Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 142 of 325
Found at i:44573948 original size:17 final size:16
Alignment explanation
Indices: 44573896--44574000 Score: 68
Period size: 17 Copynumber: 6.2 Consensus size: 16
44573886 ACACAATTTC
*
44573896 TTTAAAA-ACGAGAAT
1 TTTAAAACACGAAAAT
*
44573911 TTTAGAAACATGAAAATT
1 TTTA-AAACACGAAAA-T
*
44573929 TTTAAAACACGACAACT
1 TTTAAAACACGA-AAAT
* *
44573946 TTTGAAGCACGAGAAATT
1 TTTAAAACACGA-AAA-T
* *
44573964 TATTCAAAACACAAAAAA
1 T-TT-AAAACACGAAAAT
*
44573982 TTTAAAACACGAACAT
1 TTTAAAACACGAAAAT
44573998 TTT
1 TTT
44574001 TTGAAACAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
15 4 0.06
16 16 0.24
17 27 0.40
18 10 0.15
19 5 0.07
20 6 0.09
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.28
Consensus pattern (16 bp):
TTTAAAACACGAAAAT
Found at i:44574073 original size:34 final size:35
Alignment explanation
Indices: 44574035--44574235 Score: 113
Period size: 35 Copynumber: 5.7 Consensus size: 35
44574025 TTAAACAAGA
*
44574035 AAAATTTTTAAAACACGAGAATTTTAGAG-ACACG
1 AAAATTTTTAAAACACGAAAATTTTAGAGAACACG
* *
44574069 AAAATTCTTAAAACACGAAAATTTTTGAGAACACG
1 AAAATTTTTAAAACACGAAAATTTTAGAGAACACG
* * * ** * *
44574104 ACAATTTTGAAATACGCGAATTTTTTTGAAAAC-CTG
1 AAAATTTTTAAA-ACACGAAAATTTTAGAGAACAC-G
*** * * * * *
44574140 ATTTTTTTTTGAAGCGCGAAAATTCGT-GA-AACATG
1 A-AAATTTTTAAAACACGAAAATT-TTAGAGAACACG
* * * *
44574175 AGAATTGTTGAAAACACGAAAATTTTTGAAAACACG
1 AAAATT-TTTAAAACACGAAAATTTTAGAGAACACG
* *
44574211 AAAATTTTTGAAACATGAAAATTTT
1 AAAATTTTTAAAACACGAAAATTTT
44574236 TTGAAAGCAC
Statistics
Matches: 125, Mismatches: 33, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
34 29 0.23
35 51 0.41
36 38 0.30
37 7 0.06
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (35 bp):
AAAATTTTTAAAACACGAAAATTTTAGAGAACACG
Found at i:44574236 original size:89 final size:89
Alignment explanation
Indices: 44574067--44574240 Score: 199
Period size: 89 Copynumber: 2.0 Consensus size: 89
44574057 TTTAGAGACA
* * * * * **
44574067 CGAAAATTCTTAAAACACGAAAATTTTTGAGAACACGACAATTTTGAAATACGCGAATTTTTTTG
1 CGAAAATTCGTAAAACACGAAAATTGTTGAAAACACGAAAATTTTGAAATACACGAAAATTTTTG
* **
44574132 AAAACCTGATTTTTTTTTGAAGCG
66 AAAACATGAAATTTTTTTGAAGCG
* * *
44574156 CGAAAATTCGTGAAACATGAGAATTGTTGAAAACACGAAAATTTTTGAAA-ACACGAAAATTTTT
1 CGAAAATTCGTAAAACACGAAAATTGTTGAAAACACGAAAA-TTTTGAAATACACGAAAATTTTT
*
44574220 G-AAACATGAAAATTTTTTGAA
65 GAAAACATGAAATTTTTTTGAA
44574241 AGCACAAATT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
88 16 0.23
89 46 0.66
90 8 0.11
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (89 bp):
CGAAAATTCGTAAAACACGAAAATTGTTGAAAACACGAAAATTTTGAAATACACGAAAATTTTTG
AAAACATGAAATTTTTTTGAAGCG
Found at i:44574249 original size:17 final size:18
Alignment explanation
Indices: 44574035--44574560 Score: 174
Period size: 18 Copynumber: 28.7 Consensus size: 18
44574025 TTAAACAAGA
44574035 AAAATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
* * *
44574052 AGAATTTTAG-AGACACG
1 AAAATTTTTGAAAACACG
*
44574069 AAAATTCTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
44574086 AAAATTTTTGAGAACACG
1 AAAATTTTTGAAAACACG
* *
44574104 ACAA-TTTTGAAATACGCG
1 AAAATTTTTGAAA-ACACG
**
44574122 AATTTTTTTGAAAAC-CTG
1 AAAATTTTTGAAAACAC-G
*** * *
44574140 ATTTTTTTTTG-AAGCGCG
1 A-AAATTTTTGAAAACACG
** *
44574158 AAAATTCGTG-AAACATG
1 AAAATTTTTGAAAACACG
* *
44574175 AGAATTGTTGAAAACACG
1 AAAATTTTTGAAAACACG
44574193 AAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
44574211 AAAATTTTTG-AAACATG
1 AAAATTTTTGAAAACACG
*
44574228 AAAATTTTTTGAAAGCAC-
1 AAAA-TTTTTGAAAACACG
* *** * *
44574246 AAATTTTTTTTTGATCATG
1 AAA-ATTTTTGAAAACACG
** * **
44574265 GGAACTTTTGAAAACGTG
1 AAAATTTTTGAAAACACG
44574283 AAAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
* *
44574300 AAAGTTTTTTTTTAAAAAGAACACG
1 AAA----ATTTTT--GAA-AACACG
*
44574325 AAAAATTTTTTTTGAACACGA-G
1 -AAAA---TTTTTGAAAAC-ACG
*
44574347 AAAATTTTTTGAAAACATG
1 AAAA-TTTTTGAAAACACG
*
44574366 AAAAATTTTG-AAACACCG
1 AAAATTTTTGAAAACA-CG
*
44574384 -AAA-TCTTGAAAACACG
1 AAAATTTTTGAAAACACG
* **
44574400 AAGATTTTTGAAAACAATT
1 AAAATTTTTGAAAAC-ACG
** * *
44574419 ATTATTTTTTTAAAAAAAACG
1 A--AAATTTTT-GAAAACACG
*
44574440 AAAATTTATG-AAACAC-
1 AAAATTTTTGAAAACACG
* *
44574456 AAGATTTTTTAAAAAAAACAC-
1 AA-AATTTTT---GAAAACACG
* *
44574477 AAAAATTTTCAAAACACTG
1 AAAATTTTTGAAAACAC-G
44574496 -AAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
**
44574513 AGGATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
44574530 CAAAA-TTTTGGAAACACG
1 -AAAATTTTTGAAAACACG
44574548 AAAATTTTTGAAA
1 AAAATTTTTGAAA
44574561 TACGAAATTA
Statistics
Matches: 371, Mismatches: 92, Indels: 91
0.67 0.17 0.16
Matches are distributed among these distances:
16 8 0.02
17 123 0.33
18 140 0.38
19 45 0.12
20 5 0.01
21 25 0.07
22 7 0.02
23 3 0.01
24 1 0.00
25 11 0.03
26 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:44574343 original size:20 final size:21
Alignment explanation
Indices: 44574318--44574356 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44574308 TTTTTAAAAA
44574318 GAACACGA-AAAATTTTTTTT
1 GAACACGAGAAAATTTTTTTT
44574338 GAACACGAGAAAATTTTTT
1 GAACACGAGAAAATTTTTT
44574357 GAAAACATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (21 bp):
GAACACGAGAAAATTTTTTTT
Found at i:44574370 original size:20 final size:20
Alignment explanation
Indices: 44574319--44574374 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
44574309 TTTTAAAAAG
***
44574319 AACACGAAAAATTTTTTTTG
1 AACACGAAAAATTTTTTGAA
44574339 AACACGAGAAAATTTTTTGAA
1 AACACGA-AAAATTTTTTGAA
*
44574360 AACATGAAAAATTTT
1 AACACGAAAAATTTT
44574375 GAAACACCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (20 bp):
AACACGAAAAATTTTTTGAA
Found at i:44574374 original size:19 final size:19
Alignment explanation
Indices: 44574333--44574378 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
44574323 CGAAAAATTT
* *
44574333 TTTTTGAACACGAGAAAAT
1 TTTTTGAAAACGAGAAAAA
44574352 TTTTTGAAAAC-ATGAAAAA
1 TTTTTGAAAACGA-GAAAAA
44574371 -TTTTGAAA
1 TTTTTGAAA
44574379 CACCGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (19 bp):
TTTTTGAAAACGAGAAAAA
Found at i:44574485 original size:21 final size:21
Alignment explanation
Indices: 44574450--44574490 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44574440 AAAATTTATG
* * *
44574450 AAACACAAGATTTTTTAAAAA
1 AAACACAAAAATTTTCAAAAA
44574471 AAACACAAAAATTTTCAAAA
1 AAACACAAAAATTTTCAAAA
44574491 CACTGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.24
Consensus pattern (21 bp):
AAACACAAAAATTTTCAAAAA
Found at i:44574492 original size:38 final size:37
Alignment explanation
Indices: 44574422--44574493 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
44574412 AACAATTATT
* * *
44574422 ATTTTTTTAAAAAAAACGAAAATTTATGAAACACAAG
1 ATTTTTTAAAAAAAAACAAAAATTTATAAAACACAAG
44574459 ATTTTTTAAAAAAAACACAAAAATTT-TCAAAACAC
1 ATTTTTTAAAAAAAA-ACAAAAATTTAT-AAAACAC
44574494 TGAAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (37 bp):
ATTTTTTAAAAAAAAACAAAAATTTATAAAACACAAG
Found at i:44574565 original size:17 final size:17
Alignment explanation
Indices: 44574471--44574567 Score: 88
Period size: 17 Copynumber: 5.6 Consensus size: 17
44574461 TTTTTAAAAA
* **
44574471 AAACACAAAAATTTTCA
1 AAACACGAAAATTTTTG
44574488 AAACACTG-AAATTTTTG
1 AAACAC-GAAAATTTTTG
** *
44574505 AAAACACGAGGATTTTTA
1 -AAACACGAAAATTTTTG
*
44574523 AAACACGCAAAATTTTGG
1 AAACACG-AAAATTTTTG
44574541 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
44574558 AAATACGAAA
1 AAACACGAAA
44574568 TTATTTTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
17 39 0.61
18 25 0.39
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:44574574 original size:18 final size:19
Alignment explanation
Indices: 44574523--44574574 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
44574513 AGGATTTTTA
*
44574523 AAACACGCAAA-ATTTTGG
1 AAACACGAAAATATTTTGG
44574541 AAACACGAAAAT-TTTT-G
1 AAACACGAAAATATTTTGG
* *
44574558 AAATACGAAATTATTTT
1 AAACACGAAAATATTTT
44574575 TTTTTAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (19 bp):
AAACACGAAAATATTTTGG
Found at i:44574611 original size:21 final size:20
Alignment explanation
Indices: 44574553--44574611 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
44574543 ACACGAAAAT
* *
44574553 TTTTGAAATACGAAATTATTTT
1 TTTTGAAA-ACGAAA-AATTTC
*
44574575 TTTTTAAAACGCAAAAATTTC
1 TTTTGAAAACG-AAAAATTTC
44574596 TTTTGAAACACGAAAA
1 TTTTGAAA-ACGAAAA
44574612 CTCTTGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (20 bp):
TTTTGAAAACGAAAAATTTC
Found at i:44575212 original size:15 final size:15
Alignment explanation
Indices: 44575181--44575253 Score: 78
Period size: 15 Copynumber: 4.7 Consensus size: 15
44575171 ATTGAACCCC
44575181 CTTTTTCTTCCTTTTTT
1 CTTTTT-TT-CTTTTTT
44575198 C-TTTTTTCTTTTTTT
1 CTTTTTTTC-TTTTTT
44575213 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
*
44575228 CTTCTTTTTCTTCCTTT
1 CTT-TTTTTCTT-TTTT
44575245 -TTTTTTTCT
1 CTTTTTTTCT
44575254 GCTGGGCTGC
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
14 1 0.02
15 25 0.49
16 21 0.41
17 4 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTTCTTTTTT
Found at i:44575218 original size:23 final size:23
Alignment explanation
Indices: 44575181--44575253 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 23
44575171 ATTGAACCCC
*
44575181 CTTTTTCTTCCTTTTTTCTTTTTT
1 CTTTTT-TTCTTTTTTTCTTTTTT
44575205 CTTTTTTTCTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTTTCTTTTTT
*
44575228 CTTCTTTTTCTTCCTTTT-TTTTTT
1 CTT-TTTTTCTT-TTTTTCTTTTTT
44575252 CT
1 CT
44575254 GCTGGGCTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.42
24 22 0.49
