19071297 AAT-CACTCCAACCACTCCAACC
1 ACTCCACT-AAACCACTCCAACC
*
19071319 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
*
19071341 AC-CCTACTAAACTACTCCA
1 ACTCC-ACTAAACCACTCCA
19071360 CTAAACCACC
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
17 2 0.03
18 11 0.17
19 2 0.03
20 2 0.03
21 2 0.03
22 40 0.62
23 6 0.09
ACGTcount: A:0.36, C:0.49, G:0.00, T:0.16
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:19071292 original size:31 final size:31
Alignment explanation
Indices: 19071257--19071377 Score: 163
Period size: 31 Copynumber: 3.8 Consensus size: 31
19071247 AAATATTTTT
19071257 ACTCCACTAAACCACTCCAACCACTCTAACC
1 ACTCCACTAAACCACTCCAACCACTCTAACC
* *
19071288 ACTCCACTAAATCACTCCAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACCACTCTAACC
* *
19071319 ACTCCACTAAACCACCCCAACCACCCTACTAAACT
1 ACTCCACTAAACCACTCCAACCA--CT-CT-AACC
19071354 ACTCCACTAAACCAC-CCAACCACT
1 ACTCCACTAAACCACTCCAACCACT
19071378 TCACTTGCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
31 50 0.62
32 2 0.03
33 2 0.03
34 8 0.10
35 18 0.22
ACGTcount: A:0.36, C:0.49, G:0.00, T:0.15
Consensus pattern (31 bp):
ACTCCACTAAACCACTCCAACCACTCTAACC
Found at i:19071333 original size:13 final size:12
Alignment explanation
Indices: 19071315--19071371 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
19071305 CAACCACTCC
19071315 AACCACTCCACTA
1 AACCAC-CCACTA
19071328 AACCACCC-C--
1 AACCACCCACTA
19071337 AACCACCCTACTA
1 AACCACCC-ACTA
*
19071350 AACTACTCCACTA
1 AACCAC-CCACTA
19071363 AACCACCCA
1 AACCACCCA
19071372 ACCACTTCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
9 8 0.22
11 2 0.05
12 5 0.14
13 20 0.54
14 2 0.05
ACGTcount: A:0.39, C:0.49, G:0.00, T:0.12
Consensus pattern (12 bp):
AACCACCCACTA
Found at i:19071786 original size:3 final size:3
Alignment explanation
Indices: 19071767--19071839 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
19071757 AAACTTTGTT
19071767 TTA TT- TTA TTA TT- TTA TTA TTA TT- TATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
19071811 TGTA TATA TTA TT- TATA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA T-TA TTA TTA TTA TTA T
19071840 ATATACCCTC
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
2 9 0.16
3 40 0.69
4 7 0.12
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19071798 original size:15 final size:15
Alignment explanation
Indices: 19071767--19071843 Score: 79
Period size: 15 Copynumber: 5.1 Consensus size: 15
19071757 AAACTTTGTT
*
19071767 TTATT-TTA-TTATT
1 TTATTATTATTTATA
19071780 TTATTATTATTTATA
1 TTATTATTATTTATA
*
19071795 TTATTATTATTTCTCA
1 TTATTATTATTTAT-A
19071811 TGTATATATTATTTATA
1 T-TAT-TATTATTTATA
19071828 TTATTA-TATTATATA
1 TTATTATTATT-TATA
19071843 T
1 T
19071844 ACCCTCTCCA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.09
14 7 0.13
15 24 0.44
16 5 0.09
17 5 0.09
18 9 0.16
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (15 bp):
TTATTATTATTTATA
Found at i:19073237 original size:35 final size:35
Alignment explanation
Indices: 19073198--19073267 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
19073188 TGCCTCGAAA
* * *
19073198 CCTTTTTAGTTGAACTCCTTATCATTAATATTTTG
1 CCTTTTTAATTGAACACCTTATCATGAATATTTTG
19073233 CCTTTTTAATTGAACACCTTATCATGAATATTTTG
1 CCTTTTTAATTGAACACCTTATCATGAATATTTTG
19073268 GAATTCATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (35 bp):
CCTTTTTAATTGAACACCTTATCATGAATATTTTG
Found at i:19074133 original size:9 final size:10
Alignment explanation
Indices: 19074099--19074131 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
19074089 TTTATCTAAG
19074099 TTATATATAA
1 TTATATATAA
*
19074109 ATATATATAA
1 TTATATATAA
19074119 TTAT-TATAA
1 TTATATATAA
19074128 TTAT
1 TTAT
19074132 TAACCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTATATATAA
Found at i:19075344 original size:20 final size:20
Alignment explanation
Indices: 19075321--19075367 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
19075311 GTATAATTAA
19075321 TATGTGTTTAATTTAATATG
1 TATGTGTTTAATTTAATATG
19075341 TATGTGTTTAATTTAATATG
1 TATGTGTTTAATTTAATATG
19075361 TATGTGT
1 TATGTGT
19075368 GGTAAGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (20 bp):
TATGTGTTTAATTTAATATG
Found at i:19075805 original size:45 final size:45
Alignment explanation
Indices: 19075755--19075867 Score: 181
Period size: 45 Copynumber: 2.5 Consensus size: 45
19075745 CGACTACTGT
* *
19075755 TACTGTTGCCGTTACTGTTACTGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACTGATTCAACACTTTGTGTGTCGAA
* *
19075800 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACTGATTCAACACTTTGTGTGTCGAA
*
19075845 TACTGTTACTGTTACTGTTACTG
1 TACTGTTACCGTTACTGTTACTG
19075868 CTACCGTTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACTGATTCAACACTTTGTGTGTCGAA
Found at i:19075856 original size:6 final size:6
Alignment explanation
Indices: 19075845--19075888 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
19075835 GTGTGTTGAA
* *
19075845 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
19075889 TAGGTACTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:19077973 original size:12 final size:13
Alignment explanation
Indices: 19077945--19077977 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
19077935 TTATTTCTTT
19077945 TTCTCCATCTACC
1 TTCTCCATCTACC
*
19077958 TTCTCC-TCTTCC
1 TTCTCCATCTACC
19077970 TTCTCCAT
1 TTCTCCAT
19077978 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:19079078 original size:28 final size:28
Alignment explanation
Indices: 19079046--19079138 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
19079036 ATTTACTAGA
19079046 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
19079074 ATACCCCTATGTATACAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
19079102 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
19079130 ATACCCCTA
1 ATACCCCTA
19079139 GGGTTAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:19084244 original size:131 final size:131
Alignment explanation
Indices: 19084091--19084353 Score: 508
Period size: 131 Copynumber: 2.0 Consensus size: 131
19084081 TAAATAACTT
19084091 ATATAACATAATTTATCAAACAAAAAACCTTTTTACAACTATATTTTACTCGTAAATATTAAATA
1 ATATAACATAATTTATCAAACAAAAAACCTTTTTACAACTATATTTTACTCGTAAATATTAAATA
* *
19084156 ATAATATTTATGAACTTACTCATCGGATTTGGTGACCCTGAAACCACTATTTCTGACATCACTGA
66 ATAATATTTATGAACTTACTCATCGGATTTGGTGACCCTAAAACCACTATTTCCGACATCACTGA
19084221 A
131 A
19084222 ATATAACATAATTTATCAAACAAAAAACCTTTTTACAACTATATTTTACTCGTAAATATTAAATA
1 ATATAACATAATTTATCAAACAAAAAACCTTTTTACAACTATATTTTACTCGTAAATATTAAATA
19084287 ATAATATTTATGAACTTACTCATCGGATTTGGTGACCCTAAAACCACTATTTCCGACATCACTGA
66 ATAATATTTATGAACTTACTCATCGGATTTGGTGACCCTAAAACCACTATTTCCGACATCACTGA
19084352 A
131 A
19084353 A
1 A
19084354 AACGGGTTAT
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (131 bp):
ATATAACATAATTTATCAAACAAAAAACCTTTTTACAACTATATTTTACTCGTAAATATTAAATA
ATAATATTTATGAACTTACTCATCGGATTTGGTGACCCTAAAACCACTATTTCCGACATCACTGA
A
Found at i:19086743 original size:22 final size:24
Alignment explanation
Indices: 19086718--19086761 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
19086708 TTTTAAATTT
19086718 AAAT-TTAATTATAAAA-ATATAG
1 AAATATTAATTATAAAACATATAG
*
19086740 AAATATTAGTTATAAAACATAT
1 AAATATTAATTATAAAACATAT
19086762 TTTTGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (24 bp):
AAATATTAATTATAAAACATATAG
Found at i:19087119 original size:60 final size:60
Alignment explanation
Indices: 19087032--19087144 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
19087022 CTTTTTTTCT
* * * *
19087032 AATTTGGTACCTAAACTTAATATTTTTTCATAAGTTGGTACTTAATCTTTTTTAGGGTCC
1 AATTCGGTACCTAAACTCAATACTTTTTCATAAGTTAGTACTTAATCTTTTTTAGGGTCC
* * *
19087092 AATTCGGTACCTAAACTCAACT-CTTTTTCCTTATTTAGTACTTAATCTTTTTT
1 AATTCGGTACCTAAACTCAA-TACTTTTTCATAAGTTAGTACTTAATCTTTTTT
19087145 CGTTCGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 44 0.98
61 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (60 bp):
AATTCGGTACCTAAACTCAATACTTTTTCATAAGTTAGTACTTAATCTTTTTTAGGGTCC
Found at i:19101384 original size:9 final size:9
Alignment explanation
Indices: 19101357--19101393 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
19101347 TGAGTTTTTG
19101357 AATTCGAAT
1 AATTCGAAT
* *
19101366 AACTCAAAT
1 AATTCGAAT
19101375 AATTCGAAT
1 AATTCGAAT
19101384 AATTCGAAT
1 AATTCGAAT
19101393 A
1 A
19101394 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:19102758 original size:18 final size:18
Alignment explanation
Indices: 19102735--19102771 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19102725 TATAGTTTGA
* *
19102735 TATTCGGTTTATTTGAAT
1 TATTCGGGTTATTCGAAT
19102753 TATTCGGGTTATTCGAAT
1 TATTCGGGTTATTCGAAT
19102771 T
1 T
19102772 CAAAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (18 bp):
TATTCGGGTTATTCGAAT
