Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008055.1 Hibiscus syriacus cultivar Beakdansim tig00110550_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 146341
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:4970 original size:8 final size:8
Alignment explanation
Indices: 4957--4986 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
4947 AGCTCTCTCC
4957 TTTTTTCT
1 TTTTTTCT
4965 TTTTTTCT
1 TTTTTTCT
4973 TTTTTT-T
1 TTTTTTCT
4980 TTTTTTC
1 TTTTTTC
4987 CCTTCAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTCT
Found at i:4976 original size:15 final size:15
Alignment explanation
Indices: 4956--4986 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4946 AAGCTCTCTC
4956 CTTTTTTCTTTTTTT
1 CTTTTTTCTTTTTTT
*
4971 CTTTTTTTTTTTTTT
1 CTTTTTTCTTTTTTT
4986 C
1 C
4987 CCTTCAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
CTTTTTTCTTTTTTT
Found at i:7958 original size:19 final size:19
Alignment explanation
Indices: 7934--7980 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 19
7924 GACATTTCCA
7934 TCTATTTTGCCACTACATC
1 TCTATTTTGCCACTACATC
7953 TCTATTTGTTGCCACTACATC
1 TCTA-TT-TTGCCACTACATC
7974 TCTATTT
1 TCTATTT
7981 GTTGCCATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 17 0.65
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (19 bp):
TCTATTTTGCCACTACATC
Found at i:7966 original size:21 final size:21
Alignment explanation
Indices: 7940--7987 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
7930 TCCATCTATT
7940 TTGCCACTACATCTCTATTTG
1 TTGCCACTACATCTCTATTTG
7961 TTGCCACTACATCTCTATTTG
1 TTGCCACTACATCTCTATTTG
7982 TTGCCA
1 TTGCCA
7988 TATCACACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (21 bp):
TTGCCACTACATCTCTATTTG
Found at i:8464 original size:19 final size:18
Alignment explanation
Indices: 8440--8508 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
8430 ATATTATTAA
8440 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
8459 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
8477 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
8499 ATT-TTAATAA
1 ATTATTAATAA
8509 ATATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:8522 original size:23 final size:23
Alignment explanation
Indices: 8475--8547 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
8465 TATATATTTA
*
8475 ATATTAATATAATA-ATCTAATAAT
1 ATATTAATA-AATATATTTAA-AAT
*
8499 ATTTTAATAAATATATTTAAAAT
1 ATATTAATAAATATATTTAAAAT
* * * *
8522 ATACTAATTAACATTTTTAAAAT
1 ATATTAATAAATATATTTAAAAT
8545 ATA
1 ATA
8548 ATATAACACT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 28 0.68
24 13 0.32
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATTAATAAATATATTTAAAAT
Found at i:8870 original size:14 final size:14
Alignment explanation
Indices: 8836--8870 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
8826 AAATGTAATT
*
8836 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
8850 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
8864 CATTTTC
1 CATTTTC
8871 AATGAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:9367 original size:13 final size:13
Alignment explanation
Indices: 9349--9376 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9339 TGCTTCCATC
9349 ATTGTTCATCGGT
1 ATTGTTCATCGGT
9362 ATTGTTCATCGGT
1 ATTGTTCATCGGT
9375 AT
1 AT
9377 ATCTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (13 bp):
ATTGTTCATCGGT
Found at i:11805 original size:30 final size:30
Alignment explanation
Indices: 11765--11838 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
11755 GTCAACCATT
* *
11765 TTACAAAAATAGCACCCCTTTTTGAATTAA
1 TTACCAAAATAGCACCCCATTTTGAATTAA
* *
11795 TTACCAAAATAGTA-GCCATTTTGAATTAA
1 TTACCAAAATAGCACCCCATTTTGAATTAA
* *
11824 TTCCCATAATAGCAC
1 TTACCAAAATAGCAC
11839 AAAAATCGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 24 0.67
30 12 0.33
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (30 bp):
TTACCAAAATAGCACCCCATTTTGAATTAA
Found at i:11899 original size:18 final size:18
Alignment explanation
Indices: 11869--11939 Score: 108
Period size: 18 Copynumber: 4.0 Consensus size: 18
11859 GAATAGCACC
11869 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
11886 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
11904 GGTCAATGGGTAGGGTCG
1 GGTCAACGGGTCGGGTCG
*
11922 GGTCAACGGGTCAGGTCG
1 GGTCAACGGGTCGGGTCG
11940 TGACCGGTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 7 0.15
18 41 0.85
ACGTcount: A:0.14, C:0.20, G:0.48, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:19018 original size:30 final size:30
Alignment explanation
Indices: 18978--19046 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
18968 CATTTTACAG
*
18978 AAATAGCACCCCTTTTTGAATTAATTACCA
1 AAATAGCACCCCATTTTGAATTAATTACCA
* *
19008 AAATAACA-CCCATTTTGAATTAATTCCCA
1 AAATAGCACCCCATTTTGAATTAATTACCA
*
19037 TAATAGCACC
1 AAATAGCACC
19047 AAAATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (30 bp):
AAATAGCACCCCATTTTGAATTAATTACCA
Found at i:19054 original size:29 final size:29
Alignment explanation
Indices: 18993--19074 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
18983 GCACCCCTTT
* * * **
18993 TTGAATTAATTACCAAAATAACACCCATT
1 TTGAATTAATTCCCAAAATAGCACCAAAA
*
19022 TTGAATTAATTCCCATAATAGCACCAAAA
1 TTGAATTAATTCCCAAAATAGCACCAAAA
*
19051 TTGAA-TAATTTCCCAGAATAGCAC
1 TTGAATTAA-TTCCCAAAATAGCAC
19075 TGGTCAACGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.07
29 42 0.93
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (29 bp):
TTGAATTAATTCCCAAAATAGCACCAAAA
Found at i:24805 original size:29 final size:29
Alignment explanation
Indices: 24772--24829 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24762 AAGTTTCGGT
24772 GTGCAATGGACATTGAAACAGAGTTTGAG
1 GTGCAATGGACATTGAAACAGAGTTTGAG
24801 GTGCAATGGACATTGAAACAGAGTTTGAG
1 GTGCAATGGACATTGAAACAGAGTTTGAG
24830 TATCAGTACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (29 bp):
GTGCAATGGACATTGAAACAGAGTTTGAG
Found at i:26553 original size:122 final size:122
Alignment explanation
Indices: 26240--26649 Score: 478
Period size: 121 Copynumber: 3.4 Consensus size: 122
26230 TAAGTTTTGT
** *
26240 AAAAATTGGAAGTTTAAGTATTAAAATGGATCAAAACTGATAGTTTAGGTACTAAACACGTTAAG
1 AAAAATTAAAAGTTTAAGTATTAAAATGGATCAAAACTGATAATTTAGGTACTAAACACGTTAAG
** * *
26305 TTTTTAATGACGGGTACTAAGATGAAACAAAAATTAAACATTAGGTAT-AGTTTTG-A
66 TTTTTAATGACAAGTACTAAAATGAAACAAAAATTAAACATTAGATATGA-TTTTGAA
* * * *
26361 AAAAATTGAAAGTTTAAGTATTAAAATAGATCAAAACTGATAGTTTAGATACTAAACACGTTAAG
1 AAAAATTAAAAGTTTAAGTATTAAAATGGATCAAAACTGATAATTTAGGTACTAAACACGTTAAG
* * *
26426 TTTTTAACGACAAGTACTAAAATGAAATAAAAATTAAACGTTAGATATGATTTTGAA
66 TTTTTAATGACAAGTACTAAAATGAAACAAAAATTAAACATTAGATATGATTTTGAA
* * ***
26483 AAAAATTAAAAGTTT-AGATATTAAAATGGGTCAAAACTAATAATTTAGGTACTAAACGTATTAA
1 AAAAATTAAAAGTTTAAG-TATTAAAATGGATCAAAACTGATAATTTAGGTACTAAACACGTTAA
* * *
26547 GTTTTTAATGATGAA-TACTAAAATGAAACAAAAATTTTAATATTAGATATGA--TT-AA
65 GTTTTTAATGA-CAAGTACTAAAATGAAACAAAAA-TTAAACATTAGATATGATTTTGAA
* * * *
26603 AAAAA-TAAAAATTT-AGATGTTAAAACGGATCAAAATTGATAATTTAG
1 AAAAATTAAAAGTTTAAG-TATTAAAATGGATCAAAACTGATAATTTAG
26650 ATACACACGT
Statistics
Matches: 253, Mismatches: 31, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
119 36 0.14
120 7 0.03
121 112 0.44
122 82 0.32
123 16 0.06
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (122 bp):
