Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 166 of 185
Found at i:49706364 original size:4 final size:4
Alignment explanation
Indices: 49706355--49706379 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49706345 TTGAGAGAAA
49706355 AGTG AGTG AGTG AGTG AGTG AGTG A
1 AGTG AGTG AGTG AGTG AGTG AGTG A
49706380 CCCTTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (4 bp):
AGTG
Found at i:49707879 original size:2 final size:2
Alignment explanation
Indices: 49707872--49707902 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49707862 GGGAAATGGA
49707872 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
49707903 TTGAGTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:49717871 original size:105 final size:104
Alignment explanation
Indices: 49717741--49717950 Score: 402
Period size: 105 Copynumber: 2.0 Consensus size: 104
49717731 GTCCTACTAC
49717741 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTTC
1 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTC-TC
49717806 CTTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
65 CTTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
49717846 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTCC
1 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTCC
*
49717911 TTTTCCTGCCTGTCATCCTAATTTCAGCAGATGAAATGA
66 TTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
49717950 A
1 A
49717951 AAGTAGCCAT
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
104 42 0.40
105 62 0.60
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.44
Consensus pattern (104 bp):
ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTCC
TTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
Found at i:49721798 original size:16 final size:16
Alignment explanation
Indices: 49721777--49721807 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49721767 AACTGAATAT
*
49721777 ATACATTCATATATAC
1 ATACATACATATATAC
49721793 ATACATACATATATA
1 ATACATACATATATA
49721808 TAGAGAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (16 bp):
ATACATACATATATAC
Found at i:49724524 original size:27 final size:27
Alignment explanation
Indices: 49724493--49724546 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
49724483 ATTGTGGCAG
49724493 AGAATTTCATAAATTATGGTTCAACAA
1 AGAATTTCATAAATTATGGTTCAACAA
49724520 AGAATTTCATAAATTATGGTTCAACAA
1 AGAATTTCATAAATTATGGTTCAACAA
49724547 TTATTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (27 bp):
AGAATTTCATAAATTATGGTTCAACAA
Found at i:49725400 original size:24 final size:24
Alignment explanation
Indices: 49725341--49725399 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
49725331 AACGAGAGAA
*
49725341 ATTTTTCATTTACTTTTATTCTTTT
1 ATTTTTC-TTTTCTTTTATTCTTTT
* *
49725366 ATCTTTCTTTTCTTTTCTTCTTTT
1 ATTTTTCTTTTCTTTTATTCTTTT
49725390 -TTTTTCTTTT
1 ATTTTTCTTTT
49725400 TGAGAAGGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.30
24 15 0.50
25 6 0.20
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTTTTCTTTTCTTTTATTCTTTT
Found at i:49729004 original size:33 final size:33
Alignment explanation
Indices: 49728961--49729025 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
49728951 ATTAACTTAT
*
49728961 ATTTTATGTATCATAATATTAAATTATTTAAAC
1 ATTTCATGTATCATAATATTAAATTATTTAAAC
** *
49728994 ATTTCATGTATGGTTATATTAAATTATTTAAA
1 ATTTCATGTATCATAATATTAAATTATTTAAA
49729026 TATCATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (33 bp):
ATTTCATGTATCATAATATTAAATTATTTAAAC
Found at i:49731473 original size:21 final size:22
Alignment explanation
Indices: 49731443--49731483 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
49731433 TTGTTGTTGG
49731443 ATATCATAAATG-ATCACATCA
1 ATATCATAAATGCATCACATCA
*
49731464 ATATCCTAAATGCATCACAT
1 ATATCATAAATGCATCACAT
49731484 TTACCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATCATAAATGCATCACATCA
Found at i:49735784 original size:13 final size:14
Alignment explanation
Indices: 49735742--49735786 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
49735732 TAATAATGAT
49735742 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
49735757 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
49735770 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
49735783 TAAA
1 TAAA
49735787 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:49736411 original size:46 final size:49
Alignment explanation
Indices: 49736342--49736485 Score: 152
Period size: 53 Copynumber: 2.9 Consensus size: 49
49736332 CGCATCACAC
* ** * *
49736342 ACCGAAGCCATAGCCTTGCCATGGTCTTACACGG-TTCACA-TAT-C-AT
1 ACCGAAGCCATATCCCAG-CATGGTCTTATACGGAATCACATTATACTAT
49736388 ACCGAAGCCATATCCCAGACATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGAAGCCATATCCCAG-CATGGTCTTATACGGAATCACATTAT-AC--TAT
*
49736441 ACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACATTAT
1 ACCGAAGCCATATCCCAGC-ATGGTCTTATACGGAATCACATTAT
49736486 CACATTGCAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
46 29 0.35
47 5 0.06
48 3 0.04
50 1 0.01
52 1 0.01
53 44 0.53
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (49 bp):
ACCGAAGCCATATCCCAGCATGGTCTTATACGGAATCACATTATACTAT
Found at i:49736457 original size:53 final size:53
Alignment explanation
Indices: 49736377--49736527 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
49736367 CTTACACGGT
*
49736377 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATATCCCAG-CTATGGTCTTATACGGAATCACATTA
49736432 TCACATTATACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACATTA
1 TCACATTATACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACATTA
** * * *
49736485 TCACATTGCACTGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATATCCCAGCTATGGTCTTATACGG
49736528 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:49745405 original size:18 final size:18
Alignment explanation
Indices: 49745382--49745445 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
49745372 ACATTGTGAT
49745382 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
49745400 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
49745421 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
49745439 CTGAAGC
1 CTGAAGC
49745446 ACATAAGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 15 0.42
19 7 0.19
20 6 0.17
21 8 0.22
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:49745426 original size:21 final size:21
Alignment explanation
Indices: 49745402--49745466 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
49745392 AAGTCTAACT
49745402 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
49745423 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
*
49745441 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAACG
49745462 GAAGC
1 GAAGC
49745467 TCGAAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:49745439 original size:39 final size:39
Alignment explanation
Indices: 49745384--49745479 Score: 165
