Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 56
Found at i:2944661 original size:18 final size:18
Alignment explanation
Indices: 2944638--2944673 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2944628 AACCCGACTT
2944638 GACCCGACCCGTTTACCC
1 GACCCGACCCGTTTACCC
2944656 GACCCGACCCGTTTACCC
1 GACCCGACCCGTTTACCC
2944674 ATTGACCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (18 bp):
GACCCGACCCGTTTACCC
Found at i:2947098 original size:24 final size:24
Alignment explanation
Indices: 2947072--2947214 Score: 175
Period size: 24 Copynumber: 6.0 Consensus size: 24
2947062 ATTTGATTAC
* *
2947072 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACCTGGATTT
* * *
2947096 TGATATGATA-TCTGACATGGATTG
1 TGATCTGATACT-TGACCTGGATTT
2947120 TGATC-GTATACTTGACCTGGATTT
1 TGATCTG-ATACTTGACCTGGATTT
*
2947144 TGATC-GAATACTTGACCTGAATTT
1 TGATCTG-ATACTTGACCTGGATTT
*
2947168 TGATCTGATACTTGACCTAGATTT
1 TGATCTGATACTTGACCTGGATTT
2947192 TGATCTGATACTTGACCTGGATT
1 TGATCTGATACTTGACCTGGATT
2947215 ATGTTATGAT
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
23 2 0.02
24 101 0.96
25 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (24 bp):
TGATCTGATACTTGACCTGGATTT
Found at i:2949222 original size:13 final size:13
Alignment explanation
Indices: 2949185--2949222 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2949175 GGTCATAACC
*
2949185 TGACCCGACCCCT
1 TGACCCGACCCGT
*
2949198 TTACCCGACCCGT
1 TGACCCGACCCGT
2949211 TGACCCGACCCG
1 TGACCCGACCCG
2949223 AACCGTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.50, G:0.18, T:0.16
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:2951763 original size:24 final size:24
Alignment explanation
Indices: 2951731--2951879 Score: 176
Period size: 24 Copynumber: 6.2 Consensus size: 24
2951721 TTTTCGATTT
2951731 GATTACTGATCTGATACTTGACATG
1 GATT-CTGATCTGATACTTGACATG
2951756 GATTCTGATCTGATA-TCTGACATG
1 GATTCTGATCTGATACT-TGACATG
* * *
2951780 GATTCTGATCGGATACTTGACCTA
1 GATTCTGATCTGATACTTGACATG
* *
2951804 GATTCTGATC-GAATACTTGACTTA
1 GATTCTGATCTG-ATACTTGACATG
* *
2951828 GATTTTGATCTGATACTTGACTTG
1 GATTCTGATCTGATACTTGACATG
* *
2951852 GATTTTGATCTGATACTTGACCTG
1 GATTCTGATCTGATACTTGACATG
2951876 GATT
1 GATT
2951880 ATGTTTTGTT
Statistics
Matches: 113, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
23 2 0.02
24 105 0.93
25 6 0.05
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
GATTCTGATCTGATACTTGACATG
Found at i:2951823 original size:72 final size:73
Alignment explanation
Indices: 2951731--2951880 Score: 198
Period size: 72 Copynumber: 2.1 Consensus size: 73
2951721 TTTTCGATTT
*
2951731 GATTACTGATCTGATACTTGACATGGATTCTGATCTGATA-TCTGACATGGATTCTGATCGGATA
1 GATTACTGATCTGATACTTGACATAGATTCTGATCTGATACT-TGACATGGATTCTGATCGGATA
2951795 CTTGACCTA
65 CTTGACCTA
* * * * *
2951804 GATT-CTGATC-GAATACTTGACTTAGATTTTGATCTGATACTTGACTTGGATTTTGATCTGATA
1 GATTACTGATCTG-ATACTTGACATAGATTCTGATCTGATACTTGACATGGATTCTGATCGGATA
*
2951867 CTTGACCTG
65 CTTGACCTA
2951876 GATTA
1 GATTA
2951881 TGTTTTGTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
71 1 0.01
72 61 0.91
73 5 0.07
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (73 bp):
GATTACTGATCTGATACTTGACATAGATTCTGATCTGATACTTGACATGGATTCTGATCGGATAC
TTGACCTA
Found at i:2952943 original size:39 final size:39
Alignment explanation
Indices: 2952900--2953034 Score: 115
Period size: 39 Copynumber: 3.6 Consensus size: 39
2952890 AAATACTTAA
* *
2952900 AATATATTTATTAATAATTTTCAAATTATAATATAA-TAT
1 AATATTTTTATTAATAATTAT-AAATTATAATATAATTAT
* *
2952939 AATATTTTTATTTTAATAA-TATAATTTTTAATATAATTAT
1 AATATTTTTA--TTAATAATTATAAATTATAATATAATTAT
* * *
2952979 AATATTTTTATAAATAATTA-ATATAATAAT-TAA-TAT
1 AATATTTTTATTAATAATTATAAATTATAATATAATTAT
*
2953015 -ATATTATT-TTAATAA-TATAA
1 AATATTTTTATTAATAATTATAA
2953035 TATTCTATTT
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
33 2 0.03
34 7 0.09
35 7 0.09
36 3 0.04
37 3 0.04
38 12 0.15
39 23 0.29
40 15 0.19
41 7 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (39 bp):
AATATTTTTATTAATAATTATAAATTATAATATAATTAT
Found at i:2953000 original size:19 final size:20
Alignment explanation
Indices: 2952925--2953038 Score: 77
Period size: 20 Copynumber: 6.0 Consensus size: 20
2952915 AATTTTCAAA
2952925 TTATAATATAATATAATATTT
1 TTATAA-ATAATATAATATTT
*
2952946 TTATTTTAATAATAT-A-ATTT
1 TTA--TAAATAATATAATATTT
*
2952966 TTA-ATATAATTATAATATTT
1 TTATAAATAA-TATAATATTT
2952986 TTATAAATAAT-TAATA---
1 TTATAAATAATATAATATTT
* *
2953002 TAATAATTAATAT-ATATTAT
1 TTATAAATAATATAATATT-T
2953022 TT-T-AATAATATAATATT
1 TTATAAATAATATAATATT
2953039 CTATTTTTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 26
0.68 0.07 0.24
Matches are distributed among these distances:
16 12 0.16
17 5 0.07
18 10 0.14
19 12 0.16
20 16 0.22
21 9 0.12
22 7 0.10
23 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAAATAATATAATATTT
Found at i:2953006 original size:12 final size:12
Alignment explanation
Indices: 2952991--2953037 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
2952981 TATTTTTATA
2952991 AATAATTAATAT
1 AATAATTAATAT
2953003 AATAATTAATAT
1 AATAATTAATAT
* *
2953015 -AT-ATTATTTT
1 AATAATTAATAT
2953025 AATAATATAATAT
1 AATAAT-TAATAT
2953038 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
10 6 0.21
11 4 0.14
12 14 0.50
13 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATAATTAATAT
Found at i:2953008 original size:45 final size:39
Alignment explanation
Indices: 2952928--2953035 Score: 115
Period size: 40 Copynumber: 2.9 Consensus size: 39
2952918 TTTCAAATTA
2952928 TAATATAATATAATATTTTTATTTTAATAATATAATTTT
1 TAATATAATATAATATTTTTATTTTAATAATATAATTTT
* *
2952967 TAATATAATTATAATATTTTTA--TAAATAAT-TAA--TA
1 TAATATAA-TATAATATTTTTATTTTAATAATATAATTTT
*
2953002 T-A-ATAAT-TAATATATATTATTTTAATAATATAAT
1 TAATATAATATAATAT-TTTTATTTTAATAATATAAT
2953036 ATTCTATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
31 6 0.10
32 5 0.08
33 4 0.07
34 8 0.14
35 5 0.08
37 3 0.05
38 7 0.12
39 8 0.14
40 13 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
TAATATAATATAATATTTTTATTTTAATAATATAATTTT
Found at i:2953014 original size:42 final size:40
Alignment explanation
Indices: 2952928--2953021 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 40
2952918 TTTCAAATTA
** **
2952928 TAATATAA-TATAATATTTTTATTTTAATAATATAATTTT
1 TAATATAATTATAATATTTTTATAATAATAATATAATAAT
2952967 TAATATAATTATAATATTTTTATAAATAATTAATATAATAAT
1 TAATATAATTATAATATTTTTAT-AATAA-TAATATAATAAT
2953009 TAATATATATTAT
1 TAATATA-ATTAT
2953022 TTTAATAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 8 0.17
40 14 0.30
41 3 0.06
42 17 0.36
43 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (40 bp):
TAATATAATTATAATATTTTTATAATAATAATATAATAAT
Found at i:2953043 original size:21 final size:22
Alignment explanation
Indices: 2953002--2953045 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2952992 ATAATTAATA
*
2953002 TAATAATTAATATATATTATTT
1 TAATAATTAATATATACTATTT
2953024 TAATAATATAATAT-T-CTATTT
1 TAATAAT-TAATATATACTATTT
2953045 T
1 T
2953046 TTATCAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAATTAATATATACTATTT
Found at i:2957657 original size:42 final size:42
Alignment explanation
Indices: 2957608--2957691 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
2957598 ATTGTAAATT
* *
2957608 CAAATGAAGTTAAAGAATCATCTTTGAGAGAAGTAAATGATG
1 CAAATGAAGTTAAAGAATCATCATTGAGAGAAGTAAAGGATG
*
2957650 CAAATGAATTTAAAGAATCATCATTGAGAGAAGTAAAGGATG
1 CAAATGAAGTTAAAGAATCATCATTGAGAGAAGTAAAGGATG
2957692 AACAAGCTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (42 bp):
CAAATGAAGTTAAAGAATCATCATTGAGAGAAGTAAAGGATG
Found at i:2958542 original size:54 final size:54
Alignment explanation
Indices: 2958461--2958804 Score: 517
Period size: 54 Copynumber: 6.4 Consensus size: 54
2958451 TTCGTGGTTT
*** * * * *
2958461 TTGCACACATAGTGATTATACGGTAATTCACAAACTCATTATGAATTACGTGGG
1 TTGCACACATAGTGCCAATACAGTAATTCACAAACTAATTATGAATTACTTAGG
* * *
2958515 TTCCACACATAGTGCCGATACAATAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACAGTAATTCACAAACTAATTATGAATTACTTAGG
* * *
2958569 TTGCATACATAGTGCCAATACTGTAATTCAAAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACAGTAATTCACAAACTAATTATGAATTACTTAGG
* *
2958623 TTGCACACATAATGCCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACAGTAATTCACAAACTAATTATGAATTACTTAGG
* *
2958677 TTGCGCACATAGTGCCAATACAGTAATTCACAAACAAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACAGTAATTCACAAACTAATTATGAATTACTTAGG
* *
2958731 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACAGTAATTCACAAACTAATTATGAATTACTTAGG
2958785 TTGCACACATAGTGCCAATA
1 TTGCACACATAGTGCCAATA
2958805 TTATCATAAC
Statistics
Matches: 262, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 262 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACAGTAATTCACAAACTAATTATGAATTACTTAGG
Found at i:2964346 original size:15 final size:15
Alignment explanation
Indices: 2964326--2964363 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
2964316 GTGGCAAGAT
2964326 GAAATGGATGTTATG
1 GAAATGGATGTTATG
2964341 GAAATGGATGTTATG
1 GAAATGGATGTTATG
2964356 GAAATGGA
1 GAAATGGA
2964364 ATGATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (15 bp):
GAAATGGATGTTATG
Found at i:2974157 original size:19 final size:19
Alignment explanation
Indices: 2974109--2974159 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
2974099 AAAGAAAAGG
2974109 AAAATAAAAAGTAAAACAAT
1 AAAATAAAAA-TAAAACAAT
2974129 ATATAA-AAAAAT-AAACAAGT
1 A-A-AATAAAAATAAAACAA-T
2974149 AAAATAAAAAT
1 AAAATAAAAAT
2974160 GCTATGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
18 2 0.07
19 13 0.48
20 4 0.15
21 6 0.22
22 2 0.07
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAATAAAAATAAAACAAT
Found at i:2975486 original size:24 final size:24
Alignment explanation
Indices: 2975459--2975530 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
2975449 GTAAACGGAG
*
2975459 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
2975483 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
2975507 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
2975530 A
1 A
2975531 GGTAACGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 15 0.36
24 27 0.64
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.19
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:2975490 original size:12 final size:12
Alignment explanation
