Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017978.1 Corchorus olitorius cultivar O-4 contig18011, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 232493
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1691 original size:16 final size:16
Alignment explanation
Indices: 1670--1702 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1660 CAAAGCCTGG
1670 CATATTTCCACACTCA
1 CATATTTCCACACTCA
1686 CATATTTCCACACTCA
1 CATATTTCCACACTCA
1702 C
1 C
1703 GCTCATAAAT
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:0.30, C:0.39, G:0.00, T:0.30
Consensus pattern (16 bp):
CATATTTCCACACTCA
Found at i:2082 original size:25 final size:25
Alignment explanation
Indices: 2054--2103 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2044 AAAAACAAAC
*
2054 AGAAGTAAGAAACGAAAT-CAAGAAA
1 AGAAG-AAGAAAAGAAATACAAGAAA
*
2079 AGAAGACGAAAAGAAATACAAGAAA
1 AGAAGAAGAAAAGAAATACAAGAAA
2104 TCAGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.66, C:0.08, G:0.20, T:0.06
Consensus pattern (25 bp):
AGAAGAAGAAAAGAAATACAAGAAA
Found at i:11920 original size:4 final size:4
Alignment explanation
Indices: 11886--11931 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
11876 AGTTAGACTT
* *
11886 AGAA AG-A AGAA AAAA AAAA AGAA AG-A A-AA AGAA AGAA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
11931 A
1 A
11932 AGCAAAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 7 0.19
4 30 0.81
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:11920 original size:14 final size:14
Alignment explanation
Indices: 11888--11927 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
11878 TTAGACTTAG
11888 AAAG-AAGAAA-AA
1 AAAGAAAGAAAGAA
11900 AAA-AAAGAAAGAA
1 AAAGAAAGAAAGAA
11913 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
11927 A
1 A
11928 GAAAAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.36
13 5 0.20
14 11 0.44
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:17951 original size:14 final size:14
Alignment explanation
Indices: 17932--17961 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17922 AGATTCCATG
*
17932 CAATCTGTTGTTTA
1 CAATCTCTTGTTTA
17946 CAATCTCTTGTTTA
1 CAATCTCTTGTTTA
17960 CA
1 CA
17962 CAACTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (14 bp):
CAATCTCTTGTTTA
Found at i:49289 original size:3 final size:3
Alignment explanation
Indices: 49276--49305 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
49266 TTCTCCCCTT
49276 TTC TATC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TT
49306 TACTCGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:68642 original size:6 final size:6
Alignment explanation
Indices: 68631--68656 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
68621 TTATTATAAT
68631 AAAATG AAAATG AAAATG AAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AA
68657 TGAAGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:69784 original size:16 final size:16
Alignment explanation
Indices: 69759--69797 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
69749 GATTGAGAAA
*
69759 ATTTCTTTCTTTACTT
1 ATTTCCTTCTTTACTT
*
69775 ATTTCCTTCTTTTCTT
1 ATTTCCTTCTTTACTT
*
69791 CTTTCCT
1 ATTTCCT
69798 ACCAAACAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTCCTTCTTTACTT
Found at i:71135 original size:2 final size:2
Alignment explanation
Indices: 71128--71152 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71118 TGGTTATTAG
71128 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 T
71153 GTTTCTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72060 original size:28 final size:28
Alignment explanation
Indices: 72008--72075 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
71998 AAAGTTTTAA
72008 AAGGCTTTTAAG-ATGTGACCC-AAAAG
1 AAGGCTTTTAAGAATGTGACCCAAAAAG
**
72034 ATAGGCTTTTAAGAATGTGGGCCAAAAAG
1 A-AGGCTTTTAAGAATGTGACCCAAAAAG
72063 AAGGCTTTTAAGA
1 AAGGCTTTTAAGA
72076 CGGCATGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.03
27 11 0.30
28 19 0.51
29 6 0.16
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (28 bp):
AAGGCTTTTAAGAATGTGACCCAAAAAG
Found at i:93741 original size:21 final size:20
Alignment explanation
Indices: 93717--93835 Score: 76
Period size: 21 Copynumber: 5.7 Consensus size: 20
93707 ATCCCCAGGT
* *
93717 TACAGCCCATCTTCTCCTGGC
1 TACAGCCCA-CATCTCCTGGA
* * *
93738 TACAGTCCATCGTCCCCTGGA
1 TACAGCCCA-CATCTCCTGGA
* * * *
93759 TACAGTCCAACCTCGCCTGGT
1 TACAG-CCCACATCTCCTGGA
*
93780 TACAGTCCGACATCTCCTGGA
1 TACAG-CCCACATCTCCTGGA
* *
93801 TATAGCCCCACATCTCCTGGG
1 TACAG-CCCACATCTCCTGGA
93822 TACAGCCCCACATC
1 TACAG-CCCACATC
93836 ACCTACTTAC
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
21 77 0.97
22 2 0.03
ACGTcount: A:0.20, C:0.39, G:0.17, T:0.24
Consensus pattern (20 bp):
TACAGCCCACATCTCCTGGA
Found at i:93820 original size:42 final size:41
Alignment explanation
Indices: 93706--93835 Score: 107
Period size: 42 Copynumber: 3.1 Consensus size: 41
93696 TCTCCTGCAT
* * * *
93706 CATCCCCAGGTTACAGCCCATCTTCTCCTGGCTACAGTCCA
1 CATCCCCTGGATACAGCCCAACATCTCCTGGCTACAGTCCA
* * * * *
93747 TCGTCCCCTGGATACAGTCCAACCTCGCCTGGTTACAGTCCGA
1 -CATCCCCTGGATACAGCCCAACATCTCCTGGCTACAGTCC-A
* * * * *
93790 CATCTCCTGGATATAGCCCCACATCTCCTGGGTACAGCCCCA
1 CATCCCCTGGATACAGCCCAACATCTCCTGGCTACAG-TCCA
93832 CATC
1 CATC
93836 ACCTACTTAC
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 66 0.96
43 3 0.04
ACGTcount: A:0.20, C:0.40, G:0.17, T:0.23
Consensus pattern (41 bp):
CATCCCCTGGATACAGCCCAACATCTCCTGGCTACAGTCCA
Found at i:93846 original size:21 final size:21
Alignment explanation
Indices: 93804--93847 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
93794 TCCTGGATAT
* **
93804 AGCCCCACATCTCCTGGGTAC
1 AGCCCCACATCACCTACGTAC
*
93825 AGCCCCACATCACCTACTTAC
1 AGCCCCACATCACCTACGTAC
93846 AG
1 AG
93848 TCCAAGTTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.43, G:0.14, T:0.18
Consensus pattern (21 bp):
AGCCCCACATCACCTACGTAC
Found at i:93995 original size:21 final size:21
Alignment explanation
Indices: 93942--94045 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 21
93932 CCCTACATCG
*
93942 CCAAGTTACAG-CCCTACATCC
1 CCAAGTTACAGTCCC-ACTTCC
93963 CCAAGTTACAGTCCCACTTCC
1 CCAAGTTACAGTCCCACTTCC
* *
93984 CCAAGTTACAGTCCCACCTCT
1 CCAAGTTACAGTCCCACTTCC
* * * *
94005 CCAAGCTATAGTCCAACTTCA
1 CCAAGTTACAGTCCCACTTCC
* *
94026 CCTAGTTACAGCCCCACTTC
1 CCAAGTTACAGTCCCACTTC
94046 ACCTGTATAT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
21 66 0.96
22 3 0.04
ACGTcount: A:0.26, C:0.41, G:0.10, T:0.23
Consensus pattern (21 bp):
CCAAGTTACAGTCCCACTTCC
Found at i:94042 original size:42 final size:42
Alignment explanation
Indices: 93915--94042 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
93905 TTATTCTCCG
* * * * *
93915 ACCTCTCCAAGCTACAGCCCTACATCGCCAAGTTACAGCCCT
1 ACCTCTCCAAGCTACAGTCCAACTTCACCAAGTTACAGCCCC
* * * * * *
93957 ACATCCCCAAGTTACAGTCCCACTTCCCCAAGTTACAGTCCC
1 ACCTCTCCAAGCTACAGTCCAACTTCACCAAGTTACAGCCCC
* *
93999 ACCTCTCCAAGCTATAGTCCAACTTCACCTAGTTACAGCCCC
1 ACCTCTCCAAGCTACAGTCCAACTTCACCAAGTTACAGCCCC
94041 AC
1 AC
94043 TTCACCTGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.27, C:0.42, G:0.10, T:0.21
Consensus pattern (42 bp):
ACCTCTCCAAGCTACAGTCCAACTTCACCAAGTTACAGCCCC
Found at i:94046 original size:21 final size:21
Alignment explanation
Indices: 93921--94090 Score: 105
Period size: 21 Copynumber: 8.1 Consensus size: 21
93911 TCCGACCTCT
* * * *
93921 CCAAGCTACAGCCCTACATCG
1 CCAAGTTACAGCCCAACTTCA
* * *
93942 CCAAGTTACAGCCCTACATCC
1 CCAAGTTACAGCCCAACTTCA
*
93963 CCAAGTTACAGTCCC-ACTTCC
1 CCAAGTTACAG-CCCAACTTCA
* *
93984 CCAAGTTACAGTCCC-ACCTCT
1 CCAAGTTACAG-CCCAACTTCA
* * *
94005 CCAAGCTATAGTCCAACTTCA
1 CCAAGTTACAGCCCAACTTCA
* *
94026 CCTAGTTACAGCCCCACTTCA
1 CCAAGTTACAGCCCAACTTCA
* *
94047 CC-TGTATATAGCCCAACTTCA
1 CCAAGT-TACAGCCCAACTTCA
* *
94068 CC-TGCATACAGCCCAACTTCA
1 CCAAG-TTACAGCCCAACTTCA
94089 CC
1 CC
94091 TGCCTATAGT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
20 4 0.03
21 118 0.94
22 3 0.02
ACGTcount: A:0.27, C:0.41, G:0.10, T:0.22
Consensus pattern (21 bp):
CCAAGTTACAGCCCAACTTCA
Found at i:94057 original size:42 final size:42
Alignment explanation
Indices: 94011--94175 Score: 138
Period size: 42 Copynumber: 3.9 Consensus size: 42
94001 CTCTCCAAGC
* * *
94011 TATAGTCCAACTTCACCTAG-TTACAGCCCCACTTCACCTGTA
1 TATAGTCCAACTTCACCT-GCATACAGCCCAACTTCACCTGCA
* *
94053 TATAGCCCAACTTCACCTGCATACAGCCCAACTTCACCTGCC
