Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009079.1 Hibiscus syriacus cultivar Beakdansim tig00112518_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: 283420
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:10153 original size:33 final size:32
Alignment explanation
Indices: 10111--10209 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 32
10101 AGTTTATGAT
* *
10111 AATTGAAATACTTAAATACTTACAAGTTCGATA
1 AATTCAAATACTTAAA-ACTTCCAAGTTCGATA
*
10144 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
1 AATTCAAATACTT-AAAACTTCCAAGTTCGATA
10177 AATTCAAATACTTAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAACTTCCAAGTTCGATA
10209 A
1 A
10210 TTGAAACAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 19 0.31
33 39 0.64
34 3 0.05
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (32 bp):
AATTCAAATACTTAAAACTTCCAAGTTCGATA
Found at i:19435 original size:21 final size:21
Alignment explanation
Indices: 19394--19436 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19384 TTTTGTTGGT
*
19394 TTTGGAACTAGCGCAGTTGGA
1 TTTGGAACTAGCGCAGATGGA
**
19415 TTTGGAACTAGTTCAGATGGA
1 TTTGGAACTAGCGCAGATGGA
19436 T
1 T
19437 GTAAAATATG
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:0.26, C:0.12, G:0.30, T:0.33
Consensus pattern (21 bp):
TTTGGAACTAGCGCAGATGGA
Found at i:26786 original size:33 final size:33
Alignment explanation
Indices: 26745--26829 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 33
26735 GCGACCTACC
*
26745 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
*
26778 CTCGCTCGGTTTCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * *
26811 CTCGTTCGGATGGCCTCGG
1 CTCGCTCGGTTGCCCTCGG
26830 TCGGATGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.08, C:0.38, G:0.27, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:26833 original size:14 final size:14
Alignment explanation
Indices: 26811--26875 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 14
26801 CCTCGCATAG
*
26811 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
26825 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
26839 CTCGGATGCTCTCGGATGGC
1 CTC-G--G---TCGGATGGC
26859 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
26873 CTC
1 CTC
26876 AGATGCCCAG
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 28 0.64
15 1 0.02
17 2 0.05
19 1 0.02
20 12 0.27
ACGTcount: A:0.08, C:0.31, G:0.37, T:0.25
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:26843 original size:10 final size:10
Alignment explanation
Indices: 26830--26863 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
26820 ATGGCCTCGG
26830 TCGGATGGCC
1 TCGGATGGCC
26840 TCGGAT-GCTC
1 TCGGATGGC-C
26850 TCGGATGGCC
1 TCGGATGGCC
26860 TCGG
1 TCGG
26864 TCGGATGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 18 0.82
11 2 0.09
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:26859 original size:34 final size:35
Alignment explanation
Indices: 26793--26881 Score: 126
Period size: 34 Copynumber: 2.5 Consensus size: 35
26783 TCGGTTTCCC
* *
26793 TCGGATGCCCTCGCATAGCTCGTTCGGATGGCCTCGG
1 TCGGATGGCCTCGGAT-GCTCG-TCGGATGGCCTCGG
26830 TCGGATGGCCTCGGATGCTC-TCGGATGGCCTCGG
1 TCGGATGGCCTCGGATGCTCGTCGGATGGCCTCGG
*
26864 TCGGATGGCCTCAGATGC
1 TCGGATGGCCTCGGATGC
26882 CCAGCGTGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
34 31 0.63
36 4 0.08
37 14 0.29
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (35 bp):
TCGGATGGCCTCGGATGCTCGTCGGATGGCCTCGG
Found at i:26953 original size:29 final size:29
Alignment explanation
Indices: 26920--26977 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
26910 GCAATCTCTT
*
26920 GTAGGTCGCCGGGAAGACATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
*
26949 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
26978 CGACCAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.38, T:0.14
Consensus pattern (29 bp):
GTAGGTCGCCCGGAAGACATGGCGACCTA
Found at i:29654 original size:4 final size:4
Alignment explanation
Indices: 29645--29669 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
29635 TATATTTTTG
29645 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
29670 CAGGTGTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:38138 original size:6 final size:6
Alignment explanation
Indices: 38123--38160 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
38113 ACCCTTTATC
*
38123 ACTCCT ACTCCA ACTCCA ACTCCA ACTCCA ACTCCA AC
1 ACTCCA ACTCCA ACTCCA ACTCCA ACTCCA ACTCCA AC
38161 AGCTAAGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
ACTCCA
Found at i:40300 original size:2 final size:2
Alignment explanation
Indices: 40293--40317 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
40283 TTAAACCGGC
40293 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
40318 TTGATTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49020 original size:16 final size:16
Alignment explanation
Indices: 48999--49031 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48989 TCAACCCAAT
48999 TTATTTCATTATAAGG
1 TTATTTCATTATAAGG
49015 TTATTTCATTATAAGG
1 TTATTTCATTATAAGG
49031 T
1 T
49032 GAAACTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
TTATTTCATTATAAGG
Found at i:49691 original size:2 final size:2
Alignment explanation
Indices: 49686--49711 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49676 AAAATTAATT
49686 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
49712 ATTAAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50875 original size:3 final size:3
Alignment explanation
Indices: 50867--50932 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
50857 CAGAAGGAAC
* *
50867 AAT AAT AAT AAT AAT AAT AAT -TT AAT AAT AAT AAT AAT AAT -TT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50913 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
50933 AATTGGGTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:50894 original size:20 final size:20
Alignment explanation
Indices: 50869--50927 Score: 118
Period size: 20 Copynumber: 3.0 Consensus size: 20
50859 GAAGGAACAA
50869 TAATAATAATAATAATAATT
1 TAATAATAATAATAATAATT
50889 TAATAATAATAATAATAATT
1 TAATAATAATAATAATAATT
50909 TAATAATAATAATAATAAT
1 TAATAATAATAATAATAAT
50928 AATAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATAATAATAATAATAATT
Found at i:59245 original size:11 final size:11
Alignment explanation
Indices: 59217--59249 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
59207 TTATAATTTA
59217 AAAAATTATA-
1 AAAAATTATAT
*
59227 ATAAATTATAT
1 AAAAATTATAT
59238 AAAAATTATAT
1 AAAAATTATAT
59249 A
1 A
59250 GTACAGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:59998 original size:59 final size:58
Alignment explanation
Indices: 59863--59998 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 58
59853 GAACATATGA
* * *
59863 ATAGTCTGGTGACCATTTTATAATTTTAATAGTCAAGGGACTCAACAAAGTAAATTCTG
1 ATAGTC-GGGGACCATTTTATAATTTTAATAATCAAAGGACTCAACAAAGTAAATTCTG
* * *
59922 ATAGTCGAAGGATCATTTTATAATTTTTAATAATCAAATGACTCAACAAAGT-AATGTCCT-
1 ATAGTCG-GGGACCATTTTATAA-TTTTAATAATCAAAGGACTCAACAAAGTAAAT-T-CTG
59982 ATAGTCGGGGACCATTT
1 ATAGTCGGGGACCATTT
59999 GTGTACTTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
58 1 0.02
59 29 0.45
60 33 0.51
61 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (58 bp):
ATAGTCGGGGACCATTTTATAATTTTAATAATCAAAGGACTCAACAAAGTAAATTCTG
Found at i:60273 original size:24 final size:24
Alignment explanation
Indices: 60242--60289 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
60232 TCGGTTCGTT
60242 TATGTTCATGAACAAGCTCGTTTA
1 TATGTTCATGAACAAGCTCGTTTA
*
60266 TATGTTCATGAACAATCTCGTTTA
1 TATGTTCATGAACAAGCTCGTTTA
60290 GAAGATCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (24 bp):
TATGTTCATGAACAAGCTCGTTTA
Found at i:60306 original size:36 final size:36
Alignment explanation
Indices: 60259--60336 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
60249 ATGAACAAGC
60259 TCGTTTATATGTTCATGAACA-ATCTCGTTTAGAAGA
1 TCGTTTATATGTTCATGAACATA-CTCGTTTAGAAGA
* *
60295 TCGTTTATATGTTCATGAACATACTCGTTTATAAGC
1 TCGTTTATATGTTCATGAACATACTCGTTTAGAAGA
60331 TCGTTT
1 TCGTTT
60337 TATTTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 38 0.97
37 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (36 bp):
TCGTTTATATGTTCATGAACATACTCGTTTAGAAGA
Found at i:61274 original size:230 final size:225
Alignment explanation
Indices: 60980--61502 Score: 718
Period size: 230 Copynumber: 2.3 Consensus size: 225
60970 AAAGTTTCAC
* * * *
60980 CCGACCCGACTTGAATATATGAATTAGAAA-C--CCGACCCAACCTGAATTAATAAAAAATTATT
1 CCGACCCGACTCGAATATATGAATTAGAAACCGACCGACCCAACCCGAAATAATAAAAAAATATT
*
61042 TTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAA-TATATATAGAGGGGTATTATTGTAATT
66 TTTATTCAATAAAAACAGTGACATAATT-GAAAAAAATTATATATAGAGGGGTATTATTGTAATT
*
61106 ATTCCTAAATATATAAGGTAAAATTATATAT-TTTTTGGGTCAGGTAGGGTATTTTTCACCCTAA
130 ATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTC-----GGGTATTTTTCACCCTAA
*
61170 ACCCG-A-C-CCGACTCGAATATAACACTTTAAAAAAA
190 ACCCGAACCACCGACCCGAATATAACAC-TT-AAAAAA
* *
61205 CCGACCCGACCCGAATATATGAATTAGAAATCCGATCCGACCCGACCCGAAATAATAAAAAAATA
1 CCGACCCGACTCGAATATATGAATTAGAAA-CCGA-CCGACCCAACCCGAAATAATAAAAAAATA
61270 TTTTTATTCAATAAAAACAGTGACATAATTGAAAAAAATTATATATAGAGGGGTATTATTGTAAT
64 TTTTTATTCAATAAAAACAGTGACATAATTGAAAAAAATTATATATAGAGGGGTATTATTGTAAT
61335 TATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCC
129 TATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCC
*
61400 GAACTCGACCGACCCGAATATCACACTTAAAAAA
194 GAAC-C-ACCGACCCGAATATAACACTTAAAAAA
*
61434 CCGACCCGACTCAAATATATGAATTAGAAA-C--CCG-----ACCCGAAATAATAAAAAAAATAT
1 CCGACCCGACTCGAATATATGAATTAGAAACCGACCGACCCAACCCGAAATAAT-AAAAAAATAT
61491 TTTTATTCAATA
65 TTTTATTCAATA
61503 TATGAATAAG
Statistics
Matches: 273, Mismatches: 12, Indels: 31
0.86 0.04 0.10
Matches are distributed among these distances:
219 12 0.04
220 22 0.08
224 3 0.01