25 4 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
CTTTTTTTCTTTTTTTCTTTTTT
Found at i:44575506 original size:20 final size:19
Alignment explanation
Indices: 44575451--44575507 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
44575441 GCTTGCTGGG
*
44575451 TCGGGTTGGTTTA-CCGGA
1 TCGGGTCGGTTTACCCGGA
*
44575469 TCGGGTCGGGTTATACCCGGT
1 TCGGGTC-GGTT-TACCCGGA
44575490 TCGGGTCGGTTTGACCCG
1 TCGGGTCGGTTT-ACCCG
44575508 ACTGTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 6 0.18
19 5 0.15
20 11 0.33
21 11 0.33
ACGTcount: A:0.09, C:0.23, G:0.39, T:0.30
Consensus pattern (19 bp):
TCGGGTCGGTTTACCCGGA
Found at i:44575531 original size:6 final size:6
Alignment explanation
Indices: 44575517--44575579 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
44575507 GACTGTTAAA
*
44575517 TTTTT- TTTTTC -TTTT- TTTTTC TTCTTTC TTCTTCTC TCTTTC TTTCTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TT-TT-TC TTTTTC TTT-TTC
*
44575566 TTCTTC TTTTTC TT
1 TTTTTC TTTTTC TT
44575580 CCTTCTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
5 13 0.27
6 16 0.33
7 16 0.33
8 3 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:44575535 original size:13 final size:13
Alignment explanation
Indices: 44575517--44575595 Score: 63
Period size: 13 Copynumber: 6.1 Consensus size: 13
44575507 GACTGTTAAA
44575517 TTTTTTTT-TTCT
1 TTTTTTTTCTTCT
44575529 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
* *
44575542 TTCTTCTTCTCTCT
1 TTTTTTTTCT-TCT
*
44575556 TTCTTTCTTCTTC-
1 TT-TTTTTTCTTCT
* *
44575569 TTCTTTTTCTTCC
1 TTTTTTTTCTTCT
* *
44575582 TTCTTCTTCTTCT
1 TTTTTTTTCTTCT
44575595 T
1 T
44575596 CAAAACCGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
12 16 0.29
13 26 0.46
14 7 0.12
15 7 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:44575541 original size:3 final size:3
Alignment explanation
Indices: 44575535--44575596 Score: 70
Period size: 3 Copynumber: 19.0 Consensus size: 3
44575525 TTCTTTTTTT
*
44575535 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTT TTC TTCC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TTC TT-C
44575582 TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC
44575597 AAAACCGAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
3 38 0.72
4 14 0.26
5 1 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:44575550 original size:10 final size:10
Alignment explanation
Indices: 44575525--44575596 Score: 71
Period size: 10 Copynumber: 7.6 Consensus size: 10
44575515 AATTTTTTTT
* *
44575525 TTCTTTTTTT
1 TTCTTCTTTC
44575535 TTCTTCTTTC
1 TTCTTCTTTC
*
44575545 TTCTTCTCTC
1 TTCTTCTTTC
44575555 -T-TTCTTTC
1 TTCTTCTTTC
44575563 TTCTTC-TTC
1 TTCTTCTTTC
* *
44575572 TTTTTCTTCC
1 TTCTTCTTTC
44575582 TTCTTC-TTC
1 TTCTTCTTTC
44575591 TTCTTC
1 TTCTTC
44575597 AAAACCGAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 6 0.12
9 18 0.35
10 27 0.53
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:44575561 original size:18 final size:18
Alignment explanation
Indices: 44575538--44575592 Score: 76
Period size: 19 Copynumber: 3.1 Consensus size: 18
44575528 TTTTTTTTTC
44575538 TTCTTTCTTCTTCTCTCT
1 TTCTTTCTTCTTCTCTCT
*
44575556 TTCTTTCTTCTTCTTCTTT
1 TTCTTTCTTCTTC-TCTCT
*
44575575 TTCTTCCTTCTTCT-TCT
1 TTCTTTCTTCTTCTCTCT
44575592 T
1 T
44575593 CTTCAAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.09
18 14 0.42
19 16 0.48
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTCTTTCTTCTTCTCTCT
Found at i:44575563 original size:25 final size:23
Alignment explanation
Indices: 44575534--44575596 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
44575524 TTTCTTTTTT
44575534 TTTCTTCTTTCTTCTTCTCTCTTTC
1 TTTCTTC-TTCTTCTTCTCTC-TTC
*
44575559 TTTCTTCTTCTTCTT-TTTCTTC
1 TTTCTTCTTCTTCTTCTCTCTTC
*
44575581 CTTCTTCTTCTTCTTC
1 TTTCTTCTTCTTCTTC
44575597 AAAACCGAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 17 0.49
23 3 0.09
24 8 0.23
25 7 0.20
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTCTTCTTCTTCTTCTCTCTTC
Found at i:44575996 original size:29 final size:29
Alignment explanation
Indices: 44575963--44576079 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 29
44575953 TGTAATTTTT
*
44575963 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* *
44575992 TGAAAGTTTAGGGGTCT-AAATGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
44576022 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
44576051 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
44576080 TTATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
29 14 0.19
30 58 0.78
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:44576015 original size:30 final size:30
Alignment explanation
Indices: 44575978--44576079 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
44575968 ATTTAGGATT
*
44575978 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
44576008 TAAATGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
44576038 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
44576068 AAAATGCAATTT
1 AAAATGAAATTT
44576080 TTATTTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 2 0.03
30 62 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:44576058 original size:60 final size:59
Alignment explanation
Indices: 44575944--44576079 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
44575934 CAAAACTTCT
* ** * *
44575944 GGGG-CTAAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
* *
44576002 GGGGTCTAAATGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTA
* *
44576062 GGGGTCAAAATGCAATTT
1 GGGGTCTAAATGAAATTT
44576080 TTATTTTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 4 0.06
59 22 0.33
60 40 0.61
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.32
Consensus pattern (59 bp):
GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
Found at i:44576526 original size:22 final size:22
Alignment explanation
Indices: 44576481--44576542 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
44576471 TTGTACGGGA
* *
44576481 TTGCGCTTTGGTGCCTC--TAT
1 TTGCACTTCGGTGCCTCTGTAT
44576501 TTGCACTTCGGTGCCTCTGTAT
1 TTGCACTTCGGTGCCTCTGTAT
*
44576523 TTGCACTACGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
44576543 TAGCATTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 15 0.41
22 22 0.59
ACGTcount: A:0.08, C:0.27, G:0.24, T:0.40
Consensus pattern (22 bp):
TTGCACTTCGGTGCCTCTGTAT
Found at i:44577656 original size:27 final size:28
Alignment explanation
Indices: 44577626--44577679 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
44577616 TGAAATTCAT
*
44577626 ACTTTAATTA-TAAAATAATT-AATTTTC
1 ACTTAAATTATTAAAAT-ATTGAATTTTC
44577653 ACTTAAATTATTAAAATATTGAATTTT
1 ACTTAAATTATTAAAATATTGAATTTT
44577680 AATCATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (28 bp):
ACTTAAATTATTAAAATATTGAATTTTC
Found at i:44596356 original size:13 final size:12
Alignment explanation
Indices: 44596336--44596369 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
44596326 GACAAGATAT
44596336 TCTTTAAATTAC
1 TCTTTAAATTAC
*
44596348 TCTTTTAAATTAT
1 TC-TTTAAATTAC
44596361 TCTTTAAAT
1 TCTTTAAAT
44596370 AACATAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TCTTTAAATTAC
Found at i:44596366 original size:12 final size:12
Alignment explanation
Indices: 44596333--44596369 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
44596323 TGAGACAAGA
44596333 TATTCTTTAAAT
1 TATTCTTTAAAT
*
44596345 TACTCTTTTAAAT
1 TATTC-TTTAAAT
44596358 TATTCTTTAAAT
1 TATTCTTTAAAT
44596370 AACATAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:44596839 original size:16 final size:16
Alignment explanation
Indices: 44596818--44596889 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
44596808 AATTAAATTG
*
44596818 CTATTATAGTTCTATT
1 CTATTACAGTTCTATT
**
44596834 CTATTACAACTCTATT
1 CTATTACAGTTCTATT
*
44596850 CCATTACAGTTCTATT
1 CTATTACAGTTCTATT
**
44596866 CTATTACAGCCCTATT
1 CTATTACAGTTCTATT
*
44596882 CCATTACA
1 CTATTACA
44596890 TTGAACCAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.43
Consensus pattern (16 bp):
CTATTACAGTTCTATT
Found at i:44596866 original size:32 final size:32
Alignment explanation
Indices: 44596820--44596889 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
44596810 TTAAATTGCT
* *
44596820 ATTATAGTTCTATTCTATTACAACTCTATTCC
1 ATTACAGTTCTATTCTATTACAACCCTATTCC
*
44596852 ATTACAGTTCTATTCTATTACAGCCCTATTCC
1 ATTACAGTTCTATTCTATTACAACCCTATTCC
44596884 ATTACA
1 ATTACA
44596890 TTGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (32 bp):
ATTACAGTTCTATTCTATTACAACCCTATTCC
Found at i:44600629 original size:42 final size:42
Alignment explanation
Indices: 44600573--44600706 Score: 130
Period size: 42 Copynumber: 3.1 Consensus size: 42
44600563 GTCTATATGT
*
44600573 AATCAAATATCGATGCCACTGTCCCAGAAAGGGTCTTACATGA
1 AATCAAATA-CGATGCCACTGTCCCAGAAAGGGTCTTACACGA
* * * * *
44600616 AATCAAATACGATGCCAATGTCTCAGACATGGTCTTATACGTA
1 AATCAAATACGATGCCACTGTCCCAGAAAGGGTCTTACACG-A
*
44600659 AACCTCAAAT-CGATGCCGAC-GTCCCAG-ACGTGGTCTTACACGA
1 AA--TCAAATACGATGCC-ACTGTCCCAGAAAG-GGTCTTACACGA
44600702 AATCA
1 AATCA
44600707 CATATCGAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.04
42 26 0.35
43 15 0.20
44 23 0.31
45 7 0.09
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCACTGTCCCAGAAAGGGTCTTACACGA
Found at i:44609719 original size:14 final size:14
Alignment explanation
Indices: 44609683--44609721 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
44609673 TTGTTTCACT
*
44609683 GAAAATGACTTCCG
1 GAAAATGATTTCCG
*
44609697 GAAAATGATTTCTG
1 GAAAATGATTTCCG
44609711 GAAAATGATTT
1 GAAAATGATTT
44609722 AATTTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:44610097 original size:84 final size:86
Alignment explanation
