Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 73
Found at i:5948342 original size:24 final size:21
Alignment explanation
Indices: 5948308--5948350 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
5948298 TGCACAAGAT
*
5948308 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
5948330 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
5948351 AGAATAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:5950549 original size:21 final size:21
Alignment explanation
Indices: 5950531--5950575 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
5950521 TTTACTTTAT
*
5950531 TTTTAATTCCTTTATCTTTTG
1 TTTTAATTCATTTATCTTTTG
5950552 TTTTAATTCATTTATCTTTTG
1 TTTTAATTCATTTATCTTTTG
5950573 TTT
1 TTT
5950576 ATCTTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTAATTCATTTATCTTTTG
Found at i:5955497 original size:20 final size:19
Alignment explanation
Indices: 5955474--5955513 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
5955464 TAATTCGTTT
*
5955474 TATTAGTTCATAAGCATTCA
1 TATTAGCTCATAAGC-TTCA
*
5955494 TATTAGCTCTTAAGCTTCA
1 TATTAGCTCATAAGCTTCA
5955513 T
1 T
5955514 GCATTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TATTAGCTCATAAGCTTCA
Found at i:5971057 original size:25 final size:22
Alignment explanation
Indices: 5971028--5971073 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
5971018 TTTTTAACCC
5971028 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
5971053 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
5971074 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:5974702 original size:10 final size:10
Alignment explanation
Indices: 5974689--5974742 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
5974679 TTTTTTGAAA
*
5974689 TTTTGGCTTT
1 TTTTGGTTTT
5974699 TTTTGGTTTTT
1 TTTTGG-TTTT
5974710 TTTTGGTTTT
1 TTTTGGTTTT
5974720 TTTT-GTTTT
1 TTTTGGTTTT
*
5974729 TGTTTTGTTTT
1 T-TTTGGTTTT
5974740 TTT
1 TTT
5974743 GAAAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
9 6 0.15
10 19 0.47
11 15 0.38
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (10 bp):
TTTTGGTTTT
Found at i:5974710 original size:11 final size:10
Alignment explanation
Indices: 5974696--5974742 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
5974686 AAATTTTGGC
*
5974696 TTTTTTTGGT
1 TTTTTTTTGT
*
5974706 TTTTTTTTGG
1 TTTTTTTTGT
5974716 TTTTTTTTGT
1 TTTTTTTTGT
5974726 TTTTGTTTTGT
1 TTTT-TTTTGT
5974737 TTTTTT
1 TTTTTT
5974743 GAAAAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:5974713 original size:21 final size:21
Alignment explanation
Indices: 5974689--5974743 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
5974679 TTTTTTGAAA
5974689 TTTTGGCTTTTTTTGGTTTTT-
1 TTTTGG-TTTTTTTGGTTTTTG
*
5974710 TTTTGGTTTTTTTTGTTTTTG
1 TTTTGGTTTTTTTGGTTTTTG
5974731 TTTT-GTTTTTTTG
1 TTTTGGTTTTTTTG
5974744 AAAAACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (21 bp):
TTTTGGTTTTTTTGGTTTTTG
Found at i:5975117 original size:15 final size:16
Alignment explanation
Indices: 5975097--5975138 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
5975087 GATTAGAATA
5975097 AAATAAATAAAAGAT-
1 AAATAAATAAAAGATG
*
5975112 AAATAAATGAAAGATG
1 AAATAAATAAAAGATG
5975128 AAATAAGATAA
1 AAATAA-ATAA
5975139 TAAAGAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 14 0.61
16 6 0.26
17 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (16 bp):
AAATAAATAAAAGATG
Found at i:5975621 original size:25 final size:22
Alignment explanation
Indices: 5975592--5975637 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
5975582 TTTTTAACCC
5975592 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
5975617 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
5975638 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:5979029 original size:15 final size:15
Alignment explanation
Indices: 5979009--5979038 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5978999 GCTTCAACTT
5979009 CTTTTCTTTTCTTTG
1 CTTTTCTTTTCTTTG
*
5979024 CTTTTCTTTTTTTTG
1 CTTTTCTTTTCTTTG
5979039 AGTGCTGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.77
Consensus pattern (15 bp):
CTTTTCTTTTCTTTG
Found at i:5979074 original size:19 final size:19
Alignment explanation
Indices: 5979029--5979074 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
5979019 CTTTGCTTTT
*
5979029 CTTTTTTTTGAGTGCTGGA
1 CTTTTTTTTGAGTGCTGCA
*
5979048 -TTTTTTTTGAGTGCTTCA
1 CTTTTTTTTGAGTGCTGCA
5979066 CTTTATTTT
1 CTTT-TTTT
5979075 CTGATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 16 0.70
19 3 0.13
20 4 0.17
ACGTcount: A:0.11, C:0.11, G:0.17, T:0.61
Consensus pattern (19 bp):
CTTTTTTTTGAGTGCTGCA
Found at i:5982449 original size:23 final size:22
Alignment explanation
Indices: 5982395--5982449 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
5982385 GGAAGATGAT
*
5982395 TAATAAAGGATGAATAAATGAAA
1 TAATAAA-GATGAAGAAATGAAA
5982418 TAATAAAGAT-AAGAAATGAAA
1 TAATAAAGATGAAGAAATGAAA
5982439 TGAAATAAAGA
1 T--AATAAAGA
5982450 AGGGATAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 11 0.38
22 3 0.10
23 15 0.52
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (22 bp):
TAATAAAGATGAAGAAATGAAA
Found at i:5982515 original size:17 final size:18
Alignment explanation
Indices: 5982484--5982517 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5982474 GATGGTCTTG
*
5982484 ATGGATGATGTTGATGAA
1 ATGGATGATGGTGATGAA
5982502 ATGGA-GATGGTGATGA
1 ATGGATGATGGTGATGA
5982518 TGTTGTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (18 bp):
ATGGATGATGGTGATGAA
Found at i:5987594 original size:6 final size:6
Alignment explanation
Indices: 5987570--5987635 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
5987560 TTTGAATTTC
* **
5987570 TCTTCT TCTTTT T-TCTTT TCTTTT TGATTT T-TTTT TCTTTT TCTTTT
1 TCTTTT TCTTTT TCT-TTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
*
5987617 TATCTTT TC-TTT TCTTTT T
1 TCT-TTT TCTTTT TCTTTT T
5987636 TTGCACTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 10 0.20
6 34 0.69
7 5 0.10
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:5987611 original size:23 final size:23
Alignment explanation
Indices: 5987573--5987635 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
5987563 GAATTTCTCT
5987573 TCTTCTTTTTTC-TTTTCTTTTTGA
1 TCTT-TTTTTTCTTTTTCTTTTT-A
5987597 T-TTTTTTTTCTTTTTCTTTTTA
1 TCTTTTTTTTCTTTTTCTTTTTA
5987619 TCTTTTCTTTTCTTTTT
1 TCTTTT-TTTTCTTTTT
5987636 TTGCACTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.25
23 16 0.44
24 11 0.31
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (23 bp):
TCTTTTTTTTCTTTTTCTTTTTA
Found at i:5987630 original size:18 final size:17
Alignment explanation
Indices: 5987570--5987636 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 17
5987560 TTTGAATTTC
5987570 TCTTCTTCTTTTTTCTTT
1 TCTT-TTCTTTTTTCTTT
5987588 TCTTTT-TGATTTTT-TTT
1 TCTTTTCT--TTTTTCTTT
5987605 TCTTTTTCTTTTTATCTTT
1 TC-TTTTCTTTTT-TCTTT
5987624 TCTTTTCTTTTTT
1 TCTTTTCTTTTTT
5987637 TGCACTCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.02
17 12 0.28
18 24 0.56
19 6 0.14
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (17 bp):
TCTTTTCTTTTTTCTTT
Found at i:5987636 original size:35 final size:34
Alignment explanation
Indices: 5987570--5987637 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
5987560 TTTGAATTTC
5987570 TCTTCTTCTTTTTTCTTTTCTTTTTGATTTTTTTT
1 TCTTCTTCTTTTTTCTTTTCTTTTT-ATTTTTTTT
* *
5987605 TCTTTTTCTTTTTATCTTTTC-TTTTCTTTTTTT
1 TCTTCTTCTTTTT-TCTTTTCTTTTTATTTTTTT
5987638 GCACTCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 7 0.23
35 16 0.53
36 7 0.23
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (34 bp):
TCTTCTTCTTTTTTCTTTTCTTTTTATTTTTTTT
Found at i:5987979 original size:17 final size:18
Alignment explanation
Indices: 5987948--5987981 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5987938 GATGGTCTTG
*
5987948 ATGGATGATGTTGATGAA
1 ATGGATGATGGTGATGAA
5987966 ATGGA-GATGGTGATGA
1 ATGGATGATGGTGATGA
5987982 TGTTGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (18 bp):
ATGGATGATGGTGATGAA
Found at i:5989053 original size:35 final size:35
Alignment explanation
Indices: 5989005--5989078 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
5988995 GGTTGTTATT
5989005 TAGGCGTGAAATGG-AGATAGAAGATGGTAATGATA
1 TAGGCGTGAAATGGTA-ATAGAAGATGGTAATGATA
* * *
5989040 TAGGCGTGCAATGGTAATAGAAGATGGTGATGTTA
1 TAGGCGTGAAATGGTAATAGAAGATGGTAATGATA
5989075 TAGG
1 TAGG
5989079 TAGTATCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.26
Consensus pattern (35 bp):
TAGGCGTGAAATGGTAATAGAAGATGGTAATGATA
Found at i:5992305 original size:17 final size:17
Alignment explanation
Indices: 5992283--5992316 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5992273 CGGCTTAAAA
5992283 AAATGGTTAGGGTATAG
1 AAATGGTTAGGGTATAG
*
5992300 AAATGGTTATGGTATAG
1 AAATGGTTAGGGTATAG
5992317 GGGTAGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (17 bp):
AAATGGTTAGGGTATAG
Found at i:5994959 original size:50 final size:50
Alignment explanation
Indices: 5994854--5994960 Score: 112
Period size: 50 Copynumber: 2.1 Consensus size: 50
5994844 TCACACTCCA
* * * * *
5994854 ATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATATTATCATG
1 ATTTTCCTTTTCATCGCGACTAGGAGGGCTCGATAGAG-CACATTATCATG
*
5994905 -TTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAG-G-ACATTATCCATCG
1 ATTTTCCTTTTCATCGCGACTAGGAGGGCTCGATAGAGCACATTAT-CAT-G
5994954 ATTTTCC
1 ATTTTCC
5994961 ACATCCATCC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
47 6 0.13
48 3 0.06
49 2 0.04
50 36 0.77
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (50 bp):
ATTTTCCTTTTCATCGCGACTAGGAGGGCTCGATAGAGCACATTATCATG
Found at i:5995437 original size:8 final size:8
Alignment explanation
Indices: 5995424--5995468 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
5995414 ATTTGTTTCA
5995424 AAAAAAAC
1 AAAAAAAC
5995432 AAAAAAAC
1 AAAAAAAC
5995440 AAAAAAA-
1 AAAAAAAC
**
5995447 AAAAGGA-
1 AAAAAAAC
5995454 AAAAAAAC
1 AAAAAAAC
5995462 AAAAAAA
1 AAAAAAA
5995469 GCCAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 10 0.31
8 22 0.69
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:5997108 original size:30 final size:30
Alignment explanation
Indices: 5997074--5997133 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