Indices: 2975463--2975531 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
2975453 ACGGAGATAT
* *
2975463 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
2975475 CAGAATTCATAT
1 CAGAATTCAGAA
2975487 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
2975499 CAGAATCCAGAT
1 CAGAATTCAGAA
2975511 CAGAA-TCAGAA
1 CAGAATTCAGAA
2975522 CAGAATTCAG
1 CAGAATTCAG
2975532 GTAACGTATC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 11 0.24
12 32 0.71
13 2 0.04
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2975542 original size:47 final size:48
Alignment explanation
Indices: 2975461--2975551 Score: 116
Period size: 47 Copynumber: 1.9 Consensus size: 48
2975451 AAACGGAGAT
*
2975461 ATCAGAAATCAAAACAGAATTCATATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
* *
2975509 ATCAG-AATCAGAACAGAATTCAGGTAAC-G-TATCATAACAGAAT
1 ATCAGAAATCAAAACAGAATTCA--TAACAGATATCAGAACAGAAT
2975552 TCAATTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
47 29 0.76
48 6 0.16
49 3 0.08
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
Found at i:2976667 original size:18 final size:18
Alignment explanation
Indices: 2976646--2976681 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2976636 CTGCCATCCG
*
2976646 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
2976664 ATCTTATCATTTAATTCA
1 ATCTTATCATTTAATTCA
2976682 GTCATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:2978028 original size:18 final size:18
Alignment explanation
Indices: 2978005--2978044 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2977995 ACGGGTCAAT
2978005 GGGTCGGGTAAACAGGTC
1 GGGTCGGGTAAACAGGTC
* *
2978023 GGGTCGGGTCAACGGGTC
1 GGGTCGGGTAAACAGGTC
2978041 GGGT
1 GGGT
2978045 AAATGGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.17, G:0.50, T:0.17
Consensus pattern (18 bp):
GGGTCGGGTAAACAGGTC
Found at i:2978034 original size:31 final size:31
Alignment explanation
Indices: 2977996--2978063 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
2977986 CGCCGATCAA
*
2977996 CGGGTCAATGGGTCGGGTAAACAGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACAGGTCGGGT
**
2978027 CGGGTCAACGGGTCGGGTAAATGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACAGGTCGGGT
2978058 CGGGTC
1 CGGGTC
2978064 GGGTTGTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.16, C:0.18, G:0.47, T:0.19
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTAAACAGGTCGGGT
Found at i:2978038 original size:13 final size:13
Alignment explanation
Indices: 2978022--2978058 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2978012 GTAAACAGGT
2978022 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
2978035 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
*
2978048 TGGGTCGGGTC
1 CGGGTCGGGTC
2978059 GGGTCGGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:2980190 original size:24 final size:24
Alignment explanation
Indices: 2980163--2980234 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
2980153 GTAAACGGAG
* *
2980163 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACATAATTC
* *
2980187 ATATCAGATATCAGAACATAATCC
1 ATATCAGAAATCAGAACATAATTC
*
2980211 AGATCAG-AATCAGAACATAATTC
1 ATATCAGAAATCAGAACATAATTC
2980234 A
1 A
2980235 GGTAACGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 15 0.37
24 26 0.63
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (24 bp):
ATATCAGAAATCAGAACATAATTC
Found at i:2981377 original size:18 final size:18
Alignment explanation
Indices: 2981356--2981390 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2981346 TGCCATCCGG
*
2981356 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
2981374 TCTTATCATTTAATTCA
1 TCTTATCATTTAATTCA
2981391 GTCCTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2982719 original size:8 final size:8
Alignment explanation
Indices: 2982679--2982756 Score: 56
Period size: 8 Copynumber: 9.5 Consensus size: 8
2982669 TCAAAGTTTT
2982679 GGTCAACAG
1 GGTCAAC-G
2982688 TGGTCAACG
1 -GGTCAACG
2982697 CCGGTCAAC-
1 --GGTCAACG
2982706 GGTCAACG
1 GGTCAACG
2982714 GGTCAACG
1 GGTCAACG
2982722 GGT---CG
1 GGTCAACG
*
2982727 GGTCAACA
1 GGTCAACG
*
2982735 GGTCAGGTCG
1 GGTCA--ACG
2982745 GGTCAACG
1 GGTCAACG
2982753 GGTC
1 GGTC
2982757 GGCTAAATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
5 5 0.09
7 7 0.12
8 23 0.41
9 1 0.02
10 20 0.36
ACGTcount: A:0.22, C:0.26, G:0.37, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:2982719 original size:15 final size:16
Alignment explanation
Indices: 2982689--2982722 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
2982679 GGTCAACAGT
2982689 GGTCAACGCCGGTCAAC
1 GGTCAACG-CGGTCAAC
2982706 GGTCAACG-GGTCAAC
1 GGTCAACGCGGTCAAC
2982721 GG
1 GG
2982723 GTCGGGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (16 bp):
GGTCAACGCGGTCAAC
Found at i:2982730 original size:13 final size:13
Alignment explanation
Indices: 2982712--2982774 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
2982702 CAACGGTCAA
2982712 CGGGTCAACGGGT
1 CGGGTCAACGGGT
2982725 CGGGTCAACAGGTCAGGT
1 CGGGTCAAC--G---GGT
2982743 CGGGTCAACGGGT
1 CGGGTCAACGGGT
* * *
2982756 CGGCTAAATGGGT
1 CGGGTCAACGGGT
2982769 CGGGTC
1 CGGGTC
2982775 GGGTTGGGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 26 0.65
15 1 0.03
16 1 0.03
18 12 0.30
ACGTcount: A:0.17, C:0.22, G:0.43, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:2982745 original size:18 final size:18
Alignment explanation
Indices: 2982722--2982756 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2982712 CGGGTCAACG
2982722 GGTCGGGTCAACAGGTCA
1 GGTCGGGTCAACAGGTCA
*
2982740 GGTCGGGTCAACGGGTC
1 GGTCGGGTCAACAGGTC
2982757 GGCTAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GGTCGGGTCAACAGGTCA
Found at i:2982775 original size:31 final size:31
Alignment explanation
Indices: 2982712--2982778 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
2982702 CAACGGTCAA
* *
2982712 CGGGTCAACGGGTCGGGTCAACAGGTCAGGT
1 CGGGTCAACGGGTCGGCTAAACAGGTCAGGT
** *
2982743 CGGGTCAACGGGTCGGCTAAATGGGTCGGGT
1 CGGGTCAACGGGTCGGCTAAACAGGTCAGGT
2982774 CGGGT
1 CGGGT
2982779 TGGGTTGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.45, T:0.18
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGCTAAACAGGTCAGGT
Found at i:2984782 original size:24 final size:24
Alignment explanation
Indices: 2984755--2984826 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
2984745 GTAAACGGAG
*
2984755 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* * *
2984779 ATATCAGATATCAGAACATAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
2984803 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
2984826 A
1 A
2984827 GGTAACACAC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 14 0.35
24 26 0.65
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:2984805 original size:12 final size:11
Alignment explanation
Indices: 2984763--2984857 Score: 66
Period size: 12 Copynumber: 8.2 Consensus size: 11
2984753 AGATATCAGA
*
2984763 AATCAAAACAG
1 AATCAGAACAG
* *
2984774 AATTCATATCAG
1 AA-TCAGAACAG
*
2984786 ATATCAGAACAT
1 A-ATCAGAACAG
*
2984798 AATCCAGATCAG
1 AAT-CAGAACAG
2984810 AATCAGAACAG
1 AATCAGAACAG
2984821 AATTCAGGTAACA-
1 AA-TCA-G-AACAG
* *
2984834 CACCAGAACAG
1 AATCAGAACAG
2984845 AATCAGAACAG
1 AATCAGAACAG
2984856 AA
1 AA
2984858 CACACCGGAG
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
10 4 0.06
11 25 0.38
12 29 0.45
13 3 0.05
14 4 0.06
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.16
Consensus pattern (11 bp):
AATCAGAACAG
Found at i:2985921 original size:18 final size:18
Alignment explanation
Indices: 2985900--2985934 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2985890 TGCCATCCGG
*
2985900 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
2985918 TCTTATCATTTAATTCA
1 TCTTATCATTTAATTCA
2985935 GTCCTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2987262 original size:15 final size:16
Alignment explanation
Indices: 2987232--2987265 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
2987222 AGTCAACAGT
2987232 GGTCAACGCCGGTCAAC
1 GGTCAACG-CGGTCAAC
2987249 GGTCAACG-GGTCAAC
1 GGTCAACGCGGTCAAC
2987264 GG
1 GG
2987266 GTCGGGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (16 bp):
GGTCAACGCGGTCAAC
Found at i:2987273 original size:13 final size:13
Alignment explanation
Indices: 2987255--2987286 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2987245 CAACGGTCAA
*
2987255 CGGGTCAACGGGT
1 CGGGTCAACAGGT
2987268 CGGGTCAACAGGT
1 CGGGTCAACAGGT
2987281 CGGGTC
1 CGGGTC
2987287 GGGTAAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACAGGT
Found at i:2987286 original size:18 final size:18
Alignment explanation
Indices: 2987263--2987309 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
2987253 AACGGGTCAA
2987263 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
* *
2987281 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACAGGT
*
2987299 CAGGTCGGGTC
1 CGGGTCGGGTC
2987310 GGGTTGTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:2990641 original size:54 final size:54
Alignment explanation
Indices: 2990561--2990809 Score: 354
Period size: 54 Copynumber: 4.6 Consensus size: 54
2990551 TCTGCGGTTT
*** * * *
2990561 TTGCACACATAGTGATGATACGATAATTCATAAACTAATTATAAATTACATAGG
1 TTGCACACATAGTGCCAATACGATAATTCACAAACTAATTATGAATTACTTAGG
* * * *
2990615 TTGTACAAATAGTACCAATACAATAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACGATAATTCACAAACTAATTATGAATTACTTAGG
* *
2990669 TTACACACATAGTGCCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACGATAATTCACAAACTAATTATGAATTACTTAGG
*
2990723 TTGCACACATAGTGCCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACGATAATTCACAAACTAATTATGAATTACTTAGG
* * *
2990777 TTCCACACATAGTGCCAATATGGTAATTCACAA
1 TTGCACACATAGTGCCAATACGATAATTCACAA
2990810 CATATACATT
Statistics
Matches: 176, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 176 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGATAATTCACAAACTAATTATGAATTACTTAGG
Found at i:3022772 original size:75 final size:75
Alignment explanation
Indices: 3022683--3022845 Score: 186
Period size: 76 Copynumber: 2.2 Consensus size: 75
3022673 TAAGCTCAAG
* *
3022683 TTTAGGATAATATTTTAAACATTATAT-TTTAACTTT-GAATTTTAGTTTAAATAGGTTTTAGTA
1 TTTAGGATATTATTTT-AACATTATATCTTT-ACTTTAGAATTCTAGTTTAAATAGGTTTTAGTA
*
3022746 TTTTAATTAAGT
64 TTTTAATTAAGA
* * * ** *