Period size: 39 Copynumber: 2.5 Consensus size: 39
49745374 ATTGTGATCT
*
49745384 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
49745423 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
49745462 GAAGCTCGAAGGCTAACT
1 GAAGCCCGAAGGCTAACT
49745480 ATGAAACTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.16
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:49757413 original size:12 final size:12
Alignment explanation
Indices: 49757398--49757437 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
49757388 AATTATGATA
*
49757398 AAAATTTATAAT
1 AAAATTAATAAT
*
49757410 AAAATTAATATT
1 AAAATTAATAAT
49757422 AAAATATAATAAT
1 AAAAT-TAATAAT
49757435 AAA
1 AAA
49757438 TATAAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATAAT
Found at i:49757431 original size:13 final size:13
Alignment explanation
Indices: 49757405--49757442 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
49757395 ATAAAAATTT
49757405 ATAATAAAAT-TA
1 ATAATAAAATATA
*
49757417 ATATTAAAATATA
1 ATAATAAAATATA
49757430 ATAAT-AAATATA
1 ATAATAAAATATA
49757442 A
1 A
49757443 ATTGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATAAAATATA
Found at i:49763148 original size:32 final size:32
Alignment explanation
Indices: 49763112--49763177 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
49763102 TAGTGTCAAA
49763112 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
1 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
49763144 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
1 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
49763176 CG
1 CG
49763178 TGTATCTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (32 bp):
CGATTGCCGACTGTTTAATTGTTGTACTGAGT
Found at i:49767196 original size:17 final size:18
Alignment explanation
Indices: 49767157--49767210 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
49767147 ACCATTAAAT
* *
49767157 TAATTATATATTTATTAAA
1 TAATTATAT-TTAATTCAA
49767176 TAATT-TATTTAATTCAA
1 TAATTATATTTAATTCAA
*
49767193 TAATTAGATTTAA-TCAA
1 TAATTATATTTAATTCAA
49767210 T
1 T
49767211 TGGACTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 17 0.55
18 9 0.29
19 5 0.16
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATTATATTTAATTCAA
Found at i:49776009 original size:31 final size:31
Alignment explanation
Indices: 49775974--49776037 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
49775964 CTATTCATAA
49775974 TTTAACTCCTTTGGGCCCATTTATCATTCAC
1 TTTAACTCCTTTGGGCCCATTTATCATTCAC
49776005 TTTAACTCCTTTGGGCCCATTTATCATTCAC
1 TTTAACTCCTTTGGGCCCATTTATCATTCAC
49776036 TT
1 TT
49776038 CCATTGACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (31 bp):
TTTAACTCCTTTGGGCCCATTTATCATTCAC
Found at i:49776257 original size:53 final size:51
Alignment explanation
Indices: 49776161--49776317 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 51
49776151 CCATGGTCTT
* * * *
49776161 ACACGGATCACATATAATACCGATGCCATATCCCAGATATGGTCTTATACGGA
1 ACACGTATCACAT-T-ACACCGATGCCATAGCCCAGCTATGGTCTTATACGGA
* * *
49776214 ATCACATTATCACATTACACCGATGCCATAGCCTAGCTCTGGTCTTATACGGGA
1 A-CAC-GTATCACATTACACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGA
* *
49776268 ACACGTATCACATTGCACCGATGCCATAGCCCAGCTATGGTTTTATACGG
1 ACACGTATCACATTACACCGATGCCATAGCCCAGCTATGGTCTTATACGG
49776318 GCGCACATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
51 2 0.02
52 39 0.44
53 33 0.37
54 8 0.09
55 7 0.08
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (51 bp):
ACACGTATCACATTACACCGATGCCATAGCCCAGCTATGGTCTTATACGGA
Found at i:49776296 original size:52 final size:52
Alignment explanation
Indices: 49776179--49776332 Score: 202
Period size: 52 Copynumber: 2.9 Consensus size: 52
49776169 CACATATAAT
* *
49776179 ACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACATTAC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACATTAC
* * * *
49776232 ACCGATGCCATAGCCTAGCTCTGGTCTTATACGGGAACACGTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTAC
* **
49776284 ACCGATGCCATAGCCCAGCTATGGTTTTATACGGGCGCACATATCACAT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
49776333 CTTTTCCGTC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 53 0.60
53 31 0.35
54 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTAC
Found at i:49776424 original size:28 final size:28
Alignment explanation
Indices: 49776384--49776439 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
49776374 AAAACCATTG
49776384 TTCCAACTAATTTGTACTTTTAGCTAAA
1 TTCCAACTAATTTGTACTTTTAGCTAAA
*
49776412 TTCCAACTAATTTGTACTTTTAGTTAAA
1 TTCCAACTAATTTGTACTTTTAGCTAAA
49776440 CATTATTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (28 bp):
TTCCAACTAATTTGTACTTTTAGCTAAA
Found at i:49781092 original size:24 final size:23
Alignment explanation
Indices: 49781064--49781114 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
49781054 AGTAATCTAC
*
49781064 GAATCGAATCTCCTAAAATTTACA
1 GAATCAAATCTCCTAAAA-TTACA
* *
49781088 GAATCAAATTTTCTAAAATTACA
1 GAATCAAATCTCCTAAAATTACA
49781111 -AATC
1 GAATC
49781115 TTCTAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 5 0.21
24 15 0.62
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (23 bp):
GAATCAAATCTCCTAAAATTACA
Found at i:49781118 original size:17 final size:17
Alignment explanation
Indices: 49781092--49781131 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
49781082 TTTACAGAAT
*
49781092 CAAATTTTCTAAAATTA
1 CAAATCTTCTAAAATTA
* *
49781109 CAAATCTTCTAAGATTG
1 CAAATCTTCTAAAATTA
49781126 CAAATC
1 CAAATC
49781132 CTCTTAAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (17 bp):
CAAATCTTCTAAAATTA
Found at i:49781141 original size:18 final size:17
Alignment explanation
Indices: 49781099--49781142 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
49781089 AATCAAATTT
* * *
49781099 TCTAAAATTACAAATCT
1 TCTAAGATTGCAAATCC
49781116 TCTAAGATTGCAAATCC
1 TCTAAGATTGCAAATCC
49781133 TCTTAAGATT
1 TC-TAAGATT
49781143 ACTTCCCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (17 bp):
TCTAAGATTGCAAATCC
Found at i:49781919 original size:31 final size:31
Alignment explanation
Indices: 49781882--49781945 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
49781872 TTTATATCTA
49781882 TATTTTATTTATTATTGATTTAGAGAATAAT
1 TATTTTATTTATTATTGATTTAGAGAATAAT
*
49781913 TATTTTATTTATTATTTATTTAGAGAATAAT
1 TATTTTATTTATTATTGATTTAGAGAATAAT
49781944 TA
1 TA
49781946 AAGAAAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (31 bp):
TATTTTATTTATTATTGATTTAGAGAATAAT
Found at i:49792891 original size:51 final size:51
Alignment explanation
Indices: 49792815--49792978 Score: 274
Period size: 51 Copynumber: 3.2 Consensus size: 51
49792805 ACTTCTGATC
* *
49792815 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
49792866 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
49792917 AGTGATAAGTGATAAGTGGTAGTTTTAGCTATACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
