Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 67 of 189
Found at i:18649321 original size:39 final size:40
Alignment explanation
Indices: 18649278--18649401 Score: 146
Period size: 39 Copynumber: 3.1 Consensus size: 40
18649268 TTTTTTTCCC
18649278 TCCTTCCCTCTTCTTC-TTCTTTTTTTTTCTCTTCTCCTT
1 TCCTTCCCTCTTCTTCTTTCTTTTTTTTTCTCTTCTCCTT
** * *
18649317 TCCTTTTCT-TTCCTTCTTTCTTTCTTTTT-TCTTCTCTTT
1 TCCTTCCCTCTT-CTTCTTTCTTTTTTTTTCTCTTCTCCTT
*
18649356 TCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTT
1 TCCTTC-CCTCTTCTTCTTTC-TT-TTTTTTTCTCTTCTCCTT
18649399 TCC
1 TCC
18649402 CTTTCTTTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
38 2 0.03
39 25 0.36
40 20 0.29
41 4 0.06
42 6 0.09
43 12 0.17
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (40 bp):
TCCTTCCCTCTTCTTCTTTCTTTTTTTTTCTCTTCTCCTT
Found at i:18649337 original size:4 final size:4
Alignment explanation
Indices: 18649321--18649470 Score: 105
Period size: 4 Copynumber: 37.0 Consensus size: 4
18649311 CTCCTTTCCT
* *
18649321 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTC CTTC TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC TTTC
* * *
18649370 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCCC TTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC TTTC
* * * *
18649417 TTTC TTTC TTCCC TCTCC TTTC TTCC TTTC TTTC TCTC TTTC TTTC TTTC
1 TTTC TTTC TT-TC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
18649467 TTTC
1 TTTC
18649471 CCTCTCCTTC
Statistics
Matches: 118, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
3 15 0.13
4 81 0.69
5 15 0.13
6 7 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:18649354 original size:44 final size:43
Alignment explanation
Indices: 18649287--18649469 Score: 170
Period size: 44 Copynumber: 4.3 Consensus size: 43
18649277 CTCCTTCCCT
*
18649287 CTTC-TTC-TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-CTTTTCTTTC
* *
18649329 CTTCTTTCTTTCTTTTTTCTTCTCTTTTCC-TTCTCTTC-TT-
1 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTCTTTTCTTTC
*
18649369 CTTCTTTCTTTC-TTTTT-TTCTCTTCTCCTTTCCCTTTCTTTC
1 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-CTTTTCTTTC
* * *
18649411 CTTC-TT-TTTCTTTCTTCCCTCTCCTTTCTTCCTTTC-TTTCTCTC
1 CTTCTTTCTTTCTTT-TTTCTTCT-C-TTC-TCCTTTCTTTTCTTTC
*
18649455 TTTCTTTCTTTCTTT
1 CTTCTTTCTTTCTTT
18649470 CCCTCTCCTT
Statistics
Matches: 117, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
38 10 0.09
39 7 0.06
40 20 0.17
41 8 0.07
42 15 0.13
43 8 0.07
44 30 0.26
45 6 0.05
46 13 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTCTTTTCTTTC
Found at i:18649357 original size:29 final size:28
Alignment explanation
Indices: 18649307--18649465 Score: 93
Period size: 29 Copynumber: 5.7 Consensus size: 28
18649297 TTTTTTTTTC
*
18649307 TCTTCTCCTTTCCTTT-TCTTTCCTTCT-T
1 TCTTCTTCTTT-CTTTCT-TTTCCTTCTCT
*
18649335 TCTTTCTTTTTTCTTCTCTTTTCCTTCTCT
1 TC-TTCTTCTTTCTT-TCTTTTCCTTCTCT
*
18649365 TCTTCTTCTTTCTTTCTTTT-TTTCTCT
1 TCTTCTTCTTTCTTTCTTTTCCTTCTCT
* **
18649392 TCTCCTT-TCCCTTTC-TTTCCTTCT-T
1 TCTTCTTCTTTCTTTCTTTTCCTTCTCT
* * *
18649417 T-TTCTTTCTTCCCTCTCCTTT-CTTC-CTT
1 TCTTC-TTCTT-TCTTTCTTTTCCTTCTC-T
18649445 TCTTTCTCTCTTTCTTTCTTT
1 TC-TTCT-TCTTTCTTTCTTT
18649466 CTTTCCCTCT
Statistics
Matches: 103, Mismatches: 14, Indels: 27
0.72 0.10 0.19
Matches are distributed among these distances:
24 2 0.02
25 7 0.07
26 11 0.11
27 21 0.20
28 16 0.16
29 35 0.34
30 11 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (28 bp):
TCTTCTTCTTTCTTTCTTTTCCTTCTCT
Found at i:18649396 original size:82 final size:80
Alignment explanation
Indices: 18649278--18649479 Score: 245
Period size: 82 Copynumber: 2.5 Consensus size: 80
18649268 TTTTTTTCCC
* *
18649278 TCCTTCCCTCTTCTTC-TTC-TT-TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTT
1 TCCTTCCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC-TT-TTT
* * *
18649340 CTTT-TTTCTTCTCTTT
64 CTTTCTTCCCTCTCCTT
18649356 TCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTC
1 TCCTTC-CTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTC
18649421 TTTCTTCCCTCTCCTT
65 TTTCTTCCCTCTCCTT
* *
18649437 T-CTTCCTTTCTTTCTCTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 TCCTTCC-TTC-TTCT-TCTTTCTTTCTTTTTTTCTCTTCTCCTT
18649480 CTGCCCCCCC
Statistics
Matches: 109, Mismatches: 7, Indels: 13
0.84 0.05 0.10
Matches are distributed among these distances:
78 6 0.06
79 10 0.09
80 17 0.16
81 26 0.24
82 50 0.46
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (80 bp):
TCCTTCCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTCT
TTCTTCCCTCTCCTT
Found at i:18649406 original size:70 final size:70
Alignment explanation
Indices: 18649303--18649473 Score: 158
Period size: 70 Copynumber: 2.4 Consensus size: 70
18649293 CTTCTTTTTT
* * *
18649303 TTTCTCTTCTC-CTTTCCTT-TT-CTTT-CC-TTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCT
1 TTTCT-TTCTCTCTTTCTTTCTTCCTTTCCCTTTCTTTCCTTC-TTTTTCTT-TC--TTCCCTCT
*
18649363 CTTCTTCTT-C
61 CCT-TTCTTCC
* * *
18649373 TTTCTTTCTTTTTTTCTCT-TCTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCCCTCTCCTT
1 TTTCTTTCTCTCTTTCTTTCT-TCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCCCTCTCCTT
18649437 TCTTCC
65 TCTTCC
*
18649443 TTTCTTTCTCTCTTTCTTTCTTTCTTTCCCT
1 TTTCTTTCTCTCTTTCTTTCTTCCTTTCCCT
18649474 CTCCTTCTGC
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
69 9 0.11
70 46 0.55
71 2 0.02
72 6 0.07
73 10 0.12
74 10 0.12
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (70 bp):
TTTCTTTCTCTCTTTCTTTCTTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCCCTCTCCTTT
CTTCC
Found at i:18649590 original size:27 final size:27
Alignment explanation
Indices: 18649515--18649581 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
18649505 TATTATTAAC
18649515 TGGTGCCGCCAATAGTATTGGCACCAT
1 TGGTGCCGCCAATAGTATTGGCACCAT
* * *
18649542 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATAGTATTGGCACCAT
18649569 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
18649582 CCCATTGGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATAGTATTGGCACCAT
Found at i:18658005 original size:19 final size:20
Alignment explanation
Indices: 18657974--18658017 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
18657964 TAGAAAATAA
18657974 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
*
18657994 TTTCTG-AAAATGATTTGCT
1 TTTCTGAAAAATGATTTACT
18658013 TTTCT
1 TTTCT
18658018 AGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:18661268 original size:16 final size:16
Alignment explanation
Indices: 18661247--18661280 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18661237 GGACGAAGAG
*
18661247 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
18661263 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
18661279 GA
1 GA
18661281 GAGGCTGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:18664703 original size:41 final size:41
Alignment explanation
Indices: 18664646--18664728 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
18664636 AACCCACAAG
18664646 TATATGTTTAAGTTAAAACAGATTGGGGACTATATATAAAA
1 TATATGTTTAAGTTAAAACAGATTGGGGACTATATATAAAA
18664687 TATATGTTTAAGTTAAAACAGATTGGGGACTATATATAAAA
1 TATATGTTTAAGTTAAAACAGATTGGGGACTATATATAAAA
18664728 T
1 T
18664729 TAAATCCCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.35
Consensus pattern (41 bp):
TATATGTTTAAGTTAAAACAGATTGGGGACTATATATAAAA
Found at i:18665102 original size:16 final size:16
Alignment explanation
Indices: 18665077--18665111 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18665067 CCAATTTGAC
18665077 TTTCTGTTTTTG-TCT
1 TTTCTGTTTTTGTTCT
18665092 TTTCTTGTTTTTGTTCT
1 TTTC-TGTTTTTGTTCT
18665109 TTT
1 TTT
18665112 TCTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.77
Consensus pattern (16 bp):
TTTCTGTTTTTGTTCT
Found at i:18666498 original size:22 final size:22
Alignment explanation
Indices: 18666473--18666535 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
18666463 TAAATCTTAT
18666473 ATTTTTTAATAATTTATATAAA
1 ATTTTTTAATAATTTATATAAA
*
18666495 ATTTTTT-ATAATTT-TCTAAA
1 ATTTTTTAATAATTTATATAAA
*
18666515 ATTTTTATAATGATTTA-ATAA
1 ATTTTT-TAATAATTTATATAA
18666536 TTTCTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 11 0.31
21 8 0.23
22 16 0.46
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTTTAATAATTTATATAAA
Found at i:18666499 original size:21 final size:21
Alignment explanation
Indices: 18666475--18666547 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
18666465 AATCTTATAT
18666475 TTTTTAATAATTTATATAAAA
1 TTTTTAATAATTTATATAAAA
* *
18666496 TTTTTTATAATTT-TCTAAAA
1 TTTTTAATAATTTATATAAAA
* *
18666516 TTTTT-ATAA-TGATTTAATAA
1 TTTTTAATAATTTATATAA-AA
*
18666536 TTTCTAATAATT
1 TTTTTAATAATT
18666548 AAAAAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 1 0.02
19 8 0.19
20 17 0.40
21 16 0.37
22 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (21 bp):
TTTTTAATAATTTATATAAAA
Found at i:18666521 original size:19 final size:21
Alignment explanation