3022758 TTTAGGATATTATTTTTATATTTTATCTTTGTTTTAGGTATTCTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATATTATTTTAACATTATATCTTTACTTTA-GAATTCTAGTTTAAATAGGTTTTAGTAT
*
3022823 TTTAATTAGGA
65 TTTAATTAAGA
*
3022834 TTTAGAATATTA
1 TTTAGGATATTA
3022846 ACATTTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
74 10 0.14
75 18 0.24
76 46 0.62
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.54
Consensus pattern (75 bp):
TTTAGGATATTATTTTAACATTATATCTTTACTTTAGAATTCTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGA
Found at i:3023025 original size:12 final size:12
Alignment explanation
Indices: 3022995--3023025 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3022985 AATAAAATCT
3022995 TATTTTTCTCTC
1 TATTTTTCTCTC
*
3023007 TAGTTTTCTCTC
1 TATTTTTCTCTC
3023019 TATTTTT
1 TATTTTT
3023026 TGCATACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.68
Consensus pattern (12 bp):
TATTTTTCTCTC
Found at i:3032237 original size:35 final size:35
Alignment explanation
Indices: 3032163--3032240 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
3032153 AAATTGCAGT
* * *
3032163 GCAAAAGTTTAATGAAACTGTAAAAGTATGTTGAG
1 GCAAAAGTTTAATGAAACTGTAAAAGTATGCTAAA
*
3032198 GCAAAAGTTTAA-GTAAATTGTAAAAGTATGCTAAA
1 GCAAAAGTTTAATG-AAACTGTAAAAGTATGCTAAA
3032233 GCAAAAGT
1 GCAAAAGT
3032241 AAATTGAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.03
35 37 0.97
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (35 bp):
GCAAAAGTTTAATGAAACTGTAAAAGTATGCTAAA
Found at i:3036872 original size:18 final size:19
Alignment explanation
Indices: 3036851--3036896 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
3036841 AACGATGGTA
3036851 ATGTGGTAGC-AAATGGAT
1 ATGTGGTAGCAAAATGGAT
* *
3036869 ATGTTGTGGCAAAATGGAT
1 ATGTGGTAGCAAAATGGAT
3036888 -TGTGTGTAG
1 ATGTG-GTAG
3036897 TGCGATCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (19 bp):
ATGTGGTAGCAAAATGGAT
Found at i:3038007 original size:11 final size:11
Alignment explanation
Indices: 3037969--3038011 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
3037959 TTGAAATCAA
*
3037969 GTTTTCATTAG
1 GTTTTCTTTAG
3037980 GTTTTCTTTAAG
1 GTTTTCTTT-AG
* *
3037992 TTTTTCTTTTG
1 GTTTTCTTTAG
3038003 GTTTTCTTT
1 GTTTTCTTT
3038012 CAATTATGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.67
Consensus pattern (11 bp):
GTTTTCTTTAG
Found at i:3041617 original size:8 final size:9
Alignment explanation
Indices: 3041594--3041628 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3041584 TTTCAATTTC
3041594 TATTTTTGT
1 TATTTTTGT
3041603 TATTTTTGT
1 TATTTTTGT
*
3041612 TATTTTTATT
1 TATTTTT-GT
3041622 TATTTTT
1 TATTTTT
3041629 CTTGACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (9 bp):
TATTTTTGT
Found at i:3043899 original size:12 final size:12
Alignment explanation
Indices: 3043882--3043926 Score: 90
Period size: 12 Copynumber: 3.8 Consensus size: 12
3043872 CATAGGAGGC
3043882 ATCAAGTTTGAA
1 ATCAAGTTTGAA
3043894 ATCAAGTTTGAA
1 ATCAAGTTTGAA
3043906 ATCAAGTTTGAA
1 ATCAAGTTTGAA
3043918 ATCAAGTTT
1 ATCAAGTTT
3043927 TCATTAGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (12 bp):
ATCAAGTTTGAA
Found at i:3051049 original size:97 final size:97
Alignment explanation
Indices: 3050931--3051119 Score: 351
Period size: 97 Copynumber: 1.9 Consensus size: 97
3050921 TTTTTAGTTA
*
3050931 TTATTATTATTTTATTAGGAATTAGAGTTAAGACATGTTTAGTTTGTTATTATTTTATTCATTAG
1 TTATTATTATTTTATTAGGAATTAGAGTTAAGACAGGTTTAGTTTGTTATTATTTTATTCATTAG
*
3050996 TTATTTAGGACCTTTAGAACTCACCCCCTATG
66 TTATTTAGGACCTTTAGAACTAACCCCCTATG
*
3051028 TTATTATTATTTTATTAGGAATTAGAGTTAGGACAGGTTTAGTTTGTTATTATTTTATTCATTAG
1 TTATTATTATTTTATTAGGAATTAGAGTTAAGACAGGTTTAGTTTGTTATTATTTTATTCATTAG
3051093 TTATTTAGGACCTTTAGAACTAACCCC
66 TTATTTAGGACCTTTAGAACTAACCCC
3051120 TATATAAAGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (97 bp):
TTATTATTATTTTATTAGGAATTAGAGTTAAGACAGGTTTAGTTTGTTATTATTTTATTCATTAG
TTATTTAGGACCTTTAGAACTAACCCCCTATG
Found at i:3053779 original size:27 final size:29
Alignment explanation
Indices: 3053738--3053794 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 29
3053728 AATTAGTATT
3053738 TTATTTATTTATTTATTCA-T-ATATTTA
1 TTATTTATTTATTTATTCACTAATATTTA
3053765 TTATTTATATT-TTTATTCACTAATATTTA
1 TTATTTAT-TTATTTATTCACTAATATTTA
3053794 T
1 T
3053795 ATGAAATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 16 0.59
28 3 0.11
29 8 0.30
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (29 bp):
TTATTTATTTATTTATTCACTAATATTTA
Found at i:3056044 original size:15 final size:14
Alignment explanation
Indices: 3056019--3056060 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
3056009 TTTTCATGCA
3056019 TACAT-TTGCATTT
1 TACATCTTGCATTT
3056032 TACATCCTTGCATTT
1 TACAT-CTTGCATTT
* *
3056047 TTCATTTTGCATTT
1 TACATCTTGCATTT
3056061 ATACTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 12 0.48
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (14 bp):
TACATCTTGCATTT
Found at i:3062858 original size:50 final size:50
Alignment explanation
Indices: 3062778--3062878 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 50
3062768 AATGATTGAG
*
3062778 ACATCTGAGCAGAATACACAGAAAAGGATGAATGTGTTGTCAAATGTTTT
1 ACATCTGAGCAGAATACACAGAAAAGGATGAATGTATTGTCAAATGTTTT
*
3062828 ACATCTGAGTAGAA-ACCACATGAAAA-GATGAATGTATTGTCAAATGTTTT
1 ACATCTGAGCAGAATA-CACA-GAAAAGGATGAATGTATTGTCAAATGTTTT
3062878 A
1 A
3062879 TGAACCAGTG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
49 1 0.02
50 41 0.87
51 5 0.11
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.29
Consensus pattern (50 bp):
ACATCTGAGCAGAATACACAGAAAAGGATGAATGTATTGTCAAATGTTTT
Found at i:3063279 original size:22 final size:22
Alignment explanation
Indices: 3063250--3063304 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
3063240 ATCTACACTC
**
3063250 TTCAAAGATGGTAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
3063272 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
3063294 TTCAAAGATGA
1 TTCAAAGATGA
3063305 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:3063909 original size:113 final size:113
Alignment explanation
Indices: 3063738--3064608 Score: 1281
Period size: 113 Copynumber: 7.7 Consensus size: 113
3063728 ACTTTTTACT
*
3063738 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* ** * *
3063803 AGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TCTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTGCTTGAATTCATCATTC-GATGGATCAGCA
* *
3063851 TTTCCAGAAAAAGTTCATAATGAGAA-AATTTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAG
1 TTTCCAGAAAAAGTTCATAATGAGAAGAA-CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
3063915 AAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
65 AAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
* *
3063964 TTTCCAGAAAAAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
3064029 AGAATTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
66 AGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
* ****
3064077 TTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
3064142 AGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGAT-GATTCAGTA
66 AGAACTTGTTCAACCTTTT-GCTTGAATTCATCATTCGATGGA-TCAGCA
****
3064190 TTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * ** * *
3064255 AGAATTTATTCAACCTTTTGCTCAAATCCATCA-TCTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTGCTTGAATTCATCATTC-GATGGATCAGCA
*
3064303 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
3064368 AGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
66 AGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
* *
3064416 TTTCCAG-AAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
3064480 AGAACTTGTTTAACATTTTGCTTGAATTCATCATTCGATGGATCAGCA
66 AGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
* ***** *
3064528 TTGCCATTTCGAGTTTATAATGAGAAGAACTCATCTGAAG-AGG-AGAAGAAGTTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
3064591 AGAACTTGTTCAACCTTT
66 AGAACTTGTTCAACCTTT
3064609 GCATGACTCT
Statistics
Matches: 692, Mismatches: 56, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
111 36 0.05
112 119 0.17
113 524 0.76
114 13 0.02
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
Found at i:3066278 original size:7 final size:7
Alignment explanation
Indices: 3066266--3066291 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3066256 AATTAAATAT
3066266 ATTTTGA
1 ATTTTGA
3066273 ATTTTGA
1 ATTTTGA
3066280 ATTTTGA
1 ATTTTGA
3066287 ATTTT
1 ATTTT
3066292 TAATAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
ATTTTGA
Found at i:3073694 original size:36 final size:34
Alignment explanation
Indices: 3073654--3074111 Score: 270
Period size: 38 Copynumber: 12.6 Consensus size: 34
3073644 GTTTTTGAAA
*
3073654 ATATATTATATAGTTTTGAAAATGACTTTTAAAA-AT
1 ATATAATATATAGTTTTGAAAA--A-TTTTAAAACAT
* *
3073690 ATATATTATATAGTTTTTGAAAACGATTTTTGAAA-AT
1 ATATAATATATAG-TTTTGAAAA--A-TTTTAAAACAT
* * * * *
3073727 ATATATTTTATAATTTTTGAAAACA---T-ATATAT
1 ATATAATATAT-AGTTTTGAAAA-ATTTTAAAACAT
*
3073759 A-AT-ATATA-ATTTTTGAAAACATTTTAAAAACAT
1 ATATAATATATAGTTTTGAAAA-ATTTT-AAAACAT
*
3073792 ATATAATATATAGTTTTCAAAACATTTTAAAAACAT
1 ATATAATATATAGTTTTGAAAA-ATTTT-AAAACAT
* *
3073828 ATATAATATATAGTTTTAAAAACATTTTGAAAATAT
1 ATATAATATATAGTTTTGAAAA-ATTTT-AAAACAT
* * * **
3073864 ATATATATATATACATAATAT-ATAGTTTTTGAAAACAT
1 ATATA-ATATATA-GT--TTTGAAAAATTTT-AAAACAT
3073902 ATATAATATATAGTTTTGAAAACATTTTGAAAACATAT
1 ATATAATATATAGTTTTGAAAA-ATTTT-AAAAC--AT
3073940 ATATAATATATAGTTTTGAAAACATTTTGAAAACAT
1 ATATAATATATAGTTTTGAAAA-ATTTT-AAAACAT
* *
3073976 ATATAAAATATATAGTTTTTGAAACATTTTGAAAATAT
1 ATAT--AATATATAG-TTTTGAAAAATTTT-AAAACAT
* * *
3074014 ATATAATATATAATTTTTTGAAAACAATTTTTAAATAT
1 ATATAATATAT-A-GTTTTG-AAA-AATTTTAAAACAT
* * *
3074052 ATATAATATATAATTTTTCGAAAACAATTTTTAAATAT
1 ATATAATATAT-AGTTTT-G-AAA-AATTTTAAAACAT
3074090 ATATAATATATAAGTTTTGAAA
1 ATATAATATAT-AGTTTTGAAA
3074112 TCGTTTTTGA
Statistics
Matches: 362, Mismatches: 33, Indels: 54
0.81 0.07 0.12
Matches are distributed among these distances:
28 13 0.04
30 3 0.01
31 5 0.01
32 4 0.01
33 5 0.01
34 4 0.01
35 7 0.02
36 102 0.28
37 65 0.18
38 137 0.38
39 15 0.04
40 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (34 bp):
ATATAATATATAGTTTTGAAAAATTTTAAAACAT
Found at i:3073756 original size:28 final size:28
Alignment explanation
Indices: 3073715--3073780 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