Found at i:19105836 original size:14 final size:14
Alignment explanation
Indices: 19105809--19105844 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
19105799 ATACATAAAA
*
19105809 TAGTCATTTCATATT
1 TAGT-ATTTAATATT
19105824 TAGTATTTAATATT
1 TAGTATTTAATATT
19105838 TAGTATT
1 TAGTATT
19105845 ATGTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (14 bp):
TAGTATTTAATATT
Found at i:19106752 original size:21 final size:21
Alignment explanation
Indices: 19106728--19106770 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19106718 AACCAGAGCT
* * *
19106728 ACAACTCCTGCCGGAGTAACC
1 ACAACCCCCGCCGGAGCAACC
19106749 ACAACCCCCGCCGGAGCAACC
1 ACAACCCCCGCCGGAGCAACC
19106770 A
1 A
19106771 TTGAGGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.44, G:0.19, T:0.07
Consensus pattern (21 bp):
ACAACCCCCGCCGGAGCAACC
Found at i:19113331 original size:126 final size:126
Alignment explanation
Indices: 19113103--19113353 Score: 367
Period size: 126 Copynumber: 2.0 Consensus size: 126
19113093 GGCCGATCAT
* * * * *
19113103 GAATTATTGTAGAAAAAGAGCGTCTACGTGAGAGTTTTTTTCAGAAATTTTGCTGACAATGCATC
1 GAATTACTGTAGAAAAACAGCGTCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
* * * *
19113168 CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTATTCAAAAACGTCTTATCAAAATTATTTTTTCAA
* * * *
19113229 GAATTACTGTAGAAAAACAGCGTCCACATGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
1 GAATTACTGTAGAAAAACAGCGTCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
* *
19113294 TTGCTTGAAGCGTTTTTGACACTATTTATTCAAAAACGTTTTATCAAAATTATTTTTTCA
66 CTGCTTGAAGCGTTTTTGACACTATTTATTCAAAAACGTCTTATCAAAATTATTTTTTCA
19113354 CGGTACAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (126 bp):
GAATTACTGTAGAAAAACAGCGTCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTGACACTATTTATTCAAAAACGTCTTATCAAAATTATTTTTTCAA
Found at i:19113458 original size:30 final size:29
Alignment explanation
Indices: 19113424--19113509 Score: 82
Period size: 34 Copynumber: 2.8 Consensus size: 29
19113414 AACCTTACAC
* *
19113424 CCTAATTTAATTTATTCAAAACCCTAGAAT
1 CCTAATTTAATTTATTAAAAACCATA-AAT
19113454 CCTAATTTACTTAATTTATCTAAAAACCATAAAT
1 CCTAA--T--TTAATTTAT-TAAAAACCATAAAT
* *
19113488 CCTAATTTAACTTATTTAAAAC
1 CCTAATTTAATTTATTAAAAAC
19113510 AACAATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
29 6 0.13
30 13 0.28
32 2 0.04
34 17 0.36
35 9 0.19
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.38
Consensus pattern (29 bp):
CCTAATTTAATTTATTAAAAACCATAAAT
Found at i:19113472 original size:34 final size:35
Alignment explanation
Indices: 19113430--19113505 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
19113420 ACACCCTAAT
* *
19113430 TTAATTTAT-TCAAAACCCTAGAATCCTAATTT-AC
1 TTAATTTATCTAAAAACCATA-AATCCTAATTTAAC
19113464 TTAATTTATCTAAAAACCATAAATCCTAATTTAAC
1 TTAATTTATCTAAAAACCATAAATCCTAATTTAAC
19113499 TT-ATTTA
1 TTAATTTA
19113506 AAACAACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 25 0.66
35 13 0.34
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.41
Consensus pattern (35 bp):
TTAATTTATCTAAAAACCATAAATCCTAATTTAAC
Found at i:19113562 original size:17 final size:18
Alignment explanation
Indices: 19113536--19113572 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
19113526 ACCCTAAACC
19113536 TAAAACCCTAATTT-ATT
1 TAAAACCCTAATTTAATT
*
19113553 TAAAATCCTAATTTAATT
1 TAAAACCCTAATTTAATT
19113571 TA
1 TA
19113573 TTTAAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAACCCTAATTTAATT
Found at i:19113570 original size:22 final size:22
Alignment explanation
Indices: 19113544--19113585 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19113534 CCTAAAACCC
*
19113544 TAATTTATTTAAAATCCTAATT
1 TAATTTATTTAAAACCCTAATT
19113566 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
19113586 AAAATCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAATT
Found at i:19113702 original size:41 final size:41
Alignment explanation
Indices: 19113641--19113718 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
19113631 TTAACTTATT
*
19113641 TAAAACACTAATTTATTTAATTTATTTAAAAACTCTACACC
1 TAAAACACTAATTTACTTAATTTATTTAAAAACTCTACACC
* *
19113682 TAAAACCCTAATTTACTTAATTTATTTAACAACTCTA
1 TAAAACACTAATTTACTTAATTTATTTAAAAACTCTA
19113719 AACCCTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (41 bp):
TAAAACACTAATTTACTTAATTTATTTAAAAACTCTACACC
Found at i:19113754 original size:34 final size:34
Alignment explanation
Indices: 19113684--19113754 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
19113674 TCTACACCTA
** * *
19113684 AAACCCTAATTTACTTAATTTATTTAACAACTCT
1 AAACCCTAATTTAAATAATTTATTAAACAACACT
*
19113718 AAACCCTAATTTAAATAATTT-TTAAAATAACACT
1 AAACCCTAATTTAAATAATTTATT-AAACAACACT
19113752 AAA
1 AAA
19113755 TCCTTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (34 bp):
AAACCCTAATTTAAATAATTTATTAAACAACACT
Found at i:19118920 original size:55 final size:55
Alignment explanation
Indices: 19118834--19118937 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
19118824 TCGATACAAA
19118834 AAAAAATTAATTCTAAAATAAATTTAAATTTAAATTTT-TATTATTTATTTGTACC
1 AAAAAATTAATTCTAAAATAAATTTAAATTTAAATTTTAT-TTATTTATTTGTACC
* *
19118889 AAAAAA-TAATTTTAAAATATATTTTAAATTTAAATTTTATTTATTTATT
1 AAAAAATTAATTCTAAAATA-AATTTAAATTTAAATTTTATTTATTTATT
19118938 GAGAATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
54 12 0.27
55 32 0.71
56 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (55 bp):
AAAAAATTAATTCTAAAATAAATTTAAATTTAAATTTTATTTATTTATTTGTACC
Found at i:19124554 original size:15 final size:15
Alignment explanation
Indices: 19124536--19124583 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
19124526 TTTAGTTTTG
19124536 TTAATTAAGGTTTAA
1 TTAATTAAGGTTTAA
* * *
19124551 TTAAATAAAGTATAA
1 TTAATTAAGGTTTAA
*
19124566 TTAATT-AGTTTTAA
1 TTAATTAAGGTTTAA
19124580 TTAA
1 TTAA
19124584 GGTATAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (15 bp):
TTAATTAAGGTTTAA
Found at i:19125176 original size:44 final size:44
Alignment explanation
Indices: 19125126--19125211 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
19125116 ATTCATGCAG
*
19125126 TTAGTAGGATGTTGTAATTTGAATTGAATTATTATATAGATCTA
1 TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATCTA
19125170 TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATC
1 TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATC
19125212 GAGAATTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (44 bp):
TTAGTAGGATGTTATAATTTGAATTGAATTATTATATAGATCTA
Found at i:19135060 original size:46 final size:47
Alignment explanation
Indices: 19134930--19135141 Score: 186
Period size: 46 Copynumber: 4.5 Consensus size: 47
19134920 TTTGTGTGCT
* ** * *
19134930 AGTGTAAGACATGTCTGAGACATGGCATAGGCTTTGAGACG-AGAGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATAGGCTACGAGATGTAGAGCC
* **
19134977 AGTGTAAGACATGTTTGGGACATGCATCAACCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCAT-AGGCTACGAGATGTAGAGCC
* * *
19135023 AGTGTAAGACATGTCTGGGTCATGCATTGGCTACGAGATGT---GTC
1 AGTGTAAGACATGTCTGGGACATGCATAGGCTACGAGATGTAGAGCC
* * *
19135067 AGTATAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATAGGCTAC-GAGATGT-AGAGCC
19135117 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
19135142 GCGTCGGCCT
Statistics
Matches: 136, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 58 0.43
47 25 0.18
49 1 0.01
50 25 0.18
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATAGGCTACGAGATGTAGAGCC
Found at i:19135177 original size:99 final size:93
Alignment explanation
Indices: 19135019--19135243 Score: 262
Period size: 96 Copynumber: 2.4 Consensus size: 93
19135009 TCGAGATGTA
* *
19135019 AGCCAGTGTAAGA-CATGTCTGGGTCAT-GCATTGGCTACGAGATGTGTCAGTATAAGACCATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTATAAGACCATGT
19135082 CTGGGACATGGCATCGGCACGGAT-ATGTGA-G
66 CTGGGACATGGCATC-G-AC--ATGATG-GATG
* * *
19135113 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCT-CGATGACGATGGTCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGA-GATG-T-GTCAGTATAAGACC
*
19135177 ATGTCTGGGACATGGCATCGACTTGATGGATG
62 ATGTCTGGGACATGGCATCGACATGATGGATG
* *
19135209 AGCCAGTGTAAAACCATGTCTGGGACATGACATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
19135244 ACATTCTACC
Statistics
Matches: 114, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
94 13 0.11
95 16 0.14
96 44 0.39
97 7 0.06
98 2 0.02
99 32 0.28
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTATAAGACCATGT
CTGGGACATGGCATCGACATGATGGATG
Found at i:19135188 original size:49 final size:49
Alignment explanation
Indices: 19134930--19135243 Score: 248
Period size: 47 Copynumber: 6.6 Consensus size: 49
19134920 TTTGTGTGCT
* * * * *
19134930 AGTGTAAGA-CATGTCTGAGACATGGCATAGGCTTTGA-GACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGA-GATGAGCC
* ** *
