Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 26 of 29
Found at i:4057018 original size:20 final size:19
Alignment explanation
Indices: 4056989--4057027 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
4056979 AGGTCAAAAC
4056989 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
4057008 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
4057028 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:4057055 original size:13 final size:13
Alignment explanation
Indices: 4057037--4057061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4057027 ATAATGCACA
4057037 GTATCGATACATT
1 GTATCGATACATT
4057050 GTATCGATACAT
1 GTATCGATACAT
4057062 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4060096 original size:32 final size:32
Alignment explanation
Indices: 4060052--4060120 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
4060042 CCCAAAAAGT
4060052 CCACATGAGTTGGTGGCAACCTCTTCTTAAGC
1 CCACATGAGTTGGTGGCAACCTCTTCTTAAGC
4060084 CCACAT-AGGTTGGTGGCAACCTCTTCTTAAGC
1 CCACATGA-GTTGGTGGCAACCTCTTCTTAAGC
4060116 CCACA
1 CCACA
4060121 CAAGCTGGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 1 0.03
32 35 0.97
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (32 bp):
CCACATGAGTTGGTGGCAACCTCTTCTTAAGC
Found at i:4060130 original size:32 final size:32
Alignment explanation
Indices: 4060062--4060133 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
4060052 CCACATGAGT
* * *
4060062 TGGTGGCAACCTCTTCTTAAGCCCACATAGGT
1 TGGTGGCAACCTCTTCTTAAGCCCACACAAGC
4060094 TGGTGGCAACCTCTTCTTAAGCCCACACAAGC
1 TGGTGGCAACCTCTTCTTAAGCCCACACAAGC
4060126 TGGTGGCA
1 TGGTGGCA
4060134 TCTTTTACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (32 bp):
TGGTGGCAACCTCTTCTTAAGCCCACACAAGC
Found at i:4060238 original size:33 final size:33
Alignment explanation
Indices: 4060059--4060246 Score: 156
Period size: 33 Copynumber: 5.8 Consensus size: 33
4060049 AGTCCACATG
* * *
4060059 AGTTGGTGGCAACCTCTTCTT--AAGCCCACATA
1 AGTTGGTGGCATCCT-TTTTTCAAAGCCCACACA
* * *
4060091 GGTTGGTGGCAACCTCTTCTT--AAGCCCACACA
1 AGTTGGTGGCATCCT-TTTTTCAAAGCCCACACA
* *
4060123 AGCTGGTGGCAT-C-TTTTACAAAGCCCACACA
1 AGTTGGTGGCATCCTTTTTTCAAAGCCCACACA
* *
4060154 AGTTGGTGACACCCTTTTTTCAAAGCCCACACA
1 AGTTGGTGGCATCCTTTTTTCAAAGCCCACACA
* * * *
4060187 AGTTAGTGGCATCTTTTTTTCCAAGCCCACATA
1 AGTTGGTGGCATCCTTTTTTCAAAGCCCACACA
**
4060220 AGTTGGTGGTGTCC-TTTTTCGAAAGCC
1 AGTTGGTGGCATCCTTTTTTC-AAAGCC
4060247 TACATGAGTC
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
29 3 0.02
31 21 0.16
32 46 0.36
33 59 0.46
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (33 bp):
AGTTGGTGGCATCCTTTTTTCAAAGCCCACACA
Found at i:4060420 original size:52 final size:51
Alignment explanation
Indices: 4060363--4060671 Score: 224
Period size: 52 Copynumber: 5.9 Consensus size: 51
4060353 CGTCTCTCTC
* * * *
4060363 TAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGAATTCTTATCATTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTATCATTTT
** * * * * * *
4060415 TAAGTCTGATATCGCTAGCCTTGAATTAGCATATTAGCACCTCTACCATTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TATCATTTT
* * * *
4060467 TAAGCCCAATGTCACTGGCTTTGAATCAGCACATTAGCACCATTATC-TTGTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTATCATT-TT
* * *
4060519 TAAGTCCAATGTCGCAGGCCTTGAATCAGCACATTGGCACCCTTATCATGTC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTATCATTTT
* * * * * * * * * * *
4060571 TAAGTCTAATGTCGCTAGCCTTAAATCACCATATCGGTATTCTTCTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTATCATTTT
* * * * * *
4060623 CAAGTCCAATGTCGTTGGCCTTGAATTAGCTCAATGGCACTCTTCTCAT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTATCAT
4060672 CCTTATCATC
Statistics
Matches: 196, Mismatches: 55, Indels: 12
0.75 0.21 0.05
Matches are distributed among these distances:
51 4 0.02
52 188 0.96
53 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (51 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTATCATTTT
Found at i:4060582 original size:104 final size:104
Alignment explanation
Indices: 4060361--4060598 Score: 250
Period size: 104 Copynumber: 2.3 Consensus size: 104
4060351 ACCGTCTCTC
* * **
4060361 TCTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGAATTCTTATCATTTTTAAGTCTGATA
1 TCTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGAATCCTTATCATTTTTAAGTCCAATA
* * *
4060426 TCGCTAGCCTTGAATTAGCATATTAGCACCTCTACCATT
66 TCGCTAGCCTTGAATCAGCACATTAGCACCTCTACCATG
* * * * *
4060465 TTTAAGCCCAATGTCACTGGCTTTGAATCAGCACATTAGCA-CCATTATC-TTGTTTAAGTCCAA
1 TCTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGAATCC-TTATCATT-TTTAAGTCCAA
* * *
4060528 TGTCGC-AGGCCTTGAATCAGCACATTGGCACC-CTTATCATG
64 TATCGCTA-GCCTTGAATCAGCACATTAGCACCTC-TACCATG
* * *
4060569 TCTAAGTCTAATGTCGCTAGCCTTAAATCA
1 TCTAAGTCTAATGTCACTGGCCTTGAATCA
4060599 CCATATCGGT
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
103 5 0.05
104 103 0.95
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (104 bp):
TCTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGAATCCTTATCATTTTTAAGTCCAATA
TCGCTAGCCTTGAATCAGCACATTAGCACCTCTACCATG
Found at i:4061392 original size:20 final size:21
Alignment explanation
Indices: 4061346--4061399 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
4061336 TTCTACAATT
*
4061346 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
* *
4061367 TGTATCGATACATA-AGTTAG
1 TGTATCGATACATATAGTAAA
4061387 TGTATCGATACAT
1 TGTATCGATACAT
4061400 GCCCGAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:4065735 original size:19 final size:19
Alignment explanation
Indices: 4065698--4065737 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4065688 GGGGCCACTC
*
4065698 TTTTTTTTATTGATGTTCA
1 TTTTTTTTATTGATATTCA
* *
4065717 TTTTTTTTCTTGCTATTCA
1 TTTTTTTTATTGATATTCA
4065736 TT
1 TT
4065738 CCCATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTTTTATTGATATTCA
Found at i:4074107 original size:221 final size:221
Alignment explanation
Indices: 4073724--4074136 Score: 772
Period size: 221 Copynumber: 1.9 Consensus size: 221
4073714 TACTAATGTC
**
4073724 ACCATATGGGAGTCATTATTTTTTCACAGCAAGGTTGAATTTTGACTGCTCAAGAAAGAATTTGA
1 ACCATATGGGAGTCATTATCCTTTCACAGCAAGGTTGAATTTTGACTGCTCAAGAAAGAATTTGA
* *
4073789 CTGTATCAGCTTCCAACACTTGCCGCGAGAAGAAAATCAAATAGCCGATGCATTGGCCACCTTGT
66 CTGCATCAGCTTCCAACACTTGCCGCGAGAAGAAAACCAAATAGCCGATGCATTGGCCACCTTGT
*
4073854 CATCCATGTTCAAAGTTAACTGAGAGTTAGATGTTGCTCCCATCCAAATGAGCATCTATGCATTG
131 CATCCATGTTCAAAGTTAACCGAGAGTTAGATGTTGCTCCCATCCAAATGAGCATCTATGCATTG
4073919 GATAATAGCCGATGCATGTTCAAATG
196 GATAATAGCCGATGCATGTTCAAATG
4073945 ACCATATGGGAGTCATTATCCTTTCACAGCAAGGTTGAATTTTGACTGCTCAAGAAAGAATTTGA
1 ACCATATGGGAGTCATTATCCTTTCACAGCAAGGTTGAATTTTGACTGCTCAAGAAAGAATTTGA
*
4074010 GTGCATCAGCTTCCAACACTTGCCGCGAGAAGAAAACCAAATAGCCGATGCATTGGCCACCTTGT
66 CTGCATCAGCTTCCAACACTTGCCGCGAGAAGAAAACCAAATAGCCGATGCATTGGCCACCTTGT
4074075 CATCCATGTTCAAAGTTAACCGAGAGTTAGATGTTGCTCCCATCCAAATGAGCATCTATGCA
131 CATCCATGTTCAAAGTTAACCGAGAGTTAGATGTTGCTCCCATCCAAATGAGCATCTATGCA
4074137 ACTCCGGTCC
Statistics
Matches: 186, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
221 186 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (221 bp):
ACCATATGGGAGTCATTATCCTTTCACAGCAAGGTTGAATTTTGACTGCTCAAGAAAGAATTTGA
CTGCATCAGCTTCCAACACTTGCCGCGAGAAGAAAACCAAATAGCCGATGCATTGGCCACCTTGT
CATCCATGTTCAAAGTTAACCGAGAGTTAGATGTTGCTCCCATCCAAATGAGCATCTATGCATTG
GATAATAGCCGATGCATGTTCAAATG
Found at i:4075470 original size:1 final size:1
Alignment explanation
Indices: 4075464--4075550 Score: 84
Period size: 1 Copynumber: 87.0 Consensus size: 1
4075454 CTTCATACCC
* * * * * * *
4075464 AAAAAAAAAGAAAAAAAATAAAAAAACAAAAAAAACAAAAAAACAAAAAAAACAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
4075529 AAAAATAACAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
4075551 GGGGTCCAGA
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.89, C:0.08, G:0.01, T:0.02
Consensus pattern (1 bp):
A
Found at i:4075479 original size:9 final size:9
Alignment explanation
Indices: 4075465--4075550 Score: 113
Period size: 9 Copynumber: 9.6 Consensus size: 9
4075455 TTCATACCCA
*
4075465 AAAAAAAAG
1 AAAAAAAAC
4075474 AAAAAAAA-
1 AAAAAAAAC
*
4075482 TAAAAAAAC
1 AAAAAAAAC
4075491 AAAAAAAAC
1 AAAAAAAAC
4075500 -AAAAAAAC
1 AAAAAAAAC
4075508 AAAAAAAAC
1 AAAAAAAAC
4075517 AAAAAAAAC
1 AAAAAAAAC
*
4075526 AAAAAAAATA
1 AAAAAAAA-C
4075536 ACAAAAAAAC
1 A-AAAAAAAC
4075546 AAAAA
1 AAAAA
4075551 GGGGTCCAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
8 15 0.22
9 45 0.65
10 2 0.03
11 7 0.10
ACGTcount: A:0.88, C:0.08, G:0.01, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:4075494 original size:26 final size:26
Alignment explanation
Indices: 4075465--4075550 Score: 122
Period size: 26 Copynumber: 3.3 Consensus size: 26
4075455 TTCATACCCA
*
4075465 AAAAAAAAGAAAAAAAATAAAAAAAC
1 AAAAAAAACAAAAAAAATAAAAAAAC
4075491 AAAAAAAACAAAAAAACA-AAAAAAAC
1 AAAAAAAACAAAAAAA-ATAAAAAAAC
4075517 AAAAAAAACAAAAAAAATAACAAAAA-
1 AAAAAAAACAAAAAAAATAA-AAAAAC
*
4075543 AACAAAAA
1 AAAAAAAA
4075551 GGGGTCCAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
25 1 0.02
26 48 0.87
27 6 0.11
ACGTcount: A:0.88, C:0.08, G:0.01, T:0.02
Consensus pattern (26 bp):
AAAAAAAACAAAAAAAATAAAAAAAC
Found at i:4075549 original size:17 final size:17
Alignment explanation
Indices: 4075466--4075550 Score: 116
Period size: 17 Copynumber: 4.8 Consensus size: 17
4075456 TCATACCCAA
* *
4075466 AAAAAAAGAAAAAAAAT
1 AAAAAAACAAAAAAAAC
4075483 AAAAAAACAAAAAAAAC
1 AAAAAAACAAAAAAAAC
4075500 AAAAAAACAAAAAAAAC
