Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1206
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: 146566
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:1904 original size:1 final size:1
Alignment explanation
Indices: 1898--2016 Score: 94
Period size: 1 Copynumber: 119.0 Consensus size: 1
1888 GACGTCCTCC
* * * * ** ** *
1898 AAAAAAACAAAAAAAAAACAAAACAAAAAAAAAACAAAAAAAAATGAAAAAAACGAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * *
1963 AAAAAACAAAAAATGAAAAAAAACAAAAAAAAAAACAAACAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2017 GGGGGTCCGG
Statistics
Matches: 89, Mismatches: 29, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:1922 original size:16 final size:17
Alignment explanation
Indices: 1900--2016 Score: 134
Period size: 17 Copynumber: 6.8 Consensus size: 17
1890 CGTCCTCCAA
1900 AAAAACAAAAAAAAAAC
1 AAAAACAAAAAAAAAAC
1917 -AAAACAAAAAAAAAAC
1 AAAAACAAAAAAAAAAC
*
1933 AAAAAAAAATGAAAAAAAC
1 AAAAACAAA--AAAAAAAC
1952 GAAAAA-ACAAAAAAAAAC
1 -AAAAACA-AAAAAAAAAC
*
1970 AAAAA-ATGAAAAAAAAC
1 AAAAACA-AAAAAAAAAC
*
1987 AAAAA-AAAAAACAAAC
1 AAAAACAAAAAAAAAAC
2003 AAAAACAAAAAAAA
1 AAAAACAAAAAAAA
2017 GGGGGTCCGG
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
16 29 0.33
17 35 0.40
18 8 0.09
19 9 0.10
20 7 0.08
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (17 bp):
AAAAACAAAAAAAAAAC
Found at i:1933 original size:27 final size:26
Alignment explanation
Indices: 1898--2014 Score: 137
Period size: 27 Copynumber: 4.3 Consensus size: 26
1888 GACGTCCTCC
1898 AAAAAAACAAAAAAAAAACAAAACAAA
1 AAAAAAACAAAAAAAAAACAAAA-AAA
**
1925 AAAAAAACAAAAAAAAATGAAAAAAA
1 AAAAAAACAAAAAAAAAACAAAAAAA
*
1951 CGAAAAAAC-AAAAAAAAACAAAAAATGA
1 -AAAAAAACAAAAAAAAAACAAAAAA--A
1979 AAAAAAACAAAAAAAAAAACAAACAAAA
1 AAAAAAAC-AAAAAAAAAACAAA-AAAA
2007 ACAAAAAA
1 A-AAAAAA
2015 AAGGGGGTCC
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
26 17 0.22
27 35 0.45
28 3 0.04
29 19 0.25
30 3 0.04
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (26 bp):
AAAAAAACAAAAAAAAAACAAAAAAA
Found at i:3773 original size:88 final size:87
Alignment explanation
Indices: 3668--3897 Score: 352
Period size: 88 Copynumber: 2.6 Consensus size: 87
3658 CACTCTTTTC
3668 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
3733 ACAAGTCAGTGGCAACCTTTAAA
66 ACAAGTCAGTGGCAACC-TTAAA
* *
3756 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTTAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
* *
3821 ACAAGTTAGTGGCAACCTTCAA
66 ACAAGTCAGTGGCAACCTTAAA
* * ** * * *
3843 AGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAATCGGTGGCACATTTT
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTT
3898 CCATCTTTAA
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 50 0.39
88 79 0.61
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (87 bp):
AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
ACAAGTCAGTGGCAACCTTAAA
Found at i:3784 original size:58 final size:58
Alignment explanation
Indices: 3668--3881 Score: 245
Period size: 58 Copynumber: 3.7 Consensus size: 58
3658 CACTCTTTTC
* * * **
3668 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACC-TTTCAAAAGCCCACAAGTTAGTGGCA-ACCTTTCAAA
*
3728 AGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAA
1 AGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTTAGTGGCAACCT-TTCAAA
* **
3786 AGCCCACAAGTTAGTGGCATATTTTTCAAAAGCCCACAAGTTAGTGGCAACC-TTC-AA
1 AGCCCACAAGTCAGTGGCA-ACCTTTCAAAAGCCCACAAGTTAGTGGCAACCTTTCAAA
* * **
3843 AGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAA
1 AGCCCACAAGTCAGTGGCAACC-TTTCAAAAGCCCACAA
3882 ATCGGTGGCA
Statistics
Matches: 133, Mismatches: 17, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
57 34 0.26
58 48 0.36
59 7 0.05
60 44 0.33
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (58 bp):
AGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTTAGTGGCAACCTTTCAAA
Found at i:3869 original size:57 final size:57
Alignment explanation
Indices: 3455--3891 Score: 306
Period size: 57 Copynumber: 7.4 Consensus size: 57
3445 TTCATCACCC
* *** ***
3455 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--ACCTTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
3514 TTCGAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTT
** * ** * * * * *
3571 TTCCGAAGCCCACAAGTCGGTGGCGTCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTT-CAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * * *** *
3631 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTTTCAGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTCAAAGCCCACAAGTCAGTGGCACCCTT
** *
3692 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCCACAAGTCAGTGGCACCCTT
* * * ***
3751 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTTAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAGTCAGTGGCACCCTT
* *
3810 TTCAAAAGCCCACAAGTTAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTT
** * *
3867 TTCCGAAGCCCACAAATCGGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
3892 CATTTTCCAT
Statistics
Matches: 295, Mismatches: 66, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
56 1 0.00
57 102 0.35
58 50 0.17
59 52 0.18
60 50 0.17
61 6 0.02
62 16 0.05
63 4 0.01
64 14 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:3892 original size:30 final size:30
Alignment explanation
Indices: 3455--3892 Score: 328
Period size: 30 Copynumber: 14.9 Consensus size: 30
3445 TTCATCACCC
* ***
3455 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
***
3485 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
3514 TTCGAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
3542 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
** * **
3571 TTCCGAAGCCCACAAGTCGGTGGC-GTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
3600 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * * *
3631 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACCCTT
*
3665 TTC---AGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
***
3692 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
3722 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
3751 TT-AAAAGCCCACAAGTTAGTGGCACCCTG
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* ***
3780 TTCAAAAGCCCACAAGTTAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
3810 TTCAAAAGCCCACAAGTTAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
3838 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
** * *
3867 TTCCGAAGCCCACAAATCGGTGGCAC
1 TTCAAAAGCCCACAAGTCAGTGGCAC
3893 ATTTTCCATC
Statistics
Matches: 335, Mismatches: 53, Indels: 40
0.78 0.12 0.09
Matches are distributed among these distances:
26 1 0.00
27 63 0.19
28 29 0.09
29 62 0.19
30 154 0.46
31 5 0.01
34 5 0.01
35 16 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:3970 original size:43 final size:43
Alignment explanation
Indices: 3902--3991 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
3892 CATTTTCCAT
* * *
3902 CTTTAAGTCCAATGTAGTCGACCTTGAATCAGCGCATTGGCAC
1 CTTTAAGTCCAATATAGTCGACCTTGAATCAGCACATTAGCAC
* *
3945 CTTTAAGTCCAATATAG-CTGGCCTTGAATCAGCATATTAGCAC
1 CTTTAAGTCCAATATAGTC-GACCTTGAATCAGCACATTAGCAC
3988 CTTT
1 CTTT
3992 TCCATCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGTCGACCTTGAATCAGCACATTAGCAC
Found at i:4081 original size:55 final size:52
Alignment explanation
Indices: 3945--4082 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
3935 GCATTGGCAC
* *
3945 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAGCACCTTTTCCAG
* *
3997 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATT-GACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAG-CA-CC-TTTTC-CAG
* * * *
4052 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
4083 ACATATTGGC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
51 1 0.01
52 37 0.51
53 2 0.03
54 5 0.07
55 27 0.38
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAGCACCTTTTCCAG
Found at i:9291 original size:79 final size:79
Alignment explanation
Indices: 9160--9431 Score: 427
Period size: 79 Copynumber: 3.4 Consensus size: 79
9150 TTTAATTTTC
* *
9160 TCAATTTTTCACAATCGGGGATACTCCAGCCCCGTTATTTTCGAGGGGATACTCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGGTT
*
9225 TTATTTATAAAACA
66 TTATTTCTAAAACA
* * *
9239 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGGTT
9304 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
9318 TCAATTTTTCATAATTGGGGATACTCCAACCTCGTTATTTTCGAGGGGATAATCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGGTT
9383 TTATTTCTAAAACA
66 TTATTTCTAAAACA
** *
9397 CTTGATTTCTCATAATCGGGGATACTCCAACCCCG
1 -TCAATTTTTCATAATCGGGGATACTCCAACCCCG
9432 ATTTTATTTC
Statistics
Matches: 175, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
79 146 0.83
80 29 0.17
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGGTT
TTATTTCTAAAACA
Found at i:9440 original size:52 final size:51
Alignment explanation
Indices: 9362--9792 Score: 238
Period size: 51 Copynumber: 8.3 Consensus size: 51
9352 TTATTTTCGA
* * *
9362 GGGGATAATCTAACCCCGGTTTTATTTCTAAAACACTTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTT-TCATAATC
* *
9414 GGGGATACTCCAACCCCGATTTTATTTC-AAAACAC-TAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTTT-C-ATAATC
* * * * *
9465 GGGGATACTCCAACTCCGATTTTATTTCCAAAAC-CATCAAATTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC-T-TAATTTTCATAATC
* * * * * * ** * *
9517 GAGGATACTCCAACCTC-G--TTATTTCATCGGAGATACTCCAA-CCTCGTTACCTCC
1 GGGGATACTCCAACCCCGGTTTTATTTC-T--AAAACACT-TAATTTTC-ATA-AT-C
*** ** * *
9571 GAGGGGATACTCCAACCCCAACTTTATTTCCCAAATA-TTGATTTCTCATAATC
1 --GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTT-TCATAATC
* *
9624 GGGGATACTCCAACCCCGGTTTTATTTGTAAAACAC-TAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTTT-CATAATC
** * ** * *
9675 AAGGATACTCTAACCCCGGTTTTATTT-TCAAAACACCAAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTTAATTTTC-ATAATC
* * *
9727 GGGGGTACTCCAACCCCGGTTTTATTT-TAAAAACAC-CAATCTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTTAAT-TTTCATAATC
*
9778 GAGGATACTCCAACC
1 GGGGATACTCCAACC
9793 TCGTTATTTC
Statistics
Matches: 291, Mismatches: 62, Indels: 53
0.72 0.15 0.13
Matches are distributed among these distances:
49 8 0.03
50 8 0.03
51 133 0.46
52 98 0.34
53 4 0.01
54 9 0.03
55 3 0.01
56 21 0.07
59 7 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTTTCATAATC
Found at i:9579 original size:28 final size:28
Alignment explanation
Indices: 9519--9587 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
9509 TCACAATCGA
** **
9519 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCTCGTTACCTCAGAGG
* *
9547 AGATACTCCAACCTCGTTACCTCCGAGG
1 GGATACTCCAACCTCGTTACCTCAGAGG
9575 GGATACTCCAACC
1 GGATACTCCAACC
9588 CCAACTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACCTCAGAGG
Found at i:9614 original size:210 final size:210
Alignment explanation
Indices: 9337--9717 Score: 532
Period size: 210 Copynumber: 1.8 Consensus size: 210
9327 CATAATTGGG
** * * *** *
9337 GATACTCCAACCTCGTTATTTTCGAGGGGATAATCTAACCCCGGTTTTATTTCTAAAACACTTGA
1 GATACTCCAACCTCGTTACCTCCGAGGGGATAATCCAACCCCAACTTTATTTCCAAAACACTTGA
** *
9402 TTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTT-CAAAACACTAATTTTCCTTTAATCG
66 TTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTTGCAAAACACTAATTTTCC-ACAATCA
* * *
9466 GGGATACTCCAACTCCGATTTTATTTCCAAAACCATCAAATTTTCACAATCGAGGATACTCCAAC
130 AGGATACTCCAACCCCGATTTTATTTCCAAAA-CACCAAATTTTCACAATCGAGGATACTCCAAC
9531 CTCGTTATTTCATCGGA
194 CTCGTTATTTCATCGGA
* * *
9548 GATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCCCAACTTTATTTCCCAAATA-TTGA
1 GATACTCCAACCTCGTTACCTCCGAGGGGATAATCCAACCCCAACTTTATTTCCAAAACACTTGA
* *
9612 TTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTGTAAAACACTAATTTTCCACAATCAA
66 TTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTTGCAAAACACTAATTTTCCACAATCAA
* * *
9677 GGATACTCTAACCCCGGTTTTATTTTCAAAACACCAAATTT
131 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAAATTT
9718 CCTTTAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
209 9 0.06
210 73 0.50
211 65 0.44
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (210 bp):
GATACTCCAACCTCGTTACCTCCGAGGGGATAATCCAACCCCAACTTTATTTCCAAAACACTTGA
TTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTTGCAAAACACTAATTTTCCACAATCAA
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAAATTTTCACAATCGAGGATACTCCAACCT
CGTTATTTCATCGGA
Found at i:9830 original size:261 final size:261
Alignment explanation
Indices: 9362--9901 Score: 793
Period size: 261 Copynumber: 2.1 Consensus size: 261
9352 TTATTTTCGA
* * * * **
9362 GGGGATAATCTAACCCCGGTTTTATTTCTAAAACACTTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTTCTCACAATCAAGGATACTCCAA
* * *
9427 CCCCGATTTTATTTCAAAACACTAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTT
66 CCCCGATTTTATTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCCCGATTTTATTT
*
9492 CCAAAACCATCAAATTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGAGATACTCCA
131 CCAAAAACATCAAATTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGAGATACTCCA
* *
9557 ACCTCGTTACCTCCGAGGGGATACTCCAACCCCAACTTTATTTCCCA-AATATTGATTTCTCATA
196 ACCCCATTACCTCCGAGGGGAT-CTCCAACCCCAACTTTATTT-CCAGAATATTGATTTCTCATA
9621 ATC
259 ATC
* *
9624 GGGGATACTCCAACCCCGGTTTTATTTGTAAAACAC-TAATTT-TCCACAATCAAGGATACTCTA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTTCT-CACAATCAAGGATACTCCA
* * *
9687 ACCCCGGTTTTATTTTCAAAACACCAAATTTCCTTTAATCGGGGGTACTCCAACCCCGGTTTTAT
65 ACCCCGATTTTA-TTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCCCGATTTTAT
* * *
9752 TT-TAAAAACA-CCAATCTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACT
129 TTCCAAAAACATCAAAT-TTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGAGATACT
* *
9815 CCAACCCCATTACCTCCGAGGGGATCTCCAACCCCGACTTTATTTTCAGAATATTGATTTCTCAT
193 CCAACCCCATTACCTCCGAGGGGATCTCCAACCCCAACTTTATTTCCAGAATATTGATTTCTCAT
*
9880 AATT
258 AATC
9884 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
9902 TTATTTTCAA
Statistics
Matches: 251, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
259 2 0.01
260 61 0.24
261 106 0.42
262 82 0.33
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (261 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTTAATTTCTCACAATCAAGGATACTCCAA
CCCCGATTTTATTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCCCGATTTTATTT
CCAAAAACATCAAATTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGAGATACTCCA
ACCCCATTACCTCCGAGGGGATCTCCAACCCCAACTTTATTTCCAGAATATTGATTTCTCATAAT
C
Found at i:13811 original size:26 final size:26
Alignment explanation
Indices: 13775--13828 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
13765 TTTCTATCCA
13775 TTACAAAAGACAATGTCGACATTTGG
1 TTACAAAAGACAATGTCGACATTTGG
13801 TTACAAAAGACAATGTCGACATTTGG
1 TTACAAAAGACAATGTCGACATTTGG
13827 TT
1 TT
13829 GGACTCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (26 bp):
TTACAAAAGACAATGTCGACATTTGG
Found at i:14275 original size:20 final size:21
Alignment explanation
Indices: 14233--14284 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
14223 TTACAATTTG
*
14233 TATCGATACAAATAGTAAATA
1 TATCGATACATATAGTAAATA
*
14254 TATCGATACATA-AGTGAATA
1 TATCGATACATATAGTAAATA
*
14274 TATCAATACAT
1 TATCGATACAT
14285 TCCTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (21 bp):
TATCGATACATATAGTAAATA
Found at i:14802 original size:36 final size:36
Alignment explanation
Indices: 14760--14834 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
14750 GTCTCTTTGT
14760 TCAATCCCAACAATACCCTTGCTTTGTCTCCTAAGC
1 TCAATCCCAACAATACCCTTGCTTTGTCTCCTAAGC
14796 TCAATCCCAACAATACCCTTGCTTTGTCTCCTAAGC
1 TCAATCCCAACAATACCCTTGCTTTGTCTCCTAAGC
14832 TCA
1 TCA
14835 TTGGCTGAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.36, G:0.08, T:0.31
Consensus pattern (36 bp):
TCAATCCCAACAATACCCTTGCTTTGTCTCCTAAGC
Found at i:17542 original size:20 final size:20
Alignment explanation
Indices: 17517--17576 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
17507 GTTGGGCTTA
*
17517 ATGTATCGATACATTTCA-CC
1 ATGTATCGATACA-ATCATCC
*
17537 ATGTATCGATACAATCATTC
1 ATGTATCGATACAATCATCC
17557 ATGTATCGATACAATGCATC
1 ATGTATCGATACAAT-CATC
17577 GATACAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.09
20 29 0.83
21 3 0.09
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATCATCC
Found at i:17579 original size:13 final size:13
Alignment explanation
Indices: 17561--17585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17551 TCATTCATGT
17561 ATCGATACAATGC
1 ATCGATACAATGC
17574 ATCGATACAATG
1 ATCGATACAATG
17586 TGAGTTTTAG
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:17654 original size:19 final size:20
Alignment explanation
Indices: 17630--17681 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
17620 ATCTTTTAGT
*
17630 ATGTATCGATACAATG-AAC
1 ATGTATCGATACAAAGCAAC
*
17649 ATGTATCGATACAAAGCAAT
1 ATGTATCGATACAAAGCAAC
17669 ATGTATCGATACA
1 ATGTATCGATACA
17682 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAAC
Found at i:24848 original size:12 final size:12
Alignment explanation
Indices: 24831--24855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24821 GTCAACTTCA
24831 TCATCATCATCT
1 TCATCATCATCT
24843 TCATCATCATCT
1 TCATCATCATCT
24855 T
1 T
24856 TGATGGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:28940 original size:79 final size:78
Alignment explanation
Indices: 28834--29048 Score: 281
Period size: 79 Copynumber: 2.7 Consensus size: 78
28824 CAAGATTACG
*
28834 CCAACCCCGTTGTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAATCTCGTTA-T
1 CCAACCCCGTT-TTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATT
**
28898 TTCTGAGGGAATACT
65 TTCAAAGGG-ATACT
* * * *
28913 CCAACCCCATTTTCATTTTTAAAATATTAAATTTTTCTTCTCGGGGATACTCCAACCTTGTTATT
1 CCAACCCCGTTTT-ATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATT
28978 TTCAAAGGGATACT
65 TTCAAAGGGATACT
* * *
28992 CCAACCTCGTTTT-TATTTCAAAATATTAAATTTTTCATCATCGGAGCTACTCCAACC
1 CCAACCCCGTTTTAT-TTTCAAAATATTAAATTTTTCATC-TCGGGGATACTCCAACC
29049 CCGTATTCAG
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
77 1 0.01
78 24 0.20
79 86 0.72
80 8 0.07
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (78 bp):
CCAACCCCGTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATTT
TCAAAGGGATACT
Found at i:37024 original size:61 final size:61
Alignment explanation
Indices: 36924--37051 Score: 211
Period size: 61 Copynumber: 2.1 Consensus size: 61
36914 AAAAACTCAA
* *
36924 TTAAACTCTCAAACTATTCAACCCAAACATTTAAATACTCGAATTCAACTTATTTAATAAT
1 TTAAGCTCTCAAACTATTCAAACCAAACATTTAAATACTCGAATTCAACTTATTTAATAAT
* * *
36985 TTAAGCTCTCAAATTATTCAAACCAAGCATTTAAATACTCGAATTCAACTTGTTTAATAAT
1 TTAAGCTCTCAAACTATTCAAACCAAACATTTAAATACTCGAATTCAACTTATTTAATAAT
37046 TTAAGC
1 TTAAGC
37052 CGATCAAGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.35
Consensus pattern (61 bp):
TTAAGCTCTCAAACTATTCAAACCAAACATTTAAATACTCGAATTCAACTTATTTAATAAT
Found at i:42217 original size:2 final size:2
Alignment explanation
Indices: 42210--42244 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
42200 TTATTGACAT
42210 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
42245 TTTGGTCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:45134 original size:15 final size:17
Alignment explanation
Indices: 45105--45137 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
45095 AAAAATTTAA
45105 TATTTATATTATCAAAT
1 TATTTATATTATCAAAT
45122 TATTTAT-TT-TCAAAT
1 TATTTATATTATCAAAT
45137 T
1 T
45138 TGATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTATATTATCAAAT
Found at i:48193 original size:84 final size:84
Alignment explanation
Indices: 48051--48242 Score: 215
Period size: 84 Copynumber: 2.3 Consensus size: 84
48041 GGGCTGACCA
* * * * *
48051 GTAAACAATGAGATGGAGGTTGACTAGAGACTAAGCTGACAGCTCACCAAAAGGGTAAGGGTTTT
1 GTAAACAA-GGGATGAAGGTTGACCAGAAACTAAGCTGACAGCTCACCAAAAGGGTAAGGGGTTT
* *
48116 ACTAAGGACTGAGGCGATAG
65 ACTAAGGACTAAGCCGATAG
* * * * *
48136 GTAAACAAGGGATGAAGGTTGACCATAAACTAAGCTGATAGGTCA-CTATAGGTGTAAGGGGTTT
1 GTAAACAAGGGATGAAGGTTGACCAGAAACTAAGCTGACAGCTCACCAAAAGG-GTAAGGGGTTT
** *
48200 ACTGGGGATTAAGCCGATAG
65 ACTAAGGACTAAGCCGATAG
48220 GTAAACAAGGAGATGAAGGTTGA
1 GTAAACAAGG-GATGAAGGTTGA
48243 TCGGAACTGA
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
83 5 0.06
84 65 0.72
85 20 0.22
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (84 bp):
GTAAACAAGGGATGAAGGTTGACCAGAAACTAAGCTGACAGCTCACCAAAAGGGTAAGGGGTTTA
CTAAGGACTAAGCCGATAG
Found at i:48271 original size:84 final size:83
Alignment explanation
Indices: 48130--48404 Score: 259
Period size: 84 Copynumber: 3.3 Consensus size: 83
48120 AGGACTGAGG
** * * * * * *
48130 CGATAGGTAAACAAGGGATGAAGGTTGACCATAAACTAAGCTGATAGGTCACTATAGGTGTAAGG
1 CGATAGGTAAACAAGGGATGAAGGTTGA-CAGGAACTGAGCTAACAGGTCACCATAGGGGTAATG
*
48195 GGTTTACTGGGGATTAAGC
65 GGTTTACAGGGGATTAAGC
*
48214 CGATAGGTAAACAAGGAGATGAAGGTTGATC-GGAACTGAGCTAACAGGTTACCATAGGGGTAAT
1 CGATAGGTAAACAAGG-GATGAAGGTTGA-CAGGAACTGAGCTAACAGGTCACCATAGGGGTAAT
** *
48278 GGGTTTACAGGAAACTGAA-C
64 GGGTTTACAGGGGA-TTAAGC
* * * * * *
48298 TGACAGGTAAACAAGGAGATGAAGATTGACTGGAGACTGAGCTAACTGATCACCATAGGGGTAAT
1 CGATAGGTAAACAAGG-GATGAAGGTTGACAGGA-ACTGAGCTAACAGGTCACCATAGGGGTAAT
*
48363 GGGTTTACCA-GGGATTAAGT
64 GGGTTTA-CAGGGGATTAAGC
* * *
48383 TGATCGGTAAACAAAGGATGAA
1 CGATAGGTAAACAAGGGATGAA
48405 AAACAATACC
Statistics
Matches: 158, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
83 1 0.01
84 90 0.57
85 65 0.41
86 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (83 bp):
CGATAGGTAAACAAGGGATGAAGGTTGACAGGAACTGAGCTAACAGGTCACCATAGGGGTAATGG
GTTTACAGGGGATTAAGC
Found at i:48606 original size:47 final size:48
Alignment explanation
Indices: 48480--48848 Score: 309
Period size: 47 Copynumber: 7.9 Consensus size: 48
48470 GGATGAAAAA
* * *
48480 AGTTCGACCAGG-ACTAACGCCAATACAGTCAAAT-AAGGGT-GAGAAG
1 AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGTGGA-AAG
* * * * * *
48526 AGTTTGACCAGGCCCCAATGCAAATGCAATCAAATGAAG-GTGGAAAG
1 AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGTGGAAAG
* * * *
48573 AGTTTGACGAGGTCCTAACGCCAATATAGTCAAACGAGGA-TGAGAAA-
1 AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGTG-GAAAG
* * * *
48620 AG-TTGACTAGGTCCTAACGCCAATGCAGTCAAA-CAAGAGTGGAAAA
1 AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGTGGAAAG
* * * * * *
48666 AGTTTAACCAAGTCCTAACGCCAATGCAGTCAAA-CAAGAATGGAAAA
1 AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGTGGAAAG
* *
48713 AGTTTGACCAGGTCCTAACGCCAATACAATCAAATG-AGAGTGGTAAG
1 AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGTGGAAAG
* * * *
48760 AATTTGACTAGGTCTTAACTCCAATACTA-TCAAATG-AGAGT--AAATTTG
1 AGTTTGACCAGGTCCTAACGCCAATAC-AGTCAAATGAAGAGTGGAAA---G
*
48808 AGTTTGACCAGGTCCTAACGCCAATACAGTTAAAT-AAGAGT
1 AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGT
48849 AAATTTAAGT
Statistics
Matches: 264, Mismatches: 44, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
45 9 0.03
46 43 0.16
47 168 0.64
48 44 0.17
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.21
Consensus pattern (48 bp):
AGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAAGAGTGGAAAG
Found at i:48726 original size:140 final size:140
Alignment explanation
Indices: 48469--48738 Score: 330
Period size: 140 Copynumber: 1.9 Consensus size: 140
48459 ATGTTGAATA
* * * *
48469 AGGATGAAAAAAGTTCGACCAGGACTAACGCCAATACAGTCAAATAAGGGTGAGAAGAGTTTGAC
1 AGGATGAAAAAAGTTCGACCAGGACTAACGCCAATACAGTCAAACAAGAGTGAGAAAAGTTTAAC
* * * * * *
48534 CAGGCCCCAATGCAAATGCAATCAAATGAAGGTGGAAAGAGTTTGACGAGGTCCTAACGCCAATA
66 CAAGCCCCAACGCAAATGCAATCAAATCAAGATGGAAAAAGTTTGACCAGGTCCTAACGCCAATA
48599 TAGTCAAACG
131 TAGTCAAACG
* * * *
48609 AGGATGAGAAAAGTT-GACTAGGTCCTAACGCCAATGCAGTCAAACAAGAGTG-GAAAAAGTTTA
1 AGGATGAAAAAAGTTCGACCAGG-ACTAACGCCAATACAGTCAAACAAGAGTGAG-AAAAGTTTA
* * * *
48672 ACCAAGTCCTAACGCCAATGCAGTCAAA-CAAGAATGGAAAAAGTTTGACCAGGTCCTAACGCCA
64 ACCAAGCCCCAACGCAAATGCAATCAAATCAAG-ATGGAAAAAGTTTGACCAGGTCCTAACGCCA
48736 ATA
128 ATA
48739 CAATCAAATG
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
139 10 0.09
140 99 0.91
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (140 bp):
AGGATGAAAAAAGTTCGACCAGGACTAACGCCAATACAGTCAAACAAGAGTGAGAAAAGTTTAAC
CAAGCCCCAACGCAAATGCAATCAAATCAAGATGGAAAAAGTTTGACCAGGTCCTAACGCCAATA
TAGTCAAACG
Found at i:48888 original size:95 final size:94
Alignment explanation