19134977 AGTGTAAGA-CATGTTTGGGACAT-GCATCAACCTCGA-GATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGA-GATGAGCC
* * * * *
19135023 AGTGTAAGA-CATGTCTGGGTCAT-GCATTGG-CT--ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAGATGAGCC
* * *
19135067 AGTATAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCG--ATGAGATGAGCC
* *
19135117 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACGATG-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGA-GATGAGCC
* *
19135166 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAGATGAGCC
* *
19135213 AGTGTAAAACCATGTCTGGGACATGACATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
19135244 ACATTCTACC
Statistics
Matches: 215, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 13 0.06
45 15 0.07
46 49 0.23
47 51 0.24
48 11 0.05
49 34 0.16
50 36 0.17
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAGATGAGCC
Found at i:19141817 original size:43 final size:43
Alignment explanation
Indices: 19141726--19141952 Score: 310
Period size: 43 Copynumber: 5.2 Consensus size: 43
19141716 GGTAACGACT
*
19141726 TTTAGCGGCGTTTGTGGGGAAAGCGCTTCGCTAAAAGTCATGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGC--CGCTAAAAGTCATGGCC
* * * *
19141771 TTTAGCGGTGTTTGCGGGGAAAGCGCCACTAAAAGTCATGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
* *
19141814 TTTAGCGTCGTTTGTGGGAAAAACGCCGCTAAAAGTCATGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
* * * * *
19141857 TTTAGTGGCATTTATGGGAAAAGTGCCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
* *
19141900 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
19141943 TTTAGCGGCG
1 TTTAGCGGCG
19141953 CTTTTGTTAC
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 137 0.85
45 24 0.15
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
Found at i:19142059 original size:31 final size:31
Alignment explanation
Indices: 19142024--19142082 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
19142014 AATCCTTCCT
*
19142024 GCATTAAATCCAACCAAAAACAACAAATATA
1 GCATTAAATCCAACCAAAAACAAAAAATATA
* * *
19142055 GCATTGAATCCAATCAAATACAAAAAAT
1 GCATTAAATCCAACCAAAAACAAAAAAT
19142083 GTAACATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (31 bp):
GCATTAAATCCAACCAAAAACAAAAAATATA
Found at i:19142811 original size:13 final size:14
Alignment explanation
Indices: 19142785--19142813 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19142775 ACTAACGACG
19142785 AATTAAACCATTAT
1 AATTAAACCATTAT
19142799 AATTAAA-CATTAT
1 AATTAAACCATTAT
19142812 AA
1 AA
19142814 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:19147857 original size:9 final size:9
Alignment explanation
Indices: 19147843--19147939 Score: 67
Period size: 9 Copynumber: 11.0 Consensus size: 9
19147833 TAAGTATAAT
19147843 TAAGTTATG
1 TAAGTTATG
19147852 TAAGTTATG
1 TAAGTTATG
* * *
19147861 ATATGATATA
1 -TAAGTTATG
*
19147871 T-ATTTATG
1 TAAGTTATG
19147879 T-A-TTATG
1 TAAGTTATG
*
19147886 TATGTTATG
1 TAAGTTATG
*
19147895 TAAATTATG
1 TAAGTTATG
*
19147904 TAAGTTATC
1 TAAGTTATG
19147913 TGAA-TTATG
1 T-AAGTTATG
*
19147922 TAAATTATG
1 TAAGTTATG
*
19147931 TAAGATATG
1 TAAGTTATG
19147940 ATATATATTT
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
7 6 0.09
8 7 0.10
9 47 0.69
10 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:19148393 original size:5 final size:5
Alignment explanation
Indices: 19148355--19148381 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19148345 TTTTCATGAT
19148355 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
19148382 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:19148400 original size:13 final size:14
Alignment explanation
Indices: 19148354--19148393 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
19148344 TTTTTCATGA
*
19148354 TTAAAATAAAATAAA
1 TTAAAATAAAAT-AT
*
19148369 ATAAAATAAAATAT
1 TTAAAATAAAATAT
19148383 TTAAAATAAAA
1 TTAAAATAAAA
19148394 CTTTAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:19148401 original size:110 final size:110
Alignment explanation
Indices: 19148273--19148485 Score: 363
Period size: 110 Copynumber: 1.9 Consensus size: 110
19148263 TTAAATTAAA
* * *
19148273 TTAAAATAAAATTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATACAATAAAAGTAGAC
1 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
19148338 AAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATAT
66 AAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATAT
19148383 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
1 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
** * *
19148448 AAAATATTTTTTGTGATTAAATTAAATTAAAATAAAAT
66 AAAATATTTTTCATGATTAAAATAAAATAAAATAAAAT
19148486 TTTAAATACA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 96 1.00
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (110 bp):
TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
AAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATAT
Found at i:19148524 original size:43 final size:41
Alignment explanation
Indices: 19148381--19148521 Score: 104
Period size: 42 Copynumber: 3.2 Consensus size: 41
19148371 AAAATAAAAT
19148381 ATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
1 ATTTAAAATAAAA-TTTAAATACAATTTAATTTAATTAGGTA
* ** * **
19148423 ATTTAAAAATAAAA-TAAAAGTAGACAAAATATTTTTTGTGATTAAATTA
1 ATTT-AAAATAAAATTTAAA-T--AC--AAT-TTAATT-TAATT-AGGTA
* *
19148472 AATTAAAATAAAATTTTAAATACAATTTACTTTAATTAGGTA
1 ATTTAAAATAAAA-TTTAAATACAATTTAATTTAATTAGGTA
19148514 ATTTAAAA
1 ATTTAAAA
19148522 ATACAATAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
41 4 0.05
42 15 0.20
43 13 0.18
44 6 0.08
45 3 0.04
46 3 0.04
47 6 0.08
48 13 0.18
49 7 0.09
50 4 0.05
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (41 bp):
ATTTAAAATAAAATTTAAATACAATTTAATTTAATTAGGTA
Found at i:19148588 original size:104 final size:102
Alignment explanation
Indices: 19148265--19149056 Score: 969
Period size: 105 Copynumber: 7.7 Consensus size: 102
19148255 TTTTGTGATT
* * * *
19148265 AAATTAAATTAAAATAAAATTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATACAATAA
1 AAATAAAATAAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAA
*
19148330 AAGTAGACAAAATATTTTTCATGATTAAAATAAAATA
66 AAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
19148367 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAA
1 AAATAAAATAAAA-A--TAAAAT-----TTTAAATACAATTTAATTTAATTAGGTAATTTAAAAA
*
19148432 TAAAATAAAAGTAGACAAAATATTTTTTGTGATT-AAAT----T-
58 TAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
* *
19148471 AAAT----T-AAAATAAAATTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATACAATAA
1 AAATAAAATAAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAA
*
19148531 AAGTAGACAAAATA-TTTTCATGATTAAAATAAAATA
66 AAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
19148567 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAA
1 AAATAAAATAAAA-A--TAAAAT-----TTTAAATACAATTTAATTTAATTAGGTAATTTAAAAA
*
19148632 TAAAATAAAAGTAGACAAAATATTTTTTGTGATTAAAAT-AAATA
58 TAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
19148676 AAATAAAATATTTAAAAT-AAATCTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAA
1 AAATAAAATA---AAAATAAAAT-TTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAA
19148740 ATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
62 ATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
*
19148781 AAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAA
1 AAATAAAATA---AAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAA
*
19148846 TAAAAGTAGACAAAACATTTTTCGTGATTAAAATAAAAT-
63 TAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
* * *
19148885 --AT----TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTTATTTTAAAAATAAAATA
1 AAATAAAATAAAAATAAAATTTTAAATACAATTTAATTTAATTAGG-TAATTTAAAAATAAAATA
* **
19148944 AAAGTAGACAAAAAAAATTTCGTGATTAAATTAAAATAAAATA
65 AAAGTAGACAAAATATTTTTCGTG-----ATTAAAATAAAATA
* *
19148987 AAATAACATATTCAAAATAAAAATTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAA
1 AAATAA-A-A-TAAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAA
19149052 TAAAA
63 TAAAA
19149057 TATTTAAAAT
Statistics
Matches: 616, Mismatches: 25, Indels: 90
0.84 0.03 0.12
Matches are distributed among these distances:
90 9 0.01
91 61 0.10
95 37 0.06
96 48 0.08
98 2 0.00
99 3 0.00
100 2 0.00
101 16 0.03
102 14 0.02
103 1 0.00
104 88 0.14
105 110 0.18
106 3 0.00
108 4 0.01
109 77 0.12
110 101 0.16
111 37 0.06
112 3 0.00
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (102 bp):
AAATAAAATAAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAA
AAGTAGACAAAATATTTTTCGTGATTAAAATAAAATA
Found at i:19148593 original size:5 final size:5
Alignment explanation
Indices: 19148555--19148581 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19148545 TTTTCATGAT
19148555 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