225 28 0.10
226 23 0.08
227 3 0.01
229 43 0.16
230 114 0.42
231 25 0.09
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (225 bp):
CCGACCCGACTCGAATATATGAATTAGAAACCGACCGACCCAACCCGAAATAATAAAAAAATATT
TTTATTCAATAAAAACAGTGACATAATTGAAAAAAATTATATATAGAGGGGTATTATTGTAATTA
TTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGA
ACCACCGACCCGAATATAACACTTAAAAAA
Found at i:62793 original size:42 final size:43
Alignment explanation
Indices: 62747--62832 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
62737 TAATTTGGAT
* * **
62747 TTCCTTTCTTATATTTAAATTGGTTTAATTTAAT-GTACCCAA
1 TTCCTTTATAATATTTAAATTAATTTAATTTAATCGTACCCAA
62789 TTCCTTTATAATATTTAAATTAATTTAATTTAATCGTACCCAA
1 TTCCTTTATAATATTTAAATTAATTTAATTTAATCGTACCCAA
62832 T
1 T
62833 AAGTTAAGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 30 0.77
43 9 0.23
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (43 bp):
TTCCTTTATAATATTTAAATTAATTTAATTTAATCGTACCCAA
Found at i:65607 original size:19 final size:18
Alignment explanation
Indices: 65563--65607 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 18
65553 TAATTGTAAC
65563 TGCTAATTGTTTATGTTA
1 TGCTAATTGTTTATGTTA
*
65581 TG---ATTGTTTATGTTGG
1 TGCTAATTGTTTATGTT-A
65597 TGCTAATTGTT
1 TGCTAATTGTT
65608 ATTATACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
15 12 0.55
16 2 0.09
18 2 0.09
19 6 0.27
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.56
Consensus pattern (18 bp):
TGCTAATTGTTTATGTTA
Found at i:65628 original size:23 final size:25
Alignment explanation
Indices: 65602--65648 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
65592 GTTGGTGCTA
65602 ATTGTTATT-AT-ACTCATGTTATG
1 ATTGTTATTGATAACTCATGTTATG
*
65625 ATTGTTATTGCTAACTCATGTTAT
1 ATTGTTATTGATAACTCATGTTAT
65649 TATACTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 11 0.52
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.51
Consensus pattern (25 bp):
ATTGTTATTGATAACTCATGTTATG
Found at i:66300 original size:20 final size:20
Alignment explanation
Indices: 66264--66301 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66254 ATCCTATTAT
**
66264 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
66284 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
66302 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:66864 original size:23 final size:23
Alignment explanation
Indices: 66790--66889 Score: 101
Period size: 23 Copynumber: 4.3 Consensus size: 23
66780 TACAAACACG
* * *
66790 CATGCTCGCGAACGCCAAAAGAA
1 CATGTTCGCGAACGCTAAACGAA
*
66813 CATGTTCGCGAACGTTTAAACGAA
1 CATGTTCGCGAACG-CTAAACGAA
* * *
66837 TATGTTTGCGAACGCTAAATGAA
1 CATGTTCGCGAACGCTAAACGAA
* * *
66860 CATGTTCGTGAACACTAAACGAG
1 CATGTTCGCGAACGCTAAACGAA
66883 CATGTTC
1 CATGTTC
66890 ACAAACATAT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 44 0.71
24 18 0.29
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (23 bp):
CATGTTCGCGAACGCTAAACGAA
Found at i:69502 original size:24 final size:24
Alignment explanation
Indices: 69470--69583 Score: 131
Period size: 24 Copynumber: 4.8 Consensus size: 24
69460 ATAATTCACA
* * *
69470 TCAAGTATCATATCAAAATCCAGG
1 TCAACTATCATATCAGAATCCATG
* * *
69494 TTAACTATCAGATCAGAATCCAAG
1 TCAACTATCATATCAGAATCCATG
* *
69518 TCAAGTATCAGATCAGAATCCATG
1 TCAACTATCATATCAGAATCCATG
*
69542 TCAAATATCATATCAGAATCCATG
1 TCAACTATCATATCAGAATCCATG
69566 TCAAGC-ATCATATCAGAA
1 TCAA-CTATCATATCAGAA
69584 ATCAAATCGA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 78 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (24 bp):
TCAACTATCATATCAGAATCCATG
Found at i:69538 original size:48 final size:48
Alignment explanation
Indices: 69470--69583 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 48
69460 ATAATTCACA
* * *
69470 TCAAGTATCATATCAAAATCCAGGTTAACTATCAGATCAGAATCCAAG
1 TCAAGTATCATATCAGAATCCAGGTCAAATATCAGATCAGAATCCAAG
* * * *
69518 TCAAGTATCAGATCAGAATCCATGTCAAATATCATATCAGAATCCATG
1 TCAAGTATCATATCAGAATCCAGGTCAAATATCAGATCAGAATCCAAG
*
69566 TCAAGCATCATATCAGAA
1 TCAAGTATCATATCAGAA
69584 ATCAAATCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (48 bp):
TCAAGTATCATATCAGAATCCAGGTCAAATATCAGATCAGAATCCAAG
Found at i:74436 original size:21 final size:20
Alignment explanation
Indices: 74411--74453 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
74401 ATATAAACAA
*
74411 AAACAACAACGACAAAATCGT
1 AAACAACAAC-AAAAAATCGT
*
74432 AAACAACGACAAAAAATCGT
1 AAACAACAACAAAAAATCGT
74452 AA
1 AA
74454 GCTACCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.09
Consensus pattern (20 bp):
AAACAACAACAAAAAATCGT
Found at i:74493 original size:23 final size:22
Alignment explanation
Indices: 74467--74533 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
74457 ACCAAAAGGC
74467 AGAGAAAAACATGCCACAAAGAT
1 AGAG-AAAACATGCCACAAAGAT
* * * *
74490 AGAGATAAACGTGTCATAAAGAC
1 AGAGA-AAACATGCCACAAAGAT
*
74513 AGAG--AGCATGCCACAAAGAT
1 AGAGAAAACATGCCACAAAGAT
74533 A
1 A
74534 TAATTATTCT
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
20 12 0.35
22 1 0.03
23 21 0.62
ACGTcount: A:0.51, C:0.16, G:0.21, T:0.12
Consensus pattern (22 bp):
AGAGAAAACATGCCACAAAGAT
Found at i:75699 original size:87 final size:87
Alignment explanation
Indices: 75608--75786 Score: 358
Period size: 87 Copynumber: 2.1 Consensus size: 87
75598 ACAGTTACAT
75608 TTATTGAATTTTTTTTCTAATTAGACCAAATTAATAATTTATATAAACTTTAAGAATTAAAATTG
1 TTATTGAATTTTTTTTCTAATTAGACCAAATTAATAATTTATATAAACTTTAAGAATTAAAATTG
75673 TTTTCTATATTGTTTTATATTA
66 TTTTCTATATTGTTTTATATTA
75695 TTATTGAATTTTTTTTCTAATTAGACCAAATTAATAATTTATATAAACTTTAAGAATTAAAATTG
1 TTATTGAATTTTTTTTCTAATTAGACCAAATTAATAATTTATATAAACTTTAAGAATTAAAATTG
75760 TTTTCTATATTGTTTTATATTA
66 TTTTCTATATTGTTTTATATTA
75782 TTATT
1 TTATT
75787 TCATCTAATA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (87 bp):
TTATTGAATTTTTTTTCTAATTAGACCAAATTAATAATTTATATAAACTTTAAGAATTAAAATTG
TTTTCTATATTGTTTTATATTA
Found at i:77619 original size:30 final size:30
Alignment explanation
Indices: 77556--77621 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
77546 AAAACCGGTA
* *
77556 GAACCGACTGAAAATCGGTAAAATCGGGGT
1 GAACCGACTGAAAACCGGTAAAATCGAGGT
* * **
77586 GAACCGGCTGAGAACCGGTAAAATCGATTT
1 GAACCGACTGAAAACCGGTAAAATCGAGGT
77616 GAACCG
1 GAACCG
77622 CCGATTCACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.17
Consensus pattern (30 bp):
GAACCGACTGAAAACCGGTAAAATCGAGGT
Found at i:78850 original size:20 final size:20
Alignment explanation
Indices: 78825--78862 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
78815 AACCCTTACA
*
78825 AATATCAAGTAGAAGCAAGC
1 AATATCAAATAGAAGCAAGC
78845 AATATCAAATAGAAGCAA
1 AATATCAAATAGAAGCAA
78863 ACATAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (20 bp):
AATATCAAATAGAAGCAAGC
Found at i:82282 original size:35 final size:34
Alignment explanation
Indices: 82223--82335 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 34
82213 AAAACAATCC
* * *
82223 TCAAGTTCATTCTAAATCACAAATTTCAAAGTAAT
1 TCAATTTCATTCTAAA-CCCAAATTTCAAAATAAT
*
82258 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTTCAAAATAAT
* * *
82293 TCAATTACATTCTAAAACCCAAATTTTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTTCAAAATAAT
82328 TCAATTTC
1 TCAATTTC
82336 TGTCTTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.03
35 59 0.88
36 6 0.09
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTTCAAAATAAT
Found at i:83496 original size:36 final size:35
Alignment explanation
Indices: 83389--83501 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
83379 ATTCCTCCTT
* * *
83389 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* * *
83424 TAATTGAATTATTTTGGAATTTAGTGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
*
83459 AAATTGAATTACTTTGGAATTTGGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGGTTTAGAATG
83495 AAATTGA
1 AAATTGA
83502 GAAATGTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 49 0.73
36 18 0.27
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
Found at i:83759 original size:15 final size:14
Alignment explanation
Indices: 83739--83795 Score: 73
Period size: 15 Copynumber: 4.0 Consensus size: 14
83729 TAAACTATTT
83739 ATAATTAATATTAAA
1 ATAATTAATATT-AA
83754 ATAATTATATATT--
1 ATAATTA-ATATTAA
83767 ATAATTAATATTAA
1 ATAATTAATATTAA
83781 TATAATTAATATTAA
1 -ATAATTAATATTAA
83796 TATTAACTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.13
13 7 0.18
15 21 0.55
16 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATTAATATTAA
Found at i:83773 original size:22 final size:21
Alignment explanation
Indices: 83724--83788 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
83714 CTAAAATTTA
* *
83724 TATAA-TAAACTATTTATAAT
1 TATAATTAAAATAATTATAAT
83744 TA-ATATTAAAATAATTATATAT
1 TATA-ATTAAAATAATTATA-AT
*
83766 TATAATTAATATTAA-TATAAT
1 TATAATTAA-AATAATTATAAT
83787 TA
1 TA
83789 ATATTAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 15 0.41
22 13 0.35
23 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TATAATTAAAATAATTATAAT
Found at i:83866 original size:31 final size:30
Alignment explanation
Indices: 83831--84015 Score: 126
Period size: 31 Copynumber: 5.8 Consensus size: 30
83821 TATAATTTGT
83831 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAAATATAGT-TATAA
*
83862 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAAATATA-GTTATAA
* * *
83892 AATTATATAGTATAGTTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAAATATAGTT-ATAA
83928 AATTAATATTAATAT--AATATAGTTTATAA
1 AATTAATATTAATATAAAATATAG-TTATAA
*
83957 ACTATATACTATATTAATATAAATTATAGTTA-AGA
1 A--AT-TA--ATATTAATATAAAATATAGTTATA-A
** *
83992 TAATTAACGTTAATATAAACTATA
1 -AATTAATATTAATATAAAATATA
84016 TAGTACAATA
Statistics
Matches: 126, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
29 10 0.08
30 8 0.06
31 48 0.38
32 5 0.04
33 6 0.05
34 17 0.13
35 20 0.16
36 12 0.10
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATAGTTATAA
Found at i:83883 original size:24 final size:25
Alignment explanation
Indices: 83838--83884 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
83828 TGTAATTAAT
**
83838 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
83863 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
83885 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:83911 original size:14 final size:14
Alignment explanation
Indices: 83894--83955 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
83884 ATGTTATAAA
*
83894 TTATATAGTATAGT
1 TTATATAATATAGT
83908 TTATA-AACTATAGT
1 TTATATAA-TATAGT
*
83922 TAATATAATTAATA-T
1 TTATATAA-T-ATAGT
*
83937 TAATATAATATAGT
1 TTATATAATATAGT
83951 TTATA
1 TTATA
83956 AACTATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 21 0.52
15 12 0.30
16 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATATAATATAGT
Found at i:84079 original size:21 final size:20
Alignment explanation
Indices: 84025--84079 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
84015 ATAGTACAAT
*
84025 AATATAAACTATAGTTTATA
1 AATATAAACTATAGGTTATA
* *
84045 AATGATATATTATAGGTTATA
1 AAT-ATAAACTATAGGTTATA
84066 AAGTATAAACTATA
1 AA-TATAAACTATA
84080 TAGTACACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.11
21 24 0.86
22 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (20 bp):
AATATAAACTATAGGTTATA
Found at i:84265 original size:16 final size:17
Alignment explanation
Indices: 84236--84267 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
84226 ATATATAGTT
84236 TACATGTATACATATAC
1 TACATGTATACATATAC
84253 TACATGT-TACATATA
1 TACATGTATACATATA
84268 TTAACTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (17 bp):
TACATGTATACATATAC
Found at i:84371 original size:2 final size:2
Alignment explanation
Indices: 84364--84552 Score: 69
Period size: 2 Copynumber: 96.5 Consensus size: 2
84354 TTCTATAAAC
* *
84364 TA TA TA TA TA TA TA TA TA TA T- TC TA TA GA T- TA CT- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
84403 TA GT- TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * * *
84443 TA -A TT TA TA AA CTA TA TA GTT TA TA TA GTT TA TG CA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
84485 GTT TA TA TA CA TA CA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
84527 TA AA T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
84553 TCTAGAGATT
Statistics
Matches: 134, Mismatches: 33, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
1 12 0.09
2 112 0.84
3 10 0.07
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:84503 original size:91 final size:82
Alignment explanation
Indices: 84376--84639 Score: 285
Period size: 79 Copynumber: 3.2 Consensus size: 82
84366 TATATATATA
*
84376 TATATATATTCTATAGATTACTTATATTAG-T-T--ATACATACATATATATACTATATTAATAT
1 TATATAT-TTATATAGATTACTTATATTAGTTATACATACATACATATATATACTATATTAATAT
84437 AAATTATAATTTATAAAC
65 AAATTATAATTTATAAAC
*
84455 TATATAGTTTATATAGTTTATGCATATATAGTTTA-TATACATACATACATACATATATATACTA
1 TATATA-TTTATATAGATTA--C-T-TATA--TTAGT-T--ATACATACATACATATATATACTA
* *
84519 TATTAATATAAATTAT-ATATATATA-
56 TATTAATATAAATTATAATTTATAAAC
* *
84544 TATATATATTCTAGAGATTACTTATATTAGTTATACATACAT--ATATATATACTATATTAATAT
1 TATATAT-TTATATAGATTACTTATATTAGTTATACATACATACATATATATACTATATTAATAT
*
84607 AATTTATAATTTATAAAC
65 AAATTATAATTTATAAAC
84625 TATATATTTTATATA
1 TATATA-TTTATATA
84640 TAAAGGAGAC
Statistics
Matches: 154, Mismatches: 12, Indels: 36
0.76 0.06 0.18
Matches are distributed among these distances:
79 43 0.28
80 8 0.05
81 22 0.14
82 2 0.01
83 8 0.05
84 1 0.01
85 7 0.05
86 2 0.01
87 1 0.01
88 1 0.01
89 16 0.10
90 7 0.05
91 36 0.23
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (82 bp):
TATATATTTATATAGATTACTTATATTAGTTATACATACATACATATATATACTATATTAATATA
AATTATAATTTATAAAC
Found at i:84759 original size:6 final size:6
Alignment explanation
Indices: 84748--84829 Score: 58
Period size: 6 Copynumber: 15.0 Consensus size: 6
84738 ATGGTATTTA
*
84748 TAATAT TAATAT TAA-AA TAAGTA- T-ATAT T-ATAAT TAATAT TAATA-
1 TAATAT TAATAT TAATAT TAA-TAT TAATAT TAAT-AT TAATAT TAATAT
*
84793 T-A-AT TAATAT TAATAT TAA-CT T-ATAT TAATA- TAATAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
84830 AGTTTATAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 22
0.71 0.03 0.25
Matches are distributed among these distances:
3 1 0.02
4 5 0.08
5 19 0.31
6 34 0.55
7 3 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
TAATAT
Found at i:84786 original size:28 final size:27
Alignment explanation
Indices: 84752--84804 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
84742 TATTTATAAT
84752 ATTAATATTAAAATAAGTATATATTATA
1 ATTAATATTAAAATAAGTA-ATATTATA
* *
84780 ATTAATATTAATATAATTAATATTA
1 ATTAATATTAAAATAAGTAATATTA
84805 ATATTAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTAATATTAAAATAAGTAATATTATA
Found at i:84788 original size:34 final size:33
Alignment explanation
Indices: 84748--84873 Score: 109
Period size: 34 Copynumber: 3.8 Consensus size: 33
84738 ATGGTATTTA
84748 TAATATTAATATTAAAATAAGTATATATTATAAT
1 TAATATTAATA-TAAAATAAGTATATATTATAAT
* *
84782 TAATATTAATAT-AATTAA-TATTAATATTA-ACT
1 TAATATTAATATAAAATAAGTA-T-ATATTATAAT
* * *
84814 T-ATATTAATATAATAT-AGTTTATAATTTGTAAT
1 TAATATTAATATAAAATAAGTATAT-A-TTATAAT
*
84847 TAATATTAATATAAAATATAGTCTATA
1 TAATATTAATATAAAATA-AGTATATA
84874 AACTAATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
30 2 0.03
31 15 0.21
32 14 0.19
33 10 0.14
34 25 0.34
35 1 0.01
36 6 0.08
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (33 bp):
TAATATTAATATAAAATAAGTATATATTATAAT
Found at i:84820 original size:16 final size:16
Alignment explanation
Indices: 84748--84858 Score: 86
Period size: 15 Copynumber: 6.8 Consensus size: 16
84738 ATGGTATTTA
*
84748 TAATATTAATATTAAAA
1 TAATATTAATATT-AAT
*
84765 TAAGTATATATTA-TAAT
1 TAA-TAT-TAATATTAAT
84782 TAATATTAATA-TAAT
1 TAATATTAATATTAAT
84797 TAATATTAATATTAACT
1 TAATATTAATATTAA-T
84814 T-ATATTAATA-TAAT
1 TAATATTAATATTAAT
* * *
84828 ATAGTTTATAATTTGTAAT
1 -TAATAT-TAATAT-TAAT
84847 TAATATTAATAT
1 TAATATTAATAT
84859 AAAATATAGT
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
14 1 0.01
15 23 0.30
16 17 0.22
17 19 0.25
18 8 0.11
19 8 0.11
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (16 bp):
TAATATTAATATTAAT
Found at i:84883 original size:30 final size:30
Alignment explanation
Indices: 84847--84905 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
84837 AATTTGTAAT
84847 TAATATTAATATAAAATATA-GTCTATAAAC
1 TAATATTAATATAAAATATATGT-TATAAAC
*
84877 TAATATTAATATAAACTATATGTTATAAA
1 TAATATTAATATAAAATATATGTTATAAA
84906 TTATATTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (30 bp):
TAATATTAATATAAAATATATGTTATAAAC
Found at i:84905 original size:14 final size:15
Alignment explanation
Indices: 84855--84917 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 15
84845 ATTAATATTA
*
84855 ATATAAAATATA-GT
1 ATATAAACTATATGT
*
84869 CTATAAACTAATAT-T
1 ATATAAACT-ATATGT
84884 AATATAAACTATATGT
1 -ATATAAACTATATGT
*
84900 -TATAAATTATATTGT
1 ATATAAACTATA-TGT
84915 ATA
1 ATA
84918 GTTTATAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 17 0.44
15 11 0.28
16 11 0.28
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (15 bp):
ATATAAACTATATGT
Found at i:84938 original size:21 final size:21
Alignment explanation
Indices: 84886--84939 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
84876 CTAATATTAA
* *
84886 TATAAACTATATGTTATAAAT
1 TATATACTATATGTTATAAAC
**
84907 TATATTGTATA-GTTTATAAAC
1 TATATACTATATG-TTATAAAC
84928 TATATACTATAT
1 TATATACTATAT
84940 TAATATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATACTATATGTTATAAAC
Found at i:84975 original size:31 final size:31
Alignment explanation
Indices: 84938--85148 Score: 116
Period size: 22 Copynumber: 7.5 Consensus size: 31
84928 TATATACTAT
*
84938 ATTAATATAAATTATAGTTAAGATAATTAAC
1 ATTAATATAAACTATAGTTAAGATAATTAAC
84969 ATTAATATAAACTATA--T-AG-----T-AC
1 ATTAATATAAACTATAGTTAAGATAATTAAC
* * *
84991 ATTAATATAAACTATAGTTTATAAACAATATACTAT
1 ATTAATATAAACTATAG-TTA-AGATAAT-TA--AC
*
85027 ATTAATATAAATTATAGTTAAGATAATTAAC
1 ATTAATATAAACTATAGTTAAGATAATTAAC
*
85058 ATTAGTATAAACTATA--T-AG-----T-AC
1 ATTAATATAAACTATAGTTAAGATAATTAAC
85080 ATTAATATAAACTATAGTT----T-A-T---
1 ATTAATATAAACTATAGTTAAGATAATTAAC
*
85102 ATTAATATAAATTATAGTTAAGATAATTAAC
1 ATTAATATAAACTATAGTTAAGATAATTAAC
*
85133 ATTAGTATAAACTATA
1 ATTAATATAAACTATA
85149 TAGTACATTA
Statistics
Matches: 140, Mismatches: 13, Indels: 54
0.68 0.06 0.26
Matches are distributed among these distances:
22 53 0.38
23 2 0.01
24 2 0.01
25 1 0.01
26 1 0.01
27 2 0.01
28 5 0.04
29 2 0.01
31 44 0.31
33 3 0.02
34 5 0.04
35 3 0.02
36 17 0.12
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (31 bp):
ATTAATATAAACTATAGTTAAGATAATTAAC
Found at i:85015 original size:36 final size:36
Alignment explanation
Indices: 84974--85045 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
84964 TTAACATTAA
* *
84974 TATAAACTATATAGTACATTAATATAAACTATAGTT
1 TATAAACAATATACTACATTAATATAAACTATAGTT
* *
85010 TATAAACAATATACTATATTAATATAAATTATAGTT
1 TATAAACAATATACTACATTAATATAAACTATAGTT
85046 AAGATAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (36 bp):
TATAAACAATATACTACATTAATATAAACTATAGTT
Found at i:85022 original size:89 final size:89
Alignment explanation
Indices: 84849--85102 Score: 363
Period size: 89 Copynumber: 2.9 Consensus size: 89
84839 TTTGTAATTA
* * * * * *
84849 ATATTAATATAAAATATAGTCT-ATA-AACTAATATTAATATAAACTATAT-GT-TATAAATTAT
1 ATATTAATATAAATTATAGT-TAAGATAATTAACATTAATATAAACTATATAGTACATTAA-TAT
*** *
84910 ATTGTATAGTTTATAAACTATATACT
64 AAACTATAGTTTATAAACAATATACT
84936 ATATTAATATAAATTATAGTTAAGATAATTAACATTAATATAAACTATATAGTACATTAATATAA
1 ATATTAATATAAATTATAGTTAAGATAATTAACATTAATATAAACTATATAGTACATTAATATAA
85001 ACTATAGTTTATAAACAATATACT
66 ACTATAGTTTATAAACAATATACT
*
85025 ATATTAATATAAATTATAGTTAAGATAATTAACATTAGTATAAACTATATAGTACATTAATATAA