AAAAATTAAAAGTTTAAGTATTAAAATGGATCAAAACTGATAATTTAGGTACTAAACACGTTAAG
TTTTTAATGACAAGTACTAAAATGAAACAAAAATTAAACATTAGATATGATTTTGAA
Found at i:30211 original size:22 final size:23
Alignment explanation
Indices: 30177--30221 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
30167 TTTTATTTTA
**
30177 AAAATGATTAATTAG-TTAAAAT
1 AAAATGAAAAATTAGTTTAAAAT
*
30199 AAAATGAAAAATTGGTTTAAAAT
1 AAAATGAAAAATTAGTTTAAAAT
30222 TTAAGGTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (23 bp):
AAAATGAAAAATTAGTTTAAAAT
Found at i:32253 original size:42 final size:42
Alignment explanation
Indices: 32194--32313 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
32184 TTTCCCCGAA
*
32194 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
32236 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
32278 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
32314 TGTAATTCAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:32547 original size:26 final size:24
Alignment explanation
Indices: 32485--32547 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
32475 CATTTTCATC
32485 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
32509 AAAATATAT-TTATTAATAT-TTAT
1 AAAATATATATTATTAAAATATT-T
32532 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
32548 GTTTTAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:32641 original size:32 final size:28
Alignment explanation
Indices: 32579--32676 Score: 83
Period size: 32 Copynumber: 3.2 Consensus size: 28
32569 ATCAATATAT
*
32579 ATAATATATAGATATTATATTTTTAT-TTTA
1 ATAATATATA-ATATT-T-TTTATATATTTA
32609 ATAATATATAATAAATTTTTTTTATATATTTA
1 ATAATATATAAT--A--TTTTTTATATATTTA
*
32641 ATAATGA-ATAATATTATTTATATATTTCA
1 ATAAT-ATATAATATTTTTTATATATTT-A
32670 ATAATAT
1 ATAATAT
32677 TTTAGTAAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
28 14 0.24
29 8 0.14
30 11 0.19
31 7 0.12
32 15 0.26
33 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATAATATATAATATTTTTTATATATTTA
Found at i:32920 original size:20 final size:20
Alignment explanation
Indices: 32842--32911 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
32832 TTTCCAGATG
*
32842 TTTTTCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
32862 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
32882 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
32902 TTTTCCAGAA
1 TTTTCCAGAA
32912 TTCAAATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:32920 original size:40 final size:40
Alignment explanation
Indices: 32842--32920 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
32832 TTTCCAGATG
* **
32842 TTTTTCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
32882 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
32921 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:32930 original size:15 final size:15
Alignment explanation
Indices: 32894--32975 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
32884 TTACAGAAAT
**
32894 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
32909 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
32923 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
32938 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
32953 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
32968 GTAATTCA
1 GTAATTCA
32976 TTTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:32946 original size:30 final size:30
Alignment explanation
Indices: 32894--32975 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
32884 TTACAGAAAT
32894 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
32923 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
32953 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
32976 TTTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:32968 original size:45 final size:44
Alignment explanation
Indices: 32894--32980 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
32884 TTACAGAAAT
**
32894 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
32938 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
32981 TGGAAAACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:33671 original size:161 final size:162
Alignment explanation
Indices: 33406--33881 Score: 705
Period size: 161 Copynumber: 3.0 Consensus size: 162
33396 TGTGTTAAAC
* *
33406 TCCTAGATTTTATGCTGCAGTTGGCATATTTTTGGTAAATAGTTCCTTATTCACCAGGCCAAGGC
1 TCCTAGATTTTATGCTGCAGTTGGCATATTTTTGGTAAACAGTTCCTTCTTCACCAGGCCAAGGC
* *
33471 TCTATTGTTAATTAAGGTAGATATTAAACTATTGTTAATCTCCTAGATGGTTTTGGTTATCTAGG
66 TCTATTGTTAATTAAGGAAGATATTAAACTATTGTTAATCTCCTAGGTGGTTTTGGTTATCTAGG
33536 TTTCAATGCCTAGAGCCATCAATGTGA-CAAG
131 TTTCAATGCCTAGAGCCATCAATGTGAGCAAG
*
33567 TCCTAGATTTTACGCTGCAGTTGGCATATTTTTGGTAAACAGTTCCTTCTTCACCAGGCCAAGGC
1 TCCTAGATTTTATGCTGCAGTTGGCATATTTTTGGTAAACAGTTCCTTCTTCACCAGGCCAAGGC
* * *
33632 TCTATTGTTAATTAGGGAAGATATTAAACTATTGTTAATCTCCTAGGTGGTTTTGGTTATTTGGG
66 TCTATTGTTAATTAAGGAAGATATTAAACTATTGTTAATCTCCTAGGTGGTTTTGGTTATCTAGG
* *
33697 TTTCAATGCCTAGAGCCATCAGTGT-AGCCAG
131 TTTCAATGCCTAGAGCCATCAATGTGAGCAAG
* * * *
33728 CCCTAGATTTTATGCTGCTGTTGG----TTTTTGGTAAACAATTCATTCTTCACCAAGG-CAAGG
1 TCCTAGATTTTATGCTGCAGTTGGCATATTTTTGGTAAACAGTTCCTTCTTCACC-AGGCCAAGG
* * * * ** *
33788 TTCTATTGTTAATCAAGGAAGATATTAAACTATTGTTTATCTCCCAGGTGGTTTTAATTATCCAG
65 CTCTATTGTTAATTAAGGAAGATATTAAACTATTGTTAATCTCCTAGGTGGTTTTGGTTATCTAG
33853 GTTTCAATGCCTAGAGCCATCAATGTGAG
130 GTTTCAATGCCTAGAGCCATCAATGTGAG
33882 AATCATTCCA
Statistics
Matches: 286, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
157 110 0.38
158 5 0.02
160 1 0.00
161 170 0.59
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (162 bp):
TCCTAGATTTTATGCTGCAGTTGGCATATTTTTGGTAAACAGTTCCTTCTTCACCAGGCCAAGGC
TCTATTGTTAATTAAGGAAGATATTAAACTATTGTTAATCTCCTAGGTGGTTTTGGTTATCTAGG
TTTCAATGCCTAGAGCCATCAATGTGAGCAAG
Found at i:37531 original size:28 final size:28
Alignment explanation
Indices: 37486--37542 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
37476 CCGTCATTGC
* * *
37486 TTTCAAGCACTAGCTCGACGATATAATA
1 TTTCAAGAACTAGCTCGACAACATAATA
* *
37514 TTTCAAGAACTGGTTCGACAACATAATA
1 TTTCAAGAACTAGCTCGACAACATAATA
37542 T
1 T
37543 AAACAGAGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (28 bp):
TTTCAAGAACTAGCTCGACAACATAATA
Found at i:40485 original size:16 final size:15
Alignment explanation
Indices: 40461--40490 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
40451 TTTATTTTTT
40461 AAAAAATAAATAATA
1 AAAAAATAAATAATA
40476 AAAAATATAAATAAT
1 AAAAA-ATAAATAAT
40491 TATTAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATAAATAATA
Found at i:41653 original size:113 final size:114
Alignment explanation
Indices: 40658--42886 Score: 2019
Period size: 114 Copynumber: 19.6 Consensus size: 114
40648 ACATTATTAT
* * * * * *
40658 TAATAGAGAGTCACATCTTTCAAGATTGATTGCTT-TTAAGTTATCTAATTATTATTAGAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * * *
40722 CTTAAATTTCTGGCTATCCCTGTCATGTTAGATGCCTTCTATATAACTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * * *
40771 TAATAGAGAGTCCTATCTTCCATGATTGATTGCTTGTTGAGTTATCTAATTATTATTGAAAG-AT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * * * *
40835 CTTTGAATTTCAAGTTATCTCTGTCACGTTAGATGTCTTCTATCTAACAA
66 C-TTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * *
40885 TAATGAATG-GTCCCATCTTCCATGATTGATTGCTTCTCGAGCTATCTAATTATTATTGGAAGCT