1 TATAGTCCAACTTCACCTGCATACAGCCCAACTTCACCTGCA
* * * *
94095 TATAGTCCCACTTCTCCAT-CATACAGCCCAACATCCCCAT-CA
1 TATAGTCCAACTTCACC-TGCATACAGCCCAACTTCACC-TGCA
* * * * * * *
94137 TACAGTCCAACGTCTCCTTCTTACAGCCCGACCTCACCT
1 TATAGTCCAACTTCACCTGCATACAGCCCAACTTCACCT
94176 TCCTATAGCC
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
41 3 0.03
42 96 0.95
43 2 0.02
ACGTcount: A:0.25, C:0.41, G:0.08, T:0.25
Consensus pattern (42 bp):
TATAGTCCAACTTCACCTGCATACAGCCCAACTTCACCTGCA
Found at i:94091 original size:21 final size:21
Alignment explanation
Indices: 94017--94175 Score: 110
Period size: 21 Copynumber: 7.6 Consensus size: 21
94007 AAGCTATAGT
*
94017 CCAACTTCACCTAG-TTACAGC
1 CCAACTTCACCT-GCATACAGC
* * *
94038 CCCACTTCACCTGTATATAGC
1 CCAACTTCACCTGCATACAGC
94059 CCAACTTCACCTGCATACAGC
1 CCAACTTCACCTGCATACAGC
* *
94080 CCAACTTCACCTGCCTATAGTC
1 CCAACTTCACCTGCATACAG-C
*
94102 CC-ACTTCTCCAT-CATACAGC
1 CCAACTTCACC-TGCATACAGC
* * *
94122 CCAACATCCCCAT-CATACAGT
1 CCAACTTCACC-TGCATACAGC
* * * *
94143 CCAACGTCTCCTTCTTACAGC
1 CCAACTTCACCTGCATACAGC
* *
94164 CCGACCTCACCT
1 CCAACTTCACCT
94176 TCCTATAGCC
Statistics
Matches: 112, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.04
21 103 0.92
22 4 0.04
ACGTcount: A:0.25, C:0.43, G:0.08, T:0.24
Consensus pattern (21 bp):
CCAACTTCACCTGCATACAGC
Found at i:94139 original size:63 final size:62
Alignment explanation
Indices: 94072--94238 Score: 163
Period size: 63 Copynumber: 2.6 Consensus size: 62
94062 ACTTCACCTG
* *
94072 CATACAGCCCAACTTCACCTGCCTATAGTCCCACTTCTCCATCATACAGCCCAACATCCCCAT
1 CATACAGTCCAACTTCTCCTGCCTATAG-CCCACTTCTCCATCATACAGCCCAACATCCCCAT
* * * * * * * * * * * *
94135 CATACAGTCCAACGTCTCCTTCTTACAGCCCGACCTCACCTTCCTATAGCCCCACGTCTCCAT
1 CATACAGTCCAACTTCTCCTGCCTATAGCCC-ACTTCTCCATCATACAGCCCAACATCCCCAT
* *
94198 CATACAGTCCTACTTCTCCAGCCTATAGCCCCACTTCTCCA
1 CATACAGTCCAACTTCTCCTGCCTATAG-CCCACTTCTCCA
94239 GGGTACAGTC
Statistics
Matches: 79, Mismatches: 23, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
62 3 0.04
63 73 0.92
64 3 0.04
ACGTcount: A:0.23, C:0.44, G:0.08, T:0.25
Consensus pattern (62 bp):
CATACAGTCCAACTTCTCCTGCCTATAGCCCACTTCTCCATCATACAGCCCAACATCCCCAT
Found at i:94192 original size:42 final size:42
Alignment explanation
Indices: 94032--94238 Score: 155
Period size: 42 Copynumber: 4.9 Consensus size: 42
94022 TTCACCTAGT
* * ** * * *
94032 TACAGCCCCACTTCACCTGTATATAGCCCAACTTCACC-TGCA
1 TACAGCCCAACTTCACCAGCCTATAGCCCCACGTCTCCAT-CA
* * *
94074 TACAGCCCAACTTCACCTGCCTATAGTCCCACTTCTCCATCA
1 TACAGCCCAACTTCACCAGCCTATAGCCCCACGTCTCCATCA
* * * * * * * * *
94116 TACAGCCCAACATCCCCATCATACAGTCCAACGTCTCCTTCT
1 TACAGCCCAACTTCACCAGCCTATAGCCCCACGTCTCCATCA
* * **
94158 TACAGCCCGACCTCACCTTCCTATAGCCCCACGTCTCCATCA
1 TACAGCCCAACTTCACCAGCCTATAGCCCCACGTCTCCATCA
* * * *
94200 TACAGTCCTACTTCTCCAGCCTATAGCCCCACTTCTCCA
1 TACAGCCCAACTTCACCAGCCTATAGCCCCACGTCTCCA
94239 GGGTACAGTC
Statistics
Matches: 131, Mismatches: 33, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
42 130 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.43, G:0.08, T:0.25
Consensus pattern (42 bp):
TACAGCCCAACTTCACCAGCCTATAGCCCCACGTCTCCATCA
Found at i:94217 original size:21 final size:21
Alignment explanation
Indices: 94107--94204 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 21
94097 TAGTCCCACT
*
94107 TCTCCATCATACAGCCCAACA
1 TCTCCATCATACAGCCCAACG
* *
94128 TCCCCATCATACAGTCCAACG
1 TCTCCATCATACAGCCCAACG
* * * *
94149 TCTCCTTCTTACAGCCCGACC
1 TCTCCATCATACAGCCCAACG
* * * * *
94170 TCACCTTCCTATAGCCCCACG
1 TCTCCATCATACAGCCCAACG
94191 TCTCCATCATACAG
1 TCTCCATCATACAG
94205 TCCTACTTCT
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.24, C:0.44, G:0.08, T:0.23
Consensus pattern (21 bp):
TCTCCATCATACAGCCCAACG
Found at i:94233 original size:21 final size:21
Alignment explanation
Indices: 94177--94239 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
94167 ACCTCACCTT
* *
94177 CCTATAGCCCCACGTCTCCAT
1 CCTATAGCCCCACTTCTCCAG
* * * *
94198 CATACAGTCCTACTTCTCCAG
1 CCTATAGCCCCACTTCTCCAG
94219 CCTATAGCCCCACTTCTCCAG
1 CCTATAGCCCCACTTCTCCAG
94240 GGTACAGTCC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.21, C:0.44, G:0.10, T:0.25
Consensus pattern (21 bp):
CCTATAGCCCCACTTCTCCAG
Found at i:94278 original size:21 final size:21
Alignment explanation
Indices: 94245--94306 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
94235 TCCAGGGTAC
*
94245 AGTCCAACCTCACCAAGTTAT
1 AGTCCAACATCACCAAGTTAT
* *
94266 AGTCCGACATCACCAAGCTAT
1 AGTCCAACATCACCAAGTTAT
* * *
94287 AGTCCTACTTCTCCAAGTTA
1 AGTCCAACATCACCAAGTTA
94307 CAATCCACAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.31, C:0.32, G:0.11, T:0.26
Consensus pattern (21 bp):
AGTCCAACATCACCAAGTTAT
Found at i:94604 original size:21 final size:21
Alignment explanation
Indices: 94571--94611 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
94561 TAATTGCAGC
94571 CCAACATCACCATCATATTCA
1 CCAACATCACCATCATATTCA
* * *
94592 CCAACTTCTCCATCTTATTC
1 CCAACATCACCATCATATTC
94612 CCCTTCCAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (21 bp):
CCAACATCACCATCATATTCA
Found at i:98216 original size:1 final size:1
Alignment explanation
Indices: 98210--98237 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
98200 TGGTTCTTGC
98210 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
98238 CTGCAGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:105927 original size:12 final size:12
Alignment explanation
Indices: 105910--105962 Score: 88
Period size: 12 Copynumber: 4.4 Consensus size: 12
105900 GGGAAAAGGT
105910 CGTGGTGGGGAC
1 CGTGGTGGGGAC
105922 CGTGGTGGGGAC
1 CGTGGTGGGGAC
105934 CGTGGTGGGGAC
1 CGTGGTGGGGAC
* *
105946 CGTGGCGGTGAC
1 CGTGGTGGGGAC
105958 CGTGG
1 CGTGG
105963 CAGGTATCGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.08, C:0.19, G:0.57, T:0.17
Consensus pattern (12 bp):
CGTGGTGGGGAC
Found at i:118217 original size:15 final size:15
Alignment explanation
Indices: 118197--118228 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
118187 GCGTCCATAT
118197 GAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAA
*
118212 GAAAAAAAAAAAGAA
1 GAAAAAAAAAAAAAA
118227 GA
1 GA
118229 GAGAGAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAAAAA
Found at i:118218 original size:12 final size:12
Alignment explanation
Indices: 118201--118226 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
118191 CCATATGAAA
118201 AAAAAAAAAAAG
1 AAAAAAAAAAAG
118213 AAAAAAAAAAAG
1 AAAAAAAAAAAG
118225 AA
1 AA
118227 GAGAGAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:135546 original size:15 final size:14
Alignment explanation
Indices: 135522--135560 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
135512 AAAGTATTAG
135522 ATAATTTTTTTATA
1 ATAATTTTTTTATA
135536 ATAATTTTTTTATA
1 ATAATTTTTTTATA
* *
135550 TTTATTTTTTT
1 ATAATTTTTTT
135561 TATCTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATAATTTTTTTATA
Found at i:135561 original size:15 final size:15
Alignment explanation
Indices: 135526--135569 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
135516 TATTAGATAA
* *
135526 TTTTTTTATA-ATAA
1 TTTTTTTATATTTAT
135540 TTTTTTTATATTTAT
1 TTTTTTTATATTTAT
*
135555 TTTTTTTATCTTTAT
1 TTTTTTTATATTTAT
135570 AATCGATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTTATATTTAT
Found at i:135768 original size:265 final size:265
Alignment explanation
Indices: 135295--135779 Score: 871
Period size: 265 Copynumber: 1.8 Consensus size: 265
135285 TTTTGCATAG
*
135295 TTATCTTTATAATCGATTCATTTTATAGTTTTTTTTATAGCATATAAATATCGGAAGTATAAAAA
1 TTATCTTTATAATCGATTCATTTTATAGTTTTTTTTATAGCATATAAACATCGGAAGTATAAAAA
135360 AGATATAAGTAAAATATATAGTTGTTGGTGTTTTTTTAAGTGATTATTTGTAGTAAGTTAGGAGA
66 AGATATAAGTAAAATATATAGTTGTTGGTGTTTTTTTAAGTGATTATTTGTAGTAAGTTAGGAGA
*
135425 CTGAGATCACACTTGATAGAAAATAGAACTTTAGCACATTCTTATATTACATGAGAAGTCTCGAC
131 CTGAGATCACACTTGACAGAAAATAGAACTTTAGCACATTCTTATATTACATGAGAAGTCTCGAC
135490 AAAAGAAAAAATATTACTGGACAAAGTATTAGATAATTTTTTTATAATAATTTTTTTATATTTAT
196 AAAAGAAAAAATATTACTGGACAAAGTATTAGATAATTTTTTTATAATAATTTTTTTATATTTAT
135555 TTTTT
261 TTTTT
*
135560 TTATCTTTATAATCGATTCATTTTATAGTTTTTTTTATAGGATATAAACATCGGAAGTATAAAAA
1 TTATCTTTATAATCGATTCATTTTATAGTTTTTTTTATAGCATATAAACATCGGAAGTATAAAAA
* *
135625 AGATATAAGTAAAATATTTAGTTGTTGGTGTTTTTTTAAGTGATTATTTGTAGTAAGTTGGGAGA
66 AGATATAAGTAAAATATATAGTTGTTGGTGTTTTTTTAAGTGATTATTTGTAGTAAGTTAGGAGA
* * * * *