Indices: 48713--48915 Score: 225
Period size: 95 Copynumber: 2.1 Consensus size: 94
48703 GAATGGAAAA
* *
48713 AGTTTGACCAGGTCCTAACGCCAATACAATCAAATGAGAGTGGTAAGAATTTGACTAGGTCTTAA
1 AGTTTGACCAGGTCCTAACGCCAATACAATCAAATAAGAGTGGTAAG-ATTTGACTAGGCCTTAA
** * *
48778 CTCCAATACTATCAAATGAGAGTAAATTTG
65 CTCCAATACTATCAAACAAGAATAAATCTG
* * **
48808 AGTTTGACCAGGTCCTAACGCCAATACAGTTAAATAAGAGTAAATTTAAG-TTTGACTAGGCCTT
1 AGTTTGACCAGGTCCTAACGCCAATACAATCAAATAAGAGT---GGTAAGATTTGACTAGGCCTT
48872 AA-TGCC-ATA-TAGTCAAACAAGAATAAATCTG
63 AACT-CCAATACTA-TCAAACAAGAATAAATCTG
*
48903 AGTTTGATCAGGT
1 AGTTTGACCAGGT
48916 TTTAATGCTA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
94 2 0.02
95 69 0.75
96 17 0.18
98 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (94 bp):
AGTTTGACCAGGTCCTAACGCCAATACAATCAAATAAGAGTGGTAAGATTTGACTAGGCCTTAAC
TCCAATACTATCAAACAAGAATAAATCTG
Found at i:48907 original size:47 final size:48
Alignment explanation
Indices: 48572--48915 Score: 185
Period size: 47 Copynumber: 7.3 Consensus size: 48
48562 AAGGTGGAAA
* * * *
48572 GAGTTTGACGAGGTCCTAACGCCAATATAGTCAAACGAGGATGAGAA---
1 GAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAAT-A-AATTT
* * * *
48619 AAG-TTGACTAGGTCCTAACGCCAATGCAGTCAAACAAGAGTGGAAA---
1 GAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAAT--AAATTT
* * * *
48665 AAGTTTAACCAAGTCCTAACGCCAATGCAGTCAAACAAGAATGGAAA---
1 GAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAAT--AAATTT
* * ** * ** **
48712 AAGTTTGACCAGGTCCTAACGCCAATACAATCAAATGAGAGT-GGTAA
1 GAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATAAATTT
* * * * ** *
48759 GAATTTGACTAGGTCTTAACTCCAATACTA-TCAAATGAGAGTAAATTT
1 GAGTTTGACCAGGTCCTAACGCCAATAC-AGTCAAACAAGAATAAATTT
* * *
48807 GAGTTTGACCAGGTCCTAACGCCAATACAGTTAAATAAGAGTAAATTT
1 GAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATAAATTT
* * * * *
48855 AAGTTTGACTAGG-CCTTAATGCC-ATATAGTCAAACAAGAATAAATCT
1 GAGTTTGACCAGGTCC-TAACGCCAATACAGTCAAACAAGAATAAATTT
*
48902 GAGTTTGATCAGGT
1 GAGTTTGACCAGGT
48916 TTTAATGCTA
Statistics
Matches: 241, Mismatches: 46, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
46 37 0.15
47 145 0.60
48 59 0.24
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (48 bp):
GAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATAAATTT
Found at i:50865 original size:12 final size:12
Alignment explanation
Indices: 50848--50883 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
50838 TTTTTATTCC
*
50848 TTTCTTTTCTTT
1 TTTCTTTTCATT
50860 TTTCTTTTTCATT
1 TTTC-TTTTCATT
50873 TTTCTTTTCAT
1 TTTCTTTTCAT
50884 AAAGAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTTCATT
Found at i:50868 original size:13 final size:13
Alignment explanation
Indices: 50848--50880 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50838 TTTTTATTCC
*
50848 TTTC-TTTTCTTT
1 TTTCTTTTTCATT
50860 TTTCTTTTTCATT
1 TTTCTTTTTCATT
50873 TTTCTTTT
1 TTTCTTTT
50881 CATAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTCATT
Found at i:50869 original size:36 final size:35
Alignment explanation
Indices: 50782--50875 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 35
50772 GATGTTTTCA
*
50782 TCTTTTTGTC-TTTTCATGATTTTTCATTCTGTTTTT
1 TCTTTTT-TCTTTTTCAT-TTTTTTCATTCTGTTTTT
** *
50818 TCTTGGTTCTATTTTCATTTTTTTTATTCCT-TTCTTT
1 TCTTTTTTCT-TTTTCATTTTTTTCATT-CTGTT-TTT
50855 TCTTTTTTCTTTTTCATTTTT
1 TCTTTTTTCTTTTTCATTTTT
50876 CTTTTCATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
35 2 0.04
36 26 0.54
37 20 0.42
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.72
Consensus pattern (35 bp):
TCTTTTTTCTTTTTCATTTTTTTCATTCTGTTTTT
Found at i:55865 original size:52 final size:52
Alignment explanation
Indices: 55776--55904 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
55766 CGAAATATGA
* *
55776 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
55828 AAATTTGCCTGCATGTATCGATACATGTT-ATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAT-TTAATAATGTATCGATACATCTGGGC
55880 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
55905 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 72 0.97
53 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:55917 original size:52 final size:51
Alignment explanation
Indices: 55776--55924 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
55766 CGAAATATGA
* *
55776 AAATTTACCTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAGATAGTGTATCGATACATCTGGGC
* *
55828 AAATTTGCCTGCATGTATCGATAC-ATGTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAAAG--ATAGTGTATCGATACATCTGGGC
*
55880 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGCTACA
1 AAATTTGCCTGCATGTATCGATACAAAGAT-AGTGTATCGATACA
55925 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAAAGATAGTGTATCGATACATCTGGGC
Found at i:56015 original size:33 final size:33
Alignment explanation
Indices: 55978--56044 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
55968 AGTAGCTTAA
55978 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
56011 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
56044 A
1 A
56045 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:56018 original size:13 final size:13
Alignment explanation
Indices: 56000--56024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55990 CAAAAAAATA
56000 TGTATCGATACAT
1 TGTATCGATACAT
56013 TGTATCGATACA
1 TGTATCGATACA
56025 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56817 original size:52 final size:55
Alignment explanation
Indices: 56725--56841 Score: 159
Period size: 52 Copynumber: 2.2 Consensus size: 55
56715 GATATTGGGT
* * * *
56725 TTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCTAGCTACATTGAAC
1 TTAAAGATGAGAAAAAGGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAAC
* *
56780 TTAAAGATG-G-AAAAGG-TGCCAATATGCTAATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAGAAAAAGGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAAC
56832 TTAAAGATGA
1 TTAAAGATGA
56842 TGAGGATGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
52 39 0.71
53 6 0.11
54 1 0.02
55 9 0.16
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (55 bp):
TTAAAGATGAGAAAAAGGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAAC
Found at i:57188 original size:55 final size:52
Alignment explanation
Indices: 57124--57688 Score: 226
Period size: 43 Copynumber: 12.0 Consensus size: 52
57114 TGATATTGGG
* * *
57124 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTC-AAGATCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAATATGCTGATTCAAAG-CCAGCTACATTGAA
* *
57179 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
57231 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
57274 CTTAAAGA---AGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
57323 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
57366 CTTAAAGA---AGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * *
57415 C-T-----TGG---AGGTGCCAATGTGCTGATTTAAGGCTAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
57458 CTTAAAGA---AGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
57507 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * *
57550 CTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG-G
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * *
57598 CCT-----TGG---AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
57642 CTTAAAGA---AGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTG
57689 GGCTTAGAAG
Statistics
Matches: 410, Mismatches: 54, Indels: 98
0.73 0.10 0.17
Matches are distributed among these distances:
43 176 0.43
44 6 0.01
46 1 0.00
48 5 0.01
49 174 0.42
51 1 0.00
52 27 0.07
53 9 0.02
54 1 0.00
55 10 0.02
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
Found at i:57326 original size:92 final size:92
Alignment explanation
Indices: 57138--57699 Score: 865
Period size: 92 Copynumber: 6.1 Consensus size: 92
57128 AAGATGAGAA
* ** * * *
57138 AAAGGATGTCAATGTGCTGATTCAAGATCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGATGCCAAT
* *
57203 ATGCTGATTCAAAGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCAATATTGGACTT
57234 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
57299 TGATTCAAGGCCAGCAATATTGGACTT
66 TGATTCAAGGCCAGCAATATTGGACTT
57326 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
*
57391 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCAATATTGGACTT
** * *
57418 GGAGGTGCCAATGTGCTGATTTAAGGCTAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
57483 TGATTCAAGGCCAGCAATATTGGACTT
66 TGATTCAAGGCCAGCAATATTGGACTT
*
57510 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGATGCCAATATG
* * *
57574 CTGATTCAAGGCCAACGATATTGGCCTT
65 CTGATTCAAGGCCAGCAATATTGGACTT
** *
57602 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
* *
57667 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCAATATTGGACTT
57694 AGAAGG
1 A-AAGG
57700 GTTGCCACCG
Statistics
Matches: 434, Mismatches: 29, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
91 1 0.00
92 385 0.89
93 4 0.01
95 39 0.09
96 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGC
TGATTCAAGGCCAGCAATATTGGACTT
Found at i:57738 original size:33 final size:33
Alignment explanation
Indices: 57694--57897 Score: 344
Period size: 33 Copynumber: 6.2 Consensus size: 33
57684 TATTGGGCTT
57694 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
57727 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
57760 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
57791 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
57824 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
57857 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
57891 A-AAGGGT
1 AGAAGGGT
57898 GAAAGATGCC
Statistics
Matches: 162, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
31 3 0.02
32 59 0.36
33 69 0.43
34 31 0.19
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:58026 original size:67 final size:66
Alignment explanation
Indices: 57899--58713 Score: 707
Period size: 67 Copynumber: 12.4 Consensus size: 66
57889 AGAAAGGGTG
* * * *
57899 AAAGATGCCACGAAGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGGAGTTGTAGG-CTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG-A-AAGGTGCCACGGAGTTGT-GGAC-TTAAAA
*
57962 GGGAA
62 AGGAA
* * * *
57967 AAAGAGTGCCATGGAGTTGTGGGCTTTGAAAAG-AAGGTGCCACGGAGTCGTGGATTTTAAAAGG
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGGTGCCACGGAGTTGTGGA-CTTAAAAAG
58031 GAA
64 GAA
*
58034 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG--AAAGGTGCCACGGAGTTGTGGACTTAAAAA
*
58099 AGAA
63 GGAA
*
58103 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG--AAAGGTGCCACGGAGTTGTGGACTTAAAAAG
58168 GAA
64 GAA
* *
58171 AAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG-AAGGTGCCACGGAGTCGTGGACTT-AAAAGGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGGA
58234 A
66 A
* * * *
58235 CAAGGTGCCACGGAGTTG-GGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTG
1 AAAGGTGCCACGGAGTTGTGGG-CTTTGAAAA--G--AAAG-GTGCCACGGAGTTGTGGAC-TTA
58298 AAAA-G--
59 AAAAGGAA
* *
58303 -AAGGTGCCACGGAGTCGTGGACTTT-AAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT---
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAA-AA-G--AAAG-GTGCCACGGAGTTGTGGACTTAAA
*
58363 --TG--
61 AAGGAA
* * * * * *
58365 --A--TGCCACTGAGTCGTGGACTTTG-A--GACAAGATGCCAC-TATGTCGTGGACTT-AAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA-AAGGTGCCACGGA-GTTGTGGACTTAAAAAG
58421 GAA
64 GAA
*
58424 CAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AAGGTGCCACGGAGTTGTGGGCTTTAAAAA
1 -AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGGTGCCACGGAGTTGTGGAC-TTAAAAA
58488 -GAA
63 GGAA
* *
58491 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AAGGTGCCACGGAGTCGTGGACTTTAAGAAG
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
58555 GAA
64 GAA
* * * * *
58558 AAAGAGTGCCACAGAGTTGTGGGC-TT---AA-AATGGTGCCACAGAGTTATGGACTT-AGAAGG
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
58617 AA
65 AA
* * *
58619 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AAGGTGCTACGGAGTCGTGGACTTTAAGAAG
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
58683 GAA
64 GAA
*
58686 AAAGAGTGCCACGGAGTTGTGGACTTTG
1 AAAG-GTGCCACGGAGTTGTGGGCTTTG