49792968 AGTGATAAATG
1 AGTGATAAATG
49792979 TGATCAGTGT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:49794891 original size:5 final size:5
Alignment explanation
Indices: 49794876--49794914 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
49794866 GTACTTGTAT
*
49794876 TTATGA TTATA TTATAA TTATA TTATA TTATT TTATA TT
1 TTAT-A TTATA TTAT-A TTATA TTATA TTATA TTATA TT
49794915 TATAAATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:49794895 original size:11 final size:11
Alignment explanation
Indices: 49794876--49794918 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
49794866 GTACTTGTAT
*
49794876 TTATGATTATA
1 TTATAATTATA
49794887 TTATAATTATA
1 TTATAATTATA
*
49794898 TTAT-ATTATT
1 TTATAATTATA
*
49794908 TTATATTTATA
1 TTATAATTATA
49794919 AATTCTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATAATTATA
Found at i:49794905 original size:21 final size:22
Alignment explanation
Indices: 49794876--49794918 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
49794866 GTACTTGTAT
49794876 TTATGATTATATTATAATTATA
1 TTATGATTATATTATAATTATA
* *
49794898 TTAT-ATTATTTTATATTTATA
1 TTATGATTATATTATAATTATA
49794919 AATTCTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATGATTATATTATAATTATA
Found at i:49800379 original size:14 final size:15
Alignment explanation
Indices: 49800353--49800392 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
49800343 TTAAGAATTT
*
49800353 TATTAAATT-ATATA
1 TATTTAATTAATATA
49800367 T-TTTAATTAATATA
1 TATTTAATTAATATA
49800381 TATTTAA-TAATA
1 TATTTAATTAATA
49800393 ATTATGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTAATTAATATA
Found at i:49800382 original size:18 final size:17
Alignment explanation
Indices: 49800318--49800385 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 17
49800308 GAAATTGAGA
49800318 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
49800335 A-TTTATT--ATTA-AGA
1 ATTTTATTAAATTATA-T
49800349 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49800366 ATTTTAATT-AA-TATAT
1 ATTTT-ATTAAATTATAT
49800382 ATTT
1 ATTT
49800386 AATAATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
13 1 0.02
14 5 0.12
15 6 0.14
16 15 0.35
17 12 0.28
18 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:49800859 original size:17 final size:18
Alignment explanation
Indices: 49800832--49800865 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
49800822 AAATTATATA
49800832 TATTTTATAATTTTTAAT
1 TATTTTATAATTTTTAAT
49800850 TATTTT-TAATTTTTAA
1 TATTTTATAATTTTTAA
49800866 AAATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTATAATTTTTAAT
Found at i:49804779 original size:21 final size:21
Alignment explanation
Indices: 49804753--49804793 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49804743 ATCTGCTCAA
* *
49804753 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
49804774 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
49804794 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:49819318 original size:33 final size:32
Alignment explanation
Indices: 49819258--49819344 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 32
49819248 CAATATATAA
49819258 AAATATTTATTTAAATTTAATTATAAAAATAT
1 AAATATTTATTTAAATTTAATTATAAAAATAT
* * *
49819290 AAATATTTATTTAAAATTTACTTTTAAAAATGT
1 AAATATTTATTT-AAATTTAATTATAAAAATAT
49819323 AAATCCA-TTATATTAAATTTAA
1 AAAT--ATTTAT-TTAAATTTAA
49819345 AGTTAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 12 0.26
33 21 0.45
34 11 0.23
35 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (32 bp):
AAATATTTATTTAAATTTAATTATAAAAATAT
Found at i:49824859 original size:27 final size:26
Alignment explanation
Indices: 49824828--49824889 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
49824818 ACACTTAAAT
49824828 TTCTCAAAAGCACCTCTGAAAAGCAC
1 TTCTCAAAAGCACCTCTGAAAAGCAC
* * *
49824854 TCTCTCAAAAGTACTTTTGAAAAGCAC
1 T-TCTCAAAAGCACCTCTGAAAAGCAC
49824881 TTCTCAAAA
1 TTCTCAAAA
49824890 AGCAACGAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (26 bp):
TTCTCAAAAGCACCTCTGAAAAGCAC
Found at i:49824893 original size:14 final size:13
Alignment explanation
Indices: 49824828--49824889 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
49824818 ACACTTAAAT
49824828 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
49824841 CTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
49824854 TCTCTCAAAAGTAC
1 T-TCTCAAAAGCAC
* *
49824868 TTTTGAAAAGCAC
1 TTCTCAAAAGCAC
49824881 TTCTCAAAA
1 TTCTCAAAA
49824890 AGCAACGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 27 0.71
14 11 0.29
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:49829441 original size:55 final size:55
Alignment explanation
Indices: 49829381--49829488 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
49829371 TACTCCTCCG
49829381 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAATT
1 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAATT
49829436 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAA
1 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAA
49829489 AATTGTTATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (55 bp):
GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAATT
Found at i:49834480 original size:21 final size:21
Alignment explanation
Indices: 49834455--49834495 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49834445 ATAGATGGAG
*
49834455 AAAAAGAAAAGAAAATACTAA
1 AAAAAAAAAAGAAAATACTAA
* *
49834476 AAAAAAAAAAGGAGATACTA
1 AAAAAAAAAAGAAAATACTA
49834496 GAGGGAAGGG
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:0.73, C:0.05, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAAAAAAGAAAATACTAA
Found at i:49845435 original size:13 final size:13
Alignment explanation
Indices: 49845417--49845445 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49845407 GATACCGCTT
49845417 TAAATACCATACA
1 TAAATACCATACA
49845430 TAAATACCATACA
1 TAAATACCATACA
49845443 TAA
1 TAA
49845446 GTTTGATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATACCATACA
Found at i:49846128 original size:3 final size:3
Alignment explanation
Indices: 49846122--49846149 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
49846112 CTTTCTAATT
49846122 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
49846150 ACTTTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:49847725 original size:12 final size:12
Alignment explanation
Indices: 49847708--49847733 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49847698 CCTGATTTTT
49847708 CTTCAGCTTCTC
1 CTTCAGCTTCTC
49847720 CTTCAGCTTCTC
1 CTTCAGCTTCTC
49847732 CT
1 CT
49847734 GGTTCAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.08, T:0.42
Consensus pattern (12 bp):
CTTCAGCTTCTC
Found at i:49852933 original size:15 final size:17
Alignment explanation
Indices: 49852898--49852934 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