135690 CTGAGATCACACTTGACAGAAAATAGAATTTTAGCACATTCTTATATTACATGGGGAGTTTGGAC
131 CTGAGATCACACTTGACAGAAAATAGAACTTTAGCACATTCTTATATTACATGAGAAGTCTCGAC
*
135755 AAAAGAAAAAATATTGCTGGACAAA
196 AAAAGAAAAAATATTACTGGACAAA
135780 AGAAAATTTT
Statistics
Matches: 209, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
265 209 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (265 bp):
TTATCTTTATAATCGATTCATTTTATAGTTTTTTTTATAGCATATAAACATCGGAAGTATAAAAA
AGATATAAGTAAAATATATAGTTGTTGGTGTTTTTTTAAGTGATTATTTGTAGTAAGTTAGGAGA
CTGAGATCACACTTGACAGAAAATAGAACTTTAGCACATTCTTATATTACATGAGAAGTCTCGAC
AAAAGAAAAAATATTACTGGACAAAGTATTAGATAATTTTTTTATAATAATTTTTTTATATTTAT
TTTTT
Found at i:135952 original size:12 final size:13
Alignment explanation
Indices: 135926--135958 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
135916 TAAATATATT
135926 ACAAACTAAACAA
1 ACAAACTAAACAA
*
135939 ACAAA-TAAATAA
1 ACAAACTAAACAA
135951 ACAAACTA
1 ACAAACTA
135959 TTAAACCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (13 bp):
ACAAACTAAACAA
Found at i:136664 original size:31 final size:31
Alignment explanation
Indices: 136562--136730 Score: 107
Period size: 31 Copynumber: 5.6 Consensus size: 31
136552 TTTGGCTAAT
*
136562 TGCTCAAATAAGGGCCTAATGTTTGCCAAAA
1 TGCTCAAATAAGGGCCTGATGTTTGCCAAAA
* ** * * * **
136593 TGCTTAAACGAGGGCATGATCTTT--TAATT
1 TGCTCAAATAAGGGCCTGATGTTTGCCAAAA
*
136622 TGGC-CAAATAAGGGACTGATGTTTGCCAAAA
1 T-GCTCAAATAAGGGCCTGATGTTTGCCAAAA
* * * * **
136653 TGCTCAAATAAGAGCCCGATCTTT--TAATT
1 TGCTCAAATAAGGGCCTGATGTTTGCCAAAA
* * *
136682 TGGC-CAAATAAGGGTCTAACGTTTGCCAAAA
1 T-GCTCAAATAAGGGCCTGATGTTTGCCAAAA
136713 TGCTCAAATAAGGGCCTG
1 TGCTCAAATAAGGGCCTG
136731 GCATCGAAAA
Statistics
Matches: 94, Mismatches: 36, Indels: 16
0.64 0.25 0.11
Matches are distributed among these distances:
29 34 0.36
30 8 0.09
31 52 0.55
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (31 bp):
TGCTCAAATAAGGGCCTGATGTTTGCCAAAA
Found at i:136721 original size:60 final size:60
Alignment explanation
Indices: 136566--136724 Score: 228
Period size: 60 Copynumber: 2.6 Consensus size: 60
136556 GCTAATTGCT
* * ** * *
136566 CAAATAAGGGCCTAATGTTTGCCAAAATGCTTAAACGAGGGCATGATCTTTTAATTTGGC
1 CAAATAAGGGACTAATGTTTGCCAAAATGCTCAAATAAGAGCACGATCTTTTAATTTGGC
* *
136626 CAAATAAGGGACTGATGTTTGCCAAAATGCTCAAATAAGAGCCCGATCTTTTAATTTGGC
1 CAAATAAGGGACTAATGTTTGCCAAAATGCTCAAATAAGAGCACGATCTTTTAATTTGGC
* *
136686 CAAATAAGGGTCTAACGTTTGCCAAAATGCTCAAATAAG
1 CAAATAAGGGACTAATGTTTGCCAAAATGCTCAAATAAG
136725 GGCCTGGCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 88 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (60 bp):
CAAATAAGGGACTAATGTTTGCCAAAATGCTCAAATAAGAGCACGATCTTTTAATTTGGC
Found at i:136860 original size:60 final size:60
Alignment explanation
Indices: 136767--136927 Score: 236
Period size: 60 Copynumber: 2.7 Consensus size: 60
136757 AAACTGACGC
*
136767 CAGACCCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGAT
1 CAGACCCTTATTTGAGCATTTTAGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGAT
* *
136827 CAGACCCTTATTTGAAG-ATTTTAGATAACGTTAGGTCTTTATTTGGCCAAATTAAAAGAT
1 CAGACCCTTATTTG-AGCATTTTAGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGAT
* * *
136887 CGGACCCTTATTTGAGCATTTTGGCA-AACGTTAGGCTCTTA
1 CAGACCCTTATTTGAGCATTTTAG-ATAACGTTAGGCCCTTA
136928 ATTGAGCAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
59 2 0.02
60 85 0.94
61 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (60 bp):
CAGACCCTTATTTGAGCATTTTAGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAGAT
Found at i:136900 original size:29 final size:29
Alignment explanation
Indices: 136802--136900 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 29
136792 TAACGTTAGG
*
136802 CCCTTATTTGGCCAAATTAAAAGATCAGA
1 CCCTTATTTGGCCAAATTAAAAGATCGGA
*** ** * *
136831 CCCTTATTTGAAGATTTTAGATAACGTTAGG-
1 CCCTTATTTGGCCAAATTA-A-AA-GATCGGA
* *
136862 TCTTTATTTGGCCAAATTAAAAGATCGGA
1 CCCTTATTTGGCCAAATTAAAAGATCGGA
136891 CCCTTATTTG
1 CCCTTATTTG
136901 AGCATTTTGG
Statistics
Matches: 47, Mismatches: 19, Indels: 8
0.64 0.26 0.11
Matches are distributed among these distances:
28 4 0.09
29 24 0.51
30 2 0.04
31 14 0.30
32 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (29 bp):
CCCTTATTTGGCCAAATTAAAAGATCGGA
Found at i:156450 original size:338 final size:332
Alignment explanation
Indices: 155842--156780 Score: 1196
Period size: 338 Copynumber: 2.8 Consensus size: 332
155832 TTTTTTTTCT
*
155842 CGTGAAAAACCCTTCAATGTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAA
1 CGTGAAAAACCCTTCAATGTTTTTGTTG-TGAATTATATATTTTTTATGAGTATTGTGGCCAAAA
* * * * * *
155907 ATTGATGAATAATTTTTTCGGTTCAGTTTTTGCAAAATTTGAACCGGAATCGTGTAC---CCATC
65 ATTGACGAAAAATTTTTTCGGGTAAGTTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATC
** *
155969 ACAGTTTTCTGCTAAAAACGCGTTCCGGGGCATCAGCTCAGTTTTGCATGATTTTTGGCGCCGAG
130 ACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAG
* * ** * * **
156034 ACTGCTTCAAATATCAAAATTCATCTAATCAAATCTCAGGCACATTGTCTTTAAGGATATGTTTT
195 ACTCCTTGAAATATTTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATG-TTT
* *
156099 TACGAGAATCTGAATCTTGTTTCGATTTAATA-AAAAATTAATTTGGAAAAAAAT-GGAAAAAGG
259 TACGAGCATCTGAATCTTGTTTCGATTT-ATACAAAAATTAATTTGGAAAAAAATAGGAAAAACG
156162 ATATTAGAAA
323 ATATTAGAAA
* * * * *
156172 CGTGAAAATCCCTTCAATATTTTTGTTGTACAATTATATATTTTTTAATTAGTATTGTGTCCAAA
1 CGTGAAAAACCCTTCAATGTTTTTGTTGT-GAATTATATATTTTTT-ATGAGTATTGTGGCCAAA
** * *
156237 AATTGA-GAAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCAT
64 AATTGACGAAAAATTTTTTCGGGTAAGTTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCAT
* * * * *
156301 CACGATTTTTTTTTTTTCAAAAAAACGCGTTCC-GGGCCCCGGCTCTGTTTTGCATGATTTTTGG
129 CAC-A----GTTTTCTGC-TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGG
* * * *
156365 CGACGAGACTCCTTGAAATATTTATTTTTATCTAATCAAATCTCAGCCATATTGGATTTAAGGAT
188 CGCCGAGACTCCTTGAAATATTTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGAT
156430 ATGCTTTTACGAGCATCTGAATCTTGTTTCGATTTATACAAAAATTAATTTGGAAAAAAATAGGA
253 ATG-TTTTACGAGCATCTGAATCTTGTTTCGATTTATACAAAAATTAATTTGGAAAAAAATAGGA
*
156495 AAAACGATATTAGAAG
317 AAAACGATATTAGAAA
* * * * *
156511 TGTGAAAAGCCTTTCAATGTTTTTGGATT-TGAATTATATATTTTTTATGAATATTGTGGCAAAA
1 CGTGAAAAACCCTTCAATGTTTTT-G-TTGTGAATTATATATTTTTTATGAGTATTGTGGCCAAA
*
156575 AACTGACGAAAAATTTTTTCGGGTCAA-TTTTTG-AAAATTTTGAACCGAAATCGTGTACTAACC
64 AATTGACGAAAAATTTTTTCGGGT-AAGTTTTTGCAAAATTTT-AACCGAAATCGTGTACTAACC
**
156638 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTATATGATTTTTGGCGCC
127 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * * *
156703 GGGACTCCTTGAAATATTTATATTCATCTAATCAAATATCAGCCACGTTGGATTTAAGGATTTGT
192 GAGACTCCTTGAAATATTTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
156768 TTTCACGAGCATC
257 TTT-ACGAGCATC
156781 GAAATTAATC
Statistics
Matches: 521, Mismatches: 68, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
329 1 0.00
330 82 0.16
331 22 0.04
333 24 0.05
334 104 0.20
337 3 0.01
338 169 0.32
339 110 0.21
340 4 0.01
341 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (332 bp):
CGTGAAAAACCCTTCAATGTTTTTGTTGTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAA
TTGACGAAAAATTTTTTCGGGTAAGTTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCA
CAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAGA
CTCCTTGAAATATTTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGTTTTA
CGAGCATCTGAATCTTGTTTCGATTTATACAAAAATTAATTTGGAAAAAAATAGGAAAAACGATA
TTAGAAA
Found at i:156899 original size:123 final size:123
Alignment explanation
Indices: 156677--156903 Score: 337
Period size: 123 Copynumber: 1.8 Consensus size: 123
156667 GGGGCCCCGG
* * * *
156677 CTCAGTTTTATATGATTTTTGGCGCCGGGACTCCTTGAAATATTTATATTCATCTAATCAAATAT
1 CTCAGTTTTACATGATTTTTGGCGACGAGACTCCTTGAAATATCTATATTCATCTAATCAAATAT
* * *
156742 CAGCCACGTTGGATTTAAGGATTTGTTTTCACGAGCATCGAAATTAATCTAGTCAAAT
66 CAGCCACATTGGATTTAAGGATATATTTTCACGAGCATCGAAATTAATCTAGTCAAAT
* * * *
156800 CTCAGTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATATCTATATTTATCTAATCAAATCT
1 CTCAGTTTTACATGATTTTTGGCGACGAGACTCCTTGAAATATCTATATTCATCTAATCAAATAT
* *
156865 CAGTCACATTGGATTTAAGGATATATTTTTACGAGCATC
66 CAGCCACATTGGATTTAAGGATATATTTTCACGAGCATC
156904 TGAATTTTGT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
123 91 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (123 bp):
CTCAGTTTTACATGATTTTTGGCGACGAGACTCCTTGAAATATCTATATTCATCTAATCAAATAT