5997064 CAATCGAAGC
*
5997074 ACAAATACAAAGGAGATTCTGATTCAGAGA
1 ACAAATACAAAGGAGATTCCGATTCAGAGA
5997104 ACAAATACAAAGGAGATTCCGATTCAGAGA
1 ACAAATACAAAGGAGATTCCGATTCAGAGA
5997134 TGACAAACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (30 bp):
ACAAATACAAAGGAGATTCCGATTCAGAGA
Found at i:6008019 original size:17 final size:16
Alignment explanation
Indices: 6007994--6008034 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
6007984 AAAAGAAAAG
6007994 AAAAG-AAAATACAAA
1 AAAAGAAAAATACAAA
*
6008009 AATAAGAAAAATTCAAA
1 AA-AAGAAAAATACAAA
6008026 AAAAGAAAA
1 AAAAGAAAA
6008035 GAAAAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 2 0.09
16 10 0.43
17 11 0.48
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAAGAAAAATACAAA
Found at i:6010800 original size:6 final size:6
Alignment explanation
Indices: 6010759--6010802 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
6010749 AAAAGCAACA
*
6010759 AAAAGAG AAAAAG AAAGAAG AAAAAC AAAAAG -AAAAG AAAAAG A
1 AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG A
6010803 CTCATACATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 5 0.15
6 18 0.55
7 10 0.30
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6025445 original size:14 final size:14
Alignment explanation
Indices: 6025423--6025462 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6025413 TAAGATACTA
*
6025423 TTTCTATCACCATC
1 TTTCCATCACCATC
6025437 TTTCCATCACCATC
1 TTTCCATCACCATC
*
6025451 -CTCCATCACCAT
1 TTTCCATCACCAT
6025463 TCACACCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:6025457 original size:13 final size:14
Alignment explanation
Indices: 6025428--6025462 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6025418 TACTATTTCT
*
6025428 ATCACCATCTTTCC
1 ATCACCATCTCTCC
6025442 ATCACCATC-CTCC
1 ATCACCATCTCTCC
6025455 ATCACCAT
1 ATCACCAT
6025463 TCACACCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.26, C:0.46, G:0.00, T:0.29
Consensus pattern (14 bp):
ATCACCATCTCTCC
Found at i:6025639 original size:15 final size:15
Alignment explanation
Indices: 6025619--6025655 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6025609 TTTGATATCA
6025619 TTTCTTTCCATTTCC
1 TTTCTTTCCATTTCC
6025634 TTTCTTAT-CATTTCC
1 TTTCTT-TCCATTTCC
6025649 TTT-TTTC
1 TTTCTTTC
6025656 TTCTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.05
14 2 0.10
15 16 0.80
16 1 0.05
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTCTTTCCATTTCC
Found at i:6039405 original size:30 final size:30
Alignment explanation
Indices: 6039365--6039438 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
6039355 ATTTAATTTT
*
6039365 AAAA-ATTAAAATATCAAATAATAAATAAA-
1 AAAACATTAAAATATAAAATAA-AAATAAAC
*
6039394 AAAACATTAAAACATAAAATAAAAATAAAC
1 AAAACATTAAAATATAAAATAAAAATAAAC
6039424 ATAAACA-TAAAATAT
1 A-AAACATTAAAATAT
6039439 GAGGACCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 11 0.28
30 23 0.59
31 5 0.13
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (30 bp):
AAAACATTAAAATATAAAATAAAAATAAAC
Found at i:6039417 original size:23 final size:22
Alignment explanation
Indices: 6039387--6039437 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 22
6039377 ATCAAATAAT
6039387 AAATAAAA-AAACATTAAAACATA
1 AAATAAAATAAACA-T-AAACATA
6039410 AAATAAAAATAAACATAAACATA
1 AAAT-AAAATAAACATAAACATA
6039433 AAATA
1 AAATA
6039438 TGAGGACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 1 0.04
23 15 0.58
24 5 0.19
25 5 0.19
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (22 bp):
AAATAAAATAAACATAAACATA
Found at i:6039422 original size:18 final size:18
Alignment explanation
Indices: 6039380--6039435 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
6039370 TTAAAATATC
6039380 AAATAATAA-ATAAAA-AA
1 AAATAA-AACATAAAATAA
*
6039397 ACATTAAAACATAAAATAA
1 A-AATAAAACATAAAATAA
6039416 AAAT-AAACATAAACATAA
1 AAATAAAACATAAA-ATAA
6039434 AA
1 AA
6039436 TATGAGGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 12 0.36
18 18 0.55
19 3 0.09
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATAAAACATAAAATAA
Found at i:6046010 original size:29 final size:29
Alignment explanation
Indices: 6045942--6046037 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
6045932 CACATTCGAA
* * *
6045942 AATTACAAAAATATCACCTTTATTAAAAAAT
1 AATTACCAAAATATCATCGTT-TT-AAAAAT
*
6045973 AATTACCAAAATATCATCGTTTTACAAAT
1 AATTACCAAAATATCATCGTTTTAAAAAT
* *
6046002 AATTCCCAAAATGTCATCGTTTTAAAAAT
1 AATTACCAAAATATCATCGTTTTAAAAAT
*
6046031 AAATACC
1 AATTACC
6046038 CTAATGTCAC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 36 0.64
30 2 0.04
31 18 0.32
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (29 bp):
AATTACCAAAATATCATCGTTTTAAAAAT
Found at i:6046043 original size:29 final size:29
Alignment explanation
Indices: 6045967--6046046 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
6045957 ACCTTTATTA
* * *
6045967 AAAAATAATTACCAAAATATCATCGTTTT
1 AAAAATAAATACCCAAATGTCATCGTTTT
* *
6045996 ACAAAT-AATTCCCAAAATGTCATCGTTTT
1 AAAAATAAATACCC-AAATGTCATCGTTTT
*
6046025 AAAAATAAATACCCTAATGTCA
1 AAAAATAAATACCCAAATGTCA
6046047 CTATTTTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 4 0.10
29 31 0.76
30 6 0.15
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAATAAATACCCAAATGTCATCGTTTT
Found at i:6046082 original size:28 final size:28
Alignment explanation
Indices: 6045992--6046164 Score: 132
Period size: 29 Copynumber: 5.9 Consensus size: 28
6045982 AATATCATCG
*
6045992 TTTTACAAATAATTCCCAAAATGTCATCGTT
1 TTTTA-AAA-AATTCCCAAAATGTCA-CTTT
** * *
6046023 TTAAAAATAAATACCC-TAATGTCACTATT
1 TTTTAAA-AAATTCCCAAAATGTCACT-TT
* *
6046052 TTTTAAAAAATTTCCAAAATTTCACTTT
1 TTTTAAAAAATTCCCAAAATGTCACTTT
* * *
6046080 TTTTTAATAATTCCCAAAATTTCACTTTT
1 TTTTAAAAAATTCCCAAAATGTCAC-TTT
*
6046109 TTTTAAATAATTCCCAAAATGTCACCTTT
1 TTTTAAAAAATTCCCAAAATGTCA-CTTT
** * *
6046138 TTCAAAAATAATTTCTAAAATGTCACT
1 TTTTAAAA-AATTCCCAAAATGTCACT
6046165 GGGTCGGGTT
Statistics
Matches: 115, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
28 31 0.27
29 57 0.50
30 23 0.20
31 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (28 bp):
TTTTAAAAAATTCCCAAAATGTCACTTT
Found at i:6052415 original size:13 final size:13
Alignment explanation
Indices: 6052397--6052423 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6052387 AGCGAAAGAT
6052397 TGTACCGCCAATA
1 TGTACCGCCAATA
6052410 TGTACCGCCAATA
1 TGTACCGCCAATA
6052423 T
1 T
6052424 CAGGTTGCTT
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:0.30, G:0.15, T:0.26
Consensus pattern (13 bp):
TGTACCGCCAATA
Found at i:6061323 original size:21 final size:21
Alignment explanation
Indices: 6061297--6061336 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6061287 GACAAATACA
6061297 AAAAAGGTTAAAAACTCATTT
1 AAAAAGGTTAAAAACTCATTT
6061318 AAAAAGGTTAAAAACTCAT
1 AAAAAGGTTAAAAACTCAT
6061337 CCAAAAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (21 bp):
AAAAAGGTTAAAAACTCATTT
Found at i:6061342 original size:21 final size:21
Alignment explanation
Indices: 6061297--6061343 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6061287 GACAAATACA
**
6061297 AAAAAGGTTAAAAACTCATTT
1 AAAAAGGTTAAAAACTCATCC
6061318 AAAAAGGTTAAAAACTCATCC
1 AAAAAGGTTAAAAACTCATCC
6061339 AAAAA
1 AAAAA
6061344 TCGCAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (21 bp):
AAAAAGGTTAAAAACTCATCC
Found at i:6061849 original size:18 final size:18
Alignment explanation
Indices: 6061828--6061863 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6061818 AACATCATCC
*
6061828 TGATACAGAAACCATTGT
1 TGATACAAAAACCATTGT
6061846 TGATACAAAAACCATTGT
1 TGATACAAAAACCATTGT
6061864 AGTTCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (18 bp):
TGATACAAAAACCATTGT
Found at i:6068032 original size:20 final size:20
Alignment explanation
Indices: 6068007--6068058 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6067997 TGATCCTTGG
* *
6068007 GTATCGATACTGTAAGTAGA
1 GTATCGATACTATAAGTACA
6068027 GTATCGATACTATAAGTACA
1 GTATCGATACTATAAGTACA
*
6068047 GTATTGATACTA
1 GTATCGATACTA
6068059 CTCACCTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACTATAAGTACA
Found at i:6077884 original size:21 final size:21
Alignment explanation
Indices: 6077858--6077902 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
6077848 CCGTTCGATA
6077858 GTCATTCAGCGCGTCGTAATC
1 GTCATTCAGCGCGTCGTAATC
6077879 GTCATTCAGCGCGTCGTAATC
1 GTCATTCAGCGCGTCGTAATC
6077900 GTC
1 GTC
6077903 GTTCGACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (21 bp):
GTCATTCAGCGCGTCGTAATC
Found at i:6078468 original size:11 final size:11
Alignment explanation
Indices: 6078452--6078476 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6078442 GTATGCACAA
6078452 CATTTTAGTTG
1 CATTTTAGTTG
6078463 CATTTTAGTTG
1 CATTTTAGTTG
6078474 CAT
1 CAT
6078477 GTCGGTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (11 bp):
CATTTTAGTTG
Found at i:6090547 original size:14 final size:14
Alignment explanation
Indices: 6090528--6090576 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
6090518 CGATCAAGTT
*
6090528 GAGTCAAATCATCC
1 GAGTCAACTCATCC
**
6090542 GAGTCAACTCATAT
1 GAGTCAACTCATCC
6090556 GAGTCAACTCATCC
1 GAGTCAACTCATCC
6090570 GAGTCAA
1 GAGTCAA
6090577 TCCATTAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (14 bp):
GAGTCAACTCATCC
Found at i:6092335 original size:36 final size:36
Alignment explanation
Indices: 6092288--6092393 Score: 142
Period size: 36 Copynumber: 3.0 Consensus size: 36
6092278 CTCTACAAGT
*
6092288 TCAGCTCTGATCAAGTTGATAATTCCTTATATAGGC
1 TCAGCTCTGATCAAGTTGGTAATTCCTTATATAGGC
* * *
6092324 TCAGCTCTGATCAAGCTGGTAATTCCTTATACAGGT
1 TCAGCTCTGATCAAGTTGGTAATTCCTTATATAGGC
* * *
6092360 TCAGCACCGATC-GGTTGGTAATTCCTTATATAGG
1 TCAGCTCTGATCAAGTTGGTAATTCCTTATATAGG
6092394 TTCAACATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 19 0.31
36 42 0.69
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (36 bp):
TCAGCTCTGATCAAGTTGGTAATTCCTTATATAGGC
Found at i:6092386 original size:35 final size:36
Alignment explanation
Indices: 6092286--6092407 Score: 138
Period size: 36 Copynumber: 3.4 Consensus size: 36
6092276 GACTCTACAA
* * *
6092286 GTTCAGCTCTGATCAAGTTGATAATTCCTTATATAG
1 GTTCAGCACCGATCAAGTTGGTAATTCCTTATATAG
* * * * *
6092322 GCTCAGCTCTGATCAAGCTGGTAATTCCTTATACAG