19148582 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:19148600 original size:13 final size:14
Alignment explanation
Indices: 19148554--19148593 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
19148544 ATTTTCATGA
*
19148554 TTAAAATAAAATAAA
1 TTAAAATAAAAT-AT
*
19148569 ATAAAATAAAATAT
1 TTAAAATAAAATAT
19148583 TTAAAATAAAA
1 TTAAAATAAAA
19148594 CTTTAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:19148647 original size:200 final size:203
Alignment explanation
Indices: 19148197--19149056 Score: 1335
Period size: 201 Copynumber: 4.2 Consensus size: 203
19148187 ATTTATTTAA
* *
19148197 AAATACAATTTAATTTAATTAGATAATTTAAAAATAAAATAAAAGTAGAAAAAATATTTTTTGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTG
* *
19148262 ATT-AAAT-TAAATTAAAATAAAATTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATAC
66 ATTAAAATATAAATTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
19148325 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATATTTAAAAT
131 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATATTTAAAAT
19148390 AAAACTTT
196 AAAACTTT
19148398 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTG
* *
19148463 ATT-AAAT-TAAATTAAAATAAAATTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATAC
66 ATTAAAATATAAATTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
19148526 AATAAAAGTAGACAAAATA-TTTTCATGATTAAAATAAAATAAAATAAAATAAAATATTTAAAAT
131 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATATTTAAAAT
19148590 AAAACTTT
196 AAAACTTT
19148598 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTG
*
19148663 ATTAAAATAAATAAAATAAAATATTTAAAATAAATCTTTAAATACAATTTAATTTAATTAGGTAA
66 ATTAAAAT--AT-AAATTAAA-A--T---A-AAAT-TTTAAATACAATTTAATTTAATTAGGTAA
*
19148728 TTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGA-T----TAAAATAAAATAAAATAAA
120 TTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAA
19148788 ATATTTAAAATAAAACTTT
185 ATATTTAAAATAAAACTTT
* *
19148807 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAACATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTG
* * *
19148872 ATTAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTTATTTTAAAAA
66 ATTAAAATATAA-A-TTAAAATAAAATTTTAAATACAATTTAATTTAATTAGG-TAATTTAAAAA
* ** * * * *
19148937 TAAAATAAAAGTAGACAAAAAAAATTTCGTGATTAAATTAAAATAAAATAAAATAACATATTCAA
128 TAAAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATATTTAA
*
19149002 AATAAAAATTT
193 AATAAAACTTT
19149013 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
19149057 TATTTAAAAT
Statistics
Matches: 619, Mismatches: 18, Indels: 39
0.92 0.03 0.06
Matches are distributed among these distances:
200 147 0.24
201 191 0.31
202 2 0.00
204 1 0.00
205 8 0.01
206 82 0.13
207 3 0.00
208 5 0.01
209 109 0.18
211 1 0.00
212 4 0.01
213 58 0.09
214 8 0.01
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (203 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTG
ATTAAAATATAAATTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATAAAATATTTAAAAT
AAAACTTT
Found at i:19148853 original size:105 final size:105
Alignment explanation
Indices: 19148474--19149056 Score: 866
Period size: 104 Copynumber: 5.6 Consensus size: 105
19148464 TTAAATTAAA
* * *
19148474 TTAAAATAAAATTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATACAATAAAAGTAGAC
1 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
*
19148539 AAAATA-TTTTCATGATTAAAATAAAATAAAATAAAATAAAATAT
66 AAAATATTTTTCGTGA-T----TAAAATAAAATAAAATAAAATAT
19148583 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
1 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
*
19148648 AAAATATTTTTTGTGATTAAAAT-AAATAAAATAAAATAT
66 AAAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
*
19148687 TTAAAATAAATCTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
1 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
19148752 AAAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
66 AAAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
19148792 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
1 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
*
19148857 AAAACATTTTTCGTG------AT----TAAAATAAAATAT
66 AAAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
*
19148887 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTTATTTTAAAAATAAAATAAAAGTAGA
1 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGG-TAATTTAAAAATAAAATAAAAGTAGA
* ** *
19148952 CAAAAAAAATTTCGTGATTAAATTAAAATAAAATAAAATAACAT
65 CAAAATATTTTTCGTGATTAAAATAAAATAAAATAAAAT---AT
*
19148996 ATTCAAAATAAAAATTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
1 -TT-AAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
19149057 TATTTAAAAT
Statistics
Matches: 440, Mismatches: 16, Indels: 35
0.90 0.03 0.07
Matches are distributed among these distances:
95 51 0.12
96 38 0.09
99 2 0.00
102 1 0.00
104 102 0.23
105 100 0.23
106 11 0.03
109 71 0.16
110 29 0.07
111 35 0.08
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.34
Consensus pattern (105 bp):
TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC
AAAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
Found at i:19151953 original size:19 final size:21
Alignment explanation
Indices: 19151907--19151957 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 21
19151897 GGGGTTGAAA
*
19151907 CAAATAAAAATAATAATAATTG
1 CAAAT-AAAATAATAAAAATTG
19151929 CGAAATAAAAT-ATAAAAATT-
1 C-AAATAAAATAATAAAAATTG
19151949 CAAATAAAA
1 CAAATAAAA
19151958 GTAGATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 1 0.04
21 8 0.30
22 6 0.22
23 4 0.15
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (21 bp):
CAAATAAAATAATAAAAATTG
Found at i:19169717 original size:16 final size:16
Alignment explanation
Indices: 19169696--19169749 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
19169686 AGAACTAGAT
19169696 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
19169712 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
19169722 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
19169738 AAAATTTGAAAT
1 AAAATTTGAAAT
19169750 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:19169880 original size:8 final size:7
Alignment explanation
Indices: 19169865--19169931 Score: 53
Period size: 7 Copynumber: 9.0 Consensus size: 7
19169855 CACTAATTAT
19169865 CCTAAAC
1 CCTAAAC
19169872 CCATAAACC
1 CC-TAAA-C
19169881 CCTAAAC
1 CCTAAAC
*
19169888 TCTAAAC
1 CCTAAAC
*
19169895 CCTTAATC
1 CC-TAAAC
19169903 CCTAAAC
1 CCTAAAC
**
19169910 TTTAAAC
1 CCTAAAC
*
19169917 CATAAAAC
1 CCT-AAAC
19169925 CCTAAAC
1 CCTAAAC
19169932 TATGTCCACT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
7 24 0.51
8 20 0.43
9 3 0.06
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:19169907 original size:15 final size:15
Alignment explanation
Indices: 19169865--19170019 Score: 64
Period size: 15 Copynumber: 9.9 Consensus size: 15
19169855 CACTAATTAT
19169865 CCTAAACCCATAAACC
1 CCTAAACCC-TAAACC
*
19169881 CCTAAACTCTAAACC
1 CCTAAACCCTAAACC
* *
19169896 CTTAATCCCTAAA-C
1 CCTAAACCCTAAACC
** * *
19169910 TTTAAACCATAAAAC
1 CCTAAACCCTAAACC
*
19169925 CCTAAACTATGTCCACTTAACC
1 CCT-AA--A---CC-CTAAACC
* *
19169947 CCTTAACCCTTAACC
1 CCTAAACCCTAAACC
* *
19169962 CCTAGACCCTCAACC
1 CCTAAACCCTAAACC
* * *
19169977 CTTAAA-TCTTAACC
1 CCTAAACCCTAAACC
*
19169991 CCTAAACCATAAACC
1 CCTAAACCCTAAACC
19170006 CC-AAATCCCTAAAC
1 CCTAAA-CCCTAAAC
19170020 ATCAACCCTT
Statistics
Matches: 104, Mismatches: 25, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
14 25 0.24
15 55 0.53
16 12 0.12
18 1 0.01
19 1 0.01
21 3 0.03
22 7 0.07
ACGTcount: A:0.38, C:0.39, G:0.01, T:0.22
Consensus pattern (15 bp):
CCTAAACCCTAAACC
Found at i:19169908 original size:22 final size:22
Alignment explanation
Indices: 19169866--19169932 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
19169856 ACTAATTATC
*
19169866 CTAAACCCATAAACCCCTAAACT
1 CTAAACCC-TAAAACCCTAAACT
* *
19169889 CTAAACCCTTAATCCCTAAACT
1 CTAAACCCTAAAACCCTAAACT
* *
19169911 TTAAACCATAAAACCCTAAACT
1 CTAAACCCTAAAACCCTAAACT
19169933 ATGTCCACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 30 0.79
23 8 0.21
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.22
Consensus pattern (22 bp):
CTAAACCCTAAAACCCTAAACT
Found at i:19169958 original size:7 final size:7
Alignment explanation
Indices: 19169940--19169991 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
19169930 ACTATGTCCA
19169940 CTTAACCC
1 CTTAA-CC
19169948 CTTAACC
1 CTTAACC
19169955 CTTAACC
1 CTTAACC
*
19169962 CCTAGACC
1 CTTA-ACC
*
19169970 CTCAACC
1 CTTAACC
**
19169977 CTTAAAT
1 CTTAACC
19169984 CTTAACC
1 CTTAACC
19169991 C
1 C
19169992 CTAAACCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
7 25 0.71
8 10 0.29
ACGTcount: A:0.29, C:0.44, G:0.02, T:0.25
Consensus pattern (7 bp):