49852888 AATTGAATTG
*
49852898 AAAATTTTCTATTTTTC
1 AAAATTTTCTATTTGTC
49852915 AAAATTTT-T-TTTGTC
1 AAAATTTTCTATTTGTC
49852930 AAAAT
1 AAAAT
49852935 CAATTCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 1 0.05
17 8 0.42
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (17 bp):
AAAATTTTCTATTTGTC
Found at i:49856504 original size:19 final size:19
Alignment explanation
Indices: 49856452--49856512 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
49856442 TATTTTTCCC
* *
49856452 TAAAAAAGATTA-AAAAAT
1 TAAAAAAAATTACAAATAT
*
49856470 TATAAAAAAAAT-CAAATAT
1 TA-AAAAAAATTACAAATAT
* *
49856489 TAAAAAATATTACAAATAC
1 TAAAAAAAATTACAAATAT
49856508 TAAAA
1 TAAAA
49856513 TTGATATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 9 0.26
19 25 0.74
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAAAAATTACAAATAT
Found at i:49857231 original size:17 final size:19
Alignment explanation
Indices: 49857211--49857245 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49857201 AAGTTTTATT
49857211 AATTTA-TA-ATTTTTTAC
1 AATTTATTAGATTTTTTAC
49857228 AATTTATTAGATTTTTTA
1 AATTTATTAGATTTTTTA
49857246 TTTTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
AATTTATTAGATTTTTTAC
Found at i:49857285 original size:19 final size:20
Alignment explanation
Indices: 49857263--49857301 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49857253 AATACTTATT
*
49857263 AGTTTTTAT-AATTTTAATA
1 AGTTTATATCAATTTTAATA
49857282 AGTTTATATCAATTTTAATA
1 AGTTTATATCAATTTTAATA
49857302 TTTTTAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
AGTTTATATCAATTTTAATA
Found at i:49857298 original size:28 final size:28
Alignment explanation
Indices: 49857129--49857307 Score: 67
Period size: 27 Copynumber: 6.5 Consensus size: 28
49857119 TTTATGATTT
* *
49857129 TTTTTTAATTTTTATAAGTTTATATCA-A
1 TTTTATAATTTTAATAAGTTTATAT-AGA
* * ** *
49857157 TTTTATTATTTTTAAGAAGTCCA-ATACA
1 TTTTA-TAATTTTAATAAGTTTATATAGA
49857185 TTCTT-TAATTTTAAATAAGTTT-TATTA-A
1 TT-TTATAATTTT-AATAAGTTTATA-TAGA
* *
49857213 -TTTATAATTTT-TTACAATTTAT-TAGA
1 TTTTATAATTTTAATA-AGTTTATATAGA
* * *
49857239 TTTT-TTATTTTTATAA-TACTTAT-TAGT
1 TTTTATAATTTTAATAAGT--TTATATAGA
49857266 TTTTATAATTTTAATAAGTTTATATCA-A
1 TTTTATAATTTTAATAAGTTTATAT-AGA
*
49857294 TTTTAATATTTTTA
1 TTTT-ATAATTTTA
49857308 GCATTTTTAA
Statistics
Matches: 113, Mismatches: 19, Indels: 37
0.67 0.11 0.22
Matches are distributed among these distances:
25 5 0.04
26 14 0.12
27 36 0.32
28 32 0.28
29 26 0.23
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTATAATTTTAATAAGTTTATATAGA
Found at i:49857307 original size:20 final size:19
Alignment explanation
Indices: 49857272--49857324 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
49857262 TAGTTTTTAT
*
49857272 AATTTTAATAAGTTTATATC
1 AATTTTAAT-ATTTTATATC
*
49857292 AATTTTAATATTTT-TAGC
1 AATTTTAATATTTTATATC
*
49857310 ATTTTTAATATTTTA
1 AATTTTAATATTTTA
49857325 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.55
19 4 0.14
20 9 0.31
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
AATTTTAATATTTTATATC
Found at i:49858148 original size:29 final size:30
Alignment explanation
Indices: 49858116--49858174 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
49858106 TATATTTTAA
*
49858116 TGTGTAATTGTATACATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
49858145 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
49858175 GATTCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:49858401 original size:29 final size:31
Alignment explanation
Indices: 49858307--49858401 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
49858297 AAACGTGTAT
* * * *
49858307 AATTAAATCAAAATTAAAGTTTCAAGTATAC
1 AATTAAACCACAACTAAAGTTTCACGTATAC
* * * * *
49858338 ATTTAAACCACAATTAGAGTTTCACGTGTAT
1 AATTAAACCACAACTAAAGTTTCACGTATAC
*
49858369 AATTACACCA-AACTAAAG-TTCACGTATAC
1 AATTAAACCACAACTAAAGTTTCACGTATAC
49858398 AATT
1 AATT
49858402 GCTCATTAAA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 13 0.25
30 6 0.12
31 32 0.63
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (31 bp):
AATTAAACCACAACTAAAGTTTCACGTATAC
Found at i:49861919 original size:12 final size:12
Alignment explanation
Indices: 49861902--49861943 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
49861892 AAGTACAAGC
49861902 ACAAACCCGAGG
1 ACAAACCCGAGG
49861914 ACAAACCCGAGG
1 ACAAACCCGAGG
*
49861926 AAAAACCCGAGG
1 ACAAACCCGAGG
49861938 ACAAAC
1 ACAAAC
49861944 ACGAACACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.48, C:0.31, G:0.21, T:0.00
Consensus pattern (12 bp):
ACAAACCCGAGG
Found at i:49861955 original size:24 final size:24
Alignment explanation
Indices: 49861901--49861955 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
49861891 TAAGTACAAG
* *
49861901 CACAAACCCGAGGACAAACCCGAG
1 CACAAACCCGAGGACAAACACGAA
* *
49861925 GAAAAACCCGAGGACAAACACGAA
1 CACAAACCCGAGGACAAACACGAA
49861949 CACAAAC
1 CACAAAC
49861956 TACTTGCCAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.33, G:0.18, T:0.00
Consensus pattern (24 bp):
CACAAACCCGAGGACAAACACGAA
Found at i:49864163 original size:92 final size:92
Alignment explanation
Indices: 49864004--49864178 Score: 201
Period size: 92 Copynumber: 1.9 Consensus size: 92
49863994 AAATTTCGCA
* * * * * **
49864004 TTTGGTACTTGTACTTTCATGAAATGTTCAATGTAGTATTTGTACTTTGAAAATATTTAATGCGG
1 TTTGGTACTTGTACTTTCATAAAATGTTCAATATAGTATCTCTACTTTAAAAATATCCAATGCGG
*
49864069 TACCTGAACTATCAATATTTATTTTCT
66 TACATGAACTATCAATATTTATTTTCT
* * *
49864096 TTTGGTACATT-TACTTTTATAAAATGTTCAATAT-GATATCTCTACTTTAAAAATGTCCAATGT
1 TTTGGTAC-TTGTACTTTCATAAAATGTTCAATATAG-TATCTCTACTTTAAAAATATCCAATGC
* *
49864159 GGTACATTAACTATCGATAT
64 GGTACATGAACTATCAATAT
49864179 ATGTATTATT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
91 1 0.01
92 65 0.96
93 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (92 bp):
TTTGGTACTTGTACTTTCATAAAATGTTCAATATAGTATCTCTACTTTAAAAATATCCAATGCGG
TACATGAACTATCAATATTTATTTTCT
Found at i:49872972 original size:17 final size:18
Alignment explanation
Indices: 49872938--49872983 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
49872928 CCGTTATGTC
49872938 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
49872953 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
49872970 CGCGACCGCGACCG
1 CGCGACCGCGACCG
49872984 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:49874260 original size:13 final size:13
Alignment explanation
Indices: 49874242--49874268 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49874232 TTATTGTATG
49874242 AGTACAATTTAAT
1 AGTACAATTTAAT
49874255 AGTACAATTTAAT
1 AGTACAATTTAAT
49874268 A
1 A
49874269 TTATTTCATC
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AGTACAATTTAAT
Found at i:49876683 original size:18 final size:17
Alignment explanation
Indices: 49876651--49876693 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