CAGCCACATTGGATTTAAGGATATATTTTCACGAGCATCGAAATTAATCTAGTCAAAT
Found at i:157826 original size:332 final size:331
Alignment explanation
Indices: 156804--158048 Score: 1639
Period size: 332 Copynumber: 3.8 Consensus size: 331
156794 TCAAATCTCA
* * *
156804 GTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATATCTATATTTATCTAATCAAATCTCAGT
1 GTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGC
* *
156869 CACATTGGATTTAAGGATATATTTTTACGAGCATCTGAATTTTGTTTCGATTTAATCATAAATTA
66 CACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATCAAAAATTA
* *
156934 ATTTGGAAAAAATAGGAAATACGATATTAGAAGCCTGAAAAGCCCTTCAATGTTTTTGGTGTTGA
131 ATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGTGTTGA
* * * * *
156999 ATTATATATTTTTTATGAGTATTTTGGCAAAAAATTGATGAAAAGTTTTTCGGTTCAGTTTTTGC
196 ATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTCGGGTCAGTTTTTGC
* * * * * * *
157064 AAAATTTTAGCCGAAATCATGTACCAACCATAATG-ATTTTTGCCAAAAAAACGCATTCCAGGCC
261 AAAATTTTAACCGAAATCGTGTACTAACCATCA-GAATTTTT-CCATAAAAACGCGTTCCGGGCC
** *
157128 ATGGCTAT
324 CCGGCTCT
* * *
157136 GTTTTGCATGATTTTTGGCGCTGAGACTCCTTGAAATATTTATATTCATCTAATCAAGTATCAGC
1 GTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGC
* *
157201 CACGTTGGATTTAAGGATATGTTTTTACGAGCATC-GAAATCTTGTTTCGATTTAAT-AAAAATT
66 CACATTGGATTTAAGGATATGTTTTTACGAGCATCTG-AATTTTGTTTCGATTTAATCAAAAATT
* *
157264 AATTTCGAAAAAATAGGAAAAACGATATTAGAAGCATGAAAAGCCCTTCAATGTTTTTGGTGTTG
130 AATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGTGTTG
*
157329 AATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGACGAAGAATTTTTCGGGTCAG-TTTTG
195 AATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTCGGGTCAGTTTTTG
* * * * * * *
157393 CAAAATTTGAACCGGAATCGTTTACTAACCATCATAGTTTTCTGC-TAAAAAAGCGTTCCGCGGC
260 CAAAATTTTAACCGAAATCGTGTACTAACCATCAGAATTTT-TCCATAAAAACGCGTTCCG-GGC
* *
157457 ACCGGCTCA
323 CCCGGCTCT
** * *
157466 GTTTTGCATGATTTTTGGCGCCGAGACTCCTTTAAATTTCTATATTCATCTAATCAAATATCAGC
1 GTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGC
* *
157531 CACATAGGATTTAAGGATATGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAAAAATTA
66 CACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATCAAAAATTA
* * * * * **
157596 ATTTGGAAAAAA-ATGGAAAAACGATATTATAAACGTGAAAATCCCTTCAATATTTTTGTTGTAC
131 ATTTGGAAAAAATA-GGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGTGTTG
* * ** *
157660 AATTATATATTTTTTTATTAGTATTGTGTCCAAAAATTGA-GAAAAAAATTTCGGGTAAGTTTTT
195 AATTATATA-TTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTCGGGTCAGTTTTT
* *
157724 GTAAAATTTTAACCGAAATCGTGTACTAACCATCACGAATTTTTTCATAAAAACGCGTTCCGGGC
259 GCAAAATTTTAACCGAAATCGTGTACTAACCATCA-GAATTTTTCCATAAAAACGCGTTCCGGGC
157789 CCCGGCTCT
323 CCCGGCTCT
*
157798 GTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAAGATCTATAATT-ATCTAATCAAATCA-CA
1 GTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATATCTAT-ATTCATCTAATCAAAT-ATCA
** ** * * *
157861 ATCACATTGGATTTAAGTTTATGTTTTTACGTGCATCTAAATTTTGTGTCGATTTAATCAAAAAT
64 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATCAAAAAT
* * * * *
157926 TAATTTGGAAAAAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAAAGTTTTTCGAGTG
129 TAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGTGTT
* * *
157991 GAATTATATATTTTTTATGAG--TTATGGCCAAATATTGAGGAAAAATTTTTTCGGGTCA
194 GAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAA-TTTTTCGGGTCA
158049 AATTTTTCTG
Statistics
Matches: 794, Mismatches: 103, Indels: 33
0.85 0.11 0.04
Matches are distributed among these distances:
329 25 0.03
330 162 0.20
331 228 0.29
332 355 0.45
333 24 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (331 bp):
GTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGC
CACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATCAAAAATTA
ATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGTGTTGA
ATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTCGGGTCAGTTTTTGC
AAAATTTTAACCGAAATCGTGTACTAACCATCAGAATTTTTCCATAAAAACGCGTTCCGGGCCCC
GGCTCT
Found at i:159375 original size:333 final size:333
Alignment explanation
Indices: 158670--159627 Score: 1366
Period size: 333 Copynumber: 2.9 Consensus size: 333
158660 TTTTTCTGCT
* * ** *
158670 AAAAACGCCTTCCGGGGCCCCGGCTAAGTTTTGCATGATTTTTGGCGCCGAAACTCCTTGAAATA
1 AAAAACGCATTCC-GGGCCCCGGCTATGTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATA
* * * * *
158735 TTTATATTCATCTAATCAAATATCAGCCACATTGGATTTAAGGATATGTTTTTACGAGAATCTGA
65 TATATATTTATCTAATCAAATCTCAGTCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGA
* * * * *
158800 ATCTTATTTCGATTTATTCAAAAATTAATTTGGAACAAAATAGGAAAAACGATATTAGAAGTGTA
130 ATCTTGTTTCGATTTAATCAAAAATTAATTTGGAA-AAAATAGGAAATACGATATTAGAAGCGTG
*
158865 AAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATATTTTATGAGTATTGTGGCCAAAAATTG
194 AAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTG
* * *
158930 ACTAAAAATGTTTTCGGGTCAGTTTTTGAAAATTTTGAACCGAAATCGTGTACTAACCATCATGA
259 ACTGAAAATTTTTTCGGGTCAGTTTGTGAAAATTTTGAACCGAAATCGTGTACTAACCATCATGA
158995 TTTTTGCCAA
324 TTTTTGCCAA
* * * * *
159005 AAAAACGCGTTCCGAGCCACGACTATGTTTCGCATGATTTTTGGCGATGAGACTCCTTGAAATAT
1 AAAAACGCATTCCGGGCCCCGGCTATGTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATAT
159070 ATATATTTATCTAATCAAATCTCAGTCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAA
66 ATATATTTATCTAATCAAATCTCAGTCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAA
*
159135 TCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAACAGGAAATACGATATTAGAAGCGTGAA
131 TCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAGGAAATACGATATTAGAAGCGTGAA
* * * *
159200 AAGGCCTTCAATGTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAT
196 AAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAC
* * * *
159265 TGAAAATTTTTTCGGGTCAGTTTGTGCAAAATTTT-AGCTGAAATCTTGTACTAACCATTACT-A
261 TGAAAATTTTTTCGGGTCAGTTTGTG-AAAATTTTGAACCGAAATCGTGTACTAACCATCA-TGA
159328 TTTTTGCCAA
324 TTTTTGCCAA
* * *
159338 AAAAACGCATTCCGGGCCCCGGCTCTGTTTTGCATGATTTTTGGCGATGAGACTCCTTGTAAGAT
1 AAAAACGCATTCCGGGCCCCGGCTATGTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATAT
* * ** * * *
159403 CTATATTTATCTAATCAAATCTCAATCACATTGGATTTAAGTTTATATTTTTACGTGCATCTAAA
66 ATATATTTATCTAATCAAATCTCAGTCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAA
* * * *
159468 TCTTGTGTAGATTTAATCAAAAATTAATTTGG-AAAAATATGAAATACGATATTAGAAACGTGAA
131 TCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAGGAAATACGATATTAGAAGCGTGAA
* * * *
159532 AAGCCCTTCAATGTTTTCGGAGTGGAATTATATATTTTTTAAGAGTATTGTGGCCAAAAATTGGC
196 AAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAC
* *
159597 -GAAAAATTTTTTCGGGTCAATTTTTGAAAAT
261 TG-AAAATTTTTTCGGGTCAGTTTGTGAAAAT
159628 CACAGTTTTC
Statistics
Matches: 558, Mismatches: 62, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
331 6 0.01
332 108 0.19
333 287 0.51
334 145 0.26
335 12 0.02
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (333 bp):
AAAAACGCATTCCGGGCCCCGGCTATGTTTTGCATGATTTTTGGCGATGAGACTCCTTGAAATAT
ATATATTTATCTAATCAAATCTCAGTCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAA
TCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAGGAAATACGATATTAGAAGCGTGAA
AAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAC
TGAAAATTTTTTCGGGTCAGTTTGTGAAAATTTTGAACCGAAATCGTGTACTAACCATCATGATT
TTTGCCAA
Found at i:160473 original size:333 final size:333
Alignment explanation
Indices: 159626--163265 Score: 5010
Period size: 331 Copynumber: 10.9 Consensus size: 333
159616 ATTTTTGAAA
*
159626 ATCACAGTTTTCTGTTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * * * *
159691 GAGACTCCTTGAAATATTTATATTCATATAATCAAATATCAGCAACATTGGATTTAAGTATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
* *
159756 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTCGAAAAAAATAGGAAAAA
131 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTT-GGAAAAAATAGGAAAAA
* * *
159821 TGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATCTTTTATGAGTA
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTATGAGTA
* *
159886 TTGTGGCAAAAAATTGATGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATCGT
260 TTGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATCGT
159951 GTACTAACTAAC
325 GTACTAAC---C
* * * *
159963 TATCACAGTTTTCTGCTAAAAACACATTCCGGGACCCCGGCTCGGTTTTGCAATGATTTTTGGCG
1 -ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGC-ATGATTTTTGGCG
* *
160028 CTGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTAGATTTAAGGATAT
64 CCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATAT
* * *
160093 GTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAATAGGAAAT
129 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAGGAAAA
*
160158 ACGATATTAGAAGCGTGAAAAGGCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTATGAGT
194 ACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTATGAGT
160223 ATTGTGGCCAAAAATTGAAGAAAAATTTTTTTCGGGTCAGTTTTTG-AAAATTGTGAACCGAAAT
259 ATTGTGGCCAAAAATTGAAGAAAAA-TTTTTTCGGGTCAGTTTTTGCAAAATT-TGAACCGAAAT
160287 CGTGTACTAACC
322 CGTGTACTAACC
* * *
160299 ATCACAGTTTTGT-CTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTAGGCGCC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * *
160363 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGTCACGTTGGATTTAAGGATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
* * *
160428 TTTTACGAGCATCTGAATCTTGTTTCGATTTATTCAAAAATTAATTTCGAAAAAAATAGGAAATA
131 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTT-GGAAAAAATAGGAAAAA
160493 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGG-TGTTGAATTATATATTTTTTATGAGT
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAT-TTGAATTATATATTTTTTATGAGT
* * * *
160557 ATTGTGGCCAAAAATTGATGAATAATTTTTTCGGTTCAGTTTTTGCAAAATTTGAACCGGAATCG
259 ATTGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATCG
160622 TGT--T-ACC
324 TGTACTAACC
* *
160629 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
*
160694 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGCTTTAAGGATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
* * *
160759 TTTTACGAGAATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAAAATGGAAAAA
131 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATA-GGAAAAA
* * * * *
160824 CGATATTAGAAACGTGAAAATCCCTTCAATATTTTT-G-TTGTACAATTATATATTTTTTTATTA
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATT-T-GAATTATATA-TTTTTTATGA
* ** * * *
160887 GTATTGTGTCCAAAAATTG-AGAAAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTTAGCCGAAA
257 GTATTGTGGCCAAAAATTGAAG-AAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAA
*
160951 TCATGTACTAACC
321 TCGTGTACTAACC
* * * * * *
160964 ATCACGAATTTTTTTCAAAAAAACGCGTTCC-GGGCCCCAGCTCTGTTTTGCATGATTTTTGGCG
1 ATCAC-AGTTTTCTGC-TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCG
* * * * *
161028 ACGAGACTCCTTGAAATATCCATATTTATCTAATTAAATCTCAGCCATATTGGATTTAAGGATAT
64 CCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATAT
*
161093 GCTTTTACGAGCATCTGAATCTTGTTTCGATTT-ATACAAAAATTAATTTGGAAAAAAATAGGAA
129 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT-CAAAAATTAATTTGG-AAAAAATAGGAA
* *
161157 AAACGATATTAGAAGTGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGA
192 AAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTATGA
* * *
161222 GTATTGTGGCCAAAAACTGACGAAAAA-TTTTTCGGGTCAATTTTTG-AAAATTTTGAACCGAAA
257 GTATTGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTGCAAAA-TTTGAACCGAAA
161285 TCGTGTACTAACC
321 TCGTGTACTAACC
* *
161298 ATCACAGTTTTCTGCTAAAAACGCATTCCGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * ** *
161363 GAGACTCCTTGAAATAT-TAATATTCATCTAATCAAATATCAGCCACGTTGGCCTTAAGAATATG
66 GAGACTCCTTGAAATATCT-ATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATG
* * *
161427 TTTTTACGAGAATCTAAATCTTGTTTCGATTTAAT-AAAAAATAATTTGGAAAAAATAGGAAAAA
130 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAGGAAAAA
* * * * * *
161491 CCATATTAGAAGCGTGTAAATCCCTTCAATATTTTT--ATTGTACAATTATATATTTTTTTATTA
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATT-T-GAATTATATA-TTTTTTATGA
* ** * * *
161554 GTATTGTGTCCAAAAATTG-AGAAAAAAAATTTT--GGTTAGTTTTTGCAAAATTTGAACTGGAA
257 GTATTGTGGCCAAAAATTGAAG-AAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAA
*
161616 TCGTGTTCTAACTC
321 TCGTGTACTAAC-C
* * * * * * *
161630 -TCACGATTTTTTTCCAAAAAACGCGTTAC-GGGCCCCGGCTCAGTTTTGCATGATTTTTGACGA
1 ATCAC-AGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGC
* * * *
161693 CGAGACTCCTTGAAATATCCATATTTATCTAATCGAATCTCAGCCATATTGGATTTAAGGATATG
65 CGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATG
* *
161758 CTTTTACGAGCATCTGAATCATGTTTCGATTT-ATACAAAAATTAATTTGGAAAAAATAGGAAAA
130 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT-CAAAAATTAATTTGGAAAAAATAGGAAAA
** * * * *
161822 ACGATATTAGAATTGTGAAAAGTCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATTATT
194 ACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTATGAGT
* * *
161887 ATTGTGGCCAAAAATTGACA-AAAAA-ATTTTCGGGTCAATTTTTG-AAAATTTTAACCGAAATC
259 ATTGTGGCCAAAAATTGA-AGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATC
161949 GTGTACTAACCC
323 GTGTACTAA-CC
* * * * *
161961 ATCACAATTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAATTTTGCATAAATTTTGGCGCG
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
162026 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
* *
162091 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTT-GAAAAAGTAGGAAATAC
131 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAGGAAAAAC
*
162155 GATATTAGATGCGTGAAAAGCCCTTCAATGTTTTTGG-TGTTGAATTATATATTTTTTATGAGTA
196 GATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAT-TTGAATTATATATTTTTTATGAGTA
* * * * * * *
162219 TTGTGGCCAAAAATTCATGAAAAATATTTTCGGGTCAGTTTTAGCAAAATTTTAGCCGAAATCAT
260 TTGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATCGT
162284 -TAACTAACC
325 GT-ACTAACC
* * * * *
162293 ATAAC-GATTTT-TGCCAAAAAAAAAAACGCGTTCC-GGGCCCCGGCTCTGTTTTCCATTATTTT
1 ATCACAG-TTTTCTG-C-----TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTT
** * *
162355 TGGCGATGAGACTCCTTGAAATATCTATATTTACCTAATCAAATCTCAGCCACATTGGATTTAAG
59 TGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAG
** * *
162420 TTTATGTTTTTACGTGCATCTAAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAG
124 GATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAG
* * *
162485 GAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTCGAGTTGAATTATATA-TTTTTA
189 GAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTA
* * *
162549 TGAGTATTGTGGCCAAAAATTGAAGAAGAATTTTTTCAGGTCAGTTTTTGCAAAATTTGAACCGG
254 TGAGTATTGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGA
*
162614 AATCGTTTACTAACC
319 AATCGTGTACTAACC
* * *
162629 ATCACAGTTTTCTGCTAAGAACGCGTTCCGAGGCACCGGCTCAGTTTTGCATGATTTTTGGCGCC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * * *
162694 GGGTCTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGCTTTAAGGATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
* * *
162759 TTTTACGAGAATCTAAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAA-ATGGAAAAA
131 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATA-GGAAAAA
* *
162823 CGATATTAGAAGCGTGAAAAGCCTTTCAATGTTTATGG-TGTTGAATTATATATTTTTTATGAGT
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAT-TTGAATTATATATTTTTTATGAGT
* * * *
162887 ATTGTGGCCAAAAATAGATGAAGAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGGAATCG
259 ATTGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATCG
162952 TGTACTAACC
324 TGTACTAACC
* *
162962 ATCACAGTTTTCTGCTAAGAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGCC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * *
163027 GAGACTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCATATTGGATTTAAGGATATGC
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
* * *
163092 TTTCACGAGCATCTGAATCTTGTTTTGATTTAATCAAAAATGAATTTGGAAAAAAATAGGAAAAA
131 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGG-AAAAAATAGGAAAAA
* * * *
163157 CGATATTAGAAGTGTGAAAAGCCCTTCAATGTTGTTGGAGTTGAATTATATATTTTTAATGAGTA
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTATGAGTA
* * * *
163222 TTGTGGCCAAAAATTGACGAAAATTTTTTTCGGTTCAATTTTTG
260 TTGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTG
163266 GAGCCGAGCC
Statistics
Matches: 2930, Mismatches: 301, Indels: 146
0.87 0.09 0.04
Matches are distributed among these distances:
329 3 0.00
330 34 0.01
331 589 0.20
332 577 0.20
333 558 0.19
334 294 0.10
335 54 0.02
336 408 0.14
337 102 0.03
338 150 0.05
339 161 0.05
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (333 bp):
ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
TTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATAGGAAAAAC
GATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGATTTGAATTATATATTTTTTATGAGTAT
TGTGGCCAAAAATTGAAGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATCGTG
TACTAACC
Found at i:161318 original size:1000 final size:995
Alignment explanation