1 ATATTAATATAAATTATAGTTAAGATAATTAACATTAATATAAACTATATAGTACATTAATATAA
85090 ACTATAGTTTATA
66 ACTATAGTTTATA
85103 TTAATATAAA
Statistics
Matches: 152, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
86 1 0.01
87 21 0.14
88 22 0.14
89 104 0.68
90 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (89 bp):
ATATTAATATAAATTATAGTTAAGATAATTAACATTAATATAAACTATATAGTACATTAATATAA
ACTATAGTTTATAAACAATATACT
Found at i:85064 original size:75 final size:75
Alignment explanation
Indices: 84996--85177 Score: 219
Period size: 75 Copynumber: 2.4 Consensus size: 75
84986 AGTACATTAA
*
84996 TATAAACTATAGTT-TATAAACAATA-TACTATATTAATATAAATTATAGTTAAGATAATTAACA
1 TATAAACTACA-TTATATAAACAATAGT-CTATATTAATATAAATTATAGTTAAGATAATTAACA
85059 TTAGT-ATAAAC
64 TTAGTAATAAAC
* * * *
85070 TATATAGTACATTAATATAAACTATAGTTTATATTAATATAAATTATAGTTAAGATAATTAACAT
1 TATAAACTACATT-ATATAAACAATAGTCTATATTAATATAAATTATAGTTAAGATAATTAACAT
85135 TAGT-ATAAAC
65 TAGTAATAAAC
* * * *
85145 TATATAGTACATTAATATAAACTATAGTTTATA
1 TATAAACTACATT-ATATAAACAATAGTCTATA
85178 GATTATATAC
Statistics
Matches: 100, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
73 2 0.02
74 8 0.08
75 89 0.89
76 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (75 bp):
TATAAACTACATTATATAAACAATAGTCTATATTAATATAAATTATAGTTAAGATAATTAACATT
AGTAATAAAC
Found at i:85264 original size:14 final size:15
Alignment explanation
Indices: 85245--85325 Score: 80
Period size: 16 Copynumber: 5.4 Consensus size: 15
85235 ATATAATTTT
85245 TATATATA-ATGAAC
1 TATATATATATGAAC
*
85259 TATATATAGTAT-AATA
1 TATATATA-TATGAA-C
*
85275 TATATATATATAAAC
1 TATATATATATGAAC
85290 TATATAT-TATGAAC
1 TATATATATATGAAC
85304 TATATTATATAT-ATAC
1 TATA-TATATATGA-AC
85320 TATATA
1 TATATA
85326 ATAGTGTATA
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.32
15 18 0.32
16 21 0.37
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (15 bp):
TATATATATATGAAC
Found at i:85277 original size:43 final size:41
Alignment explanation
Indices: 85218--85328 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 41
85208 ATAGTTTATA
* ***
85218 TATATTATAGTTTATATATATAAT-TTTTATATATAATGAAC
1 TATATTATA-TATATATATATAATAAACTATATATAATGAAC
*
85259 TATATATAGTATAATATATATATATATAAACTATATATTATGAAC
1 TATAT-TA-TAT-ATATATATATA-ATAAACTATATATAATGAAC
85304 TATATTATATATATACTATATAATA
1 TATATTATATATATA-TATATAATA
85329 GTGTATATAG
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
41 5 0.08
42 11 0.19
43 21 0.36
44 4 0.07
45 18 0.31
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (41 bp):
TATATTATATATATATATATAATAAACTATATATAATGAAC
Found at i:85337 original size:2 final size:2
Alignment explanation
Indices: 85204--85325 Score: 62
Period size: 2 Copynumber: 60.5 Consensus size: 2
85194 TTATAAAGTA
* * * *
85204 AT AT AT AGT TT AT AT AT AT -T AT AGT TT AT AT AT AT A- AT TT TT
1 AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
85246 AT AT AT A- AT GA- ACT AT AT AT AGT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
85286 AA ACT AT AT AT -T AT GA- ACT AT AT -T AT AT AT AT ACT AT AT A
1 AT A-T AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT A-T AT AT A
85326 ATAGTGTATA
Statistics
Matches: 95, Mismatches: 8, Indels: 34
0.69 0.06 0.25
Matches are distributed among these distances:
1 8 0.08
2 76 0.80
3 11 0.12
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85359 original size:24 final size:24
Alignment explanation
Indices: 85332--85379 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
85322 TATAATAGTG
85332 TATATAGTTCACTA-ATAAACTATA
1 TATATAGTTCA-TATATAAACTATA
85356 TATATAGTTCATATATAAACTATA
1 TATATAGTTCATATATAAACTATA
85380 GTTCATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (24 bp):
TATATAGTTCATATATAAACTATA
Found at i:85381 original size:18 final size:18
Alignment explanation
Indices: 85358--85537 Score: 101
Period size: 18 Copynumber: 9.8 Consensus size: 18
85348 AAACTATATA
85358 TATAGTTCATATATAAAC
1 TATAGTTCATATATAAAC
85376 TATAGTTCATATGTAAATATCAAC
1 TATAGTTCATA--T--ATA--AAC
* * *
85400 TATAATTTATATGTAAAC
1 TATAGTTCATATATAAAC
85418 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATATAAAC
* *
85436 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATATAAAC
85456 TATAGTTCATATATAAA-
1 TATAGTTCATATATAAAC
* *
85473 TATCAACCTT-AGTATATATA-
1 TAT--A-GTTCA-TATATAAAC
85493 TATA-TT--TATAT--A-
1 TATAGTTCATATATAAAC
*
85505 TATAGTTCATATGTAAAC
1 TATAGTTCATATATAAAC
85523 TATAGTTCATATATA
1 TATAGTTCATATATA
85538 TAGTATAATA
Statistics
Matches: 130, Mismatches: 12, Indels: 40
0.71 0.07 0.22
Matches are distributed among these distances:
12 5 0.04
13 2 0.02
14 5 0.04
15 4 0.03
16 2 0.02
17 5 0.04
18 58 0.45
19 2 0.02
20 30 0.23
21 1 0.01
22 4 0.03
24 12 0.09
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (18 bp):
TATAGTTCATATATAAAC
Found at i:85395 original size:24 final size:24
Alignment explanation
Indices: 85368--85421 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
85358 TATAGTTCAT
*
85368 ATATAAACTATAGTTCATATGTAA
1 ATATAAACTATAATTCATATGTAA
* *
85392 ATATCAACTATAATTTATATGTAA
1 ATATAAACTATAATTCATATGTAA
85416 ACTATA
1 A-TATA
85422 GTTAGTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (24 bp):
ATATAAACTATAATTCATATGTAA
Found at i:85454 original size:38 final size:38
Alignment explanation
Indices: 85356--85472 Score: 123
Period size: 38 Copynumber: 3.0 Consensus size: 38
85346 ATAAACTATA
* * *
85356 TATATAGTTCATATATAAACTATAGTTCATATGTAAATATCAAC
1 TATATAGTTTATATGTAAACTATAG-T--TA-GT--ATATAAAC
85400 TATA-A-TTTATATGTAAACTATAGTTAGTATATAAAC
1 TATATAGTTTATATGTAAACTATAGTTAGTATATAAAC
85436 TATATAGTTTATATGTAAACTATAGTTCA-TATATAAA
1 TATATAGTTTATATGTAAACTATAGTT-AGTATATAAA
85473 TATCAACCTT
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
36 11 0.16
37 1 0.01
38 30 0.45
39 3 0.04
41 1 0.01
42 16 0.24
43 1 0.01
44 4 0.06
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (38 bp):
TATATAGTTTATATGTAAACTATAGTTAGTATATAAAC
Found at i:85544 original size:18 final size:17
Alignment explanation
Indices: 85499--85544 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
85489 TATATATATT
85499 TATATATATAGTTCATA
1 TATATATATAGTTCATA
* *
85516 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
85534 TATATAGTATA
1 TATATA-TATA
85545 ATATAACTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (17 bp):
TATATATATAGTTCATA
Found at i:85645 original size:6 final size:6
Alignment explanation
Indices: 85610--85634 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
85600 TATGTAGTTT
85610 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
85635 CAAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:85663 original size:20 final size:20
Alignment explanation
Indices: 85638--85854 Score: 115
Period size: 20 Copynumber: 10.7 Consensus size: 20
85628 ATATAAACAA
*
85638 ATATAAATTGTATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
85658 ATATAATTCATATATAATTTAT
1 ATATAAAT--TATATAGTTTAT
* * *
85680 ATATAAACTATGTAGTTTCT
1 ATATAAATTATATAGTTTAT
* * *
85700 ATAT-AGTTCA-ATAGATCAT
1 ATATAAATT-ATATAGTTTAT
*
85719 ATATAAACTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
* * * *
85739 ACT-T-TA-TACATAATGTAT
1 A-TATAAATTATATAGTTTAT
*
85757 ATATAAACTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
85777 ATATATAATACATATACTTTAT
1 ATATA-AAT-TATATAGTTTAT
85799 ATATAAATTATATAGTAGTT-T
1 ATATAAATTATATAGT--TTAT
* *
85820 ATATTATATTATATA-TATAT
1 ATA-TAAATTATATAGTTTAT
*
85840 ATATATATATATATA
1 ATATAAAT-TATATA
85855 TATTAGTTGT
Statistics
Matches: 148, Mismatches: 33, Indels: 32
0.69 0.15 0.15
Matches are distributed among these distances:
17 1 0.01
18 11 0.07
19 20 0.14
20 62 0.42
21 11 0.07
22 43 0.29
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATAAATTATATAGTTTAT
Found at i:85683 original size:13 final size:11
Alignment explanation
Indices: 85648--85685 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
85638 ATATAAATTG
*
85648 TATAGTTTATA
1 TATAATTTATA
*
85659 TATAATTCATA
1 TATAATTTATA
85670 TATAATTTATA
1 TATAATTTATA
85681 TATAA
1 TATAA
85686 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:85761 original size:2 final size:2
Alignment explanation
Indices: 85754--85857 Score: 81
Period size: 2 Copynumber: 51.5 Consensus size: 2
85744 ATACATAATG
* * * *
85754 TA TA TA TA AA CTA TA TA GTT TA TA TA TA TA -A TA CA TA TA CTT
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA
* *
85796 TA TA TA TA AA T- TA TA TA GTA GTT TA TA T- TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA
85837 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
85858 TAGTTGTTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
1 4 0.05
2 71 0.87
3 7 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:85779 original size:22 final size:22
Alignment explanation
Indices: 85754--85862 Score: 109
Period size: 22 Copynumber: 4.9 Consensus size: 22
85744 ATACATAATG
85754 TATATATAA-ACTATATAGTTTA
1 TATATATAATA-TATATAGTTTA
* *
85776 TATATATAATACATATACTTTA
1 TATATATAATATATATAGTTTA
85798 TATATA-AATTATATAGTAGTTTA
1 TATATATAA-TATATA-TAGTTTA
* *
85821 TAT-TATATTATATATA-TATA
1 TATATATAATATATATAGTTTA
85841 TATATATATATATATATTAGTT
1 TATATATA-ATATATA-TAGTT
85863 GTTTTAATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
20 6 0.08
21 8 0.11
22 43 0.61
23 13 0.18
24 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (22 bp):
TATATATAATATATATAGTTTA
Found at i:86245 original size:138 final size:138
Alignment explanation
Indices: 86090--86368 Score: 558
Period size: 138 Copynumber: 2.0 Consensus size: 138
86080 TGACCCATAC
86090 TTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTTC
1 TTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTTC
86155 TTGTAGTAATTTCAACATCACAATTTAAATTATTTTGATTTGATCCCTCGTCAATGTGTGTTGTT
66 TTGTAGTAATTTCAACATCACAATTTAAATTATTTTGATTTGATCCCTCGTCAATGTGTGTTGTT
86220 TAATTTAT
131 TAATTTAT
86228 TTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTTC
1 TTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTTC
86293 TTGTAGTAATTTCAACATCACAATTTAAATTATTTTGATTTGATCCCTCGTCAATGTGTGTTGTT
66 TTGTAGTAATTTCAACATCACAATTTAAATTATTTTGATTTGATCCCTCGTCAATGTGTGTTGTT
86358 TAATTTAT
131 TAATTTAT
86366 TTA
1 TTA
86369 AATTTTTATT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 141 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (138 bp):
TTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTTC
TTGTAGTAATTTCAACATCACAATTTAAATTATTTTGATTTGATCCCTCGTCAATGTGTGTTGTT
TAATTTAT
Found at i:86484 original size:215 final size:215
Alignment explanation
Indices: 86228--86618 Score: 660
Period size: 215 Copynumber: 1.8 Consensus size: 215
86218 TTTAATTTAT
*
86228 TTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTTC
1 TTATTACTTAATTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTT-
* *
86293 TTGTAGTAATTTCAACATCACAATTT-AAATTATTTTGATTTGATCCCTCGTCAATGTGTGTTGT
65 TTGTAGTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGT
* *
86357 TTAATTTATTTAAATTTTTATTT-TAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTT
130 TTAACTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTT
86421 GCATATGAAATTGATCCATAC
195 GCATATGAAATTGATCCATAC
* * *
86442 TTATTACTTAATTCTATTTTTTTAATTGGCCCATAACTTTTTAAATTGGTATAATTTAGTATTTT
1 TTATTACTTAATTCTA-TTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTT
* *
86507 TTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGT
65 TTGTAGTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGT
86572 TTAACTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTA
130 TTAACTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTA
86619 ATTCTTAAAT
Statistics
Matches: 164, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
214 39 0.24
215 102 0.62
216 23 0.14
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.51
Consensus pattern (215 bp):
TTATTACTTAATTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTATTTTT
TGTAGTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTT
TAACTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTG
CATATGAAATTGATCCATAC
Found at i:86519 original size:352 final size:347
Alignment explanation
Indices: 85882--86583 Score: 1074
Period size: 352 Copynumber: 2.0 Consensus size: 347
85872 TTTTCTCAAC
*
85882 TTATTACTTATTTCTATTTATTAAGTGGCCCATAACTTTTAAATGAGTACAATTTAGTACATTTT
1 TTATTACTTATTTCTATTTATTAAGTGGCCCATAACTTTTAAATGAGAACAATTTAGTACATTTT
* * *
85947 TGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTTTTGTTTTGTTTAATAT
66 TGTAGTAATTTCAACATCAAAATTTAAAATTATTTCGATTTGATCCCTTTTGTGTTGTTTAATAT
86012 ATTTAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGA
131 ATTTAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGA
*
86077 AATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATA
196 AATTGACCCATACTTATTACTTAATTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATA
* *
86142 ATTTAGTATTTTCTTGTAGTAATTTCAACATCACAATTT-AAATTATTTTGATTTGATCCCTCGT
261 ATTTAGTATTTTCTTGTAGTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCAT
*
86206 CAATGTGTGTTGTTTAATTTAT
326 CAATGTGTGTTGTTTAACTTAT
* * * *
86228 TTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGAATAATTTAGTA-TTT
1 TTATTACTTATTTCTATTTATT-AAGTGGCCCATAAC-TTTTAAATGAGAACAATTTAGTACATT
* *
86291 TCTTGTAGTAATTTCAACATCACAATTT-AAATTATTTTGATTTGATCCCTCGTCAATGTGTGTT
64 T-TTGTAGTAATTTCAACATCAAAATTTAAAATTATTTCGATTTGATCCCT--T---T-TGTGTT
*
86355 GTTTAATTTATTTAAATTTTTATTT-TAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
122 GTTTAATATATTTAAA-TTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
* *
86419 TTGCATATGAAATTGATCCATACTTATTACTTAATTCTATTTTTTTAATTGGCCCATAACTTTTT
186 TTGCATATGAAATTGACCCATACTTATTACTTAATTCTA-TTTTTAAATTGGCCCATAACTTTTT
* * * *
86484 AAATTGGTATAATTTAGTATTTT-TTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
250 AAATGGGAATAATTTAGTATTTTCTTGTAGTAATTTCAACATCACAATTTAAAATTATTTCGATT
86548 TGATCCCTCATCAATGTGTGTTGTTTAACTTAT
315 TGATCCCTCATCAATGTGTGTTGTTTAACTTAT
86581 TTA
1 TTA
86584 AAATTTTATT
Statistics
Matches: 323, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
345 2 0.01
346 56 0.17
347 43 0.13
348 1 0.00
351 1 0.00
352 120 0.37
353 100 0.31
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.49
Consensus pattern (347 bp):
TTATTACTTATTTCTATTTATTAAGTGGCCCATAACTTTTAAATGAGAACAATTTAGTACATTTT
TGTAGTAATTTCAACATCAAAATTTAAAATTATTTCGATTTGATCCCTTTTGTGTTGTTTAATAT
ATTTAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGA
AATTGACCCATACTTATTACTTAATTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGAATA
ATTTAGTATTTTCTTGTAGTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCAT
CAATGTGTGTTGTTTAACTTAT
Found at i:104810 original size:21 final size:21
Alignment explanation
Indices: 104784--104823 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
104774 GCCACTGGAT
*
104784 GAATCATAACTTAGTTTTGTA
1 GAATCATAACTTAATTTTGTA
104805 GAATCATAACTTAATTTTG
1 GAATCATAACTTAATTTTG
104824 CACAACAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (21 bp):
GAATCATAACTTAATTTTGTA
Found at i:109260 original size:23 final size:23
Alignment explanation
Indices: 109234--109294 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
109224 CTCATATAAA
*
109234 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
109257 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
109280 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
109295 TATAATAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:109428 original size:18 final size:18
Alignment explanation
Indices: 109405--109440 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
109395 GAATACATAT
109405 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
109423 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
109441 TATCATTCCT
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:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:109515 original size:121 final size:121
Alignment explanation
Indices: 109301--109543 Score: 432
Period size: 121 Copynumber: 2.0 Consensus size: 121
109291 GCCATATAAT
*
109301 AATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGC
1 AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGC
*
109366 GTCTCACCAGACTTCACACGTGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* * *
109422 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
1 AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGC
*
109487 GTCTCACCAGATTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
109543 A
1 A
109544 TATCATTCCT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 116 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (121 bp):
AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGC
GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
Found at i:109606 original size:103 final size:103
Alignment explanation
Indices: 109423--109648 Score: 443
Period size: 103 Copynumber: 2.2 Consensus size: 103
109413 AAGGACCACA
109423 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
*
109488 TCTCACCAGATTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
109526 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
109591 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
109629 ATGTCCCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
109649 GACCCTCGAC
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 122 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (103 bp):
ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:110965 original size:63 final size:63
Alignment explanation
Indices: 110859--111017 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
110849 TAATGGAGGC
* * * *
110859 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
** **
110922 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* *
110985 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
111018 CTTCAACAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 81 0.95
64 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:111009 original size:19 final size:20
Alignment explanation
Indices: 110985--111022 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
110975 ATTTAAATTA
110985 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
111004 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
111023 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:118645 original size:438 final size:438
Alignment explanation
Indices: 117830--118706 Score: 1745
Period size: 438 Copynumber: 2.0 Consensus size: 438
117820 GCTGGTGAGC
117830 TCTAGACATCAGGGTGAGCCCATTCGTGTGGTTGAACTGCCCAGAAATATCCTGCCCAAAGGTAT
1 TCTAGACATCAGGGTGAGCCCATTCGTGTGGTTGAACTGCCCAGAAATATCCTGCCCAAAGGTAT
117895 ACCCTGCTCCTCGAGGAGATATTCCCCACCCACATCGGTCGTCGGGATCAGACCATAAGAGATCA
66 ACCCTGCTCCTCGAGGAGATATTCCCCACCCACATCGGTCGTCGGGATCAGACCATAAGAGATCA
117960 CACATTGGACCCTCACGAGGAACCTACACAACCAACAAATACAAAGATGCTAGTAAAATTTAAAA
131 CACATTGGACCCTCACGAGGAACCTACACAACCAACAAATACAAAGATGCTAGTAAAATTTAAAA
118025 TACAGCAATACTGAGGAAGGCATATTTGACGTGATGACCCCAGTTAGGCTTCTAGAAAAACAGTG
196 TACAGCAATACTGAGGAAGGCATATTTGACGTGATGACCCCAGTTAGGCTTCTAGAAAAACAGTG
118090 ATAATAATGCTAACTGATAGATGTGACATCATTACCAGTATCTAGAATCATGTCCATAAAAAAGA
261 ATAATAATGCTAACTGATAGATGTGACATCATTACCAGTATCTAGAATCATGTCCATAAAAAAGA
118155 CAACATTCGTAGGGCCAATTTCGATTTATGAGTCATGGTATCTTTAGTTAGTGAGTCGGGAAATC
326 CAACATTCGTAGGGCCAATTTCGATTTATGAGTCATGGTATCTTTAGTTAGTGAGTCGGGAAATC
118220 AAAAAGTTCTACTCCAACCTACCTCTTATTTTCAAAAAATAATACCCA
391 AAAAAGTTCTACTCCAACCTACCTCTTATTTTCAAAAAATAATACCCA
118268 TCTAGACATCAGGGTGAGCCCATTCGTGTGGTTGAACTGCCCAGAAATATCCTGCCCAAAGGTAT
1 TCTAGACATCAGGGTGAGCCCATTCGTGTGGTTGAACTGCCCAGAAATATCCTGCCCAAAGGTAT
118333 ACCCTGCTCCTCGAGGAGATATTCCCCACCCACATCGGTCGTCGGGATCAGACCATAAGAGATCA
66 ACCCTGCTCCTCGAGGAGATATTCCCCACCCACATCGGTCGTCGGGATCAGACCATAAGAGATCA
118398 CACATTGGACCCTCACGAGGAACCTACACAACCAACAAATACAAAGATGCTAGTAAAATTTAAAA