1 TAATGGA-GAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCT
* * ** *
40949 T-TTGGAATTTCTAGTTATCCCTGTCACATTAGATGCCTTCTATCTAACTA
65 TCTT-GAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * * * * * * *
40999 AAATGGAGACTCTCATCTTCCATAATTGATTACTTATTGAGTTATATAATTATTATTAGAACCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * *
41064 ATTGAATTTATAGCTAT-TATTGTCATGCTAGAGGCCTTCTATCTAACTA
66 CTTGAATTTCTAGCTATCT-CTGTCATGTTAGAGGCCTTCTATCTAACTA
** * * * * * *
41113 TAATAAAGAGTCACATCTTCTATAATTTG-TTGCTTCTTGAGTTATCTAATTAATGTT--AAGTT
1 TAATGGAGAGTCCCATCTTCCATGA-TTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCT
* * * * *
41175 TCTTGAATTTCTAG-TATCTTTGT-TTGGTAGAGGCATGCTAT-TAAACTA
65 TCTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCT-AACTA
*
41223 TAATGGAGAGTCCCATCTTTCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * * * *
41288 CTTGAATATCTAGTTATCTTTGTCTTGTTAGAGGCATTCTATCTAACAA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * *
41337 TAATGGGGAGTCCCATCTTTCATGATTGATTGTTTCTTAAGTTATCTAATTATTATTGGAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * **
41402 CTTGAATTTCTAGTTATCCCTGTTATGTTAGAGGCAGTCTATCTAACTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * * * *
41451 TTATAGAGAATCCCATCTTCAATGATTTATTGCTTTTTGAGTTATCTAATTATTATTGGAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* **
41516 CTTGAATTTCTAGCTATCTTTGTCATGTTAGAGGTAGTT-TA-CTAACTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGG-CCTTCTATCTAACTA
* * * * * *
41564 TAATGGAGATTCCTATATTCCATGATTGGTTGCTTCTTGAATTATCTAATTATTAATGGAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* *
41629 CTTGAATTTGTAG-TCATCTCTGTCATGTTAGAGGCCTTCTATCTAACTG
66 CTTGAATTTCTAGCT-ATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * * * * *
41678 TAATGGAGAGTTCTATCTTCCATGATTGATTG--T-TT--CTTATGTAATTATTAATGGAGGTTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * * * *
41738 CTTGAATTTTTAACTATCTCTATTATGTTAGAGGCTTTCTATCTTACTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * * * * * *
41787 TAGTGGAGAGTCCCATATTTCATAATTGATTGTTTATTGAGTTATCAAATTATTATTAGAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* *
41852 CTT-AATTTTCTAGCTATCTTTGTCATGTTAGAGGGCTTCTATCTAACTA
66 CTTGAA-TTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
** * * * * * * ** * * **
41901 TGTTGGAG-GTATTCTATCTAACTATAATGGAGAGTCCCATCTTCCAAGATTGATAGCTTCTTGA
1 TAATGGAGAG--TCCCATCT-TCCATGAT--TGA-TTGCTTCTT--GAG-TT-AT--CTAATT-A
** ** * * * * * * * *
41965 GTTA-TCAAATAATTATTGGAAGCTTCTTG-AATTTCTAG-C-T-ATAGAGGCTTTCTATCTTAC
53 -TTATTGGAA-GCTTCTT-GAA-TTTCTAGCTATCTCT-GTCATGTTAGAGGCCTTCTATCTAAC
42025 TA
113 TA
* * *
42027 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTATTGAGTTATCTAATTATTGTTGGAAGTTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * *
42092 CTTGAATTTCTAGCTATCTTTGTTATGTTAGAGGCATTCTATTTAACTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * *
42141 TAATGGAGAGTCTCATATTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGAAAGTTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * *
42206 CTTGAATTTCTAGCTATCACTGTTATGTTAGA-GCCTCCTATCTAACTC
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * * * *
42254 TAATGGAGAGTCCCCTATTCCATGATTGATTACTTCTTGAGTTATTTATTTA-TATTGGAAACTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * * *
42318 CTCGAATTTCTAACTTTTTGTGTCATGTTAGAGGCCTTCTATCTAACTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * *
42367 TAATGTAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTATTATTGGAAGTTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
** * *
42432 CTTGAATTTCTAATTATCTATGTCATGTT-GAAGGCCTTCAATCTAACTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAG-AGGCCTTCTATCTAACTA
* * * * *
42481 TAATGGAGAGTCCCATCTTCTATGATTGATTGC-TCGTTGAGTTATCAAATTATTAATGAAAGTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTC-TTGAGTTATCTAATTATTATTGGAAGCT
* * * *
42545 TCTT-AATTTTTAGCTATCTCTGTCATGTTAGAGTCTTTCTATCTTACTA
65 TCTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * ** * *
42594 TAATGGAGAGTCTCATTTTTTATGATTGATTGCTTTTTGAGTTATCTAATTATTATTGAAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
** * * * * * *
42659 CTTGAATTTCTAAATATATGTATCATGTTATAAGCCTTCTATCTAATTA
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * *
42708 TAATGGAGAGTCCCATCTTCCACGATTG-TT--TT-TTAAGTTATCTAATTATTATTGGAAGTTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
* * * * * *
42769 ATTGAATTTTTAGCTATCTCTGGCATGTTGGAGGCCTTCTATCTAATTC
66 CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * * * * * * * * *
42818 TAATGTACAATTCTATCTTCCATGATTAATTTCTTTTTGAGTTATCTATTTA-TGTTAGAAGCTT
1 TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
42882 CTTGA
66 CTTGA
42887 TATGATCGCC
Statistics
Matches: 1721, Mismatches: 332, Indels: 126
0.79 0.15 0.06
Matches are distributed among these distances:
109 91 0.05
110 149 0.09
111 20 0.01
112 80 0.05
113 382 0.22
114 887 0.52
115 18 0.01
116 5 0.00
117 2 0.00
118 4 0.00
119 6 0.00
121 7 0.00
122 4 0.00
123 2 0.00
124 5 0.00
125 9 0.01
126 28 0.02
127 9 0.01
128 5 0.00
129 8 0.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (114 bp):
TAATGGAGAGTCCCATCTTCCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGAAGCTT
CTTGAATTTCTAGCTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
Found at i:41909 original size:24 final size:24
Alignment explanation
Indices: 41876--41925 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
41866 TATCTTTGTC
*
41876 ATGTTAGAGGGCTTCTATCTAACT
1 ATGTTAGAGGGATTCTATCTAACT
* *
41900 ATGTTGGAGGTATTCTATCTAACT
1 ATGTTAGAGGGATTCTATCTAACT
41924 AT
1 AT
41926 AATGGAGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (24 bp):
ATGTTAGAGGGATTCTATCTAACT
Found at i:42101 original size:690 final size:699
Alignment explanation
Indices: 41218--42594 Score: 1753
Period size: 690 Copynumber: 2.0 Consensus size: 699
41208 CATGCTATTA
* * * * *
41218 AACTATAATGGAGAGTCCCATCTTTCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGGA
1 AACTATAATGGAGAGTCCCATCTTCCAAGATTGATAGCTTCTTGAGTTATCAAATAATTATTGGA
* * *
41283 AGCTTCTTGAATATCTAGTTATCTTTGTCTTGTTAGAGGCATTCTATCTAACAATAATGGGGAGT
66 AGCTTCTTG-A-A--TAGTTATCTTAGTCTTGATAGAGGCATTCTATCTAACAATAATGGAGAGT
* * *
41348 CCCATCTTTCATGATTGATTGTTTCTTAAGTTATCTAATTATTATTGGAAGCTTCTTGAATTTCT
127 CCCATCTTCCATGATTGATTGCTTATTAAGTTATCTAATTATTATTGGAAGCTTCTTGAATTTCT
* * *
41413 AGTTATCCCTGTTATGTTAGAGGCAGTCTATCTAACTATTATAGAGAATCCCATCTTCAATGATT
192 AGCTATCCCTGTTATGTTAGAGGCAGTCTATCTAACTATAATAGAGAATCCCATATTCAATGATT
* * * **
41478 TATTGCTTTTTGAGTTATCTAATTATTATTGGAAGCTTCTTGAATTTCTAGCTATCTTTGTCATG
257 GATTGCTTCTTGAGTTATCTAATTATTATTGAAAGCTTCTTGAATTTCTAGCTATCACTGTCATG
* * * * * * *
41543 TTAGAG-GTAGTTTACTAACTATAATGGAGATTCCTATATTCCATGATTGGTTGCTTCTTGAATT
322 TTAGAGCCTACTAT-CTAACTATAATGGAGAGTCCCATATTCCATGATTGATTACTTCTTGAATT
* * * *
41607 ATCTAATTATTAATGGAAGCTTCTTGAATTTGT-AGTCATCTCTGTCATGTTAGAGGCCTTCTAT
386 ATCTAATTA-TAATGGAAACTTCTCGAATTTCTAACT-ATCTCTGTCATGTTAGAGGCCTTCTAT
* * * *
41671 CTAACTGTAATGGAGAGTTCTATCTTCCATGATTGATT-GT-TT-CTTATGTAATTATTAATGGA
449 CTAACTATAATGGAGAGTCCCATCTTCCATGATTGATTAGTCTTACTTATCTAATTATTAATGGA
* * * * * * * *
41733 GGTTTCTTGAATTTTTAACTATCTCTATTATGTT-AGAGGCTTTCTATCTTACTATAGTGGAGAG
514 AGTTTCTTGAATTTCTAACTATCTATATCATGTTGA-AGGCCTTCAATCTAACTATAATGGAGAG
* * * *