Indices: 159626--163265 Score: 5188
Period size: 1000 Copynumber: 3.6 Consensus size: 995
159616 ATTTTTGAAA
* *
159626 ATCACAGTTTTCTGTTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * * * *
159691 GAGACTCCTTGAAATATTTATATTCATATAATCAAATATCAGCAACATTGGATTTAAGTATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
* *
159756 TTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTCGAAAAAAATAGGAAAAA
131 TTTTACGAGAATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAAAT-GGAAAAA
* *
159821 TGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATCTTTTATGAGTA
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTA
* ** *
159886 TTGTGGCAAAAAATTGATGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGAAATCGT
260 TTGTGGCCAAAAATTGATGAAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTGAACCGAAATCGT
* * * * *
159951 GTACTAACTAACTATCACAGTTTTCTGCTAAAAACACATTCCGGGACCCCGGCTCGGTTTTGCAA
325 GTACTAAC---C-ATCACAATTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGC-A
* *
160016 TGATTTTTGGCGCTGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTAG
385 TGATTTTTGGCGCGGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGG
* * *
160081 ATTTAAGGATATGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAA
450 ATTTAAGGATATGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAA
* * *
160146 AAAATAGGAAATACGATATTAGAAGCGTGAAAAGGCCTTCAATGTTTTTGGATTTGAATTATATA
515 AAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATA
* * *
160211 TTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATTTTTTTCGGGTCAGTTTTTGAAAATTG
580 TTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAA--TTTTTCGGGTCAATTTTTGAAAATTT
*
160276 TGAACCGAAATCGTGTACTAACCATCACAG-TTTTGTCTAAAAACGCGTTCCGGGGCCCCGACTC
643 TGAACCGAAATCGTGTACTAACCATCACAGTTTTTG-CTAAAAACGCGTTCCGGGGCCCCGGCTC
*
160340 AGTTTTGCATGATTTTAGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAG
707 AGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAG
* * * *
160405 TCACGTTGGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTATTCAAAAATT
772 CCACGTTGGATTTAAGAATATGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAAAAATT
* *
160470 AATTTCGAAAAAAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGTGTT
837 AATTT-GGAAAAAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTAGTGTT
*
160535 GAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGATGAATAATTTTTTCGGTTCAGTTTT
901 GAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGA-GAAAAATTTTTTCGGTTCAGTTTT
160600 TGCAAAATTTGAACCGGAATCGTGT-T-ACC
965 TGCAAAATTTGAACCGGAATCGTGTCTAACC
*
160629 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGCC
*
160694 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGCTTTAAGGATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
160759 TTTTACGAGAATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAAAATGGAAAAA
131 TTTTACGAGAATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGG-AAAAAAATGGAAAAA
* * * ** ** *
160824 CGATATTAGAAACGTGAAAATCCCTTCAATATTTTTGTTGTACAATTATATATTTTTTTATTAGT
195 CGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATA-TTTTTTATGAGT
* * *
160889 ATTGTGTCCAAAAATTGA-GAAAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTTAGCCGAAATC
259 ATTGTGGCCAAAAATTGATG-AAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTGAACCGAAATC
* * * * * *
160953 ATGTACTAACCATCACGAATTTTTTTCAAAAAAACGCGTTCC-GGGCCCCAGCTCTGTTTTGCAT
323 GTGTACTAACCATCAC-AATTTTCTGC-TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCAT
* * * *
161017 GATTTTTGGCGAC-GAGACTCCTTGAAATATCCATATTTATCTAATTAAATCTCAGCCATATTGG
386 GATTTTTGGCG-CGGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGG
161081 ATTTAAGGATATGCTTTTACGAGCATCTGAATCTTGTTTCGATTT-ATACAAAAATTAATTTGGA
450 ATTTAAGGATATGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT-CAAAAATTAATTTGG-
*
161145 AAAAAATAGGAAAAACGATATTAGAAGTGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATA
513 AAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATA
*
161210 TATTTTTTATGAGTATTGTGGCCAAAAACTGACGAAAAATTTTTCGGGTCAATTTTTGAAAATTT
578 TATTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTCGGGTCAATTTTTGAAAATTT
* *
161275 TGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCATTCCGAGGCCCCGGCTC
643 TGAACCGAAATCGTGTACTAACCATCACAGTTTT-TGCTAAAAACGCGTTCCGGGGCCCCGGCTC
161340 AGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATAT-TAATATTCATCTAATCAAATATCA
707 AGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATATCT-ATATTCATCTAATCAAATATCA
** * *
161404 GCCACGTTGGCCTTAAGAATATGTTTTTACGAGAATCTAAATCTTGTTTCGATTTAAT-AAAAAA
771 GCCACGTTGGATTTAAGAATATGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAAAAAT
* * * * * * *
161468 TAATTTGGAAAAAATAGGAAAAACCATATTAGAAGCGTGTAAATCCCTTCAATATTTTTATTGTA
836 TAATTTGGAAAAAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTAGTGTT
* * * **
161533 CAATTATATATTTTTTTATTAGTATTGTGTCCAAAAATTGAGAAAAAAAATTTT-GGTT-AGTTT
901 GAATTATATA-TTTTTTATGAGTATTGTGGCCAAAAATTGAG-AAAAATTTTTTCGGTTCAGTTT
*
161596 TTGCAAAATTTGAACTGGAATCGTGTTCTAACTC
964 TTGCAAAATTTGAACCGGAATCGTG-TCTAAC-C
* * * * * * * *
161630 -TCACGATTTTTTTCCAAAAAACGCGTTAC-GGGCCCCGGCTCAGTTTTGCATGATTTTTGACGA
1 ATCAC-AGTTTTCTGCTAAAAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGC
* * * *
161693 CGAGACTCCTTGAAATATCCATATTTATCTAATCGAATCTCAGCCATATTGGATTTAAGGATATG
65 CGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATG
* * *
161758 CTTTTACGAGCATCTGAATCATGTTTCGATTT-ATACAAAAATTAATTTGG-AAAAAATAGGAAA
130 TTTTTACGAGAATCTGAATCTTGTTTCGATTTAATA-AAAAATTAATTTGGAAAAAAAT-GGAAA
** * * *
161821 AACGATATTAGAATTGTGAAAAGTCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATTAT
193 AACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAG
* *
161886 TATTGTGGCCAAAAATTGA-CAAAAAAATTTTCGGGTCAA-TTTTTG-AAAATTTTAACCGAAAT
258 TATTGTGGCCAAAAATTGATGAAAAAAATTTTCGGGT-AAGTTTTTGCAAAATTTGAACCGAAAT
*
161948 CGTGTACTAACCCATCACAATTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAATTTTGCAT
322 CGTGTACTAA-CCATCACAATTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCAT
* *
162013 AAATTTTGGCGCGGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGA
386 GATTTTTGGCGCGGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGA
*
162078 TTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTT-GAAA
451 TTTAAGGATATGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAA
* * * *
162142 AAGTAGGAAATACGATATTAGATGCGTGAAAAGCCCTTCAATGTTTTTGGTGTTGAATTATATAT
516 AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATAT
* * * *
162207 TTTTTATGAGTATTGTGGCCAAAAATTCATGAAAAATATTTTCGGGTCAGTTTTAGCAAAATTTT
581 TTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAAT-TTTTCGGGTCAATTTTTG-AAAATTTT
* * * *
162272 -AGCCGAAATCAT-TAACTAACCATAAC-GATTTTTGCCAAAAAAAAAAACGCGTTCC-GGGCCC
644 GAACCGAAATCGTGT-ACTAACCATCACAG-TTTTTG-C-----TAAAAACGCGTTCCGGGGCCC
* * * ** * *
162333 CGGCTCTGTTTTCCATTATTTTTGGCGATGAGACTCCTTGAAATATCTATATTTACCTAATCAAA
701 CGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAA
* * ** *
162398 TCTCAGCCACATTGGATTTAAGTTTATGTTTTTACGTGCATCTAAATCTTGTTTCGATTTAATCA
766 TATCAGCCACGTTGGATTTAAGAATATGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCA
*
162463 AAAATTAATTTGGAAAAAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTC
831 AAAATTAATTTGGAAAAAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTA
* *
162528 GAGTTGAATTATATA-TTTTTATGAGTATTGTGGCCAAAAATTGAAGAAGAATTTTTTCAGG-TC
896 GTGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTG-AGAAAAATTTTTTC-GGTTC
*
162591 AGTTTTTGCAAAATTTGAACCGGAATCGTTTACTAACC
959 AGTTTTTGCAAAATTTGAACCGGAATCGTGT-CTAACC
* *
162629 ATCACAGTTTTCTGCTAAGAACGCGTTCCGAGGCACCGGCTCAGTTTTGCATGATTTTTGGCGCC
1 ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGCC
* * * *
162694 GGGTCTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGCTTTAAGGATATGT
66 GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
*
162759 TTTTACGAGAATCTAAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAAATGGAAAAAC
131 TTTTACGAGAATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAAATGGAAAAAC
* * *
162824 GATATTAGAAGCGTGAAAAGCCTTTCAATGTTTATGGTGTTGAATTATATATTTTTTATGAGTAT
196 GATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTAT
* * ** * *
162889 TGTGGCCAAAAATAGATGAAGAATTTTTTCGGGTCAGTTTTTGCAAAATTTGAACCGGAATCGTG
261 TGTGGCCAAAAATTGATGAAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTGAACCGAAATCGTG
* * *
162954 TACTAACCATCACAGTTTTCTGCTAAGAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTT
326 TACTAACCATCACAATTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTT
* * *
163019 TTGGCGCCGAGACTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCATATTGGATTTAA
391 TTGGCGCGGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAA
* * *
163084 GGATATGCTTTCACGAGCATCTGAATCTTGTTTTGATTTAATCAAAAATGAATTTGGAAAAAAAT
456 GGATATGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGG-AAAAAAT
* *
163149 AGGAAAAACGATATTAGAAGTGTGAAAAGCCCTTCAATGTTGTTGGAGTTGAATTATATATTTTT
520 AGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTT
* * *
163214 AATGAGTATTGTGGCCAAAAATTGACGAAAATTTTTTTCGGTTCAATTTTTG
585 TATGAGTATTGTGGCCAAAAATTGACGAAAA-ATTTTTCGGGTCAATTTTTG
163266 GAGCCGAGCC
Statistics
Matches: 2347, Mismatches: 238, Indels: 104
0.87 0.09 0.04
Matches are distributed among these distances:
994 101 0.04
995 57 0.02
996 173 0.07
997 60 0.03
998 136 0.06
999 297 0.13
1000 733 0.31
1001 341 0.15
1002 37 0.02
1003 329 0.14
1004 83 0.04
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (995 bp):
ATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCACCGGCTCAGTTTTGCATGATTTTTGGCGCC
GAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATATGT
TTTTACGAGAATCTGAATCTTGTTTCGATTTAATAAAAAATTAATTTGGAAAAAAATGGAAAAAC
GATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTAT
TGTGGCCAAAAATTGATGAAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTGAACCGAAATCGTG
TACTAACCATCACAATTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTT
TTGGCGCGGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAA
GGATATGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAAAATA
GGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATTTTTT
ATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTCGGGTCAATTTTTGAAAATTTTGAACCGA
AATCGTGTACTAACCATCACAGTTTTTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCA
TGATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGCCACGTTGG
ATTTAAGAATATGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAA
AAAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTAGTGTTGAATTATATA
TTTTTTATGAGTATTGTGGCCAAAAATTGAGAAAAATTTTTTCGGTTCAGTTTTTGCAAAATTTG
AACCGGAATCGTGTCTAACC
Found at i:163447 original size:244 final size:244
Alignment explanation
Indices: 163015--163509 Score: 792
Period size: 244 Copynumber: 2.0 Consensus size: 244
163005 GTTTTGCATG
* * *
163015 ATTTTTGGCGCCGAGACTCCTTCAAATATCTATATTCATCTAATCAAATCTCAGCCATATTGGAT
1 ATTTTTGGAGCCGAGACTCCTTCAAACATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
*
163080 TTAAGGATATGCTTTCACGAGCATCTGAATCTTGTTTTGATTTAATCAAAAATGAATTTGGAAAA
66 TTAAGGATATGCTTTCACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATGAATTTGGAAAA
* * *
163145 AAATAGGAAAAACGATATTAGAAGTGTGAAAAGCCCTTCAATGTTGTTGGAGTTGAATTATATAT
131 AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAAGTTGTTGGAATTGAATTATATAT
*
163210 TTTTAATGAGTATTGTGGCCAAAAATTGACGAAAATTTTTTTCGGTTCA
196 TTTTAATGAGTATTGTGGCCAAAAATTGACGAAAATTTTTTTCGGGTCA
* * * *
163259 ATTTTTGGAGCCGAGCCTCCTTGAAACATCTATATTCATCTAATTAAATCTTAGCCACATTGGAT
1 ATTTTTGGAGCCGAGACTCCTTCAAACATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
* * * *
163324 TTAAGTATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
66 TTAAGGATATGCTTTCACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATGAATTTGGAAAA
* * *
163389 AAATAGGAAAAACGATATTGGAAGCGTGAAAATCCCTTCAAAGTTTTTGGAATTGAATTATATAT
131 AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAAGTTGTTGGAATTGAATTATATAT
* *
163454 TTTTTATGAGTATTGTGGTCAAAAATTGACGAAAATTTTTTTCGGGTCA
196 TTTTAATGAGTATTGTGGCCAAAAATTGACGAAAATTTTTTTCGGGTCA
*
163503 GTTTTTG
1 ATTTTTG
163510 AAAATTTTGA
Statistics
Matches: 229, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
244 229 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (244 bp):
ATTTTTGGAGCCGAGACTCCTTCAAACATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
TTAAGGATATGCTTTCACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATGAATTTGGAAAA
AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAAGTTGTTGGAATTGAATTATATAT
TTTTAATGAGTATTGTGGCCAAAAATTGACGAAAATTTTTTTCGGGTCA
Found at i:165654 original size:334 final size:333
Alignment explanation
Indices: 163259--166090 Score: 3625
Period size: 334 Copynumber: 8.5 Consensus size: 333
163249 TTTCGGTTCA
* * * * *
163259 ATTTTTGGAGCCGAGCCTCCTTGAAACATCTATATTCATCTAATTAAATCTTAGCCACATTGGAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
*
163324 TTAAGTATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
66 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGG-AAA
* * * *
163389 AAATAGGAAAAACGATATTGGAAGCGTGAAAATCCCTTCAAAGTTTTTGGAATTGAATTATATAT
130 AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATAT
* *
163454 TTTTTATGAGTATTGTGGTCAAAAATTGACGAAAATTTTTTTCGGGTCAGTTTTTG-AAAATTTT
195 TTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAA-TTT
* * * * *
163518 GAACCGAAATCGTGTACTAACCATCA-TGATTTT-TGCCTAAAAACGCGTTCCGAGGCCGCGTCT
259 GAACCGAAATAGTGTACTAACCATCACAG-TTTTCTG-CTAAAAACGCGTTCCGGGGCCCCGGCT
*
163581 CAGTTTTCCATG
322 CAGTTTTGCATG
* *
163593 ATTTTTGGCGCGGAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAGCCACATTGGAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
*
163658 TTAAGGATATGTTTTTACGAGTATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
66 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
** * *
163723 GGTAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGTGTTGAATTATATATT
131 AATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATT
* * * * * * *
163788 TTTTATGAGTATTGTGGCCAAAAATTCATGAAAAATATTTTCGGATCAGCTTTAGCAAAATTTTA
196 TTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGA
* * * * * * * *
163853 GCCGAAATCA-TGTACTTA-CATAACAATATT-TGCCAAAAAAATAAAGTGTTCC-GGGCCCCGG
261 ACCGAAAT-AGTGTACTAACCATCACAGTTTTCTG-C---TAAA-AACGCGTTCCGGGGCCCCGG
* *
163914 CTCTGTTTTCCATG
320 CTCAGTTTTGCATG
** ** * * ** *
163928 ATTTTTGGCGATGAGACTTTTTGAAATATCTATATTTATCTAATCAAATCACAGTTACAGTGGAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
163993 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
66 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
*
164058 AATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATT
131 AATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATT
* * *
164123 TTTTATGAGTATTATGGCCAAAAATTAACGAAAATTTTTTTCGGGTCAGTTTTTG-AAAATTTTG
196 TTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAA-TTTG
* * * *
164187 AACCGAAGTCGTGTAAGTTAACCATCACAGTTATCTGCTAAAAACGCGTTCCGGGGCCCCGGCTC
260 AACCGAAATAGTGT-A-CTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTC
*
164252 AGTTTTGCCTG
323 AGTTTTGCATG
* * * *
164263 ATTTTTGGAGCCGAGCCTCCTTGAATATATCTATATTCATCTAATTAAATCTTAGCCACATTGGA
1 ATTTTTGGCGCCGAGACTCCTTGAA-ATATCTATATTCATCTAATCAAATCTCAGCCACATTGGA
* * *
164328 TTTAAGTATATGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAAAAATGAATTTGGAAA
65 TTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAA
*
164393 AAATAGGAAATACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATAT
130 AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATAT
* * *
164458 TTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTGTTCGGGTCAATTTTTGAAAAATTTG
195 TTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTG
* *
164523 AACCGAAATCGTG---T-ACCATCACAGTTTTCTGCTAAAAACGCGTTCTGGGGCCCCGGCTCAG
260 AACCGAAATAGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
164584 TTTTGCATG
325 TTTTGCATG
* *
164593 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGCCACATTGCAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
164658 TTAAGGATATGTTTTTACGAGCATC-GAAATCTTGTTTCGATTTAAT-AAAAATTAATTTGGAAA
66 TTAAGGATATGTTTTTACGAGCATCTG-AATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAA
* * *
164721 AAATAGGAAAAATGATATTAGAAGAGTGAAAAGCCCTTCAATGTTTTTGGTGTTGAATTATATAT
130 AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATAT
* ** * *
164786 TTTTTATGAGTATTGTGGCAAAAAATTGATTAAGAATTTTTTCCGGTCAGTTTTTGCAAAATTTG
195 TTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTG
* * * * * * * * * *
164851 AACCGGAATCGTGTACTGACTATCACATTTTTCTGCTAAAAACTCATTCCAGTGCCCCGGCTCAA
260 AACCGAAATAGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
*
164916 ATTTGCATG
325 TTTTGCATG
*
164925 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTTATCTAATCAAATCTCAGCCACATTGGAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
* * * *