3073705 TTTGAAAACG
*
3073715 ATTTTTG-AAA-ATATATAT--TTTATA
1 ATTTTTGAAAACATATATATAATATATA
3073739 ATTTTTGAAAACATATATATAATATATA
1 ATTTTTGAAAACATATATATAATATATA
3073767 ATTTTTGAAAACAT
1 ATTTTTGAAAACAT
3073781 TTTAAAAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 7 0.19
25 3 0.08
26 8 0.22
28 19 0.51
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (28 bp):
ATTTTTGAAAACATATATATAATATATA
Found at i:3073793 original size:28 final size:28
Alignment explanation
Indices: 3073735--3073794 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
3073725 ATATATATTT
* *
3073735 TATAATTTTTGAAAACATATATATAATA
1 TATAATTTTTGAAAACATATATAAAACA
*
3073763 TATAATTTTTGAAAACAT-TTTAAAAACA
1 TATAATTTTTGAAAACATATAT-AAAACA
3073791 TATA
1 TATA
3073795 TAATATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (28 bp):
TATAATTTTTGAAAACATATATAAAACA
Found at i:3073845 original size:25 final size:25
Alignment explanation
Indices: 3073816--3073926 Score: 102
Period size: 25 Copynumber: 4.5 Consensus size: 25
3073806 TTTCAAAACA
3073816 TTTTAAAAACATATATAATATATAG
1 TTTTAAAAACATATATAATATATAG
* *
3073841 TTTTAAAAACAT-TTTGAAAATATA-
1 TTTTAAAAACATATAT-AATATATAG
* * * * *
3073865 -TATATATATATACATAATATATAG
1 TTTTAAAAACATATATAATATATAG
*
3073889 TTTTTGAAAACATATATAATATATAG
1 -TTTTAAAAACATATATAATATATAG
*
3073915 TTTTGAAAACAT
1 TTTTAAAAACAT
3073927 TTTGAAAACA
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
23 14 0.21
24 3 0.05
25 31 0.47
26 18 0.27
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (25 bp):
TTTTAAAAACATATATAATATATAG
Found at i:3073931 original size:11 final size:11
Alignment explanation
Indices: 3073915--3073975 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 11
3073905 TAATATATAG
3073915 TTTTGAAAACA
1 TTTTGAAAACA
3073926 TTTTGAAAACA
1 TTTTGAAAACA
*
3073937 TATATAT-AATATATA
1 T-T-T-TGAA-A-ACA
3073952 GTTTTGAAAACA
1 -TTTTGAAAACA
3073964 TTTTGAAAACA
1 TTTTGAAAACA
3073975 T
1 T
3073976 ATATAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
11 24 0.59
12 3 0.07
13 5 0.12
14 5 0.12
15 3 0.07
16 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:3073994 original size:27 final size:27
Alignment explanation
Indices: 3073964--3074016 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
3073954 TTTGAAAACA
3073964 TTTTGAAAACATATAT-AAAATATATAGT
1 TTTTG-AAACAT-TATGAAAATATATAGT
*
3073992 TTTTGAAACATTTTGAAAATATATA
1 TTTTGAAACATTATGAAAATATATA
3074017 TAATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.09
27 16 0.70
28 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTGAAACATTATGAAAATATATAGT
Found at i:3074119 original size:36 final size:37
Alignment explanation
Indices: 3073741--3074111 Score: 391
Period size: 38 Copynumber: 9.9 Consensus size: 37
3073731 ATTTTATAAT
*
3073741 TTTTGAAAACATATATATAATATATAATTTTTGAAAACA
1 TTTTG-AAA-ATATATATAATATATAAGTTTTGAAAACA
* * *
3073780 TTTTAAAAACATATATAATATAT-AGTTTTCAAAACA
1 TTTTGAAAATATATATAATATATAAGTTTTGAAAACA
* * *
3073816 TTTTAAAAACATATATAATATAT-AGTTTTAAAAACA
1 TTTTGAAAATATATATAATATATAAGTTTTGAAAACA
** * **
3073852 TTTTGAAAATATATATATATATATACA-TAAT-ATATAGT
1 TTTTGAAAATATATATA-ATATATA-AGTTTTGA-AAACA
*
3073890 TTTTGAAAACATATATAATATAT-AGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAAGTTTTGAAAACA
3073926 TTTTGAAAACATATATATAATATAT-AGTTTTGAAAACA
1 TTTTG-AAA-ATATATATAATATATAAGTTTTGAAAACA
* *
3073964 TTTTGAAAACATATATAAAATATATAGTTTTTG-AAACA
1 TTTTGAAAATATATATAATATATA-AG-TTTTGAAAACA
*
3074002 TTTTGAAAATATATATAATATATAATTTTTTGAAAACAA
1 TTTTGAAAATATATATAATATATAA-GTTTTGAAAAC-A
* *
3074041 TTTT-TAAATATATATAATATATAATTTTTCGAAAACAA
1 TTTTGAAAATATATATAATATATAAGTTTT-GAAAAC-A
*
3074079 TTTT-TAAATATATATAATATATAAGTTTTGAAA
1 TTTTGAAAATATATATAATATATAAGTTTTGAAA
3074112 TCGTTTTTGA
Statistics
Matches: 291, Mismatches: 26, Indels: 32
0.83 0.07 0.09
Matches are distributed among these distances:
35 1 0.00
36 83 0.29
37 49 0.17
38 143 0.49
39 15 0.05
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAAGTTTTGAAAACA
Found at i:3074119 original size:74 final size:73
Alignment explanation
Indices: 3073751--3074111 Score: 362
Period size: 74 Copynumber: 4.9 Consensus size: 73
3073741 TTTTGAAAAC
* * *
3073751 ATATATATAATATATAATTTTTGAAAACATTTTAAAAACATATATAATATAT-AGTTTTCAAAAC
1 ATATATATAATATATAATTTTTGAAAACATTTTGAAAATATATATAATATATAAGTTTTGAAAAC
*
3073815 ATTTTAAAA
66 ATTTT-TAA
* * * **
3073824 ACATATATAATATAT-AGTTTTAAAAACATTTTGAAAATATATATATATATATACA-TAAT-ATA
1 ATATATATAATATATAATTTTTGAAAACATTTTGAAAATATATATA-ATATATA-AGTTTTGA-A
* *
3073886 TA-GTTTTTGAAA
63 AACATTTTT--AA
* *
3073898 ACATATATAATATAT-AGTTTTGAAAACATTTTGAAAACATATATATAATATAT-AGTTTTGAAA
1 ATATATATAATATATAATTTTTGAAAACATTTTG-AAA-ATATATATAATATATAAGTTTTGAAA
*
3073961 ACATTTTGAAAA
64 ACATTTT--TAA
* * *
3073973 CATATATAAAATATATAGTTTTTG-AAACATTTTGAAAATATATATAATATATAATTTTTTGAAA
1 -ATATATATAATATATAATTTTTGAAAACATTTTGAAAATATATATAATATATAA-GTTTTGAAA
3074037 ACAATTTTTAA
64 AC-ATTTTTAA
*
3074048 ATATATATAATATATAATTTTTCGAAAACAATTTT-TAAATATATATAATATATAAGTTTTGAAA
1 ATATATATAATATATAATTTTT-GAAAAC-ATTTTGAAAATATATATAATATATAAGTTTTGAAA
3074112 TCGTTTTTGA
Statistics
Matches: 241, Mismatches: 26, Indels: 40
0.79 0.08 0.13
Matches are distributed among these distances:
72 26 0.11
73 26 0.11
74 77 0.32
75 32 0.13
76 65 0.27
77 15 0.06
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (73 bp):
ATATATATAATATATAATTTTTGAAAACATTTTGAAAATATATATAATATATAAGTTTTGAAAAC
ATTTTTAA
Found at i:3074129 original size:20 final size:20
Alignment explanation
Indices: 3074104--3074143 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3074094 AATATATAAG
* *
3074104 TTTTGAAATCGTTTTTGAAA
1 TTTTGAAAACGTTTTAGAAA
3074124 TTTTGAAAACGTTTTAGAAA
1 TTTTGAAAACGTTTTAGAAA
3074144 ATATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTTGAAAACGTTTTAGAAA
Found at i:3074231 original size:22 final size:21
Alignment explanation
Indices: 3074160--3074233 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
3074150 ATAAGATATA
*
3074160 TTTTTTA-AAATTTTTTTCGAT
1 TTTTTTATTAATTTTTTT-GAT
* *
3074181 TATTTTTTTTAATTTTTTTTAT
1 T-TTTTTATTAATTTTTTTGAT
**
3074203 TAATTTATTAATTTATTTTGAT
1 TTTTTTATTAATTT-TTTTGAT
3074225 TTTTTTATT
1 TTTTTTATT
3074234 TTTTAGGTCC
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 11 0.27
22 21 0.51
23 9 0.22
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (21 bp):
TTTTTTATTAATTTTTTTGAT
Found at i:3081122 original size:261 final size:258
Alignment explanation
Indices: 3080660--3081139 Score: 642
Period size: 261 Copynumber: 1.8 Consensus size: 258
3080650 CAAGGCAAGA
* *
3080660 AGGGCTATCTGTCAACAAACCTTCGAGTTCGTTACATTCAGCTCAAGGGCATATCAAATTTACAA
1 AGGGCTATCTGTCAACAAACCTTCGAGTTCATTACATTCAGCTCAAGGGCATAACAAATTTACAA
* *
3080725 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTATCAAGTTTAATTCCATTCAGCTC
66 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTATCAAGTTCAATTCCATTCAGATC
* * * *
3080790 GATGACATATCAACCACATGGTAGTTACGAGGAACTACTTTCTGGTTGAAGTTTAAACCAAGGTC
131 GATGACATATCAACCACATGGTAGTCACGAAGAACTACTTTCTGATCGAAGTTTAAACCAAGGTC
* *
3080855 TTTAAGTCAATAAGAAGATCTGGGGCAATCTCTCAATCTAGTATAGCATAACTCAAGGTGATG
196 TTTAAGTCAAGAAGAAGATATGGGGCAATCTCTCAATCTAGTATAGCATAACTCAAGGTGATG
* * *
3080918 AGGGTTATCTGTCAACAAAAAACCTTTGAGTTCAATTCCATTCAGCTCAAGGGCATAACAAATTT
1 AGGGCTATCTGTCAAC---AAACCTTCGAGTTC-ATTACATTCAGCTCAAGGGCATAACAAATTT
* ** * * * *
3080983 ACAACATAGCTCAAGGGGAGAAGGGCTATCTGTCAATGAAGA-CTTTCGAGTTCGATTCCATTCA
62 ACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTATCAAGTTCAATTCCATTCA
* * * * *
3081047 GATCGA-GAGCGTATCAACCGCATTGTAG-CAGCGAATAACTACTTTCTGATCGAAGTTTAAACT
127 GATCGATGA-CATATCAACCACATGGTAGTCA-CGAAGAACTACTTTCTGATCGAAGTTTAAACC
* *
3081110 GAGGTCTTTAAGTCAAGAAGGAGATATGGG
190 AAGGTCTTTAAGTCAAGAAGAAGATATGGG
3081140 TTAGCTATGT
Statistics
Matches: 189, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
258 15 0.08
260 3 0.02
261 105 0.56
262 66 0.35
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (258 bp):
AGGGCTATCTGTCAACAAACCTTCGAGTTCATTACATTCAGCTCAAGGGCATAACAAATTTACAA
CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTATCAAGTTCAATTCCATTCAGATC
GATGACATATCAACCACATGGTAGTCACGAAGAACTACTTTCTGATCGAAGTTTAAACCAAGGTC
TTTAAGTCAAGAAGAAGATATGGGGCAATCTCTCAATCTAGTATAGCATAACTCAAGGTGATG
Found at i:3081799 original size:26 final size:27
Alignment explanation
Indices: 3081769--3081831 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
3081759 TTTGAAAACG
* * *
3081769 ATTTTTGAAAATATATATATTATATA-
1 ATTTTTGAAAACATACATATAATATAT
*
3081795 ATTTTTCAAAACATACATATAATATAT
1 ATTTTTGAAAACATACATATAATATAT
*
3081822 AGTTTTGAAA
1 ATTTTTGAAA
3081832 GCATTTTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (27 bp):
ATTTTTGAAAACATACATATAATATAT
Found at i:3081800 original size:39 final size:37
Alignment explanation
Indices: 3081699--3082020 Score: 155
Period size: 38 Copynumber: 9.2 Consensus size: 37
3081689 AAAAAATCGG
*
3081699 TTTTTG-AAA-ATATATTATAT-AGTTTTGAAAACGA
1 TTTTTGAAAATATATATTATATAATTTTTGAAAACGA
*
3081733 TTTTTGAAAATATATATTATATAGTTTTTGAAAACGA
1 TTTTTGAAAATATATATTATATAATTTTTGAAAACGA
*
3081770 TTTTTGAAAATATATATATTATATAATTTTTCAAAAC-A
1 TTTTTG-AAA-ATATATATTATATAATTTTTGAAAACGA
* * *
3081808 ----T--ACATATA-A-TATAT-AGTTTTGAAAGC-A
1 TTTTTGAAAATATATATTATATAATTTTTGAAAACGA
*** * * * *
3081835 TTTTGAAAACATATATATAATATATAGTTTTGAAAA-TA
1 -TTTTTGAAAATATATATTATATA-ATTTTTGAAAACGA
* *
3081873 -TTTTGAAAACATATATAATATAT-AGTTTTGAAAAC-A
1 TTTTTG-AAA-ATATATATTATATAATTTTTGAAAACGA
* *
3081909 ----T----ATATATAATATATAGTTTTTGAAAAC-A
1 TTTTTGAAAATATATATTATATAATTTTTGAAAACGA
3081937 -TTTTGAAAATATATATAATATATAATTTTTTGAAAAC-A
1 TTTTTGAAAATATATAT--TATATAA-TTTTTGAAAACGA
* * *
3081975 TTTTTTAAATATATATAATATATAAGTTTTGAAAACG-
1 TTTTTGAAA-ATATATATTATATAATTTTTGAAAACGA
*
3082012 TCTTTGAAA
1 TTTTTGAAA
3082021 TTTTGAAAAC
Statistics
Matches: 228, Mismatches: 26, Indels: 65
0.71 0.08 0.20
Matches are distributed among these distances:
27 23 0.10
28 16 0.07
29 1 0.00
30 5 0.02
31 2 0.01
33 1 0.00
34 14 0.06
35 11 0.05
36 29 0.13
37 43 0.19
38 45 0.20
39 31 0.14
40 7 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTTTGAAAATATATATTATATAATTTTTGAAAACGA
Found at i:3081853 original size:38 final size:38
Alignment explanation
Indices: 3081797--3082020 Score: 212
Period size: 38 Copynumber: 6.2 Consensus size: 38
3081787 ATTATATAAT
* * *
3081797 TTTTCAAAACATACATATAATATATAGTTTTGAAAGCA