1 GTTCAGCACCGATCAAGTTGGTAATTCCTTATATAG
*
6092358 GTTCAGCACCGATC-GGTTGGTAATTCCTTATATAG
1 GTTCAGCACCGATCAAGTTGGTAATTCCTTATATAG
* *
6092393 GTTCAACATCGATCA
1 GTTCAGCACCGATCA
6092408 GCTAGTAATC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 30 0.41
36 43 0.59
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (36 bp):
GTTCAGCACCGATCAAGTTGGTAATTCCTTATATAG
Found at i:6092416 original size:35 final size:35
Alignment explanation
Indices: 6092307--6092424 Score: 132
Period size: 35 Copynumber: 3.3 Consensus size: 35
6092297 ATCAAGTTGA
*
6092307 TAATTCCTTATATAGGCTCAGC-TCTGATCAAGCTGG
1 TAATTCCTTATATAGGTTCAGCATC-GATC-AGCTGG
* * * *
6092343 TAATTCCTTATACAGGTTCAGCACCGATCGGTTGG
1 TAATTCCTTATATAGGTTCAGCATCGATCAGCTGG
* *
6092378 TAATTCCTTATATAGGTTCAACATCGATCAGCTAG
1 TAATTCCTTATATAGGTTCAGCATCGATCAGCTGG
6092413 TAA-TCCATTATA
1 TAATTCC-TTATA
6092425 GATCTAAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
34 3 0.04
35 41 0.59
36 24 0.35
37 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (35 bp):
TAATTCCTTATATAGGTTCAGCATCGATCAGCTGG
Found at i:6096114 original size:11 final size:11
Alignment explanation
Indices: 6096094--6096142 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
6096084 CATAAAACAA
6096094 ATAT-ATATAT
1 ATATAATATAT
6096104 ATATAATATAT
1 ATATAATATAT
* *
6096115 ATTTAATACAT
1 ATATAATATAT
* *
6096126 AAATAATATAA
1 ATATAATATAT
6096137 ATATAA
1 ATATAA
6096143 AACACATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 4 0.13
11 27 0.87
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATAATATAT
Found at i:6096424 original size:13 final size:11
Alignment explanation
Indices: 6096389--6096428 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
6096379 GATCAATGAC
*
6096389 TAAAATAAAAA
1 TAAAATAAAAT
6096400 TAAAATAAAAT
1 TAAAATAAAAT
6096411 TCAAAATCAAAAT
1 T-AAAAT-AAAAT
6096424 TAAAA
1 TAAAA
6096429 CACGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 9 0.35
13 6 0.23
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAATAAAAT
Found at i:6098308 original size:2 final size:2
Alignment explanation
Indices: 6098301--6098357 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
6098291 GCATGGTTGA
6098301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6098343 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
6098358 ATTACTTGTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6101174 original size:14 final size:14
Alignment explanation
Indices: 6101137--6101180 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6101127 AAGTTGAGGT
* *
6101137 AACTCATCCGAGTC
1 AACTCATCTGAGTA
**
6101151 AACTTGTCTGAGTA
1 AACTCATCTGAGTA
6101165 AACTCATCTGAGTA
1 AACTCATCTGAGTA
6101179 AA
1 AA
6101181 TCCGTTAACT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (14 bp):
AACTCATCTGAGTA
Found at i:6107406 original size:13 final size:11
Alignment explanation
Indices: 6107371--6107410 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
6107361 GATTAGTGAC
*
6107371 TAAAATAAAAA
1 TAAAATAAAAT
6107382 TAAAATAAAAT
1 TAAAATAAAAT
6107393 TCAAAATCAAAAT
1 T-AAAAT-AAAAT
6107406 TAAAA
1 TAAAA
6107411 CACGTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 9 0.35
13 6 0.23
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAATAAAAT
Found at i:6108801 original size:13 final size:13
Alignment explanation
Indices: 6108785--6108819 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
6108775 CTATGACGCG
6108785 CATTTATGATACA
1 CATTTATGATACA
*
6108798 CATTTATGATATA
1 CATTTATGATACA
6108811 CATTTATGA
1 CATTTATGA
6108820 CGCGCATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (13 bp):
CATTTATGATACA
Found at i:6108918 original size:85 final size:84
Alignment explanation
Indices: 6108790--6109023 Score: 269
Period size: 85 Copynumber: 2.8 Consensus size: 84
6108780 ACGCGCATTT
* * * * * *
6108790 ATGATACACATTTATGAT-ATACATTTATGACGCGCAT-TAATGACGTT-CATTGAGTGTCATTG
1 ATGATACACATTTGTGGTCATAAATTTATGACACACATGT-ATGAC-TTACATTGCGTGTCATTG
*
6108852 AAGCCCCCGTCATAAAT-TATG
64 AAGCCCCCGTCATAAATCT-TC
*
6108873 ATGATACACATTTGTGCGTCATAAATTTATGACACACATGTATGACTTACATTGCGCGTCATTGA
1 ATGATACACATTTGTG-GTCATAAATTTATGACACACATGTATGACTTACATTGCGTGTCATTGA
6108938 AGCCCCCGTCATAAATCTTC
65 AGCCCCCGTCATAAATCTTC
* * * ** *
6108958 TTGACATACATTTGTGTGTCATAAATTTATGACTTACATGTATGACTTACATTGCGTATCATTGA
1 ATGATACACATTTGTG-GTCATAAATTTATGACACACATGTATGACTTACATTGCGTGTCATTGA
6109023 A
65 A
6109024 TCACACGTCG
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
83 15 0.12
84 3 0.02
85 110 0.85
86 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (84 bp):
ATGATACACATTTGTGGTCATAAATTTATGACACACATGTATGACTTACATTGCGTGTCATTGAA
GCCCCCGTCATAAATCTTC
Found at i:6109003 original size:13 final size:13
Alignment explanation
Indices: 6108985--6109009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6108975 GTCATAAATT
6108985 TATGACTTACATG
1 TATGACTTACATG
6108998 TATGACTTACAT
1 TATGACTTACAT
6109010 TGCGTATCAT
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:0.12, T:0.40
Consensus pattern (13 bp):
TATGACTTACATG
Found at i:6109087 original size:2 final size:2
Alignment explanation
Indices: 6109082--6109114 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6109072 TTTTTTAAAT
6109082 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6109115 GTAAATTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6109593 original size:29 final size:29
Alignment explanation
Indices: 6109561--6109652 Score: 132
Period size: 29 Copynumber: 3.2 Consensus size: 29
6109551 TCCCAAAATT
6109561 TCACCTTTTTCAAAATAATTTCTAGAATG
1 TCACCTTTTTCAAAATAATTTCTAGAATG
*
6109590 TCACCTTTTTCGAAAT-ATTTCCTAGAATG
1 TCACCTTTTTCAAAATAATTT-CTAGAATG
* * *
6109619 TCACCTTTTTCAAAATAATTCCCAAAATG
1 TCACCTTTTTCAAAATAATTTCTAGAATG
6109648 TCACC
1 TCACC
6109653 GGGTCGGGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 4 0.07
29 49 0.88
30 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (29 bp):
TCACCTTTTTCAAAATAATTTCTAGAATG
Found at i:6109684 original size:17 final size:18
Alignment explanation
Indices: 6109652--6109692 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
6109642 AAAATGTCAC
6109652 CGGGTCGGGTCAATGGGT
1 CGGGTCGGGTCAATGGGT
*
6109670 CGGGTC-GGTCGATGGGT
1 CGGGTCGGGTCAATGGGT
6109687 CGGGTC
1 CGGGTC
6109693 AGATCGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.07, C:0.20, G:0.51, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAATGGGT
Found at i:6115869 original size:32 final size:30
Alignment explanation
Indices: 6115833--6115908 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
6115823 GGGGCCGTGG
*
6115833 GGCCTACCTAAGAACACATCTTAGGGCCGCAA
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGC-A
** **
6115865 GGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGCCTACCTAAGAAACATCTCAGGGCCGCA
6115895 GAGCCTACCTAAGA
1 G-GCCTACCTAAGA
6115909 GTCACATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 2 0.06
31 22 0.61
32 12 0.33
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.14
Consensus pattern (30 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:6115891 original size:63 final size:63
Alignment explanation
Indices: 6115776--6115909 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 63
6115766 AAAGAGTTAC
* * ** *
6115776 CCTAAGAGAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTA
1 CCTAAGAGAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTA
*
6115839 CCTAAGA-ACACATCTTAGGGCC-GCA-AGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCC
1 CCTAAGAGA-ACATCTTAGGGCCTG-AGA-GCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCC
6115900 TA
62 TA
6115902 CCTAAGAG
1 CCTAAGAG
6115910 TCACATTAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
62 4 0.07
63 56 0.93
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (63 bp):
CCTAAGAGAACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTA
Found at i:6116836 original size:29 final size:29
Alignment explanation
Indices: 6116795--6116928 Score: 160
Period size: 29 Copynumber: 4.6 Consensus size: 29
6116785 CACATTCGAA
* *
6116795 AATTCCCAAAATGACACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* **
6116824 AATTCCCAGAATGTGACCTTTTTTGAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* * *
6116853 ATTTCACAGAATGTCACATTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* **
6116882 AATTCCCAAAATACCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
*
6116911 ATTTCCCAGAATGTCACC
1 AATTCCCAGAATGTCACC
6116929 GGTTAAGTCA
Statistics
Matches: 84, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 84 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCTTTTTCAAAAT
Found at i:6118330 original size:55 final size:55
Alignment explanation
Indices: 6118258--6118667 Score: 508
Period size: 55 Copynumber: 7.5 Consensus size: 55
6118248 ACCAATACAA
* * **
6118258 AAATTCATATACATATTATGAATTTCTTAATCTTGCACACAAAGTAACCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCCATACGG
* * * *
6118313 AAATTCATAAATTTATTATGAATTTCTT-AGCTTTGCACACAAAGTGCCCATATGA
1 AAATTCATAAACTTATTATGAATTTCTTAATC-TTGCACACAAAGTGCCCATACGG
* * * * *
6118368 AAATTCATAAACTTATTATGAATTTCTTAATCTTTCACACATAGTTCCCATGCAG
1 AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCCATACGG
* * *
6118423 AAATTCATAAA---ATTATGAATTTCTTAATCTTGCACACAAAGTGTCTATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCCATACGG
* * * ** **
6118475 AAATTCATAAA-TTATTGTGAATTTCTT-AGCTTTGCACATAAAGTGCTTATACAT
1 AAATTCATAAACTTATTATGAATTTCTTAATC-TTGCACACAAAGTGCCCATACGG
*
6118529 AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAATGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCCATACGG
* * *
6118584 AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAATGTACCCATACAG
1 AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCCATACGG
*
6118639 AAATTCATAAACTCATTATGAATTTCTTA
1 AAATTCATAAACTTATTATGAATTTCTTA
6118668 GATTTTTGCG
Statistics
Matches: 303, Mismatches: 45, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
52 44 0.15
53 2 0.01
54 44 0.15
55 209 0.69
56 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (55 bp):
AAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCCATACGG
Found at i:6119196 original size:96 final size:96
Alignment explanation
Indices: 6119019--6119225 Score: 227