49876641 TGTAGAAATT
*
49876651 ATTAAAAATTATAAAAGA
1 ATTAAAAATCATAAAA-A
*
49876669 ATTAAAAATCCTAAAAA
1 ATTAAAAATCATAAAAA
49876686 A-TAAAAAT
1 ATTAAAAAT
49876694 AAAAACTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (17 bp):
ATTAAAAATCATAAAAA
Found at i:49880049 original size:31 final size:31
Alignment explanation
Indices: 49880013--49880124 Score: 188
Period size: 31 Copynumber: 3.6 Consensus size: 31
49880003 ATAACAAGTG
*
49880013 AAGTGGTAGCTTCGGCTACCTGATCAGTGAA
1 AAGTGGTAGCTCCGGCTACCTGATCAGTGAA
49880044 AAGTGGTAGCTCCGGCTACCTGATCAGTGAA
1 AAGTGGTAGCTCCGGCTACCTGATCAGTGAA
*
49880075 AAATGGTAGCTCCGGCTACCTGATCAGTGAA
1 AAGTGGTAGCTCCGGCTACCTGATCAGTGAA
* *
49880106 TAGTGGTAGCTTCGGCTAC
1 AAGTGGTAGCTCCGGCTAC
49880125 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (31 bp):
AAGTGGTAGCTCCGGCTACCTGATCAGTGAA
Found at i:49880297 original size:49 final size:47
Alignment explanation
Indices: 49880146--49880364 Score: 229
Period size: 47 Copynumber: 4.7 Consensus size: 47
49880136 GATTTCCGTA
* * * * * * *
49880146 TAAGACCATATCTGGGATATGGCATCA-GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTC-GTG
* * * *
49880193 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
49880239 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
49880288 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
49880330 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
49880365 AGATGTGTAA
Statistics
Matches: 157, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
41 1 0.01
42 35 0.22
44 1 0.01
45 1 0.01
46 27 0.17
47 40 0.25
48 14 0.09
49 38 0.24
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:49880331 original size:42 final size:43
Alignment explanation
Indices: 49880236--49880399 Score: 190
Period size: 42 Copynumber: 3.7 Consensus size: 43
49880226 TATGTGATTC
*
49880236 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
49880283 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
49880327 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
49880369 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
49880400 GAAAACGAAG
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 64 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 30 0.29
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:49880362 original size:91 final size:92
Alignment explanation
Indices: 49880146--49880364 Score: 259
Period size: 91 Copynumber: 2.4 Consensus size: 92
49880136 GATTTCCGTA
* * * *
49880146 TAAGACCATATCTGGGATATGGCATCA-GTGTGATATATGCTACTGTATAAGACCATATCTGGGA
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGCTACTGTATAAGACCATAGCTGGGA
*
49880210 TATGGCATCAGTGAGATATGTGATTCGTG
66 TATGGCATCA--GAGATATGTAATTCGTG
* * *
49880239 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTGTAAGACCATAGCTGG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATATG-CTACTGTATAAGACCATAGCTGG
* *
49880303 GCTATGGCATC-GATATATG-AATAT-GTG
64 GATATGGCATCAGAGATATGTAAT-TCGTG
49880330 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
49880365 AGATGTGTAA
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
90 1 0.01
91 38 0.34
92 8 0.07
93 24 0.22
94 1 0.01
95 36 0.32
96 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (92 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGCTACTGTATAAGACCATAGCTGGGA
TATGGCATCAGAGATATGTAATTCGTG
Found at i:49881150 original size:85 final size:85
Alignment explanation
Indices: 49881007--49881173 Score: 316
Period size: 85 Copynumber: 2.0 Consensus size: 85
49880997 TACGACTGAC
*
49881007 AAGGGTGATGAAGTTATAAACAGAGAGTTACACGGGTTGAAAACACGAGCGTGTGACTCTCCAAA
1 AAGGGTGATGAAGTTATAAACAAAGAGTTACACGGGTTGAAAACACGAGCGTGTGACTCTCCAAA
49881072 GTGTGAAAATTTTCTAAAAT
66 GTGTGAAAATTTTCTAAAAT
*
49881092 AAGGGTGATGAAGTTATAAACAAAGAGTTACACGGGTTGAAAACACGGGCGTGTGACTCTCCAAA
1 AAGGGTGATGAAGTTATAAACAAAGAGTTACACGGGTTGAAAACACGAGCGTGTGACTCTCCAAA
49881157 GTGTGAAAATTTTCTAA
66 GTGTGAAAATTTTCTAA
49881174 GTGTTGCAAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (85 bp):
AAGGGTGATGAAGTTATAAACAAAGAGTTACACGGGTTGAAAACACGAGCGTGTGACTCTCCAAA
GTGTGAAAATTTTCTAAAAT
Found at i:49881718 original size:127 final size:127
Alignment explanation
Indices: 49881565--49881907 Score: 382
Period size: 127 Copynumber: 2.7 Consensus size: 127
49881555 AAGGGATGTT
* * * *
49881565 TGATTATTTAGATAAACAAAAAATCGAAACCCAGCACATTAGGGCACGATTTCC-CGAATTCCCA
1 TGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACGA-TCCCTCGAATTCCCA
* * * * * ** *
49881629 AACATCAACCGTCGCTTTTGTTTTAAAGCTTAGAAAATGCGAATGAAATTTAAAATGAAAATC
65 AACATCAAACATCGCCTTCGTTTTAAAGCTTAGAAAACGCGAACAAAATTTAAAAGGAAAATC
* * * * *
49881692 TGATTGTTTAGACAAATAAAAGATCGAAGCCCAACACATTAGGGCACGATCCCTCGAATTTCTAA
1 TGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTCCCAA
* * * * * * *
49881757 ACATCAAATATCGCCTTCGTTTTAAGGTTTAGAAAACGCGGACAAAATTTTAAAGGAAATTT
66 ACATCAAACATCGCCTTCGTTTTAAAGCTTAGAAAACGCGAACAAAATTTAAAAGGAAAATC
* * * * * *
49881819 TGACTATTTAGACAAACGAAAGACCGAAACCCAACACATTAGGGCACAATCCCTCGAATTTCTAA
1 TGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTCCCAA
* *
49881884 ACATCAAACATCACTTTCGTTTTA
66 ACATCAAACATCGCCTTCGTTTTA
49881908 TAAAGTCAAC
Statistics
Matches: 181, Mismatches: 34, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
126 3 0.02
127 178 0.98
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (127 bp):
TGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTCCCAA
ACATCAAACATCGCCTTCGTTTTAAAGCTTAGAAAACGCGAACAAAATTTAAAAGGAAAATC
Found at i:49882475 original size:25 final size:26
Alignment explanation
Indices: 49882447--49882527 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 26
49882437 AGTACAAAAT
49882447 AAAAAGTTTAAAATAAATAATATATAA
1 AAAAAGTTTAAAATAAATAATATAT-A
*
49882474 AAAAAGGTTTAAAAT-AATAATATATG
1 AAAAA-GTTTAAAATAAATAATATATA
** * * *
49882500 AAACGGTTCAGAATAAACAATATATA
1 AAAAAGTTTAAAATAAATAATATATA
49882526 AA
1 AA
49882528 TTTTAAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.16
26 14 0.31
27 15 0.33
28 9 0.20
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (26 bp):
AAAAAGTTTAAAATAAATAATATATA
Found at i:49882492 original size:27 final size:27
Alignment explanation
Indices: 49882447--49882498 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
49882437 AGTACAAAAT
49882447 AAAAAGTTTAAAATAAATAATATATAA
1 AAAAAGTTTAAAATAAATAATATATAA
49882474 AAAAAGGTTTAAAAT-AATAATATAT
1 AAAAA-GTTTAAAATAAATAATATAT
49882499 GAAACGGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAAAGTTTAAAATAAATAATATATAA
Found at i:49883157 original size:3 final size:3
Alignment explanation
Indices: 49883149--49883187 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
49883139 TATGTTCAAA
49883149 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49883188 GAAAATGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49885759 original size:108 final size:108