Indices: 44609985--44610158 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 86
44609975 CACATGACTA
44609985 CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGAC-AAAAAACGATGTCAAC
1 CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGACAAAAAAACGATGTCAAC
44610049 AATCAGACTTAATTTTCAAAT
66 AATCAGACTTAATTTTCAAAT
*
44610070 CTAAGTGAGTA-TTTTTTATTTAAAAATATGATATCAACAAAATTGACAAAAAAAAAAACGATGT
1 CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGAC----AAAAAAACGATGT
** *
44610134 CAACAATTGGACTTAATTTTTAAAT
62 CAACAATCAGACTTAATTTTCAAAT
44610159 TTGAAAAGTA
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
84 35 0.44
85 11 0.14
89 34 0.43
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (86 bp):
CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGACAAAAAAACGATGTCAAC
AATCAGACTTAATTTTCAAAT
Found at i:44610289 original size:15 final size:15
Alignment explanation
Indices: 44610269--44610320 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
44610259 ACTACAAAAC
44610269 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
44610284 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
44610303 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
44610318 ATT
1 ATT
44610321 AATATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:44610441 original size:22 final size:22
Alignment explanation
Indices: 44610401--44610456 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
44610391 AATAAAATTG
*
44610401 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
44610421 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
44610443 TATTAATAATTTAT
1 AAATAATAAATTAT
44610457 TATAGGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:44617305 original size:43 final size:42
Alignment explanation
Indices: 44617161--44617333 Score: 154
Period size: 43 Copynumber: 4.1 Consensus size: 42
44617151 GGTTACTAAG
* * *
44617161 ATGTGATTACATGTAAGACCATTTCTGGGAC-ATTGCTATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACAATGGC-ATCGT
* *
44617203 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCG-T
** * * *
44617247 AAT-CAATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCG-T
* * * *
44617290 ATGTGATAACATGTAAGACCATATCTGGGA-TATGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGT
44617331 ATG
1 ATG
44617334 AGCTATATGT
Statistics
Matches: 106, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.04
42 11 0.10
43 85 0.80
44 5 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGT
Found at i:44619311 original size:20 final size:20
Alignment explanation
Indices: 44619288--44619377 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
44619278 CAAGGGTAAT
* **
44619288 GTATCGATACTTTGAATAAA
1 GTATAGATACTTTGAGCAAA
* * *
44619308 GTATAAATAAC-TAGACCAAA
1 GTATAGAT-ACTTTGAGCAAA
*
44619328 GTATAGATACTTTTAGCAAA
1 GTATAGATACTTTGAGCAAA
*
44619348 GTATAGATACTTTGAGTAAA
1 GTATAGATACTTTGAGCAAA
* *
44619368 CTATCGATAC
1 GTATAGATAC
44619378 CTTGGATATT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 2 0.04
20 51 0.93
21 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATAGATACTTTGAGCAAA
Found at i:44621689 original size:32 final size:33
Alignment explanation
Indices: 44621653--44621716 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
44621643 ACACAATCTT
*
44621653 TTTTATTTATT-AAGG-CT-TAATATTTTGATTTA
1 TTTTA-TTATTCAAGGACTGTAATACTTT-ATTTA
44621685 TTTTATTATTCAAGGACTGTAATACTTTATTT
1 TTTTATTATTCAAGGACTGTAATACTTTATTT
44621717 TTAAACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 5 0.18
32 9 0.32
33 6 0.21
34 8 0.29
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56
Consensus pattern (33 bp):
TTTTATTATTCAAGGACTGTAATACTTTATTTA
Found at i:44624621 original size:27 final size:27
Alignment explanation
Indices: 44624590--44624767 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44624580 TAAATTGTAC
*
44624590 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44624617 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
44624643 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
44624671 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
44624698 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
44624726 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
44624753 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44624768 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:44624651 original size:54 final size:55
Alignment explanation
Indices: 44624590--44624767 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
44624580 TAAATTGTAC
* **
44624590 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
44624645 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
44624698 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
44624753 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44624768 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:44631420 original size:52 final size:54
Alignment explanation
Indices: 44631315--44631420 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
44631305 AGGAAAAACA
** *
44631315 AAAAAAATTGGTTCATATCTTTTATCACCTCTTGGCCGATGTTCTAAAGAGAAG
1 AAAAAAATTGGTTCATATCTTTTATCACCTCTTGGCCGAAATGCTAAAGAGAAG
* *
44631369 AAAAAAATTGTTTCATATCTTTT-TCATC-CTTGGCCGAAAATGCTAAA-AGAAG
1 AAAAAAATTGGTTCATATCTTTTATCACCTCTTGGCCG-AAATGCTAAAGAGAAG
44631421 GGGGAGAGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 13 0.28
53 11 0.24
54 22 0.48
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (54 bp):
AAAAAAATTGGTTCATATCTTTTATCACCTCTTGGCCGAAATGCTAAAGAGAAG
Found at i:44637362 original size:9 final size:9
Alignment explanation
Indices: 44637348--44637493 Score: 62
Period size: 9 Copynumber: 16.8 Consensus size: 9
44637338 TCTTCGCTTT
44637348 GCGGGGGAG
1 GCGGGGGAG
44637357 GCGGGGGGAG
1 GC-GGGGGAG
44637367 G-GGGGAGAG
1 GCGGGG-GAG
*
44637376 G-GGCGGAG
1 GCGGGGGAG
44637384 G-GGGCGG-G
1 GCGGG-GGAG
*
44637392 G-GGGGGGG
1 GCGGGGGAG
44637400 GCGGGGGAG
1 GCGGGGGAG
*
44637409 GCCGGGG-G
1 GCGGGGGAG
44637417 G-GGGGGA-
1 GCGGGGGAG
* *
44637424 G-GAGGGCG
1 GCGGGGGAG
* *
44637432 GCAGGGGCG
1 GCGGGGGAG
44637441 GCGGGGG-G
1 GCGGGGGAG
*
44637449 G-GGGGGGG
1 GCGGGGGAG
*
44637457 GCGGGGATGGG
1 GCGGGG--GAG
44637468 GCGGGGGAGG
1 GCGGGGGA-G
*
44637478 GAGGGGGAG
1 GCGGGGGAG
*
44637487 GAGGGGG
1 GCGGGGG
44637494 CGGGGGCCGG
Statistics
Matches: 112, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
7 16 0.14
8 24 0.21
9 47 0.42
10 16 0.14
11 9 0.08
ACGTcount: A:0.10, C:0.09, G:0.81, T:0.01
Consensus pattern (9 bp):
GCGGGGGAG
Found at i:44637392 original size:22 final size:20
Alignment explanation
Indices: 44637375--44637517 Score: 84
Period size: 20 Copynumber: 7.1 Consensus size: 20
44637365 AGGGGGGAGA
44637375 GGGGCGGAGGGGGCGGGGGGGG
1 GGGGCGGAGGGGGC--GGGGGG
*
44637397 GGGGCGG-GGGAGGCCGGGGG
1 GGGGCGGAGGG-GGCGGGGGG
*
44637417 GGGG-GGAGGAGGGCGGCAGGG
1 GGGGCGGAGG-GGGCGG-GGGG
*
44637438 GCGGCGG-GGGGG-GGGGGG
1 GGGGCGGAGGGGGCGGGGGG
*
44637456 GGCGG-GGATGGGGCGGGGGAG
1 GG-GGCGGAGGGGGCGGGGG-G
* * *
44637477 GGAGGGGGAGGAGG-GGGCGG
1 GG-GGCGGAGGGGGCGGGGGG
* *
44637497 GGGCCGG-GGGGCCGGGGGG
1 GGGGCGGAGGGGGCGGGGGG
44637516 GG
1 GG
44637518 CTCGTTTCGT
Statistics
Matches: 94, Mismatches: 16, Indels: 25
0.70 0.12 0.19
Matches are distributed among these distances:
18 9 0.10
19 20 0.21
20 26 0.28
21 21 0.22
22 18 0.19
ACGTcount: A:0.07, C:0.11, G:0.81, T:0.01
Consensus pattern (20 bp):
GGGGCGGAGGGGGCGGGGGG
Found at i:44637429 original size:52 final size:51
Alignment explanation
Indices: 44637348--44637514 Score: 164
Period size: 52 Copynumber: 3.1 Consensus size: 51
44637338 TCTTCGCTTT
44637348 GCGGGGGAGGCGGGGGGAGGGGG-GAGAGGGGCGGAGGGGGCGGGGGGGGGGG
1 GCGGGGGAGGCGGGGGG-GGGGGAG-GAGGGGCGGAGGGGGCGGGGGGGGGGG
44637400 GCGGGGGAGGCCGGGGGGGGGGGAGGA-GGGCGGCA-GGGGCGGCGGGGGGGGG
1 GCGGGGGAGG-CGGGGGGGGGGGAGGAGGGGCGG-AGGGGGCGG-GGGGGGGGG
* *
44637452 G-GGGGGCGG-GGATGGGGCGGGGGAGGGAGGGGGAGGAGGGGGCGGGGGCCGGGGGG
1 GCGGGGGAGGCGG--GGGG-GGGGGA-GGA-GGGGCGGAGGGGGCGGGGG--GGGGGG
*
44637508 CCGGGGG
1 GCGGGGG
44637515 GGGCTCGTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 23
0.79 0.02 0.19
Matches are distributed among these distances:
49 2 0.02
51 24 0.24
52 34 0.35
53 11 0.11
54 4 0.04
55 12 0.12
56 6 0.06
57 5 0.05
ACGTcount: A:0.08, C:0.11, G:0.80, T:0.01
Consensus pattern (51 bp):
GCGGGGGAGGCGGGGGGGGGGGAGGAGGGGCGGAGGGGGCGGGGGGGGGGG
Found at i:44637447 original size:51 final size:52
Alignment explanation
Indices: 44637348--44637457 Score: 154
Period size: 51 Copynumber: 2.1 Consensus size: 52
44637338 TCTTCGCTTT
* *
44637348 GCGGGGGAGGCGGGGGGAGGGGGGAGAGGGGCGGAGGGGGCGGGGGGGGGGG
1 GCGGGGGAGGCCGGGGGAGGGGGGAGAGGGGCGGAGGGGGCGGCGGGGGGGG
44637400 GCGGGGGAGGCCGGGGG-GGGGGGAG-GAGGGCGGCA-GGGGCGGCGGGGGGGG
1 GCGGGGGAGGCCGGGGGAGGGGGGAGAG-GGGCGG-AGGGGGCGGCGGGGGGGG
*
44637451 GGGGGGG
1 GCGGGGG
44637458 CGGGGATGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
50 1 0.02
51 35 0.66
52 17 0.32
ACGTcount: A:0.08, C:0.10, G:0.82, T:0.00
Consensus pattern (52 bp):
GCGGGGGAGGCCGGGGGAGGGGGGAGAGGGGCGGAGGGGGCGGCGGGGGGGG
Found at i:44637499 original size:51 final size:50
Alignment explanation
Indices: 44637351--44637513 Score: 150
Period size: 51 Copynumber: 3.1 Consensus size: 50
44637341 TCGCTTTGCG
* *
44637351 GGGGAGGCGGGGGGAGGGGGGAGAGGGGCGGAGGGGGCGGGGGGGGGGGGCG-
1 GGGGAGGC-GGGGG-GGAGGGAG-GGGGCGGAGGGGGCGGGGGGGGGGGGGGC
*
44637403 GGGGAGGCCGGGGGGGGGGGAGGAGGGCGGCAGGGGCGGCGGGGGGGGGGGGGGGC
1 GGGGAGG-CGGGGGGGAGGGAGG-GGGCGG-A-GGG-GGC-GGGGGGGGGGGGGGC
* ** *
44637459 GGGGATGG-GGCGGGGGAGGGAGGGGGAGGAGGGGGCGGGGGCCGGGGGGCC
1 GGGGA-GGCGG-GGGGGAGGGAGGGGGCGGAGGGGGCGGGGGGGGGGGGGGC
44637510 GGGG
1 GGGG
44637514 GGGGCTCGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 19