Indices: 18666473--18666525 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
18666463 TAAATCTTAT
18666473 ATTTTTTAATAATTTATATAAA
1 ATTTTTT-ATAATTTATATAAA
*
18666495 ATTTTTTATAATTT-TCTAAA
1 ATTTTTTATAATTTATATAAA
18666515 A-TTTTTATAAT
1 ATTTTTTATAAT
18666526 GATTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.33
20 6 0.20
21 7 0.23
22 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTTATAATTTATATAAA
Found at i:18666924 original size:19 final size:18
Alignment explanation
Indices: 18666833--18666925 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 18
18666823 TATTTTTTTA
18666833 TAAT-TTTTTAATAATTT
1 TAATATTTTTAATAATTT
* * *
18666850 TCAAAAATTTTAATAAGTT
1 T-AATATTTTTAATAATTT
*
18666869 TAATAATTCTTTAATAATGT
1 TAAT-ATT-TTTAATAATTT
* * * *
18666889 T-CTTTTTTTTATCATTT
1 TAATATTTTTAATAATTT
18666906 TAATATTTTTATATAATTT
1 TAATATTTTTA-ATAATTT
18666925 T
1 T
18666926 CTATATATAT
Statistics
Matches: 54, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
17 10 0.19
18 12 0.22
19 22 0.41
20 10 0.19
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.59
Consensus pattern (18 bp):
TAATATTTTTAATAATTT
Found at i:18666976 original size:30 final size:31
Alignment explanation
Indices: 18666921--18666978 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
18666911 TTTTTATATA
*
18666921 ATTTTCTATATATATATTTATAATATTTCAT
1 ATTTTCTATATATATATTGATAATATTTCAT
*
18666952 ATTTTCTATA-ATATGTTGATAATATTT
1 ATTTTCTATATATATATTGATAATATTT
18666979 GTTACATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (31 bp):
ATTTTCTATATATATATTGATAATATTTCAT
Found at i:18667537 original size:24 final size:24
Alignment explanation
Indices: 18667500--18667566 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
18667490 TTTTCTTATC
* * * *
18667500 ATTGTTTAGATACTGTTGACAAGT
1 ATTGTTTGGGTACTATTCACAAGT
18667524 ATTGTTTGGGTACTATTCACAAGT
1 ATTGTTTGGGTACTATTCACAAGT
*
18667548 ATTGTTTGGGTACTTTTCA
1 ATTGTTTGGGTACTATTCA
18667567 ACATTGTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (24 bp):
ATTGTTTGGGTACTATTCACAAGT
Found at i:18667574 original size:21 final size:24
Alignment explanation
Indices: 18667499--18667585 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 24
18667489 TTTTTCTTAT
* * * *
18667499 CATTGTTTAGATACTGTTGACAAG
1 CATTGTTTGGGTACTATTCACAAG
*
18667523 TATTGTTTGGGTACTATTCACAAG
1 CATTGTTTGGGTACTATTCACAAG
* *
18667547 TATTGTTTGGGTACT-TT-TCAA-
1 CATTGTTTGGGTACTATTCACAAG
*
18667568 CATTGTTTGAGTACTATT
1 CATTGTTTGGGTACTATT
18667586 TTGGAAATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 13 0.24
22 5 0.09
23 2 0.04
24 34 0.63
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (24 bp):
CATTGTTTGGGTACTATTCACAAG
Found at i:18669072 original size:13 final size:13
Alignment explanation
Indices: 18669054--18669078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18669044 TATTTTAATA
18669054 TTATTTTGTGTGT
1 TTATTTTGTGTGT
18669067 TTATTTTGTGTG
1 TTATTTTGTGTG
18669079 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:18671390 original size:26 final size:26
Alignment explanation
Indices: 18671360--18671410 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
18671350 ACCAATGAAC
*
18671360 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
18671386 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
18671411 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:18671444 original size:103 final size:104
Alignment explanation
Indices: 18671223--18671488 Score: 455
Period size: 103 Copynumber: 2.6 Consensus size: 104
18671213 TAACCGTTAT
* *
18671223 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
18671288 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
18671327 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
18671390 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
18671430 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
18671489 TTATATACAA
Statistics
Matches: 153, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
103 96 0.63
104 57 0.37
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:18671844 original size:29 final size:29
Alignment explanation
Indices: 18671811--18671874 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
18671801 TAATCCACCA
18671811 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
18671840 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
18671870 CCCAA
1 CCCAA
18671875 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:18671848 original size:30 final size:30
Alignment explanation
Indices: 18671818--18671874 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18671808 CCACCCAACT
18671818 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
18671847 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
18671875 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:18678878 original size:104 final size:104
Alignment explanation
Indices: 18678698--18678964 Score: 464
Period size: 104 Copynumber: 2.6 Consensus size: 104
18678688 TAACCGTTAT
* *
18678698 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
18678763 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
18678802 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
18678867 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
18678906 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
18678965 TTATATACAA
Statistics
Matches: 155, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
104 154 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:18679321 original size:29 final size:29
Alignment explanation
Indices: 18679288--18679351 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
18679278 TAATCCACCA
18679288 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
18679317 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
18679347 CCCAA
1 CCCAA
18679352 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:18679325 original size:30 final size:30
Alignment explanation
Indices: 18679295--18679351 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18679285 CCACCCAACT
18679295 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
18679324 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
18679352 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:18680295 original size:114 final size:116
Alignment explanation
Indices: 18680168--18680391 Score: 407
Period size: 114 Copynumber: 1.9 Consensus size: 116
18680158 CTGTTACAAT
* *
18680168 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTAAAATTAGT
18680233 TAAGTATGAATG-T-TATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATATGCATAAATGAAGTTCGAATATATGTAA
*
18680282 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATAAATTAAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTAAAATTAGT
18680347 TAAGTATGAATGTTATATATATATGCATAAATGAAGTTCGAATAT
66 TAAGTATGAATGTTATATATATATGCATAAATGAAGTTCGAATAT
18680392 GTATATATGA
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
114 74 0.70
115 1 0.01
116 30 0.29
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (116 bp):
ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTAAAATTAGT
TAAGTATGAATGTTATATATATATGCATAAATGAAGTTCGAATATATGTAA
Found at i:18680925 original size:41 final size:41
Alignment explanation
Indices: 18680875--18681021 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
18680865 CGGACTTTAC
*
18680875 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
18680916 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
** *
18680957 ACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
18680998 G-CTTAGCAGGTTAAGTGCCGGTGA
1 GTC-TAGCAGGCTAAGTGCCGGTGA
18681022 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 95 0.99
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:18684344 original size:23 final size:23
Alignment explanation
Indices: 18684307--18684557 Score: 270
Period size: 23 Copynumber: 10.7 Consensus size: 23
18684297 TCTACCCTAT
**
18684307 TTGGACAGC-TCTTATACATTAAA
1 TTGGACAGCAT-TTATACACCAAA
* *
18684330 TCGGACAGCATTTATACACCCAA
1 TTGGACAGCATTTATACACCAAA
*
18684353 TTGGACAGCATATATATATACCAAA
1 TTGGACAGCAT-T-TATACACCAAA
* *
18684378 GTGGATAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
18684401 TTGGACAGAATTTATACACCCAA
1 TTGGACAGCATTTATACACCAAA
* *
18684424 TTGGATAGCAAATATATACACCAAA
1 TTGGACAGC--ATTTATACACCAAA
* *
18684449 TTGGACAACATTTATATACCAAA
1 TTGGACAGCATTTATACACCAAA
**
18684472 TTGGACAATATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
18684495 TTGGACAGCATTTTATACACCAAA
1 TTGGACAGCA-TTTATACACCAAA
* *
18684519 TTGAACAGCATATATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
18684542 TTGGACAACATATATA
1 TTGGACAGCATTTATA
18684558 TATACCCAAT
Statistics
Matches: 192, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
23 130 0.68
24 25 0.13
25 37 0.19
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:18684392 original size:48 final size:48
Alignment explanation
Indices: 18684327--18684563 Score: 268
Period size: 48 Copynumber: 5.0 Consensus size: 48
18684317 CTTATACATT
* *
18684327 AAATCGGACAGCATTTATACACCCAATTGGACAGCATATATATATACC