58714 GTGCCACTGA
Statistics
Matches: 645, Mismatches: 53, Indels: 99
0.81 0.07 0.12
Matches are distributed among these distances:
52 1 0.00
53 17 0.03
54 3 0.00
55 1 0.00
57 1 0.00
59 21 0.03
61 32 0.05
62 6 0.01
63 27 0.04
64 27 0.04
65 62 0.10
66 85 0.13
67 174 0.27
68 110 0.17
69 44 0.07
70 30 0.05
71 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGGA
A
Found at i:58079 original size:34 final size:34
Alignment explanation
Indices: 57899--58712 Score: 649
Period size: 34 Copynumber: 24.8 Consensus size: 34
57889 AGAAAGGGTG
* *
57899 AAAGATGCCACGAAGTTGTGGAC-TTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* *
57932 CAAGGTGCCACGGAGTTGTAGG-CTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGT-GGACTTTAAAA-AGAA
* * *
57967 AAAGAGTGCCATGGAGTTGTGGGCTTTGAAAAG--
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
* * *
58000 -AAGGTGCCACGGAGTCGTGGATTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA-AGAA
*
58034 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
*
58069 AAAGGTGCCACGGAGTTGTGGACTTAAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* *
58103 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
*
58137 AAAGGTGCCACGGAGTTGTGGACTTAAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* * *
58171 AAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG--
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* *
58203 -AAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* * *
58235 CAAGGTGCCACGGAGTTGGGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA-AGAA
* * *
58270 AAAGAGTGCCACGGAGTTATGGGCTTTGAAAAG--
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
* *
58303 -AAGGTGCCACGGAGTCGTGGACTTTAAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAA-AAAGAA
58337 AAAGAGTGCCACGGAGTTGTGGACTTT-----G--
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
* * *
58365 --A--TGCCACTGAGTCGTGGACTTT---GAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* * * * *
58391 CAAGATGCCAC-TATGTCGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGA-GTTGTGGACTTTAAAAAGAA
* *
58424 CAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG--
1 -AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
*
58458 -AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* *
58491 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG--
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
* *
58524 -AAGGTGCCACGGAGTCGTGGACTTTAAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAA-AAAGAA
* *
58558 AAAGAGTGCCACAGAGTTGTGGGC-TT------AA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
* * * * *
58586 AATGGTGCCACAGAGTTATGGAC-TTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
* *
58619 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG--
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAA
* * *
58652 -AAGGTGCTACGGAGTCGTGGACTTTAAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAA-AAAGAA
58686 AAAGAGTGCCACGGAGTTGTGGACTTT
1 AAAG-GTGCCACGGAGTTGTGGACTTT
58713 GGTGCCACTG
Statistics
Matches: 635, Mismatches: 87, Indels: 115
0.76 0.10 0.14
Matches are distributed among these distances:
23 19 0.03
25 1 0.00
26 1 0.00
27 19 0.03
28 6 0.01
29 3 0.00
30 22 0.03
31 128 0.20
32 26 0.04
33 43 0.07
34 154 0.24
35 83 0.13
36 130 0.20
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
Found at i:58295 original size:303 final size:297
Alignment explanation
Indices: 57898--58713 Score: 928
Period size: 303 Copynumber: 2.8 Consensus size: 297
57888 TAGAAAGGGT
*
57898 GAAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTAGG-CTTTAAA
1 GAAAGAGTGCCACGGAGTTGTGGACTT-AAAAGAACAAGGTGCCACGGAGTTG-AGGACTTTAAA
*
57961 AGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGATTTTA
64 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGA-TTTA
*
58026 AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
128 AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG---AAGGTGCCACGGAGTCGTGGA
*
58091 CTTAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAA-AAAG-GTGCCACGGAGT
188 CTT-AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAACAAAGAGTGCCACGGAGT
*
58153 TGTGGACTTAAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAA
252 TGTGGACTTAAAAAAG---AAGGTGCCACAGAGTTGTGGGCTTTAAAAA
* *
58202 G-AAG-GTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGGGGACTTTAAAA
1 GAAAGAGTGCCACGGAGTTGTGGACTTAAAA-GAACAAGGTGCCACGGAGTTGAGGACTTTAAAA
*
58265 GGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAA
65 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGA-TTTAA
* *
58330 GAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTT----G-A--TGCCACTGAGTCGTGGACTT--
129 -AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGGTGCCACGGAGTCGTGGACTTAA
** * * * *
58386 TGAG-ACAAGATGCCAC-TATGTCGTGGAC-TT-AAAAGGAACAAAGAGTGCCACGGAGTTGTGG
193 AAAGAAAAAGGTGCCACGGA-GTTGTGGACTTTGAAAAGGAACAAAGAGTGCCACGGAGTTGTGG
* ** *
58447 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
257 ACTTAAAAAAGAAGGTGCCACAGAGTTGTGGGCTTTAAAAA
* ** * * *
58488 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA-AAGAAGGTGCCACGGAGTCGTGGACTTTAAG
1 G--AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAACAAGGTGCCACGGAGTTGAGGACTTTAA-
* * * ** *
58552 AA-GGAAAAAGAGTGCCACAGAGTTGTGGGC-TT--AAA-ATGGTGCCACAGAGTTATGGACTTA
63 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGATTTA
* *
58612 GAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCTACGGAGTCGTGGACTTT
128 AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGGTGCCACGGAGTCGTGGAC-TT
*
58677 AAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTG
191 AA-AAAGAAAAAG-GTGCCACGGAGTTGTGGACTTTG
58714 GTGCCACTGA
Statistics
Matches: 436, Mismatches: 46, Indels: 66
0.80 0.08 0.12
Matches are distributed among these distances:
282 32 0.07
283 3 0.01
284 17 0.04
285 3 0.01
286 33 0.08
287 9 0.02
288 75 0.17
289 32 0.07
290 37 0.08
291 2 0.00
292 18 0.04
294 2 0.00
295 4 0.01
296 14 0.03
297 3 0.01
298 1 0.00
302 6 0.01
303 142 0.33
304 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (297 bp):
GAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAACAAGGTGCCACGGAGTTGAGGACTTTAAAAG
GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGATTTAAAA
GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAA
GAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAACAAAGAGTGCCACGGAGTTGTGGACTT
AAAAAAGAAGGTGCCACAGAGTTGTGGGCTTTAAAAA
Found at i:58376 original size:23 final size:23
Alignment explanation
Indices: 58343--58388 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
58333 GGAAAAAGAG
*
58343 TGCCACGGAGTTGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
*
58366 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
58389 GACAAGATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (23 bp):
TGCCACGGAGTCGTGGACTTTGA
Found at i:58717 original size:23 final size:23
Alignment explanation
Indices: 58691--58736 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
58681 AGGAAAAAGA
*
58691 GTGCCACGGAGTTGTGGACTTTG
1 GTGCCACGGAGTCGTGGACTTTG
*
58714 GTGCCACTGAGTCGTGGACTTTG
1 GTGCCACGGAGTCGTGGACTTTG
58737 AGACAAGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.20, G:0.37, T:0.30
Consensus pattern (23 bp):
GTGCCACGGAGTCGTGGACTTTG
Found at i:58721 original size:349 final size:351
Alignment explanation
Indices: 58059--58898 Score: 1018
Period size: 349 Copynumber: 2.4 Consensus size: 351
58049 GTTGTGGGCT
* * **
58059 TTAAAAAGAA-AAAG-GTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACGGAGTTGT
1 TTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTTGT
* **
58122 GGGCTTTGAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACAGAG
63 GGGCTTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACAGAG
* * * * *
58186 TTGTGGGCTTT-GAA--AAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
124 TCGTGGACTTTAGAAGGAAAAAGGTGCCACAGAGTCGTGGACTT--AA-GAACAAGGTGCCACAG
*
58248 AGTTGGGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAGGTGCCAC
186 AGTTAGGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAGGTGCCAC
58313 GGAGTCGTGGACTTTAAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGATGCCACTGAGTC
251 GGAGTCGTGGACTTTAAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGATGCCACTGAGTC
* *
58378 GTGGACTTTGAGACAAGATGCCACTATGTCGTGGAC
316 GTGGACTTTGAGACAAGATGCCACCATATCGTGGAC
58414 TTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGG
1 TTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGG
*
58479 CTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGG
66 CTTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGG
* * * *
58544 ACTTTAAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT-A-AA-ATGGTGCCACAGAGTTATG
130 ACTTT-AGAAGGAAAAAG-GTGCCACAGAGTCGTGGACTTAAGAACAAGGTGCCACAGAGTTAGG
* * *
58606 GAC-TTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCTACGGAGTCG
193 GACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAGGTGCCACGGAGTCG
*
58669 TGGACTTTAAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGTGCCACTGAGTCGTGGACT
258 TGGACTTTAAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGATGCCACTGAGTCGTGGACT
*
58734 TTGAGACAAGATGCCACCATATTGTGGAC
323 TTGAGACAAGATGCCACCATATCGTGGAC
** * * * *
58763 TT-TTAGG-ACAAA-A-TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCGT
1 TTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTT--GAA-AAGAAGGTGCCACGGAGTTGT
* * * * * * * * *
58824 GGACTTT--AGGACAAA-A-TGCCACTGAATCGTGGGCTTTGAGAAG-AGATTGCCACTGAGTCG
63 GGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG-GTGCCACAGAGTCG
58884 TGGACTTTGAGAAGG
127 TGGACTTT-AGAAGG
58899 TATTTGAAGA
Statistics
Matches: 431, Mismatches: 42, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
342 2 0.00
343 49 0.11
344 1 0.00
345 25 0.06
346 1 0.00
347 8 0.02
348 28 0.06
349 144 0.33
350 5 0.01
351 18 0.04
352 24 0.06
354 40 0.09
355 34 0.08
356 9 0.02
357 43 0.10
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (351 bp):
TTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGG
CTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGA
CTTTAGAAGGAAAAAGGTGCCACAGAGTCGTGGACTTAAGAACAAGGTGCCACAGAGTTAGGGAC
TTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGG
ACTTTAAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGATGCCACTGAGTCGTGGACTTTG
AGACAAGATGCCACCATATCGTGGAC
Found at i:58837 original size:95 final size:95
Alignment explanation
Indices: 58713--58897 Score: 239
Period size: 95 Copynumber: 1.9 Consensus size: 95
58703 TGTGGACTTT
* * * * *
58713 GGTGCCACTGAGTCGTGGACTTTGAGACAAGATGCCAC-CATATTGTGGACTTTTAGGACAAAAT
1 GGTGCCACGGAGTCGTGGACTTTGAGACAAAATGCCACTCA-ATCGTGGACTTTGAGAACAAAAT
*
58777 GCCACTGAGTCGTGGGCTTTGAGAAGAAAAA
65 GCCACTGAGTCGTGGACTTTGAGAAGAAAAA
* * * * *
58808 GGTGCCACGGAGTCGTGGACTTT-AGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGATT
1 GGTGCCACGGAGTCGTGGACTTTGA-GACAAAATGCCACTCAATCGTGGACTTTGAGAACAAAAT
58872 GCCACTGAGTCGTGGACTTTGAGAAG
65 GCCACTGAGTCGTGGACTTTGAGAAG
58898 GTATTTGAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 1 0.01
95 75 0.97
96 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (95 bp):
GGTGCCACGGAGTCGTGGACTTTGAGACAAAATGCCACTCAATCGTGGACTTTGAGAACAAAATG
CCACTGAGTCGTGGACTTTGAGAAGAAAAA
Found at i:58854 original size:64 final size:61
Alignment explanation
Indices: 58757--58891 Score: 198
Period size: 64 Copynumber: 2.1 Consensus size: 61
58747 CCACCATATT
*
58757 GTGGACTTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTC
1 GTGGAC-TTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAG--AAA-GTGCCACGGAGTC
* * *
58822 GTGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGATTGCCACTGAGTC
1 GTGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAGTGCCACGGAGTC
58883 GTGGACTTT
1 GTGGACTTT
58892 GAGAAGGTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
61 20 0.30
62 2 0.03
64 38 0.58
65 6 0.09
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (61 bp):
GTGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAGTGCCACGGAGTC
Found at i:58876 original size:31 final size:31
Alignment explanation
Indices: 58715--58897 Score: 167
Period size: 31 Copynumber: 5.9 Consensus size: 31
58705 TGGACTTTGG