164990 TTAAGTATATATTTTTACGAGCATCTAAATCTTGTTTCGATTTAATAAAAAATTAA-TT------
66 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
* * * ** *
165048 --T-GGAAAAACGATATTTGAAGCGTGAAAATCCCTTCAATATTTTTGTTGTGGAATTATATATT
131 AATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATT
* * * *** * * * *
165110 TTTTATTAGTATTGTGTCCTAAAATTGA--AAAAA-AAATTCGGGTAAGTATTTACAAAATTTTA
196 TTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGA
* * * * * * * *
165172 GCCAAAATCA-TGTACTAACCATTA-TGATTTT-TTCCAGGAAAACGCGTTCC-GGGTCCCGGCA
261 ACCGAAAT-AGTGTACTAACCATCACAG-TTTTCTGCTA--AAAACGCGTTCCGGGGCCCCGGCT
*
165233 CTGTTTTGCATG
322 CAGTTTTGCATG
** * * *
165245 ATTTTTGGCGATGAGACTCCTTGAAATATCTATATTTATTTAATCAAATTTCAGCCACATTGGAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
*
165310 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTCCGATTTAATCAAAAATTAATTTGGAAAA
66 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
165375 AATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATT
131 AATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATT
* * *** *
165440 TTTTATGAGTATTGTGGCCAAAATTTGACAAAAAAAAACTTTCGGGTAAGTTTTTGCAAAATTTG
196 TTTTATGAGTATTGTGGCCAAAAATTGAC-GAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTG
* * * * *
165505 AGCCGAAATAGTGTACTGATCATCACAGTTTTCTACTAAAAACGCGTTCTGGGGCCCCGGCTCAG
260 AACCGAAATAGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
*
165570 TTTTGCATT
325 TTTTGCATG
* * * * *
165579 ATTTTTTGCGCTGAGACTCCTTGAAATATCTATATTCATCGAATCTAATCTCAGCCACGTTGGAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
*
165644 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTTATCAAAAATTAATTTGGAAAA
66 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGG--AA
** * * * *
165709 AAAATTTGAAAAATGAAATTGGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTTTATA
129 AAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATA
* * *
165774 TATTTTATGAGTATTATGGTCAAAAATTGACG-AAAATTTTTTCGGGTCAGTTTTTG-AAAATTT
194 TTTTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAA-TT
* * *
165837 TGAACCGAAATCA-TGTACTAACCATCAC-GATTTT-TGGCTAAAAACGCGTTCCGAGACCGCGG
258 TGAACCGAAAT-AGTGTACTAACCATCACAG-TTTTCT-GCTAAAAACGCGTTCCGGGGCCCCGG
165899 CTCAGTTTCT-CATG
320 CTCAGTTT-TGCATG
*
165913 ATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
1 ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
* ** *
165978 TTAATGATATGTTTTTACGAATATCTGCATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
66 TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
* * * * *
166043 AGTAGGAGATACGATATTAAAAGCGTG-AAAGCCCTTTAATGTTTTTGG
131 AATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGG
166091 TGATACGAAC
Statistics
Matches: 2176, Mismatches: 270, Indels: 107
0.85 0.11 0.04
Matches are distributed among these distances:
319 3 0.00
320 170 0.08
321 16 0.01
323 78 0.04
324 1 0.00
328 146 0.07
329 80 0.04
330 155 0.07
331 22 0.01
332 186 0.09
333 158 0.07
334 510 0.23
335 311 0.14
336 323 0.15
337 6 0.00
338 9 0.00
339 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (333 bp):
ATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAT
TTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATCAAAAATTAATTTGGAAAA
AATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAGTTGAATTATATATT
TTTTATGAGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGGTCAGTTTTTGCAAAATTTGA
ACCGAAATAGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGT
TTTGCATG
Found at i:171914 original size:32 final size:32
Alignment explanation
Indices: 171869--171949 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
171859 TACTTTACTG
* * *
171869 AATAAGCTAATTAGTCTTTTTTTTTTGACATC
1 AATAAGCTGATTAGTCTTTTTTTTTGGACAAC
*
171901 AATAAGCTGATTAGTCTTTTTTTTTGGCCAAC
1 AATAAGCTGATTAGTCTTTTTTTTTGGACAAC
*
171933 AATAAACTGATTAGTCT
1 AATAAGCTGATTAGTCT
171950 ACTAGTAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (32 bp):
AATAAGCTGATTAGTCTTTTTTTTTGGACAAC
Found at i:189581 original size:4 final size:4
Alignment explanation
Indices: 189572--189597 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
189562 TACTAGTATA
189572 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
189598 AAATGTGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:190252 original size:26 final size:26
Alignment explanation
Indices: 190216--190270 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
190206 CTTGTTGGGA
*
190216 GACTCACCCACCATAATCAGGTGCGC
1 GACTCACCCACCATAACCAGGTGCGC
190242 GACTCACCCACCATAACCAGGTGCGC
1 GACTCACCCACCATAACCAGGTGCGC
190268 GAC
1 GAC
190271 GCGGGTCGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.40, G:0.20, T:0.13
Consensus pattern (26 bp):
GACTCACCCACCATAACCAGGTGCGC
Found at i:203264 original size:16 final size:16
Alignment explanation
Indices: 203243--203275 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
203233 TTATTGGATC
203243 TTTTTCTAGGAGTTGT
1 TTTTTCTAGGAGTTGT
203259 TTTTTCTAGGAGTTGT
1 TTTTTCTAGGAGTTGT
203275 T
1 T
203276 GTGCTCTATA
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:0.12, C:0.06, G:0.24, T:0.58
Consensus pattern (16 bp):
TTTTTCTAGGAGTTGT
Found at i:205049 original size:132 final size:132
Alignment explanation
Indices: 204812--205066 Score: 431
Period size: 132 Copynumber: 1.9 Consensus size: 132
204802 TTGAGCCACC
*
204812 ACCACACTGACTCTGGCAGCCAGTTCCGCAGTAATCGGATGTGGTGCCACAATAACCATATTGGC
1 ACCACACTGACTCTGGCAGCCAGTTCCGCAGTAATCGGATGTGGTGCCACAACAACCATATTGGC
*
204877 TGCAGCACAGCCCATTTGCACATGAAGCACCTCCTGCTTGGTTTCCGCACTGTTGTGCGCCGCCG
66 TGCAGCACAGCCCATTTGCACATGAAGCACCTCCTGCTTGGTTTCCACACTGTTGTGCGCCGCCG
204942 CT
131 CT
* * * *
204944 ACCACACTGGCTCTGGCAGCCAGTTCCGCAGTAATCGGGTGTGGTGCCACACCATCCATATTGGC
1 ACCACACTGACTCTGGCAGCCAGTTCCGCAGTAATCGGATGTGGTGCCACAACAACCATATTGGC
*
205009 TGCAGCACAGCCCATTTGCACAT-AACGCACCTCCTGCTTGGTTTCCACATTGTTGTGC
66 TGCAGCACAGCCCATTTGCACATGAA-GCACCTCCTGCTTGGTTTCCACACTGTTGTGC
205067 ATACACTCTT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
131 2 0.02
132 113 0.98
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.24
Consensus pattern (132 bp):
ACCACACTGACTCTGGCAGCCAGTTCCGCAGTAATCGGATGTGGTGCCACAACAACCATATTGGC
TGCAGCACAGCCCATTTGCACATGAAGCACCTCCTGCTTGGTTTCCACACTGTTGTGCGCCGCCG
CT
Found at i:207945 original size:7 final size:7
Alignment explanation
Indices: 207933--207994 Score: 115
Period size: 7 Copynumber: 8.9 Consensus size: 7
207923 TTTGATGGCA
207933 TGGTAAT
1 TGGTAAT
207940 TGGTAAT
1 TGGTAAT
207947 TGGTAAT
1 TGGTAAT
207954 TGGTAAT
1 TGGTAAT
207961 TGGTAAT
1 TGGTAAT
207968 TGGTAAT
1 TGGTAAT
*
207975 TGATAAT
1 TGGTAAT
207982 TGGTAAT
1 TGGTAAT
207989 TGGTAA
1 TGGTAA
207995 ATTGAAATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
TGGTAAT
Found at i:211986 original size:15 final size:14
Alignment explanation
Indices: 211960--211990 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
211950 TGCATGGAGA
211960 ATGGAGATATATAT
1 ATGGAGATATATAT
211974 ATGGAGTATATATAT
1 ATGGAG-ATATATAT
211989 AT
1 AT
211991 AAACAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (14 bp):
ATGGAGATATATAT
Found at i:212694 original size:2 final size:2
Alignment explanation
Indices: 212687--212717 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
212677 AAATTACTAG
212687 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
212718 TTAAAAGAAT
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:217794 original size:6 final size:6
Alignment explanation
Indices: 217761--217793 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
217751 TATTAATGAA
*
217761 TGGAAT TGGAAT TGGAAT TGGAAT TGGTAT TGG
1 TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGG
217794 TGAGTGCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (6 bp):
TGGAAT
Found at i:223823 original size:6 final size:6
Alignment explanation
Indices: 223812--223837 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
223802 AATGTAATGG
223812 TCCCAC TCCCAC TCCCAC TCCCAC TC
1 TCCCAC TCCCAC TCCCAC TCCCAC TC
223838 TCAGCCACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.65, G:0.00, T:0.19
Consensus pattern (6 bp):
TCCCAC
Found at i:225105 original size:7 final size:7
Alignment explanation
Indices: 225093--225122 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
225083 CTTTCTTTCC
225093 TTTCACA
1 TTTCACA
225100 TTTCACA
1 TTTCACA
*
225107 TTCCACA
1 TTTCACA
225114 TTTCACA
1 TTTCACA
225121 TT
1 TT
225123 ATTCACAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTCACA
Done.