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATATACC
* * * *
18684375 AAAGTGGATAGCATTTATACACCAAATTGGACAG-A-ATTTATACACC
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATATACC
* * * *
18684421 CAATTGGATAGCAAATATATACACCAAATTGGACAACAT-T-TATATACC
1 AAATTGGACAGC--ATTTATACACCAAATTGGACAGCATATATATATACC
** * *
18684469 AAATTGGACAATATTTATACACCAAATTGGACAGCAT-TTTATACACC
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATATACC
* * *
18684516 AAATTGAACAGCATATATACACCAAATTGGACAACATATATATATACC
1 AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATATACC
18684564 CAATCAATTA
Statistics
Matches: 158, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
46 43 0.27
47 40 0.25
48 73 0.46
49 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (48 bp):
AAATTGGACAGCATTTATACACCAAATTGGACAGCATATATATATACC
Found at i:18684414 original size:71 final size:71
Alignment explanation
Indices: 18684307--18684548 Score: 310
Period size: 71 Copynumber: 3.4 Consensus size: 71
18684297 TCTACCCTAT
** * *
18684307 TTGGACAGC-TCTTATACATTAAATCGGACAGCATTTATACACCCAATTGGACAGCATATATATA
1 TTGGACAGCAT-TTATACACCAAATTGGACAGAATTTATACACCCAATTGGACAGCATATATATA
*
18684371 TACCAAA
65 CACCAAA
* * * *
18684378 GTGGATAGCATTTATACACCAAATTGGACAGAATTTATACACCCAATTGGATAGCAAATATATAC
1 TTGGACAGCATTTATACACCAAATTGGACAGAATTTATACACCCAATTGGACAGCATATATATAC
18684443 ACCAAA
66 ACCAAA
* * * *
18684449 TTGGACAACATTTATATACCAAATTGGACA-ATATTTATACACCAAATTGGACAGCAT-TTTATA
1 TTGGACAGCATTTATACACCAAATTGGACAGA-ATTTATACACCCAATTGGACAGCATATATATA
18684512 CACCAAA
65 CACCAAA
* *
18684519 TTGAACAGCATATATACACCAAATTGGACA
1 TTGGACAGCATTTATACACCAAATTGGACA
18684549 ACATATATAT
Statistics
Matches: 148, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
70 39 0.26
71 108 0.73
72 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (71 bp):
TTGGACAGCATTTATACACCAAATTGGACAGAATTTATACACCCAATTGGACAGCATATATATAC
ACCAAA
Found at i:18685654 original size:43 final size:42
Alignment explanation
Indices: 18685532--18685660 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 42
18685522 ATATCGTACA
* * *
18685532 ATGCCAACGTCCTAGACGTGGTCTTATATGTAATCACATAACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATAACG
* * **
18685575 ATGCC-ACTGTCCCAGATAG-GGTCTTACACTTAAACACA-AGTTG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGT-AACACATA-ACG
18685618 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATAACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATAACG
18685661 GAATCCTATG
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
42 4 0.06
43 56 0.84
44 7 0.10
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATAACG
Found at i:18687469 original size:48 final size:48
Alignment explanation
Indices: 18687411--18687504 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
18687401 AGATTGTGAG
* * * *
18687411 CCATCATAGTTTGGCTATCTAGGATGGTAATATATTAAATGGTATAAA
1 CCATCATAGTTGGGCCATCCAGGATAGTAATATATTAAATGGTATAAA
* ** *
18687459 CCATCGTAGTTGGGCCATCCCTGATAGTAATATATTGAATGGTATA
1 CCATCATAGTTGGGCCATCCAGGATAGTAATATATTAAATGGTATA
18687505 GACTATTGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (48 bp):
CCATCATAGTTGGGCCATCCAGGATAGTAATATATTAAATGGTATAAA
Found at i:18687762 original size:14 final size:15
Alignment explanation
Indices: 18687743--18687771 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18687733 GATTTTTATG
18687743 GTAT-AATGTGAAAT
1 GTATAAATGTGAAAT
18687757 GTATAAATGTGAAAT
1 GTATAAATGTGAAAT
18687772 TTCATGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (15 bp):
GTATAAATGTGAAAT
Found at i:18689655 original size:16 final size:16
Alignment explanation
Indices: 18689634--18689667 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18689624 CCAATATTCA
* *
18689634 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
18689650 ATTATCACATTTACAC
1 ATTATCACATTTACAC
18689666 AT
1 AT
18689668 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:18698663 original size:15 final size:15
Alignment explanation
Indices: 18698631--18698664 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18698621 CAAATGCTAT
*
18698631 AATAATAAATAGAAC
1 AATAATAAATACAAC
*
18698646 AATAATAAATACATC
1 AATAATAAATACAAC
18698661 AATA
1 AATA
18698665 GCATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:18698689 original size:13 final size:14
Alignment explanation
Indices: 18698671--18698707 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
18698661 AATAGCATAA
18698671 AAATAATATAAAC-
1 AAATAATATAAACG
18698684 AAATAA-ATAAACG
1 AAATAATATAAACG
18698697 AAATGAATATA
1 AAAT-AATATA
18698708 TATGAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:18698993 original size:20 final size:20
Alignment explanation
Indices: 18698968--18699017 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
18698958 TGGCTTAAAA
18698968 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
18698988 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
18699005 GTGGTAGTGGATT
1 TTGGTAGTGGATT
18699018 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:18703623 original size:20 final size:20
Alignment explanation
Indices: 18703598--18703647 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
18703588 TGGCTTAAAA
18703598 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
18703618 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
18703635 GTGGTAGTGGATT
1 TTGGTAGTGGATT
18703648 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:18706786 original size:3 final size:3
Alignment explanation
Indices: 18706778--18706803 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18706768 CGTTACCTGC
18706778 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
18706804 CTCCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:18707013 original size:18 final size:18
Alignment explanation
Indices: 18706990--18707027 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18706980 CTTTGATTTC
18706990 TTCATTAATTGTTTTTTT
1 TTCATTAATTGTTTTTTT
18707008 TTCATTAATTGTTTTTTT
1 TTCATTAATTGTTTTTTT
18707026 TT
1 TT
18707028 TGACGCTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
TTCATTAATTGTTTTTTT
Found at i:18708945 original size:28 final size:28
Alignment explanation
Indices: 18708913--18708970 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
18708903 TTACCGCTGT
*
18708913 TTTATTAGCTTTTTTTGTTTATATCATG
1 TTTATTAGCTTTTGTTGTTTATATCATG
18708941 TTTATTAGCTTTTGTTGTTTATATCATG
1 TTTATTAGCTTTTGTTGTTTATATCATG
18708969 TT
1 TT
18708971 GGTTGGGGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.64
Consensus pattern (28 bp):
TTTATTAGCTTTTGTTGTTTATATCATG
Found at i:18722465 original size:12 final size:12
Alignment explanation
Indices: 18722448--18722473 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18722438 GACTCCACTT
18722448 GATTTATTAACA
1 GATTTATTAACA
18722460 GATTTATTAACA
1 GATTTATTAACA
18722472 GA
1 GA
18722474 AACCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (12 bp):
GATTTATTAACA
Found at i:18729588 original size:103 final size:103
Alignment explanation
Indices: 18729405--18729605 Score: 287
Period size: 103 Copynumber: 2.0 Consensus size: 103
18729395 CATAGGTCTT
* ** * *
18729405 ACATCAAACACCTCTTTATAGGGATCAATAGATATTGTGTCAATAGATTGGAAGGAGAATTTTCC
1 ACATCAAACACCCCTCCATAGGGATCAATAGATATTGTGCCAATAGATAGGAAGGAGAATTTTCC
*
18729470 AAAAGTTATTCAAAGTATTTTCCCATGTCCACCCTTAG
66 AAAAGTCATTCAAAGTATTTTCCCATGTCCACCCTTAG
* *
18729508 ACATCAAACACCCCTCCATAAGGG-TCAATTGATATTGTGCCAATAGATAGGAAGGAGCATTTTC
1 ACATCAAACACCCCTCCAT-AGGGATCAATAGATATTGTGCCAATAGATAGGAAGGAGAATTTTC
* **
18729572 CAAAAGTCATTTAAAGTATTTTGTCATGTCCACC
65 CAAAAGTCATTCAAAGTATTTTCCCATGTCCACC
18729606 AGCAATTCAC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 82 0.95
104 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (103 bp):
ACATCAAACACCCCTCCATAGGGATCAATAGATATTGTGCCAATAGATAGGAAGGAGAATTTTCC
AAAAGTCATTCAAAGTATTTTCCCATGTCCACCCTTAG
Found at i:18750750 original size:20 final size:20
Alignment explanation
Indices: 18750725--18750775 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
18750715 ATACAAAGGT
18750725 AAGGTATCGATACCTTG-GAA
1 AAGGTATCGATACCTTGTG-A
*
18750745 AAGGTA--GATACTTTGTGA
1 AAGGTATCGATACCTTGTGA
*
18750763 CAGGTATCGATAC
1 AAGGTATCGATAC
18750776 ATTTGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 14 0.54
19 1 0.04
20 11 0.42
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (20 bp):
AAGGTATCGATACCTTGTGA
Found at i:18751269 original size:17 final size:18
Alignment explanation
Indices: 18751247--18751284 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
18751237 TTTAAAATTT
18751247 ATATTT-CATATATT-ACA
1 ATATTTACA-ATATTAACA
18751264 ATATTTACAATATTAACA
1 ATATTTACAATATTAACA
18751282 ATA
1 ATA
18751285 GTCTAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTTACAATATTAACA
Found at i:18759269 original size:39 final size:39
Alignment explanation
Indices: 18759214--18759291 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
18759204 AGTAGCACCA
*
18759214 AAAATTTATATCTTTGATTTCTTCTGCAATTAAAATTTG
