Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 1 of 318
Found at i:1057 original size:131 final size:131
Alignment explanation
Indices: 747--1235 Score: 650
Period size: 131 Copynumber: 3.7 Consensus size: 131
737 AAGGCGATGT
* * * * *
747 TCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC-ACTTTCTCGTTTGCTCA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGA-TTTTTCATTTGTTCA
* * * ** * *
811 AAATAATCGAATG-TCCCTTTTGAATTTCACTCATGTTTTCTAAAAACTCTTTGAAACGAAGGAA
65 AAATAATCGAA-GATTCCTTTGGAATTTCACTCATGTCTT-TAAAAACTCTTCAAAATGAAGG-T
**
875 AATGT
127 AATAC
*
880 TTGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTCATTTGTTC-A
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTCATTTGTTCAA
* *
943 AATCAATCGAAGATTCTTTTGGAATTTCACTCATGCCTTTAAAAACTCTTCAAAATGAAGGTAAT
66 AAT-AATCGAAGATTCCTTTGGAATTTCACTCATGTCTTTAAAAACTCTTCAAAATGAAGGTAAT
1008 AC
130 AC
*
1010 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCGATTTTTCATTTGTTC-A
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTCATTTGTTCAA
1074 AATCAATCGAAGATTCCTTTGGAATTTCACTCATGTCTTTAAAAACTCTTCAAAATGAAGGTAAT
66 AAT-AATCGAAGATTCCTTTGGAATTTCACTCATGTCTTTAAAAACTCTTCAAAATGAAGGTAAT
1139 AC
130 AC
* * *
1141 TCGATGTTTGGCAATTCGGGGAAACGTGCCCTATCGTGCTGGGTCGCGA-TTTCCTATTT-TTCA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTC-ATTTGTTCA
* * *
1204 AAATAATTGAATATTCCTTTAGAATTTCACTC
65 AAATAATCGAAGATTCCTTTGGAATTTCACTC
1236 GTGCTCTCTA
Statistics
Matches: 322, Mismatches: 28, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
130 51 0.16
131 188 0.58
132 67 0.21
133 16 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (131 bp):
TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTCATTTGTTCAA
AATAATCGAAGATTCCTTTGGAATTTCACTCATGTCTTTAAAAACTCTTCAAAATGAAGGTAATA
C
Found at i:1793 original size:5 final size:5
Alignment explanation
Indices: 1783--1830 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
1773 TTAAATGGAT
* * *
1783 TTTTA TTTTA TTTTA -TTTA TTTTA TTTTA TTTAA TATTA TATTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1831 TTACCAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:1803 original size:14 final size:14
Alignment explanation
Indices: 1784--1829 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
1774 TAAATGGATT
1784 TTTATTTTATTTTA
1 TTTATTTTATTTTA
1798 TTTATTTTATTTTA
1 TTTATTTTATTTTA
* *
1812 TTTAATATTATATTA
1 TTT-ATTTTATTTTA
1827 TTT
1 TTT
1830 TTTACCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:1931 original size:13 final size:14
Alignment explanation
Indices: 1904--1947 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
1894 AATTAAATTC
1904 ATACTTAATTTTTTA
1 ATACTTAA-TTTTTA
1919 ATACTT-ATTTTTA
1 ATACTTAATTTTTA
*
1932 ACACTTAATTTTTA
1 ATACTTAATTTTTA
1946 AT
1 AT
1948 CTATCATGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 11 0.42
14 9 0.35
15 6 0.23
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (14 bp):
ATACTTAATTTTTA
Found at i:1987 original size:6 final size:6
Alignment explanation
Indices: 1968--2013 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
1958 TAACCTAAAT
* *
1968 AATAAG AATCAG AATAAG AATAAG AATAAG AATAAG AATAAT AATA
1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATA
2014 GTGATTGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (6 bp):
AATAAG
Found at i:4251 original size:93 final size:93
Alignment explanation
Indices: 4139--4310 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
4129 CGCCCATAAG
* *
4139 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4204 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
4232 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4297 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
4311 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:4307 original size:46 final size:46
Alignment explanation
Indices: 4132--4307 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
4122 TGTAACCCGC
* * *
4132 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
4178 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
4228 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
4271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
4308 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:11797 original size:93 final size:93
Alignment explanation
Indices: 11685--11856 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11675 CGCCCATAAG
* *
11685 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11750 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
11778 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11843 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
11857 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:11853 original size:46 final size:46
Alignment explanation
Indices: 11678--11853 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11668 TGTAACCCGC
* * *
11678 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
11724 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
11774 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
11817 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
11854 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14449 original size:2 final size:2
Alignment explanation
Indices: 14444--14475 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14434 AAATGAAACC
14444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14476 GTAAAGGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17728 original size:43 final size:43
Alignment explanation
Indices: 17667--17788 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
17657 GAAGATATTG
17667 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAATGTTGTT
1 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAATGTTGTT
* *
17710 ATAATGTGTTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTT
1 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAA---TGTTGTT
* * * * *
17756 ATCATGTAGTGTAATACTAATTATGCATTTGGA
1 ATAATGTGGTGTAATATTAGTTATGCACTTGGA
17789 TAATATTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 34 0.50
46 34 0.50
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (43 bp):
ATAATGTGGTGTAATATTAGTTATGCACTTGGACAATGTTGTT
Found at i:17770 original size:46 final size:43
Alignment explanation
Indices: 17667--17792 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 43
17657 GAAGATATTG
*
17667 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAA-TGTTGTT
1 ATAATGT-GTGTAATATTAGTTATGCACTTGGATAATTGTTGTT
17710 ATAATGTGTTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTT
1 ATAATGTG-TGTAATATTAGTTATGCACTTGGATAA--TTGTTGTT
* * * *
17756 ATCATGTAGTGTAATACTAATTATGCATTTGGATAAT
1 ATAATGT-GTGTAATATTAGTTATGCACTTGGATAAT
17793 ATTATTAATT
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.45
44 1 0.01
46 37 0.51
47 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (43 bp):
ATAATGTGTGTAATATTAGTTATGCACTTGGATAATTGTTGTT
Found at i:18033 original size:2 final size:2
Alignment explanation
Indices: 18026--18052 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18016 AAATGTATTA
18026 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18053 AAATAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24951 original size:40 final size:40
Alignment explanation
Indices: 24896--25105 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
24886 AACATTGGAA
24896 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24936 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24976 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
25016 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
25055 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
25096 CTATATCCGG
1 ATATATCCGG
25106 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:33085 original size:40 final size:40
Alignment explanation
Indices: 33030--33199 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
33020 AACATTGGAA
33030 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
33070 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
33110 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
33149 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
33190 CTATATCCGG
1 ATATATCCGG
33200 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:34991 original size:27 final size:28
Alignment explanation
Indices: 34961--35030 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
34951 ATAATAAGTC
*
34961 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
34988 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
35016 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35031 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42912 original size:27 final size:28
Alignment explanation
Indices: 42882--42951 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
42872 ATAATAAGTC
*
42882 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
42909 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
42937 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42952 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48617 original size:2 final size:2
Alignment explanation
Indices: 48610--48644 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48600 ATAAAGGTCG
48610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48645 TATCTCAGAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53756 original size:31 final size:31
Alignment explanation
Indices: 53677--53768 Score: 125
Period size: 30 Copynumber: 3.0 Consensus size: 31
53667 ATTAATGATA
* * *
53677 GATAAAATAT-TTTAAAAAATTAAATATAAT
1 GATAAATTATATTTAAATAATTTAATATAAT
* *
53707 AATAAATTATA-TTAAATAATTTAATACAAT
1 GATAAATTATATTTAAATAATTTAATATAAT
53737 GATAAATTATATTTAAATAATTTAATATAAT
1 GATAAATTATATTTAAATAATTTAATATAAT
53768 G
1 G
53769 GTACAAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 34 0.64
31 19 0.36
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (31 bp):
GATAAATTATATTTAAATAATTTAATATAAT
Found at i:53972 original size:55 final size:55
Alignment explanation
Indices: 53912--54017 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
53902 GAAAAATAAA
* *
53912 TTTTCACCTTAATTTTGACCCCAAAAATCAGTTATCCTTCTCGGTGTAAAACAAT
1 TTTTCACCGTAATTTTGACCCCAAAAATCAGTTATCCTTCTAGGTGTAAAACAAT
*
53967 TTTTCACCGTAATTTTGACCCCCAAAATCAGTTATCCTTCTAGGTGTAAAA
1 TTTTCACCGTAATTTTGACCCCAAAAATCAGTTATCCTTCTAGGTGTAAAA
54018 GCACCTCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (55 bp):
TTTTCACCGTAATTTTGACCCCAAAAATCAGTTATCCTTCTAGGTGTAAAACAAT
Found at i:54350 original size:18 final size:18
Alignment explanation
Indices: 54304--54350 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
54294 CGATTTTAAA
54304 TTTAAATTTGATGATATTT
1 TTTAAATTT-ATGATATTT
* *
54323 TATAATTTTAT-ATAATTT
1 TTTAAATTTATGAT-ATTT
54341 TTTAAATTTA
1 TTTAAATTTA
54351 AACAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTAAATTTATGATATTT
Found at i:55804 original size:93 final size:93
Alignment explanation
Indices: 55689--55860 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55679 CGCCCATAAG
* *
55689 CGAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55754 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
55782 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55847 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55861 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55857 original size:46 final size:46
Alignment explanation
Indices: 55682--55857 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55672 TATAACCCGC
* * * *
55682 CCATAAGCGAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55728 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55778 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55821 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55858 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55876 original size:46 final size:46
Alignment explanation
Indices: 55731--55869 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
55721 TTCGCATCCA
55731 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
55779 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
55824 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
55870 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:58455 original size:2 final size:2
Alignment explanation
Indices: 58450--58479 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
58440 AAATGAAACC
58450 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58480 GTAAAGGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58956 original size:2 final size:2
Alignment explanation
Indices: 58949--58977 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58939 TTGAGAAACT
58949 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58978 GTATGCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60940 original size:897 final size:896
Alignment explanation
Indices: 59206--60998 Score: 3424
Period size: 897 Copynumber: 2.0 Consensus size: 896
59196 CATGTAAATC
59206 GAGATTATGAAAGAGAAAATTATATTAATAATATTTTATATAGTGGTGACCGGCATTGTATTGAT
1 GAGATTATGAAAGAGAAAATTATATTAATAATATTTTATATAGTGGTGACCGGCATTGTATTGAT
* *
59271 ATGATAAGGATGAGACCTGTTGCATTTTTTAATTTGTGTGATATTCTTTGTAGAAATAATTTGTT
66 ATGATAAGGATGAGACCGGTTGCATTTTTTAATTTGTGTGATATTCTTAGTAGAAATAATTTGTT
*
59336 ACAATCAACTAAATCGGTGAATATTAGGGAGCAAGTAGTTATATTTTTACATATAATTGGTCATA
131 ACAATCAACTAAATCAGTGAATATTAGGGAGCAAGTAGTTATATTTTTACATATAATTGGTCATA
59401 ATGTAAGGTTTCGATGATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTACTTTA
196 ATGTAAGGTTTCGATGATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTACTTTA
*
59466 GGGTTGTATTGAGAGCTGTTTTGAAATTGTATAAACTAGTTATTAGATTACCTGATGAGTCAACT
261 GGGTTGTATTGAGAGCTGTTTTGAAATTGTATAAACTAGTTATTAAATTACCTGATGAGTCAACT
* *
59531 CCTAGTGAAATCAGAAACAATCCAAGGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAGA
326 CCTAGTGAAATCAGAAACAATCCAAGGTTTAATCCTTATTTTAAAGATTGTATTGGAGCATTAAA
59596 TGGAACTCATGTTCGTGCATCCGTTCCACTTAACATTCAAGGAAGATTTCGTAGCCGTAAAGGGG
391 TGGAACTCATGTTCGTGCATCCGTTCCACTTAACATTCAAGGAAGATTTCGTAGCCGTAAAGGGG
59661 AGACGACACAAAATGTATTGGCTGCCATTACATTTGATTTGAAATTTTCCTATGTTCTAGCTGGT
456 AGACGACACAAAATGTATTGGCTGCCATTACATTTGATTTGAAATTTTCCTATGTTCTAGCTGGT
*
59726 TGGGAAGGTAGTGCACATGATTCTCGTATTTTAAGTGATGCACTTTCACGCCCAAGAGGATTAAA
521 TGGGAAGGTAGTGCACATGATTCTCGTATTTTAAGTGATGCACTTTCACACCCAAGAGGATTAAA
59791 AATTCCGGAAGGTAAGAATTATAAAACATTAAATACCAAATAGTTCTACTAAGCTCATAATTTAT
586 AATTCCGGAAGGTAAGAATTATAAAACATTAAATACCAAATAGTTCTACTAAGCTCATAATTTAT
59856 TAGTAATAATTATGTTTTGTCAAATTGTAGGTAAATATTATCTTGCTGATGCTGGATATGGCATC
651 TAGTAATAATTATGTTTTGTCAAATTGTAGGTAAATATTATCTTGCTGATGCTGGATATGGCATC
* *
59921 CGTAATGGATATATTACCCCATATCGTGGTGTTCGATATCATTTAAAAGAGTTTAGTGCTCAAGG
716 CGTAATGGATATATTACCCCATATCATGGTATTCGATATCATTTAAAAGAGTTTAGTGCTCAAGG
59986 GCCTGAAAATGAAAAGGAACTCTTTAATCTTCGTCATTCATCATTGCGAATCACTATTGAACGTG
781 GCCTGAAAATGAAAAGGAACTCTTTAATCTTCGTCATTCATCATTGCGAATCACTATTGAACGTG
*
60051 TTTTTAGGATTTTGAAGAAACGGTTTCGTGTATTAGATGCTGAACCATTTT
846 TTTTTAGGATTTTGAAGAAACGGTTTCGTGTATTAGATGATGAACCATTTT
*
60102 GAGATTATGAAAGAGAAAATTATATTAATAGTATTTTATATAGTGGTGACCGGCATTGTATTGAT
1 GAGATTATGAAAGAGAAAATTATATTAATAATATTTTATATAGTGGTGACCGGCATTGTATTGAT
*
60167 ATGATAAGGATGCGACCGGTTGCATTTTTTAATTTGTGTGATATTCTTAGTAGAAATAATTTGTT
66 ATGATAAGGATGAGACCGGTTGCATTTTTTAATTTGTGTGATATTCTTAGTAGAAATAATTTGTT
60232 ACAATCAACTAAATCAGTGAATATTAGGGAGCAAGTAGTTATATTTTTACATATAATTGGTCATA
131 ACAATCAACTAAATCAGTGAATATTAGGGAGCAAGTAGTTATATTTTTACATATAATTGGTCATA
60297 ATGTAAGGTTTCGAGTGATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTACTTT
196 ATGTAAGGTTTCGA-TGATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTACTTT
*
60362 AGGGTTGTATTGAGAGCTGTTTTGAAATTGTATAAGCTAGTTATTAAATTACCTGATGAGTCAAC
260 AGGGTTGTATTGAGAGCTGTTTTGAAATTGTATAAACTAGTTATTAAATTACCTGATGAGTCAAC
60427 TCCTAGTGAAATCAGAAACAATCCAAGGTTTAATCCTTATTTTAAAGATTGTATTGGAGCATTAA
325 TCCTAGTGAAATCAGAAACAATCCAAGGTTTAATCCTTATTTTAAAGATTGTATTGGAGCATTAA
60492 ATGGAACTCATGTTCGTGCATCCGTTCCACTTAACATTCAAGGAAGATTTCGTAGCCGTAAAGGG
390 ATGGAACTCATGTTCGTGCATCCGTTCCACTTAACATTCAAGGAAGATTTCGTAGCCGTAAAGGG
*
60557 GGGACGACACAAAATGTATTGGCTGCCATTACATTTGATTTGAAATTTTCCTATGTTCTAGCTGG
455 GAGACGACACAAAATGTATTGGCTGCCATTACATTTGATTTGAAATTTTCCTATGTTCTAGCTGG
60622 TTGGGAAGGTAGTGCACATGATTCTCGTATTTTAAGTGATGCACTTTCACACCCAAGAGGATTAA
520 TTGGGAAGGTAGTGCACATGATTCTCGTATTTTAAGTGATGCACTTTCACACCCAAGAGGATTAA
60687 AAATTCCGGAAGGTAAGAATTATAAAACATTAAATACCAAATAGTTCTACTAAGCTCATAATTTA
585 AAATTCCGGAAGGTAAGAATTATAAAACATTAAATACCAAATAGTTCTACTAAGCTCATAATTTA
*
60752 TTAGTAATAATTATGTTTTGTCAAATTGTAGGTAAATATTATCTTGTTGATGCTGGATATGGCAT
650 TTAGTAATAATTATGTTTTGTCAAATTGTAGGTAAATATTATCTTGCTGATGCTGGATATGGCAT
*
60817 CCGTAATGGATATATTACCCCATATCATGGTATTCGATATCATTTAAAAGAGTTTAGTGCTCAGG
715 CCGTAATGGATATATTACCCCATATCATGGTATTCGATATCATTTAAAAGAGTTTAGTGCTCAAG
60882 GGCCTGAAAATGAAAAGGAACTCTTTAATCTTCGTCATTCATCATTGCGAATCACTATTGAACGT
780 GGCCTGAAAATGAAAAGGAACTCTTTAATCTTCGTCATTCATCATTGCGAATCACTATTGAACGT
*
60947 GTTTTTGGGATTTTGAAGAAACGGTTTCGTGTATTAGATGATGAACCATTTT
845 GTTTTTAGGATTTTGAAGAAACGGTTTCGTGTATTAGATGATGAACCATTTT
60999 TGGGAAAATC
Statistics
Matches: 879, Mismatches: 17, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
896 204 0.23
897 675 0.77
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (896 bp):
GAGATTATGAAAGAGAAAATTATATTAATAATATTTTATATAGTGGTGACCGGCATTGTATTGAT
ATGATAAGGATGAGACCGGTTGCATTTTTTAATTTGTGTGATATTCTTAGTAGAAATAATTTGTT
ACAATCAACTAAATCAGTGAATATTAGGGAGCAAGTAGTTATATTTTTACATATAATTGGTCATA
ATGTAAGGTTTCGATGATAGGATCTAGATATTATAGATCAACTGAGACAATTCACCGTTACTTTA
GGGTTGTATTGAGAGCTGTTTTGAAATTGTATAAACTAGTTATTAAATTACCTGATGAGTCAACT
CCTAGTGAAATCAGAAACAATCCAAGGTTTAATCCTTATTTTAAAGATTGTATTGGAGCATTAAA
TGGAACTCATGTTCGTGCATCCGTTCCACTTAACATTCAAGGAAGATTTCGTAGCCGTAAAGGGG
AGACGACACAAAATGTATTGGCTGCCATTACATTTGATTTGAAATTTTCCTATGTTCTAGCTGGT
TGGGAAGGTAGTGCACATGATTCTCGTATTTTAAGTGATGCACTTTCACACCCAAGAGGATTAAA
AATTCCGGAAGGTAAGAATTATAAAACATTAAATACCAAATAGTTCTACTAAGCTCATAATTTAT
TAGTAATAATTATGTTTTGTCAAATTGTAGGTAAATATTATCTTGCTGATGCTGGATATGGCATC
CGTAATGGATATATTACCCCATATCATGGTATTCGATATCATTTAAAAGAGTTTAGTGCTCAAGG
GCCTGAAAATGAAAAGGAACTCTTTAATCTTCGTCATTCATCATTGCGAATCACTATTGAACGTG
TTTTTAGGATTTTGAAGAAACGGTTTCGTGTATTAGATGATGAACCATTTT
Found at i:61776 original size:43 final size:43
Alignment explanation
Indices: 61715--61836 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
61705 GAAGATATTG
61715 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAATGTTGTT
1 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAATGTTGTT
* *
61758 ATAATGTGTTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTT
1 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAA---TGTTGTT
* * * * *
61804 ATCATGTAGTGTAATACTAATTATGCATTTGGA
1 ATAATGTGGTGTAATATTAGTTATGCACTTGGA
61837 TAATATTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 34 0.50
46 34 0.50
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (43 bp):
ATAATGTGGTGTAATATTAGTTATGCACTTGGACAATGTTGTT
Found at i:61818 original size:46 final size:43
Alignment explanation
Indices: 61715--61840 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 43
61705 GAAGATATTG
*
61715 ATAATGTGGTGTAATATTAGTTATGCACTTGGACAA-TGTTGTT
1 ATAATGT-GTGTAATATTAGTTATGCACTTGGATAATTGTTGTT
61758 ATAATGTGTTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTT
1 ATAATGTG-TGTAATATTAGTTATGCACTTGGATAA--TTGTTGTT
* * * *
61804 ATCATGTAGTGTAATACTAATTATGCATTTGGATAAT
1 ATAATGT-GTGTAATATTAGTTATGCACTTGGATAAT
61841 ATTATTAATT
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.45
44 1 0.01
46 37 0.51
47 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (43 bp):
ATAATGTGTGTAATATTAGTTATGCACTTGGATAATTGTTGTT
Found at i:62223 original size:32 final size:32
Alignment explanation
Indices: 62172--62241 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
62162 AGCTTTTCAG
*
62172 GAAAATATTTTCAGGAAATT-TGCCAAACAACA
1 GAAAATATTTTCAGCAAATTAT-CCAAACAACA
*
62204 GAAAATATTTTACA-CAAATTCATCCAAACACCA
1 GAAAATATTTT-CAGCAAATT-ATCCAAACAACA
62237 GAAAA
1 GAAAA
62242 GTAAATCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
32 16 0.48
33 16 0.48
34 1 0.03
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.23
Consensus pattern (32 bp):
GAAAATATTTTCAGCAAATTATCCAAACAACA
Found at i:70222 original size:2 final size:2
Alignment explanation
Indices: 70215--70245 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70205 TAAAGGTCGT
70215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70246 TATCTCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75358 original size:31 final size:31
Alignment explanation
Indices: 75279--75370 Score: 125
Period size: 30 Copynumber: 3.0 Consensus size: 31
75269 ATTAATGATA
* * *
75279 GATAAAATAT-TTTAAAAAATTAAATATAAT
1 GATAAATTATATTTAAATAATTTAATATAAT
* *
75309 AATAAATTATA-TTAAATAATTTAATACAAT
1 GATAAATTATATTTAAATAATTTAATATAAT
75339 GATAAATTATATTTAAATAATTTAATATAAT
1 GATAAATTATATTTAAATAATTTAATATAAT
75370 G
1 G
75371 GTACAAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 34 0.64
31 19 0.36
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (31 bp):
GATAAATTATATTTAAATAATTTAATATAAT
Found at i:75574 original size:55 final size:55
Alignment explanation
Indices: 75514--75619 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
75504 GAAAAATAAA
* *
75514 TTTTCACCTTAATTTTGACCCCAAAAATCAGTTATCCTTCTCGGTGTAAAACAAT
1 TTTTCACCGTAATTTTGACCCCAAAAATCAGTTATCCTTCTAGGTGTAAAACAAT
*
75569 TTTTCACCGTAATTTTGACCCCCAAAATCAGTTATCCTTCTAGGTGTAAAA
1 TTTTCACCGTAATTTTGACCCCAAAAATCAGTTATCCTTCTAGGTGTAAAA
75620 GCACCTCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (55 bp):
TTTTCACCGTAATTTTGACCCCAAAAATCAGTTATCCTTCTAGGTGTAAAACAAT