Alignment explanation
Indices: 49885643--49885843 Score: 348
Period size: 108 Copynumber: 1.9 Consensus size: 108
49885633 AAAAAACACG
* *
49885643 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTCTATTAGAACTTTTATCATTT
1 TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTCTATTAGAAATTTTATCATTT
49885708 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
* *
49885751 TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTCTATTAGAAATTTTATCATTT
* *
49885816 AAAATTTATTCTAACTTAACATATCATT
66 AAAACTTATTCCAACTTAACATATCATT
49885844 TTAAAAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 87 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.42
Consensus pattern (108 bp):
TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTCTATTAGAAATTTTATCATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:49888726 original size:42 final size:42
Alignment explanation
Indices: 49888663--49888745 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
49888653 ATTTTAGGCA
* *
49888663 AGATATTAGCTTATCACAGTACTCGCCTTCCTTCTTTACATC
1 AGATATTAGCTTATCACAGTACTCACCTTCCTCCTTTACATC
* * *
49888705 AGATATT-GACTTTTCATAGTACTCATCTTCCTCCTTTACAT
1 AGATATTAG-CTTATCACAGTACTCACCTTCCTCCTTTACAT
49888746 TATCAAGCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (42 bp):
AGATATTAGCTTATCACAGTACTCACCTTCCTCCTTTACATC
Found at i:49889372 original size:21 final size:21
Alignment explanation
Indices: 49889346--49889387 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
49889336 TTGTCGTACA
49889346 AAGCCTTCTTTTCGCTGGAGC
1 AAGCCTTCTTTTCGCTGGAGC
49889367 AAGCCTTCTTTTCGCTGGAGC
1 AAGCCTTCTTTTCGCTGGAGC
49889388 CGTCGGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.24, T:0.33
Consensus pattern (21 bp):
AAGCCTTCTTTTCGCTGGAGC
Found at i:49890639 original size:29 final size:30
Alignment explanation
Indices: 49890597--49890655 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
49890587 TATGATTTAA
49890597 TGTGTAATTGTATACAT-AAATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTGATTT
*
49890626 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTGATTT
49890656 GGTCCAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGTAATTGTATACATGAAATTTTGATTT
Found at i:49891879 original size:28 final size:29
Alignment explanation
Indices: 49891848--49891914 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
49891838 ATGTATTTGA
49891848 ATATTTAAAATTTAGTCTTTATAGTTTT-
1 ATATTTAAAATTTAGTCTTTATAGTTTTC
* *
49891876 ATA-TTAGAAATTTAGTCTTTTTATTTTTC
1 ATATTTA-AAATTTAGTCTTTATAGTTTTC
*
49891905 AAATTTAAAA
1 ATATTTAAAA
49891915 AATTAGATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 3 0.09
28 22 0.67
29 5 0.15
30 3 0.09
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (29 bp):
ATATTTAAAATTTAGTCTTTATAGTTTTC
Found at i:49892154 original size:29 final size:26
Alignment explanation
Indices: 49892111--49892171 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
49892101 AAAACAAAGT
49892111 ATTTGAGCTAATTAATGACGTTGTAAAAA
1 ATTTGAGCTAATTAATGA---TGTAAAAA
* * *
49892140 ATTTGAGGTATTTAATTATGTAAAAA
1 ATTTGAGCTAATTAATGATGTAAAAA
49892166 ATTTGA
1 ATTTGA
49892172 AGTACAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 14 0.48
29 15 0.52
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.39
Consensus pattern (26 bp):
ATTTGAGCTAATTAATGATGTAAAAA
Found at i:49895561 original size:17 final size:18
Alignment explanation
Indices: 49895539--49895575 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49895529 ACCACCCTAT
*
49895539 TTTATTT-TATGTTTGAA
1 TTTATTTATATGTTAGAA
49895556 TTTATTTATATGTTAGAA
1 TTTATTTATATGTTAGAA
49895574 TT
1 TT
49895576 AAGTAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (18 bp):
TTTATTTATATGTTAGAA
Found at i:49897140 original size:19 final size:19
Alignment explanation
Indices: 49897118--49897161 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
49897108 ATTTAAATTG
*
49897118 ACAATCAATATATATTT-AA
1 ACAATCAAGA-ATATTTAAA
*
49897137 ACAATAAAGAATATTTAAA
1 ACAATCAAGAATATTTAAA
49897156 ACAATC
1 ACAATC
49897162 CAAACAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ACAATCAAGAATATTTAAA
Found at i:49902366 original size:101 final size:99
Alignment explanation
Indices: 49902229--49902430 Score: 298
Period size: 101 Copynumber: 2.0 Consensus size: 99
49902219 ACAGTTTACA
* *
49902229 AGTAGGTTACGTTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACTG
1 AGTAGGTTACATTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACAG
* * *
49902294 AAAAAAAAGTTGTAAAGATTATCCTAGGTTCTCCACT
66 -AAAAAAAGATCTAAAGATTATCCAAGGTT-TCC-CT
* *
49902331 AGTAGGTTACATTAAAG-AGTTTCATTCTTGATTTATTTCATGAGTTAATGCATTATTGGTACAG
1 AGTAGGTTACATTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACAG
*
49902395 AAAAATAGATCTAAAGATTATCCAAGGTTTCCCT
66 AAAAAAAGATCTAAAGATTATCCAAGGTTTCCCT
49902429 AG
1 AG
49902431 AAGACTGCTG
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.04
99 3 0.03
100 25 0.27
101 44 0.48
102 16 0.17
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (99 bp):
AGTAGGTTACATTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACAG
AAAAAAAGATCTAAAGATTATCCAAGGTTTCCCT
Found at i:49911273 original size:13 final size:13
Alignment explanation
Indices: 49911251--49911285 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
49911241 GGTTCATCCG
49911251 TATTAATTTTTTA
1 TATTAATTTTTTA
*
49911264 TATTATTTTTTTA
1 TATTAATTTTTTA
*
49911277 TATAAATTT
1 TATTAATTT
49911286 AAACATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:49911974 original size:24 final size:24
Alignment explanation
Indices: 49911947--49912011 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
49911937 CGCGACTCTT
49911947 TTTTTATATTAAAATATATATATA
1 TTTTTATATTAAAATATATATATA
* * *
49911971 TTTTTA-AATAAAATATTATTTTTA
1 TTTTTATATTAAAATA-TATATATA
*
49911995 ATTTT-TATTAAAA-ATAT
1 TTTTTATATTAAAATATAT
49912012 TTAAATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.09
23 9 0.26
24 22 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTTATATTAAAATATATATATA
Found at i:49912614 original size:20 final size:20
Alignment explanation
Indices: 49912578--49912616 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49912568 TGACAAATGC
*
49912578 TTTTATTAAAATTATTTAAA
1 TTTTATTAAAATAATTTAAA
49912598 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
49912617 CACCCACAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTATTAAAATAATTTAAA
Found at i:49913696 original size:19 final size:19
Alignment explanation
Indices: 49913668--49913715 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
49913658 TTGATCTGAA
49913668 AATA-AAAAAAAATTATTTT
1 AATATAAAAAAAA-TATTTT
*
49913687 -ATCTAAAAAAAATATTTT
1 AATATAAAAAAAATATTTT
49913705 AATATAAAAAA
1 AATATAAAAAA
49913716 GGATCGCGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAAAAAAAATATTTT
Found at i:49916193 original size:115 final size:115