1 AAAATTTATATATTTGATTTCTTCTGCAATTAAAATTTG
* *
18759253 AAAATTTATATATTTGATTTCTTCTGTAATTAAATTTTG
1 AAAATTTATATATTTGATTTCTTCTGCAATTAAAATTTG
18759292 CAAAGAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (39 bp):
AAAATTTATATATTTGATTTCTTCTGCAATTAAAATTTG
Found at i:18764799 original size:17 final size:19
Alignment explanation
Indices: 18764763--18764801 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
18764753 AAGAGATTCG
18764763 TTTATTTTTATATGAAATAA
1 TTTATTTTTATA-GAAATAA
18764783 TTTA-TTTTATA-AAATAA
1 TTTATTTTTATAGAAATAA
18764800 TT
1 TT
18764802 ATTGTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATTTTTATAGAAATAA
Found at i:18765554 original size:23 final size:23
Alignment explanation
Indices: 18765528--18765585 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
18765518 GAATCACTCC
*
18765528 TAATATT-ATTTATAATAAATTTT
1 TAATATTAATTTATAA-AAATATT
* *
18765551 TAATTTTAATTTTTAAAAATATT
1 TAATATTAATTTATAAAAATATT
18765574 TAAAATATTAAT
1 T--AATATTAAT
18765586 ATAAATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 13 0.46
24 7 0.25
25 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATATTAATTTATAAAAATATT
Found at i:18766365 original size:28 final size:27
Alignment explanation
Indices: 18766284--18766370 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
18766274 TATATTACTC
* *
18766284 TTTTAATAATAAATATATTAAAAATTATAT
1 TTTTAATAATAAA-ATA-TGAATATT-TAT
18766314 TTTTAATAATAAAATATGAATATTTTAT
1 TTTTAATAATAAAATATGAATA-TTTAT
**
18766342 TTTT-ATAATATAAATATGTGTATTTAT
1 TTTTAATAATA-AAATATGAATATTTAT
18766369 TT
1 TT
18766371 AAATCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
27 13 0.25
28 20 0.39
29 5 0.10
30 13 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TTTTAATAATAAAATATGAATATTTAT
Found at i:18766370 original size:27 final size:28
Alignment explanation
Indices: 18766284--18766359 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
18766274 TATATTACTC
* * *
18766284 TTTTAATAATAAATATATTAAAAATTATAT
1 TTTTAATAATAAA-ATA-TGAATATTTTAT
18766314 TTTTAATAATAAAATATGAATATTTTAT
1 TTTTAATAATAAAATATGAATATTTTAT
18766342 TTTT-ATAATATAAATATG
1 TTTTAATAATA-AAATATG
18766360 TGTATTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 6 0.14
28 20 0.48
29 3 0.07
30 13 0.31
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TTTTAATAATAAAATATGAATATTTTAT
Found at i:18767825 original size:14 final size:14
Alignment explanation
Indices: 18767806--18767840 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
18767796 ATAAAGGTTT
18767806 TAAAAATATATATA
1 TAAAAATATATATA
18767820 TAAAAATATATATA
1 TAAAAATATATATA
18767834 TAAAAAT
1 TAAAAAT
18767841 CGTATGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAAATATATATA
Found at i:18767942 original size:27 final size:26
Alignment explanation
Indices: 18767886--18767963 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
18767876 CTTAAAAACG
*
18767886 TATATAT-TAAAAAAATGCCTATATAT
1 TATATATAT-AAAAAATGCCTATATAC
* * *
18767912 TATATATATAAAAATATGCGTATGTGC
1 TATATATATAAAAA-ATGCCTATATAC
*
18767939 TATATATATAAAAAATGCATATATA
1 TATATATATAAAAAATGCCTATATA
18767964 AATATATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (26 bp):
TATATATATAAAAAATGCCTATATAC
Found at i:18767969 original size:27 final size:26
Alignment explanation
Indices: 18767886--18767980 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
18767876 CTTAAAAACG
* *
18767886 TATATAT-TAAAAAAATGCCTATATAT
1 TATATATAT-AAAAAATGCATATATAA
* * **
18767912 TATATATATAAAAATATGCGTATGTGC
1 TATATATATAAAAA-ATGCATATATAA
18767939 TATATATATAAAAAATGCATATATAAA
1 TATATATATAAAAAATGCATATAT-AA
*
18767966 TATATTATGTAAAAA
1 TATA-TATATAAAAA
18767981 CCATGCGTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.36
27 27 0.48
28 9 0.16
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (26 bp):
TATATATATAAAAAATGCATATATAA
Found at i:18768011 original size:3 final size:3
Alignment explanation
Indices: 18768003--18768043 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
18767993 GAATATAGAG
**
18768003 ATA ATA ATA ATA ACC ATA ATA ATAA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
18768044 ATAACGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:18768037 original size:16 final size:16
Alignment explanation
Indices: 18768003--18768064 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
18767993 GAATATAGAG
*
18768003 ATAATAAT-AATAACC
1 ATAATAATAAATAACA
*
18768018 ATAATAATAAATAATA
1 ATAATAATAAATAACA
18768034 ATAATAATAAATAACGA
1 ATAATAATAAATAAC-A
*
18768051 TATAATGATAAATA
1 -ATAATAATAAATA
18768065 TTTAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
15 8 0.20
16 19 0.47
17 1 0.03
18 12 0.30
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAATAATAAATAACA
Found at i:18768719 original size:16 final size:17
Alignment explanation
Indices: 18768686--18768719 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18768676 ATCTAAAAAT
18768686 AAATAAAACAAACAAAG
1 AAATAAAACAAACAAAG
*
18768703 AAATAAAA-AAACTAAG
1 AAATAAAACAAACAAAG
18768719 A
1 A
18768720 TGAAATTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (17 bp):
AAATAAAACAAACAAAG
Found at i:18771069 original size:44 final size:45
Alignment explanation
Indices: 18771021--18771249 Score: 268
Period size: 51 Copynumber: 4.9 Consensus size: 45
18771011 CTTGCGTATG
18771021 ATCACTTATCACTTGTCC-CTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTGTCCACTGATCAGATAAGTGTAGCTGAAGCT
18771065 ATCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTGT--C----CACTGATCAGATAAGTGTAGCTGAAGCT
* * *
18771116 ATCACTTATCACTT-TCCACTTGTCACTAATCAGATAATTGTAGCCGAATCT
1 ATCACTTATCACTTGTCCAC-TG------ATCAGATAAGTGTAGCTGAAGCT
*
18771167 ATCACTCATCACTT-TCCACTTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTGTCCAC-TGATCAGATAAGTGTAGCTGAAGCT
18771212 ATCACTTATCACTTGTCC-CTGATCAGATAAGTGTAGCT
1 ATCACTTATCACTTGTCCACTGATCAGATAAGTGTAGCT
18771250 AGGGGTGTTC
Statistics
Matches: 162, Mismatches: 8, Indels: 30
0.81 0.04 0.15
Matches are distributed among these distances:
44 38 0.23
45 36 0.22
46 4 0.02
48 1 0.01
50 2 0.01
51 81 0.50
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (45 bp):
ATCACTTATCACTTGTCCACTGATCAGATAAGTGTAGCTGAAGCT
Found at i:18771097 original size:51 final size:50
Alignment explanation
Indices: 18771021--18771225 Score: 278
Period size: 51 Copynumber: 4.1 Consensus size: 50
18771011 CTTGCGTATG
*
18771021 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTT-TCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
18771072 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTT-TCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
* * * * *
18771123 ATCACTTTCCACTTGTCACTAATCAGATAATTGTAGCCGAATCTATCACTC
1 ATCACTTT-CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
18771174 ATCACTTT--C----CACTTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTTCACTTGTCAC-TGATCAGATAAGTGTAGCTGAAGCTATCACTT
18771219 ATCACTT
1 ATCACTT
18771226 GTCCCTGATC
Statistics
Matches: 140, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
44 3 0.02
45 34 0.24
48 1 0.01
50 1 0.01
51 101 0.72
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (50 bp):
ATCACTTTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
Found at i:18771203 original size:45 final size:44
Alignment explanation
Indices: 18771132--18771248 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 44
18771122 TATCACTTTC
* * * *
18771132 CACTTGTCACTAATCAGATAATTGTAGCCGAATCTATCACTCAT
1 CACTTGTCCCTGATCAGATAAGTGTAGCCGAAGCTATCACTCAT
* *
18771176 CACTT-TCCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGTCC-C-TGATCAGATAAGTGTAGCCGAAGCTATCACTCAT
18771221 CACTTGTCCCTGATCAGATAAGTGTAGC
1 CACTTGTCCCTGATCAGATAAGTGTAGC
18771249 TAGGGGTGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.03
44 24 0.38
45 35 0.55
46 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
CACTTGTCCCTGATCAGATAAGTGTAGCCGAAGCTATCACTCAT
Found at i:18771923 original size:46 final size:46
Alignment explanation
Indices: 18771856--18772039 Score: 341
Period size: 46 Copynumber: 4.0 Consensus size: 46
18771846 TGCACACCCC
*
18771856 TAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
18771902 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
* *
18771948 TAAGTGTAGCTAAAGCTACCACTTTTCACTTTGTCACTTGATCAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
18771994 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
1 TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
18772040 AGTACTCAAA
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (46 bp):
TAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
Found at i:18775154 original size:20 final size:20
Alignment explanation
Indices: 18775129--18775173 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
18775119 AAACTAGAAG
18775129 ACTTCCAGCTTCAAAGCACA
1 ACTTCCAGCTTCAAAGCACA
18775149 ACTTCCAGCTTCAAAGCACA
1 ACTTCCAGCTTCAAAGCACA
18775169 ACTTC
1 ACTTC
18775174 GACTTAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.22
Consensus pattern (20 bp):
ACTTCCAGCTTCAAAGCACA