Found at i:75952 original size:18 final size:18
Alignment explanation
Indices: 75906--75952 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
75896 CGATTTTAAA
75906 TTTAAATTTGATGATATTT
1 TTTAAATTT-ATGATATTT
* *
75925 TATAATTTTAT-ATAATTT
1 TTTAAATTTATGAT-ATTT
75943 TTTAAATTTA
1 TTTAAATTTA
75953 AACAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTAAATTTATGATATTT
Found at i:78158 original size:15 final size:15
Alignment explanation
Indices: 78138--78173 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
78128 TTCAGATGCT
78138 GATGAAGAAGAGGAG
1 GATGAAGAAGAGGAG
* *
78153 GATGAAGAAGATGAT
1 GATGAAGAAGAGGAG
78168 GATGAA
1 GATGAA
78174 TTCGACAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.39, T:0.14
Consensus pattern (15 bp):
GATGAAGAAGAGGAG
Found at i:82115 original size:18 final size:18
Alignment explanation
Indices: 82077--82116 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
82067 AAAAGTTAAC
** *
82077 AAAATATATGATAGTACA
1 AAAATATATGATACAAAA
82095 AAAATATATGATACAAAA
1 AAAATATATGATACAAAA
82113 AAAA
1 AAAA
82117 ATACATGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (18 bp):
AAAATATATGATACAAAA
Found at i:82696 original size:26 final size:24
Alignment explanation
Indices: 82666--82715 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
82656 AAATAAAAAA
*
82666 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
82692 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
82716 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:82735 original size:21 final size:21
Alignment explanation
Indices: 82686--82744 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
82676 ATAATAAATC
*
82686 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
82706 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
82728 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
82745 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:82820 original size:15 final size:16
Alignment explanation
Indices: 82790--82822 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
82780 AAATGGTTAT
82790 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
82807 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
82822 A
1 A
82823 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:83266 original size:2 final size:2
Alignment explanation
Indices: 83255--83300 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
83245 TTAACATTAT
* *
83255 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TA TA CA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83294 TA TA TA T
1 TA TA TA T
83301 GAAACCAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:85213 original size:132 final size:132
Alignment explanation
Indices: 84973--85745 Score: 1111
Period size: 132 Copynumber: 5.8 Consensus size: 132
84963 TGTTTTTATC
* * ** * * * *
84973 CTGCTCTACTGCAA-TCTCAGGGAAATAAGATCTTGCAATTTTAGCTTACTCCACTACAACCTTA
1 CTGCTCCACTGCAACT-TCAGGGAAACAAGATC-TAAAATTTCAACCTACTCCACTACAACTTTA
* * * * * * *
85037 GGGAGCTAGGATGGTGGCTTAAATCTGCTTCGCTGCAA-TATCAGGAAGCCTAGATTCATCGTCT
64 GGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACT-TCAGGAAGTCAAGATTCGTCGTCT
**
85101 ACGAT
128 TTGAT
* * *
85106 CTGCTTCACGGCAA-TATCAGGGAAATAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAG
1 CTGCTCCACTGCAACT-TCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAG
* * ** *
85170 AGAGCTAGGTCAGTGACTTAAATCTGCTTTGCTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
65 GGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTT
85235 GAT
130 GAT
*
85238 CTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGG
1 CTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGG
* * **
85303 GAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTTCAGGAAATCAAGATTCGTTATCTTTG
66 GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTTG
85368 AT
131 AT
* * * * * *
85370 CTGCTCTATTGCAACTTCAAGAAAACGAGATCTAAAATTTCAACTTACTCCACTACAACTTTAGG
1 CTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGG
** * *
85435 GAGCTAGGTTAGTGACTTAAATCTATTTCACTGCAACTTCAGGAAGCCAAGATTCGTCATCTTTG
66 GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTTG
85500 AT
131 AT
85502 CTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGG
1 CTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGG
85567 GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTTG
66 GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTTG
85632 AT
131 AT
* *
85634 CTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTACAACCTACTCCACTACAACTTTAGG
1 CTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGG
85699 GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGT
66 GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGT
85746 TAGGATTTGT
Statistics
Matches: 584, Mismatches: 54, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
132 554 0.95
133 30 0.05
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
CTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGG
GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTTG
AT
Found at i:85513 original size:45 final size:44
Alignment explanation
Indices: 85201--85654 Score: 190
Period size: 45 Copynumber: 10.3 Consensus size: 44
85191 ATCTGCTTTG
** *
85201 CTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTTGATCTGCTCCA
1 CTGCAACTTCAGGAAG-CAAGATTCGTCATCTTTAATCTGCTCCA
* * * ** * *
85246 CTGCAACTTCAGGGAAACGAGA-TC-TAAAATTTCAACCTACTCCA
1 CTGCAACTTCA-GGAAGCAAGATTCGTCATCTTT-AATCTGCTCCA
* * * * * * * * * *
85290 CTACAACTTTAGGGAGCTAGGTTAGTGA-CTTAAATCTGCTTCG
1 CTGCAACTTCAGGAAGCAAGATTCGTCATCTTTAATCTGCTCCA
* * * *
85333 CTGCAACTTCAGGAAATCAAGATTCGTTATCTTTGATCTGCTCTA
1 CTGCAACTTCAGG-AAGCAAGATTCGTCATCTTTAATCTGCTCCA
* * * * * ** *
85378 TTGCAACTTCAAGAAAACGAGA-TC-TAAAATTTCAA-CTTACTCCA
1 CTGCAACTTC-AGGAAGCAAGATTCGTCATCTTT-AATC-TGCTCCA
* * * * * * * * ** *
85422 CTACAACTTTAGGGAGCTAGGTTAGTGA-CTTAAATCTATTTCA
1 CTGCAACTTCAGGAAGCAAGATTCGTCATCTTTAATCTGCTCCA
*
85465 CTGCAACTTCAGGAAGCCAAGATTCGTCATCTTTGATCTGCTCCA
1 CTGCAACTTCAGGAAG-CAAGATTCGTCATCTTTAATCTGCTCCA
* * ** * *
85510 CTGCAACTTCAGGGAAACAAGA-TC-TAAAATTTCAACCTACTCCA
1 CTGCAACTTCA-GGAAGCAAGATTCGTCATCTTT-AATCTGCTCCA
* * * * * * * * *
85554 CTACAACTTTAGGGAGCTAGGTTAGTGA-CTTAAATCTGCTTCA
1 CTGCAACTTCAGGAAGCAAGATTCGTCATCTTTAATCTGCTCCA
* *
85597 CTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTTGATCTGCTCCA
1 CTGCAACTTCAGGAAG-CAAGATTCGTCATCTTTAATCTGCTCCA
85642 CTGCAACTTCAGG
1 CTGCAACTTCAGG
85655 GAAACGAGAT
Statistics
Matches: 286, Mismatches: 103, Indels: 40
0.67 0.24 0.09
Matches are distributed among these distances:
43 92 0.32
44 87 0.30
45 97 0.34
46 10 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGAAGCAAGATTCGTCATCTTTAATCTGCTCCA
Found at i:85602 original size:87 final size:87
Alignment explanation
Indices: 85236--85609 Score: 220
Period size: 87 Copynumber: 4.3 Consensus size: 87
85226 GTTGTCTTTG
*
85236 ATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTA
* *
85301 GGGAGCTAGGTTAGTGACTTAA
66 GGAAGCTAGATTAGTGACTTAA
* * * ** * * * * * *
85323 ATCTGCTTCGCTGCAACTTCA-GGAAATCAAGATTCGTTATCTTT-GATCTGCTCTATTGCAACT
1 ATCTGCTCCACTGCAACTTCAGGGAAA-CAAGA-TC-TAAAATTTCAACCTACTCCACTACAACT
* * * * ** * *
85386 TCAAGAAAACGAGATCTA-AAATTTCA
63 T-TAGGAAGCTAGAT-TAGTGACTTAA
* * * * * * ** * * * * * *
85412 A-CTTACTCCACTACAACTTTAGGG-AGCTAGGT-TAGTGACTTAAATCTATTTCACTGCAACTT
1 ATC-TGCTCCACTGCAACTTCAGGGAAACAAGATCTA-AAATTTCAACCTACTCCACTACAACTT
* * * * **
85474 CAGGAAGCCAAGATTCGTCATCTTTG
64 TAGGAAG-CTAGATTAGTGA-CTTAA
85500 ATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTA
* *
85565 GGGAGCTAGGTTAGTGACTTAA
66 GGAAGCTAGATTAGTGACTTAA
*
85587 ATCTGCTTCACTGCAACTTCAGG
1 ATCTGCTCCACTGCAACTTCAGG
85610 AAGTCAAGAT
Statistics
Matches: 198, Mismatches: 74, Indels: 30
0.66 0.25 0.10
Matches are distributed among these distances:
85 1 0.01
86 12 0.06
87 69 0.35
88 49 0.25
89 61 0.31
90 6 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (87 bp):
ATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTA
GGAAGCTAGATTAGTGACTTAA
Found at i:93797 original size:40 final size:40
Alignment explanation
Indices: 93742--93854 Score: 217
Period size: 40 Copynumber: 2.8 Consensus size: 40
93732 AATATATATA
93742 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
93782 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
93822 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGC
93855 TAGTTGTTAC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:102092 original size:40 final size:40
Alignment explanation
Indices: 102028--102141 Score: 201
Period size: 40 Copynumber: 2.8 Consensus size: 40
102018 GAAAAAAATA
102028 TATATACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATA-ACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
102069 TATAACCTGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
102109 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGC
102142 TAGTTGTTAC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 66 0.94
41 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:105745 original size:20 final size:21
Alignment explanation
Indices: 105705--105747 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
105695 TATGGCCTTT
105705 AATGCATAATGATGTAATGCA
1 AATGCATAATGATGTAATGCA
105726 AATGCAT-ATGCATG-AATGCA
1 AATGCATAATG-ATGTAATGCA
105746 AA
1 AA
105748 GAAGGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (21 bp):
AATGCATAATGATGTAATGCA
Found at i:110249 original size:18 final size:18
Alignment explanation
Indices: 110211--110250 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
110201 AAAAGTTAAC
** *
110211 AAAATATATGATAGTACA
1 AAAATATATGATACAAAA
110229 AAAATATATGATACAAAA
1 AAAATATATGATACAAAA
110247 AAAA
1 AAAA
110251 ATACATGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (18 bp):
AAAATATATGATACAAAA
Found at i:113316 original size:15 final size:15
Alignment explanation
Indices: 113296--113359 Score: 78
Period size: 15 Copynumber: 4.4 Consensus size: 15
113286 ATAAATTAAA
113296 TTTAATACTTAATTT
1 TTTAATACTTAATTT
113311 TTTAATACTT-A-TT
1 TTTAATACTTAATTT
* * *
113324 TGTAACACTTATTTT
1 TTTAATACTTAATTT
*
113339 TTTAACACTTAATTT
1 TTTAATACTTAATTT
113354 TTTAAT
1 TTTAAT
113360 CTATCATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
15 30 0.73
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTAATACTTAATTT
Found at i:113377 original size:3 final size:3
Alignment explanation
Indices: 113369--113416 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
113359 TCTATCATAC
113369 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
113417 GTGATTGAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:121455 original size:9 final size:9
Alignment explanation
Indices: 121441--121466 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
121431 GTCAACATGA
121441 GGTACACGT