0.79 0.05 0.16
Matches are distributed among these distances:
50 1 0.01
51 30 0.31
52 16 0.17
53 7 0.07
54 4 0.04
55 20 0.21
56 16 0.17
57 2 0.02
ACGTcount: A:0.09, C:0.10, G:0.80, T:0.01
Consensus pattern (50 bp):
GGGGAGGCGGGGGGGAGGGAGGGGGCGGAGGGGGCGGGGGGGGGGGGGGC
Found at i:44639735 original size:26 final size:26
Alignment explanation
Indices: 44639694--44639791 Score: 74
Period size: 26 Copynumber: 3.7 Consensus size: 26
44639684 AGTGCTATTT
*
44639694 AACTCGCCACATTAGTGCCAC-TAATC
1 AACTCG-CACACTAGTGCCACATAATC
* *
44639720 AAACTCGCACACTAGTGCTACATAGTC
1 -AACTCGCACACTAGTGCCACATAATC
* **
44639747 AACTCGCA-ACTTAGTGCCGCTATGGTC
1 AACTCGCACAC-TAGTGCCAC-ATAATC
*
44639774 AATTCGCACACTTAGTGC
1 AACTCGCACAC-TAGTGC
44639792 ATCATATTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.03
26 27 0.45
27 22 0.37
28 9 0.15
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (26 bp):
AACTCGCACACTAGTGCCACATAATC
Found at i:44812553 original size:90 final size:92
Alignment explanation
Indices: 44812427--44812592 Score: 275
Period size: 90 Copynumber: 1.8 Consensus size: 92
44812417 GGATGGTTGA
*
44812427 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAACTCGTTGAG
44812491 -TGAGTCCGAGTCGTGAGATGTAACTAG
65 TTGAGTCCGAGTCGTGAGATGTAACTAG
* *
44812518 GCATCTGAACTCGTTGAG-TGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
44812582 TGAGTCCGAGT
66 TGAGTCCGAGT
44812593 TCGCTTATGG
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
89 2 0.03
90 40 0.57
91 28 0.40
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTCGTGAGATGTAACTAG
Found at i:44812576 original size:45 final size:46
Alignment explanation
Indices: 44812433--44812602 Score: 176
Period size: 45 Copynumber: 3.7 Consensus size: 46
44812423 TTGAGCATCC
*
44812433 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCT
* * *
44812479 GAACTCGTTGAG-TGAGTCCGAG-TC-GTGA--GATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CT
44812524 GAACTCGTTGAG-TGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
* *
44812569 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44812603 GTGGGTTACA
Statistics
Matches: 103, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
40 2 0.02
41 4 0.04
42 1 0.01
43 3 0.03
44 3 0.03
45 45 0.44
46 34 0.33
47 4 0.04
49 4 0.04
50 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
Found at i:44819035 original size:29 final size:27
Alignment explanation
Indices: 44819017--44819086 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
44819007 ATATTAAGTC
44819017 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
44819044 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
44819072 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
44819087 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:44819080 original size:28 final size:28
Alignment explanation
Indices: 44819017--44819114 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
44819007 ATATTAAGTC
*
44819017 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
44819044 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44819072 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
44819101 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44819115 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44824806 original size:37 final size:37
Alignment explanation
Indices: 44824756--44824834 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44824746 TTATTACGAA
* * *
44824756 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44824793 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44824830 GTCTT
1 GTCTT
44824835 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44825058 original size:47 final size:47
Alignment explanation
Indices: 44824953--44825481 Score: 880
Period size: 47 Copynumber: 11.4 Consensus size: 47
44824943 CCCTTCGGGA
* * * * * * *
44824953 CTTATCACATTTATGCACTTTCACATCCAT-ACGTTGGCCACT-CGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44824998 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825044 CTTATCACATATATACACTTTCACATTCATCAC-TCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825090 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825137 CTTATCACACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44825185 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825230 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44825276 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825323 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44825464 CTTAT-ACATATAT-CACTT
1 CTTATCACATATATACACTT
44825482 CTTCTGAATC
Statistics
Matches: 461, Mismatches: 13, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
44 52 0.11
45 30 0.07
46 104 0.23
47 229 0.50
48 13 0.03
49 33 0.07
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44825124 original size:93 final size:94
Alignment explanation
Indices: 44824953--44825481 Score: 880
Period size: 93 Copynumber: 5.7 Consensus size: 94
44824943 CCCTTCGGGA
* * * * * * * *
44824953 CTTATCACATTTATGCACTTTCACATCCAT-ACGTTGGCCACT-CGCC-TGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44825015 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
44825044 CTTATCACATATATACACTTTCACATTCATCAC-TCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44825108 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
44825137 CTTATCACACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCAC--ATATAC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
44825199 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
44825230 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44825294 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
44825323 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44825388 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
44825417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATAT-CAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44825480 TT
66 TT
44825482 CTTCTGAATC
Statistics
Matches: 419, Mismatches: 10, Indels: 17
0.94 0.02 0.04
Matches are distributed among these distances:
91 83 0.20
92 10 0.02
93 172 0.41
94 106 0.25
95 44 0.11
96 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:44828331 original size:40 final size:40
Alignment explanation
Indices: 44828286--44828480 Score: 259
Period size: 39 Copynumber: 4.9 Consensus size: 40
44828276 CGAATACACG
* * * * *
44828286 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
44828326 ACACCAGCACGAATGCTCTTCGGG-TTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
44828365 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44828405 TCACTAGCATGAATGCTC-TCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44828444 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
44828481 TTAGTAACTC
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
39 70 0.51
40 68 0.49
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:44828434 original size:79 final size:79
Alignment explanation
Indices: 44828299--44828480 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 79
44828289 CCAGCATGAT
* * * * *
44828299 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGTTTAGCACGGATAT
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGCTTAGCACGGATAC
44828364 ATCACTAGCACGAA
66 ATCACTAGCACGAA
* * * * *
44828378 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTC-TCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGG-CTTAGCACGGATA
*
44828442 CATCACTAGCATGAA
65 CATCACTAGCACGAA
44828457 TGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
44828481 TTAGTAACTC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
78 5 0.06
79 85 0.94
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGCTTAGCACGGATAC
ATCACTAGCACGAA
Found at i:44828505 original size:40 final size:40
Alignment explanation
Indices: 44828299--44828559 Score: 282
Period size: 40 Copynumber: 6.6 Consensus size: 40
44828289 CCAGCATGAT
* * * *
44828299 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44828339 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
44828378 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44828418 TGCTC-TCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
44828457 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
44828498 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
44828538 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
44828560 CATCATTCGA
Statistics
Matches: 189, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
39 73 0.39
40 96 0.51
41 20 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:44828903 original size:29 final size:29
Alignment explanation
Indices: 44828864--44828942 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44828854 CTTAATAATC
*
44828864 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44828894 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44828923 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44828943 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44830918 original size:36 final size:37
Alignment explanation
Indices: 44830846--44830923 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
44830836 TTATTACGAA
* *
44830846 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
44830883 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
44830919 GTCTT
1 GTCTT
44830924 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:44831126 original size:23 final size:23
Alignment explanation
Indices: 44831096--44831141 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44831086 CCTGTCACAT
44831096 ATATACACTTTCACATTCATCAC
1 ATATACACTTTCACATTCATCAC
44831119 ATATACACTTTCACATTCATCAC
1 ATATACACTTTCACATTCATCAC