Found at i:18775370 original size:44 final size:44
Alignment explanation
Indices: 18775320--18775410 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
18775310 AATTATGTTT
18775320 TTAGTTTACCACTTAAACTTTAATTAGTGTA-AGTTATTTTAATA
1 TTAGTTTACCACTTAAACTTTAATTAGTGTAGA-TTATTTTAATA
* * *
18775364 TTAGTTTTCCACTTAAATTTTGATTAGTGTAGATTATTTTAATA
1 TTAGTTTACCACTTAAACTTTAATTAGTGTAGATTATTTTAATA
18775408 TTA
1 TTA
18775411 TTTGACCTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (44 bp):
TTAGTTTACCACTTAAACTTTAATTAGTGTAGATTATTTTAATA
Found at i:18782938 original size:3 final size:3
Alignment explanation
Indices: 18782932--18782962 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18782922 AAACAGTTAA
18782932 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
18782963 GAGATTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18790098 original size:16 final size:16
Alignment explanation
Indices: 18790077--18790107 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18790067 TGGGTTGAGA
*
18790077 AAATTATTTAATTAAG
1 AAATTAATTAATTAAG
18790093 AAATTAATTAATTAA
1 AAATTAATTAATTAA
18790108 TTAAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAATTAATTAATTAAG
Found at i:18794610 original size:19 final size:19
Alignment explanation
Indices: 18794574--18794612 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18794564 CTTTCATGCC
* **
18794574 TTGGTGTGTTGGTTGGATA
1 TTGGTGTGTTAGAGGGATA
18794593 TTGGTGTGTTAGAGGGATA
1 TTGGTGTGTTAGAGGGATA
18794612 T
1 T
18794613 GATTGATGCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (19 bp):
TTGGTGTGTTAGAGGGATA
Found at i:18803715 original size:6 final size:6
Alignment explanation
Indices: 18803704--18803748 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
18803694 TCTCAACACC
18803704 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
18803749 AAGGGCCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:18803957 original size:6 final size:6
Alignment explanation
Indices: 18803947--18804010 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
18803937 CACACACATG
* *
18803947 TATAGG TATAGA TATAGA TATAGA TATAGG TATAGA TATAGA TATAGA
1 TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA
18803995 TATAGA TATAGA TATA
1 TATAGA TATAGA TATA
18804011 TCATATAAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (6 bp):
TATAGA
Found at i:18812368 original size:17 final size:17
Alignment explanation
Indices: 18812321--18812423 Score: 59
Period size: 17 Copynumber: 5.8 Consensus size: 17
18812311 AGGCATTTTA
18812321 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAA-T
18812339 GATT-ATCTTAATATTAAAT
1 --TTAAT-TTAATATTAAAT
*
18812358 TTAATTTAATATT-TAT
1 TTAATTTAATATTAAAT
* * *
18812374 CTACATTCTATTATTTTAA-
1 TTA-ATT-TAATA-TTAAAT
*
18812393 TAAGATTTAATATTAAAT
1 TTA-ATTTAATATTAAAT
*
18812411 TTAATCTAATATT
1 TTAATTTAATATT
18812424 TATCTTGATA
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.06
17 26 0.40
18 12 0.18
19 9 0.14
20 14 0.22
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (17 bp):
TTAATTTAATATTAAAT
Found at i:18813188 original size:49 final size:48
Alignment explanation
Indices: 18813062--18813312 Score: 211
Period size: 49 Copynumber: 5.2 Consensus size: 48
18813052 CCTCCGTGCA
* * * **
18813062 TCTGGGAGCAAGGTTAGTTTATTACTTTTCATAAGCCTCCCCCCATGTG
1 TCTGGGAGCAAGGTCACTTTATTACTTTCCATAAGCCT-CCCCCATACG
* * *
18813111 T-TCGGGAGTAAGGCCACTTTACTACTTTCCATAAGCCTCCCCCATACG
1 TCT-GGGAGCAAGGTCACTTTATTACTTTCCATAAGCCTCCCCCATACG
* * * * *
18813159 TCTGAGAGCAAGGTCACTTTCTTAGCTTT-CGTAAGCCTCCCCCTTACA
1 TCTGGGAGCAAGGTCACTTTATTA-CTTTCCATAAGCCTCCCCCATACG
* * * *
18813207 TCTGGGAGCAGGGTCACTTTATTACTTTCCGTAAGCCTCCTTCCATGCG
1 TCTGGGAGCAAGGTCACTTTATTACTTTCCATAAGCCTCC-CCCATACG
* * * * * * *
18813256 TCTAGGAACAAGTTTATTTTATTACTCTT-CATAAGTCTCCCCCCATGCG
1 TCTGGGAGCAAGGTCACTTTATTACT-TTCCATAAGCCT-CCCCCATACG
18813305 TCTGGGAG
1 TCTGGGAG
18813313 TAGGACATTC
Statistics
Matches: 161, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
47 4 0.02
48 74 0.46
49 79 0.49
50 4 0.02
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (48 bp):
TCTGGGAGCAAGGTCACTTTATTACTTTCCATAAGCCTCCCCCATACG
Found at i:18813194 original size:48 final size:48
Alignment explanation
Indices: 18813060--18813246 Score: 171
Period size: 48 Copynumber: 3.9 Consensus size: 48
18813050 CTCCTCCGTG
* * * * * *
18813060 CATCTGGGAGCAAGGTTAGTTTATTACTTTTCATAAGCCTCCCCCCATG
1 CATCTGAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCT-CCCCCATA
** * * * * *
18813109 TGT-TCGGGAGTAAGGCCACTTTACTACTTTCCATAAGCCTCCCCCATA
1 CATCT-GAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCTCCCCCATA
* * *
18813157 CGTCTGAGAGCAAGGTCACTTTCTTAGCTTT-CGTAAGCCTCCCCCTTA
1 CATCTGAGAGCAAGGTCACTTTATTA-CTTTCCGTAAGCCTCCCCCATA
* *
18813205 CATCTGGGAGCAGGGTCACTTTATTACTTTCCGTAAGCCTCC
1 CATCTGAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCTCC
18813247 TTCCATGCGT
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
47 4 0.04
48 74 0.65
49 35 0.31
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (48 bp):
CATCTGAGAGCAAGGTCACTTTATTACTTTCCGTAAGCCTCCCCCATA
Found at i:18814354 original size:13 final size:13
Alignment explanation
Indices: 18814336--18814364 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18814326 TTTTTTGTTA
18814336 TTACCGAATAATT
1 TTACCGAATAATT
18814349 TTACCGAATAATT
1 TTACCGAATAATT
18814362 TTA
1 TTA
18814365 TCAAAACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (13 bp):
TTACCGAATAATT
Found at i:18816342 original size:12 final size:12
Alignment explanation
Indices: 18816317--18816355 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18816307 ACTCGCTTCT
* *
18816317 TTACTTACTCAC
1 TTACTTGCTTAC
*
18816329 TTACTTGTTTAC
1 TTACTTGCTTAC
18816341 TTACTTGCTTAC
1 TTACTTGCTTAC
18816353 TTA
1 TTA
18816356 AATAAATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:18816679 original size:50 final size:50
Alignment explanation
Indices: 18816554--18816746 Score: 192
Period size: 50 Copynumber: 3.8 Consensus size: 50
18816544 CTGATAATAC
* * * * *
18816554 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGTA-
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAG
* * *
18816603 CTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
* * * **
18816653 GTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--T--A-G
18816709 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
18816747 TCTCATTCCC
Statistics
Matches: 118, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
48 5 0.04
49 35 0.30
50 39 0.33
51 1 0.01
53 1 0.01
55 1 0.01
56 36 0.31
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
Found at i:18821993 original size:21 final size:21
Alignment explanation
Indices: 18821953--18821994 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18821943 CCATATTTAT
*
18821953 TTTAATTTATTTGATTTTGAA
1 TTTAATTTATTTGATGTTGAA
18821974 TTTAATTTAATTT-ATGTTGAA
1 TTTAATTT-ATTTGATGTTGAA
18821995 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTAATTTATTTGATGTTGAA
Found at i:18825659 original size:27 final size:27
Alignment explanation
Indices: 18825629--18825681 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
18825619 TATAACTTTT
18825629 TTTATTTACCAAAATATATAAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAAA
18825656 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
18825682 CAAACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (27 bp):
TTTATTTACCAAAATATATAAAAAAAA
Found at i:18825690 original size:12 final size:13
Alignment explanation
Indices: 18825675--18825707 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18825665 CAAAATATAT
*
18825675 AAAAAAACA-AAC
1 AAAAAAACAGAAA
18825687 AAAAAAACAGAAA
1 AAAAAAACAGAAA
18825700 AAAAAAAC
1 AAAAAAAC
18825708 CTGAACTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAACAGAAA
Found at i:18825775 original size:27 final size:27
Alignment explanation
Indices: 18825737--18825813 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
18825727 CCCTGGGTGG
18825737 AGGGAAGCAGGTTGGCGGCACCAAACA
1 AGGGAAGCAGGTTGGCGGCACCAAACA
****
18825764 AGGGAAGCAGGTTGGCGGCACCAGTGG
1 AGGGAAGCAGGTTGGCGGCACCAAACA
*
18825791 AGGGAACCAGGTTGGCGGCACCA
1 AGGGAAGCAGGTTGGCGGCACCA
18825814 CCCTTGAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.42, T:0.09
Consensus pattern (27 bp):
AGGGAAGCAGGTTGGCGGCACCAAACA
Found at i:18825883 original size:18 final size:17
Alignment explanation
Indices: 18825860--18825975 Score: 76
Period size: 18 Copynumber: 6.5 Consensus size: 17
18825850 GAAGGAGAGG
18825860 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
18825878 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
18825895 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
18825911 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
18825929 GGAAAGAAAAGGAAATGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
18825949 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
18825967 GGAAAGAAA
1 GG-AAGAAA
18825976 AGGAAAGGGG
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