Period size: 96 Copynumber: 2.2 Consensus size: 96
6119009 GGTACCCATA
* * * * * *
6119019 TCATGGTATCGATACTTCTATATTATGGTACCGATACTCCCTTTCAATATCAATACCATTTCGGC
1 TCATAGTACCGATACTTCTATATTATGGTACCAATACTCCATTACAATATCAATACCATTGCGGC
* *
6119084 ATTCTGTAAATTAATGGCATCGATACCTTTC
66 ATTCTGTAAATCAATGGCATCGATACCTTCC
** * ** *
6119115 TC-TCAGTACCGATACTTCTATATTATGGTATTAATACTCTATTACGGTATCAATACCATTGCTG
1 TCAT-AGTACCGATACTTCTATATTATGGTACCAATACTCCATTACAATATCAATACCATTGCGG
* * * *
6119179 TATTTTGTAAATCAATGGTATTGATACCTTCC
65 CATTCTGTAAATCAATGGCATCGATACCTTCC
*
6119211 TCATAGTATCGATAC
1 TCATAGTACCGATAC
6119226 CCACCTACAT
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
95 1 0.01
96 88 0.98
97 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (96 bp):
TCATAGTACCGATACTTCTATATTATGGTACCAATACTCCATTACAATATCAATACCATTGCGGC
ATTCTGTAAATCAATGGCATCGATACCTTCC
Found at i:6125413 original size:55 final size:55
Alignment explanation
Indices: 6125346--6125765 Score: 594
Period size: 55 Copynumber: 7.6 Consensus size: 55
6125336 CGCACTTCCA
* **
6125346 ATACGGAAATTCATATAGGTATTATGAATTTCTTAATCTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCC
* * *
6125401 ATACGAAAATTCATAAATTTATTATGAATTTCTT-AGCTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATC-TTGCACACAAAGTGCCC
* *
6125456 ATACGGAAATTCATACACTTATTATGAATTTCTTAATCTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCC
*
6125511 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCC
* * * *
6125566 ATACGGAAATTCATAAACTTGTTATGAATTTCTT-AGCTTTGCACACAAAGTACTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATC-TTGCACACAAAGTGCCC
* * * *
6125621 ATATGGAAATTTATAAACTTATTATGAATTTCATAATCTTGCTCACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCC
* * * *
6125676 ATATGAAAATTCATAAACTTATTATGAATTTCATAATCTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCC
*
6125731 ATACGAAAATTCATAAA-TTCATTATGAATTTCTTA
1 ATACGGAAATTCATAAACTT-ATTATGAATTTCTTA
6125766 GATTTCTGTA
Statistics
Matches: 328, Mismatches: 32, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
54 6 0.02
55 318 0.97
56 4 0.01
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAATCTTGCACACAAAGTGCCC
Found at i:6126252 original size:19 final size:19
Alignment explanation
Indices: 6126208--6126253 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
6126198 TTAATGGTAT
*
6126208 CGATACCTTTTTCTCAGTC
1 CGATACTTTTTTCTCAGTC
6126227 CGATACTTTTTTCTCAGTC
1 CGATACTTTTTTCTCAGTC
6126246 CGATACTT
1 CGATACTT
6126254 ATATATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.43
Consensus pattern (19 bp):
CGATACTTTTTTCTCAGTC
Found at i:6127241 original size:62 final size:60
Alignment explanation
Indices: 6127165--6127459 Score: 315
Period size: 62 Copynumber: 4.8 Consensus size: 60
6127155 TTATTACAAG
*
6127165 AAATAACAAAGGTTGACTTCTCTTTACTATGG-AGTCAAGGGTTGACTCTACTAGGGAGTCAA
1 AAATAACAAAGGTTGACTTCT-TTTACGA-GGAAGTCAAGGGTTGACTCTACTAGGGAGT-AA
* * * * *
6127227 AAATAACAAAGGTTGAGTTCTTTTCATGAGGAAATCGAGGGTTGACTCTACT-GAGGAGTTAG
1 AAATAACAAAGGTTGACTTCTTTT-ACGAGGAAGTCAAGGGTTGACTCTACTAG-GGAG-TAA
* * * * * * *
6127289 AAATAACACAGTTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTATTGGGGAATGAG
1 AAATAACAAAGGTTGACTTCT-TTTACGAGGAAGTCAAGGGTTGACTCTACTAGGGAGT-AA
* * *
6127351 AACTAACAAAGGTTGACTTCTTTTCACGAGGAAGTCAATGATTGACTCTACTAGGGAGTAA
1 AAATAACAAAGGTTGACTTCTTTT-ACGAGGAAGTCAAGGGTTGACTCTACTAGGGAGTAA
* *
6127412 GAAATAACACAGGTTGACTTCTTTTAATGAGGAAGTCAAGGGTTGACT
1 -AAATAACAAAGGTTGACTTCTTTT-ACGAGGAAGTCAAGGGTTGACT
6127460 GTAGGAAACA
Statistics
Matches: 193, Mismatches: 31, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
61 10 0.05
62 179 0.93
63 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (60 bp):
AAATAACAAAGGTTGACTTCTTTTACGAGGAAGTCAAGGGTTGACTCTACTAGGGAGTAA
Found at i:6127358 original size:124 final size:124
Alignment explanation
Indices: 6127162--6127459 Score: 384
Period size: 124 Copynumber: 2.4 Consensus size: 124
6127152 GGGTTATTAC
* * * *
6127162 AAGAAATAACAAAGGTTGACTTCTCTTTACTATGG-AGTCAAGGGTTGACTCTACTAGGGAGTCA
1 AAGAAATAACACAGGTTGACTTCTCTTAACGA-GGAAGTCAAGGGTTGACTCTACTAGGGAATCA
* * * *
6127226 AAAATAACAAAGGTTGAGTTCTTTTCATGAGGAAATCGAGGGTTGACTCTACT-GAGGAGT
65 AAAATAACAAAGGTTGACTTCTTTTCACGAGGAAATCAAGGATTGACTCTACTAG-GGAGT
* * * * * * *
6127286 TAGAAATAACACAGTTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTATTGGGGAATGAG
1 AAGAAATAACACAGGTTGACTTCTCTTAACGAGGAAGTCAAGGGTTGACTCTACTAGGGAATCAA
* * *
6127351 AACTAACAAAGGTTGACTTCTTTTCACGAGGAAGTCAATGATTGACTCTACTAGGGAGT
66 AAATAACAAAGGTTGACTTCTTTTCACGAGGAAATCAAGGATTGACTCTACTAGGGAGT
* *
6127410 AAGAAATAACACAGGTTGACTTCTTTTAATGAGGAAGTCAAGGGTTGACT
1 AAGAAATAACACAGGTTGACTTCTCTTAACGAGGAAGTCAAGGGTTGACT
6127460 GTAGGAAACA
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
123 2 0.01
124 147 0.98
125 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (124 bp):
AAGAAATAACACAGGTTGACTTCTCTTAACGAGGAAGTCAAGGGTTGACTCTACTAGGGAATCAA
AAATAACAAAGGTTGACTTCTTTTCACGAGGAAATCAAGGATTGACTCTACTAGGGAGT
Found at i:6128656 original size:81 final size:80
Alignment explanation
Indices: 6128508--6128660 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
6128498 TAATATGGGT
* * * * * * * * *
6128508 CTTCAAATATGCCTTAACATTTATTATTTCTTGCTGAAACGGGTCTTCAAAATGCCCCACCATTT
1 CTTCAAAAATACCCTAACATTTATTACTTCTGGATGAAACGGGCCTTAAAAATGCCCCAACATTT
6128573 ATCATTTAAACGAGC
66 ATCATTTAAACGAGC
6128588 CTTCAAAAATACCCTAACATTTATTACTTCTGGATGACAA-GGGCCTTTAAAAATGCCCCAACAT
1 CTTCAAAAATACCCTAACATTTATTACTTCTGGATGA-AACGGGCC-TTAAAAATGCCCCAACAT
6128652 TTATCATTT
64 TTATCATTT
6128661 CTTGCTCCCA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 35 0.56
81 27 0.44
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (80 bp):
CTTCAAAAATACCCTAACATTTATTACTTCTGGATGAAACGGGCCTTAAAAATGCCCCAACATTT
ATCATTTAAACGAGC
Found at i:6135428 original size:2 final size:2
Alignment explanation
Indices: 6135421--6135453 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6135411 CATAAAACAA
*
6135421 AT AT AT AT AT AT AT AT AT AT AT AT TT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6135454 TTAATACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6135746 original size:17 final size:18
Alignment explanation
Indices: 6135719--6135758 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
6135709 AATCAGTGTC
6135719 TAAAATTGAAA-CAAAA-
1 TAAAATTGAAATCAAAAT
6135735 TAAAATTTGAAATCAAAAT
1 TAAAA-TTGAAATCAAAAT
6135754 TAAAA
1 TAAAA
6135759 CACGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 5 0.24
19 5 0.24
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (18 bp):
TAAAATTGAAATCAAAAT
Found at i:6138883 original size:17 final size:17
Alignment explanation
Indices: 6138861--6138894 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6138851 CATCGAAAAA
6138861 CATAAAATATGACTTTT
1 CATAAAATATGACTTTT
*
6138878 CATAAAATTTGACTTTT
1 CATAAAATATGACTTTT
6138895 TGATCAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
CATAAAATATGACTTTT
Found at i:6138919 original size:16 final size:16
Alignment explanation
Indices: 6138898--6138942 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6138888 GACTTTTTGA
*
6138898 TCAAAGTTAACGCTAG
1 TCAAAGTTAACGATAG
* * *
6138914 TCAAAGTCAACTATGG
1 TCAAAGTTAACGATAG
6138930 TCAAAGTTAACGA
1 TCAAAGTTAACGA
6138943 GTTGACTCAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (16 bp):
TCAAAGTTAACGATAG
Found at i:6141267 original size:17 final size:19
Alignment explanation
Indices: 6141226--6141270 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
6141216 TAAATTAAAC
6141226 TATATTA-ATCATTATATT
1 TATATTATATCATTATATT
6141244 T-TAATTATA-CATT-TATT
1 TAT-ATTATATCATTATATT
6141261 TATATTATAT
1 TATATTATAT
6141271 ATCATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
17 12 0.52
18 10 0.43
19 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATCATTATATT
Found at i:6141531 original size:16 final size:16
Alignment explanation
Indices: 6141510--6141542 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6141500 TAGATATTAA
6141510 AGTCCTAATAATAAGT
1 AGTCCTAATAATAAGT
6141526 AGTCCTAATAATAAGT
1 AGTCCTAATAATAAGT
6141542 A
1 A
6141543 CCAATAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (16 bp):
AGTCCTAATAATAAGT
Found at i:6143071 original size:12 final size:12
Alignment explanation
Indices: 6143046--6143115 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
6143036 ACGAAGATAT
* *
6143046 CAGAAATCAAAA
1 CAGAATTCAGAA
6143058 CAGAATTCAGAA
1 CAGAATTCAGAA
*
6143070 CAG-ATATCAGCA
1 CAGAAT-TCAGAA
* * *
6143082 TAGAATCCAGAT
1 CAGAATTCAGAA
*
6143094 CAGAAATCAGAA
1 CAGAATTCAGAA
6143106 CAGAATTCAG
1 CAGAATTCAG
6143116 GTCATTTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:6143073 original size:24 final size:24
Alignment explanation
Indices: 6143046--6143138 Score: 87
Period size: 24 Copynumber: 3.9 Consensus size: 24
6143036 ACGAAGATAT
*
6143046 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * * * *
6143070 CAGATATCAGCATAGAATCCAGAT
1 CAGAAATCAGAACAGAATTCAGAA
**
6143094 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAGAACAGAATTCAGAA
***
6143118 CATTTATCAGAACAGAATTCA
1 CAGAAATCAGAACAGAATTCA
6143139 AGTCGGAAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.19
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:6143135 original size:48 final size:47
Alignment explanation
Indices: 6143044--6143152 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 47
6143034 AAACGAAGAT
* * *
6143044 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGCATAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
** ** *
6143091 GATCAGAAATCAGAACAGAATTCAGGTCATTTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
*
6143139 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
6143153 TAAAATATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.02
48 50 0.98
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
Found at i:6143150 original size:24 final size:24
Alignment explanation
Indices: 6143045--6143152 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 24
6143035 AACGAAGATA
*
6143045 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * * * *
6143068 AACAGATATCAGCATAGAA-TCCAG
1 -TCAGAAATCAGAACAGAATTCAAG
*
6143092 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