44831142 GTCAGCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATACACTTTCACATTCATCAC
Found at i:44831181 original size:47 final size:47
Alignment explanation
Indices: 44831119--44831510 Score: 579
Period size: 47 Copynumber: 8.2 Consensus size: 47
44831109 CATTCATCAC
* * * *
44831119 ATATACACTTTCACATTCATCACGTCAGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* * *
44831166 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* * *
44831213 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* *
44831260 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACAGAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-T-CACAT
44831309 ATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 AT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--AT
44831360 ATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 AT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
44831409 ACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
44831455 ACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
44831502 ATATACACT
1 ATATACACT
44831511 CTCTTGGCTG
Statistics
Matches: 330, Mismatches: 8, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
46 46 0.14
47 185 0.56
48 1 0.00
49 10 0.03
50 1 0.00
51 87 0.26
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:44834231 original size:24 final size:24
Alignment explanation
Indices: 44834204--44834249 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44834194 TGATTCTTGA
44834204 GTTTTGACAGCAGCAAATCGTAGG
1 GTTTTGACAGCAGCAAATCGTAGG
44834228 GTTTTGACAGCAGCAAATCGTA
1 GTTTTGACAGCAGCAAATCGTA
44834250 CTGTTTCGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (24 bp):
GTTTTGACAGCAGCAAATCGTAGG
Found at i:44834255 original size:24 final size:24
Alignment explanation
Indices: 44834204--44834255 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
44834194 TGATTCTTGA
*
44834204 GTTTTGACAGCAGCAAATCGTAGG
1 GTTTTGACAGCAGCAAATCGTACG
*
44834228 GTTTTGACAGCAGCAAATCGTACT
1 GTTTTGACAGCAGCAAATCGTACG
44834252 GTTT
1 GTTT
44834256 CGTCGCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (24 bp):
GTTTTGACAGCAGCAAATCGTACG
Found at i:44839831 original size:26 final size:28
Alignment explanation
Indices: 44839763--44839831 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 28
44839753 TTACCTCCCT
44839763 TTTAAATAAATCATTTAATAGTATAATATTA
1 TTTAAAT-AAT-ATTTAATAG-ATAATATTA
*
44839794 -CTAAA-AAT-TTTAATA-A-AATATTA
1 TTTAAATAATATTTAATAGATAATATTA
44839817 TTTAAATAATATTTA
1 TTTAAATAATATTTA
44839832 TCTAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
23 7 0.21
24 5 0.15
25 3 0.09
26 11 0.33
28 3 0.09
30 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (28 bp):
TTTAAATAATATTTAATAGATAATATTA
Found at i:44845296 original size:93 final size:93
Alignment explanation
Indices: 44845184--44845356 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
44845174 CCGCCATAAG
*
44845184 CGAACTCGGACTCAACTCAACGAGCTCGGGCG-TTCACATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTT-ACATCCATAAGTGAACTCGGACTCAACTC
44845248 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* *
44845277 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTTACATCCATAAGTGAACTCGGACTCAACTCA
* *
44845342 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
44845357 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTTACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:44845352 original size:46 final size:46
Alignment explanation
Indices: 44845177--44845352 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
44845167 ATGTAACCCG
*
44845177 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCG-TTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTT-ACAT
* *
44845223 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-C---TTACAT
* * *
44845273 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTTACAT
* * *
44845316 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
44845353 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 65 0.59
47 29 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTTACAT
Found at i:44845371 original size:46 final size:46
Alignment explanation
Indices: 44845185--44845371 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 46
44845175 CGCCATAAGC
* ** *
44845185 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAT-ACATCC--CAGT
* * * *
44845231 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCCCAGT
* * * *
44845278 GAACTCGGACTCAACTCAACGAGTTCGGA--CGCTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC--CAGT
* * *
44845324 GAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAATATCCCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCCAGT
44845370 GA
1 GA
44845372 CATGTCACTT
Statistics
Matches: 111, Mismatches: 20, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
43 5 0.05
45 2 0.02
46 61 0.55
47 28 0.25
48 8 0.07
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCCAGT
Found at i:44847772 original size:29 final size:29
Alignment explanation
Indices: 44847733--44847820 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
44847723 CAAAGATAAC
*
44847733 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
44847762 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
44847791 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
44847821 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:44847791 original size:15 final size:15
Alignment explanation
Indices: 44847733--44847811 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
44847723 CAAAGATAAC
*
44847733 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44847747 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
44847762 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
44847776 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
44847791 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
44847806 AAGAAA
1 AAGAAA
44847812 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44847820 original size:15 final size:15
Alignment explanation
Indices: 44847744--44847820 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
44847734 AGAAAACCGA
44847744 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
44847759 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
44847773 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
44847787 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44847803 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44847818 ATA
1 ATA
44847821 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44850836 original size:93 final size:93
Alignment explanation
Indices: 44850724--44850896 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
44850714 CCGCCATAAG
* *
44850724 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44850789 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
44850817 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
44850882 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
44850897 CAAATATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:44850892 original size:46 final size:46
Alignment explanation
Indices: 44850717--44850892 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
44850707 ATGTAACCCG
* *
44850717 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
44850763 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
44850813 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
44850856 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
44850893 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:44855428 original size:50 final size:49
Alignment explanation
Indices: 44855310--44855535 Score: 213
Period size: 50 Copynumber: 4.5 Consensus size: 49
44855300 CTTATACGCA
* *
44855310 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGATACACG
* ** *
44855359 TAGTAACCTGCACTTAGTACTACACATGTGACCTCGCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCTGATACACG
* * * * * *
44855409 TAGTAGCCTACACTAAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA--CAATCTGA-TACACG
* * * * * *
44855460 TAGTAGCCTGTACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-CAACAATCTGATACACG
*
44855510 TTGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
44855536 CGTGTATTCA
Statistics
Matches: 142, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
49 32 0.23
50 72 0.51
51 37 0.26
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGATACACG
Found at i:44862483 original size:51 final size:50
Alignment explanation
Indices: 44862306--44862534 Score: 223
Period size: 50 Copynumber: 4.6 Consensus size: 50
44862296 ATCTAATACG
* * * *
44862306 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGAGTCAACAGTATGGTACA
* * * * * **
44862355 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-GTCAACAGTATGGTACA
** * *
44862405 TGTAGTAGCCTGCACTTAGTACTACACACGTGA-TCAA-AGTTATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGCGAGTCAACAG-TA-TG-GTACA
* * *
44862456 CATAGTAGCCAGCACTTAGTACTACACAAGCGAGTTAACAGTATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGAGTCAACAGTATGGTACA
*
44862506 CGTAGTAGCCTGCACTTAGTACTACACAC
1 CATAGTAGCCTGCACTTAGTACTACACAC
44862535 ATGTATTCAC
Statistics
Matches: 149, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 31 0.21
50 70 0.47
51 37 0.25
52 5 0.03
53 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGAGTCAACAGTATGGTACA
Found at i:44869354 original size:50 final size:50
Alignment explanation
Indices: 44869224--44869461 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
44869214 AACCGTAGCT
* * * *
44869224 ATCTGATACGCACAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * * *
44869273 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * *
44869323 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CC
* * *
44869374 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* *
44869423 AGTATGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACA
44869462 TGTGTATTCA
Statistics
Matches: 160, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 40 0.25
50 79 0.49
51 41 0.26
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:44871631 original size:6 final size:6
Alignment explanation
Indices: 44871622--44871672 Score: 57
Period size: 6 Copynumber: 7.8 Consensus size: 6
44871612 AAAAAAGTCT
*
44871622 ATAAAA ATAAAA ATAAACAAA ATAAAA ATAAAA ACTAATA ATAAAA ATAAA
1 ATAAAA ATAAAA AT--A-AAA ATAAAA ATAAAA A-TAAAA ATAAAA ATAAA
44871673 TAGACTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 27 0.69
7 6 0.15
8 1 0.03
9 5 0.13
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:44881188 original size:85 final size:85
Alignment explanation
Indices: 44881028--44881190 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
44881018 GTCTGAGACG
* * * * * *
44881028 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTTAGATTTACATATAAGACCATGTCTAGGA
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCAATTTAGAATTACATATAAGACCACGTCTAGGA
44881093 CATCGACATTGTATCTAATT
66 CATCGACATTGTATCTAATT
* *
44881113 TCGTGTAAGACCCTG-CTTGGGACAGAGGCATCAATATT-GAATTACCTATAAGACCACGTCTGG
1 TCGTGTAAGACCCTGTC-TGGGACAGAGGCATCAAT-TTAGAATTACATATAAGACCACGTCTAG
* *
44881176 GACGTCGGCATTGTA
64 GACATCGACATTGTA
44881191 CTTGTTTATG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
84 1 0.02
85 63 0.95
86 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACAGAGGCATCAATTTAGAATTACATATAAGACCACGTCTAGGA
CATCGACATTGTATCTAATT
Found at i:44882880 original size:18 final size:18
Alignment explanation
Indices: 44882847--44882882 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44882837 CATAGAGCAG
*
44882847 AAATAATAACAGGAATAA
1 AAATAATAACAAGAATAA
*
44882865 AAATAATAATAAGAATAA
1 AAATAATAACAAGAATAA
44882883 TGATAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATAATAACAAGAATAA
Found at i:44889373 original size:50 final size:50
Alignment explanation
Indices: 44889302--44889548 Score: 298
Period size: 50 Copynumber: 4.9 Consensus size: 50
44889292 TAAGACAGTT
* * *
44889302 TTAGGTCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATTG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * *
44889352 TTAGGTCGCATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * *
44889402 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
44889452 ATT-GGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTC
1 -TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
44889502 ATAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGA
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
44889549 GAGCTTCGGT
Statistics
Matches: 167, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 1 0.01
50 164 0.98
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:44889428 original size:100 final size:100
Alignment explanation
Indices: 44889256--44889548 Score: 336
Period size: 100 Copynumber: 2.9 Consensus size: 100
44889246 ATTGTGAGAA
* * ** * * * *
44889256 CACATGTGTAGTACTATGCCCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAG--TTAGGTCACGTGTGTAGTA
*
44889321 CTAAGTGCAGGATACTACGTGTACCAGATTG-TTAGGT
64 CTAAGTGCAGGCTACTACGTGTACCAGATTGATT-GGT
*
44889358 CGCATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
1 CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
* *
44889423 AAGTGCAGGCTACTACGTGTATCGGATTGATTGGT
66 AAGTGCAGGCTACTACGTGTACCAGATTGATTGGT
* ** * *** * *
44889458 CACATATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTCATAGGTCGCATGTGTAGTACT
1 CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
* * *
44889523 AAGTGCAAGCTACTATGCGTACCAGA
66 AAGTGCAGGCTACTACGTGTACCAGA
44889549 GAGCTTCGGT
Statistics
Matches: 163, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
100 126 0.77
101 2 0.01
102 35 0.21
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (100 bp):
CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCAGATTGATTGGT
Found at i:44889773 original size:17 final size:18
Alignment explanation
Indices: 44889751--44889785 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44889741 ATGGAGTAAG
44889751 TGAAATTATGTAA-AAAA
1 TGAAATTATGTAATAAAA
*
44889768 TGAAATTTTGTAATAAAA
1 TGAAATTATGTAATAAAA
44889786 CAATTTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (18 bp):
TGAAATTATGTAATAAAA
Found at i:44890430 original size:180 final size:178
Alignment explanation
Indices: 44890108--44890435 Score: 489
Period size: 180 Copynumber: 1.8 Consensus size: 178
44890098 TCCGATATCT
44890108 GTACCATAAGATAAATAAATTTTAGTGAAGAAAGATTAGAACTGTTAGACAGTGAAACAAGGGTA
1 GTACCATAAGATAAATAAATTTTAGTGAAGAAAGATTAGAACTGTTAGACAGTGAAACAAGGGTA
* *
44890173 TTTTAATGAATAAATTGACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAATAATATA
66 CTTTAATGAATAAATTGACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATATA
44890238 TACGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCCC
131 TACGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCCC
* * ** * * *
44890286 GTACCATGAGATAAATAATTTTTAGTGAAGAGCGGTCT-GAACTGTTAGATAGTGAAACAGGGGT
1 GTACCATAAGATAAATAAATTTTAGTGAAGAAAGAT-TAGAACTGTTAGACAGTGAAACAAGGGT
*
44890350 AACTTTAATGAATAAACTAT-ACTAATTGGCTAAACCAGAAATTCTGAAAATTTTATGGTAAGAA
65 -ACTTTAATGAATAAA-T-TGACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAA
** *
44890414 TATATGTGAGTCTAGTTTCTGG
127 TATATACGAATCTAGTTTCTGG
44890436 GATTAACGGA
Statistics
Matches: 133, Mismatches: 13, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
178 55 0.41
179 15 0.11
180 62 0.47
181 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (178 bp):
GTACCATAAGATAAATAAATTTTAGTGAAGAAAGATTAGAACTGTTAGACAGTGAAACAAGGGTA
CTTTAATGAATAAATTGACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATATA
TACGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCCC
Found at i:44900846 original size:23 final size:24
Alignment explanation
Indices: 44900819--44900871 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
44900809 CCAGCTAAGC
*
44900819 TTCCCGATA-GACTCT-TTATGAGT
1 TTCCCGAAATGACTCTGTT-TGAGT
*
44900842 TTCCCGAAATGGCTCTGTTTGAGT
1 TTCCCGAAATGACTCTGTTTGAGT
44900866 TTCCCG
1 TTCCCG
44900872 TTACAAGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 16 0.62
25 2 0.08
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
TTCCCGAAATGACTCTGTTTGAGT
Found at i:44905409 original size:40 final size:40
Alignment explanation
Indices: 44905325--44905549 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
44905315 TTGAATGATG
* * * *
44905325 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
44905365 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44905405 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44905444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44905484 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44905525 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44905550 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44905571 original size:119 final size:119
Alignment explanation
Indices: 44905325--44905582 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
44905315 TTGAATGATG
* *
44905325 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
44905390 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
44905444 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
44905507 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
44905564 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44905583 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:44909392 original size:25 final size:25
Alignment explanation
Indices: 44909371--44909419 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
44909361 TACGGCTCTT
*
44909371 ATGAGCTTCCTGTTACATGGCTCAC
1 ATGAGCTTCCCGTTACATGGCTCAC
*
44909396 ATGAGCTTCCCGTTATATGGCTCA
1 ATGAGCTTCCCGTTACATGGCTCA
44909420 GAAGAGCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGGCTCAC
Found at i:44909426 original size:25 final size:25
Alignment explanation
Indices: 44909373--44909440 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
44909363 CGGCTCTTAT
* *
44909373 GAGCTTCCTGTTACATGGCTCACAT
1 GAGCTTCCCGTTACATGGCTCACAA
* *
44909398 GAGCTTCCCGTTATATGGCTCAGAA
1 GAGCTTCCCGTTACATGGCTCACAA
44909423 GAGC-TCCCGGTTTACATG
1 GAGCTTCCC-G-TTACATG
44909441 CTCGTATGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.11
25 26 0.72
26 6 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCACAA
Found at i:44920518 original size:24 final size:23
Alignment explanation
Indices: 44920485--44920570 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 23
44920475 TCCAGGCTAT
44920485 ATAACAGGAAGCTCATAAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
**
44920508 ATAATCAGGAAGCTCATGCGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
* **
44920532 AATAACAGGTAGCTCCGAAGAGCC
1 -ATAACAGGAAGCTCATAAGAGCC
44920556 ATTAAC-GAGAAGCTC
1 A-TAACAG-GAAGCTC
44920571 CGGATAACCA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
23 6 0.12
24 41 0.80
25 4 0.08
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:44920670 original size:26 final size:26
Alignment explanation
Indices: 44920610--44920681 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
44920600 GAGCCATATT
44920610 AGGAAGCTC-CAAAGAGCCATTAATC
1 AGGAAGCTCACAAAGAGCCATTAATC
** * * *
44920635 AAAAAACTCACAAAGATCCTTTAATC
1 AGGAAGCTCACAAAGAGCCATTAATC
* *
44920661 AGGAAGCTCACGAAGAACCAT
1 AGGAAGCTCACAAAGAGCCAT
44920682 ATATTGGGAC
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
25 6 0.17
26 29 0.83
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (26 bp):