41797 TCCCATATT-TCATAATTGATTGTTTATTGAGTTATCAAATTATT-ATTAGAAGCTTCTTAATTT
578 TCCCATCTTCT-ATAATTGATTGCTCATTGAGTTATCAAATTATTAATGA-AAGCTTCTTAATTT
*
41860 TCTAGCTATCTTTGTCATGTTAGAGGGC-TTCTATCTAACTATGTTGGAGGTATTCTATCT
641 T-TAGCTATCTCTGTCATGTTAGA-GGCTTTCTATCTAACTATGTTGGAGGTATTCTATCT
41920 AACTATAATGGAGAGTCCCATCTTCCAAGATTGATAGCTTCTTGAGTTATCAAATAATTATTGGA
1 AACTATAATGGAGAGTCCCATCTTCCAAGATTGATAGCTTCTTGAGTTATCAAATAATTATTGGA
* * *
41985 AGCTTCTTG-A-A-TT-TC-TAG-C-T-ATAGAGGCTTTCTATCTTACTATAATGGAGAGTCCCA
66 AGCTTCTTGAATAGTTATCTTAGTCTTGATAGAGGCATTCTATCTAACAATAATGGAGAGTCCCA
* * *
42042 TCTTCCATGATTGATTGCTTATTGAGTTATCTAATTATTGTTGGAAGTTTCTTGAATTTCTAGCT
131 TCTTCCATGATTGATTGCTTATTAAGTTATCTAATTATTATTGGAAGCTTCTTGAATTTCTAGCT
** * * * * * *
42107 ATCTTTGTTATGTTAGAGGCATTCTATTTAACTATAATGGAGAGTCTCATATTCCATGATTGATT
196 ATCCCTGTTATGTTAGAGGCAGTCTATCTAACTATAATAGAGAATCCCATATTCAATGATTGATT
* *
42172 GCTTCTTGAGTTATCTAATTATTATTGAAAGTTTCTTGAATTTCTAGCTATCACTGTTATGTTAG
261 GCTTCTTGAGTTATCTAATTATTATTGAAAGCTTCTTGAATTTCTAGCTATCACTGTCATGTTAG
* * * * *
42237 AGCCTCCTATCTAACTCTAATGGAGAGTCCCCTATTCCATGATTGATTACTTCTTGAGTTATTTA
326 AGCCTACTATCTAACTATAATGGAGAGTCCCATATTCCATGATTGATTACTTCTTGAATTATCTA
* * * * *
42302 TTTATATTGGAAACTTCTCGAATTTCTAACTTTTTGTGTCATGTTAGAGGCCTTCTATCTAACTA
391 ATTATAATGGAAACTTCTCGAATTTCTAACTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
* * * *
42367 TAATGTAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTATTATTGGAAGTTT
456 TAATGGAGAGTCCCATCTTCCATGATTGATTA-GTCTT-ACTTATCTAATTATTAATGGAAGTTT
* *
42432 CTTGAATTTCTAATTATCTATGTCATGTTGAAGGCCTTCAATCTAACTATAATGGAGAGTCCCAT
519 CTTGAATTTCTAACTATCTATATCATGTTGAAGGCCTTCAATCTAACTATAATGGAGAGTCCCAT
* * *
42497 CTTCTATGATTGATTGCTCGTTGAGTTATCAAATTATTAATGAAAGTTTCTTAATTTTTAGCTAT
584 CTTCTATAATTGATTGCTCATTGAGTTATCAAATTATTAATGAAAGCTTCTTAATTTTTAGCTAT
* *
42562 CTCTGTCATGTTAGAGTCTTTCTATCTTACTAT
649 CTCTGTCATGTTAGAGGCTTTCTATCTAACTAT
42595 AATGGAGAGT
Statistics
Matches: 580, Mismatches: 84, Indels: 31
0.83 0.12 0.04
Matches are distributed among these distances:
689 77 0.13
690 257 0.44
691 5 0.01
692 5 0.01
693 36 0.06
694 122 0.21
695 7 0.01
696 1 0.00
699 1 0.00
702 69 0.12
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (699 bp):
AACTATAATGGAGAGTCCCATCTTCCAAGATTGATAGCTTCTTGAGTTATCAAATAATTATTGGA
AGCTTCTTGAATAGTTATCTTAGTCTTGATAGAGGCATTCTATCTAACAATAATGGAGAGTCCCA
TCTTCCATGATTGATTGCTTATTAAGTTATCTAATTATTATTGGAAGCTTCTTGAATTTCTAGCT
ATCCCTGTTATGTTAGAGGCAGTCTATCTAACTATAATAGAGAATCCCATATTCAATGATTGATT
GCTTCTTGAGTTATCTAATTATTATTGAAAGCTTCTTGAATTTCTAGCTATCACTGTCATGTTAG
AGCCTACTATCTAACTATAATGGAGAGTCCCATATTCCATGATTGATTACTTCTTGAATTATCTA
ATTATAATGGAAACTTCTCGAATTTCTAACTATCTCTGTCATGTTAGAGGCCTTCTATCTAACTA
TAATGGAGAGTCCCATCTTCCATGATTGATTAGTCTTACTTATCTAATTATTAATGGAAGTTTCT
TGAATTTCTAACTATCTATATCATGTTGAAGGCCTTCAATCTAACTATAATGGAGAGTCCCATCT
TCTATAATTGATTGCTCATTGAGTTATCAAATTATTAATGAAAGCTTCTTAATTTTTAGCTATCT
CTGTCATGTTAGAGGCTTTCTATCTAACTATGTTGGAGGTATTCTATCT
Found at i:42525 original size:340 final size:339
Alignment explanation
Indices: 41914--42814 Score: 1095
Period size: 340 Copynumber: 2.7 Consensus size: 339
41904 TGGAGGTATT
* * * *
41914 CTATCTAACTATAATGGAGAGTCCCATCTTCCAAGATTGA-TAGCTTCTTGAGTTATCAAATAAT
1 CTATCTAACTATAATGGAGAGTCCCATATTCCATGATTGATTA-CTTCTTGAGTTATCTAATTAT
* * * * *
41978 TATTGGAAGCTTCTTGAATTTC------TA-G---C-T-ATAGAGGCTTTCTATCTTACTATAAT
65 TATTGAAAGCTTCTCGAATTTCTAAATATATGTATCATGTTAGAGGCCTTCTATCTAACTATAAT
*
42031 GGAGAGTCCCATCTTCCATGATTGATTGCTTATTGAGTTATCTAATTATTGTTGGAAGTTTCTTG
130 GGAGAGTCCCATCTTCCATGATTGATT-CTT-TTGAGTTATCTAATTATTATTGGAAGTTTCTTG
* * * * *
42096 AATTTCTAGCTATCTTTGTTATGTT-AGAGGCATTCTATTTAACTATAATGGAGAGTCTCATATT
193 AATTTCTAGCTATCTATGTCATGTTGA-AGGCCTTCTATCTAACTATAATGGAGAGTCCCATATT
* *
42160 CCATGATTGATTGCTTCTTGAGTTATCTAATTATTATTGAAAGTTTCTTGAATTTCTAGCTATCA
257 CCATGATTGATTGCTTCTTGAGTTATCAAATTATTAATGAAAGTTTCTT-AATTTCTAGCTATCA
*
42225 CTGTTATGTTAGAG-CCTC
321 CTGTCATGTTAGAGTCCTC
* * * *
42243 CTATCTAACTCTAATGGAGAGTCCCCTATTCCATGATTGATTACTTCTTGAGTTATTTATTTA-T
1 CTATCTAACTATAATGGAGAGTCCCATATTCCATGATTGATTACTTCTTGAGTTATCTAATTATT
* * * *
42307 ATTGGAAA-CTTCTCGAATTTCTAACTTTTTGTGTCATGTTAGAGGCCTTCTATCTAACTATAAT
66 ATT-GAAAGCTTCTCGAATTTCTAAATATATGTATCATGTTAGAGGCCTTCTATCTAACTATAAT
*
42371 GTAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTATTATTGGAAGTTTCTTG
130 GGAGAGTCCCATCTTCCATGATTGATT-CTT-TTGAGTTATCTAATTATTATTGGAAGTTTCTTG
** * *
42436 AATTTCTAATTATCTATGTCATGTTGAAGGCCTTCAATCTAACTATAATGGAGAGTCCCATCTTC
193 AATTTCTAGCTATCTATGTCATGTTGAAGGCCTTCTATCTAACTATAATGGAGAGTCCCATATTC
* * *
42501 TATGATTGATTGC-TCGTTGAGTTATCAAATTATTAATGAAAGTTTCTTAATTTTTAGCTATCTC
258 CATGATTGATTGCTTC-TTGAGTTATCAAATTATTAATGAAAGTTTCTTAATTTCTAGCTATCAC
* *
42565 TGTCATGTTAGAGTCTTT
322 TGTCATGTTAGAGTCCTC
* * * ** * *
42583 CTATCTTACTATAATGGAGAGTCTCATTTTTTATGATTGATTGCTTTTTGAGTTATCTAATTATT
1 CTATCTAACTATAATGGAGAGTCCCATATTCCATGATTGATTACTTCTTGAGTTATCTAATTATT
* * * *
42648 ATTGAAAGCTTCTTGAATTTCTAAATATATGTATCATGTTATAAGCCTTCTATCTAATTATAATG
66 ATTGAAAGCTTCTCGAATTTCTAAATATATGTATCATGTTAGAGGCCTTCTATCTAACTATAATG
* * *
42713 GAGAGTCCCATCTTCCACGATTG-TT-TTTTAAGTTATCTAATTATTATTGGAAGTTTATTGAAT
131 GAGAGTCCCATCTTCCATGATTGATTCTTTTGAGTTATCTAATTATTATTGGAAGTTTCTTGAAT
* * * *
42776 TTTTAGCTATCTCTGGCATGTTGGAGGCCTTCTATCTAA
196 TTCTAGCTATCTATGTCATGTTGAAGGCCTTCTATCTAA
42815 TTCTAATGTA
Statistics
Matches: 488, Mismatches: 65, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
328 16 0.03
329 55 0.11
330 2 0.00
334 1 0.00
335 1 0.00
337 66 0.14
338 3 0.01
339 29 0.06
340 240 0.49
341 75 0.15
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (339 bp):
CTATCTAACTATAATGGAGAGTCCCATATTCCATGATTGATTACTTCTTGAGTTATCTAATTATT
ATTGAAAGCTTCTCGAATTTCTAAATATATGTATCATGTTAGAGGCCTTCTATCTAACTATAATG
GAGAGTCCCATCTTCCATGATTGATTCTTTTGAGTTATCTAATTATTATTGGAAGTTTCTTGAAT
TTCTAGCTATCTATGTCATGTTGAAGGCCTTCTATCTAACTATAATGGAGAGTCCCATATTCCAT
GATTGATTGCTTCTTGAGTTATCAAATTATTAATGAAAGTTTCTTAATTTCTAGCTATCACTGTC
ATGTTAGAGTCCTC
Found at i:42596 original size:227 final size:224
Alignment explanation
Indices: 41912--42886 Score: 1009
Period size: 227 Copynumber: 4.4 Consensus size: 224
41902 GTTGGAGGTA
* * *
41912 TTCTATCTAACTATAATGGAGAGTCCCATCTTCCAAGATTGA-TAGCTTCTTGAGTTATCAAATA
1 TTCTATCTAACTATAATGGAGAGTCCCATCTTCCATGATTGATTA-CTTCTTGAGTTATCTAATT
* * * *
41976 ATTATTGGAAGCTTCTTGAATTTC---TAGCTA--T-A-G--AGGCTTTCTATCTTACTATAATG
65 ATTATTGAAAGCTTCTTGAATTTCTAATATCTATGTCATGTTAGGCCTTCTATCTAACTATAATG
* * *
42032 GAGAGTCCCATCTTCCATGATTGATTGCTTATTGAGTTATCTAATTATTGTTGGAAGTTTCTTGA
130 GAGAGTCCCATCTTCCATGATTGATTGC-TCTTGAGTTATCTAATTATTATTGAAAGTTTCTTGA
* * *
42097 ATTTCTAGCTATCTTTGTTATGTTAGAGGCA
194 ATTTCTAGCTATCTCTGTCATGTTAGAGGCC
* * * *
42128 TTCTATTTAACTATAATGGAGAGTCTCATATTCCATGATTGATTGCTTCTTGAGTTATCTAATTA
1 TTCTATCTAACTATAATGGAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTA
* * * * *
42193 TTATTGAAAGTTTCTTGAATTTCTAGCTATC-ACTGTTATGTTAGAGCCTCCTATCTAACTCTAA
66 TTATTGAAAGCTTCTTGAATTTCTA-ATATCTA-TGTCATGTTAG-GCCTTCTATCTAACTATAA
* * * * * *
42257 TGGAGAGTCCCCTATTCCATGATTGATTACTTCTTGAGTTATTTATTTA-TATTGGAAA-CTTCT
128 TGGAGAGTCCCATCTTCCATGATTGATTGC-TCTTGAGTTATCTAATTATTATT-GAAAGTTTCT
* * * * *
42320 CGAATTTCTAACTTTTTGTGTCATGTTAGAGGCC
191 TGAATTTCTAGCTATCTCTGTCATGTTAGAGGCC
*
42354 TTCTATCTAACTATAATGTAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTA
1 TTCTATCTAACTATAATGGAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTA
* * *
42419 TTATTGGAAGTTTCTTGAATTTCTAATTATCTATGTCATGTTGAAGGCCTTCAATCTAACTATAA
66 TTATTGAAAGCTTCTTGAATTTCTAA-TATCTATGTCATGTT--AGGCCTTCTATCTAACTATAA
* * *
42484 TGGAGAGTCCCATCTTCTATGATTGATTGCTCGTTGAGTTATCAAATTATTAATGAAAGTTTCTT
128 TGGAGAGTCCCATCTTCCATGATTGATTGCTC-TTGAGTTATCTAATTATTATTGAAAGTTTCTT
* * *
42549 -AATTTTTAGCTATCTCTGTCATGTTAGAGTCT
192 GAATTTCTAGCTATCTCTGTCATGTTAGAGGCC
* * * ** * *
42581 TTCTATCTTACTATAATGGAGAGTCTCATTTTTTATGATTGATTGCTTTTTGAGTTATCTAATTA
1 TTCTATCTAACTATAATGGAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTA
* * *
42646 TTATTGAAAGCTTCTTGAATTTCTAA-ATATATGTATCATGTTATAAGCCTTCTATCTAATTATA
66 TTATTGAAAGCTTCTTGAATTTCTAATATCTATG--TCATG-T-TAGGCCTTCTATCTAACTATA
* * * * *
42710 ATGGAGAGTCCCATCTTCCACGATTG-TT--TTTTAAGTTATCTAATTATTATTGGAAGTTTATT
127 ATGGAGAGTCCCATCTTCCATGATTGATTGCTCTTGAGTTATCTAATTATTATTGAAAGTTTCTT
* * *
42772 GAATTTTTAGCTATCTCTGGCATGTTGGAGGCC
192 GAATTTCTAGCTATCTCTGTCATGTTAGAGGCC
* * * * * * * * * * *
42805 TTCTATCTAATTCTAATGTACAATTCTATCTTCCATGATTAATTTCTTTTTGAGTTATCTATTTA
1 TTCTATCTAACTATAATGGAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTA
*
42870 -TGTT-AGAAGCTTCTTGA
66 TTATTGA-AAGCTTCTTGA
42887 TATGATCGCC
Statistics
Matches: 632, Mismatches: 100, Indels: 47
0.81 0.13 0.06
Matches are distributed among these distances:
216 77 0.12
217 1 0.00
219 1 0.00
220 3 0.00
222 2 0.00
223 42 0.07
224 80 0.13
225 6 0.01
226 136 0.22
227 273 0.43
228 10 0.02
229 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (224 bp):
TTCTATCTAACTATAATGGAGAGTCCCATCTTCCATGATTGATTACTTCTTGAGTTATCTAATTA
TTATTGAAAGCTTCTTGAATTTCTAATATCTATGTCATGTTAGGCCTTCTATCTAACTATAATGG
AGAGTCCCATCTTCCATGATTGATTGCTCTTGAGTTATCTAATTATTATTGAAAGTTTCTTGAAT
TTCTAGCTATCTCTGTCATGTTAGAGGCC
Found at i:43177 original size:17 final size:17
Alignment explanation
Indices: 43157--43189 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43147 TTTAGGGAAG
43157 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
*
43174 TAGTTCATTTATTAAA
1 TAGTTCATTAATTAAA
43190 TTAACTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:47307 original size:21 final size:21
Alignment explanation
Indices: 47283--47322 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47273 TAGACTTTAT
47283 TTTCAAAATAAAAAAATGATA
1 TTTCAAAATAAAAAAATGATA
*
47304 TTTCAAAATTAAAAAATGA
1 TTTCAAAATAAAAAAATGA
47323 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATAAAAAAATGATA
Found at i:51155 original size:19 final size:19
Alignment explanation
Indices: 51131--51167 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51121 ACCCCCTGGC
*
51131 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATACCCCCT
*
51150 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
51168 CACAGGGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCT
Found at i:52659 original size:15 final size:15
Alignment explanation
Indices: 52639--52680 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
52629 TTGTTTTTAA
52639 AATTTTGGATGTTTG
1 AATTTTGGATGTTTG
52654 AATTTTTGGATTGTTTG
1 AA-TTTTGGA-TGTTTG
52671 AA-TTTGGATG
1 AATTTTGGATG
52681 CTTATATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 8 0.32
16 7 0.28
17 8 0.32
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (15 bp):
AATTTTGGATGTTTG
Found at i:52662 original size:16 final size:17
Alignment explanation
Indices: 52641--52675 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
52631 GTTTTTAAAA
52641 TTTTGGA-TGTTTGAAT
1 TTTTGGATTGTTTGAAT
52657 TTTTGGATTGTTTGAAT
1 TTTTGGATTGTTTGAAT
52674 TT
1 TT
52676 GGATGCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (17 bp):
TTTTGGATTGTTTGAAT
Found at i:66995 original size:14 final size:14
Alignment explanation
Indices: 66966--67018 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
66956 TCTATCCCAC
* *
66966 TTTTCAATTTACTT
1 TTTTCACTTCACTT
66980 TTTT-ACTTCACTT
1 TTTTCACTTCACTT
*
66993 TTTTCACTTTACTT
1 TTTTCACTTCACTT
67007 TCTTTCATCTTC
1 T-TTTCA-CTTC
67019 TCCTTCCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 11 0.34
14 13 0.41
15 5 0.16
16 3 0.09
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTCACTTCACTT
Found at i:72398 original size:16 final size:16
Alignment explanation
Indices: 72377--72411 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
72367 ATTTATGAGG
72377 TTAATGAATCATTTTC
1 TTAATGAATCATTTTC
72393 TTAATGAATCATTTTC
1 TTAATGAATCATTTTC
72409 TTA
1 TTA
72412 GGCCATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (16 bp):
TTAATGAATCATTTTC
Found at i:76520 original size:15 final size:15
Alignment explanation
Indices: 76500--76529 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76490 ACTTAACTTT
76500 TTTTATTGCCAAGTA
1 TTTTATTGCCAAGTA
*
76515 TTTTATTGTCAAGTA
1 TTTTATTGCCAAGTA
76530 ATGTGTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (15 bp):
TTTTATTGCCAAGTA
Found at i:79437 original size:21 final size:21
Alignment explanation
Indices: 79421--79462 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
79411 GCGTTGCATT
79421 TCGCGTTGCAATAGTTGAAAA
1 TCGCGTTGCAATAGTTGAAAA
*
79442 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCAATAGTTGAAAA
79463 CGACCCGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (21 bp):
TCGCGTTGCAATAGTTGAAAA
Found at i:80036 original size:6 final size:6
Alignment explanation
Indices: 79995--80283 Score: 522
Period size: 6 Copynumber: 49.5 Consensus size: 6
79985 TCTCGTCTCG
79995 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
80037 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
80085 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
80133 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
80181 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT -GTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
80228 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT -GTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
80275 GGTCGT GGT
1 GGTCGT GGT
80284 AATACGTGTC
Statistics
Matches: 281, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
5 40 0.14
6 241 0.86
ACGTcount: A:0.00, C:0.17, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:80430 original size:19 final size:19
Alignment explanation
Indices: 80406--80442 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
80396 CTATCACAAC
* *
80406 GAATTTTGAAAATTGCAAA
1 GAATTTGGAAAATCGCAAA
80425 GAATTTGGAAAATCGCAA
1 GAATTTGGAAAATCGCAA
80443 CGACAACTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (19 bp):
GAATTTGGAAAATCGCAAA
Found at i:80498 original size:21 final size:21
Alignment explanation
Indices: 80455--80498 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
80445 ACAACTGTAG
** *
80455 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
80476 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
80497 AC
1 AC
80499 GCAAATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:81464 original size:14 final size:14
Alignment explanation
Indices: 81442--81475 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
81432 ACAAGTAACC
*
81442 ATAATAGTTAATGA
1 ATAACAGTTAATGA
81456 ATAACAGTTAATGA
1 ATAACAGTTAATGA
81470 ATAACA
1 ATAACA
81476 TGTGCTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (14 bp):
ATAACAGTTAATGA