1 TTTTGAAAACATATATATAATATATAGTTTTGAAAACA
*
3081835 TTTTGAAAACATATATATAATATATAGTTTTGAAAATA
1 TTTTGAAAACATATATATAATATATAGTTTTGAAAACA
3081873 TTTTGAAAAC--ATATATAATATATA-----G------
1 TTTTGAAAACATATATATAATATATAGTTTTGAAAACA
3081898 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATATAATATATAG-TTTTGAAAACA
*
3081937 TTTTG-AAA-ATATATATAATATATAATTTTTTGAAAACA
1 TTTTGAAAACATATATATAATATAT-A-GTTTTGAAAACA
** *
3081975 TTTT-TTAA-ATATATATAATATATAAGTTTTGAAAACG
1 TTTTGAAAACATATATATAATATAT-AGTTTTGAAAACA
3082012 TCTTTGAAA
1 T-TTTGAAA
3082021 TTTTGAAAAC
Statistics
Matches: 157, Mismatches: 10, Indels: 37
0.77 0.05 0.18
Matches are distributed among these distances:
25 10 0.06
27 14 0.09
31 1 0.01
33 1 0.01
36 14 0.09
37 26 0.17
38 85 0.54
39 6 0.04
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (38 bp):
TTTTGAAAACATATATATAATATATAGTTTTGAAAACA
Found at i:3081865 original size:27 final size:27
Alignment explanation
Indices: 3081835--3081937 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
3081825 TTTGAAAGCA
3081835 TTTTGAAAACATATATATAATATATAG
1 TTTTGAAAACATATATATAATATATAG
*
3081862 TTTTGAAAATATTTTGAAAACATATATAATATATAG
1 TTTTGAAAACA---T------ATATATAATATATAG
3081898 TTTTGAAAACATATATATAATATATAG
1 TTTTGAAAACATATATATAATATATAG
3081925 TTTTTGAAAACAT
1 -TTTTGAAAACAT
3081938 TTTGAAAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 19
0.75 0.02 0.22
Matches are distributed among these distances:
27 25 0.39
28 12 0.19
30 1 0.02
33 1 0.02
36 25 0.39
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTGAAAACATATATATAATATATAG
Found at i:3081915 original size:29 final size:28
Alignment explanation
Indices: 3081873--3081937 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
3081863 TTTGAAAATA
3081873 TTTTGAAAAC--ATATATAATATATAG-
1 TTTTGAAAACATATATATAATATATAGT
3081898 TTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATATATAATATATAGT
3081926 TTTTGAAAACAT
1 TTTTGAAAACAT
3081938 TTTGAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
25 10 0.27
27 15 0.41
28 12 0.32
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (28 bp):
TTTTGAAAACATATATATAATATATAGT
Found at i:3081939 original size:102 final size:100
Alignment explanation
Indices: 3081708--3082010 Score: 396
Period size: 102 Copynumber: 3.0 Consensus size: 100
3081698 GTTTTTGAAA
*
3081708 ATATATTATATAGTTTTGAAAACGATTTTTGAAAATATATAT--TATATAGTTTTTGAAAACGAT
1 ATATAATATATAGTTTTGAAAAC-A-TTTTGAAAATATATATAATATATAG-TTTTGAAAAC-A-
* * *
3081771 TTTTGAAAATATATATATTATATAATTTTTCAAAACATAC
61 TTTTGAAAATATATATAATATATAAGTTTTGAAAACATAC
* *
3081811 ATATAATATATAGTTTTGAAAGCATTTTGAAAACATATATATAATATATAGTTTTGAAAATATTT
1 ATATAATATATAGTTTTGAAAACATTTTG-AAA-ATATATATAATATATAGTTTTGAAAACATTT
* *
3081876 TGAAAACATATATAATATAT-AGTTTTGAAAACATAT
64 TGAAAATATATATAATATATAAGTTTTGAAAACATAC
*
3081912 ATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAATTTTTTGAAAACATT
1 ATATAATATATAG-TTTTGAAAACATTTTGAAAATATATATAATATAT-A-GTTTTGAAAACATT
**
3081977 TTTTAAATATATATAATATATAAGTTTTGAAAAC
63 TTGAAAATATATATAATATATAAGTTTTGAAAAC
3082011 GTCTTTGAAA
Statistics
Matches: 178, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
100 15 0.08
101 35 0.20
102 70 0.39
103 42 0.24
104 9 0.05
105 7 0.04
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (100 bp):
ATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTG
AAAATATATATAATATATAAGTTTTGAAAACATAC
Found at i:3082026 original size:20 final size:20
Alignment explanation
Indices: 3082001--3082042 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3081991 AATATATAAG
3082001 TTTTGAAAACGTCTTT-GAAA
1 TTTTGAAAACGT-TTTAGAAA
3082021 TTTTGAAAACGTTTTAGAAA
1 TTTTGAAAACGTTTTAGAAA
3082041 TT
1 TT
3082043 ATATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTTGAAAACGTTTTAGAAA
Found at i:3082109 original size:16 final size:17
Alignment explanation
Indices: 3082087--3082128 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
3082077 CTTTTTTTAT
3082087 TTATTATTTATTT-TTCA
1 TTATTATTTATTTATT-A
3082104 TT-TTATTTATTTATTA
1 TTATTATTTATTTATTA
3082120 TTATTATTT
1 TTATTATTT
3082129 TCAGGTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATTTATTTATTA
Found at i:3082120 original size:23 final size:22
Alignment explanation
Indices: 3082081--3082129 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
3082071 AGTATTCTTT
*
3082081 TTTTATTTATTATTTATTTTTCA
1 TTTTATTTATTATTTATTATT-A
3082104 TTTTATTTATT-TATTATTATTA
1 TTTTATTTATTAT-TTATTATTA
3082126 TTTT
1 TTTT
3082130 CAGGTCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATTTATTATTTATTATTA
Found at i:3083628 original size:32 final size:32
Alignment explanation
Indices: 3083586--3083657 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
3083576 TGACGACTCT
3083586 AACCCACTTATTTAAATTGAAGCACAATTCCA
1 AACCCACTTATTTAAATTGAAGCACAATTCCA
* *
3083618 AACTCACTTATTTAAATTGAAGCCCAATTCCA
1 AACCCACTTATTTAAATTGAAGCACAATTCCA
3083650 AACCCACT
1 AACCCACT
3083658 CGAAAGACGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (32 bp):
AACCCACTTATTTAAATTGAAGCACAATTCCA
Found at i:3085406 original size:28 final size:29
Alignment explanation
Indices: 3085349--3085410 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
3085339 TGAAAAATAA
3085349 ATAAATAAATATTAAAATAATTTATATAT
1 ATAAATAAATATTAAAATAATTTATATAT
3085378 ATAAA-AAATA-TAAAATATTATTTATTATAT
1 ATAAATAAATATTAAAATA--ATTTA-TATAT
3085408 ATA
1 ATA
3085411 TATTTATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.23
28 5 0.17
29 10 0.33
30 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAAATAAATATTAAAATAATTTATATAT
Found at i:3086833 original size:3 final size:3
Alignment explanation
Indices: 3086827--3086881 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
3086817 TAATATTTAT
*
3086827 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3086873 TAAA TAA TA
1 T-AA TAA TA
3086882 TTTAAATGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3087259 original size:120 final size:120
Alignment explanation
Indices: 3087021--3087306 Score: 375
Period size: 120 Copynumber: 2.4 Consensus size: 120
3087011 TGAATAAATT
* * * *
3087021 CTTCTTTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATGTTGACCT
1 CTTCTTATTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGATGATGCTAACCT
* * *
3087083 ATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAA
65 ATTTCCTTCTGTGATAAAATCATTCAAAAGGTTAAACAAGCTCTTCTCATTATGAA
** * *
3087139 CTTCTTATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGTTTTATGCTAATCTA
1 CTTCTTATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAACCTA
* * * *
3087204 TTTGCTTCTGTGATAAAATTATGT-AAAAGGTTGAACAAGCTCTTCTCATTGTGAA
66 TTTCCTTCTGTGATAAAATCAT-TCAAAAGGTTAAACAAGCTCTTCTCATTATGAA
*
3087259 CTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAA
1 CTTCTTATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
3087307 AGCTGATCCA
Statistics
Matches: 148, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
117 5 0.03
118 39 0.26
119 11 0.07
120 92 0.62
121 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (120 bp):
CTTCTTATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAACCTA
TTTCCTTCTGTGATAAAATCATTCAAAAGGTTAAACAAGCTCTTCTCATTATGAA
Found at i:3087559 original size:225 final size:223
Alignment explanation
Indices: 3087228--3087741 Score: 719
Period size: 225 Copynumber: 2.3 Consensus size: 223
3087218 AAAATTATGT
** *
3087228 AAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCTTC--AGATGAGTTCTTCTCATTA
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTAGATGAGTTCTTCTCATTA
*
3087291 TGAAC-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCT
66 TGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCT
*
3087355 TCTCATTATGAA-T-TTCTT-CTTCTTCAGATGACGAGTTATTCTCATTATGAACTCTAC-CTGG
131 TCTCATTATGAATTCTTCTTCCTTCTTCAGATGA--A-TTATTCTCATTACGAACT-TACTCTGG
* *
3087416 CAA-TGTTAATCCATCAAATGATGAATTTAAAC
192 AAAGT-TTAACCCATCAAATGATGAATTTAAAC
3087448 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTC-TTAGATGAGTTCTTCTCAT
3087513 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATT
64 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATT
* * *
3087578 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTACGGACTTCCTCTGGA
129 CTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAATTATTCTCATTACGAACTTACTCTGGA
* * ** *
3087643 AAGTTTGACCCATCAAGTGATGGTTTTGAAC
193 AAGTTTAACCCATCAAATGATGAATTTAAAC
* *
3087674 AAAAAGTTGAACAAATTCTTCTCATTATGAA--T-TTCTTCTT-TCAGATGAGTTCTTCTCATTA
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTAGATGAGTTCTTCTCATTA
3087735 TGAACTT
66 TGAACTT
3087742 CTTCTTCTTC
Statistics
Matches: 266, Mismatches: 17, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
220 64 0.24
221 4 0.02
222 3 0.01
223 5 0.02
224 25 0.09
225 72 0.27
226 72 0.27
227 3 0.01
228 5 0.02
229 13 0.05
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (223 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTAGATGAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCT
TCTCATTATGAATTCTTCTTCCTTCTTCAGATGAATTATTCTCATTACGAACTTACTCTGGAAAG
TTTAACCCATCAAATGATGAATTTAAAC
Found at i:3087565 original size:113 final size:112
Alignment explanation
Indices: 3087228--3087741 Score: 642
Period size: 113 Copynumber: 4.7 Consensus size: 112
3087218 AAAATTATGT
** *
3087228 AAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTTCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
* *
3087290 ATGAAC-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAAC
*
3087336 AAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTTCTTCTTCAGATGACGAGTTATTCTC
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGAT---GAGTTCTTCTC
* * * * * * *
3087398 ATTATGAACTCTAC-CTGGCAATGTTAATCCATCAAATGATGAATTTAAAC
63 ATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAAC
*
3087448 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
*
3087513 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC
65 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAAC
* *
3087561 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
3087626 TACGGACTTCCTCTGG-AAAGTTTGACCCATCAAGTGATGGTTTTGAAC
65 TATGAACTTTCTCTGGAAAAG-CTGATCCATCAAATGATGGATTTGAAC
*
3087674 AAAAAGTTGAACAAATTCTTCTCATTATGAA--T-TTCTTC-T-TTCAGATGAGTTCTTCTCATT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
3087734 ATGAACTT
66 ATGAACTT
3087742 CTTCTTCTTC
Statistics