AGGAAGCTCACAAAGAGCCATTAATC
Found at i:44928569 original size:25 final size:25
Alignment explanation
Indices: 44928541--44928680 Score: 74
Period size: 25 Copynumber: 5.6 Consensus size: 25
44928531 CTTATGACCA
44928541 TCCCGATATATGGCTCTCTTGAGCT
1 TCCCGATATATGGCTCTCTTGAGCT
* *
44928566 TCCC-ATTATTTGGCTCT-TGCGAGCT
1 TCCCGA-TATATGGCTCTCT-TGAGCT
** * *
44928591 TCCAAATA-ATTAGCTCTCATGAGCT
1 TCCCGATATA-TGGCTCTCTTGAGCT
* *
44928616 TCCCGAT-TACGGCTCT-TATAAGCT
1 TCCCGATATATGGCTCTCT-TGAGCT
* * * * * *
44928640 TCCTGTTACATGGCTCACATGAGCG
1 TCCCGATATATGGCTCTCTTGAGCT
*
44928665 TCCCGTTATATGGCTC
1 TCCCGATATATGGCTC
44928681 GAAAGAGCTT
Statistics
Matches: 83, Mismatches: 23, Indels: 18
0.67 0.19 0.15
Matches are distributed among these distances:
24 17 0.20
25 65 0.78
26 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (25 bp):
TCCCGATATATGGCTCTCTTGAGCT
Found at i:44933764 original size:18 final size:17
Alignment explanation
Indices: 44933724--44933760 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
44933714 AATGAGATTA
*
44933724 TTTAAAAATTAAATATT
1 TTTAAAAAATAAATATT
*
44933741 TTTAAAAAATAGATATT
1 TTTAAAAAATAAATATT
44933758 TTT
1 TTT
44933761 TAAAGAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAAATAAATATT
Found at i:44938229 original size:45 final size:45
Alignment explanation
Indices: 44938177--44938264 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
44938167 TATGTAATAT
*
44938177 GAACTCATTGAGCTGTGGTCTGAGTTCATGATATATGTGACATTC
1 GAACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACATTC
* *
44938222 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATATATGACAT
1 GAACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACAT
44938265 ATGTTTTGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACATTC
Found at i:44940621 original size:27 final size:27
Alignment explanation
Indices: 44940590--44940689 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
44940580 TATAGAGTAA
* *
44940590 GCCATCAAGGCATTCCCTTCAGAGT-TT
1 GCCATGAAGGCATTCCTTTCAGA-TATT
*
44940617 GCCATGAAGGCATTCCTTTCATATATT
1 GCCATGAAGGCATTCCTTTCAGATATT
* *
44940644 TCCATGAAGGCATTCCTTTCATATATT
1 GCCATGAAGGCATTCCTTTCAGATATT
* **
44940671 ACCACAAAGGCATTCCTTT
1 GCCATGAAGGCATTCCTTT
44940690 TATAGCATGT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (27 bp):
GCCATGAAGGCATTCCTTTCAGATATT
Found at i:44944990 original size:31 final size:30
Alignment explanation
Indices: 44944955--44945052 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 30
44944945 GATTGGCTCA
44944955 TTGGTATGCTTTGGTTTGGTAGAATATGATG
1 TTGGTATG-TTTGGTTTGGTAGAATATGATG
* *
44944986 TTGGTATTTGTGTTGGTACTT-GT-GGATGTGA-G
1 TTGGTA--TGT-TTGGT--TTGGTAGAATATGATG
44945018 TTTGGTATGATTTGGTTTGGTAGAATATGATG
1 -TTGGTATG-TTTGGTTTGGTAGAATATGATG
44945050 TTG
1 TTG
44945053 TAAGTATGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 22 0.42
32 4 0.08
33 19 0.36
34 2 0.04
35 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.47
Consensus pattern (30 bp):
TTGGTATGTTTGGTTTGGTAGAATATGATG
Found at i:44946151 original size:58 final size:58
Alignment explanation
Indices: 44946081--44946196 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
44946071 TAGATAAACG
44946081 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
1 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
44946139 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
1 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
44946197 GTATGAGGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (58 bp):
TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
Found at i:44947712 original size:2 final size:2
Alignment explanation
Indices: 44947705--44947733 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44947695 TAATCACTTT
44947705 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44947734 TAAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44948415 original size:20 final size:21
Alignment explanation
Indices: 44948382--44948420 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
44948372 GTCTTGCCCA
*
44948382 TTTTAAATATCTTTAATTATT
1 TTTTAAATAACTTTAATTATT
*
44948403 TTTTAAA-AACTTTCATTA
1 TTTTAAATAACTTTAATTA
44948421 AATTAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAATAACTTTAATTATT
Found at i:44950558 original size:35 final size:35
Alignment explanation
Indices: 44950512--44950583 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
44950502 TTTAGAGGTT
*
44950512 TAATTTCTCTTCTAGTTCTGTTTTTGGCGATAAAG
1 TAATTTCTCTTCTAGTTCTATTTTTGGCGATAAAG
* *
44950547 TAATTTCTCTTCTAGTTTTATTTTTGGCGATAGAG
1 TAATTTCTCTTCTAGTTCTATTTTTGGCGATAAAG
44950582 TA
1 TA
44950584 TTGTGGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (35 bp):
TAATTTCTCTTCTAGTTCTATTTTTGGCGATAAAG
Found at i:44964329 original size:22 final size:22
Alignment explanation
Indices: 44964301--44964346 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
44964291 ATATGAATAA
* *
44964301 TTAATTCTTCGTATACATCTAT
1 TTAATTCTTCATATACATCCAT
*
44964323 TTAATTCTTCATGTACATCCAT
1 TTAATTCTTCATATACATCCAT
44964345 TT
1 TT
44964347 TAATGGGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.50
Consensus pattern (22 bp):
TTAATTCTTCATATACATCCAT
Found at i:44968167 original size:46 final size:47
Alignment explanation
Indices: 44968107--44968470 Score: 460
Period size: 46 Copynumber: 8.0 Consensus size: 47
44968097 TTTGACATGA
* * * * * * * *
44968107 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
** * *
44968153 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
*** *** * * *
44968199 TGCCATGGTATCTTTCAACCATGGTCTTATTTA-TTTCCCGTTATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
44968245 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
44968291 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
44968336 TGCC-TGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
*
44968381 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
44968427 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAG
44968471 AGAGCACACT
Statistics
Matches: 291, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
44 40 0.14
45 12 0.04
46 239 0.82
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGC
Found at i:44968264 original size:92 final size:92
Alignment explanation
Indices: 44968107--44968470 Score: 509
Period size: 92 Copynumber: 4.0 Consensus size: 92
44968097 TTTGACATGA
* * * * *
44968107 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
** * *
44968171 CCATGGTCTTATTCATTTCATGTCACGC
65 CCATGGTCTTACACATTTCATATCAGGC
*** *** *
44968199 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTTATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
44968264 CATGGTCTTACACGTTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
* *
44968291 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCA-GGTGCC-TGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
44968354 CATGGTCTTACACGTTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
*
44968381 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
44968446 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
44968471 AGAGCACACT
Statistics
Matches: 245, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
90 83 0.34
91 14 0.06
92 148 0.60
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGC
Found at i:44968357 original size:182 final size:184
Alignment explanation
Indices: 44968107--44968470 Score: 509
Period size: 182 Copynumber: 2.0 Consensus size: 184
44968097 TTTGACATGA
* * * * * *
44968107 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTCTATCATGGTGCCATGGTATCTTTCAAC
** * *** *
44968172 CATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCC
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
* * * *
44968237 CGTTATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
131 CATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
44968291 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCA-GGTGCC-TGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTC-TATCATGGTGCCATGGTATCTTTCAA
* *
44968353 CCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
44968418 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
130 ACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
44968471 AGAGCACACT
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
182 117 0.74
183 9 0.06
184 32 0.20
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (184 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACAGTTTCTATCATGGTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
CATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:44968372 original size:21 final size:21
Alignment explanation
Indices: 44968303--44968372 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
44968293 CCATGGTATC
44968303 TTTCAACCATGGTCTTACACG
1 TTTCAACCATGGTCTTACACG
* *
44968324 TTTCATATCA-GGTGCCTGGTA-TC-
1 TTTCA-ACCATGGT--CT--TACACG
44968347 TTTCAACCATGGTCTTACACG
1 TTTCAACCATGGTCTTACACG
44968368 TTTCA
1 TTTCA
44968373 TATCAGGCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 15 0.41
22 6 0.16
23 10 0.27
24 1 0.03
25 2 0.05
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACG
Found at i:44968500 original size:136 final size:133
Alignment explanation
Indices: 44968245--44968501 Score: 347
Period size: 136 Copynumber: 1.9 Consensus size: 133
44968235 CCCGTTATGT
*
44968245 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
* * *** **
44968310 CATGGTCTTACACGTTTCATATCAGGTGCCTGGTATCTTTCAACCATGGTCTTACACGTTTCATA
66 CATGGTCTTACACATTTCATATCAGGAGCC--G-ATCCCGCAACCATCATCTTACACGTTTCATA
44968375 TCAGGC
128 TCAGGC
*
44968381 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