1 GGTACACGT
121450 GGTACACGT
1 GGTACACGT
121459 GGTACACG
1 GGTACACG
121467 ATGTGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (9 bp):
GGTACACGT
Found at i:126152 original size:19 final size:20
Alignment explanation
Indices: 126116--126155 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
126106 AAGGAATTTT
126116 TATTTTATTTAATATTAATA
1 TATTTTATTTAATATTAATA
126136 TATTTATATTT-AT-TTAATA
1 TATTT-TATTTAATATTAATA
126155 T
1 T
126156 TAATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATTTAATATTAATA
Found at i:126152 original size:25 final size:24
Alignment explanation
Indices: 126114--126162 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
126104 TGAAGGAATT
126114 TTTATTTTATTTAATATTAATATA
1 TTTATTTTATTTAATATTAATATA
126138 TTTATATTTATTTAATATTAATATA
1 TTTAT-TTTATTTAATATTAATATA
126163 AAAGTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTATTTTATTTAATATTAATATA
Found at i:127728 original size:18 final size:19
Alignment explanation
Indices: 127695--127741 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
127685 ATAATTATTA
127695 AATTT-ATATATAAATTCT
1 AATTTGATATATAAATTCT
* *
127713 GATTTGATATAT-AATTTT
1 AATTTGATATATAAATTCT
127731 AATTTGATATA
1 AATTTGATATA
127742 ATTACTCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (19 bp):
AATTTGATATATAAATTCT
Found at i:131036 original size:5 final size:5
Alignment explanation
Indices: 131026--131057 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
131016 TTGTGTGTTC
131026 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
131058 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:131040 original size:9 final size:9
Alignment explanation
Indices: 131026--131056 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
131016 TTGTGTGTTC
131026 TTTATTTTA
1 TTTATTTTA
131035 TTTATTTTA
1 TTTATTTTA
131044 TTTTATTTTA
1 -TTTATTTTA
131054 TTT
1 TTT
131057 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:135474 original size:5 final size:5
Alignment explanation
Indices: 135464--135495 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
135454 GTGTGTGTTC
135464 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
135496 TCACAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:135478 original size:9 final size:9
Alignment explanation
Indices: 135464--135494 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
135454 GTGTGTGTTC
135464 TTTATTTTA
1 TTTATTTTA
135473 TTTATTTTA
1 TTTATTTTA
135482 TTTTATTTTA
1 -TTTATTTTA
135492 TTT
1 TTT
135495 TTCACAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:148600 original size:38 final size:38
Alignment explanation
Indices: 148558--148633 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
148548 ACACACTACT
* *
148558 ATATAATAATAATAATAAA-TATAGAAATACAAAAACAA
1 ATATAATAAAAATAATAAATTAAAGAAATA-AAAAACAA
* *
148596 ATATAATAAAAATATTAAATTAAAGTAATAAAAAACAA
1 ATATAATAAAAATAATAAATTAAAGAAATAAAAAACAA
148634 TACTATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 25 0.76
39 8 0.24
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (38 bp):
ATATAATAAAAATAATAAATTAAAGAAATAAAAAACAA
Found at i:148654 original size:12 final size:12
Alignment explanation
Indices: 148632--148674 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
148622 AATAAAAAAC
148632 AATACTATATATA
1 AATA-TATATATA
148645 AATATATATATA
1 AATATATATATA
* * *
148657 TATATACATAAA
1 AATATATATATA
148669 AATATA
1 AATATA
148675 CACTAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:148910 original size:3 final size:3
Alignment explanation
Indices: 148897--148982 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
148887 GAGGGCATAT
**
148897 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
148944 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
148983 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.73
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:148921 original size:12 final size:12
Alignment explanation
Indices: 148897--148979 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
148887 GAGGGCATAT
148897 ATAATAT-AATA
1 ATAATATAAATA
148908 ATAATATAAATA
1 ATAATATAAATA
148920 ATAATATATACATGA
1 ATAATATA-A-AT-A
**
148935 GGAATA-ATAATA
1 ATAATATA-AATA
148947 ATAATATAAATA
1 ATAATATAAATA
* *
148959 ATAGTAAAAATA
1 ATAATATAAATA
*
148971 ATAAAATAA
1 ATAATATAA
148980 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.12
12 37 0.64
13 4 0.07
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:148970 original size:27 final size:27
Alignment explanation
Indices: 148897--148983 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
148887 GAGGGCATAT
* *
148897 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* * * *
148923 AT-ATATACAT--GAGGAATAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
148947 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
148974 A-AATAATAAA
1 ATAAT-ATAAA
148984 ACAAAGCTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 7 0.15
27 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:149313 original size:25 final size:25
Alignment explanation
Indices: 149281--149370 Score: 75
Period size: 23 Copynumber: 3.8 Consensus size: 25
149271 AAAAACTAGC
*
149281 CTTTCC-AAGAAACAAAAATAACCTT
1 CTTTCCAAAAAAACAAAAA-AACCTT
149306 CTTTCCAAAAAAACAAAAAAACC-T
1 CTTTCCAAAAAAACAAAAAAACCTT
* * *
149330 C-CTCCAAAACAAA-AAACAATCCTT
1 CTTTCCAAAA-AAACAAAAAAACCTT
*
149354 C--TCCAAAAAACCAAAAA
1 CTTTCCAAAAAAACAAAAA
149371 CCCCCCTTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
22 2 0.04
23 25 0.45
24 7 0.13
25 10 0.18
26 11 0.20
ACGTcount: A:0.54, C:0.28, G:0.01, T:0.17
Consensus pattern (25 bp):
CTTTCCAAAAAAACAAAAAAACCTT
Found at i:149371 original size:25 final size:24
Alignment explanation
Indices: 149269--149371 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 24
149259 TGATTAATCT
* *
149269 CCAAAAACTAGCCTT-TCCAAGAAA
1 CCAAAAAC-AACCTTCTCCAAAAAA
*
149293 -CAAAAATAACCTTCTTTCCAAAAAA
1 CCAAAAACAACCTTC--TCCAAAAAA
* *
149318 ACAAAAA-AACCTCCTCC--AAAA
1 CCAAAAACAACCTTCTCCAAAAAA
*
149339 CAAAAAACAATCCTTCTCCAAAAAA
1 CCAAAAACAA-CCTTCTCCAAAAAA
149364 CCAAAAAC
1 CCAAAAAC
149372 CCCCCTTCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
21 9 0.14
22 7 0.11
23 16 0.25
25 25 0.40
26 6 0.10
ACGTcount: A:0.53, C:0.29, G:0.02, T:0.16
Consensus pattern (24 bp):
CCAAAAACAACCTTCTCCAAAAAA
Found at i:149527 original size:4 final size:4
Alignment explanation
Indices: 149518--149552 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
149508 GGCCAAGGTT
149518 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
149553 GTGTTTGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:149901 original size:44 final size:44
Alignment explanation
Indices: 149832--151209 Score: 899
Period size: 44 Copynumber: 31.3 Consensus size: 44
149822 CGATATCCGC
* * * * * *
149832 TATCTTTGATCTGCTTCACTATAAGCACAGGAATGTCAGATTTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
149877 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
149921 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGTC--ATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * * * * * *
149964 AATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCT-GTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
150009 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGT
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * * *
150053 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGT
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * * *
150097 TGTTTTC-AACTTGTTCCCTATAAGCACAAGGATGCCAAATCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
150141 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * * * * * *
150184 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
* * ** * *
150229 TATTTTTGATCCATTCCCTATAAGCACAAGGATGCCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
150273 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * * * * * *
150316 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
* *
150361 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
150405 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * ** * * * * *
150448 AATTTTTTATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
150493 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
150537 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* ** * * * *
150580 AATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
150625 TATCTTCGATCTGTTCCCTATAAGCATAGGGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
150669 TATTTTC-AACTTGTTCCCTATAAGTACAGGGATGTC--ATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * * * * * * *
150712 AATCTTGGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCT-GTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
150757 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGT
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
150801 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
150845 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * * * * * * * * *
150888 AATCTTTGATTTGCTTCACTGTAAGCACAAGAATGTCAGATTTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
* * *
150933 TATCTTCGATCCGTTCCCTATAAGTACAGGGATGCCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
150977 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * * * * * * *
151020 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
*
151065 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGTCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
* * * *
151109 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CTGA
* * * * * * *
151152 AATCTTGGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCTGA
*
151197 TATCTTCGGTCTG
1 TATCTTCGATCTG
151210 CTCCTCTGTA
Statistics
Matches: 1043, Mismatches: 236, Indels: 108
0.75 0.17 0.08
Matches are distributed among these distances:
42 18 0.02
43 103 0.10
44 774 0.74
45 130 0.12
46 18 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGA
Found at i:150070 original size:132 final size:131
Alignment explanation
Indices: 149830--151199 Score: 1122
Period size: 132 Copynumber: 10.4 Consensus size: 131
149820 GGCGATATCC
* * * * * * * *
149830 GCTATCTTTGATCTGCTTCACTATAAGCACAGGAATGTCAGATTTGCTATCTTCGA-TCCGTTCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACT-TGTTCC
* * *
149894 CTATAAGCACAGGGATGCCAAAT-CTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCA
65 CTATAAGCACAGGGATGCC--ATGCTGATGTTTTCAACTTGTTCACTATAAGCACAGGAATGTCA
149958 TG-CT
128 -GACT
** * * * * * * * *
149962 GAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACT-TGTTCC
* * * *
150026 CTATAAGCACAGGGATGCCAAAT-CTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
65 CTATAAGCACAGGGATGCC--ATGCTGATGTTTTCAACTTGTTCACTATAAGCACAGGAATGTCA
*
150090 AATCT
128 GA-CT
* * * * * *