15 9 0.11
16 4 0.05
17 4 0.05
18 31 0.39
19 20 0.25
20 12 0.15
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.02
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:18825893 original size:10 final size:10
Alignment explanation
Indices: 18825862--18825933 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
18825852 AGGAGAGGGG
*
18825862 AAGAAGAAGA
1 AAGAAAAAGA
18825872 AAGAAAGGAAGA
1 AAGAAA--AAGA
18825884 AAGAAAAAGA
1 AAGAAAAAGA
* *
18825894 AGGAAAAGGA
1 AAGAAAAAGA
18825904 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
18825918 AAGAAAAAGA
1 AAGAAAAAGA
*
18825928 AGGAAA
1 AAGAAA
18825934 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:18825893 original size:22 final size:23
Alignment explanation
Indices: 18825862--18826027 Score: 70
Period size: 24 Copynumber: 6.7 Consensus size: 23
18825852 AGGAGAGGGG
*
18825862 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
18825884 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
18825906 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* *
18825932 AAGAAAAGGAAATGGGAGGAAAGAAAGA
1 AAGAAAAAGAAA---GA--AAAGGAAGA
*
18825960 AA-AATAAGGAAAGAAAAGGAAAGGGGA
1 AAGAA-AAAGAAAGAAAAGG-AA---GA
* * *
18825987 AGAGAAAAAAAAAGAAGAGGGAAGG
1 A-AGAAAAAGAAAGAA-AAGGAAGA
18826012 AAGAAAAA-AAAGAAAA
1 AAGAAAAAGAAAGAAAA
18826028 TAAGGTAATT
Statistics
Matches: 109, Mismatches: 17, Indels: 36
0.67 0.10 0.22
Matches are distributed among these distances:
22 13 0.12
23 20 0.18
24 29 0.27
25 7 0.06
26 1 0.01
27 7 0.06
28 22 0.20
29 10 0.09
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:18825899 original size:14 final size:13
Alignment explanation
Indices: 18825865--18825938 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
18825855 AGAGGGGAAG
18825865 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
18825877 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
18825890 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
18825906 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
18825924 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
18825938 A
1 A
18825939 GGAAATGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:18825938 original size:38 final size:37
Alignment explanation
Indices: 18825880--18826003 Score: 161
Period size: 38 Copynumber: 3.4 Consensus size: 37
18825870 GAAAGAAAGG
18825880 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG-GAGGA
18825914 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAATGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAA-GGGAGGA
*
18825952 AAGAAAGAAAAATAAGGAAAGAAAAGGAAA-GG-GGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGAGGA
*
18825987 AGAGAAAAAAAAAGAAG
1 A-AGAAAGAAAAAGAAG
18826004 AGGGAAGGAA
Statistics
Matches: 81, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
34 15 0.19
35 5 0.06
36 15 0.19
38 44 0.54
39 2 0.02
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (37 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGAGGA
Found at i:18825940 original size:10 final size:10
Alignment explanation
Indices: 18825882--18825982 Score: 72
Period size: 10 Copynumber: 10.5 Consensus size: 10
18825872 AAGAAAGGAA
*
18825882 GAAAGAAAAA
1 GAAAGAAAAG
*
18825892 GAAGGAAAAG
1 GAAAGAAAAG
* *
18825902 GAAAGGAGAG
1 GAAAGAAAAG
18825912 GAAAG-AAA-
1 GAAAGAAAAG
18825920 GAAA-AAGAAG
1 GAAAGAA-AAG
18825930 GAAAGAAAAG
1 GAAAGAAAAG
**
18825940 GAAATG-GGAG
1 GAAA-GAAAAG
18825950 GAAAG-AAA-
1 GAAAGAAAAG
18825958 GAAA-AATAAG
1 GAAAGAA-AAG
18825968 GAAAGAAAAG
1 GAAAGAAAAG
18825978 GAAAG
1 GAAAG
18825983 GGGAAGAGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
8 10 0.14
9 8 0.11
10 49 0.68
11 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:18825999 original size:23 final size:23
Alignment explanation
Indices: 18825968--18826026 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 23
18825958 GAAAAATAAG
18825968 GAAAGAAAAGGAAAG-GGGAAGAGAA
1 GAAA-AAAA-GAAAGAGGGAAG-GAA
18825993 -AAAAAAAG-AAGAGGGAAGGAA
1 GAAAAAAAGAAAGAGGGAAGGAA
18826014 GAAAAAAAAGAAA
1 G-AAAAAAAGAAA
18826027 ATAAGGTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 12 0.40
24 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (23 bp):
GAAAAAAAGAAAGAGGGAAGGAA
Found at i:18826145 original size:16 final size:18
Alignment explanation
Indices: 18826112--18826146 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
18826102 CGTATTTTAT
18826112 TAATTTATTTAGGATATA
1 TAATTTATTTAGGATATA
18826130 TAATTT-TTTA-GATATA
1 TAATTTATTTAGGATATA
18826146 T
1 T
18826147 TTAGCATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
TAATTTATTTAGGATATA
Found at i:18826746 original size:19 final size:18
Alignment explanation
Indices: 18826706--18826756 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
18826696 AAAATATATA
**
18826706 TAATATTTTGGTATTTTT
1 TAATATTTTATTATTTTT
18826724 TAATATTTTATTATTTTT
1 TAATATTTTATTATTTTT
*
18826742 GTAATGTTTTATTAT
1 -TAATATTTTATTAT
18826757 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TAATATTTTATTATTTTT
Found at i:18826887 original size:18 final size:18
Alignment explanation
Indices: 18826864--18826899 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18826854 AAAATATATC
*
18826864 AAAAAAAGTAAA-AAAAT
1 AAAAAAAATAAAGAAAAT
18826881 AAAAAAAATAAAGAAAAT
1 AAAAAAAATAAAGAAAAT
18826899 A
1 A
18826900 GGAAAAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAAAAATAAAGAAAAT
Found at i:18826906 original size:18 final size:18
Alignment explanation
Indices: 18826864--18826899 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
18826854 AAAATATATC
18826864 AAAAAAAGTAAAAAAATA
1 AAAAAAAGTAAAAAAATA
18826882 AAAAAAA-TAAAGAAAATA
1 AAAAAAAGTAAA-AAAATA
18826900 GGAAAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAAAAGTAAAAAAATA
Found at i:18828230 original size:17 final size:17
Alignment explanation
Indices: 18828208--18828244 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
18828198 ATGGGGTAAG
18828208 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
18828225 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
18828242 ATG
1 ATG
18828245 ACATCTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:18829577 original size:24 final size:25
Alignment explanation
Indices: 18829550--18829614 Score: 96
Period size: 24 Copynumber: 2.6 Consensus size: 25
18829540 TTATTTTTTG
18829550 ATATATTTTGGTAAATAAAAAAA-T
1 ATATATTTTGGTAAATAAAAAAAGT
18829574 ATATATTTTGGTAAATAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAG-T
*
18829600 ATAACATTTTGGTAA
1 AT-ATATTTTGGTAA
18829615 TATTTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 23 0.62
26 3 0.08
27 11 0.30
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (25 bp):
ATATATTTTGGTAAATAAAAAAAGT
Found at i:18830293 original size:14 final size:14
Alignment explanation
Indices: 18830274--18830304 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18830264 TTTGATTGGT
*
18830274 GGAAAATATTTTCC
1 GGAAAATATTTTAC
18830288 GGAAAATATTTTAC
1 GGAAAATATTTTAC
18830302 GGA
1 GGA
18830305 TTTTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:18830694 original size:13 final size:13
Alignment explanation
Indices: 18830676--18830701 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18830666 CTTGTATTGG
18830676 GCAGACTTTCTTT
1 GCAGACTTTCTTT
18830689 GCAGACTTTCTTT
1 GCAGACTTTCTTT
18830702 AGAAAGGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
GCAGACTTTCTTT
Found at i:18830801 original size:27 final size:27
Alignment explanation
Indices: 18830714--18830812 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
18830704 AAAGGTATAT
18830714 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
18830741 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
18830770 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
18830797 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
18830813 AGAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.45
28 14 0.25
29 9 0.16
30 1 0.02
31 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:18832905 original size:26 final size:26
Alignment explanation
Indices: 18832876--18832933 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
18832866 CATCCTCAAA
18832876 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
*
18832902 CTATAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
18832928 CTATAA
1 CTATAA
18832934 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
CTATAATCTAGATATTAAATTGGTCT
Found at i:18841523 original size:20 final size:19
Alignment explanation
Indices: 18841488--18841536 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
18841478 TTTTTTTTAG
*
18841488 ATTTTTTTA-CTTTTTAAC
1 ATTTTTTTATATTTTTAAC
**
18841506 ATTTTTTTATATTCTTTAGG
1 ATTTTTTTATATT-TTTAAC
18841526 ATTTTTTTATA
1 ATTTTTTTATA
18841537 ATTTCTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.35
19 2 0.08
20 15 0.58
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTTTATATTTTTAAC
Found at i:18841580 original size:17 final size:17
Alignment explanation