* *
58715 TGCCACTGAGTCGTGGACTTTGAG-ACAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAAAA
* * * *
58745 TGCCACCAT-A-TTGTGGACTTTTAGGACAAAA
1 TGCCA-C-TGAGTCGTGGACTTTGAGAAGAAAA
*
58776 TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAAG-AAAA
* * *
58808 GGTGCCACGGAGTCGTGGACTTT-AGGACAAAA
1 --TGCCACTGAGTCGTGGACTTTGAGAAGAAAA
* * * *
58840 TGCCACTGAATCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAAAA
58871 TGCCACTGAGTCGTGGACTTTGAGAAG
1 TGCCACTGAGTCGTGGACTTTGAGAAG
58898 GTATTTGAAG
Statistics
Matches: 123, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
29 1 0.01
30 37 0.30
31 54 0.44
32 9 0.07
33 3 0.02
34 19 0.15
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAAAA
Found at i:58988 original size:16 final size:17
Alignment explanation
Indices: 58957--58994 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
58947 GATGCAAATA
* *
58957 ATGATGTTATTGATGTT
1 ATGATGCTATTGATGTC
58974 ATGATGCTA-TGATGTC
1 ATGATGCTATTGATGTC
58990 ATGAT
1 ATGAT
58995 TACAACACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGCTATTGATGTC
Found at i:67185 original size:52 final size:52
Alignment explanation
Indices: 67107--67257 Score: 230
Period size: 52 Copynumber: 2.9 Consensus size: 52
67097 CGAAATATGA
* * *
67107 AAATTTACCTGCATGTATTGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
67159 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATAAATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
67211 AAATTTGCCTGCATGTATCGATACATGTGAGTAATGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACAT-TTAATAATGTATCGATACAT
67258 TTTTTGGCAG
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
52 73 0.82
53 16 0.18
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:67313 original size:33 final size:33
Alignment explanation
Indices: 67276--67342 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
67266 AGTAGCTTAA
67276 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
67309 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
67342 A
1 A
67343 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:67316 original size:13 final size:13
Alignment explanation
Indices: 67298--67322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67288 CAAAAAAATA
67298 TGTATCGATACAT
1 TGTATCGATACAT
67311 TGTATCGATACA
1 TGTATCGATACA
67323 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:73961 original size:163 final size:161
Alignment explanation
Indices: 73649--74164 Score: 559
Period size: 163 Copynumber: 3.2 Consensus size: 161
73639 GACAATACTA
** * * * * *
73649 GATGAATTTTAAAAATTTTAAATCGAGAAAAATCTCCT-TGAAAACATTTACGGAGTAGAAAACT
1 GATGAATTTTAAAAATTAAAAACCAAGAAAAATCGCCTCCGAAAA-AATTACGGAGTAGAAAACT
* * * * * *
73713 CCGTATTTCAAAAAT-AGGAAAATGTCAAGAAAAAATGAAACATTCATGAAAATGAATGAATTTT
65 TCGTATTTCAGAAATAAGG--AAT-TC-A-AAAAAATTAAAAACTAATGAAAATGAATGAATTTT
* * *
73777 TGAAAACTGATTCAATATGAAATAAATAATAATATTT
125 TAAAAACTAATTTAATATGAAATAAATAATAATATTT
*
73814 GATGAATTTGAAAAATTAAAAACCAAGAAAAATC-CCTCCGAAAAAATTACGGAGTAGAAAACTT
1 GATGAATTTTAAAAATTAAAAACCAAGAAAAATCGCCTCCGAAAAAATTACGGAGTAGAAAACTT
* *
73878 CATATTTCAGAAATAAAGGAATTTCAAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTCAA
66 CGTATTTCAGAAAT-AAGGAA-TTCAAAAAAATT-AAAAACTAATGAAAATGAATGAATTTTTAA
* *
73943 AAACTTATTTACTATGAAATAAATAATAATATTT
128 AAACTAATTTAATATGAAATAAATAATAATATTT
* **
73977 GATGAATTTT-AAAATTAGAAAACCAAGAAAAATCGCC-CCAAAAAAATTTACAAAGTAGAAAAC
1 GATGAATTTTAAAAATTA-AAAACCAAGAAAAATCGCCTCCGAAAAAA-TTACGGAGTAGAAAAC
* *
74040 -TCTGTATTTCAGAAAT-A-G-A--CAAAAAAATTAAAAACTAATGACAATGAATGAATTTTTTA
64 TTC-GTATTTCAGAAATAAGGAATTCAAAAAAATTAAAAACTAATGAAAATGAATGAATTTTTAA
**
74099 AAACTAATTTAATAAAAAATAAATAATAATATTT
128 AAACTAATTTAATATGAAATAAATAATAATATTT
* * *
74133 GATGAATTTTTAAAAATTTAAACCCATGAAAA
1 GATGAA-TTTTAAAAATTAAAAACCAAGAAAA
74165 TCCTCCTAAA
Statistics
Matches: 306, Mismatches: 34, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
156 63 0.21
157 25 0.08
158 6 0.02
160 1 0.00
161 1 0.00
162 15 0.05
163 92 0.30
164 65 0.21
165 35 0.11
166 3 0.01
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (161 bp):
GATGAATTTTAAAAATTAAAAACCAAGAAAAATCGCCTCCGAAAAAATTACGGAGTAGAAAACTT
CGTATTTCAGAAATAAGGAATTCAAAAAAATTAAAAACTAATGAAAATGAATGAATTTTTAAAAA
CTAATTTAATATGAAATAAATAATAATATTT
Found at i:76155 original size:166 final size:166
Alignment explanation
Indices: 75958--76300 Score: 510
Period size: 166 Copynumber: 2.1 Consensus size: 166
75948 TTTCTTCTTG
** * * *
75958 GTAAATTTTTTTGGGGGGATTTTTTTTGGTTTTCAATTTTTAAAATTCATCAGACATTATTATTT
1 GTAAATTTTTTTAAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACAATATTATTT
* *
76023 ATTTCGTATAAATTCAGTTTTCAAAAATTCATTCATTTTCATTCA-TTTTTTATTTTTTCCTTGA
66 ATTTCATATAAATTCAGTTTTCAAAAATTCATTCATTTTCATT-AGTTTTTGATTTTTTCCTTGA
* * *
76087 AACTT-CTTTTTTTTCGAAATACGGTATTTTCTACTCT
130 AACTTCCCTTTTTCT-AAAATACGGTATTTTCTACTCT
*
76124 GTAAATTTTTTTAAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAATAATATTATTT
1 GTAAATTTTTTTAAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACAATATTATTT
* * * *
76189 ATTTTATATTAATTCATTTTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTCTTGAA
66 ATTTCATATAAATTCAGTTTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTCCTTGAA
*
76254 ACTTCCCTTTTTCTAAAATACGGTGTTTTCTACTCT
131 ACTTCCCTTTTTCTAAAATACGGTATTTTCTACTCT
76290 GTAAATTTTTT
1 GTAAATTTTTT
76301 CAAAGGATAC
Statistics
Matches: 159, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
165 1 0.01
166 151 0.95
167 7 0.04
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (166 bp):
GTAAATTTTTTTAAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACAATATTATTT
ATTTCATATAAATTCAGTTTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTCCTTGAA
ACTTCCCTTTTTCTAAAATACGGTATTTTCTACTCT
Found at i:82605 original size:21 final size:21
Alignment explanation
Indices: 82572--82612 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
82562 CTAAGTAAAA
82572 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
82593 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
82613 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:82677 original size:20 final size:20
Alignment explanation
Indices: 82651--82722 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
82641 AACCCTGAAA
82651 AGTATCGATACACATTTAAAT
1 AGTATCGATACACA-TTAAAT
* **
82672 -GTATCGATACAGATTGCAT
1 AGTATCGATACACATTAAAT
*
82691 AGTATCGATACACA-CAAAT
1 AGTATCGATACACATTAAAT
*
82710 ATGTATCAATACA
1 A-GTATCGATACA
82723 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.17
20 34 0.83
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (20 bp):
AGTATCGATACACATTAAAT
Found at i:82851 original size:21 final size:21
Alignment explanation
Indices: 82821--82870 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
82811 ACTATTCATA
82821 ACTGTTCATGTATCGATACATT
1 ACTGTTCATGTATCGATACA-T
82843 ACT-TTCATGTATCGATACAT
1 ACTGTTCATGTATCGATACAT
82863 ACTGTTCA
1 ACTGTTCA
82871 CACTGTTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.15
21 20 0.74
22 3 0.11
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (21 bp):
ACTGTTCATGTATCGATACAT
Found at i:82965 original size:13 final size:13
Alignment explanation
Indices: 82947--82972 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82937 ACATATTTGT
82947 GTGTATCGATACA
1 GTGTATCGATACA
82960 GTGTATCGATACA
1 GTGTATCGATACA
82973 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:83514 original size:34 final size:35
Alignment explanation
Indices: 83451--83517 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
83441 CTAAGTGATT
83451 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
83487 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
83518 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:85775 original size:13 final size:13
Alignment explanation
Indices: 85757--85781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85747 TTTTCCAGAT
85757 TGTATCGATACAA
1 TGTATCGATACAA
85770 TGTATCGATACA
1 TGTATCGATACA
85782 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:87423 original size:21 final size:21
Alignment explanation
Indices: 87390--87430 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87380 CTAAGTAAAA
87390 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
87411 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
87431 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:87495 original size:20 final size:20
Alignment explanation
Indices: 87469--87540 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
87459 AACCCTGAAA
87469 AGTATCGATACACATTTAAAT
1 AGTATCGATACACA-TTAAAT
* **
87490 -GTATCGATACAGATTGCAT
1 AGTATCGATACACATTAAAT
*
87509 AGTATCGATACACA-CAAAT
1 AGTATCGATACACATTAAAT
*
87528 ATGTATCAATACA
1 A-GTATCGATACA
87541 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.17
20 34 0.83
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (20 bp):
AGTATCGATACACATTAAAT
Found at i:87669 original size:21 final size:21
Alignment explanation
Indices: 87639--87688 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
87629 ACTATTCATA
87639 ACTGTTCATGTATCGATACATT
1 ACTGTTCATGTATCGATACA-T
87661 ACT-TTCATGTATCGATACAT
1 ACTGTTCATGTATCGATACAT
87681 ACTGTTCA
1 ACTGTTCA
87689 CACTGTTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.15
21 20 0.74
22 3 0.11
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (21 bp):
ACTGTTCATGTATCGATACAT
Found at i:87783 original size:13 final size:13
Alignment explanation
Indices: 87765--87790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87755 ACATATTTGT
87765 GTGTATCGATACA
1 GTGTATCGATACA
87778 GTGTATCGATACA
1 GTGTATCGATACA
87791 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:88332 original size:34 final size:35
Alignment explanation
Indices: 88269--88335 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
88259 CTAAGTGATT
88269 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
88305 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
88336 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:93902 original size:11 final size:11
Alignment explanation
Indices: 93882--93984 Score: 115
Period size: 11 Copynumber: 9.4 Consensus size: 11
93872 GCATCCTTCG
93882 CAAA-AAAAAA
1 CAAACAAAAAA
93892 CAAACAAAAAA
1 CAAACAAAAAA
93903 CAAA-AAAAAA
1 CAAACAAAAAA
93913 CCAAA-AAAAAA
1 -CAAACAAAAAA
*
93924 C-AACACAAAA
1 CAAACAAAAAA
93934 CAAACAAAAAA
1 CAAACAAAAAA
*
93945 CAAAAAAAAAA
1 CAAACAAAAAA
93956 CAAAACAAAAAA
1 C-AAACAAAAAA
*
93968 AAAACAACAACAA
1 CAAACAA-AA-AA
93981 CAAA
1 CAAA
93985 AAGGGTCCGG
Statistics
Matches: 80, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
9 2 0.03
10 17 0.21
11 45 0.56
12 11 0.14
13 5 0.06
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAACAAAAAA
Found at i:93923 original size:32 final size:32
Alignment explanation
Indices: 93882--93971 Score: 130
Period size: 32 Copynumber: 2.8 Consensus size: 32
93872 GCATCCTTCG
93882 CAAAAAAAAACAAACAAAAAACAAAAAAAAAC
1 CAAAAAAAAACAAACAAAAAACAAAAAAAAAC
*
93914 CAAAAAAAAAC-AACACAAAACAAACAAAAAAC
1 CAAAAAAAAACAAACAAAAAACAAA-AAAAAAC
*
93946 AAAAAAAAAACAAAACAAAAAA-AAAA
1 CAAAAAAAAAC-AAACAAAAAACAAAA
93972 CAACAACAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
31 12 0.23
32 29 0.56
33 3 0.06
34 8 0.15
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (32 bp):
CAAAAAAAAACAAACAAAAAACAAAAAAAAAC
Found at i:93935 original size:42 final size:43
Alignment explanation
Indices: 93883--93986 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 43
93873 CATCCTTCGC
*
93883 AAAAA-AAAACAAACAAAAAACAAAAAAAAACCAAAA-AAAAA
1 AAAAACAAAACAAACAAAAAACAAAAAAAAAACAAAACAAAAA
* *
93924 CAACACAAAACAAACAAAAAACAAAAAAAAAACAAAACAAAAA
1 AAAAACAAAACAAACAAAAAACAAAAAAAAAACAAAACAAAAA
93967 AAAAACAACAAC-AACAAAAA
1 AAAAACAA-AACAAACAAAAA
93987 GGGTCCGGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 3 0.05
42 30 0.55
43 19 0.35
44 3 0.05
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (43 bp):
AAAAACAAAACAAACAAAAAACAAAAAAAAAACAAAACAAAAA
Found at i:93969 original size:48 final size:48
Alignment explanation
Indices: 93893--93984 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
93883 AAAAAAAAAC