***
6143117 TCATTTATCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
*
6143141 TCGGAAATCAGA
1 TCAGAAATCAGA
6143153 TAAAATATTT
Statistics
Matches: 63, Mismatches: 19, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
23 2 0.03
24 58 0.92
25 3 0.05
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:6144300 original size:18 final size:18
Alignment explanation
Indices: 6144279--6144314 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6144269 CTTCCATCCG
*
6144279 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
6144297 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
6144315 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:6144662 original size:17 final size:19
Alignment explanation
Indices: 6144621--6144664 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
6144611 TCCAAATAAA
*
6144621 ATCAACATTTCTTATGCAC
1 ATCAATATTTCTTATGCAC
*
6144640 ATCAATATTT-TTAT-CAG
1 ATCAATATTTCTTATGCAC
6144657 ATCAATAT
1 ATCAATAT
6144665 GTCTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 9 0.39
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (19 bp):
ATCAATATTTCTTATGCAC
Found at i:6145532 original size:18 final size:18
Alignment explanation
Indices: 6145509--6145565 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
6145499 GCCGGTCAAC
6145509 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
6145527 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
6145545 GGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
6145563 GGT
1 GGT
6145566 TGTGACCGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.12, C:0.19, G:0.51, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:6147661 original size:12 final size:12
Alignment explanation
Indices: 6147636--6147705 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
6147626 ACGAAGATAT
* *
6147636 CAGAAATCAAAA
1 CAGAATTCAGAA
6147648 CAGAATTCAGAA
1 CAGAATTCAGAA
*
6147660 CAG-ATATCAGCA
1 CAGAAT-TCAGAA
* *
6147672 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
6147684 CAGAAATCATAA
1 CAGAATTCAGAA
6147696 CAGAATTCAG
1 CAGAATTCAG
6147706 GTCATTTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:6147716 original size:48 final size:48
Alignment explanation
Indices: 6147634--6147725 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
6147624 AAACGAAGAT
*
6147634 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGCACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
* ** **
6147682 ATCAGAAATCATAACAGAATTCAGGTCATTTATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAAT
6147726 TCAAGTCGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
Found at i:6147738 original size:48 final size:48
Alignment explanation
Indices: 6147634--6147740 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 48
6147624 AAACGAAGAT
* *
6147634 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGCACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
* ** **
6147682 ATCAGAAATCATAACAGAATTCAGGTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAA-TCAAG
*
6147731 -TCGGAAATCA
1 ATCAGAAATCA
6147741 GATAAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
48 46 0.92
49 4 0.08
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
Found at i:6147740 original size:24 final size:25
Alignment explanation
Indices: 6147634--6147742 Score: 91
Period size: 24 Copynumber: 4.5 Consensus size: 25
6147624 AAACGAAGAT
*
6147634 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * * *
6147658 AACAGATATCAGCACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
6147682 ATCAGAAATCATAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* ***
6147706 GTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
6147731 -TCGGAAATCAGA
1 ATCAGAAATCAGA
6147743 TAAAATATTT
Statistics
Matches: 65, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
23 2 0.03
24 59 0.91
25 4 0.06
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:6148867 original size:18 final size:18
Alignment explanation
Indices: 6148846--6148881 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6148836 CTTCCATCCG
*
6148846 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
6148864 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
6148882 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:6150110 original size:18 final size:18
Alignment explanation
Indices: 6150087--6150121 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6150077 GTCAACGGTC
6150087 AACGGGTCGGGTCGGGTA
1 AACGGGTCGGGTCGGGTA
6150105 AACGGGTCGGGTCGGGT
1 AACGGGTCGGGTCGGGT
6150122 TGTGACCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.51, T:0.17
Consensus pattern (18 bp):
AACGGGTCGGGTCGGGTA
Found at i:6152207 original size:12 final size:12
Alignment explanation
Indices: 6152182--6152251 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
6152172 ACGAAGATAT
* *
6152182 CAGAAATCAAAA
1 CAGAATTCAGAA
6152194 CAGAATTCAGAA
1 CAGAATTCAGAA
*
6152206 CAG-ATATCAGCA
1 CAGAAT-TCAGAA
* *
6152218 CAGAATCCAGAT
1 CAGAATTCAGAA
*
6152230 CAGAAATCAGAA
1 CAGAATTCAGAA
6152242 CAGAATTCAG
1 CAGAATTCAG
6152252 GTCATTTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:6152262 original size:48 final size:47
Alignment explanation
Indices: 6152180--6152288 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 47
6152170 AAACGAAGAT
* *
6152180 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGCACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
** ** *
6152227 GATCAGAAATCAGAACAGAATTCAGGTCATTTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
*
6152275 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
6152289 TAAAATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.02
48 51 0.98
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
Found at i:6152286 original size:24 final size:25
Alignment explanation
Indices: 6152180--6152288 Score: 100
Period size: 24 Copynumber: 4.5 Consensus size: 25
6152170 AAACGAAGAT
*
6152180 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * * *
6152204 AACAGATATCAGCACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
6152228 ATCAGAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* ***
6152252 GTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
6152277 -TCGGAAATCAGA
1 ATCAGAAATCAGA
6152289 TAAAATATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
23 2 0.03
24 61 0.91
25 4 0.06
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.18
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:6153430 original size:18 final size:18
Alignment explanation
Indices: 6153409--6153444 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6153399 CTTCCATCCG
*
6153409 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
6153427 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
6153445 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:6154665 original size:18 final size:18
Alignment explanation
Indices: 6154642--6154694 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
6154632 GTCAACGGTC
6154642 AACGGGTCGGGTCGGGTA
1 AACGGGTCGGGTCGGGTA
6154660 AACGGGTCGGGTCGGGTA
1 AACGGGTCGGGTCGGGTA
6154678 AACGGGTCGGGTCGGGT
1 AACGGGTCGGGTCGGGT
6154695 TGTGACCGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.15, C:0.17, G:0.51, T:0.17
Consensus pattern (18 bp):
AACGGGTCGGGTCGGGTA
Found at i:6158309 original size:26 final size:27
Alignment explanation
Indices: 6158280--6158355 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
6158270 TTGAAATAAC
6158280 CAAACTC-AATTTTGGATTTATAGCAT
1 CAAACTCAAATTTTGGATTTATAGCAT
6158306 CAAACTCAAATTTTGGATTTATAGCAT
1 CAAACTCAAATTTTGGATTTATAGCAT
6158333 CAAACTCAAATTTTGGATTTATA
1 CAAACTCAAATTTTGGATTTATA
6158356 ATTATTATAC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (27 bp):
CAAACTCAAATTTTGGATTTATAGCAT
Found at i:6160350 original size:22 final size:21
Alignment explanation
Indices: 6160318--6160363 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
6160308 TGCAAAAATT
6160318 AAAATAACAGT-AGCTAAATCA
1 AAAATAACAGTGA-CTAAATCA
*
6160339 AAAACTAACAGTGACTAAATTA
1 AAAA-TAACAGTGACTAAATCA
6160361 AAA
1 AAA
6160364 TAAAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 17 0.77
23 1 0.05
ACGTcount: A:0.59, C:0.13, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAATAACAGTGACTAAATCA
Found at i:6160370 original size:22 final size:21
Alignment explanation
Indices: 6160313--6160367 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
6160303 CAAAATGCAA
6160313 AAATTAAAAT-AACAGTAGCT
1 AAATTAAAATAAACAGTAGCT
*
6160333 AAATCAAAA-ACTAACAGT-GACT
1 AAATTAAAATA--AACAGTAG-CT
6160355 AAATTAAAATAAA
1 AAATTAAAATAAA
6160368 ACAAAATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 16 0.57
23 1 0.04
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.22
Consensus pattern (21 bp):
AAATTAAAATAAACAGTAGCT
Found at i:6161533 original size:13 final size:13
Alignment explanation
Indices: 6161515--6161540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6161505 ATTATCTAAT
6161515 AGATAGAGATAAA
1 AGATAGAGATAAA
6161528 AGATAGAGATAAA
1 AGATAGAGATAAA
6161541 CATCCTCATG
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:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (13 bp):
AGATAGAGATAAA
Found at i:6161735 original size:2 final size:2
Alignment explanation
Indices: 6161728--6161769 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
6161718 AATGGTATTA
6161728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6161769 A
1 A
6161770 AACGACTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6162408 original size:6 final size:6
Alignment explanation
Indices: 6162393--6162443 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
6162383 GCCAATTTTT
* *
6162393 TATTTG TATTTA TATTTG TATTTA TATTTG TATTTG TATTTG TATTTG
1 TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG
6162441 TAT
1 TAT
6162444 CATATAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.67
Consensus pattern (6 bp):
TATTTG
Found at i:6168060 original size:305 final size:302
Alignment explanation
Indices: 6167473--6168075 Score: 1106
Period size: 305 Copynumber: 2.0 Consensus size: 302
6167463 AACTGCGTTA
6167473 AATCATTAAAAATCATTCAAGACTACCTCAACGGTAGAAAACGAGAACATCTACGGTGGATGACA
1 AATCATTAAAAATCATTCAAGACTACCTCAACGGTAGAAAACGAGAACATCTACGGTGGATGACA