Indices: 18841558--18841600 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
18841548 TGTTAAAAAA
*
18841558 TATAAATTTTGGATTTT
1 TATAAATTTTGGAATTT
*
18841575 TATAAATATTTTGAATTT
1 TATAAAT-TTTGGAATTT
*
18841593 TAAAAATT
1 TATAAATT
18841601 ATTTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:18841585 original size:19 final size:20
Alignment explanation
Indices: 18841563--18841618 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
18841553 AAAAATATAA
* *
18841563 ATTTTGGATTTTTATAAA-T
1 ATTTTGGAATTTTAAAAATT
18841582 ATTTT-GAATTTTAAAAATT
1 ATTTTGGAATTTTAAAAATT
*
18841601 ATTTTGAAAATTTTAAAA
1 ATTTTG-GAATTTTAAAA
18841619 TTACCTGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 10 0.32
19 11 0.35
21 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGGAATTTTAAAAATT
Found at i:18841614 original size:21 final size:18
Alignment explanation
Indices: 18841572--18841618 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
18841562 AATTTTGGAT
*
18841572 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
18841590 TTTTAAAAATTATTTTGAAAA
1 TTTTAAAAA-TATTTTG--AA
18841611 TTTTAAAA
1 TTTTAAAA
18841619 TTACCTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
21 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:18847777 original size:27 final size:27
Alignment explanation
Indices: 18847722--18847778 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
18847712 ATTTTAAAAG
* *
18847722 ATTCTTTTAACTATAACTTAGGGATAA
1 ATTCTTTTAACTATAACTTAAGAATAA
18847749 ATTCTTTTAACTA-AACTTAAGAATCAA
1 ATTCTTTTAACTATAACTTAAGAAT-AA
18847776 ATT
1 ATT
18847779 AGCTATTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTCTTTTAACTATAACTTAAGAATAA
Found at i:18848181 original size:19 final size:19
Alignment explanation
Indices: 18848157--18848194 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18848147 ACCAAATATT
18848157 TTTTTC-TAATTTCATTTTA
1 TTTTTCATAATTT-ATTTTA
*
18848176 TTTTTCATTATTTATTTTA
1 TTTTTCATAATTTATTTTA
18848195 AAGTTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTCATAATTTATTTTA
Found at i:18861239 original size:17 final size:17
Alignment explanation
Indices: 18861208--18861248 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
18861198 AAAAATAATA
*
18861208 TAAATA-TAGGCACAAT
1 TAAATATTAAGCACAAT
18861224 TAAATATTAAGCACAAT
1 TAAATATTAAGCACAAT
18861241 TAAATATT
1 TAAATATT
18861249 TAAAATCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (17 bp):
TAAATATTAAGCACAAT
Found at i:18861846 original size:5 final size:5
Alignment explanation
Indices: 18861836--18861867 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
18861826 TAACACATAT
18861836 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA AT
18861868 CAACTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCA
Found at i:18879779 original size:35 final size:34
Alignment explanation
Indices: 18879738--18879803 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
18879728 ATGTATAGAT
*
18879738 ATGTATATGTTATAATAATAAATAA-AATGAATCTA
1 ATGTATATATTATAAT-AT-AATAATAATGAATCTA
18879773 ATGTATATATTATAATATAATAATAATGAAT
1 ATGTATATATTATAATATAATAATAATGAAT
18879804 GAAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 9 0.31
35 15 0.52
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (34 bp):
ATGTATATATTATAATATAATAATAATGAATCTA
Found at i:18886432 original size:79 final size:79
Alignment explanation
Indices: 18886301--18886455 Score: 238
Period size: 79 Copynumber: 2.0 Consensus size: 79
18886291 TGTGATGGTC
*
18886301 GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAATTAGTATGTTCTAATATGTTT
1 GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAACTAGTATGTTCTAATATGTTT
18886366 TATCTGCATATGGG
66 TATCTGCATATGGG
* * * * * *
18886380 GAATATGCCAATAGCATGTTTTGATTTGTTAATTATGTGTGCAACTAGTATGTTCTGATATGTTT
1 GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAACTAGTATGTTCTAATATGTTT
*
18886445 TATCTGTATAT
66 TATCTGCATAT
18886456 AAGCATGCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.44
Consensus pattern (79 bp):
GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAACTAGTATGTTCTAATATGTTT
TATCTGCATATGGG
Found at i:18887737 original size:22 final size:22
Alignment explanation
Indices: 18887712--18887754 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
18887702 ACACCAAAAC
*
18887712 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
18887734 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
18887755 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:18887898 original size:43 final size:42
Alignment explanation
Indices: 18887851--18888297 Score: 257
Period size: 43 Copynumber: 10.2 Consensus size: 42
18887841 TAAAAAAATT
* *
18887851 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACAGAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTT-TACCACAAAC
* **** * * **** *
18887894 GCCGCTGAAGAGTAAGACCTTTAGCGGTGCTTTAGTGGAAGC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTACCACAAAC
* *** *
18887936 GCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGGACAAGCGCC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCG-CTTTACCACAA---AC
* ** * * ** *
18887982 GCTAACGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTTTCTCAAAC
1 GC---CGCTAAAGACCCTGATCTTTAGCGGCG-CTTTACCACAAAC
* *
18888028 GCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCACAAAC
1 GCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTT-ACCACAAAC
* * * * * *
18888072 GCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCTCTCAAAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTAC-CACAAAC
* * *
18888115 GCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACAACAAAAC
1 GCCGCTAA-AGACCCTGATCTTTAGCGGCGCTT-TACCAC-AAAC
* * * *
18888159 GCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAAC
* * * * * *
18888202 GCCGCTAAAGACCATGATCTTTAGTGGCACTTTTTCCATAAAT
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGC-TTTACCACAAAC
* * *
18888245 GCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAAT
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAAC
*
18888288 GCCACTAAAG
1 GCCGCTAAAG
18888298 GCCAACACCT
Statistics
Matches: 304, Mismatches: 83, Indels: 34
0.72 0.20 0.08
Matches are distributed among these distances:
42 33 0.11
43 169 0.56
44 63 0.21
45 2 0.01
46 6 0.02
49 31 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTACCACAAAC
Found at i:18888111 original size:87 final size:87
Alignment explanation
Indices: 18888002--18888277 Score: 358
Period size: 87 Copynumber: 3.2 Consensus size: 87
18887992 AAGATCAGGG
* **
18888002 TCTTTAGCGGCGTTTTTTTCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCA
1 TCTTTAGCGGCGCTTTCCTCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCA
*
18888067 CAAACGCCACGAAAGAACCTAA
66 CAAACGCCACTAAAGAACCTAA
* * *
18888089 TCTTTAGCGGCGCTTTCCTCTCAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACAA
1 TCTTTAGCGGCGCTTTCCTCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCA
18888153 CAAAACGCCACTAAAGAACCTAA
66 C-AAACGCCACTAAAGAACCTAA
* * * * * **
18888176 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA-AGACCATGATCTTTAGTGGCACTTTTTCCA
1 TCTTTAGCGGCGCTTTCCTCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCA
* * * * *
18888240 TAAATGCCGCTAAAGACCCTTA
66 CAAACGCCACTAAAGAACCTAA
18888262 TCTTTAGCGGCGCTTT
1 TCTTTAGCGGCGCTTT
18888278 GACCAAAAAT
Statistics
Matches: 165, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
86 64 0.39
87 99 0.60
88 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (87 bp):
TCTTTAGCGGCGCTTTCCTCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCA
CAAACGCCACTAAAGAACCTAA
Found at i:18888202 original size:130 final size:128
Alignment explanation
Indices: 18888024--18888297 Score: 293
Period size: 130 Copynumber: 2.1 Consensus size: 128
18888014 TTTTTTTCTC
* * * *
18888024 AAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCACAAACGCCACGAAAGAACC-TA
1 AAACGCCACTAA-AGAACCTAATCTATAGCGGCACTTTCACCACAAACGCCACGAAAG-ACCATA
*
18888088 ATCTTTAGCGGCGCTTTCCTCTC-AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGAC
64 ATCTTTAGCGGCACTTT-CTC-CAAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTCGAC
18888151 AACA
126 AA-A
* * * * * *
18888155 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGAT
1 AAACGCCACTAAAGAACCTAATCTATAGCGGCACTTTCACCACAAACGCCACGAAAGACCATAAT
* * * * * * *
18888220 CTTTAGTGGCACTTTTTCCATAAATGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAA
66 CTTTAGCGGCACTTTCTCCA-AAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACAAA
*
18888284 AAATGCCACTAAAG
1 AAACGCCACTAAAG
18888298 GCCAACACCT
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
128 1 0.01
129 19 0.16
130 87 0.73
131 13 0.11
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (128 bp):
AAACGCCACTAAAGAACCTAATCTATAGCGGCACTTTCACCACAAACGCCACGAAAGACCATAAT
CTTTAGCGGCACTTTCTCCAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACAAA
Found at i:18888722 original size:21 final size:21
Alignment explanation
Indices: 18888653--18888719 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