150095 GTTGTTTTC-AACTTG-TTCCCTATAAGCACAAGG-ATGCCAAATCTGATGTTTTCAACTTGTTC
1 GCTATCTTCGATC-TGCTTCCCTATAAGCAC-AGGAATGCCAAATCTGCTATTTTCAACTTGTTC
** * * *
150157 CCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTC
64 CCTATAAGCACAGGGATGCCATGCTGATGT-TTTCAACTTG-TTCACTATAAGCACAGGAATGTC
150221 AGATCT
127 AGA-CT
* * * *
150227 GCTATTTTTGATC--CATTCCCTATAAGCACAAGG-ATGCCAAATCTGATGTTTTCAACTTGTTC
1 GCTATCTTCGATCTGC-TTCCCTATAAGCAC-AGGAATGCCAAATCTGCTATTTTCAACTTGTTC
** * * *
150289 CCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTC
64 CCTATAAGCACAGGGATGCCATGCTGATGT-TTTCAACTTG-TTCACTATAAGCACAGGAATGTC
150353 AGATCT
127 AGA-CT
* * * *
150359 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACTTGTTCCC
* * *
150423 TATAAGCACAGGGATGCCATGCTGAAAT-TTTTTATC-TGCTTCACTGTAAGCACAGGAATGTCA
66 TATAAGCACAGGGATGCCATGCTG--ATGTTTTCAACTTG-TTCACTATAAGCACAGGAATGTCA
150486 GATCT
128 GA-CT
* * *
150491 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACTTGTTCCC
** * * * *
150555 TATAAGCACAGGGATGCCATGCTGAAATCTTCGA-TCTGCTTTACTGTAAGCACAGGAATGTCAG
66 TATAAGCACAGGGATGCCATGCTGATGTTTTCAACT-TG-TTCACTATAAGCACAGGAATGTCAG
150619 ATCT
129 A-CT
* *
150623 GCTATCTTCGATCTG-TTCCCTATAAGCATAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACTTGTTCCC
* * ** ** * ** *
150687 TATAAGTACAGGGATGTCATGCTGAAATCTTGGATCTACTTCACTGTAAGCACAGGAATGTCAGA
66 TATAAGCACAGGGATGCCATGCTGATGT-TTTCAACTTGTTCACTATAAGCACAGGAATGTCAGA
150752 TCT
130 -CT
* * * *
150755 GCTATCTTCGATCCG-TTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACTTGTTCCC
* * *
150819 TATAAGCACAGGGATGCCAAAT-CTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAT
66 TATAAGCACAGGGATGCC--ATGCTGATGTTTTCAACTTGTTCACTATAAGCACAGGAATGTCA-
150883 G-CT
128 GACT
** * * * * * * * * * * *
150886 GAAATCTTTGATTTGCTTCACTGTAAGCACAAGAATGTCAGATTTGCTATCTTCGA-TCCGTTCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACT-TGTTCC
* * * *
150950 CTATAAGTACAGGGATGCCAAAT-CTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
65 CTATAAGCACAGGGATGCC--ATGCTGATGTTTTCAACTTGTTCACTATAAGCACAGGAATGTCA
151014 TG-CT
128 -GACT
** * * * ** * * * *
151018 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTCGA-TCCGTTCC
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACT-TGTTCC
* * * *
151082 CTATAAGCACAGGGATGTCAAAT-CTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
65 CTATAAGCACAGGGATG-C-CATGCTGATGTTTTCAACTTGTTCACTATAAGCACAGGAATGTCA
151146 TG-CT
128 -GACT
** * * * * *
151150 GAAATCTTGGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTAT
1 GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTAT
151200 CTTCGGTCTG
Statistics
Matches: 1104, Mismatches: 106, Indels: 56
0.87 0.08 0.04
Matches are distributed among these distances:
130 3 0.00
131 25 0.02
132 1049 0.95
133 23 0.02
134 4 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (131 bp):
GCTATCTTCGATCTGCTTCCCTATAAGCACAGGAATGCCAAATCTGCTATTTTCAACTTGTTCCC
TATAAGCACAGGGATGCCATGCTGATGTTTTCAACTTGTTCACTATAAGCACAGGAATGTCAGAC
T
Found at i:150343 original size:264 final size:263
Alignment explanation
Indices: 150107--150837 Score: 1264
Period size: 264 Copynumber: 2.8 Consensus size: 263
150097 TGTTTTCAAC
*
150107 TTGTTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
* *
150172 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATTTTTG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
* *
150237 ATCCATTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
131 ATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
*
150302 GGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
196 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
150367 CGA
261 CGA
150370 TTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
1 -TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
* *
150435 GATGCCATGCTGAAATTTTTTATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
65 GATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
** *
150500 GATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACA
130 GATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACA
*
150565 GGGATGCCATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCTGCTATCT
195 GGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCT
150630 TCGA
260 TCGA
* * * *
150634 TCTGTTCCCTATAAGCATAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGTACAGG
1 T-TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
* * *
150699 GATGTCATGCTGAAATCTTGGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
65 GATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
*
150764 GATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACA
130 GATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACA
150829 GGGATGCCA
195 GGGATGCCA
150838 AATCTGATGT
Statistics
Matches: 442, Mismatches: 24, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
263 1 0.00
264 441 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (263 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
ATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
CGA
Found at i:150871 original size:264 final size:264
Alignment explanation
Indices: 150021--150874 Score: 1236
Period size: 264 Copynumber: 3.2 Consensus size: 264
150011 TCTTCGATCC
*** * *
150021 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGTTGTTTTCAACTTG-TTCCCTATAAGCACAGGG
1 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATTTTCAACTTGCTTCACTATAAGCACAGGA
* * * * * * *
150084 ATGCCAAATCTGTTGTTTTC-AACTTGTTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTC
64 ATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTC
150148 AACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACA
128 AACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACA
* * * *
150213 GGAATGTCAGATCTGCTATTTTTGATCCATTCCCTATAAGCACAAGGATGCCAAATCTGATGTTT
193 GGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTT
150278 TCAACTT
258 TCAACTT
* * *
150285 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTCAACTTGCTTCACTATAAGCACAGGAA
*
150349 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
* *
150414 CTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTTTATCTGCTTCACTGTAAGCACAGG
130 CTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGG
** *
150479 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTC
195 AATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTC
150544 AACTT
260 AACTT
* * * *
150549 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGA-TCTGCTTTACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTCAACT-TGCTTCACTATAAGCACAGGAA
* * *
150613 TGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCATAGGGATGCCAAATCTGCTATTTTCAA
65 TGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
* * * *
150678 CTTGTTCCCTATAAGTACAGGGATGTCATGCTGAAATCTTGGATCTACTTCACTGTAAGCACAGG
130 CTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGG
*
150743 AATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTC
195 AATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTC
150808 AACTT
260 AACTT
** *
150813 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGTTTTCAACTTG-TTCCCTATAAGCACAGG
1 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATTTTCAACTTGCTTCACTATAAGCACAGG
150875 GATGCCATGC
Statistics
Matches: 531, Mismatches: 50, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
262 2 0.00
263 8 0.02
264 506 0.95
265 12 0.02
266 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (264 bp):
GTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTCAACTTGCTTCACTATAAGCACAGGAAT
GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAAC
TTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGA
ATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCA
ACTT
Found at i:151336 original size:68 final size:68
Alignment explanation
Indices: 151257--151455 Score: 294
Period size: 68 Copynumber: 2.9 Consensus size: 68
151247 TCTTCTTCCA
* * *
151257 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCTGCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGGT
151322 -TT
66 CTT
* * *
151324 GCTGAAACTTCAAGGAGATCTGTTGTGCCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGG
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGG
151389 TCCTT
65 T-CTT
*
151394 -TGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAAGGAAAAAAA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTC-AGGAAGAAAA
151456 ATTTGTAATT
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
68 107 0.91
69 9 0.08
70 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGGT
CTT
Found at i:151623 original size:43 final size:44
Alignment explanation
Indices: 151530--152379 Score: 286
Period size: 44 Copynumber: 19.5 Consensus size: 44
151520 TTCTCAACTA
* * * *
151530 CTTAAGGGGTTAA-GATCTGTAAATCTTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-GGCTTGTTACCCTACTG
151575 CTTAGGGGGTTAAGGCTTGTAAAT-TTGGCTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCTTGTTACCCTACTG
* * *** * * * *
151618 TTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCT-TGTTACCCTACTG
* * * *
151662 CTTAGAGGGTTAA-GATCTGTAAATCTTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-GGCTTGTTACCCTACTG
* * *
151707 CTTAGGGGTTTAAGGCTTGCAAAT-TCGGCTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCTTGTTACCCTACTG
* *** * * * *
151750 CTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCT-TGTTACCCTACTG
* ** * * * * *
151794 CTTAGGGGGATAAGATTTG-CAA--TTCGATCTGTTACTCTACCG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCT-TGTTACCCTACTG
* * * * ** * * *
151836 ATTAGGGGTTTAAGACCCT-T-CGTCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAG-GCTTGTAAATCTTGGCT-TGTTACCCTACTG
* * * *
151880 CTTAGAGGGTTAA-GATCTGTAAATCTTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-GGCTTGTTACCCTACTG
* **
151925 CTTAGGGGTTTAAGGCTTGTAAAT-TCAGCTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCTTGTTACCCTACTG
* *** * * * *
151968 CTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCT-TGTTACCCTACTG
* * * * *
152012 CTTAGGGGGATAA-GATCTG-CAAT-TCGG-TCTGTTACCCTACCG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTTGGCT-TGTTACCCTACTG
* * * * * ** * * *
152054 ATTAGGAGTTTAAGACCCT-T-CGTCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAG-GCTTGTAAATCTTGGCT-TGTTACCCTACTG
* *
152098 CTTAGGGGGTTAA-GATCTGTAAATCTTCAG-TCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-GGCT-TGTTACCCTACTG
* ***
152143 CTTAGGGGTTTAAGGCTTGTAAAT-TCAACTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCTTGTTACCCTACTG
* *** * * * *
152186 CTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTGGCT-TGTTACCCTACTG
* * * * *
152230 CTTAGGGGGATAA-G-ATCTACAAT-TCGG-TCTGTTACCCTACCG
1 CTTAGGGGGTTAAGGCTTGTA-AATCTTGGCT-TGTTACCCTACTG
* * * * ** * * *
152272 ATTAGGGGTTTAAGACCCT-T-CGTCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAG-GCTTGTAAATCTTGGCT-TGTTACCCTACTG
* ** *