Matches: 356, Mismatches: 38, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
107 26 0.07
108 45 0.13
109 1 0.00
110 5 0.01
111 20 0.06
112 65 0.18
113 178 0.50
114 1 0.00
115 5 0.01
116 10 0.03
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (112 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAAC
Found at i:3087711 original size:17 final size:17
Alignment explanation
Indices: 3087689--3087777 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
3087679 GTTGAACAAA
*
3087689 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
* *
3087706 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAC
3087723 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
3087740 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
3087759 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
3087776 TT
1 TT
3087778 TCTCTGGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
15 3 0.05
16 3 0.05
17 27 0.48
18 9 0.16
19 14 0.25
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:3087732 original size:34 final size:36
Alignment explanation
Indices: 3087689--3087780 Score: 152
Period size: 36 Copynumber: 2.6 Consensus size: 36
3087679 GTTGAACAAA
3087689 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
*
3087723 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
3087759 TTCTTCTCATTATGAACTTTCT
1 TTCTTCTCATTATGAA-TTTCT
3087781 CTGGAAAAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
34 22 0.42
35 1 0.02
36 26 0.49
37 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.50
Consensus pattern (36 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
Found at i:3087838 original size:143 final size:149
Alignment explanation
Indices: 3087576--3087890 Score: 446
Period size: 143 Copynumber: 2.1 Consensus size: 149
3087566 GTTGAACAAA
*
3087576 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTACGGACTTCCTCTG
1 TTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAATTCTTCTCATTACGAACTTCCTCTG
* * *
3087641 GAAAGTTTGACCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAA-
63 GAAAGTCTGACCCATCAAGTGATAGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAAC
3087705 T-TTCTT-C-T-TTCAGATGAG
128 TCTTCTTCCTTCTTCAGATGAG
* * *
3087723 TTCTTCTCATTATGAACTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
1 TTCTTCTCATTATGAACTTCTTCCTTCTTCAGATGAATTCTTCTCATTACGAACTTCCTCTGG-A
* * *
3087787 AAG-CTGATCCATCAAGTGATAGATTTGAACAAAAAGTTGAACAAGTTCTTCTTATTATGAACTT
65 AAGTCTGACCCATCAAGTGATAGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAAC-T
3087851 CTTCTTCCTTCTTCAGATGAG
129 CTTCTTCCTTCTTCAGATGAG
3087872 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
3087891 TCTCTGGAAA
Statistics
Matches: 151, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
143 88 0.58
144 10 0.07
145 1 0.01
146 5 0.03
147 17 0.11
148 1 0.01
149 29 0.19
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (149 bp):
TTCTTCTCATTATGAACTTCTTCCTTCTTCAGATGAATTCTTCTCATTACGAACTTCCTCTGGAA
AGTCTGACCCATCAAGTGATAGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTCT
TCTTCCTTCTTCAGATGAG
Found at i:3087925 original size:113 final size:109
Alignment explanation
Indices: 3087721--3087925 Score: 338
Period size: 113 Copynumber: 1.8 Consensus size: 109
3087711 CTTTCAGATG
3087721 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
3087786 AAAGCTGATCCATCAAGTGATAGATTTGAACAAAAAGTTGAACA
66 AAAGCTGATCCATCAAATGATAGATTTGAACAAAAAGTTGAACA
*
3087830 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
3087895 TGGAAAAGCTGATTCATCAAATGATGGATTT
62 TGGAAAAGCTGATCCATCAAATGATAGATTT
3087926 TAATCTTTGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
109 17 0.19
112 6 0.07
113 65 0.74
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (109 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGCTGATCCATCAAATGATAGATTTGAACAAAAAGTTGAACA
Found at i:3088875 original size:93 final size:93
Alignment explanation
Indices: 3088716--3089098 Score: 678
Period size: 93 Copynumber: 4.1 Consensus size: 93
3088706 CTTATTTCTA
* * * * * *
3088716 CTATGAACACATTCATCTTTCAAATCCAATCATTGG-TTCTGTGGTTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTG-GGGTTCATACCAAACCAGATCA
3088780 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
*
3088809 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAG
3088874 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
*
3088902 CTATGAGCACATTCATCTTCCAAATTTAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAG
3088967 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
3088995 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAG
3089060 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
3089088 CTATGAGCACA
1 CTATGAGCACA
3089099 CGTCACTTGT
Statistics
Matches: 279, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 275 0.99
94 4 0.01
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:3090131 original size:1 final size:1
Alignment explanation
Indices: 3090127--3090200 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
3090117 CTTTTTTCCC
* * * ** * * * *
3090127 TTTTTTTTCTTTTTTTCTTTCTTTTTTTTAGTTTTTCTCTTTTTTTTTTCTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
3090192 TCTTTTTTT
1 TTTTTTTTT
3090201 CTTCAAGCAT
Statistics
Matches: 54, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.01, C:0.11, G:0.01, T:0.86
Consensus pattern (1 bp):
T
Found at i:3090135 original size:20 final size:20
Alignment explanation
Indices: 3090105--3090182 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
3090095 TTTTTTCTTT
3090105 CTTTCTTTTTCTCTTTTTTCC
1 CTTT-TTTTTCTCTTTTTTCC
3090126 CTTTTTTTTCT-TTTTTT-C
1 CTTTTTTTTCTCTTTTTTCC
* * ** *
3090144 TTTCTTTTTTTTAGTTTTTCT
1 CTT-TTTTTTCTCTTTTTTCC
*
3090165 CTTTTTTTTTTCTTTTTT
1 CTTTTTTTTCTCTTTTTT
3090183 TTTTCTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
18 3 0.06
19 13 0.28
20 25 0.53
21 6 0.13
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.81
Consensus pattern (20 bp):
CTTTTTTTTCTCTTTTTTCC
Found at i:3090138 original size:30 final size:31
Alignment explanation
Indices: 3090096--3090200 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 31
3090086 CCCCCCCTTT
3090096 TTTTTCTTTCTTTCTTTT-TCTCTTTTTTCCC
1 TTTTTCTTTCTTT-TTTTCTCTCTTTTTTCCC
* ***
3090127 TTTTT-TTTCTTTTTTTCTTTCTTTTTTTTAG
1 TTTTTCTTTCTTTTTTTCTCTC-TTTTTTCCC
* **
3090158 TTTTTCTCTT-TTTTTTT-TCTTTTTTTTTTC
1 TTTTTCT-TTCTTTTTTTCTCTCTTTTTTCCC
3090188 TTTTTCTTT-TTTT
1 TTTTTCTTTCTTTT
3090201 CTTCAAGCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
29 10 0.16
30 24 0.39
31 18 0.29
32 8 0.13
33 2 0.03
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.83
Consensus pattern (31 bp):
TTTTTCTTTCTTTTTTTCTCTCTTTTTTCCC
Found at i:3097561 original size:15 final size:15
Alignment explanation
Indices: 3097538--3097569 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3097528 TAAAATGAAT
3097538 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
3097553 AATGTATGTATGCAA
1 AATGAATGTATGCAA
3097568 AA
1 AA
3097570 AGGTATTGAT
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:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:3102862 original size:16 final size:16
Alignment explanation
Indices: 3102841--3102871 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3102831 GGCCGCGTGG
3102841 CCCTAGGGTATCATCA
1 CCCTAGGGTATCATCA
3102857 CCCTAGGGTATCATC
1 CCCTAGGGTATCATC
3102872 TCAGATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (16 bp):
CCCTAGGGTATCATCA
Found at i:3103024 original size:3 final size:3
Alignment explanation
Indices: 3103018--3103081 Score: 96
Period size: 3 Copynumber: 21.7 Consensus size: 3
3103008 TAATATTTAT
3103018 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3103065 TGA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
3103082 TTTAAATGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 50 0.89
4 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3105464 original size:12 final size:12
Alignment explanation
Indices: 3105447--3105471 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3105437 GTCTTATTCT
3105447 TTCTTCTTCATC
1 TTCTTCTTCATC
3105459 TTCTTCTTCATC
1 TTCTTCTTCATC
3105471 T
1 T
3105472 CCAAGCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (12 bp):
TTCTTCTTCATC
Found at i:3106832 original size:21 final size:21
Alignment explanation
Indices: 3106790--3106832 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3106780 TTTCTGGGCT
* * *
3106790 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
3106811 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
3106832 A
1 A
3106833 ACGAACCAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:3108484 original size:105 final size:105
Alignment explanation
Indices: 3108302--3108504 Score: 271
Period size: 105 Copynumber: 1.9 Consensus size: 105
3108292 GGGTCTACGC
* * * *
3108302 GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGCGACACGTATTTGGT
1 GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGTACTTGAT
3108367 CCTTAGCATATGTATATGATTCTTAAGGAATTTTCTAAGT
66 CCTTAGCATATGTATATGATTCTTAAGGAATTTTCTAAGT
* * * * * * * *
3108407 GGTCCTTCGGGACGTATATGTATTCTTTGGAGCATGTATAAGGTCTTTTGAGACACTTACTTGAT
1 GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGTACTTGAT
* * *
3108472 CCTTGGTATATGTATATGGTTCTTAAGGAATTT
66 CCTTAGCATATGTATATGATTCTTAAGGAATTT
3108505 ATATATGGTT
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 83 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (105 bp):
GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGTACTTGAT
CCTTAGCATATGTATATGATTCTTAAGGAATTTTCTAAGT
Found at i:3112102 original size:21 final size:21
Alignment explanation
Indices: 3112060--3112102 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3112050 TTTCTTGGCT
* *
3112060 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
3112081 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
3112102 A
1 A
3112103 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:3113753 original size:105 final size:105
Alignment explanation
Indices: 3113573--3113774 Score: 262
Period size: 105 Copynumber: 1.9 Consensus size: 105
3113563 GGTCTACGCG
* * *
3113573 GTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGCAACACATATTTGGTC
1 GTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTACTTTGCAACACATACTTGATC
3113638 CTTAGCATATGTATATGATTCTTAAGGAATTTTCTACGTA
66 CTTAGCATATGTATATGATTCTTAAGGAATTTTCTACGTA