Found at i:82744 original size:32 final size:32
Alignment explanation
Indices: 82691--82752 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
82681 AAAAAAACCT
*
82691 CAATAGGTAACGATCTATAGCGGCATTTGTTG
1 CAATAGGTAACGATATATAGCGGCATTTGTTG
*
82723 CAATAGGT-ACTGATATTTAGCGGCATTTGT
1 CAATAGGTAAC-GATATATAGCGGCATTTGT
82753 CTTACAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (32 bp):
CAATAGGTAACGATATATAGCGGCATTTGTTG
Found at i:82837 original size:44 final size:44
Alignment explanation
Indices: 82786--82958 Score: 251
Period size: 44 Copynumber: 4.0 Consensus size: 44
82776 TGAAATTTAG
*
82786 CGGCGTTTTTAGGATGCAAACGCCGCTAAAGGTCTGGTATATAA
1 CGGCGTTTTTAGGATACAAACGCCGCTAAAGGTCTGGTATATAA
* *
82830 CGGCGTTTTTAAGATACAAACGCCGCTAAAGGTCTGGTATATAG
1 CGGCGTTTTTAGGATACAAACGCCGCTAAAGGTCTGGTATATAA
** *
82874 CATCGTTTTTAGGATACAAACGCCGCTAAAGGTCTAGTATATAA
1 CGGCGTTTTTAGGATACAAACGCCGCTAAAGGTCTGGTATATAA
* * *
82918 TGGAG-TTTTAGTATACAAACGCCGCTAAAGGT-TGGTATATA
1 CGGCGTTTTTAGGATACAAACGCCGCTAAAGGTCTGGTATATA
82959 GTGGTGTTTG
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 8 0.07
43 26 0.23
44 81 0.70
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (44 bp):
CGGCGTTTTTAGGATACAAACGCCGCTAAAGGTCTGGTATATAA
Found at i:91425 original size:32 final size:34
Alignment explanation
Indices: 91362--91425 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 34
91352 CATCTCATCT
*
91362 TCAACCAAATCAGAGAGAAAAGATTATAAACAAC
1 TCAACCAAAACAGAGAGAAAAGATTATAAACAAC
91396 TCAACCAAAACA-AGA-AAGAAG-TTATAAACA
1 TCAACCAAAACAGAGAGAA-AAGATTATAAACA
91426 CTCCTAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 6 0.21
34 11 0.39
ACGTcount: A:0.58, C:0.17, G:0.11, T:0.14
Consensus pattern (34 bp):
TCAACCAAAACAGAGAGAAAAGATTATAAACAAC
Found at i:91977 original size:41 final size:40
Alignment explanation
Indices: 91932--92048 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 40
91922 TGTTTTTACA
* *
91932 AAAACTCCGCTAAATTACTAATCTTTTGCGGCGTTTCTATG
1 AAAACGCCACTAAATT-CTAATCTTTTGCGGCGTTTCTATG
* * *
91973 AAAACGCCACT-AATGTCCAATTCTTTTGCGGCGTTTGTATT
1 AAAACGCCACTAAAT-TCTAA-TCTTTTGCGGCGTTTCTATG
* * *
92014 AAAACGCCTCTAAAGTGCTAATCTATTGC-GCGTTT
1 AAAACGCCACTAAA-TTCTAATCTTTTGCGGCGTTT
92049 ATGGATACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
40 12 0.19
41 45 0.71
42 5 0.08
43 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (40 bp):
AAAACGCCACTAAATTCTAATCTTTTGCGGCGTTTCTATG
Found at i:95491 original size:9 final size:9
Alignment explanation
Indices: 95477--95514 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
95467 ATTATCAATA
95477 AAAATATTT
1 AAAATATTT
*
95486 AAAATATAT
1 AAAATATTT
95495 AAAA-ATTT
1 AAAATATTT
*
95503 AAAATTTTT
1 AAAATATTT
95512 AAA
1 AAA
95515 GAATAATACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATATTT
Found at i:96258 original size:15 final size:15
Alignment explanation
Indices: 96240--96272 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
96230 TTAATTTTTT
96240 ATTTTTTTAATATTA
1 ATTTTTTTAATATTA
*
96255 ATTTTTTTATTATTA
1 ATTTTTTTAATATTA
96270 ATT
1 ATT
96273 CTTAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTTTAATATTA
Found at i:96277 original size:22 final size:22
Alignment explanation
Indices: 96226--96277 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
96216 TTTGGTACCC
* *
96226 AATTTTAATTTTTTATTTTTTT
1 AATTTTAATTTTTTATATTATT
*
96248 AATATTAATTTTTT-TATTATT
1 AATTTTAATTTTTTATATTATT
96269 AATTCTTAA
1 AATT-TTAA
96278 AATTATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
AATTTTAATTTTTTATATTATT
Found at i:96311 original size:39 final size:39
Alignment explanation
Indices: 96271--96365 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 39
96261 TTATTATTAA
* * * *
96271 TTCTTAAAATTATTTTACCTTAACGTTCTATATTCATAAT
1 TTCTT-AAATTATTTCACCATAACATTCTAAATTCATAAT
96311 TTCTTAAATTATTTCACCATAACATTCTAAATTC-TAAAT
1 TTCTTAAATTATTTCACCATAACATTCTAAATTCAT-AAT
*
96350 TTATTAAATTATTTCA
1 TTCTTAAATTATTTCA
96366 TTTTCTCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.02
39 43 0.88
40 5 0.10
ACGTcount: A:0.36, C:0.15, G:0.01, T:0.48
Consensus pattern (39 bp):
TTCTTAAATTATTTCACCATAACATTCTAAATTCATAAT
Found at i:98043 original size:17 final size:17
Alignment explanation
Indices: 98021--98053 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98011 ACCTCAAAAT
98021 TTTAAAT-TTTTATATAA
1 TTTAAATATTTT-TATAA
98038 TTTAAATATTTTTATA
1 TTTAAATATTTTTATA
98054 TTTTGGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAATATTTTTATAA
Found at i:101367 original size:18 final size:16
Alignment explanation
Indices: 101344--101379 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
101334 TGATTATAAT
101344 GTGGAAGTGATTGTATTG
1 GTGGAAGTG-TTGT-TTG
101362 GTGGAAGTGTTGTTTG
1 GTGGAAGTGTTGTTTG
101378 GT
1 GT
101380 TGGTGCAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (16 bp):
GTGGAAGTGTTGTTTG
Found at i:102386 original size:20 final size:20
Alignment explanation
Indices: 102361--102398 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
102351 ATAATAATTT
*
102361 AAAAAATCTAAAAAAATTCA
1 AAAAAATATAAAAAAATTCA
*
102381 AAAAAATATAAGAAAATT
1 AAAAAATATAAAAAAATT
102399 TATATTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAAATATAAAAAAATTCA
Found at i:105232 original size:17 final size:17
Alignment explanation
Indices: 105207--105242 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
105197 CTGTTGTGTT
*
105207 GTCTGGGCCTAGAACGG
1 GTCTAGGCCTAGAACGG
*
105224 GTCTAGGCCTAGATCGG
1 GTCTAGGCCTAGAACGG
105241 GT
1 GT
105243 TTGATATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.22, G:0.39, T:0.22
Consensus pattern (17 bp):
GTCTAGGCCTAGAACGG
Found at i:105305 original size:12 final size:12
Alignment explanation
Indices: 105288--105330 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
105278 TATTAATTAT
*
105288 ATAATAATAACC
1 ATAATAATAATC
105300 ATAATAATAATC
1 ATAATAATAATC
*
105312 ATAATAAGAATC
1 ATAATAATAATC
105324 ATAATAA
1 ATAATAA
105331 GAATAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (12 bp):
ATAATAATAATC
Found at i:105938 original size:38 final size:38
Alignment explanation
Indices: 105887--105976 Score: 126
Period size: 38 Copynumber: 2.4 Consensus size: 38
105877 GGAGTTAGAT
* * * * *
105887 ATAACAATTATTGATTTCTCTTCACGAGGAAGTCAAGG
1 ATAACAAATATTGAATTCTCTTCACAACGAAGTCAAAG
105925 ATAACAAATATTGAATTCTCTTCACAACGAAGTCAAAG
1 ATAACAAATATTGAATTCTCTTCACAACGAAGTCAAAG
*
105963 ATAACAAAGATTGA
1 ATAACAAATATTGA
105977 CTTATATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (38 bp):
ATAACAAATATTGAATTCTCTTCACAACGAAGTCAAAG
Found at i:106688 original size:42 final size:42
Alignment explanation
Indices: 106608--106708 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
106598 AGGTCTTATG
* * * *
106608 GATGATCCGAAGGACTT-ATCATCTTACTCGAAAGACTTACA
1 GATGACCCGAAGGATTTAAGCATCATACTCGAAAGACTTACA
* *
106649 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAAGCATCATACTCGAAAGACTTACA
*
106691 GATGACCCAAAGGATTTA
1 GATGACCCGAAGGATTTA
106709 TGAATTTTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
41 15 0.29
42 37 0.71
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAAGCATCATACTCGAAAGACTTACA
Found at i:106985 original size:260 final size:259
Alignment explanation
Indices: 106123--107085 Score: 1403