152316 CTTAGGGGGTTAA-GATCTGTAAATCTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTTGGCTTGTTACCCTACTG
*
152360 CTTAGGGGTTTAAGGCTTGT
1 CTTAGGGGGTTAAGGCTTGT
152380 GAATTCACTG
Statistics
Matches: 585, Mismatches: 173, Indels: 95
0.69 0.20 0.11
Matches are distributed among these distances:
42 84 0.14
43 147 0.25
44 212 0.36
45 131 0.22
46 11 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (44 bp):
CTTAGGGGGTTAAGGCTTGTAAATCTTGGCTTGTTACCCTACTG
Found at i:151712 original size:132 final size:132
Alignment explanation
Indices: 151475--152384 Score: 629
Period size: 132 Copynumber: 6.9 Consensus size: 132
151465 TTCCAGCCTA
* * * * * * * *
151475 TTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCTCAACTACTTAAGGGGT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
151540 TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGG-C
66 TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGGTC
151604 TTG
131 -TG
* *
151607 TTACCCTACTGTTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGGGT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * *
151672 TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGCAAATTCGG-C
66 TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGGTC
151736 TTG
131 -TG
*
151739 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGA
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * * * * * * * *
151804 TAAGATTTG-CAA--TTC-GATCTGTTACTCTACCGATTAGGGGTTTAAGACCCTTCGT--CTTC
66 TAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAG--GCTT-GTAAATTT
*
151863 GATCTG
127 GGTCTG
* * * ** * * *
151869 TTTCCCTACTGCTTAGAGGGTT-AAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTAGGG
1 TTACCCTACTGCTTAGGGGGTTAAAG-CCCAT-CATCTTCGA-TCTGTTTCCCTACTGCTTAGGG
* * * * *** *
151932 GTTTAAG-GCTTGTAAA--TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCT
63 GGTTAAGATC-TGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAAT-T
*
151993 TCGATCTG
126 T-GGTCTG
* * ** * * * * * * *
152001 TTTCCCTACTGCTTAGGGGGAT-AAGATC-TGCA-ATTCGGTCTGTTACCCTACCGATTAGGAGT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* ** * * *
152063 TTAAGACCCT-T-CGTCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAATCT
65 TTAAGA-TCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTAAAT-T
*
152124 TCAGTCTG
126 T-GGTCTG
* * *** ** * *
152132 TTACCCTACTGCTTAGGGGTTTAAGGCTTGT-AAATTC-AACTTGTTACCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC-TGTTTCCCTACTGCTTAGGGGG
* ** * * * * * * *
152195 TTAA-AGC-CCATCATCTTC-GATCTGTTTCCCTACTGCTTAGGGGGATAA-G-ATCTACAATTC
65 TTAAGATCTGTA-AATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTA-AATTT
152255 GGTCTG
127 GGTCTG
* * * * *
152261 TTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* *
152325 TTAAGATCTGTAAATC-TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTGAATT
65 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATT
152385 CACTGATTCT
Statistics
Matches: 618, Mismatches: 122, Indels: 77
0.76 0.15 0.09
Matches are distributed among these distances:
128 8 0.01
129 83 0.13
130 122 0.20
131 89 0.14
132 314 0.51
133 2 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (132 bp):
TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGGTC
TG
Found at i:151865 original size:86 final size:86
Alignment explanation
Indices: 151475--152373 Score: 503
Period size: 86 Copynumber: 10.3 Consensus size: 86
151465 TTCCAGCCTA
* * * * * * * * * *
151475 TTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCTCAACTACTTAAGGGGT
1 TTACCCTACTGCTTAGGGGGTTAAGACCCTTCATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
* * *
151540 TAAGATCTGTAAATCTTC-AGCCTG
66 TAAGATTTG-CAA--TTCGA-TCTG
* * * * * *
151564 TTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TTGGCT-TGTTACCCTACTGTTTAGGGG
1 TTACCCTACTGCTTAGGGGGTTAAGACCCT-T-CATCTTCGATCTGTTACCCTACTGCTTAGGGG
*** *
151626 GTTAAAGCCCAT-CATCTTCGATCTG
64 GTT-AAG-ATTTGCA-ATTCGATCTG
* * * * *
151651 TTTCCCTACTGCTTAGAGGGTTAAGA-TCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTAGGG
1 TTACCCTACTGCTTAGGGGGTTAAGACCCT-T-CATCTTCGA-TCTGTTACCCTACTGCTTAGGG
* ** *
151714 GTTTAAGGCTTGCAAATTCG-GCTTG
63 GGTTAAGATTTGC-AATTCGATC-TG
* *
151739 TTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGGGTTAAGA-CCCTTCATCTTCGATCTGTTACCCTACTGCTTAGGGGG
*
151803 ATAAGATTTGCAATTCGATCTG
65 TTAAGATTTGCAATTCGATCTG
* * * * * * *
151825 TTACTCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGT
1 TTACCCTACTGCTTAGGGGGTTAAGACCCTTCATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
* * *
151890 TAAGATCTGTAAATCTTC-AGCCTG
66 TAAGATTTG-CAA--TTCGA-TCTG
* * * ** *
151914 TTACCCTACTGCTTAGGGGTTTAAG--GCTTGTAAATTC-AGCTTGTTACCCTACTGCTTAGGGG
1 TTACCCTACTGCTTAGGGGGTTAAGACCCTT-CATCTTCGATC-TGTTACCCTACTGCTTAGGGG
*** *
151976 GTTAAAGCCCAT-CATCTTCGATCTG
64 GTT-AAG-ATTTGCA-ATTCGATCTG
* * * * * * * * * *
152001 TTTCCCTACTGCTTAGGGGGATAAGA-TCTGCA-ATTCGGTCTGTTACCCTACCGATTAGGAGTT
1 TTACCCTACTGCTTAGGGGGTTAAGACCCTTCATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
*
152064 TAAGACCCTTCGTC--TTCGATCTG
66 TAAGA---TTTG-CAATTCGATCTG
* * *
152087 TTTCCCTACTGCTTAGGGGGTTAAGA-TCTGTAAATCTTC-AGTCTGTTACCCTACTGCTTAGGG
1 TTACCCTACTGCTTAGGGGGTTAAGACCCT-T-CATCTTCGA-TCTGTTACCCTACTGCTTAGGG
* ** * *
152150 GTTTAAGGCTTGTAAATTC-AACTTG
63 GGTTAAGATTTG-CAATTCGATC-TG
* *
152175 TTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGGGTTAAGA-CCCTTCATCTTCGATCTGTTACCCTACTGCTTAGGGGG
* * * *
152239 ATAAGATCTACAATTCGGTCTG
65 TTAAGATTTGCAATTCGATCTG
* * * * *
152261 TTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGGTTAAGACCCTTCATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
* * *
152326 TAAGATCTGTAAATCTC-AGCCTG
66 TAAGATTTG-CAAT-TCGA-TCTG
*
152349 TTACCCTACTGCTTAGGGGTTTAAG
1 TTACCCTACTGCTTAGGGGGTTAAG
152374 GCTTGTGAAT
Statistics
Matches: 631, Mismatches: 129, Indels: 101
0.73 0.15 0.12
Matches are distributed among these distances:
85 3 0.00
86 207 0.33
87 155 0.25
88 145 0.23
89 117 0.19
90 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (86 bp):
TTACCCTACTGCTTAGGGGGTTAAGACCCTTCATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
TAAGATTTGCAATTCGATCTG
Found at i:151876 original size:218 final size:218
Alignment explanation
Indices: 151561--152386 Score: 1390
Period size: 218 Copynumber: 3.8 Consensus size: 218
151551 AATCTTCAGC
* * * * * * *
151561 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAATTTGG-CTTGTTACCCTACTGTTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGATAAGATC-TG-CAATTCGGTC-TGTTACCCTACCGATTAGG
* * *
151624 GGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCT
63 GGTTTAAGA-CCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCT
* *
151688 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGCAAATTCGGCTTGTTACCCTACTGCTT
127 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCTTGTTACCCTACTGCTT
151753 AGGGGGTTAAAGCCCATCATCTTCGAT
192 AGGGGGTTAAAGCCCATCATCTTCGAT
* * *
151780 CTGTTTCCCTACTGCTTAGGGGGATAAGATTTGCAATTCGATCTGTTACTCTACCGATTAGGGGT
1 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGT
151845 TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCTTCAG
66 TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCTTCAG
151910 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCTTGTTACCCTACTGCTTAGGG
131 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCTTGTTACCCTACTGCTTAGGG
151975 GGTTAAAGCCCATCATCTTCGAT
196 GGTTAAAGCCCATCATCTTCGAT
*
151998 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGAGT
1 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGT
*
152063 TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG
66 TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCTTCAG
* *
152128 TCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAACTTGTTACCCTACTGCTTAGGG
131 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCTTGTTACCCTACTGCTTAGGG
152193 GGTTAAAGCCCATCATCTTCGAT
196 GGTTAAAGCCCATCATCTTCGAT
*
152216 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTACAATTCGGTCTGTTACCCTACCGATTAGGGGT
1 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGT
*
152281 TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATC-TCAG
66 TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCTTCAG
*
152345 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTGAATTCA
131 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCA
152387 CTGATTCTAG
Statistics
Matches: 578, Mismatches: 26, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
217 44 0.08
218 504 0.87
219 30 0.05
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (218 bp):
CTGTTTCCCTACTGCTTAGGGGGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGT
TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCTTCAG
CCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCTTGTTACCCTACTGCTTAGGG
GGTTAAAGCCCATCATCTTCGAT
Found at i:152193 original size:350 final size:349
Alignment explanation
Indices: 151475--152285 Score: 1000
Period size: 350 Copynumber: 2.3 Consensus size: 349
151465 TTCCAGCCTA
* * * * * *
151475 TTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCTCAACTACTTA-AGGGG
1 TTACCCTACTGCTTAGGGGTTTAAGACCCATCATCTTCGATCTGTTTCCCTACTGCTTAGA-GGG
* **
151539 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGGC
65 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGC
*
151604 TTGTTACCCTACTGTTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
130 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
* * * * *
151669 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGCAAATTCG
195 GGATAAGATCTGTAAA-CTTCAGCCTGTTACCCTACCGATTAGGAGTTTAAGCCTTGCAAATTCG
* *
151734 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
259 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATAATCTTCGATCTGTTACCCTACTGCTTAG
* * *
151799 GGGGATAAGATTTGCAATTCGATCTG
324 GGGGATAAGACTTGAAATTCAATCTG
* * * * *
151825 TTACTCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGAGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGACCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGGGT
151890 TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCT
66 TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCT
*
151955 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGG
131 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGG
* * * ***
152020 GATAAGATCTG-CAA-TTCGGTCTGTTACCCTACCGATTAGGAGTTTAAGACCCTT-CGTCTTC-
196 GATAAGATCTGTAAACTTCAGCCTGTTACCCTACCGATTAGGAGTTTAAG--CCTTGCAAATTCG
* * * **
152081 GATCTGTTTCCCTACTGCTTAGGGGGTT-AAGATCTGTAAATCTTC-AGTCTGTTACCCTACTGC
259 GCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCAT-AATCTTCGA-TCTGTTACCCTACTGC
** *
152144 TTAGGGGTTTAAGGCTTGTAAATTCAA-CTTG
320 TTAGGGGGATAAGACTTG-AAATTCAATC-TG
* *
152175 TTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGGTTTAAGA-CCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGGG
* * * * *
152239 ATAAGATC--TACAA--TTCGGTCTGTTACCCTACCGATTAGGGGTTTAAG
65 TTAAGATCTGTA-AATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
152286 ACCCTTCGTC
Statistics
Matches: 398, Mismatches: 52, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
347 64 0.16
348 32 0.08
349 44 0.11
350 257 0.65
351 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (349 bp):
TTACCCTACTGCTTAGGGGTTTAAGACCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGGGT
TAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGCT
TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGG
GATAAGATCTGTAAACTTCAGCCTGTTACCCTACCGATTAGGAGTTTAAGCCTTGCAAATTCGGC
TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATAATCTTCGATCTGTTACCCTACTGCTTAGGG
GGATAAGACTTGAAATTCAATCTG
Found at i:152543 original size:66 final size:66
Alignment explanation
Indices: 152437--152563 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
152427 TCTATGCTTA
*
152437 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
152502 G
66 G
* *
152503 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTAT
152564 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
G
Found at i:158421 original size:3 final size:3
Alignment explanation
Indices: 158408--158492 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
158398 GAGGGCATAT
**
158408 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
158455 ATA ATA TATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
158493 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
2 6 0.09
3 46 0.71
4 11 0.17
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:158431 original size:20 final size:20
Alignment explanation
Indices: 158408--158491 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 20
158398 GAGGGCATAT
158408 ATAATATAATAATAATATAA
1 ATAATATAATAATAATATAA
**
158428 AT-A-ATAATATATACATGAGGA
1 ATAATATAATA-ATA-AT-ATAA
158449 AT-A-ATAATAAT-ATATAA
1 ATAATATAATAATAATATAA
*
158466 ATAATAGTAAAAATAATA-AA
1 ATAATA-TAATAATAATATAA
158486 ATAATA
1 ATAATA
158492 AAACAAAGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 4 0.08
18 9 0.17
19 5 0.10
20 20 0.38
21 14 0.27
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATATAATAATAATATAA
Found at i:158824 original size:25 final size:25
Alignment explanation
Indices: 158792--158840 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
158782 AAAAACTAGC
*
158792 CTTTCC-AAGAAACAAAAATAACCTT
1 CTTTCCAAAAAAACAAAAA-AACCTT
158817 CTTTCCAAAAAAACAAAAAAACCT
1 CTTTCCAAAAAAACAAAAAAACCT
158841 CCTCCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.53, C:0.24, G:0.02, T:0.20
Consensus pattern (25 bp):
CTTTCCAAAAAAACAAAAAAACCTT
Found at i:169984 original size:16 final size:16
Alignment explanation
Indices: 169960--170000 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
169950 TCCTTCATTA
169960 GGATATCCCCA-AACCG
1 GGATATCCCCAGAA-CG
*
169976 GGCTATCCCCAGAACG
1 GGATATCCCCAGAACG
169992 GGATATCCC
1 GGATATCCC
170001 TGTGAGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.27, C:0.37, G:0.22, T:0.15
Consensus pattern (16 bp):
GGATATCCCCAGAACG
Found at i:170163 original size:16 final size:16
Alignment explanation
Indices: 170142--170176 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
170132 CTGCTCCGAC
170142 ACAAGCCAACCCAATA
1 ACAAGCCAACCCAATA
*
170158 ACAAGCTAACCCAATA
1 ACAAGCCAACCCAATA
170174 ACA
1 ACA
170177 CAGTACTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
ACAAGCCAACCCAATA
Found at i:171899 original size:71 final size:71
Alignment explanation
Indices: 171805--171947 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
171795 CTAAAATATG
* *
171805 ATGGTATTCACGGGGCATTAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
1 ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
171870 ATGGTC
66 ATGGTC
*
171876 ATGGTATTCACAGGGCATAAGACAAGATTAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
1 ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
171941 ATGGTC
66 ATGGTC
171947 A
1 A
171948 ACCTTGCCAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.27
Consensus pattern (71 bp):
ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
ATGGTC
Found at i:184606 original size:24 final size:24
Alignment explanation
Indices: 184570--184616 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
184560 CACCCGCACC
*
184570 CACACACATGCACTCACTCACATG
1 CACACACACGCACTCACTCACATG
*
184594 CACACACACGCACTCGCTCACAT
1 CACACACACGCACTCACTCACAT
184617 ATACACACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.45, G:0.09, T:0.15
Consensus pattern (24 bp):
CACACACACGCACTCACTCACATG
Found at i:184622 original size:24 final size:24
Alignment explanation
Indices: 184570--184624 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
184560 CACCCGCACC
* *
184570 CACACACATGCACTCACTCACATG
1 CACACACACGCACTCACTCACATA
*
184594 CACACACACGCACTCGCTCACATA
1 CACACACACGCACTCACTCACATA
*
184618 TACACAC
1 CACACAC
184625 GCAAACACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.44, G:0.07, T:0.15
Consensus pattern (24 bp):
CACACACACGCACTCACTCACATA
Found at i:189092 original size:19 final size:19
Alignment explanation
Indices: 189053--189105 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
189043 TTATAAAAAG
*
189053 AAATTCAAAATAATTTTT-A
1 AAATTCAAAAT-TTTTTTAA
189072 AAATTCAAAATTTTTTATAA
1 AAATTCAAAATTTTTT-TAA
189092 AAATTTCAAAATTT
1 AAA-TTCAAAATTT
189106 ATATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 4 0.13
21 10 0.33
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTCAAAATTTTTTTAA
Found at i:189110 original size:20 final size:20
Alignment explanation
Indices: 189071--189110 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
189061 AATAATTTTT
*
189071 AAAATTCAAAATTTTTTATA
1 AAAATTCAAAATTTTATATA
189091 AAAATTTCAAAA-TTTATATA
1 AAAA-TTCAAAATTTTATATA
189111 TTTTTTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTCAAAATTTTATATA
Found at i:189861 original size:95 final size:95
Alignment explanation
Indices: 189698--189887 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
189688 ATGTAAGAAG
189698 ATGCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTC
1 ATGCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTC
189763 TTACCTACTTTATCGTTTCTTGTTTCTGAT
66 TTACCTACTTTATCGTTTCTTGTTTCTGAT
189793 ATGCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTC
1 ATGCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTC
189858 TTACCTACTTTATCGTTTCTTGTTTCTGAT
66 TTACCTACTTTATCGTTTCTTGTTTCTGAT
189888 TCTAACTTAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.16, C:0.33, G:0.13, T:0.39
Consensus pattern (95 bp):
ATGCTTCATACTTGTGCCACTGCCCACTGGGCCACACCAACTGGTAACTCCTTTCTCTTTCCCTC
TTACCTACTTTATCGTTTCTTGTTTCTGAT
Found at i:192428 original size:23 final size:23
Alignment explanation
Indices: 192401--192447 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
192391 ATGAAAAAGA
*
192401 ATTAGAGACCGATTGTTTAATTT
1 ATTAGAGACCAATTGTTTAATTT
192424 ATTAGAGACCAATTGTTTAATTT
1 ATTAGAGACCAATTGTTTAATTT
192447 A
1 A
192448 ACCTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
ATTAGAGACCAATTGTTTAATTT
Found at i:193185 original size:4 final size:4
Alignment explanation
Indices: 193176--193237 Score: 115
Period size: 4 Copynumber: 15.5 Consensus size: 4
193166 TTGCTAGCTC
*
193176 CTAT CTAT CTAT CTGT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
193224 CTAT CTAT CTAT CT
1 CTAT CTAT CTAT CT
193238 TTATATTCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:195818 original size:32 final size:32
Alignment explanation
Indices: 195782--195846 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
195772 TAGATGAAAG
195782 AGCAAAATAATCCTACAATTAAACTCCTCCAC
1 AGCAAAATAATCCTACAATTAAACTCCTCCAC
*
195814 AGCAAAATAATCCTACAATTAAACTCTTCCAC
1 AGCAAAATAATCCTACAATTAAACTCCTCCAC
195846 A
1 A
195847 ACCCTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.23
Consensus pattern (32 bp):
AGCAAAATAATCCTACAATTAAACTCCTCCAC
Found at i:200634 original size:20 final size:18
Alignment explanation
Indices: 200598--200642 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
200588 AAACCTTCAA
200598 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
200616 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
200636 -TTTCCCT
1 TTTTCCCT
200643 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:200875 original size:20 final size:20
Alignment explanation
Indices: 200852--200891 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
200842 TATAATTATT
200852 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
200872 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
200892 ATACTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAATAAATATCTTTTA
Found at i:203059 original size:33 final size:33
Alignment explanation
Indices: 203022--203087 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
203012 TACAAAGATA
203022 TGTTAGCATAAAGCAAAAAGATATGAAACATTT
1 TGTTAGCATAAAGCAAAAAGATATGAAACATTT
** * * *
203055 TGTTATTATAAAGCAAAGAGGTATGAAATATTT
1 TGTTAGCATAAAGCAAAAAGATATGAAACATTT
203088 ATTTTATAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTTAGCATAAAGCAAAAAGATATGAAACATTT
Found at i:203095 original size:31 final size:33
Alignment explanation
Indices: 203029--203096 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
203019 ATATGTTAGC
*
203029 ATAAAGCAAAAAGATATGAAACATTTTGTTATT
1 ATAAAGCAAAAAGATATGAAACATTTTATTATT
* * *
203062 ATAAAGCAAAGAGGTATGAAATA-TTTATT-TT
1 ATAAAGCAAAAAGATATGAAACATTTTATTATT
203093 ATAA
1 ATAA
203097 CTAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 6 0.19
32 5 0.16
33 20 0.65
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.34
Consensus pattern (33 bp):
ATAAAGCAAAAAGATATGAAACATTTTATTATT
Found at i:203316 original size:134 final size:134
Alignment explanation
Indices: 203077--203330 Score: 325
Period size: 137 Copynumber: 1.9 Consensus size: 134
203067 GCAAAGAGGT
* * * * *
203077 ATGAAATATTTATTTTATAACTAAAATAATAATATTATTTAATACATTGATAATATCATTAAGAT
1 ATGAAACATTTATTTTATAAATAAAATAATAAAAATATTTAATACATAGATAATATCATTAAGAT
*
203142 TAAAAACACTAGAACTGAATAATAAAAAATATAAATTTGCAATACATTCATCTTTGTTATTATAA
66 TAAAAACACTAAAACTGAATAATAAAAAATATAAATTTGCAATACATTCATCTTTGTTATTATAA
203207 AGCA
131 AGCA
** *
203211 ATGAAACATTTATTTTATAAATAAAAATAAAATAAAAATATTTAATATGTAGATAATTTCATTAA
1 ATGAAACATTTATTTTATAAAT-AAAAT--AATAAAAATATTTAATACATAGATAATATCATTAA
** * * * *
203276 TTTTTAAAATATTAAAACTGAATAA-AAAAAGTAT-AA-TTGCAATACATTCATCTTT
63 GATTAAAAACACTAAAACTGAATAATAAAAAATATAAATTTGCAATACATTCATCTTT
203331 TAAATATATA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
134 39 0.38
135 7 0.07
136 8 0.08
137 48 0.47
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.38
Consensus pattern (134 bp):
ATGAAACATTTATTTTATAAATAAAATAATAAAAATATTTAATACATAGATAATATCATTAAGAT