6167538 AACCCGGTCGGGTTTTACACGAAAACAAGCCGGTGAACCCGTTGTGACGGTGGTGAGGAGAGATG
66 AACCCGGTCGGGTTTTACACG-AAACAAGCCGGTGAACCCGTTGTGACGGTGGTGAGGAGAGATG
6167603 GCGCTGGGTCGACCATGTTTTAAACCAAAACGAGGTGATCGGGCGGGGGTTTGGTGTCGACTTCA
130 GCGCTGGGTCGACCATGTTTTAAACCAAAACGAGGTGATCGGGCGGGGGTTTGGTGTCGACTTCA
6167668 CCTATCGATTCAGCTAAATAATGGAACTTTTGACAAATTACCTGAGGGGTCCTGGGTCGAACGGT
195 CCTATCGATTCAGCTAAATAATGGAACTTTTGACAAATTACCTGAGGGGTCCTGGGTCGAACGGT
6167733 ACTGACACTTCGATTGGGGAC-GGCAGTGACATGCACTCGGTC
260 ACTGACACTTCGATTGGGGACGGGCAGTGACATGCACTCGGTC
6167775 AATCAATTAAAAATCATTCAAGACTTACCCTCAACGGTAGAAAACGAGAACATCTACGGTGGATG
1 AATC-ATTAAAAATCATTCAAGAC-TA-CCTCAACGGTAGAAAACGAGAACATCTACGGTGGATG
6167840 ACAAACCCGGTCGGGTTTTACACG-AACAAGCCGGTGAACCCGTTGGTGACGGTGGTGAGGAGAG
63 ACAAACCCGGTCGGGTTTTACACGAAACAAGCCGGTGAACCCGTT-GTGACGGTGGTGAGGAGAG
6167904 ATGGTCGCTGGGTCGACCATGTTTTAAACCAAAACGAGGTGATCGGGCGGGGGTTTTGGTGTCGA
127 ATGG-CGCTGGGTCGACCATGTTTTAAACCAAAACGAGGTGATCGGGCGGGGG-TTTGGTGTCGA
6167969 CTTCACCTATCGATTCAGCTAAATAATGGTAACTTTTGACAAATTACCTGAGGGGTCCT-GGTCG
190 CTTCACCTATCGATTCAGCTAAATAATGG-AACTTTTGACAAATTACCTGAGGGGTCCTGGGTCG
6168033 AACGGTACTGACACTTCGATT-GGGACGGGCAGTGACATGCACT
254 AACGGTACTGACACTTCGATTGGGGACGGGCAGTGACATGCACT
6168076 GTCGGTCATA
Statistics
Matches: 293, Mismatches: 0, Indels: 12
0.96 0.00 0.04
Matches are distributed among these distances:
302 4 0.01
303 39 0.13
304 25 0.09
305 114 0.39
306 82 0.28
307 29 0.10
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (302 bp):
AATCATTAAAAATCATTCAAGACTACCTCAACGGTAGAAAACGAGAACATCTACGGTGGATGACA
AACCCGGTCGGGTTTTACACGAAACAAGCCGGTGAACCCGTTGTGACGGTGGTGAGGAGAGATGG
CGCTGGGTCGACCATGTTTTAAACCAAAACGAGGTGATCGGGCGGGGGTTTGGTGTCGACTTCAC
CTATCGATTCAGCTAAATAATGGAACTTTTGACAAATTACCTGAGGGGTCCTGGGTCGAACGGTA
CTGACACTTCGATTGGGGACGGGCAGTGACATGCACTCGGTC
Found at i:6171498 original size:26 final size:26
Alignment explanation
Indices: 6171469--6171529 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
6171459 CAAATATAGA
* *
6171469 AATTAATTTTTTAAT-CTAGTGATCAT
1 AATTAATTTTTT-ATCCTAATCATCAT
*
6171495 AATTAAACTTTTTATCCTAATCATCAT
1 AATT-AATTTTTTATCCTAATCATCAT
6171522 AATTAATT
1 AATTAATT
6171530 ATGTGCCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.48
Consensus pattern (26 bp):
AATTAATTTTTTATCCTAATCATCAT
Found at i:6171963 original size:26 final size:28
Alignment explanation
Indices: 6171923--6171978 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
6171913 TATACAAAAA
6171923 TTATTAATCTAATGA-CATAATTAA-AT
1 TTATTAATCTAATGATCATAATTAATAT
* * *
6171949 TTATTATTCTCATGATTATAATTAATAT
1 TTATTAATCTAATGATCATAATTAATAT
6171977 TT
1 TT
6171979 TTTTAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.52
27 8 0.32
28 4 0.16
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (28 bp):
TTATTAATCTAATGATCATAATTAATAT
Found at i:6174076 original size:3 final size:3
Alignment explanation
Indices: 6174070--6174132 Score: 63
Period size: 3 Copynumber: 20.0 Consensus size: 3
6174060 ATTTTAAAAT
* * * *
6174070 TTA TTA TTA TTTA TTA TAA TTA TAA TTA TAA TTA TTA GTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6174116 TATA TTA TTA TTTA TTA
1 T-TA TTA TTA -TTA TTA
6174133 AATTACAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
3 40 0.82
4 9 0.18
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:6174081 original size:10 final size:10
Alignment explanation
Indices: 6174068--6174132 Score: 64
Period size: 10 Copynumber: 6.8 Consensus size: 10
6174058 TTATTTTAAA
6174068 ATTTATTATT
1 ATTTATTATT
6174078 ATTTATTA-T
1 ATTTATTATT
* *
6174087 AATTATAATT
1 ATTTATTATT
*
6174097 A-TAATTATT
1 ATTTATTATT
*
6174106 A-GTATTATT
1 ATTTATTATT
*
6174115 ATATATTATT
1 ATTTATTATT
6174125 ATTTATTA
1 ATTTATTA
6174133 AATTACAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
9 21 0.47
10 24 0.53
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
ATTTATTATT
Found at i:6186746 original size:13 final size:12
Alignment explanation
Indices: 6186727--6186815 Score: 81
Period size: 12 Copynumber: 7.2 Consensus size: 12
6186717 TATGCTTAAT
* *
6186727 GAAAAAATAATA
1 GAAAAAAAAAAA
*
6186739 GAAAAAAAAAGA
1 GAAAAAAAAAAA
6186751 GAAAAGAAAAAAA
1 GAAAA-AAAAAAA
6186764 GAAAAGAAAGAAAA
1 GAAAA-AAA-AAAA
*
6186778 -AAAGGAAAAAAA
1 GAAA-AAAAAAAA
*
6186790 GAAAAGAAAAAA
1 GAAAAAAAAAAA
*
6186802 GAAAAAGAAAAA
1 GAAAAAAAAAAA
6186814 GA
1 GA
6186816 GGGGTCAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
12 37 0.57
13 24 0.37
14 4 0.06
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:6186792 original size:26 final size:25
Alignment explanation
Indices: 6186738--6186813 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 25
6186728 AAAAAATAAT
6186738 AGAAAA-AAAAAGAGAAAAGAAAAAA
1 AGAAAAGAAAAA-AGAAAAGAAAAAA
6186763 AGAAAAGAAAGAAA-AAAAGGAAAAAA
1 AGAAAAGAAA-AAAGAAAA-GAAAAAA
6186789 AGAAAAGAAAAAAGAAAAAGAAAAA
1 AGAAAAGAAAAAAG-AAAAGAAAAA
6186814 GAGGGGTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
25 13 0.28
26 27 0.59
27 6 0.13
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (25 bp):
AGAAAAGAAAAAAGAAAAGAAAAAA
Found at i:6186806 original size:17 final size:16
Alignment explanation
Indices: 6186728--6186813 Score: 77
Period size: 17 Copynumber: 5.1 Consensus size: 16
6186718 ATGCTTAATG
* *
6186728 AAAAAATAATAGAAAA
1 AAAAAAGAAAAGAAAA
6186744 AAAAAGAGAAAAGAAAA
1 AAAAA-AGAAAAGAAAA
6186761 AAAGAAA-AGAAAGAAAA
1 AAA-AAAGA-AAAGAAAA
6186778 AAAGGAAA-AAAAGAAAA
1 AAA--AAAGAAAAGAAAA
6186795 GAAAAAAGAAAAAGAAAA
1 -AAAAAAG-AAAAGAAAA
6186813 A
1 A
6186814 GAGGGGTCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.15
17 33 0.54
18 19 0.31
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAAGAAAA
Found at i:6188083 original size:83 final size:83
Alignment explanation
Indices: 6187951--6188249 Score: 535
Period size: 83 Copynumber: 3.6 Consensus size: 83
6187941 TGCAATGTAC
6187951 TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAA
1 TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAA
6188016 TTTGAAAGATGAATGTGA
66 TTTGAAAGATGAATGTGA
*
6188034 TCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAA
1 TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAA
6188099 TTTGAAAGATGAATGTGA
66 TTTGAAAGATGAATGTGA
*
6188117 TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTCATTGAA
1 TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAA
* * *
6188182 TTTGGAAGAGGAATGTGC
66 TTTGAAAGATGAATGTGA
* *
6188200 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTA
1 TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
6188250 TGAAACCACA
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 208 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (83 bp):
TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAA
TTTGAAAGATGAATGTGA
Found at i:6188443 original size:115 final size:115
Alignment explanation
Indices: 6188201--6188405 Score: 306
Period size: 115 Copynumber: 1.8 Consensus size: 115
6188191 GGAATGTGCT
*
6188201 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTATGAAACCACAGAACAA
1 AATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTATGAAACCACAGAACAA
* * * *
6188266 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
66 ATCATTGGAATTAAAAGATGAATCTGCTCATAGTAGAAATAAGAAGACTC
* * * * *
6188316 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GGAACTACAGAACCA
1 AATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTATGAAACCACAGAACAA
6188380 ATCATTGGAATTAAAAGATGAA-CTGC
66 ATCATTGGAATTAAAAGATGAATCTGC
6188406 ATGATCGTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
113 3 0.04
114 32 0.39
115 48 0.58
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (115 bp):
AATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTATGAAACCACAGAACAA
ATCATTGGAATTAAAAGATGAATCTGCTCATAGTAGAAATAAGAAGACTC
Found at i:6188853 original size:95 final size:95
Alignment explanation
Indices: 6188690--6188883 Score: 370
Period size: 95 Copynumber: 2.0 Consensus size: 95
6188680 TATTCTCCTC
6188690 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
6188755 AAAGATCACTTCATAATCAGATGAGTTGTT
66 AAAGATCACTTCATAATCAGATGAGTTGTT
6188785 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
* *
6188850 AAAGATCACTTTATAATTAGATGAGTTGTT
66 AAAGATCACTTCATAATCAGATGAGTTGTT
6188880 ATCA
1 ATCA
6188884 TAATTGACAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (95 bp):
ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
AAAGATCACTTCATAATCAGATGAGTTGTT
Found at i:6189633 original size:230 final size:225
Alignment explanation
Indices: 6189222--6190546 Score: 1696
Period size: 230 Copynumber: 5.8 Consensus size: 225
6189212 TGTCAGTTAG
* *
6189222 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
6189287 A-CTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAA
6189351 CTCATCTGAAGAA-G-A-AAG-AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCC
131 CTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCC
*
6189412 ATCACTTGATGGATTAGCTTTGCCAGAGAA
196 ATCACTTGATGGATCAGCTTTGCCAGAGAA
*
6189442 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * * *
6189507 AACCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTTTTCCAG-GTAGAGTTCATAATGAGAA
65 AACCTTTTGCTCAAATCCATCACTTGATGGATTAG-CTTTGCCAGAG-AAAGTTCATAATGAGAA
*
6189571 GAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
128 GAACTCA-T-C-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
6189636 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
190 AAATCCATCACTTGATGGATCAGCTTTGCCAGAGAA
* *
6189672 AGTTCAT-ATAAGAATAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
6189736 AACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGA
65 AACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGA
*
6189801 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATC
130 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
* * * *
6189866 CATCATTTGATGGATCAGTTTTTTCCAG-GTAG
195 CATCACTTGATGGATCAG-CTTTGCCAGAG-AA
6189898 AGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCA-T-C-TGAA-GAGGAAGAAGAAATTCATAATGAGAAGAATTTG
6189963 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGA
62 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGA
* *
6190028 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGTTCAA
127 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
* * * *