*
93893 AAACAAAAAACAAAAAAAAACCAAAAAAAAACAACACAAAACAAACAAA
1 AAACAAAAAACAAAAAAAAACAAAAAAAAAACAACA-AAAACAAACAAA
* *
93942 AAACAAAAAA-AAAACAAAACAAAAAAAAAACAACAACAACAAA
1 AAACAAAAAACAAAAAAAAACAAAAAAAAAACAACAAAAACAAA
93985 AAGGGTCCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 7 0.17
48 23 0.57
49 10 0.25
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (48 bp):
AAACAAAAAACAAAAAAAAACAAAAAAAAAACAACAAAAACAAACAAA
Found at i:93986 original size:1 final size:1
Alignment explanation
Indices: 93883--93971 Score: 61
Period size: 1 Copynumber: 89.0 Consensus size: 1
93873 CATCCTTCGC
* * * ** * * * * * *
93883 AAAAAAAAACAAACAAAAAACAAAAAAAAACCAAAAAAAAACAACACAAAACAAACAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
93948 AAAAAAAACAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
93972 CAACAACAAC
Statistics
Matches: 64, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:93986 original size:32 final size:30
Alignment explanation
Indices: 93884--93986 Score: 102
Period size: 32 Copynumber: 3.3 Consensus size: 30
93874 ATCCTTCGCA
*
93884 AAAAAAAAC-AAACAAAAAACAAAAAAAAACC
1 AAAAAAAACAAAACAAAAAA-AAAAAACAA-C
*
93915 AAAAAAAAACAACACAAAACAAACAAAAAACAA-
1 -AAAAAAAACAAAAC-AAA-AAA-AAAAAACAAC
93948 AAAAAAAACAAAACAAAAAAAAAACAACAAC
1 AAAAAAAACAAAACAAAAAAAAAA-AACAAC
*
93979 AACAAAAA
1 AAAAAAAA
93987 GGGTCCGGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
29 4 0.06
30 8 0.13
31 10 0.16
32 22 0.35
33 3 0.05
34 3 0.05
35 12 0.19
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (30 bp):
AAAAAAAACAAAACAAAAAAAAAAAACAAC
Found at i:95466 original size:29 final size:29
Alignment explanation
Indices: 95427--95746 Score: 220
Period size: 29 Copynumber: 10.7 Consensus size: 29
95417 TCACCCTTCA
95427 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
95456 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
95485 AAAGTCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
95512 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
95542 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
95571 AAAGTCCACAACTCCA-TGGCACTCTTTTTC
1 AAAGCCCACAAGT-CAGTGGCA-TCTTTTTC
* * * * * *
95601 TTTTGTAAGCTCACAACTCCGTAGCACTTTTTTTCC
1 -----AAAGCCCACAAGTCAGTGGCA-TCTTTTT-C
* * * *
95637 TTTTAAGCCCACAAGTTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
95669 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
95698 AAAACCCACAAGTCAGTGGCAATC--TTTA
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTC
*
95726 AAAGCCCACAAGTTAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
95747 ACCTTCAAAA
Statistics
Matches: 236, Mismatches: 42, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
27 23 0.10
28 42 0.18
29 77 0.33
30 48 0.20
32 1 0.00
33 4 0.02
34 19 0.08
35 21 0.09
36 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:95549 original size:86 final size:86
Alignment explanation
Indices: 95421--95581 Score: 252
Period size: 86 Copynumber: 1.9 Consensus size: 86
95411 CATTCCTCAC
* * * *
95421 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCA
1 CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
95486 AAGTCCACAAGTCAGTGGCAA
66 AAGTCCACAAGTCAGTGGCAA
* *
95507 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 CCTTCAAAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
95571 AAAGTCCACAA
65 AAAGTCCACAA
95582 CTCCATGGCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
85 20 0.29
86 48 0.71
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
AAGTCCACAAGTCAGTGGCAA
Found at i:95644 original size:34 final size:35
Alignment explanation
Indices: 95576--95650 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
95566 TTTCCAAAGT
* *
95576 CCACAACTCCATGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTTGTAAGC
* * *
95611 TCACAACTCCGTAGCACTTTTTTTCCTTT-TAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTTGTAAGC
95645 CCACAA
1 CCACAA
95651 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (35 bp):
CCACAACTCCATAGCACTCTTTTTCCTTTGTAAGC
Found at i:95709 original size:28 final size:28
Alignment explanation
Indices: 95641--95792 Score: 173
Period size: 28 Copynumber: 5.3 Consensus size: 28
95631 TTTTCCTTTT
* *
95641 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
95671 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
95699 AAACCCACAAGTCAGTGGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
95727 AAGCCCACAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
95755 AAGCACACAAGT-TGAT-GCAAACCTTTTAA
1 AAGCCCACAAGTCAG-TGGC-AACC-TTTAA
95784 AAGCCCACA
1 AAGCCCACA
95793 CAAGTTGGTG
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
27 3 0.03
28 68 0.64
29 15 0.14
30 21 0.20
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.20
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:95765 original size:56 final size:58
Alignment explanation
Indices: 95423--95792 Score: 204
Period size: 56 Copynumber: 6.2 Consensus size: 58
95413 TTCCTCACCC
* * * *
95423 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * *
95482 TTC-AAAGTCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTT
** * * * * * *
95538 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCA-TGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGT-CAGTGGCAAC-C-TT
** * * * * * ** * *
95598 TTCTTTTGTAAGCTCACAACTCCGTAGC-ACTTTTTTTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 TTC----AAAAGCCCACAAGTCAGTGGCAAC----CTT-C--AAAAGCCCACAAGTCAGTGGCAA
95662 CCTT
55 CCTT
* * *
95666 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAACCCACAAGTCAGTGGCAATC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * *
95723 TT-AAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCACACAAGT-TGAT-GCAAACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAG-TGGC-AACCTT
95780 TT-AAAAGCCCACA
1 TTCAAAAGCCCACA
95793 CAAGTTGGTG
Statistics
Matches: 242, Mismatches: 47, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
55 3 0.01
56 71 0.29
57 36 0.15
58 44 0.18
59 19 0.08
60 7 0.03
61 2 0.01
63 1 0.00
64 30 0.12
65 2 0.01
66 4 0.02
67 1 0.00
68 6 0.02
69 15 0.06
70 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:95928 original size:43 final size:43
Alignment explanation
Indices: 95867--95950 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
95857 TGGTACCTTT
*
95867 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCC
*
95910 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
95951 TCATCTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:96759 original size:21 final size:20
Alignment explanation
Indices: 96733--96771 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
96723 ATTTCAACGA
96733 TTTGTATCGATACATATTTTT
1 TTTGTATCGATACA-ATTTTT
96754 TTTGTATCGATACAATTT
1 TTTGTATCGATACAATTT
96772 AAGCTACTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTGTATCGATACAATTTTT
Found at i:96828 original size:13 final size:13
Alignment explanation
Indices: 96810--96834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96800 ATTACTCAAA
96810 TGTATCGATACAT
1 TGTATCGATACAT
96823 TGTATCGATACA
1 TGTATCGATACA
96835 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103517 original size:34 final size:33
Alignment explanation
Indices: 103454--103518 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
103444 TTTCCTCTAA
103454 AAAAAGAGAAAAAAAGAAAGAAAAGAAAAATGT
1 AAAAAGAGAAAAAAAGAAAGAAAAGAAAAATGT
*
103487 AAAAAG-GAAAAAACATGAAATGAAAAAAAAAA
1 AAAAAGAGAAAAAA-A-GAAA-GAAAAGAAAAA
103519 GTTCAGATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 7 0.25
33 7 0.25
34 4 0.14
35 10 0.36
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (33 bp):
AAAAAGAGAAAAAAAGAAAGAAAAGAAAAATGT
Found at i:104653 original size:44 final size:44
Alignment explanation
Indices: 104605--104741 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 44
104595 TCTCACCTAT
* **
104605 ATTTGCATTTTAGATGATAATGGTATTTGCATCATTGCATATGC
1 ATTTGCATTTTAGATGATAATGGCATTTGCATCATTTAATATGC
* * * ** * * * *
104649 ATTTGCCTTTTTGTTGATGCTTGCATTTGTATCATTTTACATGC
1 ATTTGCATTTTAGATGATAATGGCATTTGCATCATTTAATATGC
* * * *
104693 ATTCGCA-TTTAGATAATATTGGCATTTGCATAATTTAATATGC
1 ATTTGCATTTTAGATGATAATGGCATTTGCATCATTTAATATGC
104736 ATTTGC
1 ATTTGC
104742 CACTTTACTA
Statistics
Matches: 69, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
43 31 0.45
44 38 0.55
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (44 bp):
ATTTGCATTTTAGATGATAATGGCATTTGCATCATTTAATATGC
Found at i:104928 original size:90 final size:88
Alignment explanation
Indices: 104826--105012 Score: 227
Period size: 90 Copynumber: 2.1 Consensus size: 88
104816 AATTGCGTCA
* *
104826 TTTCACGCACATTCGTAGTTTT-GATAACATTTGCATTTGCATCATTTCAT-GTGCATTTGCCTT
1 TTTCACGCACATTCGCA-TTTTAGATAACATTGGCATTTGCATCATTTCATAG-GCATTTGCC--
**
104889 TTTTTATTGATCCCTGCATTTGCATCG
62 ACTTTATTGATCCCTGCATTTGCATCG
* * *
104916 TTTCAC-CTACATTTGCATTTTAGATGACATTGGTATTTGCATCATTTCATAGGCATTTGCCACT
1 TTTCACGC-ACATTCGCATTTTAGATAACATTGGCATTTGCATCATTTCATAGGCATTTGCCACT
* *
104980 TTATTGATGCTTGCATTTGCATCG
65 TTATTGATCCCTGCATTTGCATCG
105004 TTTCACGCA
1 TTTCACGCA
105013 TATCTACACC
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
88 30 0.36
89 6 0.07
90 47 0.56
91 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (88 bp):
TTTCACGCACATTCGCATTTTAGATAACATTGGCATTTGCATCATTTCATAGGCATTTGCCACTT
TATTGATCCCTGCATTTGCATCG
Found at i:104998 original size:44 final size:43
Alignment explanation
Indices: 104856--105008 Score: 118
Period size: 44 Copynumber: 3.4 Consensus size: 43
104846 TTGATAACAT
* *
104856 TTGCATTTGCATCATTTCAT-GTGCATTTGCCTTTTTTTATTGATCC
1 TTGCATTTGCATCATTTCATAG-GCATTTGCC---ATTTATTGATGC
* * *
104902 CTGCATTTGCATCGTTTCACCTA--CATTTG-CATTT-TAGATGAC
1 TTGCATTTGCATCATTTCA--TAGGCATTTGCCATTTATTGATG-C
*
104944 ATTGGTATTTGCATCATTTCATAGGCATTTGCCACTTTATTGATGC
1 -TT-GCATTTGCATCATTTCATAGGCATTTGCCA-TTTATTGATGC
*
104990 TTGCATTTGCATCGTTTCA
1 TTGCATTTGCATCATTTCA
105009 CGCATATCTA
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
41 4 0.05
42 6 0.07
43 1 0.01
44 36 0.42
45 5 0.06
46 27 0.32
47 5 0.06
48 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (43 bp):
TTGCATTTGCATCATTTCATAGGCATTTGCCATTTATTGATGC
Found at i:105790 original size:35 final size:35
Alignment explanation
Indices: 105738--105840 Score: 116
Period size: 35 Copynumber: 2.9 Consensus size: 35
105728 AAATTTTCTT
* *
105738 TCAAGCTCTTTCTATCATCGTTTGACTGTATTTGG
1 TCAAACTCTTTCCATCATCGTTTGACTGTATTTGG
* ** *
105773 TCAAACTCTTTCCATCATCATTTGTTTGTATATGG
1 TCAAACTCTTTCCATCATCGTTTGACTGTATTTGG
* * *
105808 TCAAACTCTTTTCATCCCTCGTTTGACTATATT
1 TCAAACTCTTTCCAT-CATCGTTTGACTGTATT
105841 GGTGTTAGGG
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
35 43 0.80
36 11 0.20
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (35 bp):
TCAAACTCTTTCCATCATCGTTTGACTGTATTTGG
Found at i:105877 original size:48 final size:48
Alignment explanation
Indices: 105805--105959 Score: 213
Period size: 48 Copynumber: 3.2 Consensus size: 48
105795 TGTTTGTATA
*
105805 TGGTCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGCT
1 TGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCT
* * *
105853 TGGTCAAACTCTTTTCATCTCTCGTTTGATTGTATTGGTGTTAGGGCC
1 TGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCT
* * **
105901 TGGTCAAACTCTTTTTACCCCTTATTTGACTGTATTGGTGTTA-GGCT
1 TGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCT
* *
105948 TGATTAAACTCT
1 TGGTCAAACTCT
105960 GCTCTCTTCT
Statistics
Matches: 94, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 13 0.14
48 81 0.86
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.43
Consensus pattern (48 bp):
TGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCT
Found at i:106394 original size:42 final size:42
Alignment explanation
Indices: 106295--106860 Score: 431
Period size: 42 Copynumber: 13.4 Consensus size: 42
106285 TATGATACCT
* * * *
106295 TTGATCTTTTGTTTGCCCATTGGCTTAGACCTAGGAGACTTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGAC-TTC
* * * * * **
106338 TTTATCCTTTGTCTGCTCATCGGCTTAGACCTAAAAGACTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
* * * ** *
106380 TTGATCTTTTGTCTGCCCGTCGACTCAAACCCAAAAGACCTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