18888643 CGCTGCTCGA
18888653 CTTCCCTCGCTGCAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTG
* * *
18888674 CTTCCCTCGCTGTAGCCTGTA
1 CTTCCCTCGCTGCAGCCTCTG
* * *
18888695 CTTCTCTCGCTACCGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTG
18888716 CTTC
1 CTTC
18888720 TCTTGTTGCC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.06, C:0.45, G:0.16, T:0.33
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTG
Found at i:18888801 original size:66 final size:66
Alignment explanation
Indices: 18888731--18888855 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
18888721 CTTGTTGCCG
*
18888731 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCTCTG
1 CATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTAAACCTCAGCTTCTCTCTCTG
18888794 CTA
64 CTA
* * *
18888797 CATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTAAACCTCAGCTTCTCTC
1 CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTAAACCTCAGCTTCTCTC
18888856 GATGTTGCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
65 1 0.02
66 48 0.91
67 4 0.08
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.42
Consensus pattern (66 bp):
CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTAAACCTCAGCTTCTCTCTCTGCT
A
Found at i:18888872 original size:66 final size:66
Alignment explanation
Indices: 18888731--18888879 Score: 167
Period size: 66 Copynumber: 2.3 Consensus size: 66
18888721 CTTGTTGCCG
* * * **
18888731 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCTCTGC
1 CATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGATGC
18888795 TA
65 TA
* * * *
18888797 CATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTAAACCTCAGCTTCTCTCGATGT
1 CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTAAACCTCAGCTTCTCTCGATGC
*
18888861 TG
65 TA
*
18888863 CCTCCGCTTTAAGTTGT
1 CATCCGCTTTAAGTTGT
18888880 GTAATTTGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
65 1 0.01
66 65 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (66 bp):
CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGATGCT
A
Found at i:18894316 original size:9 final size:9
Alignment explanation
Indices: 18894302--18894686 Score: 136
Period size: 9 Copynumber: 44.9 Consensus size: 9
18894292 AAGATATACA
18894302 TTATGTAAG
1 TTATGTAAG
18894311 TTATGTAAG
1 TTATGTAAG
18894320 TTATGTAAG
1 TTATGTAAG
*
18894329 TTGTGTAAG
1 TTATGTAAG
**
18894338 TTGCGTAAG
1 TTATGTAAG
* *
18894347 ATGTGT-A-
1 TTATGTAAG
* *
18894354 TTATGAAAC
1 TTATGTAAG
18894363 TTATGTAAG
1 TTATGTAAG
*
18894372 TTATGT--C
1 TTATGTAAG
18894379 TTATGTAAG
1 TTATGTAAG
*
18894388 TTATGTAAA
1 TTATGTAAG
*
18894397 ATATGT-A-
1 TTATGTAAG
*
18894404 TTATTTACA-
1 TTATGTA-AG
*
18894413 -CATGTAAG
1 TTATGTAAG
*
18894421 TTATGT--C
1 TTATGTAAG
18894428 TTATGTAAG
1 TTATGTAAG
**
18894437 TTGCGTAAG
1 TTATGTAAG
*
18894446 TTGTGT-A-
1 TTATGTAAG
*
18894453 TTATGAAAG
1 TTATGTAAG
*
18894462 TTATGT--C
1 TTATGTAAG
18894469 TTATGTAAG
1 TTATGTAAG
*
18894478 TTATGTAGG
1 TTATGTAAG
*
18894487 GTATGTATTA-
1 TTATGTA--AG
*
18894497 TTATGTAAC
1 TTATGTAAG
* *
18894506 TTATTTAAT
1 TTATGTAAG
*
18894515 TTATGTAGG
1 TTATGTAAG
* **
18894524 GTATGTATTT
1 TTATGTA-AG
*
18894534 TTATGTAAC
1 TTATGTAAG
* *
18894543 TTATTTAAT
1 TTATGTAAG
*
18894552 TTATGTAGG
1 TTATGTAAG
*
18894561 GTATGTAAG
1 TTATGTAAG
18894570 TTATGTAAG
1 TTATGTAAG
* *
18894579 CTCTGT-A-
1 TTATGTAAG
* *
18894586 TTATTTACG
1 TTATGTAAG
*
18894595 -CATGTAAG
1 TTATGTAAG
*
18894603 TTGTGT-A-
1 TTATGTAAG
18894610 TTATGTATTA-
1 TTATGTA--AG
* *
18894620 TTACGTAAC
1 TTATGTAAG
*
18894629 TTATTTAAG
1 TTATGTAAG
*
18894638 TTATGCAAG
1 TTATGTAAG
*
18894647 TTATAT-A-
1 TTATGTAAG
* *
18894654 TTAAGTAGG
1 TTATGTAAG
18894663 TTATGTAAG
1 TTATGTAAG
18894672 TTATGT--G
1 TTATGTAAG
18894679 TTATGTAA
1 TTATGTAA
18894687 ATGAATATAT
Statistics
Matches: 271, Mismatches: 76, Indels: 58
0.67 0.19 0.14
Matches are distributed among these distances:
7 49 0.18
8 19 0.07
9 184 0.68
10 19 0.07
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18894370 original size:25 final size:25
Alignment explanation
Indices: 18894342--18894407 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
18894332 TGTAAGTTGC
*
18894342 GTAAGATGTGTATTATGAAACTTAT
1 GTAAGATATGTATTATGAAACTTAT
* * * *
18894367 GTAAGTTATGTCTTATGTAAGTTAT
1 GTAAGATATGTATTATGAAACTTAT
*
18894392 GTAAAATATGTATTAT
1 GTAAGATATGTATTAT
18894408 TTACACATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (25 bp):
GTAAGATATGTATTATGAAACTTAT
Found at i:18894381 original size:16 final size:16
Alignment explanation
Indices: 18894362--18894483 Score: 82
Period size: 16 Copynumber: 8.0 Consensus size: 16
18894352 TATTATGAAA
18894362 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
18894378 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
** *
18894394 AAAATATGT-A-TTATTT
1 --CTTATGTAAGTTATGT
**
18894410 ACACATGTAAGTTATGT
1 -CTTATGTAAGTTATGT
18894427 CTTATGTAAG-T-TG-
1 CTTATGTAAGTTATGT
*
18894440 C----GTAAGTTGTGT
1 CTTATGTAAGTTATGT
* *
18894452 ATTATGAAAGTTATGT
1 CTTATGTAAGTTATGT
18894468 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
18894484 AGGGTATGTA
Statistics
Matches: 82, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 5 0.06
10 1 0.01
11 2 0.02
13 1 0.01
14 2 0.02
15 7 0.09
16 53 0.65
17 6 0.07
18 5 0.06
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.46
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:18894494 original size:41 final size:41
Alignment explanation
Indices: 18894418--18894497 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
18894408 TTACACATGT
* * *
18894418 AAGTTATGTCTTATGTAAGTTGCGTAAGTTGTGTATTATGA
1 AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTATGA
* *
18894459 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTAT
1 AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTAT
18894498 TATGTAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.45
Consensus pattern (41 bp):
AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTATGA
Found at i:18894519 original size:37 final size:37
Alignment explanation
Indices: 18894468--18894567 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
18894458 AAAGTTATGT
* *
18894468 CTTATGTAAGTTATGTAGGGTATGTATTATTATGTAA
1 CTTATTTAATTTATGTAGGGTATGTATTATTATGTAA
*
18894505 CTTATTTAATTTATGTAGGGTATGTATTTTTATGTAA
1 CTTATTTAATTTATGTAGGGTATGTATTATTATGTAA
18894542 CTTATTTAATTTATGTAGGGTATGTA
1 CTTATTTAATTTATGTAGGGTATGTA
18894568 AGTTATGTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (37 bp):
CTTATTTAATTTATGTAGGGTATGTATTATTATGTAA
Found at i:18894521 original size:46 final size:43
Alignment explanation
Indices: 18894451--18894559 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 43
18894441 GTAAGTTGTG
* * * *
18894451 TATTATGAAAGTTATGTCTTATGTAAGTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTATTATGT-AGTTATGTAGGGTATGTAT
18894495 TATTATGTAACTTATTTA--A--T--TTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTATTATGTAGTTATGTAGGGTATGTAT
*
18894532 TTTTATGTAACTTATTTAATTTATGTAG
1 TATTATGTAACTTATTT-A-TTATGTAG
18894560 GGTATGTAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
37 33 0.63
38 1 0.02
40 1 0.02
41 1 0.02
42 1 0.02
43 1 0.02
44 14 0.27
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.50
Consensus pattern (43 bp):
TATTATGTAACTTATTTATTATGTAGTTATGTAGGGTATGTAT
Found at i:18894955 original size:92 final size:91
Alignment explanation
Indices: 18894683--18894966 Score: 559
Period size: 91 Copynumber: 3.1 Consensus size: 91
18894673 TATGTGTTAT
18894683 GTAAATGAATATATGTATAATATTAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 GTAAATGAATATATGTATAATATTAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
18894748 ATAAAATTTAAATATAGCTTACATAC
66 ATAAAATTTAAATATAGCTTACATAC
18894774 GTAAATGAATATATGTATAATATTAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 GTAAATGAATATATGTATAATATTAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
18894839 ATAAAATTTAAATATAGCTTACATAC
66 ATAAAATTTAAATATAGCTTACATAC
18894865 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 GTAAATGAATATATGTATAATATT-AAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
18894930 AATAAAATTTAAATATAGCTTACATAC
65 AATAAAATTTAAATATAGCTTACATAC
18894957 GTAAATGAAT
1 GTAAATGAAT
18894967 GCTTTTAAAC
Statistics
Matches: 192, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 115 0.60
92 77 0.40
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (91 bp):
GTAAATGAATATATGTATAATATTAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
ATAAAATTTAAATATAGCTTACATAC
Found at i:18896973 original size:23 final size:25
Alignment explanation
Indices: 18896943--18896989 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
18896933 CAATATTAAT
*
18896943 ATATATAT-GTTTCATA-ATATATA
1 ATATATATCGTTGCATATATATATA
18896966 ATATATATCGTTGCATATATATAT
1 ATATATATCGTTGCATATATATAT
18896990 TTTTCTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 7 0.33
25 6 0.29
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (25 bp):
ATATATATCGTTGCATATATATATA
Done.