Period size: 261 Copynumber: 3.7 Consensus size: 259
106113 CCCAAAGGTT
* * * * * * * * *
106123 TTACGGATGACCTGAAGGACTT-ATCATCTTGTTCGAAAAACTTACTTATGGCCCAAAGGACTTA
1 TTACAGATGACC-GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTA
*
106187 CAAATTTGGGAAATAATTTA-TCGGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAAT
65 CAAATTTTGGAAATAATTTACT-GGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAAT
* ** * * *
106251 TTCATTTTCTGAAGACATTAAATGAGAAACTTTTTTAATCGCTTTCTCATTCTCGTGTGAAAATC
129 TTCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGTGAAAATC
* * *
106316 ATGTGTAAACATCCTACCCGAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTTCT-TAAAA
194 ATGTGTAAACATCCTACCCGAAGGTCTTATGGATGG-CCGAAGGACTTATCATCTTACTCGAAAA
106380 CAC
258 -AC
* *
106383 TTACAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGACCCGAAGGATTTA
1 TTACAGATGACC-GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTA
* *
106448 CGAATTTTGGAAATAATTTACTGGGTAAGAAACTTTCGAAATCGTTTTCTTACTTTTCAAAAATT
65 CAAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATT
*
106513 TCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGTCAAAATCA
130 TCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGTGAAAATCA
* * * *
106578 TATGCAAACATCCTACCCGAAGGTCTTATGGATGATCCGAAGGACTTATCATCTTACTCGAAAGA
195 TGTGTAAACATCCTACCCGAAGGTCTTATGGATG-GCCGAAGGACTTATCATCTTACTCGAAAAA
106643 C
259 C
106644 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTA
1 TTACAGATGA-CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTA
** * * *
106709 TGAATTTTGAAAATAATTTACTGGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCCAAAATT
65 CAAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATT
* * *
106774 TCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCACGTGAAAAGCA
130 TCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGTGAAAATCA
* *
106839 TGTGTAAA-ATCCTACCCGAAGGTCTTATGGATGGCCTGAATGACTTATCATCTTGCTCGAAAAA
195 TGTGTAAACATCCTACCCGAAGGTCTTATGGATGGCC-GAAGGACTTATCATCTTACTCGAAAAA
106903 C
259 C
* * * * * *
106904 TTACAGATGGCTCAAAGGGTTTAAGGATCATGCTTGAAAGACTTACTGATGACCCGAAGGATTTA
1 TTACAGATGAC-CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTA
* *
106969 CAAATTTTGGAAATAATTTACTGGGTAGGAAACTTTGGAAATCGTTTTCTTACTTTTTAAAAATT
65 CAAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATT
107034 TCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTT
130 TCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTT
107086 TCAAAATTCA
Statistics
Matches: 637, Mismatches: 59, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
259 3 0.00
260 236 0.37
261 392 0.62
262 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (259 bp):
TTACAGATGACCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTAC
AAATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTT
CATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGTGAAAATCAT
GTGTAAACATCCTACCCGAAGGTCTTATGGATGGCCGAAGGACTTATCATCTTACTCGAAAAAC
Found at i:109851 original size:16 final size:17
Alignment explanation
Indices: 109815--109853 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
109805 TATTTTTGCT
*
109815 TTCTTTTTTTCCTCTTT
1 TTCTTTTTTTCCTCTTC
*
109832 TTCTTTTTTT-TTCTTC
1 TTCTTTTTTTCCTCTTC
109848 TTCTTT
1 TTCTTT
109854 GGATTAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTTTTCCTCTTC
Found at i:116035 original size:20 final size:20
Alignment explanation
Indices: 115990--116037 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
115980 AAATGTTTCC
*
115990 TCTCCCCCTGGTATCTGAAA
1 TCTCCCCCTGGTATATGAAA
**
116010 AATCCCCCTGGT-TAATGAAA
1 TCTCCCCCTGGTAT-ATGAAA
116030 TCTCCCCC
1 TCTCCCCC
116038 CCTCTGTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.23, C:0.38, G:0.12, T:0.27
Consensus pattern (20 bp):
TCTCCCCCTGGTATATGAAA
Found at i:117395 original size:107 final size:105
Alignment explanation
Indices: 117277--117955 Score: 893
Period size: 107 Copynumber: 6.4 Consensus size: 105
117267 TGGGTTCGCT
* * *
117277 CCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACAAACTTGTCTG-CCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAAC-GA-TTGTCTGCCCCCTATTTC
*
117340 TTCAGAGAGTATAAGAACCATAATCTTCATCAATCGCGTCTGCC
63 TTCAGAGAGTATAAG-ACCACAATCTTCATCAATCGCGTCTGCC
* *
117384 CCCTATTTCTTCAGAGAGTATAAGACTCGAACGATCTTCAACGATTGTGTCTGCCCCCTATATCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGA-T-TGTCTGCCCCCTATTTCT
*
117449 TCAGAGAGTATAAGACCCCAATCTTCATCAATCGCGTCTGCC
64 TCAGAGAGTATAAGACCACAATCTTCATCAATCGCGTCTGCC
117491 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTG-CGTGCCCCCTATTTCTT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTC-TGCCCCCTATTTCTT
*
117555 CAGAGAGTATAAGACCCACAATCTTCATCAATTGCG-CTGCC
65 CAGAGAGTATAAGA-CCACAATCTTCATCAATCGCGTCTGCC
117596 CCCTATTTCTTCAGAGAGTATAAGACTC--ACAATCTTCAACGATTGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATT--GTCTGCCCCCTATTTCT
* * *
117659 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
64 TCAGAGAGTATAAGAC-C--ACAATCTTCATCAATCGCGTCTGCC
117704 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATT--GTCTGCCCCCTATTTCT
*
117769 TCAGAGAGTATAAGACCCACAATCTTCATCAATTGCGTCTGCC
64 TCAGAGAGTATAAGA-CCACAATCTTCATCAATCGCGTCTGCC
* * *
117812 CCCTATTTCTTCAGAGAGTATAAGACTC--ACAATCTTCATCAATCGCGTCTGCCCCC--TTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGAT--TGTCTGCCCCCTATTTCT
*
117873 TCAGAGAGTATAAGACTCGAACAATCTTCCA-CGATCGCGTCTGCC
64 TCAGAGAGTATAAGAC-C--ACAATCTT-CATCAATCGCGTCTGCC
* *
117918 CCC--TTTCTTCAGGGAGTATAAGAC-C-CACAATCTTCAAC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
117956 AAATGGGTTC
Statistics
Matches: 528, Mismatches: 22, Indels: 47
0.88 0.04 0.08
Matches are distributed among these distances:
103 18 0.03
104 54 0.10
105 94 0.18
106 70 0.13
107 132 0.25
108 108 0.20
110 51 0.10
111 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (105 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTCTGCCCCCTATTTCTTC
AGAGAGTATAAGACCACAATCTTCATCAATCGCGTCTGCC
Found at i:117450 original size:55 final size:54
Alignment explanation
Indices: 117277--117957 Score: 889
Period size: 53 Copynumber: 12.8 Consensus size: 54
117267 TGGGTTCGCT
* *
117277 CCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACAAACTT--GTCTG-C
1 CCCTATTTCTTCAGAGAGTATAAGAC-TCAA-CAATCTTCAAC-AA-TTGCGTCTGCC
* * *
117331 CCCTATTTCTTCAGAGAGTATAAGAAC-C-ATAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCAACAATCTTCAACAATTGCGTCTGCC
* * *
117384 CCCTATTTCTTCAGAGAGTATAAGACTCGAACGATCTTCAACGATTGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATTGCGTCTGCC
* * * *
117439 CCCTATATCTTCAGAGAGTATAAGAC-C-CCAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATTGCGTCTGCC
*
117491 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCG--TGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATTGCGTCTGCC
* *
117544 CCCTATTTCTTCAGAGAGTATAAGAC-CCACAATCTTCATCAATTGCG-CTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATTGCGTCTGCC
*
117596 CCCTATTTCTTCAGAGAGTATAAGACTC-ACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATTGCGTCTGCC
*
117649 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATTGCGTCTGCC
*
117704 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATTGCGTCTGCC
* *
117759 CCCTATTTCTTCAGAGAGTATAAGAC-CCACAATCTTCATCAATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATTGCGTCTGCC
* *