1 AAAAAAACAAAAAAAAC
4075517 AAAAAAAACAAAAAAAATAAC
1 -AAAAAAAC--AAAAAA-AAC
4075538 AAAAAAACAAAAA
1 AAAAAAACAAAAA
4075551 GGGGTCCAGA
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
17 32 0.52
18 13 0.21
20 14 0.23
21 3 0.05
ACGTcount: A:0.88, C:0.08, G:0.01, T:0.02
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAC
Found at i:4076779 original size:28 final size:28
Alignment explanation
Indices: 4076735--4077588 Score: 945
Period size: 28 Copynumber: 30.2 Consensus size: 28
4076725 ACGTTCATCT
* *
4076735 CTTT-AAAGCCCATAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
4076762 CTTTCAAAGTCCACAAGTCAGTGACATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
4076790 CTTTCAAAGCCCACAAGTCAGTGACATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
4076818 CTTTCAAAGCCCACAAGTCAGTGGCAAC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
4076846 CTTTTAAAGCCCACCAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
4076874 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
4076902 CTTTCAAAGCCCACGCAAGTCAGTGGCACC
1 CTTTCAAAGCCCA--CAAGTCAGTGGCACC
* * *
4076932 TTTTCAAAGCCTACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
4076960 CTTTCAAAGTCCACAAGTCAGTGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
4076988 CTTTTAAAGCCCACAAGTCAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * **
4077017 TTTTCAAAGCCCACAAGTTAGTGGCATT
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
4077045 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
4077073 CTTTCAAAGCCCATGCAAGTCAGTGGCACC
1 CTTTCAAAGCCCA--CAAGTCAGTGGCACC
*
4077103 CTTTCAAAGCCCACAAGTTAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* *
4077132 TTTTTAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
4077160 TTTTCAAAGCCCACAAGTTAGTAGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * * *
4077189 TTTTCAAAGCCCATAAGTTAGTGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
4077217 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
4077245 CTTTCAAAGCCCACGCAAGTTAATGGCACC
1 CTTTCAAAGCCCA--CAAGTCAGTGGCACC
* *
4077275 TTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
4077303 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
4077331 CTTTCAAAGCCAATAAGTCAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * * * *
4077360 TTTTCAAAGCCCACAAGTTACTGGTATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
4077388 CTTTTAAAGCCCATAAGTCAGTGGCA--
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
4077414 C---C---G-CCATAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
4077435 CTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
4077463 CTTTCAAAGTCCACAAGTCAGTGGCACTT
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * ** *
4077492 TTTTCAAAGCCCATAAACCAGTGGTAACTC
1 CTTTCAAAGCCCACAAGTCAGTGG-CAC-C
* *
4077522 TTTTCAAAGCCCACATGAGTCGGTGGCAACTC
1 CTTTCAAAGCCCACA--AGTCAGTGGC-AC-C
* *
4077554 TTTTCAAAGCGCACACAAGTTAGTGGCACC
1 CTTTCAAAGC-C-CACAAGTCAGTGGCACC
*
4077584 TTTTC
1 CTTTC
4077589 TTTAAAAAAA
Statistics
Matches: 710, Mismatches: 90, Indels: 51
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.02
20 1 0.00
21 1 0.00
24 1 0.00
26 1 0.00
27 5 0.01
28 435 0.61
29 114 0.16
30 101 0.14
31 2 0.00
32 28 0.04
33 1 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:4077031 original size:57 final size:57
Alignment explanation
Indices: 4076739--4077588 Score: 957
Period size: 57 Copynumber: 15.0 Consensus size: 57
4076729 TCATCTCTTT
* * * * *
4076739 AAAGCCCATAAGTTAGTGGCACCCTTTCAAAGTCCACAAGTCAGTGACA-TCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* *
4076795 AAAGCCCACAAGTCAGTGACATCCTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTTT-
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTC
* *
4076851 AAAGCCCACCAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* *
4076907 AAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCTACAAGTCAGTGGCACTC-TTTC
1 AAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
4076965 AAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* ** *
4077022 AAAGCCCACAAGTTAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* *
4077078 AAAGCCCATGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTT
1 AAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
4077137 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTAGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
4077194 AAAGCCCATAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * * * *
4077250 AAAGCCCACGCAAGTTAATGGCACCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTC
1 AAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* *
4077308 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCAATAAGTCAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * * * * *
4077365 AAAGCCCACAAGTTACTGGTATCCTTTTAAAGCCCATAAGTCAGTGGCA--C----C
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
4077416 ---G-CCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* ** * ** *
4077468 AAAGTCCACAAGTCAGTGGCACTTTTTTCAAAGCCCATAAACCAGTGGTAACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGG-CACTCTTTTC
* * *
4077527 AAAGCCCACATGAGTCGGTGGCAACTCTTTTCAAAGCGCACACAAGTTAGTGGCAC-CTTTTC
1 AAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGC-C-CACAAGTCAGTGGCACTCTTTTC
4077589 TTTAAAAAAA
Statistics
Matches: 681, Mismatches: 82, Indels: 56
0.83 0.10 0.07
Matches are distributed among these distances:
47 36 0.05
48 2 0.00
51 1 0.00
52 1 0.00
55 8 0.01
56 212 0.31
57 215 0.32
58 139 0.20
59 27 0.04
61 9 0.01
62 19 0.03
63 3 0.00
64 9 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
Found at i:4077422 original size:19 final size:19
Alignment explanation
Indices: 4077398--4077434 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4077388 CTTTTAAAGC
4077398 CCATAAGTCAGTGGCACCG
1 CCATAAGTCAGTGGCACCG
4077417 CCATAAGTCAGTGGCACC
1 CCATAAGTCAGTGGCACC
4077435 CTTTCAAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.16
Consensus pattern (19 bp):
CCATAAGTCAGTGGCACCG
Found at i:4077481 original size:75 final size:76
Alignment explanation
Indices: 4077343--4077489 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 76
4077333 TTCAAAGCCA
* * * * *
4077343 ATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTACTGGTATCCTTTTAAAGCCCATAAGTCA
1 ATAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTACTGGCACCCTTTCAAAGCCCACAAGTCA
4077408 GTGGCACCGCC
66 GTGGCACCGCC
* *
4077419 ATAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGTCCACAAGTCA
1 ATAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTACTGGCACCCTTTCAAAGCCCACAAGTCA
4077483 GTGGCAC
66 GTGGCAC
4077490 TTTTTTCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 49 0.77
76 15 0.23
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (76 bp):
ATAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTACTGGCACCCTTTCAAAGCCCACAAGTCA
GTGGCACCGCC
Found at i:4077501 original size:104 final size:104
Alignment explanation
Indices: 4077317--4077507 Score: 269
Period size: 104 Copynumber: 1.8 Consensus size: 104
4077307 CAAAGCCCAC
* * *
4077317 AAGTCAGTGGCACCCTTTCAAAGCCAATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTACT
1 AAGTCAGTGGCACCCTTTCAAAGCCAACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCACT
*
4077382 GGTATCCTTTTAAAGCCCATAAGTCAGTGGCACCGCCAT
66 GGCATCCTTTTAAAGCCCATAAGTCAGTGGCACCGCCAT
* * * *
4077421 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGTCCACAAGTCAGT
1 AAGTCAGTGGCACCCTTTCAAAGCCAACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCACT
*
4077485 GGCA-CTTTTTTCAAAGCCCATAA
66 GGCATC-CTTTT-AAAGCCCATAA
4077508 ACCAGTGGTA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
102 1 0.01
103 26 0.34
104 49 0.64
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (104 bp):
AAGTCAGTGGCACCCTTTCAAAGCCAACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCACT
GGCATCCTTTTAAAGCCCATAAGTCAGTGGCACCGCCAT
Found at i:4078489 original size:20 final size:20
Alignment explanation
Indices: 4078466--4078570 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
4078456 AAGTACCCAG
4078466 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
4078486 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
4078506 ATGTATCGATACATTCTGTCTTTTTTCCTA
1 ATGTATCGATACA--------TTTTT-C-A
4078536 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
4078557 ATGTATCGATACAT
1 ATGTATCGATACAT
4078571 CTAGTTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
20 44 0.65
21 1 0.01
22 1 0.01
23 5 0.07
28 3 0.04
30 1 0.01
31 13 0.19
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4081353 original size:13 final size:13
Alignment explanation
Indices: 4081335--4081391 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
4081325 CATAAAGTGT
4081335 TGTATCGATACAA
1 TGTATCGATACAA
4081348 TGTATCGATACATAA
1 TGTATCGATAC--AA
4081363 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
4081380 TGTATCGGTACA
1 TGTATCGATACA
4081392 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4081370 original size:32 final size:32
Alignment explanation
Indices: 4081315--4081412 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
4081305 TTCAACGATT
4081315 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
4081348 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
4081380 TGTATCGGTACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4081412 T
1 T
4081413 ATAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4081372 original size:19 final size:18
Alignment explanation
Indices: 4081313--4081410 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