CTTAACC
Found at i:19169993 original size:22 final size:22
Alignment explanation
Indices: 19169940--19169998 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
19169930 ACTATGTCCA
* *
19169940 CTTAACCCCTTAACCCTTAACC
1 CTTAACCCCTAAACCCTTAAAC
* * *
19169962 CCTAGA-CCCTCAACCCTTAAAT
1 CTTA-ACCCCTAAACCCTTAAAC
19169984 CTTAACCCCTAAACC
1 CTTAACCCCTAAACC
19169999 ATAAACCCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.31, C:0.44, G:0.02, T:0.24
Consensus pattern (22 bp):
CTTAACCCCTAAACCCTTAAAC
Found at i:19170005 original size:29 final size:29
Alignment explanation
Indices: 19169946--19170006 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
19169936 TCCACTTAAC
* * * *
19169946 CCCTTAACCCTTAACCCCTAGACCCTCAA
1 CCCTTAAACCTTAACCCCTAAACCATAAA
*
19169975 CCCTTAAATCTTAACCCCTAAACCATAAA
1 CCCTTAAACCTTAACCCCTAAACCATAAA
19170004 CCC
1 CCC
19170007 CAAATCCCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.21
Consensus pattern (29 bp):
CCCTTAAACCTTAACCCCTAAACCATAAA
Found at i:19170043 original size:7 final size:7
Alignment explanation
Indices: 19170031--19170215 Score: 86
Period size: 7 Copynumber: 25.1 Consensus size: 7
19170021 TCAACCCTTG
19170031 AACCATA
1 AACCATA
19170038 AACCATA
1 AACCATA
*
19170045 ATCTC-TCA
1 AAC-CAT-A
*
19170053 ATCCATA
1 AACCATA
*
19170060 ATCCATA
1 AACCATA
*
19170067 AACCTTA
1 AACCATA
** *
19170074 AAATATT
1 AACCATA
19170081 AACTCATA
1 AAC-CATA
19170089 AACCATA
1 AACCATA
*
19170096 AACCCCTA
1 AA-CCATA
* *
19170104 AATCTTA
1 AACCATA
*
19170111 AACCCTA
1 AACCATA
19170118 AACTCATA
1 AAC-CATA
* *
19170126 ATCCCTA
1 AACCATA
19170133 AACCCATGCA
1 AA-CCAT--A
19170143 TAATCCATA
1 -AA-CCATA
*
19170152 AACCTTA
1 AACCATA
**
19170159 AAATATA
1 AACCATA
19170166 AACCATA
1 AACCATA
19170173 AACTC-TA
1 AAC-CATA
19170180 AACCATA
1 AACCATA
* *
19170187 TACCCTA
1 AACCATA
19170194 AACCATA
1 AACCATA
19170201 AACCATA
1 AACCATA
*
19170208 AACTATA
1 AACCATA
19170215 A
1 A
19170216 TGATAATTAA
Statistics
Matches: 134, Mismatches: 32, Indels: 24
0.71 0.17 0.13
Matches are distributed among these distances:
6 1 0.01
7 97 0.72
8 28 0.21
9 1 0.01
10 1 0.01
11 6 0.04
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.24
Consensus pattern (7 bp):
AACCATA
Found at i:19170433 original size:14 final size:14
Alignment explanation
Indices: 19170414--19170440 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19170404 TACGTGTCAT
19170414 TAGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
19170428 TAGTTTAGGGTTT
1 TAGTTTAGGGTTT
19170441 GGGATTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (14 bp):
TAGTTTAGGGTTTA
Found at i:19171385 original size:154 final size:155
Alignment explanation
Indices: 19171112--19171409 Score: 352
Period size: 154 Copynumber: 1.9 Consensus size: 155
19171102 GGCGTTTTTC
* * *
19171112 AAAAAGCGTCGCTAATACTCAATCTATTGCGGCATTTTCCACAAAGCACCGCTAGTGCCAATGAA
1 AAAAAGCGCCGCTAATACTCAATCTATTGCGGCATTTTCCACAAAGCACCGCTAATGCCAATAAA
* ** * * *
19171177 GCTCAAAGTAAAACGACGTAGTTCTTCTTAATCTTTTAGCGGCGTTTTTGAAAAAACACCG-TAT
66 GCTCAAAATAAAACGACGTAGTTCGACTTAATCTTTTAACGGCATTTTTG-AAAAACACCGCTAA
19171241 AGGTCGACCTATAGCAGCGCTCTATT
130 AGGTCGACCTATAGCAGCGCTCTATT
* * * * ** * * *
19171267 AAAAA-CGCCGCTAATGCTCGATCTATTGTGGCGTTTTTGAGAAAGCGCCGCTAATGCCACTAAA
1 AAAAAGCGCCGCTAATACTCAATCTATTGCGGCATTTTCCACAAAGCACCGCTAATGCCAATAAA
*
19171331 GCTCAAAAT-AAACGACGTCGTTCGACTTAATCTTTTAACGGCATTTCTAT-AAAAACACCGCTA
66 GCTCAAAATAAAACGACGTAGTTCGACTTAATCTTTTAACGGCATTT-T-TGAAAAACACCGCTA
* *
19171394 AAGTTCGATCTATAGC
129 AAGGTCGACCTATAGC
19171410 GCCGCTAATA
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
153 42 0.35
154 71 0.60
155 6 0.05
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (155 bp):
AAAAAGCGCCGCTAATACTCAATCTATTGCGGCATTTTCCACAAAGCACCGCTAATGCCAATAAA
GCTCAAAATAAAACGACGTAGTTCGACTTAATCTTTTAACGGCATTTTTGAAAAACACCGCTAAA
GGTCGACCTATAGCAGCGCTCTATT
Found at i:19171473 original size:12 final size:12
Alignment explanation
Indices: 19171456--19171483 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19171446 TTTTCTATTC
19171456 AAACGCCGCTAA
1 AAACGCCGCTAA
19171468 AAACGCCGCTAA
1 AAACGCCGCTAA
19171480 AAAC
1 AAAC
19171484 CTGTTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:19174047 original size:46 final size:46
Alignment explanation
Indices: 19173993--19174266 Score: 171
Period size: 46 Copynumber: 5.8 Consensus size: 46
19173983 TATTTGGGCA
* *
19173993 TCCGAACTCGTTGAATTGAGTCCGAATTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACG
* * * * * * *
19174039 TCCGAACTCGTTGAGTTGAGT-TGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAATTC-ACTT-ATG-GATGCAA--A--CG
* * *
19174091 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACG
* * * * * * * *
19174137 TTCGAATTCGTTGAGTTGAGTCTG-AGT---TTGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATG-GATGCAA--A--CG
* *
19174184 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGAATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACG
* * * *
19174230 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGG
19174267 GCGGGTTACA
Statistics
Matches: 170, Mismatches: 41, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
42 4 0.02
43 4 0.02
45 6 0.04
46 77 0.45
47 24 0.14
48 10 0.06
50 11 0.06
51 6 0.04
52 23 0.14
53 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACG
Found at i:19174109 original size:47 final size:47
Alignment explanation
Indices: 19174053--19174208 Score: 160
Period size: 47 Copynumber: 3.3 Consensus size: 47
19174043 AACTCGTTGA
*
19174053 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTC
* * * * *
19174100 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TTCGAATTC
1 GTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAACTC
* * *
19174146 GTTGAGTTGAGTCTGAGTTTGTGAAATGTAACTAGGCATCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTC
19174193 GTTGAGTTGAGTCCGA
1 GTTGAGTTGAGTCCGA
19174209 ATTCACTTAT
Statistics
Matches: 85, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.04
43 3 0.04
45 3 0.04
46 24 0.28
47 42 0.49
48 3 0.04
50 4 0.05
51 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (47 bp):
GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTC
Found at i:19174181 original size:93 final size:93
Alignment explanation
Indices: 19173989--19174259 Score: 362
Period size: 93 Copynumber: 2.9 Consensus size: 93
19173979 CGGATATTTG
* * * * *
19173989 GGCATCCGAACTCGTTGAATTGAGTCCGAATTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGAATGCGAACGCCCGAACTC-----G
*
19174054 TTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
61 TTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* * * ** *
19174087 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAATTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGAATGCGAACGCCCGAACTCGTTGAG
* *
19174152 TTGAGTCTGAGTTTGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
19174180 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGAATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGAATGCGAACGCCCGAACTCGTTGAG
19174245 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
19174260 CTTATGGGCG
Statistics
Matches: 154, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
93 102 0.66
98 52 0.34
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGAATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:19177254 original size:15 final size:15
Alignment explanation
Indices: 19177234--19177287 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
19177224 TATCATATCT
19177234 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
* *
19177249 TGGATTT-TTCAATC
1 TGGATTTCTTTATTC
19177263 TTGGATTTCTTTATTC
1 -TGGATTTCTTTATTC
*
19177279 -GGTTTTCTT
1 TGGATTTCTT
19177288 ATTATCTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 13 0.41
15 14 0.44
16 5 0.16
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.59
Consensus pattern (15 bp):
TGGATTTCTTTATTC
Found at i:19178526 original size:11 final size:11
Alignment explanation
Indices: 19178510--19178537 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
19178500 CCATAAACCA
19178510 AATTTAAGAAC
1 AATTTAAGAAC
19178521 AATTTAAGAAC
1 AATTTAAGAAC
19178532 AATTTA
1 AATTTA
19178538 GAGATGAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (11 bp):
AATTTAAGAAC
Found at i:19180032 original size:46 final size:46
Alignment explanation
Indices: 19179977--19180148 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 46
19179967 TATTTGGGCA
19179977 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
19180023 TCCGAACTCGTTGAGTTGAGT-TGAGTCCGAGTTCGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTT-ATG-GATGCGAAC---G
*
19180073 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
19180121 TTCGAACTCGTTGAGTTGAGTCCGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT
19180149 TGTGAAATGT
Statistics
Matches: 103, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
45 5 0.05
46 50 0.49
47 5 0.05
48 5 0.05
50 5 0.05
51 5 0.05
52 23 0.22
53 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:19180103 original size:47 final size:47
Alignment explanation
Indices: 19180037--19180197 Score: 179
Period size: 47 Copynumber: 3.4 Consensus size: 47
19180027 AACTCGTTGA
*
19180037 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTC
* * * *
19180084 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TTCGAACTC
1 GTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAACTC
* *
19180130 GTTGAGTTGAGTCCGAGTTTGTGAAATGTAACTAGGCATCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTC
*
19180177 GTTGAGTTGAGTCCAAGTTCG
1 GTTGAGTTGAGTCCGAGTTCG
19180198 CTTATGGGCG
Statistics
Matches: 92, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
45 3 0.03
46 26 0.28
47 47 0.51
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (47 bp):
GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTC
Found at i:19180186 original size:98 final size:94
Alignment explanation
Indices: 19179973--19180204 Score: 367
Period size: 93 Copynumber: 2.4 Consensus size: 94
19179963 TGGATATTTG
19179973 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTC---G-G
*
19180038 TTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
62 TTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* *
19180071 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTC-GTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGGTTGA
*
19180135 GTTGAGTCCGAGTTTGTGAAATGTAACTA
66 GTTGAGTCCGAGTTCGTGAAATGTAACTA
* *
19180164 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19180205 GCGGGTTACA
Statistics
Matches: 127, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
93 70 0.55
98 57 0.45
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (94 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGGTTGA
GTTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:19185788 original size:29 final size:29
Alignment explanation
Indices: 19185755--19185810 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
19185745 TAATGTAAGC
*
19185755 TTTGGACTGAATTGAGTAAGTTTTGGAGT
1 TTTGGACTGAATTAAGTAAGTTTTGGAGT
19185784 TTTGGACTGAATTAAGTAAGTTTTGGA
1 TTTGGACTGAATTAAGTAAGTTTTGGA
19185811 CTGAATTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.41
Consensus pattern (29 bp):
TTTGGACTGAATTAAGTAAGTTTTGGAGT
Found at i:19185807 original size:21 final size:21
Alignment explanation
Indices: 19185781--19185823 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19185771 TAAGTTTTGG
19185781 AGTTTTGGACTGAATTAAGTA
1 AGTTTTGGACTGAATTAAGTA
*
19185802 AGTTTTGGACTGAATTGAGTA
1 AGTTTTGGACTGAATTAAGTA
19185823 A
1 A
19185824 TGTGATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (21 bp):
AGTTTTGGACTGAATTAAGTA
Found at i:19195605 original size:43 final size:43
Alignment explanation
Indices: 19195544--19195629 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
19195534 TATGTGATTG
19195544 ATATTGAAATGGAAAAGAT-GAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATAG-GAAATGAATATGAGATGAGAAA
*
19195587 ATATTGAAATGGAAAAGATAGGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATAGGAAATGAATATGAGATGAGAAA
19195630 TGAAATATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATAGGAAATGAATATGAGATGAGAAA
Found at i:19198923 original size:23 final size:25
Alignment explanation
Indices: 19198897--19198943 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19198887 TATCATTCAT
*
19198897 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
19198920 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
19198944 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:19199264 original size:46 final size:46
Alignment explanation
Indices: 19199204--19199420 Score: 301
Period size: 46 Copynumber: 4.7 Consensus size: 46
19199194 TTTGACGTGA
* * * * * *
19199204 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
19199250 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
19199296 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
19199342 TGCCACGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19199388 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
19199421 CAGGTTGTCA
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 151 0.97
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:19199320 original size:92 final size:92
Alignment explanation
Indices: 19199204--19199507 Score: 327
Period size: 92 Copynumber: 3.5 Consensus size: 92
19199194 TTTGACGTGA
* * * * * * * *
19199204 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGTTGCCACGGTATCTTTCAA
** * *
19199268 CCATGGTCTTATTCTTTTCATGTCACGT
65 CCATGGTCTTACACATTTCATATCACGT
19199296 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCACGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCACGGTATCTTTCAAC
*
19199361 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
* *
19199388 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCACGGTATCTTTCAAC
*
19199445 CATGGTCTT--ACA---C--A-CAGGT
66 CATGGTCTTACACATTTCATATCACGT
*
19199464 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAG
19199508 AGAGCACACT
Statistics
Matches: 188, Mismatches: 15, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
76 33 0.18
77 1 0.01
78 3 0.02
79 1 0.01
81 1 0.01
82 3 0.02
83 1 0.01
84 34 0.18
85 1 0.01
87 1 0.01
90 3 0.02
91 3 0.02
92 103 0.55
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCACGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:19199434 original size:38 final size:38
Alignment explanation
Indices: 19199383--19199496 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
19199373 CATTTCATAT
19199383 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
19199421 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
19199459 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
19199497 TTTCATATCA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:19201632 original size:11 final size:11
Alignment explanation
Indices: 19201616--19201663 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
19201606 CTTTATATAC
19201616 TAATAAAATAA
1 TAATAAAATAA
19201627 TAATAAAATATA
1 TAATAAAATA-A
* * *
19201639 TTATTAAAGTAT
1 -TAATAAAATAA
19201651 TAATAAAATAA
1 TAATAAAATAA
19201662 TA
1 TA
19201664 TTTATCTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 20 0.69
12 1 0.03
13 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:19201646 original size:24 final size:24
Alignment explanation
Indices: 19201610--19201665 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
19201600 TTCTTTCTTT
*
19201610 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* * *
19201634 ATATATTATTAAAGTATTAATAAA
1 ATATATTAATAAAATAATAATAAA
19201658 ATAATATT
1 AT-ATATT
19201666 TATCTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:19202317 original size:13 final size:13
Alignment explanation
Indices: 19202299--19202326 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19202289 GTCATCGAAA
19202299 ACAACATGTATAG
1 ACAACATGTATAG
19202312 ACAACATGTATAG
1 ACAACATGTATAG
19202325 AC
1 AC
19202327 TCTTCTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (13 bp):
ACAACATGTATAG
Found at i:19204868 original size:32 final size:32
Alignment explanation
Indices: 19204823--19204886 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
19204813 AAGGTCTCAT
19204823 AATTGAAAGTGATGATTCCCACATTTGATTTC
1 AATTGAAAGTGATGATTCCCACATTTGATTTC
19204855 AATTGAGAA-TGATGATTCCCACATTTGATTTC
1 AATTGA-AAGTGATGATTCCCACATTTGATTTC
19204887 TTCACTTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (32 bp):
AATTGAAAGTGATGATTCCCACATTTGATTTC
Found at i:19207780 original size:16 final size:16
Alignment explanation
Indices: 19207759--19207826 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
19207749 TTTGGTTCGC
19207759 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
19207775 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
19207790 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
19207807 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
19207823 TGTA
1 TGTA
19207827 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:19207800 original size:32 final size:32
Alignment explanation
Indices: 19207759--19207826 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
19207749 TTTGGTTCGC
19207759 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
19207791 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
19207823 TGTA
1 TGTA
19207827 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:19208150 original size:157 final size:157
Alignment explanation
Indices: 19207956--19208265 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
19207946 CCCTTAGCAT
*