Alignment explanation
Indices: 49916074--49916314 Score: 464
Period size: 115 Copynumber: 2.1 Consensus size: 115
49916064 ATAATATTAA
* *
49916074 TATTATTAATTTCTTACATGATATTTATTTTATATATTGGTAAATTTATTTATCTTAATGTTAAA
1 TATTAATAATTTCTTACATGATATTTATTTTATATATTGGTAAATTAATTTATCTTAATGTTAAA
49916139 ATTGTTAATATTCAATATTTTCATTTTAATAGTATACAAATTTTATGTAT
66 ATTGTTAATATTCAATATTTTCATTTTAATAGTATACAAATTTTATGTAT
49916189 TATTAATAATTTCTTACATGATATTTATTTTATATATTGGTAAATTAATTTATCTTAATGTTAAA
1 TATTAATAATTTCTTACATGATATTTATTTTATATATTGGTAAATTAATTTATCTTAATGTTAAA
49916254 ATTGTTAATATTCAATATTTTCATTTTAATAGTATACAAATTTTATGTAT
66 ATTGTTAATATTCAATATTTTCATTTTAATAGTATACAAATTTTATGTAT
49916304 TATTAATAATT
1 TATTAATAATT
49916315 AGTTTTAAAC
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 124 1.00
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (115 bp):
TATTAATAATTTCTTACATGATATTTATTTTATATATTGGTAAATTAATTTATCTTAATGTTAAA
ATTGTTAATATTCAATATTTTCATTTTAATAGTATACAAATTTTATGTAT
Found at i:49928153 original size:30 final size:30
Alignment explanation
Indices: 49928119--49928175 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49928109 GTGGTGGGCT
*
49928119 GATGATA-GCTATGGTGAGGGGGGGAGGTTG
1 GATGATATGC-ATGATGAGGGGGGGAGGTTG
*
49928149 GATGATATGCATGATGAGGTGGGGAGG
1 GATGATATGCATGATGAGGGGGGGAGG
49928176 GGGAACTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.23, C:0.04, G:0.51, T:0.23
Consensus pattern (30 bp):
GATGATATGCATGATGAGGGGGGGAGGTTG
Found at i:49930724 original size:51 final size:51
Alignment explanation
Indices: 49930657--49930765 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
49930647 TATAAAAAGA
49930657 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
1 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
49930708 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
1 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
49930759 CACTAGA
1 CA-TAGA
49930766 GCTAAGCATG
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 53 0.93
52 4 0.07
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (51 bp):
CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
Found at i:49934605 original size:4 final size:4
Alignment explanation
Indices: 49934596--49934621 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
49934586 ATTTACGGTA
49934596 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
49934622 TATTAAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:49936263 original size:40 final size:41
Alignment explanation
Indices: 49936188--49936264 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
49936178 ATATATGAGC
* *
49936188 TTAAATTATTGATTATTTATTAATTTGTTGGATATAAATTA
1 TTAAATTATTGATTATTTATTAATTTATAGGATATAAATTA
*
49936229 TTAAATTATTTATT-TTTATTAA-TTATAGGCATATAA
1 TTAAATTATTGATTATTTATTAATTTATAGG-ATATAA
49936265 GTGGTTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 5 0.16
40 14 0.44
41 13 0.41
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (41 bp):
TTAAATTATTGATTATTTATTAATTTATAGGATATAAATTA
Found at i:49938735 original size:6 final size:6
Alignment explanation
Indices: 49938724--49938751 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
49938714 TGAGAGCGAC
49938724 AGCATG AGCATG AGCATG AGCATG AGCA
1 AGCATG AGCATG AGCATG AGCATG AGCA
49938752 AAGTTGATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.14
Consensus pattern (6 bp):
AGCATG
Found at i:49939873 original size:19 final size:19
Alignment explanation
Indices: 49939810--49939873 Score: 64
Period size: 18 Copynumber: 3.5 Consensus size: 19
49939800 TATTAACAAA
49939810 ATTAAAAATATCAT-ATTTT
1 ATTAAAAATAT-ATAATTTT
* *
49939829 AAT-AAAATCT-TAATTTT
1 ATTAAAAATATATAATTTT
*
49939846 -TTTAAAATATATAATTTT
1 ATTAAAAATATATAATTTT
49939864 ATTAAAAATA
1 ATTAAAAATA
49939874 AAAAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 2 0.06
17 11 0.31
18 13 0.36
19 10 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAAAATATATAATTTT
Found at i:49964715 original size:9 final size:9
Alignment explanation
Indices: 49964701--49964740 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
49964691 ACATTTAATT
49964701 AAATTTTAA
1 AAATTTTAA
49964710 AAATTTTAA
1 AAATTTTAA
**
49964719 AAATTCAAA
1 AAATTTTAA
49964728 AAATTTATAA
1 AAATTT-TAA
49964738 AAA
1 AAA
49964741 CTATTTCTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTTTAA
Found at i:49968871 original size:40 final size:40
Alignment explanation
Indices: 49968816--49968921 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
49968806 GCAGAGGGAA
*
49968816 AGGGATGGTGGGGGAGAGGGAGAGGGTCGGAGTAGGGGGG
1 AGGGATGGTGGGGGAGAGGGAGAGGGTCGGAATAGGGGGG
* **
49968856 AGGGACGGTGGGGGAGAGGGAGAGAATCGGAATAGGGGGG
1 AGGGATGGTGGGGGAGAGGGAGAGGGTCGGAATAGGGGGG
*
49968896 AGGGATGGTGGGGAAGAGGGAGAGGG
1 AGGGATGGTGGGGGAGAGGGAGAGGG
49968922 ATGGGAGAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.25, C:0.03, G:0.64, T:0.08
Consensus pattern (40 bp):
AGGGATGGTGGGGGAGAGGGAGAGGGTCGGAATAGGGGGG
Found at i:49970430 original size:12 final size:12
Alignment explanation
Indices: 49970415--49970439 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49970405 TCTAAATAAA
49970415 AAATTAAATTTT
1 AAATTAAATTTT
49970427 AAATTAAATTTT
1 AAATTAAATTTT
49970439 A
1 A
49970440 TAGAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTAAATTTT
Found at i:49970469 original size:15 final size:15
Alignment explanation
Indices: 49970443--49970475 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
49970433 AATTTTATAG
49970443 AATAATATAAAATTAA
1 AATAATATAAAA-TAA
49970459 AATAA-ATAAAATAA
1 AATAATATAAAATAA
49970473 AAT
1 AAT
49970476 TGAAACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 6 0.35
16 5 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATATAAAATAA
Found at i:49975587 original size:30 final size:30
Alignment explanation
Indices: 49975551--49975630 Score: 160
Period size: 30 Copynumber: 2.7 Consensus size: 30
49975541 TAATAGCCCG
49975551 ACTGGAAATGAGCAAGATGGCTCTAACCGT
1 ACTGGAAATGAGCAAGATGGCTCTAACCGT
49975581 ACTGGAAATGAGCAAGATGGCTCTAACCGT
1 ACTGGAAATGAGCAAGATGGCTCTAACCGT
49975611 ACTGGAAATGAGCAAGATGG
1 ACTGGAAATGAGCAAGATGG
49975631 GACCAACAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (30 bp):
ACTGGAAATGAGCAAGATGGCTCTAACCGT
Found at i:49981054 original size:50 final size:50
Alignment explanation
Indices: 49980983--49981167 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
49980973 ACATGCCAAA
49980983 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
49981033 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
49981083 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
49981133 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49981168 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:49981283 original size:13 final size:13
Alignment explanation
Indices: 49981262--49981293 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