4081303 ATTTCAACGA
4081313 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
4081332 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4081348 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4081364 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
4081380 --TGTATCGGTACATAAG
1 TTTGTATCGATACATAAG
4081396 TTTTGTATCGATACA
1 -TTTGTATCGATACA
4081411 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:4081450 original size:13 final size:13
Alignment explanation
Indices: 4081432--4081456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4081422 TGCCAAAAAA
4081432 TGTATCGATACAT
1 TGTATCGATACAT
4081445 TGTATCGATACA
1 TGTATCGATACA
4081457 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4081477 original size:33 final size:31
Alignment explanation
Indices: 4081315--4081476 Score: 137
Period size: 32 Copynumber: 5.0 Consensus size: 31
4081305 TTCAACGATT
*
4081315 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AA-TTTTGTATCGATACAA
*
4081348 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAA-TTTTGTATCGATACAA
*
4081380 TGTATCGGTACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAA-TTTTGTATCGATACAA
* * * * *** *
4081412 TATAAGCTACTGCCA-AAAAATGTATCGATACAT
1 TGT-ATCGA-T-ACATAATTTTGTATCGATACAA
4081445 TGTATCGATACACTAATCTTTGTATCGATACA
1 TGTATCGATACA-TAAT-TTTGTATCGATACA
4081477 TGCAGGCAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
30 2 0.02
31 1 0.01
32 56 0.53
33 41 0.39
34 3 0.03
35 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (31 bp):
TGTATCGATACATAATTTTGTATCGATACAA
Found at i:4082991 original size:20 final size:20
Alignment explanation
Indices: 4082946--4082997 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
4082936 GTAGCCAAAC
* **
4082946 TTGTATCGATACGCAAAGTA
1 TTGTATCGATACACAAAAAA
4082966 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
4082985 TTGTATCGATACA
1 TTGTATCGATACA
4082998 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:4083059 original size:18 final size:19
Alignment explanation
Indices: 4083030--4083067 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4083020 GGCTATATTT
4083030 TCAAATATGTATCGATACA
1 TCAAATATGTATCGATACA
4083049 TCAAA-ATGTATCGATACA
1 TCAAATATGTATCGATACA
4083067 T
1 T
4083068 TCACACGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (19 bp):
TCAAATATGTATCGATACA
Found at i:4085228 original size:21 final size:21
Alignment explanation
Indices: 4085195--4085244 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
4085185 TTGCAAGTTG
*
4085195 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4085217 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
4085238 AAATAAA
1 AAATAAA
4085245 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4087062 original size:15 final size:15
Alignment explanation
Indices: 4087042--4087072 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4087032 TAAAAATGTC
*
4087042 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4087057 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4087072 C
1 C
4087073 CAAAGGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4089174 original size:13 final size:13
Alignment explanation
Indices: 4089152--4089215 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
4089142 CATTTTTCGT
4089152 TGTATCGATACAA
1 TGTATCGATACAA
* *
4089165 TGTATTGATACAC
1 TGTATCGATACAA
4089178 TGTATCGATACAA
1 TGTATCGATACAA
*
4089191 TGTATCGATACAC
1 TGTATCGATACAA
4089204 TGTATCGATACA
1 TGTATCGATACA
4089216 GGGGGATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4089188 original size:26 final size:26
Alignment explanation
Indices: 4089152--4089215 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
4089142 CATTTTTCGT
*
4089152 TGTATCGATACAATGTATTGATACAC
1 TGTATCGATACAATGTATCGATACAC
4089178 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAATGTATCGATACAC
4089204 TGTATCGATACA
1 TGTATCGATACA
4089216 GGGGGATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (26 bp):
TGTATCGATACAATGTATCGATACAC
Found at i:4091796 original size:20 final size:20
Alignment explanation
Indices: 4091751--4091802 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4091741 GTAGCCAAAC
**
4091751 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
4091771 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
4091790 TTGTATCGATACA
1 TTGTATCGATACA
4091803 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:4098121 original size:20 final size:20
Alignment explanation
Indices: 4098096--4098133 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4098086 TATCGATATA
*
4098096 ATAAGTTAATGTATTGATAC
1 ATAAGTGAATGTATTGATAC
4098116 ATAAGTGAATGTATTGAT
1 ATAAGTGAATGTATTGAT
4098134 GCATGCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (20 bp):
ATAAGTGAATGTATTGATAC
Found at i:4101222 original size:18 final size:18
Alignment explanation
Indices: 4101199--4101237 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4101189 GGCGCATATG
4101199 AAATTAAAACTTTTATCA
1 AAATTAAAACTTTTATCA
4101217 AAATTAAAACTTTTATCA
1 AAATTAAAACTTTTATCA
4101235 AAA
1 AAA
4101238 CCTGGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATTAAAACTTTTATCA
Found at i:4104413 original size:13 final size:13
Alignment explanation
Indices: 4104395--4104420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4104385 CATGGCACAA
4104395 TGTATCGATACAT
1 TGTATCGATACAT
4104408 TGTATCGATACAT
1 TGTATCGATACAT
4104421 AATGAATTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4110313 original size:13 final size:13
Alignment explanation
Indices: 4110295--4110329 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
4110285 TTTATGAAAA
4110295 ACCTTGTTTAATG
1 ACCTTGTTTAATG
4110308 ACCTTGTTTAATG
1 ACCTTGTTTAATG
4110321 ACCTTGTTT
1 ACCTTGTTT
4110330 GCATAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (13 bp):
ACCTTGTTTAATG
Found at i:4110643 original size:13 final size:13
Alignment explanation
Indices: 4110625--4110690 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
4110615 ACAATATTCC
4110625 TTGTATCGATACA
1 TTGTATCGATACA
*
4110638 TTGTATCAATACA
1 TTGTATCGATACA
*
4110651 CTGTATCGATACA
1 TTGTATCGATACA
4110664 TTGTATCGATACA
1 TTGTATCGATACA
* * *
4110677 CTATATCAATACA
1 TTGTATCGATACA
4110690 T
1 T
4110691 AAGGTACTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4110656 original size:26 final size:26
Alignment explanation
Indices: 4110626--4110690 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
4110616 CAATATTCCT
4110626 TGTATCGATACATTGTATCAATACAC
1 TGTATCGATACATTGTATCAATACAC
*
4110652 TGTATCGATACATTGTATCGATACAC
1 TGTATCGATACATTGTATCAATACAC
* *
4110678 TATATCAATACAT
1 TGTATCGATACAT
4110691 AAGGTACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (26 bp):
TGTATCGATACATTGTATCAATACAC
Found at i:4113215 original size:13 final size:13
Alignment explanation
Indices: 4113197--4113223 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4113187 ACATTATGCT
4113197 TTGTATCGATACA
1 TTGTATCGATACA
4113210 TTGTATCGATACA
1 TTGTATCGATACA
4113223 T
1 T
4113224 GTTAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4113233 original size:19 final size:19
Alignment explanation
Indices: 4113209--4113264 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
4113199 GTATCGATAC
**
4113209 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
4113228 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
4113248 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
4113265 GATTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:4113252 original size:20 final size:20
Alignment explanation
Indices: 4113209--4113263 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4113199 GTATCGATAC
**
4113209 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
4113228 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
4113248 ATTGTATCGATACATG
1 ATTGTATCGATACATG
4113264 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:4118538 original size:3 final size:3
Alignment explanation
Indices: 4118530--4118564 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4118520 CTTACTTTTC
4118530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4118565 AGTAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4119381 original size:6 final size:6
Alignment explanation
Indices: 4119364--4119399 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
4119354 GTGAAAAGCC
*
4119364 ATGGCA AAGGCA ATGGCA ATGGCA ATGGCA ATGGCA
1 ATGGCA ATGGCA ATGGCA ATGGCA ATGGCA ATGGCA
4119400 CTGGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.33, T:0.14
Consensus pattern (6 bp):
ATGGCA
Found at i:4120345 original size:18 final size:19
Alignment explanation
Indices: 4120310--4120349 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
4120300 TTAATTAATA
4120310 AATTTATATAAAAATAAAT
1 AATTTATATAAAAATAAAT
* *
4120329 AATTT-TATAATATTAAAT
1 AATTTATATAAAAATAAAT
4120347 AAT
1 AAT
4120350 AAAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTATATAAAAATAAAT
Found at i:4120574 original size:27 final size:27
Alignment explanation
Indices: 4120528--4120588 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
4120518 ATATGAAAAA
*
4120528 ATTTTAAAAAAAACTTCCAA-ACTTTTTT
1 ATTTT-AAAAAAACTACCAATA-TTTTTT
4120556 ATTTTAAAAAAACTACCAATATTTTTT
1 ATTTTAAAAAAACTACCAATATTTTTT
*
4120583 AATTTA
1 ATTTTA
4120589 TTATTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTTAAAAAAACTACCAATATTTTTT
Found at i:4120581 original size:28 final size:28
Alignment explanation
Indices: 4120527--4120587 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