* * * * * * * *
3113678 GTCCTTCGGGACGTATATGTATTCTTTGGAGCATGTATGAGGTATTTTG-AGACACTTACTTGAT
1 GTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTACTTTGCA-ACACATACTTGAT
* * *
3113742 CCTTGGTATATGTATATGGTTCTTAAGGAATTT
65 CCTTAGCATATGTATATGATTCTTAAGGAATTT
3113775 ATATGTGGTC
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 1 0.01
105 81 0.99
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (105 bp):
GTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTACTTTGCAACACATACTTGATC
CTTAGCATATGTATATGATTCTTAAGGAATTTTCTACGTA
Found at i:3113849 original size:23 final size:24
Alignment explanation
Indices: 3113804--3113849 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3113794 AATCTTATAT
*
3113804 GGCACTACGGTGCAAATTCTACGC
1 GGCACTACGGTGCAAATTATACGC
*
3113828 GGCACTTCGGTGC-AATTATACG
1 GGCACTACGGTGCAAATTATACG
3113850 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (24 bp):
GGCACTACGGTGCAAATTATACGC
Found at i:3114813 original size:21 final size:21
Alignment explanation
Indices: 3114789--3114904 Score: 193
Period size: 21 Copynumber: 5.7 Consensus size: 21
3114779 AGCCATTTTT
3114789 AGTATCGATACTCTCCATAGG
1 AGTATCGATACTCTCCATAGG
3114810 AGTATCGATACTCTCCATAGG
1 AGTATCGATACTCTCCATAGG
3114831 AGTATCGATACTCTCCATAGG
1 AGTATCGATACTCTCCATAGG
* *
3114852 AGTATCGATA--CT-CAGAGT
1 AGTATCGATACTCTCCATAGG
3114870 AGTATCGATACTCTCCATAGG
1 AGTATCGATACTCTCCATAGG
3114891 AGTATCGATACTCT
1 AGTATCGATACTCT
3114905 GAATTTTTCC
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
18 14 0.16
19 2 0.02
20 2 0.02
21 70 0.80
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (21 bp):
AGTATCGATACTCTCCATAGG
Found at i:3114885 original size:39 final size:39
Alignment explanation
Indices: 3114788--3114903 Score: 187
Period size: 39 Copynumber: 2.9 Consensus size: 39
3114778 AAGCCATTTT
*
3114788 TAGTATCGATACTCTCCATAGGAGTATCGATACTCTCCATAG
1 TAGTATCGATACTCTCCATAGGAGTATCGATA--CT-CAGAG
*
3114830 GAGTATCGATACTCTCCATAGGAGTATCGATACTCAGAG
1 TAGTATCGATACTCTCCATAGGAGTATCGATACTCAGAG
3114869 TAGTATCGATACTCTCCATAGGAGTATCGATACTC
1 TAGTATCGATACTCTCCATAGGAGTATCGATACTC
3114904 TGAATTTTTC
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 38 0.54
40 2 0.03
42 31 0.44
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (39 bp):
TAGTATCGATACTCTCCATAGGAGTATCGATACTCAGAG
Found at i:3119834 original size:5 final size:5
Alignment explanation
Indices: 3119824--3119849 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3119814 TTTTATTATT
3119824 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
3119850 TCAGGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:3119941 original size:156 final size:157
Alignment explanation
Indices: 3119676--3119975 Score: 498
Period size: 156 Copynumber: 1.9 Consensus size: 157
3119666 AGTGTGATAT
* *
3119676 TCGGGTCGGGTCGAGTTCGGTTTTAGTGTGAAAAATACCCAACCCGGCCCGAAAATATATATAAT
1 TCGGGTCGGGTCGAGTTCGGTTTTAGGGTGAAAAATACCCAACCCGACCCGAAAATATATATAAT
*
3119741 TTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAAGTTTTTTTCAATTAA
66 TTTACCTTATATATTTAGGAATAATTACAATAATACCCATCTATATATAA-TTTTTTTCAATTAA
*
3119806 GTTACTGTTTTTATTATTTCGGGTCGGG
130 GTCACTGTTTTTATTATTTCGGGTCGGG
* *
3119834 TCGGGTCGGGTCGGGTTCAGG-TTTAGGGTGAAAAATACCCGACCCGACCC-AAAA-ATATATAA
1 TCGGGTCGGGTCGAGTTC-GGTTTTAGGGTGAAAAATACCCAACCCGACCCGAAAATATATATAA
3119896 TTTTACCTTATATATTTAGGAATAATTACAATAATACCCATCTATATATAATTTTTTTCAATTAA
65 TTTTACCTTATATATTTAGGAATAATTACAATAATACCCATCTATATATAATTTTTTTCAATTAA
*
3119961 GTCATTGTTTTTATT
130 GTCACTGTTTTTATT
3119976 GAATAAAAAT
Statistics
Matches: 134, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
155 27 0.20
156 58 0.43
157 4 0.03
158 43 0.32
159 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (157 bp):
TCGGGTCGGGTCGAGTTCGGTTTTAGGGTGAAAAATACCCAACCCGACCCGAAAATATATATAAT
TTTACCTTATATATTTAGGAATAATTACAATAATACCCATCTATATATAATTTTTTTCAATTAAG
TCACTGTTTTTATTATTTCGGGTCGGG
Found at i:3121617 original size:20 final size:20
Alignment explanation
Indices: 3121594--3121640 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3121584 CACGGAATGT
*
3121594 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGAGAATAA
*
3121614 AAGATTACTAGTGAGAATAA
1 AAGATTACCAGTGAGAATAA
3121634 AAGATTA
1 AAGATTA
3121641 TCAGGTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.23
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:3121838 original size:15 final size:16
Alignment explanation
Indices: 3121814--3121851 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3121804 AACGTCTTTT
*
3121814 AAAAACAATTTTA-AG
1 AAAAATAATTTTATAG
3121829 AAAAATAATTTTATAG
1 AAAAATAATTTTATAG
3121845 ACAAAAT
1 A-AAAAT
3121852 TTGGTCTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 3 0.15
17 5 0.25
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAAATAATTTTATAG
Found at i:3124020 original size:25 final size:25
Alignment explanation
Indices: 3123992--3124053 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
3123982 ATTAGGGTTA
* *
3123992 AAACCCTAATTTGTTTTAAGGTTTG
1 AAACCCTAATCTATTTTAAGGTTTG
*
3124017 AAACCCTAATCTATTTTAGGGTTTG
1 AAACCCTAATCTATTTTAAGGTTTG
3124042 AAACCCTAATCT
1 AAACCCTAATCT
3124054 GATGGGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (25 bp):
AAACCCTAATCTATTTTAAGGTTTG
Found at i:3124159 original size:3 final size:3
Alignment explanation
Indices: 3124153--3124200 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
3124143 TGTAAATTAT
* **
3124153 TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
3124198 TAA
1 TAA
3124201 AAAAAGACCC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3124594 original size:88 final size:92
Alignment explanation
Indices: 3124432--3124637 Score: 294
Period size: 90 Copynumber: 2.3 Consensus size: 92
3124422 GGTCAGGGGA
* * * * * * *
3124432 TGACACTGCTCATACATGATGAAGAATTCTTGGCCATCTTTAGGGATGATAACACGGTTCCTACG
1 TGACACGGATCATACGTGATGAAGAGTTCTTGGCCATCTTAAAGGATGATAACACGATTCCTACG
3124497 TGATGAGGACGACTGGTTATC-A-GGT
66 TGATGAGGACGACTGGTTATCTATGGT
*
3124522 TGACACGGATCTTACGTGATGAAGAGTTCTTGGCCATC-TAAAGG-TGATAACACGATTCCTACG
1 TGACACGGATCATACGTGATGAAGAGTTCTTGGCCATCTTAAAGGATGATAACACGATTCCTACG
*
3124585 TGATGAGGACGGCTGGTTATCTATGGT
66 TGATGAGGACGACTGGTTATCTATGGT
*
3124612 TGACACGGCTCATACGTGATGAAGAG
1 TGACACGGATCATACGTGATGAAGAG
3124638 ATCTGGTCTG
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
88 38 0.37
89 5 0.05
90 60 0.58
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (92 bp):
TGACACGGATCATACGTGATGAAGAGTTCTTGGCCATCTTAAAGGATGATAACACGATTCCTACG
TGATGAGGACGACTGGTTATCTATGGT
Found at i:3135500 original size:9 final size:9
Alignment explanation
Indices: 3135486--3135520 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3135476 ATGCAGTATG
3135486 AAAAAAATA
1 AAAAAAATA
3135495 AAAAAAATA
1 AAAAAAATA
3135504 AACAAAAATA
1 AA-AAAAATA
*
3135514 AACAAAA
1 AAAAAAA
3135521 CAAATGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:3135753 original size:13 final size:13
Alignment explanation
Indices: 3135735--3135759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3135725 CTACACACTC
3135735 AAAATAAATAAAT
1 AAAATAAATAAAT
3135748 AAAATAAATAAA
1 AAAATAAATAAA
3135760 AGGTTAGAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:3138793 original size:25 final size:25
Alignment explanation
Indices: 3138752--3138823 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
3138742 CATTAGGGGA
* *
3138752 TTAGGG-TTAAAACCCTAATTTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
3138776 TTAGGGTTTGAAACCCTAATCTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
3138801 TTAGGGTTTGAAACCCTAATCTG
1 TTAGGGTTTGAAACCCTAATCTG
3138824 ATGGGTTGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 6 0.13
25 39 0.87
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGTT
Found at i:3138927 original size:3 final size:3
Alignment explanation
Indices: 3138919--3138969 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
3138909 ATTTGTAAAT
* **
3138919 TAA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
3138967 TAA
1 TAA
3138970 AAAAAGACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3139171 original size:15 final size:15
Alignment explanation
Indices: 3139153--3139183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3139143 AAATTCTAAA
3139153 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
3139168 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
3139183 T
1 T
3139184 CTATTTGTTG
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:3141302 original size:28 final size:28
Alignment explanation
Indices: 3141249--3141303 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
3141239 AGGTTTCATT
* * *
3141249 CATTCAATGTTCTATCTATCATACAAAC
1 CATTCAATATTCTATATATCACACAAAC
*
3141277 CATTCAATATTCTATATATCGCACAAA
1 CATTCAATATTCTATATATCACACAAA
3141304 TGATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (28 bp):
CATTCAATATTCTATATATCACACAAAC
Found at i:3143283 original size:102 final size:100
Alignment explanation
Indices: 3143176--3143359 Score: 262
Period size: 102 Copynumber: 1.8 Consensus size: 100
3143166 ATGAATAAAT
* * *
3143176 AAGAGAAATGAAAAAAGAGGTTCAGAAACTAAACATTTTATGA-ACTTATAAAAATTAGAGGTCC
1 AAGAGAAACGAAAAAAGAGGGTCAAAAACTAAACATTTTATGAGA-TTATAAAAATTAG-GG-CC
*
3143240 TAATTATAAATATAAAAAATTGGTTAAATTTAATTTAA
63 TAATTATAAATACAAAAAATTGGTTAAATTTAATTTAA
* ** *
3143278 AAGAGAAACGAAAACAGAGGGTCAAAAACTAAATTTTTTATGAGATTATACAAATTAGGGCCTAA
1 AAGAGAAACGAAAAAAGAGGGTCAAAAACTAAACATTTTATGAGATTATAAAAATTAGGGCCTAA
3143343 TTATAAATACAAAAAAT
66 TTATAAATACAAAAAAT
3143360 GGAGAGCCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
100 21 0.29
101 2 0.03
102 49 0.67
103 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (100 bp):
AAGAGAAACGAAAAAAGAGGGTCAAAAACTAAACATTTTATGAGATTATAAAAATTAGGGCCTAA
TTATAAATACAAAAAATTGGTTAAATTTAATTTAA
Found at i:3145438 original size:182 final size:181
Alignment explanation
Indices: 3145093--3145810 Score: 1114
Period size: 181 Copynumber: 3.9 Consensus size: 181
3145083 TGATCCATAG
* *
3145093 CAATATAACAAGTAAAAATATGACAAAACCGGTCTCAAAATGACCAAACCGATAAAGCGCTACCA
1 CAATATAACAAGTAAAAATATGATAAAACCGGTCTCAAAATGA-CAAACCGATAAAGCGCCACCA
*
3145158 GATATGTTGAAAGTGTCGATACTTTATTATAAGTATCAACACTTTTGGAATTTAAAAGACAAGCA
65 GATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGCA
* * *
3145223 ATCATAGCGCCTATAAAGTGTCGACACTTTAAAAAAATGTATCGACACTTAA