* * * * *
106422 TTAATCTTTTGTCTGCCTGTAGGCTCAGACTTGGGAGACTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
* * * *
106464 TTGATCCTTTATCTGCCTGTCGGCTCAGACCCAGGAGACTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
* *
106506 TTGATCCTTTGTAC-GCCCTTCGGCTCAGATCCT-GGAGACTTC
1 TTGATCTTTTGT-CTGCCCGTCGGCTCAGA-CCTAGGAGACTTC
* * ** *
106548 TTCATCTTTTGTCTGCCCGTCGGCTCAAACCTAAAAGACTTA
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
* * * *
106590 TTGATCCTTTGTCTGCCTGTCGGCTCAGACCTGGGAGATTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
* * * *
106632 TTCATTTTTTGTCTGCCCGTCGGCTAAGACC-AGGGAGATTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTA-GGAGACTTC
* * * * * *
106674 TTCATCTTTTATCTACCCGTTGGCTAAGACCCAGGAGACTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
* * * *
106716 TTGATCCTTTGTCTGCTCGTCGGCTCAGACC-CGAGAGACTTT
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAG-GAGACTTC
** * * *
106758 TTTTTCTTTTGTCTGCCTGTCAGCTCAGACC-CGAGAGACTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAG-GAGACTTC
* * * *** * * * *
106800 TTTATCCTTTGTTTGCTAATTGGCTTAGGCCTATGAGACTTC
1 TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
*
106842 TTGATCTCTTTGTTTGCCC
1 TTGATCT-TTTGTCTGCCC
106861 AACGACTCAA
Statistics
Matches: 417, Mismatches: 97, Indels: 18
0.78 0.18 0.03
Matches are distributed among these distances:
41 5 0.01
42 367 0.88
43 45 0.11
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (42 bp):
TTGATCTTTTGTCTGCCCGTCGGCTCAGACCTAGGAGACTTC
Found at i:107054 original size:41 final size:41
Alignment explanation
Indices: 107009--107114 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 41
106999 ATCTTGGTCC
** *
107009 ACTTTTTATCCCTTGTTTACTTGTTGGTTTGGTCCTAAGTA
1 ACTTTTTATCCCTTGTTTACTTGTTGGTTCAGTCCCAAGTA
** * * *
107050 ACTTTTTTATCTTTTG-TTAATTCATTGGTTCAGTCCCAATTA
1 AC-TTTTTATCCCTTGTTTACTT-GTTGGTTCAGTCCCAAGTA
107092 A-TTTTTCATCCCTTGTTTACTTG
1 ACTTTTT-ATCCCTTGTTTACTTG
107115 CCAGGTTAGT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
40 5 0.10
41 13 0.27
42 31 0.63
ACGTcount: A:0.17, C:0.18, G:0.12, T:0.53
Consensus pattern (41 bp):
ACTTTTTATCCCTTGTTTACTTGTTGGTTCAGTCCCAAGTA
Found at i:107209 original size:85 final size:85
Alignment explanation
Indices: 107120--107287 Score: 300
Period size: 85 Copynumber: 2.0 Consensus size: 85
107110 ACTTGCCAGG
*
107120 TTAGTCCTAGGTAAATCTTTTTATCCTTTGCTGGCTTGTCAGTTTAACCCAAGTCAACCTTTGCA
1 TTAGTCCGAGGTAAATCTTTTTATCCTTTGCTGGCTTGTCAGTTTAACCCAAGTCAACCTTTGCA
*
107185 TCTTTCATCTACCTGTCAGC
66 TCTCTCATCTACCTGTCAGC
* *
107205 TTAGTCCGAGGTAAATCTTTTTATCCTTTGTTGGCTTGTCGGTTTAACCCAAGTCAACCTTTGCA
1 TTAGTCCGAGGTAAATCTTTTTATCCTTTGCTGGCTTGTCAGTTTAACCCAAGTCAACCTTTGCA
107270 TCTCTCATCTACCTGTCA
66 TCTCTCATCTACCTGTCA
107288 ACTTTGTATC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.40
Consensus pattern (85 bp):
TTAGTCCGAGGTAAATCTTTTTATCCTTTGCTGGCTTGTCAGTTTAACCCAAGTCAACCTTTGCA
TCTCTCATCTACCTGTCAGC
Found at i:107888 original size:35 final size:35
Alignment explanation
Indices: 107792--107958 Score: 252
Period size: 35 Copynumber: 4.9 Consensus size: 35
107782 TGAAAATCAA
107792 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
* ** *
107827 -GAA-ATAAAAA-AAAAACATGGGATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
107859 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
* *
107894 GGAATAAAAAAATGAAGGCATAGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
107929 GGAATA-AAAAATGAAGGCATGGAATGATGG
1 GGAATATAAAAATGAAGGCATGGAATGATGG
107959 ATAAAAATGA
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
32 18 0.15
33 10 0.08
34 33 0.28
35 57 0.48
ACGTcount: A:0.47, C:0.05, G:0.30, T:0.18
Consensus pattern (35 bp):
GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
Found at i:107900 original size:67 final size:69
Alignment explanation
Indices: 107792--107958 Score: 268
Period size: 67 Copynumber: 2.4 Consensus size: 69
107782 TGAAAATCAA
* *
107792 GGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAA-AA-ACATGGGATGATGG
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAAGAAGACATAGAATGATGG
107855 GCAT
66 GCAT
* *
107859 GGAATATAAAAATGAAGGCATGGAATGATGGGCATGGAATAAAAAAATGAAGGCATAGAATGATG
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAA-GAAGACATAGAATGATG
107924 GGCAT
65 GGCAT
107929 GGAATA-AAAAATGAAGGCATGGAATGATGG
1 GGAATATAAAAATGAAGGCATGGAATGATGG
107959 ATAAAAATGA
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
67 46 0.49
69 26 0.28
70 21 0.23
ACGTcount: A:0.47, C:0.05, G:0.30, T:0.18
Consensus pattern (69 bp):
GGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAAGAAGACATAGAATGATGG
GCAT
Found at i:109227 original size:51 final size:51
Alignment explanation
Indices: 109171--109581 Score: 327
Period size: 51 Copynumber: 7.9 Consensus size: 51
109161 CAATCACTCA
109171 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * *
109222 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
* * * * ** *
109272 CACAATCGAGGATACTCCAACCTC-G--TTATTTCATCAAGGATACTCCAA-CCCCGT
1 --TAATCGGGGATACTCCAACCCCGGTTTTATTT--TCAA--A-ACACCAATTTCCTT
* * * * * *** *
109326 TACCTCCGAGGGGATACTTCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCA
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * *
109381 TAATGGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
*
109432 TAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
* *
109485 TAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTCCTA
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * * * *
109536 TAATGGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAAT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAAT
109582 CTTTCACAAT
Statistics
Matches: 286, Mismatches: 47, Indels: 53
0.74 0.12 0.14
Matches are distributed among these distances:
49 6 0.02
50 7 0.02
51 125 0.44
52 72 0.25
53 43 0.15
54 6 0.02
55 3 0.01
56 14 0.05
57 4 0.01
59 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
Found at i:109564 original size:104 final size:104
Alignment explanation
Indices: 109171--109580 Score: 308
Period size: 104 Copynumber: 3.9 Consensus size: 104
109161 CAATCACTCA
*
109171 TAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAA-TTTCCTTTAATCGGGGATA
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCC-ATAATCGGGGATA
* * * *
109234 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
64 CTCCAACCCCGATTTTATTTCCAAAAACACCAAATTTCCTT
* * * * ** * *
109274 CAATCGAGGATACTCCAACCTC-G--TTATTTCATCAAGGATACTCCAA--CCCCGTTACCTCCG
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTC-T-AA--A-ACACCAATTTTCC-ATA-AT-C-
* ** * *** *
109334 AGGGGATACTTCAACCCCGGCTTTATTTCC-AAAATA-TTGATTT-CTCA
57 -GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAAATTTCCT-T
* *
109381 TAATGGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACT
* * *
109446 CTAACCCCGGTTTTATTTTTC-AAAACACCAAATTTCCTT
66 CCAACCCCGATTTTA-TTTCCAAAAACACCAAATTTCCTT
* *
109485 TAATCGGGGATACTCTAACCCCGGTTTTATTT-TCAAAACACCAA-TTTCCTATAATGGGGGATA
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCC-ATAATCGGGGATA
* *
109548 CTCCAACTCTGATTTTATTTCCAAAAACACCAA
64 CTCCAACCCCGATTTTATTTCCAAAAACACCAA
109581 TCTTTCACAA
Statistics
Matches: 240, Mismatches: 45, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
100 6 0.03
102 26 0.11
103 38 0.16
104 85 0.35
105 16 0.07
106 7 0.03
107 26 0.11
108 28 0.12
109 1 0.00
110 7 0.03
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (104 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACT
CCAACCCCGATTTTATTTCCAAAAACACCAAATTTCCTT
Found at i:109796 original size:79 final size:79
Alignment explanation
Indices: 109618--109801 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 79
109608 TCGTTATTTC
* ** ** *
109618 ATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAGAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATTTCCACAAT
* *
109683 ATTGACTTCTCATA
66 ATCGACTTCTCACA
* * * *
109697 ATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAATCCCAATTTTATTTCC-CAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATTTCCACAAT
* *
109761 CATCGATTTTTCACA
66 -ATCGACTTCTCACA
109776 ATCGGGGATACTCCAACCCCGTTATT
1 ATCGGGGATACTCCAACCCCGTTATT
109802 ATCTCCAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 3 0.03
79 86 0.97
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATTTCCACAAT
ATCGACTTCTCACA
Found at i:112082 original size:168 final size:166
Alignment explanation
Indices: 111663--112147 Score: 638
Period size: 168 Copynumber: 2.9 Consensus size: 166
111653 CCTCTTATTC
* * * * *
111663 TTAAATTACGGGATTTTCTTCTCCGT-AATTTTTTTG-AGGGAATTTTTTTTAGTTTTTAATTTT
1 TTAAAATACGGTATTTTCTACTCCGTAAATTTTTTTGAAGGG-ATTTTTCTTAGTTTTCAATTTT
*
111726 TAAAATTCATAAAAAATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTC
65 TAAAATTCATAAAAAATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTC
* * * *
111791 ATTCATTTTTTTATTTTTTTCTTGAAAGTTCTCTCTTT
130 A-TGAGTTTTTGATTTTTTTCTTGAAACTTCTCTCTTT
* ** * **
111829 TTGAAATACGGTATTTTCTACTTTGTAAATTTTTTTGAGGGGATTTTTCTTTTTTTTCAATTTTT
1 TTAAAATACGGTATTTTCTACTCCGTAAATTTTTTTGAAGGGATTTTTCTTAGTTTTCAATTTTT
* *
111894 AAAATTCATAAAATATTATTATTTATTTCATATTCATTCCA-TTTTCAAAAATTCATTCATTTTC
66 AAAATTCATAAAAAATTATTATTTATTTCATATTAATT-CAGTTTTCAAAAATTCATTCATTTTC
111958 ATGAGTTTTTGATTTTTTTTCCTTGAAACTTCAT-T-TTT
130 ATGAGTTTTTGA-TTTTTTT-CTTGAAACTTC-TCTCTTT
* *
111996 TCTAAAATACGGTGTTTTCTACTCCGTAAATTTTTTTGAAGGGATTTTTCTTGGTTTTCAATTTT
1 T-TAAAATACGGTATTTTCTACTCCGTAAATTTTTTTGAAGGGATTTTTCTTAGTTTTCAATTTT
* * * *
112061 TAAAATTCATCAAACATTATTATTTATTTCATATTAATTCATTTTTTAAAAATTCATTCATTTTC
65 TAAAATTCATAAAAAATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTC
* *
112126 ATGAGTGTTTGAATTTTTTCTT
130 ATGAGTTTTTGATTTTTTTCTT
112148 TAAAATCCCC
Statistics
Matches: 280, Mismatches: 31, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
166 31 0.11
167 108 0.39
168 140 0.50
169 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (166 bp):
TTAAAATACGGTATTTTCTACTCCGTAAATTTTTTTGAAGGGATTTTTCTTAGTTTTCAATTTTT
AAAATTCATAAAAAATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
TGAGTTTTTGATTTTTTTCTTGAAACTTCTCTCTTT
Found at i:112229 original size:168 final size:168
Alignment explanation
Indices: 111720--112234 Score: 411
Period size: 168 Copynumber: 3.1 Consensus size: 168
111710 TTTAGTTTTT
* *
111720 AATTTTTAAAATTCATAAAAAATTATTATTTATTTCATATTAATT-TAGTTTTCAAAAATTCATT
1 AATTTTTAAAATTCATAAAACATTATTATTTATTTCATATTAATTCCA-TTTTCAAAAATTCATT
* ** * ** * * * *
111784 CATTTTCATTCA-T-TTTTTTATTTTTTTCTTGAAAGTTCTC-TCTTT-T-TGAAATACGGTATT
65 CATTTTCA-TGAGTGTTTGATATTTTTTCCTT-AAA-ACCCCAT-TTTCTCTAAAAAACGGAATT
*** * *** * ** * **
111844 TTCTACTTTGTAAATTTTTTTGAGGGGATTTTTCTTTTTTTTC
126 TTCTACTCCATAAATCTTCCCGAAGGGATTTTTCTTGATCTAA
* *
111887 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTCATTCCATTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAACATTATTATTTATTTCATATTAATTCCATTTTCAAAAATTCATTC
* * * ** * * **
111952 ATTTTCATGAGTTTTTGATTTTTTTTCCTTGAAACTTCATTTTTTCTAAAATACGGTGTTTTCTA
66 ATTTTCATGAGTGTTTGATATTTTTTCCTTAAAACCCCATTTTCTCTAAAAAACGGAATTTTCTA
* * *** * * **
112017 CTCCGTAAATTTTTTTGAAGGGATTTTTCTTGGTTTTC
131 CTCCATAAATCTTCCCGAAGGGATTTTTCTTGATCTAA
* *
112055 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATT-CATTTTTTAAAAATTCATT
1 AATTTTTAAAATTCATAAAACATTATTATTTATTTCATATTAATTCCA-TTTTCAAAAATTCATT
* *
112119 CATTTTCATGAGTGTTTGA-ATTTTTTCTTTAAAATCCCCATTTTCTC-AAAAAACTGAATTTTC
65 CATTTTCATGAGTGTTTGATATTTTTTCCTTAAAA-CCCCATTTTCTCTAAAAAACGGAATTTTC
* * *
112182 TATTTCATAAATACTTCCCGGA-GGATTTTTCATTGATCTAA
129 TACTCCATAAAT-CTTCCCGAAGGGATTTTTC-TTGATCTAA
112223 AATTTTTAAAAT
1 AATTTTTAAAAT
112235 GTATCTAATA
Statistics
Matches: 292, Mismatches: 46, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
166 7 0.02
167 116 0.40
168 169 0.58
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (168 bp):
AATTTTTAAAATTCATAAAACATTATTATTTATTTCATATTAATTCCATTTTCAAAAATTCATTC
ATTTTCATGAGTGTTTGATATTTTTTCCTTAAAACCCCATTTTCTCTAAAAAACGGAATTTTCTA
CTCCATAAATCTTCCCGAAGGGATTTTTCTTGATCTAA
Found at i:112835 original size:16 final size:16
Alignment explanation