44968446 CATGGTCTTACACATTTCATATCAGAGAGCAC-ACTCCCGCGAACC-TCATCCTTACA
66 CATGGTCTTACACATTTCATATCAG-GAGC-CGA-TCCCGC-AACCATCAT-CTTACA
44968502 GTGGGATTAC
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
134 1 0.01
135 5 0.05
136 97 0.91
137 3 0.03
138 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (133 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGAGCCGATCCCGCAACCATCATCTTACACGTTTCATATCA
GGC
Found at i:44970641 original size:23 final size:22
Alignment explanation
Indices: 44970613--44970676 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 22
44970603 TAATTAATAA
44970613 TAAAATAATAATAAATATATCAT
1 TAAAATAAT-ATAAATATATCAT
* *
44970636 TAAAATAATAT--ATATCTAAT
1 TAAAATAATATAAATATATCAT
44970656 T-AAATAATCATAAA-ATATCAT
1 TAAAATAAT-ATAAATATATCAT
44970677 CAACATCATC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.21
20 10 0.29
21 5 0.15
22 3 0.09
23 9 0.26
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAATAATATAAATATATCAT
Found at i:44981217 original size:25 final size:25
Alignment explanation
Indices: 44981189--44981267 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
44981179 CTAATGGCCA
44981189 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
44981214 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
44981236 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
44981261 ATGTGAT
1 ATGTGAT
44981268 AAGACCTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:44981217 original size:47 final size:47
Alignment explanation
Indices: 44981164--44981458 Score: 482
Period size: 47 Copynumber: 6.3 Consensus size: 47
44981154 ACAAGATATG
*
44981164 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
44981211 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
44981258 TATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
44981305 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
44981352 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44981399 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44981446 TAAATGTGATAAG
1 TATATGTGATAAG
44981459 TCCCGAAGGG
Statistics
Matches: 229, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:44989399 original size:20 final size:20
Alignment explanation
Indices: 44989361--44989399 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44989351 TATTTTTTTT
*
44989361 AACTTTTTGAGTTTATAACA
1 AACTTTTTGACTTTATAACA
44989381 AACTTTCTTGACTTT-TAAC
1 AACTTT-TTGACTTTATAAC
44989400 TTTTTTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (20 bp):
AACTTTTTGACTTTATAACA
Found at i:44994617 original size:27 final size:28
Alignment explanation
Indices: 44994587--44994640 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
44994577 TAATTTTCTC
44994587 ATAAAAATAT-TAAA-AAATCAGAAAAAA
1 ATAAAAATATATAAACAAATCA-AAAAAA
44994614 ATAAAAATATATAAACAAATCAAAAAA
1 ATAAAAATATATAAACAAATCAAAAAA
44994641 TTTATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.40
28 9 0.36
29 6 0.24
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (28 bp):
ATAAAAATATATAAACAAATCAAAAAAA
Found at i:44994687 original size:19 final size:18
Alignment explanation
Indices: 44994653--44994701 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
44994643 TATTAAATAC
*
44994653 TAAAATTTATATAAACTTA
1 TAAAA-TTATAAAAACTTA
44994672 TTAAAATTATAAAAACTTA
1 -TAAAATTATAAAAACTTA
44994691 TAAATATTATA
1 TAAA-ATTATA
44994702 TATAATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATTATAAAAACTTA
Found at i:45009803 original size:25 final size:24
Alignment explanation
Indices: 45009775--45009822 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
45009765 CTCGTGTACT
45009775 CTTATAA-CATATAATCCATGTAAAC
1 CTTATAACCATATAA--CATGTAAAC
45009800 CTTATAATCCATATAACATGTAA
1 CTTATAA-CCATATAACATGTAA
45009823 TTCATGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 14 0.67
27 7 0.33
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (24 bp):
CTTATAACCATATAACATGTAAAC
Found at i:45010138 original size:23 final size:23
Alignment explanation
Indices: 45010050--45010138 Score: 103
Period size: 23 Copynumber: 3.9 Consensus size: 23
45010040 GGCTCCGTAA
*
45010050 AGCTGAAACGGTAAGCCCCTAA-
1 AGCTGAAACGGTAAGCCCATAAG
45010072 AGACTGAAACGGTAAGCTCCA-AAG
1 AG-CTGAAACGGTAAGC-CCATAAG
* * *
45010096 AGTTG-AACGATAAGCTCATAAG
1 AGCTGAAACGGTAAGCCCATAAG
45010118 AGCTGAAACGGTAAGCCCATA
1 AGCTGAAACGGTAAGCCCATA
45010139 CGAGTTGTGG
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 2 0.04
22 18 0.33
23 31 0.56
24 4 0.07
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (23 bp):
AGCTGAAACGGTAAGCCCATAAG
Found at i:45018377 original size:43 final size:42
Alignment explanation
Indices: 45018328--45018458 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 42
45018318 AATCGCTGCA
45018328 AAAGATCATGTTCTTTAATG-GTATTTGTAGTAAGAA-TGCCGCT
1 AAAGATCATGTTCTTTAATGCG-A-TTGTAGTAA-AAGTGCCGCT
* * *
45018371 AAAGATCATATTCTTTAGTGCCGATTGTGGTAAAAGTGCCGCT
1 AAAGATCATGTTCTTTAATG-CGATTGTAGTAAAAGTGCCGCT
* * * *
45018414 AAAGATCATGTTCTTTAACTGCGTTTGTTGGAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAA-TGCGATTGTAGTAAAAGTGCCGCT
45018457 AA
1 AA
45018459 CATTAACATA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 69 0.92
44 3 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (42 bp):
AAAGATCATGTTCTTTAATGCGATTGTAGTAAAAGTGCCGCT
Found at i:45020030 original size:12 final size:12
Alignment explanation
Indices: 45020013--45020042 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45020003 TCGTCTCTCG
45020013 CACACGGCCACC
1 CACACGGCCACC
*
45020025 CACACGGCCAGC
1 CACACGGCCACC
45020037 CACACG
1 CACACG
45020043 CCCGTGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.53, G:0.20, T:0.00
Consensus pattern (12 bp):
CACACGGCCACC
Found at i:45031720 original size:26 final size:23
Alignment explanation
Indices: 45031675--45031723 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
45031665 TTCCCAAAAT
*
45031675 AAGGAAAAAAAGAAGAAAATGAA
1 AAGGAAAAAAACAAGAAAATGAA
45031698 AAGGAAAAAAAACACAGAGAAATGAA
1 AAGG-AAAAAAACA-AGA-AAATGAA
45031724 TAGAGAGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 8 0.36
25 3 0.14
26 7 0.32
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (23 bp):
AAGGAAAAAAACAAGAAAATGAA
Found at i:45035223 original size:13 final size:13
Alignment explanation
Indices: 45035205--45035231 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45035195 TCACTTGAAG
45035205 CCATCGCTTCATA
1 CCATCGCTTCATA
45035218 CCATCGCTTCATA
1 CCATCGCTTCATA
45035231 C
1 C
45035232 TCCGCCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.30
Consensus pattern (13 bp):
CCATCGCTTCATA
Found at i:45043994 original size:19 final size:19
Alignment explanation
Indices: 45043958--45044000 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
45043948 CCATTTTGCA
45043958 TAAATTGTAAAATAAGTGG
1 TAAATTGTAAAATAAGTGG
*
45043977 TAAATGTGTGAAAT-AGTGG
1 TAAAT-TGTAAAATAAGTGG
45043996 -AAATT
1 TAAATT
45044001 TGGGGTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 4 0.18
19 10 0.45
20 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
TAAATTGTAAAATAAGTGG
Found at i:45044504 original size:47 final size:46
Alignment explanation
Indices: 45044429--45044700 Score: 207
Period size: 46 Copynumber: 5.8 Consensus size: 46
45044419 GGGTTATCGT
*
45044429 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGTCAC-ATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACGA-GATGA
*
45044475 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACGAGATG-A
* * * * *
45044523 -AGCTAGTGTAAGA-TATGTCTAGGACATGCATCGACTACAAGATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGA
* *
45044568 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGGTATGCGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGAG-AT--GA
* * * * * * *
45044616 GAGCTAGAGTAATACCATGTCTGAGACATGGCGTCAGCCTCGATGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATC-GGCACGA-GATGA
* *
45044665 TAG-TCAGTGTAAGACCAAGTCTGGGACATGGCATCG
1 GAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCG
45044701 ACTCTCTACC
Statistics
Matches: 180, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 9 0.05
45 17 0.09
46 47 0.26
47 39 0.22
48 6 0.03
49 30 0.17
50 26 0.14
51 5 0.03
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGA
Found at i:45044693 original size:49 final size:50
Alignment explanation
Indices: 45044568--45044699 Score: 144
Period size: 49 Copynumber: 2.7 Consensus size: 50
45044558 TACAAGATGT
* *
45044568 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGGTATGCGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGCGTATGCGAGA
* * * * * *
45044618 G-CTAGAGTAATACCATGTCTGAGACATGGCGTCAGC-CTCG-ATGACGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGCGTATG-CGAGA
*
45044667 GTCAGTGTAAGACCAAGTCTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
45044700 GACTCTCTAC
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
48 3 0.05
49 33 0.50
50 30 0.45
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGCGTATGCGAGA
Found at i:45055075 original size:46 final size:46
Alignment explanation
Indices: 45054972--45055100 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
45054962 GCCACATTAT
*
45054972 GAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGACATTGAGTC
1 GAGAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGACATCGAGTC
* * * *
45055020 GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-TAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGT-C
* *
45055066 GTA-AGCTAGTGTAAAACATGCCTGGGACATGCATC
1 G-AGAGCTAGTGTAAGACATGTCTGGGACATGCATC
45055101 AGCTACGAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 40 0.56
47 13 0.18
48 17 0.24
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGTC
Done.