6190093 ATCCATCATTTGATGGATCAGTTTTTTCCAG-GTAG
192 ATCCATCACTTGATGGATCAG-CTTTGCCAGAG-AA
6190128 AGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCA-T-C-TGAA-GAGGAAGAAGAAATTCATAATGAGAAGAATTTG
* * * ** *
6190193 TTCAACCTTATG--C---T-CATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGA
62 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGA
* * * * *
6190252 AGAATTCATCTGAAGAAGGAAGAA-AAAGTTCACAATGAGAAGAACTTGTTTAACCTTTTGTTCA
127 AGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
* *
6190316 AATTCATCACTTGATGGATCAACATTT-CCAGAGAA
191 AATCCATCACTTGATGGATCAGC-TTTGCCAGAGAA
* * * * * **
6190351 AGTTCATAATAAGAAGAACTTATTTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * ** * *
6190416 ACCTTTTGCAT-AATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAAAGTTCA
66 ACCTTTTGC-TCAAATCCATCAC-----TTGATGGATTAGC-T-----TTGCCAGAGAAAGTTCA
* * * * * * * *
6190480 TAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGAAGAACTTATTCAACCTT
119 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
6190545 TT
184 TT
6190547 AATGACTCTA
Statistics
Matches: 995, Mismatches: 69, Indels: 66
0.88 0.06 0.06
Matches are distributed among these distances:
219 40 0.04
220 33 0.03
221 34 0.03
222 32 0.03
223 57 0.06
224 120 0.12
225 80 0.08
226 22 0.02
227 14 0.01
228 33 0.03
229 92 0.09
230 365 0.37
231 2 0.00
236 69 0.07
237 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (225 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAA
CTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCC
ATCACTTGATGGATCAGCTTTGCCAGAGAA
Found at i:6189871 original size:342 final size:340
Alignment explanation
Indices: 6189219--6190546 Score: 1902
Period size: 342 Copynumber: 3.9 Consensus size: 340
6189209 CAGTGTCAGT
*
6189219 TAGAGTTCATAATGAGAAGAACTCATCTGAA-GAGGAAGAAGAAATTCATAATAAGAAGAACTTG
1 TAGAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAACTTG
6189283 TTCAA-CTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGA
66 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGA
6189347 AGAACTCATCTGAAGAA-G-A-AAG-AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
131 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
6189408 ATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
196 ATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
6189473 GGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGATGGA
261 GGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGATGGA
6189538 TCAGTTTTTTCCAGG
326 TCAGTTTTTTCCAGG
*
6189553 TAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAAT
1 TAGAGTTCATAATGAGAAGAACTCA-T-C-TGAAGGAGGAAGAAGAAATTCATAATGAGAAGAAC
6189618 TTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCAT-ATA
63 TTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATA
*
6189682 AGAATAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
128 AGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
6189747 CAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
193 CAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
6189812 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGAT
258 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGAT
6189877 GGATCAGTTTTTTCCAGG
323 GGATCAGTTTTTTCCAGG
*
6189895 TAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAAT
1 TAGAGTTCATAATGAGAAGAACTCA-T-C-TGAAGGAGGAAGAAGAAATTCATAATGAGAAGAAC
*
6189960 TTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATG
63 TTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATA
* *
6190025 AGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGTT
128 AGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
* * * * *
6190090 CAAATCCATCATTTGATGGATCAGTTTTTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATTAC
193 CAAATCCATCACTTGATGGATTAG-CTTTGCCAGAG-AAAGTTCATAATGAGAAGAACTCA-T-C
* * *
6190154 TTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC--AT-CA-C--
254 -TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCAT
* *
6190213 TTGATGGATCAG-CTTTTCCAGT
318 TTGATGGATCAGTTTTTTCCAGG
* * *
6190235 TAGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAA-AAAGTTCACAATGAGAAGAACTT
1 TAGAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAA-TTCATAATGAGAAGAACTT
* * * * *
6190299 GTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTT-CCAGAGAAAGTTCATAATAA
65 GTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGC-TTTGCCAGAGAAAGTTCATAATAA
* * * * **
6190363 GAAGAACTTATTTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT
129 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC-T
* * ** * * *
6190427 -AATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAAAGTTCATAATAAGAAGA
193 CAAATCCATCAC-----TTGATGGATTAGC-T-----TTGCCAGAGAAAGTTCATAATGAGAAGA
* * * * * *
6190491 ACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGAAGAACTTATTCAACCTTTT
247 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTT
6190547 AATGACTCTA
Statistics
Matches: 910, Mismatches: 54, Indels: 51
0.90 0.05 0.05
Matches are distributed among these distances:
334 25 0.03
335 1 0.00
336 51 0.06
337 104 0.11
338 62 0.07
339 54 0.06
340 33 0.04
341 24 0.03
342 310 0.34
343 128 0.14
344 33 0.04
345 4 0.00
346 30 0.03
347 51 0.06
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (340 bp):
TAGAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAACTTG
TTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGA
AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
ATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGATGGA
TCAGTTTTTTCCAGG
Found at i:6189990 original size:572 final size:558
Alignment explanation
Indices: 6189222--6190424 Score: 1912
Period size: 572 Copynumber: 2.1 Consensus size: 558
6189212 TGTCAGTTAG
*
6189222 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
*
6189287 A-CTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAA
6189351 CTCATCTGAAGAAGAAAGAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA
131 CTCATCTGAAGAAGAAAGAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA
6189416 CTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
196 CTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
6189481 AAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTT
261 AAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTT
6189546 TTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGA
326 TTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGA
* *
6189611 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTT
391 GAAGAATTTGTTCAACCTTATG--C---T-CATCACTTGATGGATCAGCTTTGCCAGAGAAAGTT
* * *
6189676 CAT-ATAAGAATAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTCAAC
450 CATAATAAGAAGAACTCATCTGAAGAAGGAAGAA-AAAGTTCACAATGAGAAGAACTTGTTCAAC
* *
6189739 CTTTTGCTCAAATCCATCACTTGATGGATTAGC-TTTGCCAGAGAA
514 CTTTTGCTCAAATCCATCACTTGATGGATCAACATTT-CCAGAGAA
* *
6189784 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
* * * * *
6189849 AACCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTTTTCCAG-GTAGAGTTCATAATGAGAA
65 AACCTTTTGCTCAAATCCATCACTTGATGGATCAG-CTTTGCCAGAG-AAAGTTCATAATAAGAA
*
6189913 GAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
128 GAACTCA-T-C-TGAA-GAAG-A-AAG-AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
6189978 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
186 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
6190043 AAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGTTCAAATCCATCATTTGATG
251 AAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGATG
6190108 GATCAGTTTTTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAA
316 GATCAGTTTTTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAA
* ** *
6190173 TTCATAATGAGAAGAATTTGTTCAACCTTATGCTCATCACTTGATGGATCAGCTTTTCCAGTTAG
381 TTCATAATGAGAAGAATTTGTTCAACCTTATGCTCATCACTTGATGGATCAGCTTTGCCAGAGAA
* * *
6190238 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAAAAGTTCACAATGAGAAGAACTTGTTT
446 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCACAATGAGAAGAACTTGTTC
* *
6190303 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
511 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAA
* * * * * *
6190351 AGTTCATAATAAGAAGAACTTATTTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
6190416 ACCTTTTGC
66 ACCTTTTGC
6190425 ATAATTCTAT
Statistics
Matches: 592, Mismatches: 35, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
562 29 0.05
563 34 0.06
564 31 0.05
565 29 0.05
566 77 0.13
567 115 0.19
568 7 0.01
569 3 0.01
570 2 0.00
571 3 0.01
572 262 0.44
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (558 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAA
CTCATCTGAAGAAGAAAGAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA
CTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
AAATTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTT
TTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGA
GAAGAATTTGTTCAACCTTATGCTCATCACTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAAT
AAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGC
TCAAATCCATCACTTGATGGATCAACATTTCCAGAGAA
Found at i:6190270 original size:110 final size:109
Alignment explanation
Indices: 6189219--6190420 Score: 998
Period size: 113 Copynumber: 10.7 Consensus size: 109
6189209 CAGTGTCAGT
* * * *
6189219 TAGAGTTCATAATGAGAAGAACTCA-TCTGAAGAGGAAGAAGAAATTCATAATAAGAAGAACTTG
1 TAGAGTTCATAATGAGAAGAATTCATTATGAAGAGGAAGAAGAAATTCACAATGAGAAGAACTTG
* * *
6189283 TTCAA-CTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGA
66 TTCAACCTTATG-TC--AT-CATCACTTGATGGATCAGCTTTTCCAGA
* * * * * * * *
6189330 GAAAGTTCATAATAAGAAGAACTCA-TCTGAAGAAG-A-AAG-AATTCATAATGAGAAGAATTTG
1 TAGAGTTCATAATGAGAAGAATTCATTATGAAGAGGAAGAAGAAATTCACAATGAGAAGAACTTG
* * *
6189391 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGA
66 TTCAACCTTATG-TC--AT-CATCACTTGATGGATCAGCTTTTCCAGA
* * * * * *
6189439 GAAAGTTCATAATGAGAAGAACTCA-TCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 TAGAGTTCATAATGAGAAGAATTCATTATGAAG-AGGAAGAAGAAATTCACAATGAGAAGAACTT
* * * * *
6189503 ATTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTTTTCCAGG
65 GTTCAACCTTATG-TC--AT-CATCACTTGATGGATCAG-CTTTTCCAGA
* * *
6189553 TAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAAT
1 TAGAGTTCATAATGAGAAGAATTCATTA--TGAA-GAGGAAGAAGAAATTCACAATGAGAAGAAC
* * *