Indices: 112793--112835 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
112783 AAAATTCAGC
112793 AAAAGAAAGGAGGAAAAA
1 AAAAGAAA--AGGAAAAA
112811 AAGAA-AAAAGGAAAAA
1 AA-AAGAAAAGGAAAAA
112827 AAAAGAAAA
1 AAAAGAAAA
112836 ATAGTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
18 5 0.22
19 2 0.09
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGGAAAAA
Found at i:112845 original size:18 final size:16
Alignment explanation
Indices: 112793--112828 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
112783 AAAATTCAGC
**
112793 AAAAGAAAGGAGGAAA
1 AAAAGAAAAAAGGAAA
112809 AAAAGAAAAAAGGAAA
1 AAAAGAAAAAAGGAAA
112825 AAAA
1 AAAA
112829 AAGAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGGAAA
Found at i:114617 original size:155 final size:154
Alignment explanation
Indices: 114264--114727 Score: 623
Period size: 155 Copynumber: 3.0 Consensus size: 154
114254 TGGGCATTTC
* *
114264 TACGTCGAAAGTGTCCCCTAGGGGTATTTTCATAATTTT-TTAGAATCGAGTCTTAGGTTGTCAT
1 TACGTCGAAAGTATCCTCTAGGGGTATTTTCATAATTTTCTTAGAATCGAGTCTTAGGTTGTCAT
* * * * * *
114328 TGGGTCTACTTTTATGCTAAAGGTGGGCATTTAGGATCGGTTCACCCATCCATATCCTTTTTAAA
66 CGGGTCTGCTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTTACCCATCCATATCCTTTTTAAG
*
114393 CCCTTTAGAGGTATCAGATACTTT
131 CCTTTTAGAGGTATCAGATACTTT
* * *
114417 TACATCGAAAGAAT-CTCTTAGGAGTATTTTCATAATTTTCTTAGAA-CTGAGTCTTAGGTTGTC
1 TACGTCGAAAGTATCCTC-TAGGGGTATTTTCATAATTTTCTTAGAATC-GAGTCTTAGGTTGTC
*
114480 ATCGGGTCTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTTACCCTATCCATATCCTTTTT
64 ATCGGGTCTGCTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTTACCC-ATCCATATCCTTTTT
* *
114545 AAGCCTTTTAGAGGTGTCAGGTACTTT
128 AAGCCTTTTAGAGGTATCAGATACTTT
* * *
114572 TACGTC-AAAGGTATCCTCTAGGGGCATTTTCATAATTTTCCTAGAATCGAGTCCTAGGTTGTCA
1 TACGTCGAAA-GTATCCTCTAGGGGTATTTTCATAATTTTCTTAGAATCGAGTCTTAGGTTGTCA
* * *
114636 CCGGGTCCGTTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTTACTCCATCCATATCCTTTTTA
65 TCGGGTCTGCTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTTAC-CCATCCATATCCTTTTTA
* *
114701 AGTCC-TTTAGGGGTACCAAGATACTTT
129 AG-CCTTTTAGAGGTATC-AGATACTTT
114728 CACATCGTAG
Statistics
Matches: 272, Mismatches: 29, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
152 2 0.01
153 32 0.12
154 67 0.25
155 155 0.57
156 16 0.06
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (154 bp):
TACGTCGAAAGTATCCTCTAGGGGTATTTTCATAATTTTCTTAGAATCGAGTCTTAGGTTGTCAT
CGGGTCTGCTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTTACCCATCCATATCCTTTTTAAG
CCTTTTAGAGGTATCAGATACTTT
Found at i:114782 original size:155 final size:153
Alignment explanation
Indices: 114280--114868 Score: 605
Period size: 155 Copynumber: 3.8 Consensus size: 153
114270 GAAAGTGTCC
* * * * **
114280 CCTAGGGGTATTTTCATAATTTT-TTAGAATCGAGTCTTAGGTTGTCATTGGGTCTACTTTTATG
1 CCTAGGAGCATTTTCATAATTTTCTTAG-ATCGAGTCCTAGGTTGTCATCGGGTCCGCTTTTATG
* * * **
114344 CTAAAGGTGGGCATTTAGGATCGGTTCACCCATCCATATCCTTTTTAAACCCTTTAGAGGTATCA
65 CCAAAGGTGGGTATTTAGGATAGGTTCACCCATCCATATCCTTTTTAAGTCCTTTAGAGGTATCA
* *
114409 GATACTTTTACATCGAAAGAATCT
130 GATACTTTTACATCGAAGGTATCT
* * * * *
114433 CTTAGGAGTATTTTCATAATTTTCTTAGAACTGAGTCTTAGGTTGTCATCGGGTCTGCTTTTATG
1 CCTAGGAGCATTTTCATAATTTTCTTAGATC-GAGTCCTAGGTTGTCATCGGGTCCGCTTTTATG
* *
114498 CCAAAGGTGGGTATTTAGGATAGGTTTACCCTATCCATATCCTTTTTAAG-CCTTTTAGAGGTGT
65 CCAAAGGTGGGTATTTAGGATAGGTTCACCC-ATCCATATCCTTTTTAAGTCC-TTTAGAGGTAT
* * *
114562 CAGGTACTTTTACGTCAAAGGTATC-
128 CAGATACTTTTACATCGAAGGTATCT
* * * *
114587 CTCTAGGGGCATTTTCATAATTTTCCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGTTTTTAT
1 C-CTAGGAGCATTTTCATAATTTTCTTAG-ATCGAGTCCTAGGTTGTCATCGGGTCCGCTTTTAT
* * * *
114652 GCTAAAGGTGGGTATTTAGGATAGGTTTACTCCATCCATATCCTTTTTAAGTCCTTTAGGGGTAC
64 GCCAAAGGTGGGTATTTAGGATAGGTTCAC-CCATCCATATCCTTTTTAAGTCCTTTAGAGGTAT
* *
114717 CAAGATACTTTCACATCGTAGGTATCT
128 C-AGATACTTTTACATCGAAGGTATCT
** ** * * * * * *
114744 CCTAAAAGCATTTTTGTAATTTT-TTATATTCAACTCCTAGGTTGTCATCGAGTCCGCTTTCATT
1 CCTAGGAGCATTTTCATAATTTTCTTAGA-TCGAGTCCTAGGTTGTCATCGGGTCCGCTTTTATG
*** * *
114808 CCGTCGGTGGGTATTTAGGATAGGTTCACCCCATCTTAAAT-CTTTTTAAGTCCTTTA-AGGT
65 CCAAAGGTGGGTATTTAGGATAGGTTCA-CCCATC-CATATCCTTTTTAAGTCCTTTAGAGGT
114869 CACCGGGATA
Statistics
Matches: 367, Mismatches: 56, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
153 23 0.06
154 69 0.19
155 228 0.62
156 46 0.13
157 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (153 bp):
CCTAGGAGCATTTTCATAATTTTCTTAGATCGAGTCCTAGGTTGTCATCGGGTCCGCTTTTATGC
CAAAGGTGGGTATTTAGGATAGGTTCACCCATCCATATCCTTTTTAAGTCCTTTAGAGGTATCAG
ATACTTTTACATCGAAGGTATCT
Found at i:115943 original size:48 final size:48
Alignment explanation
Indices: 115872--115969 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
115862 ATACTTCATC
115872 ATTTACATAATCTAAGGTCATTTTAAGCCAGGCTTGATTAAGATTCGT
1 ATTTACATAATCTAAGGTCATTTTAAGCCAGGCTTGATTAAGATTCGT
115920 ATTTACATAATCTAAGGTCATTTTAAGCCAGGCTTGATTAAGATTCGT
1 ATTTACATAATCTAAGGTCATTTTAAGCCAGGCTTGATTAAGATTCGT
115968 AT
1 AT
115970 CTGAACCATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (48 bp):
ATTTACATAATCTAAGGTCATTTTAAGCCAGGCTTGATTAAGATTCGT
Found at i:121035 original size:20 final size:20
Alignment explanation
Indices: 121012--121084 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
121002 ACAATTCAAA
121012 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
121032 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
121053 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
121073 GTATCGATACAT
1 GTATCGATACAT
121085 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:121063 original size:41 final size:42
Alignment explanation
Indices: 121012--121106 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
121002 ACAATTCAAA
*
121012 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
121053 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
121095 GTATCGATACAT
1 GTATCGATACAT
121107 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:121163 original size:13 final size:13
Alignment explanation
Indices: 121145--121170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121135 TACAGCAAGT
121145 ATGTATCGATACA
1 ATGTATCGATACA
121158 ATGTATCGATACA
1 ATGTATCGATACA
121171 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:122144 original size:6 final size:6
Alignment explanation
Indices: 122126--122164 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
122116 TTGGCTTGTA
122126 AAAATT CAAAATT AAAATT AAAAATT -AAATT AAAATT AA
1 AAAATT -AAAATT AAAATT -AAAATT AAAATT AAAATT AA
122165 TAAAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 13 0.43
7 12 0.40
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:122144 original size:13 final size:12
Alignment explanation
Indices: 122126--122164 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
122116 TTGGCTTGTA
122126 AAAATTCAAAATT
1 AAAATT-AAAATT
122139 AAAATTAAAAATT
1 AAAATT-AAAATT
122152 -AAATTAAAATT
1 AAAATTAAAATT
122163 AA
1 AA
122165 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:122157 original size:18 final size:19
Alignment explanation
Indices: 122124--122164 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
122114 AATTGGCTTG
122124 TAAAAATTCAAAATTAAAAT
1 TAAAAATT-AAAATTAAAAT
122144 TAAAAATT-AAATTAAAAT
1 TAAAAATTAAAATTAAAAT
122162 TAA
1 TAA
122165 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATTAAAATTAAAAT
Found at i:127291 original size:94 final size:94
Alignment explanation
Indices: 127130--127320 Score: 382
Period size: 94 Copynumber: 2.0 Consensus size: 94
127120 AACCTCCTTT
127130 GCTGAGAACAAAATCAGCCTTTTATAGGCAAGATTTGTGGTGACCAAGTGAGGGTGCTTAAGATA
1 GCTGAGAACAAAATCAGCCTTTTATAGGCAAGATTTGTGGTGACCAAGTGAGGGTGCTTAAGATA
127195 TTTCACTCTCACCATTAAATGAAAAGCTA
66 TTTCACTCTCACCATTAAATGAAAAGCTA
127224 GCTGAGAACAAAATCAGCCTTTTATAGGCAAGATTTGTGGTGACCAAGTGAGGGTGCTTAAGATA
1 GCTGAGAACAAAATCAGCCTTTTATAGGCAAGATTTGTGGTGACCAAGTGAGGGTGCTTAAGATA
127289 TTTCACTCTCACCATTAAATGAAAAGCTA
66 TTTCACTCTCACCATTAAATGAAAAGCTA
127318 GCT
1 GCT
127321 AGCTAAGGTG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (94 bp):
GCTGAGAACAAAATCAGCCTTTTATAGGCAAGATTTGTGGTGACCAAGTGAGGGTGCTTAAGATA
TTTCACTCTCACCATTAAATGAAAAGCTA
Found at i:127656 original size:31 final size:31
Alignment explanation
Indices: 127618--127693 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
127608 TACATTGAAT
127618 AATGTATCGATACATCTAGGTAAAATTCCCA
1 AATGTATCGATACATCTAGGTAAAATTCCCA
*
127649 AATGTATCGATACATCTGGGTAAAATTCCCA
1 AATGTATCGATACATCTAGGTAAAATTCCCA
127680 AATGTATCGATACA
1 AATGTATCGATACA
127694 AAGATCAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (31 bp):
AATGTATCGATACATCTAGGTAAAATTCCCA
Found at i:127717 original size:13 final size:13
Alignment explanation
Indices: 127699--127726 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
127689 ATACAAAGAT
127699 CAATGTATCGATA
1 CAATGTATCGATA
127712 CAATGTATCGATA
1 CAATGTATCGATA
127725 CA
1 CA
127727 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:127722 original size:33 final size:33
Alignment explanation
Indices: 127680--127746 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
127670 AAAATTCCCA
127680 AATGTATCGATACAAAGA-TCAATGTATCGATAC
1 AATGTATCGATACAAAGAGT-AATGTATCGATAC
**
127713 AATGTATCGATACATTGAGTAATGTATCGATAC
1 AATGTATCGATACAAAGAGTAATGTATCGATAC
127746 A
1 A
127747 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAAAGAGTAATGTATCGATAC
Found at i:135086 original size:13 final size:13
Alignment explanation
Indices: 135068--135093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
135058 ACATAAGTTT
135068 TGTATCGATACAA
1 TGTATCGATACAA
135081 TGTATCGATACAA
1 TGTATCGATACAA
135094 AAGCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:135159 original size:13 final size:13
Alignment explanation
Indices: 135141--135168 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
135131 CATTACTCAA
135141 TGTATCGATACAT
1 TGTATCGATACAT
135154 TGTATCGATACAT
1 TGTATCGATACAT
135167 TG
1 TG
135169 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:135165 original size:33 final size:33
Alignment explanation
Indices: 135123--135187 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
135113 CAAGGAAATT
135123 TATCGATACATT-ACTCAATGTATCGATACATTG
1 TATCGATACATTGA-TCAATGTATCGATACATTG
**
135156 TATCGATACATTGATCTTTGTATCGATACATT
1 TATCGATACATTGATCAATGTATCGATACATT
135188 TGGGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTG
Found at i:136132 original size:20 final size:20
Alignment explanation
Indices: 136087--136132 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
136077 GTTAACAGCC
*
136087 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
136107 CTATGTTTCATGCA-TTTGCAG
1 C-ATGTTTCATGCATTTTG-AG
136128 CATGT
1 CATGT
136133 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:142096 original size:18 final size:18
Alignment explanation
Indices: 142061--142107 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
142051 TCAAAAGTAA
142061 AAACATAAAAAAACAAAAC
1 AAACA-AAAAAAACAAAAC
142080 AAACAAAAATAAA-AAAAC
1 AAACAAAAA-AAACAAAAC
*
142098 ACACAAAAAA
1 AAACAAAAAA
142108 TAGTGCAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 17 0.65
19 8 0.31
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (18 bp):
AAACAAAAAAAACAAAAC
Found at i:142362 original size:5 final size:5
Alignment explanation
Indices: 142347--142393 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
142337 GTTCTTTTCC
*
142347 CAAAA CAAAAA GAAAA CAAAAA CAAAA CAAAA CAAAA CAAAA -AAAA C
1 CAAAA C-AAAA CAAAA C-AAAA CAAAA CAAAA CAAAA CAAAA CAAAA C
142394 CCCTTTCACT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 4 0.11
5 24 0.65
6 9 0.24
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:142378 original size:10 final size:11
Alignment explanation
Indices: 142347--142389 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
142337 GTTCTTTTCC
142347 CAAAACAAAAA
1 CAAAACAAAAA
*
142358 GAAAACAAAAA
1 CAAAACAAAAA
142369 CAAAAC-AAAA
1 CAAAACAAAAA
142379 CAAAACAAAAA
1 CAAAACAAAAA
142390 AAACCCCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.81, C:0.16, G:0.02, T:0.00
Consensus pattern (11 bp):
CAAAACAAAAA
Done.