19207956 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
19208021 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
19208086 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
19208113 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
19208178 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
19208243 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
19208266 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:19208262 original size:82 final size:81
Alignment explanation
Indices: 19208019--19208268 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
19208009 TATTATTATC
* * *
19208019 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
19208084 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
19208101 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
19208155 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
19208176 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
19208241 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
19208258 AATAATTAATA
1 AATAATAAATA
19208269 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:19208339 original size:157 final size:155
Alignment explanation
Indices: 19208002--19208323 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
19207992 TTAAATTTTA
* * * *
19208002 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
19208067 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
19208132 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
19208159 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
19208224 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
19208289 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
19208320 ATAA
1 ATAA
19208324 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:19211477 original size:16 final size:16
Alignment explanation
Indices: 19211453--19211487 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19211443 AAATTAATTT
*
19211453 TTTTTAAATTATAAAA
1 TTTTCAAATTATAAAA
*
19211469 TTTTCAAATTATAGAA
1 TTTTCAAATTATAAAA
19211485 TTT
1 TTT
19211488 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTTCAAATTATAAAA
Found at i:19219107 original size:27 final size:26
Alignment explanation
Indices: 19219057--19219111 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
19219047 ATTGGATATA
* *
19219057 TTTTATAAATTTTTTAATATTTTAATT
1 TTTTACAAATTTTTAAATATTTT-ATT
19219084 TTTTACAAATTTTTAAAT-TATTTATT
1 TTTTACAAATTTTTAAATAT-TTTATT
19219110 TT
1 TT
19219112 GAATTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTACAAATTTTTAAATATTTTATT
Found at i:19228522 original size:5 final size:6
Alignment explanation
Indices: 19228506--19228530 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19228496 AAAACACATT
19228506 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
19228531 CTAATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:19246114 original size:33 final size:33
Alignment explanation
Indices: 19246076--19246142 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
19246066 CATAGCATAA
19246076 TTTCATGACATGTTCTTCATTTATTCAATTTAG
1 TTTCATGACATGTTCTTCATTTATTCAATTTAG
19246109 TTTCATGACATGTTCTTCATTTATTCAATTTAG
1 TTTCATGACATGTTCTTCATTTATTCAATTTAG
19246142 T
1 T
19246143 CCCTAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (33 bp):
TTTCATGACATGTTCTTCATTTATTCAATTTAG
Found at i:19250745 original size:21 final size:20
Alignment explanation
Indices: 19250717--19250761 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
19250707 ATCTAAACAA
19250717 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
19250737 AACTAGCTGATGTGGCCAGTT
1 AACT-GCTGATGTGGCAAGTT
19250758 AACT
1 AACT
19250762 TGCCACGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:19252022 original size:3 final size:3
Alignment explanation
Indices: 19252016--19252049 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
19252006 CAGCTTTTTT
* *
19252016 TTC TTC TTC TTC CTA TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
19252050 CTGTTAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:19252131 original size:21 final size:21
Alignment explanation
Indices: 19252105--19252145 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19252095 CAACGTGGCA
19252105 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
19252126 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
19252146 CGTTCTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:19263831 original size:86 final size:85
Alignment explanation
Indices: 19263589--19263831 Score: 317
Period size: 86 Copynumber: 2.8 Consensus size: 85
19263579 AGCCCATGTT
* * *
19263589 TTTTCTTTGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAGGGCCCTTAAACTTTTT
1 TTTT-TTT-CACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGCCCCTCAAACTTTTT
* *
19263654 CAAAAAAGTAATTAAGCCCCTA
64 CAAAAAAATAACTAAGCCCCTA
** * * * * *
19263676 -TTTTCCCATTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGCCTCTCAAACTTCTCCA
1 TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGCCCCTCAAACTTTTTCA
*
19263740 CAAAAATCAACTAAGCCCCTA
66 AAAAAAT-AACTAAGCCCCTA
* *
19263761 TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAACACATAAAAAAGCCCCTCAAACTTTTTCA
1 TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGCCCCTCAAACTTTTTCA
19263826 AAAAAA
66 AAAAAA
19263832 GCAATTAAAC
Statistics
Matches: 131, Mismatches: 23, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
84 55 0.42
85 13 0.10
86 63 0.48
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (85 bp):
TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGCCCCTCAAACTTTTTCA
AAAAAATAACTAAGCCCCTA
Found at i:19264058 original size:20 final size:20
Alignment explanation
Indices: 19264035--19264082 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
19264025 AATAAAAGTT
*
19264035 ATAAAAATGA-TTAACTTTTA
1 ATAAAAAT-ATTTAAATTTTA
19264055 ATAAAAATATTTAAATTTTA
1 ATAAAAATATTTAAATTTTA
*
19264075 TTAAAAAT
1 ATAAAAAT
19264083 TAGAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAAAAATATTTAAATTTTA
Found at i:19264119 original size:19 final size:19
Alignment explanation
Indices: 19264095--19264187 Score: 82
Period size: 19 Copynumber: 4.8 Consensus size: 19
19264085 GAATTTTTTT
*
19264095 TATAAAAATTGTAAAAATA
1 TATAAAAATTATAAAAATA
* *
19264114 TAT-AAAATATATAAAATTT
1 TATAAAAAT-TATAAAAATA
* *
19264133 TATAAAAATCATAAAAAAA
1 TATAAAAATTATAAAAATA
*
19264152 TAT-AAAATCTATAGAAATA
1 TATAAAAAT-TATAAAAATA
*
19264171 TAGAAAAAATTATAAAA
1 TA-TAAAAATTATAAAA
19264188 TTTTATAAAG
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 10 0.18
19 31 0.54
20 11 0.19
21 5 0.09
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:19264120 original size:9 final size:9
Alignment explanation
Indices: 19264108--19264188 Score: 65
Period size: 9 Copynumber: 8.6 Consensus size: 9
19264098 AAAAATTGTA
19264108 AAAATATAT
1 AAAATATAT
19264117 AAAATATAT
1 AAAATATAT
*
19264126 AAAATTTTAT
1 AAAA-TATAT
19264136 AAAA-ATCAT
1 AAAATAT-AT
*
19264145 AAAAAAATAT
1 -AAAATATAT
*
19264155 AAAATCTAT
1 AAAATATAT
*
19264164 AGAAATATAG
1 A-AAATATAT
*
19264174 AAAAAATTAT
1 AAAATA-TAT
19264184 AAAAT
1 AAAAT
19264189 TTTATAAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
8 1 0.02
9 27 0.47
10 27 0.47
11 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAATATAT
Found at i:19264138 original size:38 final size:39
Alignment explanation
Indices: 19264092--19264169 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
19264082 TTAGAATTTT
** *
19264092 TTTTATAAAAATTGTAAAAATATATAAAATATATA-AAA
1 TTTTATAAAAATCATAAAAAAATATAAAATATATAGAAA
*
19264130 TTTTATAAAAATCATAAAAAAATATAAAATCTATAGAAA
1 TTTTATAAAAATCATAAAAAAATATAAAATATATAGAAA
19264169 T
1 T
19264170 ATAGAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 31 0.89
39 4 0.11
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (39 bp):
TTTTATAAAAATCATAAAAAAATATAAAATATATAGAAA
Found at i:19264525 original size:19 final size:20
Alignment explanation
Indices: 19264493--19264549 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
19264483 TTTTTAATAT
19264493 TTTAATATTATTTTATTA-AAA
1 TTTAATA-T-TTTTATTATAAA
*
19264514 TTTAATATTTTT-TTATAAC
1 TTTAATATTTTTATTATAAA
19264533 TTTAAATGATTTTTATT
1 TTT-AAT-ATTTTTATT
19264550 CTTTATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 9 0.29
20 4 0.13
21 13 0.42
22 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAATATTTTTATTATAAA
Found at i:19264563 original size:18 final size:18
Alignment explanation
Indices: 19264514--19264564 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
19264504 TTTATTAAAA
19264514 TTTAATATTTTTTTATAAC
1 TTTAA-ATTTTTTTATAAC
* *
19264533 TTTAAATGATTTTTAT-TC
1 TTTAAAT-TTTTTTATAAC
19264551 TTTATAATTTTTTT
1 TTTA-AATTTTTTT
19264565 GCCACATGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTAAATTTTTTTATAAC
Found at i:19269312 original size:26 final size:26
Alignment explanation
Indices: 19269283--19269524 Score: 232
Period size: 26 Copynumber: 9.3 Consensus size: 26
19269273 CGTAATGTAC
** *
19269283 TTTATTTAATAGGCTTTGAGTCGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * ** *
19269309 TTTATTTAGCAAGTTTTGAGCTAGTT
1 TTTATTTAGCAGGCTTTGAGCCGGTG
*
19269335 TTTATTTAGCAGGCTTTGAGCTGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* *
19269361 TTTATTTAGAAGGCTTTGAGCCGATG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * *
19269387 ATTATTTAGCAGGCCTTGAGCCAGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * *
19269413 TGTATTTAGTAGGCCTTGAGCCGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * **
19269439 TGTATTTAGCAGGCCTTGAGCCAATG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* *
19269465 TTGATCTAGCAGGCTTTGAGCCGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * * *
19269491 ATTATTTAGTAGGCTTTGAGTCAGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
*
19269517 ATTATTTA
1 TTTATTTA
19269525 ACATGTAACA
Statistics
Matches: 177, Mismatches: 39, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 177 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (26 bp):
TTTATTTAGCAGGCTTTGAGCCGGTG
Found at i:19279833 original size:93 final size:93
Alignment explanation
Indices: 19279705--19279875 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
19279695 GCCCCTAAGT
* *
19279705 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19279770 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
19279798 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19279863 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19279876 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:19279872 original size:46 final size:46
Alignment explanation
Indices: 19279700--19279872 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
19279690 AACCCGCCCC
* * *
19279700 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
19279746 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
19279794 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
19279839 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19279873 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:19281675 original size:19 final size:19
Alignment explanation
Indices: 19281622--19281673 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
19281612 AGAAAAAAAT
**
19281622 AAAAATATAATTTTATTTCA
1 AAAAATATAA-TAAATTTCA
*
19281642 AAAAATATAATAAATTTTA
1 AAAAATATAATAAATTTCA
19281661 AAAAATAT-ATAAA
1 AAAAATATAATAAA
19281674 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 10 0.34
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATATAATAAATTTCA
Found at i:19281681 original size:18 final size:19
Alignment explanation
Indices: 19281641--19281686 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
19281631 ATTTTATTTC
* **
19281641 AAAAAATATAATAAATTTT
1 AAAAAATATAATAAAATAA
19281660 AAAAAATAT-ATAAAATAA
1 AAAAAATATAATAAAATAA
19281678 AAAAAATAT
1 AAAAAATAT
19281687 TTTTGACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAATATAATAAAATAA
Found at i:19281746 original size:45 final size:45
Alignment explanation
Indices: 19281659--19281763 Score: 117
Period size: 45 Copynumber: 2.3 Consensus size: 45
19281649 TAATAAATTT
*
19281659 TAAAAAATATATAAAATAAAAAAAATATTTTTGACAATAAATAAAA
1 TAAAAAATTTA-AAAATAAAAAAAATATTTTTGACAATAAATAAAA
*
19281705 TAAAAAATTTAAAAATATATAAAAATATATTTTT-A-AA-AAATATAA
1 TAAAAAATTTAAAAATA-A-AAAAA-ATATTTTTGACAATAAATAAAA
* *
19281750 CAATAAATTTAAAA
1 TAAAAAATTTAAAA
19281764 TTTATATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
45 25 0.48
46 13 0.25
47 6 0.12
48 8 0.15
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (45 bp):
TAAAAAATTTAAAAATAAAAAAAATATTTTTGACAATAAATAAAA
Found at i:19281747 original size:23 final size:24
Alignment explanation
Indices: 19281712--19281759 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
19281702 AAATAAAAAA
*
19281712 TTTAAAAATATATAAAAATATATT
1 TTTAAAAATATATAAAAATAAATT
*
19281736 TTTAAAAA-ATATAACAATAAATT
1 TTTAAAAATATATAAAAATAAATT
19281759 T
1 T
19281760 AAAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAAAAATATATAAAAATAAATT
Found at i:19281769 original size:21 final size:21
Alignment explanation
Indices: 19281709--19281769 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
19281699 ATAAAATAAA
19281709 AAATTTAAAAATATATAAAAAT
1 AAATTT-AAAATATATAAAAAT
* * *
19281731 ATATTTTTAAAAAATATAACAAT
1 A-A-ATTTAAAATATATAAAAAT
*
19281754 AAATTTAAAATTTATA
1 AAATTTAAAATATATA
19281770 TTAATGTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 11 0.35
22 2 0.06
23 15 0.48
24 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTTAAAATATATAAAAAT
Found at i:19281795 original size:25 final size:24
Alignment explanation
Indices: 19281765--19281813 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
19281755 AATTTAAAAT
* *
19281765 TTATATTAATGTTACATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
19281790 TTATATTAATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
19281814 AATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:19284359 original size:18 final size:18
Alignment explanation
Indices: 19284336--19284383 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
19284326 AAAATGTGAG
*
19284336 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
19284354 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
19284372 AAATGATGTTCA
1 AAATGATGTTCA
19284384 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:19284640 original size:13 final size:13
Alignment explanation
Indices: 19284622--19284647 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19284612 GGAAGAAGTT
19284622 CCAGAAGCTAGTC
1 CCAGAAGCTAGTC
19284635 CCAGAAGCTAGTC
1 CCAGAAGCTAGTC
19284648 TGCTATACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
CCAGAAGCTAGTC
Found at i:19284920 original size:72 final size:71
Alignment explanation
Indices: 19284825--19285136 Score: 430
Period size: 72 Copynumber: 4.3 Consensus size: 71
19284815 CAATGCTAAA
*
19284825 CTAGTTTTATCAATAGTTATTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
19284890 GTGTAAT
66 GT-TAAT
* * *
19284897 CTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
19284962 GTGTAAT
66 GT-TAAT
* *
19284969 CTAGTTTTATTAATAGTTGTTTATGTTT-GGTCTTTGGATATTGAATTTATGGTCTACTTATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGT-TTTGGATATTGAATTTATGTTCTACTTATTTA
**
19285033 TGCTTAGGG
65 TG-TTA-AT
* ** *
19285042 CTAGTTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
19285107 ACTAAAT
66 -GTTAAT
19285114 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
19285137 ATATGATTTT
Statistics
Matches: 213, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
71 24 0.11
72 128 0.60
73 60 0.28
74 1 0.00
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (71 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTTAAT
Found at i:19287381 original size:49 final size:50
Alignment explanation
Indices: 19287301--19287546 Score: 316
Period size: 49 Copynumber: 4.9 Consensus size: 50
19287291 AGCTATTGTG
* * *
19287301 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
19287351 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
19287401 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
19287451 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
19287501 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
19287547 GCTTCGGCTA
Statistics
Matches: 169, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
49 82 0.49
50 49 0.29
51 38 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:19287438 original size:28 final size:28
Alignment explanation
Indices: 19287406--19287489 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
19287396 AACTTCGATC
19287406 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
19287434 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
19287456 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
19287484 ACGTGT
1 ACGTGT
19287490 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:19287498 original size:101 final size:98
Alignment explanation
Indices: 19287304--19287533 Score: 316
Period size: 100 Copynumber: 2.3 Consensus size: 98
19287294 TATTGTGAGG
* *
19287304 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
* *
19287369 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCAGATAA-TT-GA
* * ** *
19287404 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
19287469 TAAGTGCAGGCTACTACGTGTACCAGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCAGATAATTGA
* *
19287503 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
19287534 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 42 0.36
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCAGATAATTGA
Done.