6189618 TTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGA
63 TTGTTCAACCTTATG-TC--AT-CATCACTTGATGGATCAGCTTTTCCAGA
* * * * * * * *
6189669 GAAAGTTCAT-ATAAGAATAACTCA-TCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 TAGAGTTCATAATGAGAAGAATTCATTATGAAG-AGGAAGAAGAAATTCACAATGAGAAGAACTT
* * *
6189732 GTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGA
65 GTTCAACCTTATG-TC--AT-CATCACTTGATGGATCAGCTTTTCCAGA
* * * * * *
6189781 GAAAGTTCATAATGAGAAGAACTCA-TCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 TAGAGTTCATAATGAGAAGAATTCATTATGAAG-AGGAAGAAGAAATTCACAATGAGAAGAACTT
* * * * *
6189845 ATTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGTTTTTTCCAGG
65 GTTCAACCTTATG-TC--AT-CATCACTTGATGGATCAG-CTTTTCCAGA
* * *
6189895 TAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAAT
1 TAGAGTTCATAATGAGAAGAATTCATTA--TGAA-GAGGAAGAAGAAATTCACAATGAGAAGAAC
* * *
6189960 TTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGA
63 TTGTTCAACCTTATG-TC--AT-CATCACTTGATGGATCAGCTTTTCCAGA
* * * * * *
6190011 GAAAGTTCATAATGAGAAGAACTCA-TCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 TAGAGTTCATAATGAGAAGAATTCATTATGAAG-AGGAAGAAGAAATTCACAATGAGAAGAACTT
* * * * *
6190075 ATTCAACCTTTTGTTCAAATCCATCATTTGATGGATCAGTTTTTTCCAGG
65 GTTCAACCTTATG-TC--AT-CATCACTTGATGGATCAG-CTTTTCCAGA
* * *
6190125 TAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAAT
1 TAGAGTTCATAATGAGAAGAATTCATTA--TGAA-GAGGAAGAAGAAATTCACAATGAGAAGAAC
*
6190190 TTGTTCAACCTTATG-C-TCATCACTTGATGGATCAGCTTTTCCAGT
63 TTGTTCAACCTTATGTCATCATCACTTGATGGATCAGCTTTTCCAGA
*
6190235 TAGAGTTCATAATGAGAAGAATTCA-TCTGAAGAAGGAAGAA-AAAGTTCACAATGAGAAGAACT
1 TAGAGTTCATAATGAGAAGAATTCATTATGAAG-AGGAAGAAGAAA-TTCACAATGAGAAGAACT
* * * *
6190298 TGTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGA
64 TGTTCAACCTTATG-TC--A-TCATCACTTGATGGATCAGCTTTTCCAGA
* * * * *
6190348 GAAAGTTCATAATAAGAAGAACTT-ATT-TGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTT
1 TAGAGTTCATAATGAGAAGAA-TTCATTATGAAGAGGAAGAAGAAATTCACAATGAGAAGAACTT
6190411 GTTCAACCTT
65 GTTCAACCTT
6190421 TTGCATAATT
Statistics
Matches: 979, Mismatches: 78, Indels: 67
0.87 0.07 0.06
Matches are distributed among these distances:
106 4 0.00
107 40 0.04
108 25 0.03
109 78 0.08
110 35 0.04
111 50 0.05
112 134 0.14
113 266 0.27
114 94 0.10
115 17 0.02
116 45 0.05
117 188 0.19
118 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (109 bp):
TAGAGTTCATAATGAGAAGAATTCATTATGAAGAGGAAGAAGAAATTCACAATGAGAAGAACTTG
TTCAACCTTATGTCATCATCACTTGATGGATCAGCTTTTCCAGA
Found at i:6190492 original size:123 final size:123
Alignment explanation
Indices: 6190340--6190565 Score: 337
Period size: 123 Copynumber: 1.8 Consensus size: 123
6190330 TGGATCAACA
* * * * * *
6190340 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATTTG-AAGAGGAAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
* * * *
6190404 AGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
66 AGAACTTATTCAACCTTTT-AATAACTCTATCACAGAAGCAGATAGATTAGCATAAACC
6190463 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
*
6190528 AGAACTTATTCAACCTTTTAATGACTCTATCACAGAAG
66 AGAACTTATTCAACCTTTTAATAACTCTATCACAGAAG
6190566 GAAATAGGTC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
123 51 0.56
124 40 0.44
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (123 bp):
TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
AGAACTTATTCAACCTTTTAATAACTCTATCACAGAAGCAGATAGATTAGCATAAACC
Found at i:6190776 original size:3 final size:3
Alignment explanation
Indices: 6190770--6190828 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
6190760 ATTTTAAAAT
* * *
6190770 TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA ATA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
6190816 TTTA TTA ATA TTA
1 -TTA TTA TTA TTA
6190829 CAAAACCCGG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:6196403 original size:42 final size:42
Alignment explanation
Indices: 6196324--6196431 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
6196314 GCCTGAAGGT
* * *
6196324 CTTATGGATGGCCAGAAGGACTTA-TCATCTTACTCGAAAGA
1 CTTATAGATGGCCAGAAGGATTTACTCATCATACTCGAAAGA
* * *
6196365 CTTATAGATGACCTGAAGGATTTACTCATCATGCTCGAAAGA
1 CTTATAGATGGCCAGAAGGATTTACTCATCATACTCGAAAGA
* *
6196407 CTTATTGATGGCCCGAAGGATTTAC
1 CTTATAGATGGCCAGAAGGATTTAC
6196432 CAATTTTGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
41 20 0.35
42 37 0.65
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (42 bp):
CTTATAGATGGCCAGAAGGATTTACTCATCATACTCGAAAGA
Found at i:6196694 original size:260 final size:259
Alignment explanation
Indices: 6196309--6197238 Score: 1358
Period size: 260 Copynumber: 3.6 Consensus size: 259
6196299 ATGTCAAAAG
* * * * * *
6196309 ATCCTGCCTGAAGGTCTTATGGATGGCCAGAAGGACTTATCATCTTACTCGAAAGACTTATAGAT
1 ATCCTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTACAGAT
* ** * * * *
6196374 GACCTGAAGGATTTACTCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGATTTACCAATTTT
66 GACCCGAAGGATTTAAGCATCAGGCTCGAAAGACTTACTGATGGCCCGAAGAACTTACCAATTTT
* * * * *
6196439 GGAAATAGTTTATTGGGTAAGAAACTTTGGAAATCTCTTTCTTACTTTTCAATAATTTGATTTTC
131 GGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTC
* * *
6196504 TCAAATGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGGAAAC
196 TAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGGAAAC
* * * * *
6196568 ATCCTGCCCGATGGTCTTATAGATGGTCTGAATGACTTATTATCTTGCTCGAAAGGCTTACAGAT
1 ATCCTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTACAGAT
*
6196633 GACCCGAAAGGATTTAAGCATCAGGCTCGAAAGACTTACTGATGGCCCGAATAACTTACCAATTT
66 GACCCG-AAGGATTTAAGCATCAGGCTCGAAAGACTTACTGATGGCCCGAAGAACTTACCAATTT
6196698 TGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTT
130 TGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTT
* *
6196763 CTAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTATTATTTTTCAAAAATCATGTGGAAAC
195 CTAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGGAAAC
* * * * *
6196828 ATCATACCCGAAGGTCTTATAGATGACCCGAATGACTTATCACCTTGCTCGAAAGGCTTACAGAT
1 ATCCTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTACAGAT
* * *
6196893 GACCCGAAGGATTTAAGCATCAGGCTCGAAAGACGACTTACTGATGGCTCGAAGGATTTACTC-A
66 GACCCGAAGGATTTAAGCATCAGGCTCG-AA-A-GACTTACTGATGGCCCGAAGAACTTAC-CAA
* *
6196957 TTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACGTTTCAAAAATTTCAT
127 TTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCAT
* * *
6197022 TTTCTGAAAAGATTTAAATAAGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGTGGA
192 TTTCTAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGGA
6197087 AAC
257 AAC
* * *
6197090 ATCCTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCCTCTTGCTTGAAAGCCTTACAGAT
1 ATCCTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTACAGAT
* * * *
6197155 GACCTGAAGGATTTAAGCATCAGGCTCGAAAGACTTACTTATGTCCCGAATAACTTACCAATTTT
66 GACCCGAAGGATTTAAGCATCAGGCTCGAAAGACTTACTGATGGCCCGAAGAACTTACCAATTTT
*
6197220 GGAAATAATTTACAGGGTA
131 GGAAATAATTTACTGGGTA
6197239 CAATCTTTGT
Statistics
Matches: 601, Mismatches: 64, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
258 1 0.00
259 125 0.21
260 237 0.39
261 3 0.00
262 234 0.39
263 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (259 bp):
ATCCTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTACAGAT
GACCCGAAGGATTTAAGCATCAGGCTCGAAAGACTTACTGATGGCCCGAAGAACTTACCAATTTT
GGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTC
TAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGGAAAC
Found at i:6197822 original size:15 final size:17
Alignment explanation
Indices: 6197796--6197827 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6197786 GTAAATTTTT
6197796 TTTTACTTTTCA-AAAA
1 TTTTACTTTTCAGAAAA
6197812 TTTTA-TTTTCAGAAAA
1 TTTTACTTTTCAGAAAA
6197828 GATTTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTACTTTTCAGAAAA
Found at i:6211818 original size:34 final size:34
Alignment explanation
Indices: 6211779--6211852 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
6211769 TATATATATA
**
6211779 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATAAATTTTATATTAAT
*
6211813 TATATATATAATATTTTATAAATTTTATATTATT
1 TATATATATAATATTTTATAAATTTTATATTAAT
6211847 TATATA
1 TATATA
6211853 ATACAAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TATATATATAATATTTTATAAATTTTATATTAAT
Found at i:6211837 original size:9 final size:10
Alignment explanation
Indices: 6211785--6211855 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
6211775 TATATATATA
6211785 TATAATATTT
1 TATAATATTT
* *
6211795 TATATTTTTT
1 TATAATATTT
*
6211805 ATATTAATTATATA
1 -TA-TAA-TAT-TT
6211819 TATAATATTT
1 TATAATATTT
6211829 TATAA-ATTT
1 TATAATATTT
*
6211838 TATATTATTT
1 TATAATATTT
6211848 ATATAATA
1 -TATAATA
6211856 CAAACCCTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
9 8 0.17
10 18 0.38
11 11 0.23
12 5 0.11
13 4 0.09
14 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATAATATTT
Found at i:6212334 original size:17 final size:19
Alignment explanation
Indices: 6212306--6212341 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6212296 AGAAACCCGA
6212306 CAGGGAATGGGG-CGGGGG
1 CAGGGAATGGGGACGGGGG
6212324 CAGGG-ATGGGGACGGGGG
1 CAGGGAATGGGGACGGGGG
6212342 GAGTAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.11, G:0.67, T:0.06
Consensus pattern (19 bp):
CAGGGAATGGGGACGGGGG
Found at i:6232194 original size:88 final size:91
Alignment explanation
Indices: 6232031--6232225 Score: 254
Period size: 88 Copynumber: 2.2 Consensus size: 91
6232021 TGATCTAACT
* * * *
6232031 GGTAAGCCCTTACAGACCTAAGGATACCCTTAAGTAGGCCCATAGACCACAAGGTATATCCTTAG
1 GGTAATCCC-TACGGACCTAAGGATACCCTTAAGTAGACCCATAGACCACAAGGAATATCCTTAG
* * *
6232096 GTTGGTTCCC-TTTGTTGTGTGCTTAG
65 GTTGGCTCCCTTTTGCTGTGTGCTCAG
** *
6232122 GG-AA-CCCTACGGACCTAAGGATACCCTTGGGTAGACCCATATG-CCCCAAGGAATATCCTTAG
1 GGTAATCCCTACGGACCTAAGGATACCCTTAAGTAGACCCATA-GACCACAAGGAATATCCTTAG
6232184 GTTGGCTCCCTTTTGCTGTGTGCTCAG
65 GTTGGCTCCCTTTTGCTGTGTGCTCAG
6232211 GGTAATCCCTACGGA
1 GGTAATCCCTACGGA
6232226 TACAGCTCTG
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
88 56 0.62
89 20 0.22
90 4 0.04
91 11 0.12
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (91 bp):
GGTAATCCCTACGGACCTAAGGATACCCTTAAGTAGACCCATAGACCACAAGGAATATCCTTAGG
TTGGCTCCCTTTTGCTGTGTGCTCAG
Done.