4120517 TATATGAAAA
*
4120527 AATTTTAAAAAAAACTTCCAAACTTTTT
1 AATTTTAAAAAAAACTACCAAACTTTTT
* *
4120555 TATTTT-AAAAAAACTACCAATATTTTTT
1 AATTTTAAAAAAAACTACCAA-ACTTTTT
4120583 AATTT
1 AATTT
4120588 ATTATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTTTAAAAAAAACTACCAAACTTTTT
Found at i:4121631 original size:24 final size:22
Alignment explanation
Indices: 4121590--4121640 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
4121580 TGCATTATTT
*
4121590 TTAAAAATATTTATTAAATATATA
1 TTAAAAATATATATTAAAT-TA-A
4121614 TTAAAAAT-TATATATAAATTAA
1 TTAAAAATATATAT-TAAATTAA
4121636 TTAAA
1 TTAAA
4121641 TAAAAGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 13 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAATATATATTAAATTAA
Found at i:4122732 original size:11 final size:12
Alignment explanation
Indices: 4122716--4122745 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
4122706 TATAGGAAAG
4122716 TTTGAATTTAC-
1 TTTGAATTTACT
4122727 TTTGAATTTACT
1 TTTGAATTTACT
4122739 TTTGAAT
1 TTTGAAT
4122746 GTAAAGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (12 bp):
TTTGAATTTACT
Found at i:4125544 original size:20 final size:20
Alignment explanation
Indices: 4125519--4125575 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
4125509 ATACAAATAG
*
4125519 TGAATGTATTAATACATAAA
1 TGAATGTATCAATACATAAA
* *
4125539 TGAATGTATCATTACATATA
1 TGAATGTATCAATACATAAA
*
4125559 TGAAATGTATCGATACA
1 TG-AATGTATCAATACA
4125576 AAACCATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (20 bp):
TGAATGTATCAATACATAAA
Found at i:4125575 original size:21 final size:20
Alignment explanation
Indices: 4125503--4125575 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
4125493 TCTATAATTA
*
4125503 GTATCGATACAAATAGTGAAT
1 GTATCGATACATATA-TGAAT
** *
4125524 GTATTAATACATAAATGAAT
1 GTATCGATACATATATGAAT
4125544 GTATC-ATTACATATATGAAAT
1 GTATCGA-TACATATATG-AAT
4125565 GTATCGATACA
1 GTATCGATACA
4125576 AAACCATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.42
21 23 0.53
22 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (20 bp):
GTATCGATACATATATGAAT
Found at i:4125698 original size:51 final size:52
Alignment explanation
Indices: 4125612--4125749 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 52
4125602 TTTGGAAAAA
4125612 AAATGTATCGATACATTTTTTCATTGTATCGATACATTCT-GG-GTTTTAGCCT
1 AAATGTATCGATACA-TTTTTCATTGTATCGATACATTCTAGGTGTTTTA-CCT
* * *
4125664 AAATGTATCGATATATTTTTCATTGTATTGATACATTCTAGGTTTTTTACCT
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTGTTTTACCT
* * * *
4125716 AAATTTATCGATACATTCTTCAATGTATCAATAC
1 AAATGTATCGATACATTTTTCATTGTATCGATAC
4125750 CGATAGGCTA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 23 0.31
52 47 0.63
53 5 0.07
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTGTTTTACCT
Found at i:4129983 original size:20 final size:20
Alignment explanation
Indices: 4129955--4130025 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
4129945 TTTTACCCAG
4129955 ATGTATCGATATATTTTTCA
1 ATGTATCGATATATTTTTCA
* * * * *
4129975 ATATATCGATACATGTATGA
1 ATGTATCGATATATTTTTCA
*
4129995 ATGTATCGATATATTCTTCA
1 ATGTATCGATATATTTTTCA
4130015 ATGTATCGATA
1 ATGTATCGATA
4130026 CATTATGTCT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATATATTTTTCA
Found at i:4130015 original size:40 final size:39
Alignment explanation
Indices: 4129955--4130032 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
4129945 TTTTACCCAG
*
4129955 ATGTATCGATATATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATATATTCTTCAATATATCGATACAT-TATGA
*
4129995 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATATATTCTTCAATATATCGATACATTATG
4130033 TCTTTTTACC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATATATTCTTCAATATATCGATACATTATGA
Found at i:4134301 original size:20 final size:20
Alignment explanation
Indices: 4134276--4134318 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4134266 GAAGGGCCAT
*
4134276 TTTTTTTTTATTGATGTTCA
1 TTTTTTTTTATTGATATTCA
* *
4134296 TTTTTTTTTCTTGCTATTCA
1 TTTTTTTTTATTGATATTCA
4134316 TTT
1 TTT
4134319 CCATTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.09, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTATTGATATTCA
Found at i:4141760 original size:15 final size:16
Alignment explanation
Indices: 4141740--4141769 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4141730 TTTGTCAAAC
4141740 CCGCCAGTG-TTGGTA
1 CCGCCAGTGCTTGGTA
4141755 CCGCCAGTGCTTGGT
1 CCGCCAGTGCTTGGT
4141770 CGTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.30, G:0.33, T:0.27
Consensus pattern (16 bp):
CCGCCAGTGCTTGGTA
Found at i:4144014 original size:10 final size:10
Alignment explanation
Indices: 4143999--4144038 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
4143989 CCTTTACACC
4143999 CCAAAAAAAA
1 CCAAAAAAAA
4144009 CCAAAAAAAA
1 CCAAAAAAAA
4144019 -CAAAAAAAA
1 CCAAAAAAAA
4144028 CCAAGAAAAAA
1 CCAA-AAAAAA
4144039 TAGCAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.32
10 13 0.46
11 6 0.21
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (10 bp):
CCAAAAAAAA
Found at i:4144024 original size:19 final size:20
Alignment explanation
Indices: 4144000--4144038 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4143990 CTTTACACCC
4144000 CAAAAAAAACCAA-AAAAAA
1 CAAAAAAAACCAAGAAAAAA
4144019 CAAAAAAAACCAAGAAAAAA
1 CAAAAAAAACCAAGAAAAAA
4144039 TAGCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (20 bp):
CAAAAAAAACCAAGAAAAAA
Found at i:4145300 original size:29 final size:29
Alignment explanation
Indices: 4145260--4146052 Score: 999
Period size: 28 Copynumber: 27.5 Consensus size: 29
4145250 TGTTCATCCC
* *
4145260 TTTCAAAGCCCACAATTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
4145289 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
4145317 TTTCAAAGCCCATAATTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
4145346 TTTCAAAGCCCACAATTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
4145374 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
4145403 TTTCAAAGCCCACAAGTTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
4145431 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
4145459 TTTCAAAGCCCACGTAAG-CAGTGGCAC-CC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
*
4145488 TTTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
4145517 TTTCAAAGCCCATAAATCCGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
4145546 TTTCAAAGCCCACACGAATCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
4145578 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * * *
4145607 TTTCAAAGCCCATAAGTTACTAGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
4145635 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
4145663 TTTCAAAGCTCACAACTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
4145691 TTTCAAAGCCCATGCAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
4145721 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
4145750 TTTCAAAGCCCACAAGTCAGCGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
4145778 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
4145807 TTTCAAAGCCCACAAGTTAGTGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
4145835 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
4145863 TTTCAAAGCCCACGTAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
4145893 TTTCAAAGCCCACAAGTTC-GTGGCACTCT
1 TTTCAAAGCCCACAAG-TCAGTGGCACTCT
4145922 TTTCAAAGCCCACAAGTCAGTGGCACT-T
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
4145950 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
4145978 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * *
4146007 TTTCAATGCTCACACGAGTTAGTGGCAACTAT
1 TTTCAAAGC-C-CACAAGTCAGTGGC-ACTCT
4146039 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
4146053 TAAGTTATTG
Statistics
Matches: 676, Mismatches: 61, Indels: 53
0.86 0.08 0.07
Matches are distributed among these distances:
27 3 0.00
28 301 0.45
29 250 0.37
30 69 0.10
31 22 0.03
32 31 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:4145345 original size:57 final size:57
Alignment explanation
Indices: 4145257--4146052 Score: 1003
Period size: 57 Copynumber: 13.8 Consensus size: 57
4145247 GAATGTTCAT
* *
4145257 CCCTTTCAAAGCCCACAATTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
4145314 CCCTTTCAAAGCCCATAATTCAATGGCACTCTTTTCAAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
4145371 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
4145428 TCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACGTAAG-CAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGCA
* * * *
4145485 CCCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCATAAATCCGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
4145542 CTCTTTTCAAAGCCCACACGAATCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
4145603 CTCTTTTCAAAGCCCATAAGTTACTAGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
4145660 TCTTTTCAAAGCTCACAACTCAGTGGCAC-CCTTTCAAAGCCCATGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
4145718 CCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGCGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
4145775 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
4145832 TCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACGTAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGCA
4145890 CCCTTTCAAAGCCCACAAGTTC-GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAG-TCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
** * *
4145947 CTTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