131 CACATTGGACCCTCACGAGGAACCTACACAACCAACAAATACAAAGATGCTAGTAAAATTTAAAA
118463 TACAGCAATACTGAGGAAGGCATATTTGACGTGATGACCCCAGTTAGGCTTCTAGAAAAACAGTG
196 TACAGCAATACTGAGGAAGGCATATTTGACGTGATGACCCCAGTTAGGCTTCTAGAAAAACAGTG
118528 ATAATAATGCTAACTGATAGATGTGACATCATTACCAGTATCTAGAATCATGTCCATAAAAAAGA
261 ATAATAATGCTAACTGATAGATGTGACATCATTACCAGTATCTAGAATCATGTCCATAAAAAAGA
*
118593 CAGCATTCGTAGGGCCAATTTCGATTTATGAGTCATGGTATCTTTAGTTAGTGAGTCGGGAAATC
326 CAACATTCGTAGGGCCAATTTCGATTTATGAGTCATGGTATCTTTAGTTAGTGAGTCGGGAAATC
118658 AAAAAGTTCTACTCCAACCTACCTCTTATTTTCAAAAAATAATACCCA
391 AAAAAGTTCTACTCCAACCTACCTCTTATTTTCAAAAAATAATACCCA
118706 T
1 T
118707 TACAAATTCC
Statistics
Matches: 438, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
438 438 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (438 bp):
TCTAGACATCAGGGTGAGCCCATTCGTGTGGTTGAACTGCCCAGAAATATCCTGCCCAAAGGTAT
ACCCTGCTCCTCGAGGAGATATTCCCCACCCACATCGGTCGTCGGGATCAGACCATAAGAGATCA
CACATTGGACCCTCACGAGGAACCTACACAACCAACAAATACAAAGATGCTAGTAAAATTTAAAA
TACAGCAATACTGAGGAAGGCATATTTGACGTGATGACCCCAGTTAGGCTTCTAGAAAAACAGTG
ATAATAATGCTAACTGATAGATGTGACATCATTACCAGTATCTAGAATCATGTCCATAAAAAAGA
CAACATTCGTAGGGCCAATTTCGATTTATGAGTCATGGTATCTTTAGTTAGTGAGTCGGGAAATC
AAAAAGTTCTACTCCAACCTACCTCTTATTTTCAAAAAATAATACCCA
Found at i:120948 original size:32 final size:31
Alignment explanation
Indices: 120878--120958 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
120868 GATCGGGTTG
* * *
120878 GTTTTTTTTTTTAAATATTCAGGATTGGGTC
1 GTTTTTTTTTTTAAAAAATCAGGATTAGGTC
* *
120909 GTATTTTTTTTTAAAAAATC-GGGTTCAGGTC
1 GTTTTTTTTTTTAAAAAATCAGGATT-AGGTC
*
120940 AGTTTTTTTTTTAAAAAAA
1 -GTTTTTTTTTTTAAAAAA
120959 AAAGGGGATC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 4 0.10
31 21 0.51
32 16 0.39
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.51
Consensus pattern (31 bp):
GTTTTTTTTTTTAAAAAATCAGGATTAGGTC
Found at i:120959 original size:34 final size:33
Alignment explanation
Indices: 120921--121014 Score: 100
Period size: 32 Copynumber: 2.8 Consensus size: 33
120911 ATTTTTTTTT
*
120921 AAAAAATCGGGTTCAGGTCAGTTTTTTTTTTAAA
1 AAAAAATCGGGTTCGGGTCAG-TTTTTTTTTAAA
** * *
120955 AAAAAAAGGGGATCGGGTCAG-ATTTTTTTAAA
1 AAAAAATCGGGTTCGGGTCAGTTTTTTTTTAAA
* * *
120987 AAAAAATCGAGTTCGGGTCGGGTTTTTT
1 AAAAAATCGGGTTCGGGTCAGTTTTTTT
121015 AAGTGTGATA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
32 26 0.54
33 5 0.10
34 17 0.35
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (33 bp):
AAAAAATCGGGTTCGGGTCAGTTTTTTTTTAAA
Found at i:121029 original size:27 final size:27
Alignment explanation
Indices: 120998--121093 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 27
120988 AAAAATCGAG
120998 TTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTAAGTGTGATA
** *
121025 TTCGGGTTTGATTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTAAGTGTGATA
121052 TTCGGGTCAGATCGAGTTTTTTTAAGTGTGATA
1 TTCGGGTC-G---G-G-TTTTTTAAGTGTGATA
121085 TTCGGGTCG
1 TTCGGGTCG
121094 AGTTCGGGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 31 0.54
31 1 0.02
32 1 0.02
33 24 0.42
ACGTcount: A:0.17, C:0.08, G:0.30, T:0.45
Consensus pattern (27 bp):
TTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:121077 original size:33 final size:28
Alignment explanation
Indices: 121009--121092 Score: 107
Period size: 33 Copynumber: 2.9 Consensus size: 28
120999 TCGGGTCGGG
*
121009 TTTTTTAAGTGTGATATTCGGGT-TTGA
1 TTTTTTAAGTGTGATATTCGGGTCTCGA
121036 TTTTTTAAGTGTGATATTCGGGTCAGATCGA
1 TTTTTTAAGTGTGATATTCGGGTC---TCGA
121067 GTTTTTTTAAGTGTGATATTCGGGTC
1 --TTTTTTAAGTGTGATATTCGGGTC
121093 GAGTTCGGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
27 23 0.46
31 3 0.06
33 24 0.48
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.48
Consensus pattern (28 bp):
TTTTTTAAGTGTGATATTCGGGTCTCGA
Found at i:123546 original size:88 final size:91
Alignment explanation
Indices: 123414--123681 Score: 395
Period size: 90 Copynumber: 3.0 Consensus size: 91
123404 TAAAAATATT
* * *
123414 AATAAAATATTAAATTTATTTTTAAACATTTCCATTAAATTTATTTTATTGTAAAGCTTACATTA
1 AATAAAATATTAAATTTATTTTTAAACATTTCCTTTAAATTTATTTTATTGTAAATCTTCCATTA
123479 AAAATATAATA-TTTTATATTTTAAA
66 AAAATATAATATTTTTATATTTTAAA
* * *
123504 AATAAAATATTAAA-TTA-TTTCAAGCATTTCCTTTAAATTTATTTAATTGTAAATCTTCCATTA
1 AATAAAATATTAAATTTATTTTTAAACATTTCCTTTAAATTTATTTTATTGTAAATCTTCCATTA
*
123567 ACAATATAATATTTTTATATTTTAAA
66 AAAATATAATATTTTTATATTTTAAA
* *
123593 AATAAAATATTAAATTTATTTTTAAACATTT-CTATTCAACTTT-TTTT-TTCTAAATCTTCCAT
1 AATAAAATATTAAATTTATTTTTAAACATTTCCT-TT-AAATTTATTTTATTGTAAATCTTCCAT
123655 TAAAAATATAATATTTTTATATTTTAA
64 TAAAAATATAATATTTTTATATTTTAA
123682 TCATTTATGT
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
88 50 0.31
89 31 0.19
90 59 0.37
91 15 0.09
92 5 0.03
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (91 bp):
AATAAAATATTAAATTTATTTTTAAACATTTCCTTTAAATTTATTTTATTGTAAATCTTCCATTA
AAAATATAATATTTTTATATTTTAAA
Found at i:137823 original size:45 final size:45
Alignment explanation
Indices: 137759--137849 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
137749 CAAAAAGGGG
137759 TACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTGCT
1 TACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTGCT
*
137804 TACTTATTTCTATGTTTCCATTTTCAATTGTTTTTGTAATTTGCT
1 TACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTGCT
137849 T
1 T
137850 GTACATGCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.59
Consensus pattern (45 bp):
TACTTATTTCTATGTTTCCATTCTCAATTGTTTTTGTAATTTGCT
Found at i:140269 original size:45 final size:45
Alignment explanation
Indices: 140192--140335 Score: 182
Period size: 45 Copynumber: 3.1 Consensus size: 45
140182 ATTTATTTTC
*
140192 ATTTTTCGAATAAATGCTTGCGAACTAGATATCATGCGGTTAGGTTT
1 ATTTTTCGAA-AAA-GCATGCGAACTAGATATCATGCGGTTAGGTTT
* *
140239 ATTTTTCGAACAAGCATGCGAACTAAATATCATGCGGTTAGGTTT
1 ATTTTTCGAAAAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
* * *
140284 A-TTTTCTGAATAAGCATGCGAATTAGATATCATGAGGTTAGGATTT
1 ATTTTTC-GAAAAAGCATGCGAACTAGATATCATGCGGTTAGG-TTT
*
140330 CTTTTT
1 ATTTTT
140336 GTGGATAACA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
44 5 0.06
45 62 0.72
46 5 0.06
47 14 0.16
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (45 bp):
ATTTTTCGAAAAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
Found at i:150019 original size:9 final size:9
Alignment explanation
Indices: 150005--150097 Score: 63
Period size: 9 Copynumber: 10.7 Consensus size: 9
149995 AGAGAAGAAG
150005 AAAAAATGA
1 AAAAAATGA
*
150014 AAAAAAAG-
1 AAAAAATGA
150022 AAAAAAT-A
1 AAAAAATGA
* *
150030 ATAATAATAAA
1 A-AAAAAT-GA
*
150041 AACAAAACGA
1 AA-AAAATGA
*
150051 AAAAAATGG
1 AAAAAATGA
150060 AAAAAATG-
1 AAAAAATGA
150068 -AAAAATG-
1 AAAAAATGA
150075 AAAAAA-GA
1 AAAAAATGA
*
150083 GAAAAATGA
1 AAAAAATGA
150092 AAAAAA
1 AAAAAA
150098 AAGAGAAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
7 8 0.12
8 17 0.26
9 32 0.48
10 4 0.06
11 5 0.08
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Found at i:150071 original size:16 final size:16
Alignment explanation
Indices: 150052--150096 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
150042 ACAAAACGAA
*
150052 AAAAATGGAAAAAA-TG
1 AAAAAT-GAAAAAAGAG
150068 AAAAATGAAAAAAGAG
1 AAAAATGAAAAAAGAG
150084 AAAAATGAAAAAA
1 AAAAATGAAAAAA
150097 AAAGAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (16 bp):
AAAAATGAAAAAAGAG
Found at i:150110 original size:16 final size:16
Alignment explanation
Indices: 150060--150110 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
150050 AAAAAAATGG
* *
150060 AAAAAATGAAAAATGA
1 AAAAAAAGAAAAATAA
*
150076 AAAAAGAGAAAAATGAA
1 AAAAAAAGAAAAAT-AA
*
150093 AAAAAAAGAGAAATAA
1 AAAAAAAGAAAAATAA
150109 AA
1 AA
150111 GGAGGGTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (16 bp):
AAAAAAAGAAAAATAA
Found at i:151474 original size:51 final size:51
Alignment explanation
Indices: 151413--151717 Score: 520
Period size: 51 Copynumber: 5.9 Consensus size: 51
151403 AAATTCGTTT
*
151413 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
151464 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
151515 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
*
151566 GTTGAAGATTGAGTCATATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
*
151617 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
* * *
151668 GTTGAAGATTGTTTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACA
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
151718 CGTTTGCCAA
Statistics
Matches: 243, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
51 208 0.86
55 35 0.14
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
Found at i:152323 original size:43 final size:44
Alignment explanation
Indices: 152258--152342 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 44
152248 AAGGGGTACT
152258 TATTTCTATGTTTCCATCTCAATTG-TTTTTGTAATTTGCTTAC
1 TATTTCTATGTTTCCATCTCAATTGTTTTTTGTAATTTGCTTAC
*
152301 TATTTCTATGTTTCCATTTCAATTGTTTTTTGTAATTTGCTT
1 TATTTCTATGTTTCCATCTCAATTGTTTTTTGTAATTTGCTT
152343 GTACATGCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 24 0.60
44 16 0.40
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.59
Consensus pattern (44 bp):
TATTTCTATGTTTCCATCTCAATTGTTTTTTGTAATTTGCTTAC
Found at i:153003 original size:2 final size:2
Alignment explanation
Indices: 152992--153020 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
152982 TACTTTAATG
152992 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
153021 CATTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:160229 original size:32 final size:32
Alignment explanation
Indices: 160188--160269 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
160178 TGGACGTCTG
160188 CATGT-GCCATGCACGTCCCCAACA-CCCAACA
1 CATGTCGCCATGCAC-TCCCCAACACCCCAACA
160219 CATGTCGCCATGCACTCCCCAACACCCCAACA
1 CATGTCGCCATGCACTCCCCAACACCCCAACA
*
160251 CAGGTCGCCATGCACTCCC
1 CATGTCGCCATGCACTCCC