130 GTAATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGACACTTAA
* * * * *
3145275 CAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAATGACAAACCGATAAAGAGCTACCGG
1 CAATATAACAAGTAAAAATATGATAAAACCGGTCTCAAAATGACAAACCGATAAAGCGCCACCAG
*
3145340 ATATGTTGAAAGTGTCGATACTTTATTATAAGTGTCGACACTTTTGGAATTTAAAAGACAAGCAG
66 ATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGCAG
* * *
3145405 TCATAGCGCCTATAAAGCGTCGATACTTTTAAAAAATGTATCGACACTTAA
131 TAATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGACACTTAA
* * *
3145456 CAATATAACATGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGTAAAGCGCCACAA
1 CAATATAACAAGTAAAAATATGATAAAACCGGTCTCAAAATGAC-AAACCGATAAAGCGCCACCA
*
3145521 GATATGTT-AATAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGA
65 GATATGTTGAA-AGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGC
* * *
3145585 AGTAATAGCGCCTAAAAATTGTCGATACTTTAAAAAAAATGTATCGACACTTGA
129 AGTAATAGCGCCTATAAAGTGTCGATACTTT-AAAAAAATGTATCGACACTTAA
* * * * *
3145639 CAATATAACAAGTAAAAATATGATAAAACCGGTTTCAAAATGAAAAAATCGGTAAAGCGCCACCG
1 CAATATAACAAGTAAAAATATGATAAAACCGGTCTCAAAATG-ACAAACCGATAAAGCGCCACCA
* * *
3145704 GATATGTTGAAAGTGTCAAAACTTTATTATAAGTATTGACACTTTTGGAATTTAAAAGACAAGCA
65 GATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGCA
3145769 GTAATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTAT
130 GTAATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTAT
3145811 TGATACTGGG
Statistics
Matches: 493, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
181 174 0.35
182 153 0.31
183 163 0.33
184 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (181 bp):
CAATATAACAAGTAAAAATATGATAAAACCGGTCTCAAAATGACAAACCGATAAAGCGCCACCAG
ATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGACAAGCAG
TAATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGACACTTAA
Found at i:3147718 original size:21 final size:21
Alignment explanation
Indices: 3147690--3147738 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
3147680 GTTTTTTTTA
*
3147690 TATAAAAATGATATATAGTTAT
1 TATAAAAATGATAAAT-GTTAT
*
3147712 TATAAAAATGATAAATTTTAT
1 TATAAAAATGATAAATGTTAT
3147733 TATAAA
1 TATAAA
3147739 TGCAAGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (21 bp):
TATAAAAATGATAAATGTTAT
Found at i:3147992 original size:18 final size:18
Alignment explanation
Indices: 3147964--3148008 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3147954 GAAGGTTATT
3147964 GGCA-AGGAGGTAG-AGGA
1 GGCAGAGGAGGTAGTA-GA
*
3147981 GGCAGTGGAGGTAGTAGA
1 GGCAGAGGAGGTAGTAGA
3147999 GGCAGAGGAG
1 GGCAGAGGAG
3148009 AAGGAAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 19 0.79
19 1 0.04
ACGTcount: A:0.31, C:0.07, G:0.53, T:0.09
Consensus pattern (18 bp):
GGCAGAGGAGGTAGTAGA
Found at i:3148403 original size:18 final size:18
Alignment explanation
Indices: 3148380--3148415 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3148370 GAAATAAAAG
*
3148380 AGATGAAGAGAAAAAATA
1 AGATGAACAGAAAAAATA
*
3148398 AGATGAACTGAAAAAATA
1 AGATGAACAGAAAAAATA
3148416 TGAAGAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.03, G:0.19, T:0.14
Consensus pattern (18 bp):
AGATGAACAGAAAAAATA
Found at i:3148440 original size:18 final size:18
Alignment explanation
Indices: 3148417--3148455 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
3148407 GAAAAAATAT
3148417 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
3148435 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
3148453 GAA
1 GAA
3148456 ATGAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:3150035 original size:19 final size:19
Alignment explanation
Indices: 3150011--3150059 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3150001 AATGTAGGGT
3150011 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3150030 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
3150049 TAATTTTGTAT
1 TAATTTTGTAT
3150060 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3150838 original size:201 final size:199
Alignment explanation
Indices: 3150486--3151834 Score: 2047
Period size: 199 Copynumber: 6.8 Consensus size: 199
3150476 GAGAGAATAG
*
3150486 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATT
1 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * ** * * * *
3150551 ATAATGTAATAAGTAATTTTTTAACGTAACCTGTATAAATATACCGGTTTTATGAGAGAATAGGT
66 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-CGGTTTTATGAGAAAATAGGT
* * *
3150616 CTACATAATGTATCAACACTTGTGGAACTTGTGTCAATACTTTTTGTCCAGAATGAATACCCAAA
130 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
3150681 AGGGGT
195 A-GGGT
* * * *
3150687 GCACGCATAAAGTGTCGGTACATTTATAAAATGTATCGATCACAAAAATATCGAAACCCATAATT
1 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * * * *
3150752 ATAATATAATAAGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGT
66 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-CGGTTTTATGAGAAAATAGGT
3150817 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
130 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
3150882 AGCGGT
195 AG-GGT
* * *
3150888 GCACGCATAAAGTATCGATACATTTATAAAAAGTATCGATCACAAAAACAGCGAAACCCATAATT
1 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * *
3150953 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGATTTATGAGAAAACATGTC
66 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACGGTTTTATGAGAAAATAGGTC
*
3151018 TACATAATGTATCGACACTTGTGGAACTTGTGTCGATACCTTTTGTCCAGAATGAATGCCCAAAA
131 TACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA
3151083 GGGT
196 GGGT
* *
3151087 GTACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATT
1 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * * *
3151152 ATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATTTAC-ATGTATATGAGAAAACAAGT
66 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACGGT-TTTATGAGAAAATAGGT
* * *
3151216 ATACATAATGTATCAACACTTTTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
130 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
3151281 AGGGT
195 AGGGT
* *
3151286 GCACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATT
1 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * *
3151351 ATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAAGTTATCGG-TTTATGAGAAAACAGGT
66 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-CGGTTTTATGAGAAAATAGGT
* * *
3151415 CTACATAATGTATTGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAAAATGAATGCCTAAA
130 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
3151480 AGGGT
195 AGGGT
* * *
3151485 GCACGCATAAAGTGTCAATACATTTATAAAAAGTATCGATCCTAAAAACTTCGAAACCCATAATT
1 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* *
3151550 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTGCCGG-TTTATGGGAAAATAGGT
66 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTT-ACGGTTTTATGAGAAAATAGGT
* * * *
3151614 CTACATAATGTATTGACACTTGTGGAACTTGTGTCGATATTTTTTGTCTAGAATGAATACCCAAA
130 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
3151679 AGGGT
195 AGGGT
* **
3151684 GCACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTTTAATT
1 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* *
3151749 ATAATGTAATAGGTAAATTTACAATGTAACCCGTAGAAATTTAGCGGTTTTATGAGAAAATAGGT
66 ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-CGGTTTTATGAGAAAATAGGT
3151814 CTACATAATGTATCGACACTT
130 CTACATAATGTATCGACACTT
3151835 TTTAAATTTG
Statistics
Matches: 1058, Mismatches: 83, Indels: 15
0.92 0.07 0.01
Matches are distributed among these distances:
199 654 0.62
200 120 0.11
201 284 0.27
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (199 bp):
GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACGGTTTTATGAGAAAATAGGTC
TACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA
GGGT
Found at i:3153347 original size:3 final size:3
Alignment explanation
Indices: 3153329--3153367 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
3153319 GGTCAAAGAA
* *
3153329 GAT GAC GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3153368 CCAAACAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:3154469 original size:11 final size:11
Alignment explanation
Indices: 3154453--3154477 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3154443 TGTGGGTTTG
3154453 ATTATTTGAAC
1 ATTATTTGAAC
3154464 ATTATTTGAAC
1 ATTATTTGAAC
3154475 ATT
1 ATT
3154478 GTTATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTATTTGAAC
Found at i:3154836 original size:24 final size:24
Alignment explanation
Indices: 3154785--3154837 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
3154775 TTTCATATGT
* * *
3154785 AATTGGAGTTTGAATATAAATTTC
1 AATTTGAGTTTGAATATAAATATA
* *
3154809 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATATAAATATA
3154833 AATTT
1 AATTT
3154838 TGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATATAAATATA
Found at i:3156128 original size:200 final size:200
Alignment explanation
Indices: 3155785--3156197 Score: 637
Period size: 200 Copynumber: 2.1 Consensus size: 200
3155775 GGTTGATTTA
* * * *
3155785 TCCAGAATGAATGACCAGCCGAGGTGTACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAATATCGATACATTTATAAAAAGTATCGAT
3155850 CCCAAAAACATCGAATAAGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
66 CCCAAAAACATCGAATAAGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * *
3155915 ATATCGATTAATTAGAGAATAGGTGTACATAATGTATCGACACTTGTGGAATTCGTACCGATACT
131 ATACCGATTAATTAGAAAATAGGTATACATAATGTATCGACACTTGTAGAATTCGTACCGATACT
3155980 TTTTG
196 TTTTG
*
3155985 TCCAGAATGAATGAGCAACCGAGGTGCACGAATAAAATATCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAATATCGATACATTTATAAAAAGTATCGAT
* * * * * *
3156050 CCCATAAACATCGAATAATATAATTATTATGTAATAGGTTAATTTCCAATGTAACCGGTAGAAAT
66 CCCAAAAACATCGAATAAGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * ** *
3156115 ATACCGGTTAATTAGAAAATAGGTATACATCATGTATCGACACTTGTAGAATTTGTGTCTATACT
131 ATACCGATTAATTAGAAAATAGGTATACATAATGTATCGACACTTGTAGAATTCGTACCGATACT
3156180 TTTTG
196 TTTTG
3156185 TCCAGAATGAATG
1 TCCAGAATGAATG
3156198 CCTAAATGAG
Statistics
Matches: 192, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
200 192 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (200 bp):
TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAATATCGATACATTTATAAAAAGTATCGAT
CCCAAAAACATCGAATAAGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
ATACCGATTAATTAGAAAATAGGTATACATAATGTATCGACACTTGTAGAATTCGTACCGATACT
TTTTG
Done.