117812 CCCTATTTCTTCAGAGAGTATAAGACTC-ACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATTGCGTCTGCC
* * *
117865 CCC--TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATTGCGTCTGCC
* *
117918 CCC--TTTCTTCAGGGAGTATAAGAC-CCACAATCTTCAACAA
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAA
117958 ATGGGTTCGC
Statistics
Matches: 569, Mismatches: 39, Indels: 41
0.88 0.06 0.06
Matches are distributed among these distances:
50 1 0.00
51 54 0.09
52 109 0.19
53 212 0.37
54 26 0.05
55 167 0.29
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (54 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATTGCGTCTGCC
Found at i:118133 original size:153 final size:155
Alignment explanation
Indices: 117944--118749 Score: 910
Period size: 153 Copynumber: 5.2 Consensus size: 155
117934 TATAAGACCC
* *
117944 ACAATCTTCAACAAATGGGTTCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTTC
1 ACAATCTTCAACACA--GGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTC
* *
118009 AAAC-GGTTCGCTCCTTCCTTCTTTAAGGAG-TAGAACTCGAACATCTTCAAACGGGTTCGCGCT
64 AAACGGGTTCGCTCCTTCTTTCTTTAAGGAGATAGAACTCGAACATCTTCAAACGGGTTCGCTC-
* *
118072 CTTCTTTCTTTAAGGATTATAGAACTCG
128 CTTCTTTCTCTAAGGAGTATAGAACTCG
* * * * *
118100 -CATATCTTC-ACACGGGTTCGCTCCTTCCTTCTCTAGGGAGTATGGAACTCGGACATCT-TT-A
1 ACA-ATCTTCAACACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCA
* * * *
118161 AACGGTTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCACACGGGTTCGCTCC
65 AACGGGTTCGCTCCTTCTTTCTTTAAGGAG-ATAGAACTCGAACATCTTCAAACGGGTTCGCTCC
* * *
118226 TTCCTTCTCTAGGGAGTATGGAACTCGG
129 TTCTTTCTCTAAGGAGTATAGAACTC-G
* *
118254 AC-ATCTTCAA-ACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACA--TCTTCAA
1 ACAATCTTCAACACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAA
* * *
118315 ACAGGTTCGCTCATTCCTTCTTTAAGGAGTATAGAACTCGAA-A-CTTCAAACGGGTTCGCTCCT
66 ACGGGTTCGCTCCTTCTTTCTTTAAGGAG-ATAGAACTCGAACATCTTCAAACGGGTTCGCTCCT
*
118378 TCTTTCTTTAAGGAGTATAG-ACTCG
130 TCTTTCTCTAAGGAGTATAGAACTCG
* * * *
118403 AACAATCTTCAACAAAGGTTCCCT-CC-CTTTCTCTAGGGAGTATAGAACTTGAACATTTTCTTC
1 -ACAATCTTCAACACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACA-TCTCTTC
*
118466 AAACGGGTTCGCTCC--CTTTCTTCAAGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCG
64 AAACGGGTTCGCTCCTTCTTTCTTTAAGGAG-ATAGAACTCGAACA---TCTTCAAACGGGTTCG
** *
118529 CTCCCCCTTTCTCTAGGGAGTATAGAACTCG
125 CTCCTTCTTTCTCTAAGGAGTATAGAACTCG
* * *
118560 AACAATCTTCAACAAACAGGTTCCCTCCCTCTTTCTCTAGGGAGTATAGAACTTGAACATTTTCT
1 -ACAATCTTCAAC--ACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACA-TCTCT
* *
118625 TCAAACGGGTTCGCTCCCTCTTTCTTCAAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGC
62 TCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAG-ATAGAACTCGAACATCTTCAAACGGGTTCGC
** * *
118690 TCCCCCTTTCTCTAGGGAGTATAGAACTTG
126 TCCTTCTTTCTCTAAGGAGTATAGAACTCG
* *
118720 AGCATTTTCTTCAA-ACGGGTTCGCTCCCTC
1 A-CA--ATCTTCAACACAGGTTCGCTCCCTC
118750 ACGAGAGTCT
Statistics
Matches: 571, Mismatches: 49, Indels: 57
0.84 0.07 0.08
Matches are distributed among these distances:
149 1 0.00
150 32 0.06
151 75 0.13
152 39 0.07
153 165 0.29
154 30 0.05
155 6 0.01
156 42 0.07
157 18 0.03
159 25 0.04
160 50 0.09
161 52 0.09
162 7 0.01
163 29 0.05
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (155 bp):
ACAATCTTCAACACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAA
ACGGGTTCGCTCCTTCTTTCTTTAAGGAGATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTT
CTTTCTCTAAGGAGTATAGAACTCG
Found at i:118171 original size:51 final size:51
Alignment explanation
Indices: 117955--118746 Score: 807
Period size: 51 Copynumber: 15.3 Consensus size: 51
117945 CAATCTTCAA
* * *
117955 CAAATGGGTTCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACA--TCTT
* * *
118008 CAAAC-GGTTCGCTCCTTCCTTCTTTAAGGAG--TAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
* * * * * *
118056 CAAACGGGTTCGCGCTCTTCTTTCTTTAAGGATTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTC-CTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
* * * *
118108 CACACGGGTTCGCTCCTTCCTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
* * * * * *
118159 TAAACGGTTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
* * * *
118210 CACACGGGTTCGCTCCTTCCTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
* * * *
118261 CAAACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
* * * * *
118312 CAAACAGGTTCGCTCATTCCTTCTTTAAGGAGTATAGAACTCGAA-A-CTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
* *
118361 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAG-ACTCGAACAATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAAC-ATCTT
** * *
118412 CAACAAAGGTTCCCTCC--CTTTCTCTAGGGAGTATAGAACTTGAACATTTTCTT
1 CAA-ACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACA---TCTT
*
118465 CAAACGGGTTCGCTCC--CTTTCT-TCAAGGAGTATAGAACTCGAACATCTTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCT-AGGGAGTATAGAACTCGAACA---TCTT
**
118517 CAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAAC-ATCTT
* * * *
118569 CAACAAACAGGTTCCCTCCCTCTTTCTCTAGGGAGTATAGAACTTGAACATTTTCTT
1 ---CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACA---TCTT
* *
118626 CAAACGGGTTCGCTCCCTCTTTCT-TCAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCT-AGGGAGTATAGAACTCGAACATCTT
** * *
118677 CAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTTGAGCATTTTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACA---TCTT
118731 CAAACGGGTTCGCTCC
1 CAAACGGGTTCGCTCC
118747 CTCACGAGAG
Statistics
Matches: 634, Mismatches: 77, Indels: 55
0.83 0.10 0.07
Matches are distributed among these distances:
48 16 0.03
49 45 0.07
50 48 0.08
51 257 0.41
52 121 0.19
53 12 0.02
54 87 0.14
55 44 0.07
57 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (51 bp):
CAAACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
Found at i:118999 original size:36 final size:35
Alignment explanation
Indices: 118947--119044 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 35
118937 AATGGATCTG
*
118947 CTTCACTACTTTTGGTGAAGACTTAAGATGGTTTA
1 CTTCACTACTCTTGGTGAAGACTTAAGATGGTTTA
*
118982 CTTCACTACTCTCTGGTGAAGACTT-A-ATGGTTTG
1 CTTCACTACTCT-TGGTGAAGACTTAAGATGGTTTA
* *
119016 C-TCACTTCTCTTCGGTGAAGGCTTAAGAT
1 CTTCACTACTCTT-GGTGAAGACTTAAGAT
119045 TAACTTTGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.02
33 19 0.35
34 9 0.16
35 14 0.25
36 12 0.22
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (35 bp):
CTTCACTACTCTTGGTGAAGACTTAAGATGGTTTA
Found at i:127272 original size:20 final size:20
Alignment explanation
Indices: 127227--127274 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
127217 AATTGTTTCC
*
127227 TCTCCCCCTGGTATCTGAAA
1 TCTCCCCCTGGTATATGAAA
**
127247 AATCCCCCTGGT-TAATGAAA
1 TCTCCCCCTGGTAT-ATGAAA
127267 TCTCCCCC
1 TCTCCCCC
127275 CCTCTGTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.23, C:0.38, G:0.12, T:0.27
Consensus pattern (20 bp):
TCTCCCCCTGGTATATGAAA
Found at i:144043 original size:22 final size:22
Alignment explanation
Indices: 144012--144053 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
144002 ACAAGTGTCG
144012 TAATTATCAAATAAAATAAACT
1 TAATTATCAAATAAAATAAACT
* * *
144034 TAATTTTCAATTTAAATAAA
1 TAATTATCAAATAAAATAAA
144054 TAAATAGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATTATCAAATAAAATAAACT
Done.