160270 AGCGACCTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
31 14 0.29
32 34 0.71
ACGTcount: A:0.26, C:0.48, G:0.13, T:0.13
Consensus pattern (32 bp):
CATGTCGCCATGCACTCCCCAACACCCCAACA
Found at i:160294 original size:29 final size:29
Alignment explanation
Indices: 160252--160334 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
160242 ACCCCAACAC
160252 AGGTCGCCATGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
***
160281 AGGTCGCCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* *
160310 AGGTCGCCAAGCAGTCCCAGCGACC
1 AGGTCGCCATGCACTCCCAGCGACC
160335 AAGCTTGGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.22, C:0.40, G:0.24, T:0.14
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:160578 original size:26 final size:26
Alignment explanation
Indices: 160549--160600 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
160539 ATGCACGAGG
*
160549 GAGCATGGTTAAGTTTGGTCGCCAGC
1 GAGCAGGGTTAAGTTTGGTCGCCAGC
160575 GAGCAGGGTTAAGTTTGGTCGCCAGC
1 GAGCAGGGTTAAGTTTGGTCGCCAGC
160601 TTGGTCGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.37, T:0.25
Consensus pattern (26 bp):
GAGCAGGGTTAAGTTTGGTCGCCAGC
Found at i:161191 original size:10 final size:10
Alignment explanation
Indices: 161178--161302 Score: 52
Period size: 10 Copynumber: 11.1 Consensus size: 10
161168 AACACAAATG
161178 AACGAACATA
1 AACGAACATA
161188 AACGAACGGATGTA
1 AACGAAC--A--TA
*
161202 AACAAACATA
1 AACGAACATA
161212 AACGAAAACAATA
1 AACG--AAC-ATA
*
161225 AACGAACGTA
1 AACGAACATA
* *
161235 AATGAACACAAATG
1 AACG-A-AC--ATA
*
161249 AACGAACGTA
1 AACGAACATA
161259 AACGAACACAATA
1 AACG-A-AC-ATA
* *
161272 AATGAATATA
1 AACGAACATA
*
161282 AACGAACGTA
1 AACGAACATA
161292 AACGAACATA
1 AACGAACATA
161302 A
1 A
161303 CTGAAAATAG
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
10 42 0.49
11 6 0.07
12 12 0.14
13 13 0.15
14 12 0.14
ACGTcount: A:0.58, C:0.17, G:0.14, T:0.12
Consensus pattern (10 bp):
AACGAACATA
Found at i:161194 original size:24 final size:24
Alignment explanation
Indices: 161161--161288 Score: 116
Period size: 24 Copynumber: 5.4 Consensus size: 24
161151 CATTTAAATG
* *
161161 ATAAATGAACACAAATGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
** ** *
161185 ATAAACGAACGGATGTAAACAAAC
1 ATAAACGAACACAAATAAACGAAC
*
161209 ATAAACGAAAAC-AATAAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* * *
161232 GTAAATGAACACAAATGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* * *
161256 GTAAACGAACAC-AATAAATGAAT
1 ATAAACGAACACAAATAAACGAAC
161279 ATAAACGAAC
1 ATAAACGAAC
161289 GTAAACGAAC
Statistics
Matches: 81, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
23 34 0.42
24 47 0.58
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.12
Consensus pattern (24 bp):
ATAAACGAACACAAATAAACGAAC
Found at i:161518 original size:24 final size:24
Alignment explanation
Indices: 161491--161550 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
161481 AAATGAGTAC
161491 ACATAAATGAACATAAACGAAA-A
1 ACATAAATGAACATAAACGAAAGA
* *
161514 GACATAAATTAACATAAACGAACGA
1 -ACATAAATGAACATAAACGAAAGA
161539 ACATAAATGAAC
1 ACATAAATGAAC
161551 GAACATTCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (24 bp):
ACATAAATGAACATAAACGAAAGA
Found at i:161543 original size:14 final size:14
Alignment explanation
Indices: 161524--161556 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
161514 GACATAAATT
161524 AACATAAACGAACG
1 AACATAAACGAACG
*
161538 AACATAAATGAACG
1 AACATAAACGAACG
161552 AACAT
1 AACAT
161557 TCACGAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:168439 original size:26 final size:26
Alignment explanation
Indices: 168400--168449 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
168390 AAAAAAATTG
*
168400 AATACTTTAAGTACTTATTTTGACCA
1 AATACTTTAAGTACCTATTTTGACCA
*
168426 AATACTTTAGGTACCTATTTTGAC
1 AATACTTTAAGTACCTATTTTGAC
168450 AAAAAACGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (26 bp):
AATACTTTAAGTACCTATTTTGACCA
Found at i:169173 original size:30 final size:31
Alignment explanation
Indices: 169107--169165 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
169097 ATAAAACCGG
* *
169107 TAAAAAAATGACCGGAAACATTATTAGGCAC
1 TAAAAAAATGACCGAAAACATTATTAGACAC
169138 TAAAAAAA-GACCGAAAACATTATTAGAC
1 TAAAAAAATGACCGAAAACATTATTAGAC
169166 GTTAAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.53, C:0.15, G:0.14, T:0.19
Consensus pattern (31 bp):
TAAAAAAATGACCGAAAACATTATTAGACAC
Found at i:169648 original size:15 final size:15
Alignment explanation
Indices: 169628--169675 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
169618 ATCAAAATAT
169628 TATTTATTATATTAA
1 TATTTATTATATTAA
* *
169643 TATTTATAATATAAA
1 TATTTATTATATTAA
169658 TATTATATT-T-TTAA
1 TATT-TATTATATTAA
169672 TATT
1 TATT
169676 ATATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 7 0.25
15 18 0.64
16 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATTATATTAA
Found at i:169667 original size:20 final size:21
Alignment explanation
Indices: 169636--169674 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
169626 ATTATTTATT
169636 ATATTAATATTTATAATATAA
1 ATATTAATATTTATAATATAA
*
169657 ATATT-ATATTTTTAATAT
1 ATATTAATATTTATAATAT
169675 TATATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTAATATTTATAATATAA
Found at i:169765 original size:26 final size:28
Alignment explanation
Indices: 169724--169788 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
169714 TTTATTTTTA
* *
169724 TTTTAATAATATAATAATTTTTTATAT-
1 TTTTAATAATAGAATAATTATTTATATG
169751 TTTTAATAAT-GAATAATTATTTATATG
1 TTTTAATAATAGAATAATTATTTATATG
*
169778 TTTAAATAATA
1 TTTTAATAATA
169789 TTTTAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTTAATAATAGAATAATTATTTATATG
Found at i:169785 original size:27 final size:26
Alignment explanation
Indices: 169715--169788 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
169705 TATAAGATGT
* *
169715 TTATTTTTATTTTAATAATATAATAA
1 TTATTTATATTTTAATAATAGAATAA
*
169741 TTTTTTATATTTTTAATAAT-GAATAA
1 TTATTTATA-TTTTAATAATAGAATAA
169767 TTATTTATATGTTTAAATAATA
1 TTATTTATAT-TTT-AATAATA
169789 TTTTAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
26 23 0.57
27 16 0.40
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (26 bp):
TTATTTATATTTTAATAATAGAATAA
Found at i:169955 original size:29 final size:29
Alignment explanation
Indices: 169901--169958 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
169891 AAAATATACA
*
169901 AAAATTAATATTTTTATTAATAAAATTAT
1 AAAATTAATATTTTTATAAATAAAATTAT
169930 AAAA-TAATATTTATTAATAAAT-AAATTAT
1 AAAATTAATATTT-TT-ATAAATAAAATTAT
169959 TTTAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.31
29 13 0.50
30 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAATTAATATTTTTATAAATAAAATTAT
Found at i:172428 original size:30 final size:30
Alignment explanation
Indices: 172392--172448 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
172382 TGTTATAAAT
*
172392 CGATAACATTAGTGATTAATTTGTTACAAG
1 CGATAACATTAGTGATCAATTTGTTACAAG
172422 CGATAACATTAGTGATCAATTTGTTAC
1 CGATAACATTAGTGATCAATTTGTTAC
172449 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (30 bp):
CGATAACATTAGTGATCAATTTGTTACAAG
Found at i:173564 original size:12 final size:12
Alignment explanation
Indices: 173538--173584 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
173528 ATTTTTTAAT
*
173538 ATTTTA-AATTT
1 ATTTTATAATTA
173549 ATTTTATAATTA
1 ATTTTATAATTA
*
173561 ATTTTGTAATTAA
1 ATTTTATAATT-A
*
173574 ATTTTGTAATT
1 ATTTTATAATT
173585 TAATAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 6 0.19
12 14 0.44
13 12 0.38
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (12 bp):
ATTTTATAATTA
Found at i:173578 original size:13 final size:12
Alignment explanation
Indices: 173544--173584 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
173534 TAATATTTTA
* *
173544 AATTTATTTTAT
1 AATTAATTTTGT
173556 AATTAATTTTGT
1 AATTAATTTTGT
173568 AATTAAATTTTGT
1 AATT-AATTTTGT
173581 AATT
1 AATT
173585 TAATAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (12 bp):
AATTAATTTTGT
Found at i:184664 original size:224 final size:221
Alignment explanation
Indices: 184246--184692 Score: 792
Period size: 224 Copynumber: 2.0 Consensus size: 221
184236 CTAAACCGAA
*
184246 CCGAACCGAATACACCCCTACCTCGAACAATCGGCAATGCTGATTAATGATGGGATTTATTTTTT
1 CCGAACCGAATACACCCCTACCTCGAACAATCGGCAATGCGGATTAATGATGGGATTTATTTTTT
184311 TTTCCGTCTTAAATCAAAATGGTGTTTCAATGAATAAAATCATTAATAAACTACTATTTAATATG
66 TTTCCGTCTTAAATCAAAATGGTGTTTCAATGAATAAAATCATTAATAAACTACTATTTAATATG
184376 AATCTATTTAGTGGGATAATGATAAGTGGAATATTATTTTATTTAAAGGTCTTGGATCGTAGCTA
131 AATCTATTTAGTGGGATAATGATAAGTGGAATATTA--TTATTTAAAGGTCTTGGATCGTAGCTA
184441 TTTTTGTAGAAAATATCTTGTCAAGAGT
194 TTTTTGTAGAAAATATCTTGTCAAGAGT
184469 CCGAACCGAATACACCCCTACCTCGAACAATCGGCAATGCAAGGA-TAATGATGGGATTTATTTT
1 CCGAACCGAATACACCCCTACCTCGAACAATCGGCAATGC--GGATTAATGATGGGATTTATTTT
184533 TTTTTCCGTCTTAAATCAAAATGGTGTTTCAATGAATAAAATCATTAATAAACTACTATTTAATA
64 TTTTTCCGTCTTAAATCAAAATGGTGTTTCAATGAATAAAATCATTAATAAACTACTATTTAATA
184598 TGAATCTATTTAGTGGGATTAATGATAAAGTGGAATATTA-T-TTTAAAGGTCTTGGATCGTGTA
129 TGAATCTATTTAGTGGGA-TAATGAT-AAGTGGAATATTATTATTTAAAGGTCTTGGATC--GTA
184661 GCTATTTTTGTAGAAAATATCTTGTCAAGAGT
190 GCTATTTTTGTAGAAAATATCTTGTCAAGAGT
184693 TAATAAGATT
Statistics
Matches: 217, Mismatches: 1, Indels: 11
0.95 0.00 0.05
Matches are distributed among these distances:
222 17 0.08
223 41 0.19
224 137 0.63
225 9 0.04
226 13 0.06
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (221 bp):
CCGAACCGAATACACCCCTACCTCGAACAATCGGCAATGCGGATTAATGATGGGATTTATTTTTT
TTTCCGTCTTAAATCAAAATGGTGTTTCAATGAATAAAATCATTAATAAACTACTATTTAATATG
AATCTATTTAGTGGGATAATGATAAGTGGAATATTATTATTTAAAGGTCTTGGATCGTAGCTATT
TTTGTAGAAAATATCTTGTCAAGAGT
Found at i:197156 original size:30 final size:27
Alignment explanation
Indices: 197122--197196 Score: 69