TAAAAACACTAAAACTGAATAATAAAAAATATAAATTTGCAATACATTCATCTTTGTTATTATAA
AGCA
Found at i:216924 original size:30 final size:30
Alignment explanation
Indices: 216890--216946 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
216880 GGGAAATTCT
216890 GTTACAGAGTGTGCTCCAGGGAACATAACC
1 GTTACAGAGTGTGCTCCAGGGAACATAACC
216920 GTTACAGAGTGTGCTCCAGGGAACATA
1 GTTACAGAGTGTGCTCCAGGGAACATA
216947 GCTGGATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (30 bp):
GTTACAGAGTGTGCTCCAGGGAACATAACC
Found at i:219717 original size:4 final size:4
Alignment explanation
Indices: 219708--219732 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
219698 AGAAAAGGTA
219708 TAGC TAGC TAGC TAGC TAGC TAGC T
1 TAGC TAGC TAGC TAGC TAGC TAGC T
219733 CTAAAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (4 bp):
TAGC
Found at i:223434 original size:5 final size:5
Alignment explanation
Indices: 223426--223468 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
223416 AAGCAACTCT
223426 TTGTC TTGTC TTGTC TTGTC TTGTC TTGTC TTGTC TTGGTC TT
1 TTGTC TTGTC TTGTC TTGTC TTGTC TTGTC TTGTC TT-GTC TT
223469 TAAGTAACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.86
6 5 0.14
ACGTcount: A:0.00, C:0.19, G:0.21, T:0.60
Consensus pattern (5 bp):
TTGTC
Found at i:230694 original size:15 final size:15
Alignment explanation
Indices: 230674--230703 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
230664 TCTTCTGATG
230674 GAGTAGCTAGTGCTA
1 GAGTAGCTAGTGCTA
230689 GAGTAGCTAGTGCTA
1 GAGTAGCTAGTGCTA
230704 TTTGATCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (15 bp):
GAGTAGCTAGTGCTA
Found at i:231796 original size:3 final size:3
Alignment explanation
Indices: 231788--231813 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
231778 TGAGTAACTC
231788 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
231814 CAATCCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:236246 original size:42 final size:42
Alignment explanation
Indices: 236199--236286 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
236189 AAAATATACA
236199 CAGTAACCAGACGTGGACCGGTGATCATCGAAATCCAAGCCC
1 CAGTAACCAGACGTGGACCGGTGATCATCGAAATCCAAGCCC
236241 CAGTAACCAGACGTGGACCGGTGATCATCGAAATCCAAGCCC
1 CAGTAACCAGACGTGGACCGGTGATCATCGAAATCCAAGCCC
236283 CAGT
1 CAGT
236287 TAGCATCAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.15
Consensus pattern (42 bp):
CAGTAACCAGACGTGGACCGGTGATCATCGAAATCCAAGCCC
Found at i:247924 original size:69 final size:69
Alignment explanation
Indices: 247752--247935 Score: 174
Period size: 69 Copynumber: 2.7 Consensus size: 69
247742 AGGGGTACCT
** * * **
247752 GGAACAGAATCAACAAAAATAGACGAGCTTTGCCCCTTGAACAACTTATCCGCATAGACAGGAGA
1 GGAACAGAATCTGCAAAAATAGACGAGCTTTTCCCCATGAACATGTTATCCGCATAGACAGGAGA
*
247817 GCTT
66 GCTA
* * * * * * * * *
247821 GGAATATATTCTGCAAATATGGCCGA-ATTCTTCCCCATGAACATGTTATCTGCATAGGCAGGAG
1 GGAACAGAATCTGCAAAAATAGACGAGCTT-TTCCCCATGAACATGTTATCCGCATAGACAGGAG
*
247885 TGCTA
65 AGCTA
*
247890 GGAACAGAATCTGCAAAAATAGATGAGCTTTT-CCCATGGAACATGT
1 GGAACAGAATCTGCAAAAATAGACGAGCTTTTCCCCAT-GAACATGT
247936 CACCTATGTA
Statistics
Matches: 87, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
68 7 0.08
69 78 0.90
70 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (69 bp):
GGAACAGAATCTGCAAAAATAGACGAGCTTTTCCCCATGAACATGTTATCCGCATAGACAGGAGA
GCTA
Found at i:254424 original size:9 final size:9
Alignment explanation
Indices: 254410--254462 Score: 79
Period size: 9 Copynumber: 5.9 Consensus size: 9
254400 TTCAATAAGA
254410 TTCTTTTTC
1 TTCTTTTTC
254419 TTCTTTTTC
1 TTCTTTTTC
254428 TTCTTTTTC
1 TTCTTTTTC
*
254437 TTCTTCTTC
1 TTCTTTTTC
*
254446 TTCTTCTTC
1 TTCTTTTTC
*
254455 TTATTTTT
1 TTCTTTTT
254463 GATTAATGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:254431 original size:3 final size:3
Alignment explanation
Indices: 254410--254456 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
254400 TTCAATAAGA
* * *
254410 TTC TTT TTC TTC TTT TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
254457 ATTTTTGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:256741 original size:6 final size:6
Alignment explanation
Indices: 256687--256738 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
256677 GAAGGCGAGT
* * *
256687 GTGAGG GTGAGG GTGAGG GTGAGG GTGAGG GTGAAG GTGAAG GTGAAG
1 GTGAGG GTGAGG GTGAGG GTGAGG GTGAGG GTGAGG GTGAGG GTGAGG
256735 GTGA
1 GTGA
256739 AGGAGGAGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.23, C:0.00, G:0.60, T:0.17
Consensus pattern (6 bp):
GTGAGG
Found at i:269384 original size:15 final size:16
Alignment explanation
Indices: 269364--269398 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
269354 TCCCCATCCG
269364 TTTTCTTT-TTCCTTT
1 TTTTCTTTCTTCCTTT
*
269379 TTTTCTTTCTTTCTTT
1 TTTTCTTTCTTCCTTT
269395 TTTT
1 TTTT
269399 TGGTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTCTTCCTTT
Found at i:274703 original size:15 final size:15
Alignment explanation
Indices: 274687--274732 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
274677 CGAAATAGTA
274687 AAAATA-TAAATTTT
1 AAAATATTAAATTTT
274701 AAAATATTAAA--TT
1 AAAATATTAAATTTT
274714 AAAATATTATTAATTTT
1 AAAATATTA--AATTTT
274731 AA
1 AA
274733 GTGTTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 11 0.41
14 6 0.22
15 6 0.22
17 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATATTAAATTTT
Found at i:279569 original size:15 final size:15
Alignment explanation
Indices: 279549--279578 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
279539 CAATGAATTT
279549 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
279564 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
279579 GAACAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:281600 original size:5 final size:5
Alignment explanation
Indices: 281590--281618 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
281580 CCTTTTTTTA
281590 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
281619 AAAGAGGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:281980 original size:13 final size:13
Alignment explanation
Indices: 281964--281997 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
281954 ATTTTGATGC
281964 TTAATTTTTTTAT
1 TTAATTTTTTTAT
281977 TTAAATTTTTTTAT
1 TT-AATTTTTTTAT
*
281991 CTAATTT
1 TTAATTT
281998 GGTATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (13 bp):
TTAATTTTTTTAT
Found at i:290785 original size:5 final size:5
Alignment explanation
Indices: 290777--290802 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
290767 TGAAATATTC
290777 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
290803 GTTGGGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:295113 original size:4 final size:4
Alignment explanation
Indices: 295106--295148 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
295096 TCGGTTCTGT
295106 CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTG
1 CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTG
295149 TCCTTTTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.26, T:0.26
Consensus pattern (4 bp):
CTGC
Found at i:295202 original size:3 final size:3
Alignment explanation
Indices: 295194--295219 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
295184 ATTCATGTTC
295194 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
295220 ATGGACTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:306525 original size:17 final size:17
Alignment explanation
Indices: 306503--306538 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
306493 GGAAGTCAGT
306503 TTCCATATTGAATACCA
1 TTCCATATTGAATACCA
306520 TTCCATATTGAATACCA
1 TTCCATATTGAATACCA
306537 TT
1 TT
306539 GTAGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (17 bp):
TTCCATATTGAATACCA
Found at i:326593 original size:23 final size:22
Alignment explanation
Indices: 326563--326608 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 22
326553 TTGACGTGGC
326563 GTCTAGTCAGCAATTTCTAGAAA
1 GTCTAGTCAGCAATTTCTA-AAA
326586 GTCTAGTCAGCAATTTCTAAAA
1 GTCTAGTCAGCAATTTCTAAAA
326608 G
1 G
326609 ACATTTGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (22 bp):
GTCTAGTCAGCAATTTCTAAAA
Found at i:339471 original size:40 final size:41
Alignment explanation
Indices: 339398--339484 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
339388 TATAATCAAT
*
339398 TTTTATTATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
* * * * *
339439 TTTTAATATATTTTT-ATTTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
339479 TTTTAA
1 TTTTAA
339485 ATGTATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.23, C:0.01, G:0.09, T:0.67
Consensus pattern (41 bp):
TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
Found at i:341200 original size:30 final size:30
Alignment explanation
Indices: 341151--341215 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 30
341141 TTCAAGACTC
*
341151 AAATTTCATAATTCAAAAAATATAA-ATACT
1 AAATTTAATAATTCAAAAAATATAAGA-ACT
341181 AAATTTAATCAATTCAAAAAATATAAGAACT
1 AAATTTAAT-AATTCAAAAAATATAAGAACT
341212 AAAT
1 AAAT
341216 CTGCAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.25
31 23 0.72
32 1 0.03
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (30 bp):
AAATTTAATAATTCAAAAAATATAAGAACT
Found at i:343012 original size:16 final size:16
Alignment explanation
Indices: 342991--343023 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
342981 TTTTATCCAG
342991 TTGTTACATATAACAA
1 TTGTTACATATAACAA
343007 TTGTTACATATAACAA
1 TTGTTACATATAACAA
343023 T
1 T
343024 ATATCATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (16 bp):
TTGTTACATATAACAA
Found at i:347843 original size:20 final size:20
Alignment explanation
Indices: 347807--347849 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
347797 TTTTTTAAGT
* *
347807 TTTATATTTTTTCTTATTTA
1 TTTATATTTTTTATTATTAA
347827 TTTAT-TTTATTTATTATTAA
1 TTTATATTT-TTTATTATTAA
347847 TTT
1 TTT
347850 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATATTTTTTATTATTAA
Found at i:347938 original size:21 final size:21
Alignment explanation
Indices: 347925--348068 Score: 110
Period size: 20 Copynumber: 7.0 Consensus size: 21
347915 TTTTTGAAAA
347925 TATTTTTAAAATTTTAAATAT
1 TATTTTTAAAATTTTAAATAT
347946 TATTTTT-AAATTTTAAATAT
1 TATTTTTAAAATTTTAAATAT
*
347966 TATTTTT-AAATATTAAATA-
1 TATTTTTAAAATTTTAAATAT
*
347985 TATTTTTAATAA-TATAAA-A-
1 TATTTTTAA-AATTTTAAATAT
348004 TA--TTTAAATATTTTAAAGATAT
1 TATTTTTAAA-ATTTT-AA-ATAT
* * * *
348026 GACTTTTCAAA-TTT-ATTAT
1 TATTTTTAAAATTTTAAATAT
348045 TATTTTTATAATATTTTAAATAT
1 TATTTTTA-AA-ATTTTAAATAT
348068 T
1 T
348069 TTTAATTTAT
Statistics
Matches: 98, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.01
17 6 0.06
18 2 0.02
19 20 0.20
20 40 0.41
21 11 0.11
22 7 0.07
23 6 0.06
24 5 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
TATTTTTAAAATTTTAAATAT
Done.