4146003 CTCTTTTCAATGCTCACACGAGTTAGTGGCAACTATTTTCAAAGCCCACA
1 C-CCTTTCAAAGC-C-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACA
4146053 TAAGTTATTG
Statistics
Matches: 652, Mismatches: 66, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
56 94 0.14
57 336 0.52
58 108 0.17
59 47 0.07
60 10 0.02
61 57 0.09
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (57 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:4146656 original size:20 final size:20
Alignment explanation
Indices: 4146628--4146702 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
4146618 TTTTACCCAG
4146628 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4146648 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
4146668 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
4146688 ATGTATCGATACATT
1 ATGTATCGATACATT
4146703 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4146688 original size:40 final size:39
Alignment explanation
Indices: 4146628--4146705 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
4146618 TTTTACCCAG
*
4146628 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
4146668 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
4146706 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:4152086 original size:80 final size:79
Alignment explanation
Indices: 4151940--4152337 Score: 281
Period size: 80 Copynumber: 5.0 Consensus size: 79
4151930 TTTTCTAAAT
* * *
4151940 TTTTCCTTCCAAAAGCATCAAATTTTT--CATC-GAGGATACTCCAACCCCATCATTTCCGAGGG
1 TTTTACTTCCAAAA-TATCAAATTTTTACCATCAG-GGATACTCCAACCCCATCATTTCCGAGGA
4152002 GATACTCCAA-CCTCGC
64 GATACTCCAACCCT-GC
**
4152018 TTTTACTTCCAAAATATCAAAATTTTTACCATCAGGGATACTCCAACCCCATCATTTTTGAGGAG
1 TTTTACTTCCAAAATATC-AAATTTTTACCATCAGGGATACTCCAACCCCATCATTTCCGAGGAG
4152083 ATACTCCAACCCTGC
65 ATACTCCAACCCTGC
* * * * * * *** * *
4152098 TTTCACTTCCAAAATATCGATTTTTTCACTATTAGGAATACTCCAACCCTGCCATCTCCAAAGG-
1 TTTTACTTCCAAAATATCAAATTTTT-ACCATCAGGGATACTCCAACCCCATCATTTCC-GAGGA
*
4152162 GATACTCCAACCCCG-
64 GATACTCCAACCCTGC
* * * * * * ** * *
4152177 TTTTCGCTTCTAAAAACATTGAAATTTTCACTATTGGGGATATTCCAACCCCATC-TTCTCCAAG
1 TTTT-ACTTC-CAAAATA-TCAAATTTTTACCATCAGGGATACTCCAACCCCATCATT-TCCGAG
* ** *
4152241 GGGATACTTTAACCCCG-
62 GAGATACTCCAACCCTGC
* * * * *
4152258 TTTTCACTTCCAAAATATTGAATTTTTTTCACCATCAGGAATACTCCAATCCCATCGTTTCCGAG
1 TTTT-ACTTCCAAAATA-TCAA-ATTTTT-ACCATCAGGGATACTCCAACCCCATCATTTCCGAG
*
4152323 GGGATACTCCAACCC
62 GAGATACTCCAACCC
4152338 ATTTTTATTT
Statistics
Matches: 255, Mismatches: 50, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
77 3 0.01
78 21 0.08
79 9 0.04
80 115 0.45
81 61 0.24
82 44 0.17
83 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (79 bp):
TTTTACTTCCAAAATATCAAATTTTTACCATCAGGGATACTCCAACCCCATCATTTCCGAGGAGA
TACTCCAACCCTGC
Found at i:4157253 original size:49 final size:48
Alignment explanation
Indices: 4157184--4157928 Score: 741
Period size: 49 Copynumber: 15.9 Consensus size: 48
4157174 TTTTAAAAAT
* * * *
4157184 GATGAAGGCGCCAACATGCTGAGTCAAGGCCAATGATATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCACT-ATATTGGACTTAAA
* * *
4157233 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
*
4157282 GATAAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCC-ACTATATTGGACTTAAA
* * * * *
4157331 GGTG-AGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGATTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
*
4157379 GATGAAGGTACCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* * *
4157428 GGTG-AGGTGCC-A-ATGCTGATTCAAGGCCAGCAATATTGGGC-T---
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* *
4157470 --TGAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGG-CTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCC-ACTATATTGGACTTAAA
*
4157516 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* * *
4157565 GGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T---
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* *
4157610 --TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT---
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* * *
4157654 G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* * *
4157700 GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T---
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* *
4157745 --TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* *
4157792 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* *
4157838 -A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAA
* * *
4157884 GATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACT
4157929 AAAAAGAAGA
Statistics
Matches: 601, Mismatches: 59, Indels: 72
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.00
41 7 0.01
42 2 0.00
43 177 0.29
44 4 0.01
45 2 0.00
46 28 0.05
47 4 0.01
48 85 0.14
49 288 0.48
50 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
GATGAAGGTGCCAATATGCTGATTCAAGGCCACTATATTGGACTTAAA
Found at i:4157649 original size:92 final size:90
Alignment explanation
Indices: 4157237--4157928 Score: 685
Period size: 92 Copynumber: 7.5 Consensus size: 90
4157227 CTTAAAGATG
* * * * * *
4157237 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----ATGAAGGTGCCAATGTGCT
* *
4157302 GATTCAAGGCCAACTATATTGGACTTA-A
62 GATTCAAGGCCAGCTACATTGGACTTAGA
* * * * * * *
4157330 AGGTGAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGATTTAAAGATGAAGGTACCAATA
1 A----AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----ATGAAGGTGCCAATG
*
4157395 TGCTGATTCAAGGCCAGCTATATTGGACTTA-A
58 TGCTGATTCAAGGCCAGCTACATTGGACTTAGA
* *
4157427 AGGTGAGGTGCC-A-ATGCTGATTCAAGGCCAGCAATATTGGGC-T-TGAAGGTGCCAATGTGCT
1 A----AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGAAGGTGCCAATGTGCT
*
4157488 GATTCAAGGCCAACTACATTGG-CTTAAAGA
62 GATTCAAGGCCAGCTACATTGGACTT--AGA
*
4157518 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATATG
1 --AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A--TGAAGGTGCCAATGTG
* * *
4157583 CTGATTCAAGGCCAGCGATATTGGGCTT-G-
60 CTGATTCAAGGCCAGCTACATTGGACTTAGA
* * * *
4157612 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-TGGAGGTGCCAATGTGCTGATT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGAAGGTGCCAATGTGCTGATT
*
4157675 CAAGGCCAGCTACATTGAACTTAAAGAA
66 CAAGGCCAGCTACATTGGACTT--AG-A
*
4157703 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-TGAAGGTGCCAATGTGCTGAT
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGAAGGTGCCAATGTGCTGAT
4157766 TCAAGGCCAGCTACATTGGACTTAAAGATA
65 TCAAGGCCAGCTACATTGGACTT--AG--A
4157796 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA--AAGGTGCCAATGTGCTGATT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGAAGGTGCCAATGTGCTGATT
4157859 CAAGGCCAGCTACATTGGACTTAAAGATA
66 CAAGGCCAGCTACATTGGACTT--AG--A
*
4157888 AAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
4157929 AAAAAGAAGA
Statistics
Matches: 532, Mismatches: 40, Indels: 55
0.85 0.06 0.09
Matches are distributed among these distances:
86 38 0.07
88 3 0.01
89 44 0.08
90 2 0.00
91 29 0.05
92 249 0.47
93 4 0.01
94 1 0.00
95 24 0.05
96 1 0.00
97 134 0.25
98 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (90 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATGAAGGTGCCAATGTGCTGATT
CAAGGCCAGCTACATTGGACTTAGA
Found at i:4158016 original size:32 final size:32
Alignment explanation
Indices: 4157939--4158065 Score: 148
Period size: 33 Copynumber: 3.9 Consensus size: 32
4157929 AAAAAGAAGA
*
4157939 TGCCACCAACTTGTGTGGCCTTTTGAAAAAGG-T
1 TGCCACCAACTTGTGTGGGC-TTTG-AAAAGGAT
* * **
4157972 TGCCACCGACTTGTGTGGGCTTTGGAGGGGAT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGAT
*
4158004 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
1 TGCCACCAACTTGTGTGGGCTTT-GAAAAGGAT
* *
4158037 TGCCACCGACTTGTTTGGGCTTTGAAAAG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAG
4158066 AAAAAGGCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
31 3 0.04
32 32 0.41
33 44 0.56
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGGAT
Found at i:4158043 original size:65 final size:65
Alignment explanation
Indices: 4157939--4158060 Score: 208
Period size: 65 Copynumber: 1.9 Consensus size: 65
4157929 AAAAAGAAGA
* *
4157939 TGCCACCAACTTGTGTGGCCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGAT
1 TGCCACCAACTTGTGTGGCCTTTAGAAAAAGATTGCCACCGACTTGTGTGGGCTTTGGAGGGGAT
* *
4158004 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGATTGCCACCGACTTGTTTGGGCTTTG
1 TGCCACCAACTTGTGTGGCCTTTAGAAAAAGATTGCCACCGACTTGTGTGGGCTTTG
4158061 AAAAGAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (65 bp):
TGCCACCAACTTGTGTGGCCTTTAGAAAAAGATTGCCACCGACTTGTGTGGGCTTTGGAGGGGAT
Found at i:4158137 original size:27 final size:27
Alignment explanation
Indices: 4158099--4158330 Score: 187
Period size: 27 Copynumber: 7.9 Consensus size: 27
4158089 ACTTAGAAGG
* *
4158099 AAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
4158126 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
4158153 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAGGGTGCCACGGAGTTGTGGGCTT
*
4158187 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
4158214 AGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
1 -------AAAAGGGTGCCACGGAGTTGTGGGCTT
*
4158248 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
4158275 AGAAGGAAAAATAGTGCCACGGAGTTGTGGGCTT
1 AAAAGG-------GTGCCACGGAGTTGTGGGCTT
4158309 AAAAGGGTGCCACGGAG-TGTGG
1 AAAAGGGTGCCACGGAGTTGTGG
4158331 ACTTTGAGAC
Statistics
Matches: 168, Mismatches: 16, Indels: 43
0.74 0.07 0.19
Matches are distributed among these distances:
26 5 0.03
27 89 0.53
34 74 0.44
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTT
Found at i:4158170 original size:34 final size:34
Alignment explanation
Indices: 4158126--4158314 Score: 199
Period size: 34 Copynumber: 6.0 Consensus size: 34
4158116 TTGTGGGCTT
*
4158126 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
4158160 AAAAGAGTGCCACGGAGTTGTGGGCTT-------
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
4158187 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
4158221 AAAAGAGTGCCACGAAGTTGTGGGCTT-------
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
4158248 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
4158282 AAAATAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGG
4158315 GTGCCACGGA
Statistics
Matches: 127, Mismatches: 14, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
27 49 0.39
34 78 0.61
ACGTcount: A:0.31, C:0.13, G:0.37, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:4158374 original size:61 final size:61
Alignment explanation
Indices: 4158079--4158334 Score: 471
Period size: 61 Copynumber: 4.2 Consensus size: 61
4158069 AAGGCATAAT
*
4158079 GGAGTTGTGGACTTAGAAGG-AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
4158139 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
*
4158200 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
*
4158261 GGAGTTGTGGACTTAGAAGGAAAAATAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
4158322 GGAG-TGTGGACTT
1 GGAGTTGTGGACTT
4158335 TGAGACAAAA
Statistics
Matches: 191, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
60 29 0.15
61 162 0.85
ACGTcount: A:0.29, C:0.13, G:0.37, T:0.21
Consensus pattern (61 bp):
GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
Found at i:4158398 original size:62 final size:61
Alignment explanation
Indices: 4158323--4158458 Score: 220
Period size: 62 Copynumber: 2.2 Consensus size: 61
4158313 GGGTGCCACG
*
4158323 GAGT-GTGGACTTTGAGACAAAATGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCATT
1 GAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTT-AAGAAAAGATTGCCATT
* * *
4158384 GAGTCGTGGACTTTGAGATAAAATGCCATTGAGTCGTGGACTTTAAGAAGAGATTGCCATT
1 GAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTAAGAAAAGATTGCCATT
4158445 GAGTCGTGGACTTT
1 GAGTCGTGGACTTT
4158459 AAAAAGGTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 34 0.49
62 36 0.51
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (61 bp):
GAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTAAGAAAAGATTGCCATT
Found at i:4158413 original size:30 final size:29
Alignment explanation
Indices: 4158323--4158458 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 29
4158313 GGGTGCCACG
*
4158323 GAGT-GTGGACTTTGAGACAAAATGCCACT
1 GAGTCGTGGACTTTGAGA-AAAATGCCATT
*
4158352 GAGTCGTGGGCTTTGAAGAAAAGATTGCCATT
1 GAGTCGTGGACTTTG-AGAAAA-A-TGCCATT
4158384 GAGTCGTGGACTTTGAGATAAAATGCCATT
1 GAGTCGTGGACTTTGAGA-AAAATGCCATT
* *
4158414 GAGTCGTGGACTTTAAGAAGAGATTGCCATT
1 GAGTCGTGGACTTTGAGAA-A-AATGCCATT
4158445 GAGTCGTGGACTTT
1 GAGTCGTGGACTTT
4158459 AAAAAGGTAT
Statistics
Matches: 95, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
29 5 0.05
30 37 0.39
31 30 0.32
32 23 0.24
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
GAGTCGTGGACTTTGAGAAAAATGCCATT
Found at i:4166813 original size:51 final size:52
Alignment explanation
Indices: 4166688--4166815 Score: 186
Period size: 52 Copynumber: 2.5 Consensus size: 52
4166678 CGAAATATGA
* *
4166688 AAATTTGCCTGCATGTATCGATTCGTTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
4166740 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACAT-TTGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
4166791 AATTTTGCTTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4166816 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
51 26 0.38
52 42 0.62
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:4166826 original size:51 final size:52
Alignment explanation
Indices: 4166688--4166835 Score: 165
Period size: 52 Copynumber: 2.9 Consensus size: 52
4166678 CGAAATATGA
* * ***
4166688 AAATTTGCCTGCATGTATCGATTCGTTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
* *** *
4166740 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACAT-TTGGC
1 AAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
* *
4166791 AATTTTGCTTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
4166836 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.02
51 40 0.48
52 42 0.50
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
Found at i:4166842 original size:13 final size:13
Alignment explanation
Indices: 4166824--4166848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4166814 CAAAGATCAG
4166824 TGTATCGATACAA
1 TGTATCGATACAA
4166837 TGTATCGATACA
1 TGTATCGATACA
4166849 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4166914 original size:19 final size:18
Alignment explanation
Indices: 4166890--4166952 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
4166880 AGTAGCTTCA
4166890 TATGTATCGATAAAACACT
1 TATGTATCGAT-AAACACT
4166909 TATGTATCGAT--ACA--
1 TATGTATCGATAAACACT
4166923 T-TGTATCGATAGAACACT
1 TATGTATCGATA-AACACT
4166941 TATGTATCGATA
1 TATGTATCGATA
4166953 CAAATTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (18 bp):
TATGTATCGATAAACACT
Found at i:4166933 original size:32 final size:32
Alignment explanation
Indices: 4166892--4166954 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4166882 TAGCTTCATA
4166892 TGTATCGATAAAACACTTATGTATCGATACAT
1 TGTATCGATAAAACACTTATGTATCGATACAT
*
4166924 TGTATCGATAGAACACTTATGTATCGATACA
1 TGTATCGATAAAACACTTATGTATCGATACA
4166955 AATTGTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATAAAACACTTATGTATCGATACAT
Found at i:4170939 original size:51 final size:52
Alignment explanation
Indices: 4170807--4170947 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
4170797 AAAATTGCCT
* * * *
4170807 AAATCTATCGATACATTGAAGAATATATCGATAAATTTAGGTCAAAAGCCCA
1 AAATGTATCGATACAATGAAAAATATATCGATACATTTAGGTCAAAAGCCCA
* * *
4170859 AAATGTATCGATACAAT-AAATAATGTATCGATACATTTGGGTTAAAA-CCCA
1 AAATGTATCGATACAATGAAA-AATATATCGATACATTTAGGTCAAAAGCCCA
* *
4170910 GAATGTATCGATATAATGAAAAATATATCGATACATTT
1 AAATGTATCGATACAATGAAAAATATATCGATACATTT
4170948 TCTTTTTAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 37 0.48
52 40 0.52
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (52 bp):
AAATGTATCGATACAATGAAAAATATATCGATACATTTAGGTCAAAAGCCCA
Found at i:4171010 original size:21 final size:21
Alignment explanation
Indices: 4170986--4171038 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
4170976 CATAGTCCTA
4170986 TATCGATACATTTCAAATATG
1 TATCGATACATTTCAAATATG
**
4171007 TATCGATACA-TTCACTTATG
1 TATCGATACATTTCAAATATG
*
4171027 TATCAATACATT
1 TATCGATACATT
4171039 CACTTATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (21 bp):
TATCGATACATTTCAAATATG
Found at i:4171051 original size:21 final size:20
Alignment explanation
Indices: 4171003--4171057 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
4170993 ACATTTCAAA
*
4171003 TATGTATCGATACATTCACT
1 TATGTATCAATACATTCACT
4171023 TATGTATCAATACATTCACT
1 TATGTATCAATACATTCACT
4171043 TATTGTATCAATACA
1 TA-TGTATCAATACA
4171058 AATTATAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (20 bp):
TATGTATCAATACATTCACT
Found at i:4172122 original size:19 final size:20
Alignment explanation
Indices: 4172098--4172152 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
4172088 GTATCGATAG
**
4172098 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGGACA
*
4172117 ATTGTATCGACACATGGACA
1 ATTGTATCGATACATGGACA
4172137 ATTGTATCGATACATG
1 ATTGTATCGATACATG
4172153 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:4180025 original size:13 final size:13
Alignment explanation
Indices: 4180007--4180031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4179997 CAAAGATCAG
4180007 TGTATCGATACAA
1 TGTATCGATACAA
4180020 TGTATCGATACA
1 TGTATCGATACA
4180032 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4180112 original size:13 final size:13
Alignment explanation
Indices: 4180094--4180118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4180084 CAAAAAAAAA
4180094 TGTATCGATACAT
1 TGTATCGATACAT
4180107 TGTATCGATACA
1 TGTATCGATACA
4180119 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4181082 original size:52 final size:52
Alignment explanation
Indices: 4180950--4181161 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 52
4180940 GAAAAGTGAT
* * * * * * * *
4180950 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
4181004 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
4181057 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
4181100 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
4181152 AAAGGTGCCA
1 AAAGGTGCCA
4181162 CCGACTTGTG
Statistics
Matches: 130, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.32
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:4181118 original size:43 final size:43
Alignment explanation
Indices: 4181057--4181146 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
4181047 TAAAGATGGA
*
4181057 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4181100 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
4181143 AAAG
1 AAAG
4181147 ATGGAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:4181191 original size:30 final size:29
Alignment explanation
Indices: 4181150--4181409 Score: 269
Period size: 30 Copynumber: 9.0 Consensus size: 29
4181140 CTTAAAGATG