Period size: 30 Copynumber: 2.7 Consensus size: 27
197112 GTAAATAAAC
* *
197122 TATTCATATGTACATTTTTAATTTAGTAAT
1 TATTCATATGTACATTTTT--TTTAAT-AG
* * *
197152 TATTCACATATACAATTTTTTTAATAG
1 TATTCATATGTACATTTTTTTTAATAG
*
197179 TATTCGTATGTACATTTT
1 TATTCATATGTACATTTT
197197 ATGTAGTGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
27 15 0.42
28 5 0.14
30 16 0.44
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (27 bp):
TATTCATATGTACATTTTTTTTAATAG
Found at i:197838 original size:41 final size:41
Alignment explanation
Indices: 197757--197846 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
197747 TTCGAACTGC
* *
197757 TTAACTCATTAAACACCACCAGCAATGATTGATCTTTATAT
1 TTAACTCATTAAACACCACCAGCAATGAATGATCTATATAT
* * *
197798 TTAACTCATTAAGCACCACCAGCAGTGAATGATGTATATAT
1 TTAACTCATTAAACACCACCAGCAATGAATGATCTATATAT
*
197839 ATAA-TCAT
1 TTAACTCAT
197847 CAATGCCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 4 0.09
41 39 0.91
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (41 bp):
TTAACTCATTAAACACCACCAGCAATGAATGATCTATATAT
Found at i:203732 original size:7 final size:7
Alignment explanation
Indices: 203720--203746 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
203710 ATATTTATTA
203720 TAAATTT
1 TAAATTT
203727 TAAATTT
1 TAAATTT
203734 TAAATTT
1 TAAATTT
203741 TAAATT
1 TAAATT
203747 GAACAGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAAATTT
Found at i:204326 original size:32 final size:32
Alignment explanation
Indices: 204285--204368 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 32
204275 TATTTTTTAT
204285 AAAAAATCTGGAAACTTTATTTACCCTGGGTA
1 AAAAAATCTGGAAACTTTATTTACCCTGGGTA
**
204317 AAAAAATCTGGAAACTTTA-TTACTTTGGGTA
1 AAAAAATCTGGAAACTTTATTTACCCTGGGTA
* * *
204348 AAGATACCTGGAAACTTTATT
1 AAAAAATCTGGAAACTTTATT
204369 GACTACAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 26 0.57
32 20 0.43
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (32 bp):
AAAAAATCTGGAAACTTTATTTACCCTGGGTA
Found at i:204747 original size:59 final size:59
Alignment explanation
Indices: 204666--204789 Score: 160
Period size: 59 Copynumber: 2.1 Consensus size: 59
204656 TGCTAAACTC
* * * * *
204666 AATATGACACATAATGTTGTGCCCACCATCTGCACTCA-GTATCATTTAGTGCTAACCCG
1 AATATGAAACAGAAGGTCGTGCCCACCATCTGCA-TCAGGTATCATTTAGTACTAACCCG
* * *
204725 AATATGAAACAGAAGGTCGTGCCCACTATCTGCATTAGGTATCCTTTAGTACTAACCCG
1 AATATGAAACAGAAGGTCGTGCCCACCATCTGCATCAGGTATCATTTAGTACTAACCCG
204784 AATATG
1 AATATG
204790 CAGCCTGGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 2 0.04
59 54 0.96
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (59 bp):
AATATGAAACAGAAGGTCGTGCCCACCATCTGCATCAGGTATCATTTAGTACTAACCCG
Found at i:206630 original size:54 final size:55
Alignment explanation
Indices: 206555--206942 Score: 383
Period size: 54 Copynumber: 7.1 Consensus size: 55
206545 GATGCACATG
* *
206555 TAGTGCCTATAC-GGTAGTTCATCAACTCATGATGAATTCCATGG-GTTGCACACA
1 TAGTGCCTGTACGGGTA-TTCATCAACTCATGATGAATTCCGTGGAGTTGCACACA
* *
206609 TCGTGCCTGTACGGGTATTCATCAACTCATGATGAATTTCGTGG-GTTGCACACA
1 TAGTGCCTGTACGGGTATTCATCAACTCATGATGAATTCCGTGGAGTTGCACACA
* * * * * *
206663 TCGTGCTTGTACGGGTATTCATTAACTCATGATGAATTCTGTGG-GTTACATACA
1 TAGTGCCTGTACGGGTATTCATCAACTCATGATGAATTCCGTGGAGTTGCACACA
* * ** *
206717 TCGTGCCTGTACGAGTATTCATCAACTCATGATGAATTTTGTGGATTTGCACACA
1 TAGTGCCTGTACGGGTATTCATCAACTCATGATGAATTCCGTGGAGTTGCACACA
* ** ** * *** * *
206772 TAATGTTTGCCCGGTTATTCATCAACTCATGATGAATTTTATGGATTTGTACACA
1 TAGTGCCTGTACGGGTATTCATCAACTCATGATGAATTCCGTGGAGTTGCACACA
* * * *
206827 TAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCCCACA
1 TAGTGCCTGTACGGGTATTCATCAACTCATGATGAATTCCGTGGAGTTGCACACA
* * * * ** *
206882 TAGTGCATGTACGGTTATTCATCCAC-CTAGGATGAATTCCGT-GAAATGCACACT
1 TAGTGCCTGTACGGGTATTCATCAACTC-ATGATGAATTCCGTGGAGTTGCACACA
206936 TAGTGCC
1 TAGTGCC
206943 GAAATGGTTA
Statistics
Matches: 287, Mismatches: 44, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
54 148 0.52
55 139 0.48
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (55 bp):
TAGTGCCTGTACGGGTATTCATCAACTCATGATGAATTCCGTGGAGTTGCACACA
Found at i:206736 original size:108 final size:108
Alignment explanation
Indices: 206567--206904 Score: 426
Period size: 108 Copynumber: 3.1 Consensus size: 108
206557 GTGCCTATAC
*
206567 GGTAGTTCATCAACTCATGATGAATTCCATGGGTTGCACACATCGTGCCTGTACGGGTATTCATC
1 GGTA-TTCATCAACTCATGATGAATTCTATGGGTTGCACACATCGTGCCTGTAC-GGTATTCATC
* *
206632 AACTCATGATGAATTTCGTGG-GTTGCACACATCGTGCTTGTACG
64 AACTCATGATGAATTTCGTGGATTTGCACACATAGTGCTTGTACG
* * * *
206676 GGTATTCATTAACTCATGATGAATTCTGTGGGTTACATACATCGTGCCTGTACGAGTATTCATCA
1 GGTATTCATCAACTCATGATGAATTCTATGGGTTGCACACATCGTGCCTGTACG-GTATTCATCA
* * * **
206741 ACTCATGATGAATTTTGTGGATTTGCACACATAATGTTTGCCCG
65 ACTCATGATGAATTTCGTGGATTTGCACACATAGTGCTTGTACG
* * * * * *
206785 GTTATTCATCAACTCATGATGAATTTTATGGATTTGTACACATAGTGCATGTACGGTTATTCATC
1 GGTATTCATCAACTCATGATGAATTCTATGG-GTTGCACACATCGTGCCTGTACGG-TATTCATC
* * *
206850 AACTCATGATGAATTCCGTGGATTTGCCCACATAGTGCATGTACG
64 AACTCATGATGAATTTCGTGGATTTGCACACATAGTGCTTGTACG
*
206895 GTTATTCATC
1 GGTATTCATC
206905 CACCTAGGAT
Statistics
Matches: 195, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
107 1 0.01
108 73 0.37
109 49 0.25
110 72 0.37
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (108 bp):
GGTATTCATCAACTCATGATGAATTCTATGGGTTGCACACATCGTGCCTGTACGGTATTCATCAA
CTCATGATGAATTTCGTGGATTTGCACACATAGTGCTTGTACG
Found at i:206916 original size:55 final size:54
Alignment explanation
Indices: 206555--207157 Score: 367
Period size: 54 Copynumber: 11.1 Consensus size: 54
206545 GATGCACATG
* * *
206555 TAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTCCATGG-GTTGCACACA
1 TAGTG-CTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* * * *
206609 TCGTGCCTGTACGGGTATTCATCAACTCATGATGAATTTCGTGG-GTTGCACACA
1 TAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* * * * * * *
206663 TCGTGCTTGTACGGGTATTCATTAACTCATGATGAATTCTGTGG-GTTACATACA
1 TAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* ** *
206717 TCGTGCCTGTACGAG-TATTCATCAACTCATGATGAATTTTGTGGATTTGCACACA
1 TAGTG-CTGTACG-GTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* * ** *** * *
206772 TAATGTTTGCCCGGTTATTCATCAACTCATGATGAATTTTATGGATTTGTACACA
1 TAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* *
206827 TAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCCCACA
1 TAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* * * *
206882 TAGTGCATGTACGGTTATTCATCCAC-CTAGGATGAATTCCGT-GAAATGCACACT
1 TAGTGC-TGTACGGTTATTCATCAACTC-ATGATGAATTCCGTGGAATTGCACACA
* * * * * * *
206936 TAGTGCCGAAATGGTTATTCATCCAC-CTAGGATGAATTCCGT-GAAATGCACACT
1 TAGTGCTG-TACGGTTATTCATCAACTC-ATGATGAATTCCGTGGAATTGCACACA
* * * * * *
206990 TAGTG-TCGAAATGGTTATTCATCCAC-CTAGGATGAATTCCGT-GAAATGCACACT
1 TAGTGCT-G-TACGGTTATTCATCAACTC-ATGATGAATTCCGTGGAATTGCACACA
* * * * * * * *
207044 TAGTGCCGAAACGATTATTCATCCACAT-ATGATGAATTCCAT-GAAATACACACT
1 TAGTGCTG-TACGGTTATTCATCAAC-TCATGATGAATTCCGTGGAATTGCACACA
* * * * * *
207098 TAGTG-TCGAAACGATTATTCATCCAC-CTAGGATGAATTCCGT-GAAATGCACACT
1 TAGTGCT-G-TACGGTTATTCATCAACTC-ATGATGAATTCCGTGGAATTGCACACA
207152 TAGTGC
1 TAGTGC
207158 CTATTTGGTA
Statistics
Matches: 481, Mismatches: 51, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.00
54 340 0.71
55 139 0.29
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (54 bp):
TAGTGCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
Found at i:206959 original size:54 final size:54
Alignment explanation
Indices: 206892--207158 Score: 444
Period size: 54 Copynumber: 4.9 Consensus size: 54
206882 TAGTGCATGT
206892 ACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
1 ACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* *
206946 ATGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGTCGAA
1 ACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
*
207000 ATGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
1 ACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* * * * * *
207054 ACGATTATTCATCCACATATGATGAATTCCATGAAATACACACTTAGTGTCGAA
1 ACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
*
207108 ACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCC
1 ACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCC
207159 TATTTGGTAA
Statistics
Matches: 198, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 198 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (54 bp):
ACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
Found at i:212173 original size:6 final size:7
Alignment explanation
Indices: 212156--212180 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
212146 ATAAACTTTA
212156 AAAAAAT
1 AAAAAAT
212163 AAAAAAT
1 AAAAAAT
212170 AAAAAAT
1 AAAAAAT
212177 AAAA
1 AAAA
212181 TGAGAGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:213275 original size:20 final size:19
Alignment explanation
Indices: 213238--213276 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
213228 AGTTTATAGA
*
213238 TTTAAAATTAATTAAAATT
1 TTTAAAATGAATTAAAATT
*
213257 TTTAAATATGAATTTAAATT
1 TTTAAA-ATGAATTAAAATT
213277 AACCCAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTAAAATGAATTAAAATT
Found at i:214011 original size:60 final size:60
Alignment explanation
Indices: 213912--214043 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
213902 TTTTAAATTG
* * ** *
213912 GTCCCTAAACTTTTAAATATTTCAATCTCATCCTTAAACTATAAT-TATCATTCTAATTTA
1 GTCCCTAAACTTCTAAACATTTCAATCTCATCCCCAAACTACAATCT-TCATTCTAATTTA
* * * * *
213972 GTCCTTAAACTTCTAAACATTTCATTTTCATCCCCAAACTACGATCTTCATTCTAATTTT
1 GTCCCTAAACTTCTAAACATTTCAATCTCATCCCCAAACTACAATCTTCATTCTAATTTA
*
214032 GTCCCCAAACTT
1 GTCCCTAAACTT
214044 TTTTAAATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 58 0.98
61 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (60 bp):
GTCCCTAAACTTCTAAACATTTCAATCTCATCCCCAAACTACAATCTTCATTCTAATTTA
Done.