* *
4181150 GAAAA-GGTGCCACCGACTTGTGGGCTTCG
1 GAAAAGGGTGCCACTGACTTGTGGGCTT-T
*
4181179 GAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
* *
4181208 G--AAGGTTGCCATTGACTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
* *
4181235 -TAAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGC-TTT
***
4181264 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGC-TTT
*
4181294 GAAAAGGGTGCCACTAACTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
* *
4181323 -TAAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGC-TTT
***
4181352 GAAAAAAATGCCACTGACTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
*** *
4181381 GAAAAAAATGCCACTGACTTGTGGACTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
4181410 TGAAGGGTGA
Statistics
Matches: 201, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
27 23 0.11
28 44 0.22
29 46 0.23
30 88 0.44
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (29 bp):
GAAAAGGGTGCCACTGACTTGTGGGCTTT
Found at i:4181334 original size:58 final size:58
Alignment explanation
Indices: 4181152--4181413 Score: 307
Period size: 58 Copynumber: 4.5 Consensus size: 58
4181142 TAAAGATGGA
* ** *
4181152 AAAGG-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTT
* * *
4181208 GAAGGTTGCCATTGACTTGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTT
** *
4181264 GAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 -AAAGGT-TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTT
*** *
4181324 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTT-T
*** *
4181383 AAAAAATGCCACTGACTTGTGGACTTTTGAA
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAA
4181414 GGGTGATGAA
Statistics
Matches: 175, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
55 22 0.13
56 7 0.04
57 21 0.12
58 68 0.39
59 31 0.18
60 26 0.15
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (58 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTT
Found at i:4181342 original size:88 final size:87
Alignment explanation
Indices: 4181152--4181415 Score: 354
Period size: 88 Copynumber: 3.1 Consensus size: 87
4181142 TAAAGATGGA
* ** *** * *
4181152 AAAGG-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTG--AAGGT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAGGA
*
4181214 TGCCATTGACTTGTGGGCTTTT
66 TGCCACTGACTTGTGGGCTTTT
*
4181236 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGC-TTTGAAAAGG
* *
4181301 GTGCCACTAACTTGTGGGCTTTT
65 ATGCCACTGACTTGTGGGCTTTT
**
4181324 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAAAA
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAGGA
*
4181389 TGCCACTGACTTGTGGACTTTT
66 TGCCACTGACTTGTGGGCTTTT
*
4181411 GAAGG
1 AAAGG
4181416 GTGATGAATG
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
84 5 0.03
85 41 0.26
86 4 0.03
87 32 0.20
88 77 0.48
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (87 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAGGA
TGCCACTGACTTGTGGGCTTTT
Found at i:4182853 original size:1 final size:1
Alignment explanation
Indices: 4182849--4182956 Score: 63
Period size: 1 Copynumber: 108.0 Consensus size: 1
4182839 CCGGACCCCC
* * * * ** ** **
4182849 TTTTTTTTGTTTGTTTTTTTATTGTTTTTTTTTTTTTTTTTTTTTTGGTTTTTCATTTTTTCGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** ** *
4182914 TTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4182957 GGAGGACGCT
Statistics
Matches: 81, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (1 bp):
T
Found at i:4182877 original size:24 final size:24
Alignment explanation
Indices: 4182849--4182918 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
4182839 CCGGACCCCC
4182849 TTTTTTTTGTTTGTTTTTTTATT-G
1 TTTTTTTT-TTTGTTTTTTTATTGG
* *
4182873 TTTTTTTTTTTTTTTTTTTTTTGG
1 TTTTTTTTTTTGTTTTTTTATTGG
4182897 TTTTTCATTTTTTCGTTTTTTT
1 TTTTT--TTTTTT-GTTTTTTT
4182919 TTTTTGGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 12 0.31
24 14 0.36
26 6 0.15
27 7 0.18
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.86
Consensus pattern (24 bp):
TTTTTTTTTTTGTTTTTTTATTGG
Found at i:4182883 original size:30 final size:30
Alignment explanation
Indices: 4182849--4182955 Score: 83
Period size: 32 Copynumber: 3.4 Consensus size: 30
4182839 CCGGACCCCC
*
4182849 TTTTTTTTGTTTGTTTTTTTATTGTTTTTT
1 TTTTTTTTGTTTGTTTTTTTATTATTTTTT
*
4182879 TTTTTTTT-TTT-TTTTTGGTTTTTCATTTTTT
1 TTTTTTTTGTTTGTTTTT--TTATT-ATTTTTT
* * * *
4182910 CGTTTTTTTTTTTTGGTTTTTCATTTTTTTCGTT
1 --TTTTTTTTGTTTGTTTTTTTATTATTTT--TT
4182944 TTTTTTTTGTTT
1 TTTTTTTTGTTT
4182956 TGGAGGACGC
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
28 5 0.08
29 3 0.05
30 12 0.20
31 6 0.10
32 15 0.25
33 11 0.18
34 5 0.08
35 4 0.07
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (30 bp):
TTTTTTTTGTTTGTTTTTTTATTATTTTTT
Found at i:4182894 original size:29 final size:28
Alignment explanation
Indices: 4182850--4182956 Score: 90
Period size: 29 Copynumber: 3.8 Consensus size: 28
4182840 CGGACCCCCT
* * *
4182850 TTTTTTTGTTTGTTTT-TTTATTGTTTTTT
1 TTTTTTTTTTTTTTTTGTTT-TT-TTATTT
* *
4182879 TTTTTTTTTTTTTTTTGGTTTTTCATTT
1 TTTTTTTTTTTTTTTTGTTTTTTTATTT
* * *
4182907 TTTCGTTTTTTTTTTTTGGTTTTTCATTT
1 TTT-TTTTTTTTTTTTTGTTTTTTTATTT
**
4182936 TTTTCGTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTGTTTT
4182957 GGAGGACGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
28 21 0.32
29 43 0.65
30 2 0.03
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (28 bp):
TTTTTTTTTTTTTTTTGTTTTTTTATTT
Found at i:4192659 original size:10 final size:10
Alignment explanation
Indices: 4192644--4192670 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4192634 ATGTATCAAG
4192644 CAAAAACAAA
1 CAAAAACAAA
4192654 CAAAAACAAA
1 CAAAAACAAA
4192664 CAAAAAC
1 CAAAAAC
4192671 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:4196923 original size:13 final size:13
Alignment explanation
Indices: 4196905--4196929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4196895 CAAAGATCAG
4196905 TGTATCGATACAA
1 TGTATCGATACAA
4196918 TGTATCGATACA
1 TGTATCGATACA
4196930 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4197010 original size:13 final size:13
Alignment explanation
Indices: 4196992--4197016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4196982 CAAAAAAAAA
4196992 TGTATCGATACAT
1 TGTATCGATACAT
4197005 TGTATCGATACA
1 TGTATCGATACA
4197017 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4199124 original size:19 final size:19
Alignment explanation
Indices: 4199088--4199144 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
4199078 TTGTATCGAT
* * *
4199088 ACATTGTATTGATGCATGT
1 ACATTGTATCGATACATGG
*
4199107 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
4199126 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
4199145 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:4200035 original size:16 final size:16
Alignment explanation
Indices: 4200014--4200078 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
4200004 CACTTAATAT
4200014 TTATTAGTATAATTAA
1 TTATTAGTATAATTAA
4200030 TTATTAG--TAATTAA
1 TTATTAGTATAATTAA
*
4200044 --ATTCAAATATAATTAA
1 TTATT--AGTATAATTAA
*
4200060 TTATTAGTAAAATTAA
1 TTATTAGTATAATTAA
4200076 TTA
1 TTA
4200079 AAATTCAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
12 3 0.08
14 8 0.20
16 26 0.65
18 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (16 bp):
TTATTAGTATAATTAA
Found at i:4200042 original size:23 final size:23
Alignment explanation
Indices: 4199993--4200042 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
4199983 ATATTTATTT
* * *
4199993 ATTAGTATAATCACTTAATATTT
1 ATTAGTATAATCAATTAATAGTA
* *
4200016 ATTAGTATAATTAATTATTAGTA
1 ATTAGTATAATCAATTAATAGTA
4200039 ATTA
1 ATTA
4200043 AATTCAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (23 bp):
ATTAGTATAATCAATTAATAGTA
Found at i:4200177 original size:31 final size:31
Alignment explanation
Indices: 4200142--4200200 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4200132 GCGCTATTGT
*
4200142 GGGTAACGCTACCAACATGAAACACTATTAC
1 GGGTAACACTACCAACATGAAACACTATTAC
* * *
4200173 GGGTAGCACTTCCAACATGAAACGCTAT
1 GGGTAACACTACCAACATGAAACACTAT
4200201 CCAACGTAAT
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:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (31 bp):
GGGTAACACTACCAACATGAAACACTATTAC
Found at i:4200585 original size:55 final size:55
Alignment explanation
Indices: 4200478--4200634 Score: 181
Period size: 55 Copynumber: 2.9 Consensus size: 55
4200468 AAGTACTATA
* * * * ** *
4200478 CTCAACTACTCTCATTTCCATTGGTTCTGCCATGTAGAGT-GATTATGGCATTATG
1 CTCAACTGCTCTCATTTCCATTGGTTATGCCATGCAGAATAG-TGGTGACATTATG
* * *
4200533 CTCAGCTGTTCTCATTTCCATTGGTTTTGCCATGCAGAATAGTGGTGACATTATG
1 CTCAACTGCTCTCATTTCCATTGGTTATGCCATGCAGAATAGTGGTGACATTATG
* * *
4200588 CTCAACTGCTCTCATTTCCATAGGTTATGCCATACAAAATAGTGGTG
1 CTCAACTGCTCTCATTTCCATTGGTTATGCCATGCAGAATAGTGGTG
4200635 TAGCAACTCT
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
55 85 0.99
56 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (55 bp):
CTCAACTGCTCTCATTTCCATTGGTTATGCCATGCAGAATAGTGGTGACATTATG
Found at i:4206853 original size:20 final size:20
Alignment explanation
Indices: 4206830--4206902 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4206820 ACAATTCAAA
4206830 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
4206850 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
4206871 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4206891 GTATCGATACAT
1 GTATCGATACAT
4206903 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4206874 original size:21 final size:21
Alignment explanation
Indices: 4206848--4206923 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4206838 ACATGTTGCA
4206848 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
4206869 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
4206889 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
4206910 ATGTATCGATACAT
1 ATGTATCGATACAT
4206924 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4206881 original size:41 final size:41
Alignment explanation
Indices: 4206830--4206923 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4206820 ACAATTCAAA
*
4206830 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
4206871 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
4206912 GTATCGATACAT
1 GTATCGATACAT
4206924 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:4206980 original size:13 final size:13
Alignment explanation
Indices: 4206962--4206987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4206952 TATAGCAAGT
4206962 ATGTATCGATACA
1 ATGTATCGATACA
4206975 ATGTATCGATACA
1 ATGTATCGATACA
4206988 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4211069 original size:15 final size:15
Alignment explanation
Indices: 4211049--4211079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4211039 TAAAAATGTC
*
4211049 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4211064 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4211079 C
1 C
4211080 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4213172 original size:20 final size:21
Alignment explanation
Indices: 4213093--4213171 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
4213083 AATGTCCAAA
*
4213093 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
4213113 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
4213138 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
4213158 TTGTATCGATACAT
1 ATGTATCGATACAT
4213172 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:4213176 original size:13 final size:13
Alignment explanation
Indices: 4213158--4213196 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4213148 ACATTTTTCT
4213158 TTGTATCGATACA
1 TTGTATCGATACA
4213171 TTGTATCGATACA
1 TTGTATCGATACA
*
4213184 CTGTATCGATACA
1 TTGTATCGATACA
4213197 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4215025 original size:32 final size:32
Alignment explanation
Indices: 4214989--4215050 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
4214979 AATTTTGATA
4214989 TGAATTACTTGATTAAGGGGGAGATTTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTTT
4215021 TGAATTACTTGATTAAGGGGGAGATTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTT
4215051 AATAAACGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (32 bp):
TGAATTACTTGATTAAGGGGGAGATTTTTTTT
Found at i:4215694 original size:20 final size:20
Alignment explanation
Indices: 4215671--4215743 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
4215661 ACAATTCAAA
4215671 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
4215691 GTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
4215712 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4215732 GTATCGATACAT
1 GTATCGATACAT
4215744 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4215715 original size:21 final size:21
Alignment explanation
Indices: 4215689--4215764 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
4215679 ACATGTTGCA
*
4215689 ATGTATCAATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
4215710 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
4215730 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
4215751 ATGTATCGATACAT
1 ATGTATCGATACAT
4215765 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4215721 original size:41 final size:41
Alignment explanation
Indices: 4215671--4215764 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
4215661 ACAATTCAAA
*
4215671 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
*
4215712 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
4215753 GTATCGATACAT
1 GTATCGATACAT
4215765 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
Found at i:4215821 original size:13 final size:13
Alignment explanation
Indices: 4215803--4215828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4215793 TACAGCAAGT
4215803 ATGTATCGATACA
1 ATGTATCGATACA
4215816 ATGTATCGATACA
1 ATGTATCGATACA
4215829 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4216659 original size:18 final size:19
Alignment explanation
Indices: 4216622--4216661 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4216612 TTATCCACTC
*
4216622 AATTTTTTTTATAAAAAATT
1 AATTATTTTTAT-AAAAATT
4216642 AATTATTTTTAT-AAAATT
1 AATTATTTTTATAAAAATT
4216660 AA
1 AA
4216662 AAAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTATTTTTATAAAAATT
Found at i:4217267 original size:43 final size:43
Alignment explanation
Indices: 4217189--4217319 Score: 151
Period size: 43 Copynumber: 3.0 Consensus size: 43
4217179 GTCACCGTTC
* *
4217189 AAAAATTTTAT-TTT--TAATTAAATTAGTTAACAGATAAATA
1 AAAAATTTTATCTTTAATAATTAAATTAATTAAAAGATAAATA
* * *
4217229 AAAAATTTTATCTTTAATAATTAAATAAATTAAGAGATATATA
1 AAAAATTTTATCTTTAATAATTAAATTAATTAAAAGATAAATA
* *
4217272 AAAGAGTTTTACCTTTAATTAAATTAAATTAATTAAAAGATAAATA
1 AAA-AATTTTATCTTTAA-T-AATTAAATTAATTAAAAGATAAATA
4217318 AA
1 AA
4217320 CAAGTGAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
40 11 0.14
41 3 0.04
43 25 0.33
44 12 0.16
45 1 0.01
46 24 0.32
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (43 bp):
AAAAATTTTATCTTTAATAATTAAATTAATTAAAAGATAAATA
Found at i:4217431 original size:17 final size:18
Alignment explanation
Indices: 4217409--4217450 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4217399 AAGAGATAAA
4217409 TAAAAAAA-TAAATTTTT
1 TAAAAAAATTAAATTTTT
*
4217426 TAAAAAAATTATATTTTT
1 TAAAAAAATTAAATTTTT
*
4217444 TTAAAAA
1 TAAAAAA
4217451 CTCTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAAAAATTAAATTTTT
Found at i:4217433 original size:18 final size:19
Alignment explanation
Indices: 4217410--4217450 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4217400 AGAGATAAAT
4217410 AAAAAAATA-AATTTTTTA
1 AAAAAAATATAATTTTTTA
* *
4217428 AAAAAATTATATTTTTTTA
1 AAAAAAATATAATTTTTTA
4217447 AAAA
1 AAAA
4217451 CTCTCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAAAATATAATTTTTTA
Found at i:4219048 original size:162 final size:164
Alignment explanation
Indices: 4218868--4219184 Score: 421
Period size: 163 Copynumber: 1.9 Consensus size: 164
4218858 GAATTTTGAA
*
4218868 TTTTTTCTCCAAAAAATCGAGTTTTCTA-CTCTATAAATGTTTTCAAGGA-GATTTTCTTTGGT-
1 TTTTTTCTCCAAAAAATCGAGTTTTCTATCTC-ATAAATATTTTC-AGGAGGATTTTCTTTGGTC
* * * * *
4218930 TTAAATTTTTAAAATGTATCTAATAATGTCATGGAA-TTCCCATTAAATCAGTTTTG-AAAATTT
64 TAAAATTTTTAAAATGCATCTAATAATGTAATGAAACTT-CCATTAAATCAGTTTTGAAAAATTC
*
4218993 AATTCATTTTCATGAGTTTTAGATTTTTTCTTTGAAAT
128 AATTCATTTT-ATGAGTTTTAAATTTTTTCTTTGAAAT
* * *
4219031 TTTTTTCT-TAAAAAATCGAGTTTTCTATTTCATAAATATTTTCGGGAGGATTTTCTTTGGTCTA
1 TTTTTTCTCCAAAAAATCGAGTTTTCTATCTCATAAATATTTTCAGGAGGATTTTCTTTGGTCTA
* * * *
4219095 AAATTTTTGAAATGCATCTAATATTGTAATTAAACTTCCATTAATTCAGTTTTGAAAAATTCAAT
66 AAATTTTTAAAATGCATCTAATAATGTAATGAAACTTCCATTAAATCAGTTTTGAAAAATTCAAT
*
4219160 TTATTTTATGAGTTTTAAATTTTTT
131 TCATTTTATGAGTTTTAAATTTTTT
4219185 TAGTATATAT
Statistics
Matches: 134, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
161 3 0.02
162 42 0.31
163 72 0.54
164 17 0.13
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (164 bp):
TTTTTTCTCCAAAAAATCGAGTTTTCTATCTCATAAATATTTTCAGGAGGATTTTCTTTGGTCTA
AAATTTTTAAAATGCATCTAATAATGTAATGAAACTTCCATTAAATCAGTTTTGAAAAATTCAAT
TCATTTTATGAGTTTTAAATTTTTTCTTTGAAAT
Found at i:4219697 original size:13 final size:13
Alignment explanation
Indices: 4219675--4219708 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4219665 GAAAAAAGAG
4219675 AGAAAGAAAAAAAA
1 AGAAA-AAAAAAAA
*
4219689 AGAAAAAAAAAAG
1 AGAAAAAAAAAAA
4219702 AGAAAAA
1 AGAAAAA
4219709 GAGAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:4219707 original size:21 final size:21
Alignment explanation
Indices: 4219677--4219718 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4219667 AAAAAGAGAG
4219677 AAAGAAAAAAAAAGAAAAAAA
1 AAAGAAAAAAAAAGAAAAAAA
* * *
4219698 AAAGAGAAAAAGAGAGAAAAA
1 AAAGAAAAAAAAAGAAAAAAA
4219719 TTAGGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAAGAAAAAAA
Found at i:4228208 original size:22 final size:23
Alignment explanation
Indices: 4228172--4228214 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4228162 AGTTGATTTA
*
4228172 TTTATTTAACCAATT-TTGATAC
1 TTTATTTAAACAATTCTTGATAC
*
4228194 TTTATTTAAATAATTCTTGAT
1 TTTATTTAAACAATTCTTGAT
4228215 TATCTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (23 bp):
TTTATTTAAACAATTCTTGATAC
Found at i:4233489 original size:79 final size:79
Alignment explanation
Indices: 4233357--4233513 Score: 244
Period size: 79 Copynumber: 2.0 Consensus size: 79
4233347 TTGTTGATGT
**
4233357 TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTTTAGGGGA
1 TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
4233422 CACTCCAACCCTGA
66 CACTCCAACCCTGA
* *
4233436 TTTTATTTCTAAAATAT-AGATTTTCCACCATCGGGGATATTCCAACCCTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAATATCA-ATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* *
4233500 ATACTCCAATCCTG
65 ACACTCCAACCCTG
4233514 TTATTTTGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 70 0.99
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
CACTCCAACCCTGA
Done.