49981252 GCTTGGATCA
*
49981262 TCATCAAATAAAT
1 TCATAAAATAAAT
49981275 TCATAAAATAAAT
1 TCATAAAATAAAT
49981288 TCATAA
1 TCATAA
49981294 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:49984827 original size:21 final size:21
Alignment explanation
Indices: 49984766--49984827 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
49984756 TGGAAGTGTA
* *
49984766 TCCTCAATTTCCTCTACCACC
1 TCCTCAGTTTCCTCTACCTCC
49984787 TCCTCAGTTTCCTCTACCTCC
1 TCCTCAGTTTCCTCTACCTCC
*
49984808 TCCTCAGTTTCCTCTGCCTC
1 TCCTCAGTTTCCTCTACCTC
49984828 ATTCCACAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.11, C:0.47, G:0.05, T:0.37
Consensus pattern (21 bp):
TCCTCAGTTTCCTCTACCTCC
Found at i:49989342 original size:21 final size:21
Alignment explanation
Indices: 49989316--49989359 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
49989306 ATAAGAGATA
49989316 AATAATATATTTTAATATGAT
1 AATAATATATTTTAATATGAT
49989337 AATAATATATTTTAATATGAT
1 AATAATATATTTTAATATGAT
49989358 AA
1 AA
49989360 AATTGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
AATAATATATTTTAATATGAT
Found at i:49993995 original size:51 final size:51
Alignment explanation
Indices: 49993907--49994032 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
49993897 AACTTAGGCA
** * *
49993907 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
* * * * **
49993958 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
49994009 AATCTTAGAAGATATGATATTATA
1 AATCTTAGAAGATATGATATTATA
49994033 TTCTTAGAGA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
Found at i:50005757 original size:24 final size:26
Alignment explanation
Indices: 50005723--50005776 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
50005713 AAAATAGAAA
*
50005723 CAAATCGACAA-AAAGAGAACCTAAT
1 CAAATCGACAAGAAAGAAAACCTAAT
*
50005748 CAAAT-GACAAGAAAGAAAACCTATT
1 CAAATCGACAAGAAAGAAAACCTAAT
50005773 CAAA
1 CAAA
50005777 ATTCAGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.57, C:0.19, G:0.11, T:0.13
Consensus pattern (26 bp):
CAAATCGACAAGAAAGAAAACCTAAT
Found at i:50006240 original size:35 final size:35
Alignment explanation
Indices: 50006201--50006297 Score: 158
Period size: 35 Copynumber: 2.8 Consensus size: 35
50006191 ACTTGCCTCT
50006201 TCCCATTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCATTCTCCCATGCTGTCTGCCACCAGCACCAC
* *
50006236 TCCCATTCTCCCATGTTGTCTGCCACCAGCGCCAC
1 TCCCATTCTCCCATGCTGTCTGCCACCAGCACCAC
* *
50006271 TCCCACTCTCCCATGCTGTCTACCACC
1 TCCCATTCTCCCATGCTGTCTGCCACC
50006298 TCCACCTCTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.15, C:0.48, G:0.11, T:0.25
Consensus pattern (35 bp):
TCCCATTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:50006973 original size:26 final size:26
Alignment explanation
Indices: 50006933--50007000 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
50006923 TAAAATAAAA
50006933 AATAAAAAAGGGGAAAGTTGGTAATGG
1 AATAAAAAA-GGGAAAGTTGGTAATGG
50006960 AATAAAAAAGGGAAAGTTGGTAATGG
1 AATAAAAAAGGGAAAGTTGGTAATGG
*
50006986 AATAAAAAAAGGAAA
1 AATAAAAAAGGGAAA
50007001 TTTTTTTTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 31 0.77
27 9 0.22
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (26 bp):
AATAAAAAAGGGAAAGTTGGTAATGG
Found at i:50007890 original size:3 final size:3
Alignment explanation
Indices: 50007882--50007934 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
50007872 TCGATTTTAC
* * *
50007882 TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50007930 TAT TA
1 TAT TA
50007935 GTTTATGCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:50012175 original size:53 final size:53
Alignment explanation
Indices: 50012094--50012244 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
50012084 CTTACACGGT
* *
50012094 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
50012149 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
50012202 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
50012245 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:50016910 original size:90 final size:89
Alignment explanation
Indices: 50016770--50016954 Score: 194
Period size: 90 Copynumber: 2.1 Consensus size: 89
50016760 GAGGAATAGA
* * * * **
50016770 TTAAAGTTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGAATAGCGAACCTTAT
1 TTAAAGTTACAGATCTTATCTCACTGAAATTGCAGTGGAACAGATCGAAG-ATAGAAAACCTTAT
* * **
50016835 CCCCCTGAAGTTACAGTGGGGCAGG
65 CCCCCGGAAATTACAGTGGAACAGG
** *
50016860 TTAAAGTTACA-AGTCTTATCTCACTGAAATTGCAGTGGGGCAGA-CTGAAGATAGAAAATCTTA
1 TTAAAGTTACAGA-TCTTATCTCACTGAAATTGCAGTGGAACAGATC-GAAGATAGAAAACCTTA
* *
50016923 TTCCCCGGAAATTGCAGTGGAACAGG
64 TCCCCCGGAAATTACAGTGGAACAGG
50016949 TTAAAG
1 TTAAAG
50016955 CTAGGAGTTA
Statistics
Matches: 78, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
89 38 0.49
90 40 0.51
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (89 bp):
TTAAAGTTACAGATCTTATCTCACTGAAATTGCAGTGGAACAGATCGAAGATAGAAAACCTTATC
CCCCGGAAATTACAGTGGAACAGG
Found at i:50019108 original size:22 final size:22
Alignment explanation
Indices: 50019066--50019108 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
50019056 ATATTGTCTC
*
50019066 TTTTTTAATTCTTTTACATATT
1 TTTTTTAATACTTTTACATATT
*
50019088 TTTTTTAA-ACTTGTTATATAT
1 TTTTTTAATACTT-TTACATAT
50019109 CATTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTTAATACTTTTACATATT
Found at i:50024220 original size:4 final size:4
Alignment explanation
Indices: 50024211--50024237 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
50024201 AGGATAGGGG
50024211 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
50024238 CTGATATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:50027827 original size:2 final size:2
Alignment explanation
Indices: 50027820--50027847 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50027810 GAAATTAGAA
50027820 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50027848 TGAATTAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50038008 original size:15 final size:15
Alignment explanation
Indices: 50037982--50038028 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
50037972 CCCTAAACAC
50037982 GAAAAAGAAAA-AGAG
1 GAAAAAGAAAAGA-AG
50037997 AGAAAAAGAAAAGAAG
1 -GAAAAAGAAAAGAAG
*
50038013 GAAAAAGAAGAGAAG
1 GAAAAAGAAAAGAAG
50038028 G
1 G
50038029 TGTCAGATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 15 0.52
16 13 0.45
17 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAGAAG
Found at i:50038871 original size:22 final size:22
Alignment explanation
Indices: 50038843--50038888 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
50038833 TAGTGTAATC
50038843 ATGTGTTAATTAAAATAAGATT
1 ATGTGTTAATTAAAATAAGATT
50038865 ATGTGTTAATTAAAATAAGATT
1 ATGTGTTAATTAAAATAAGATT
50038887 AT
1 AT
50038889 AATATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (22 bp):
ATGTGTTAATTAAAATAAGATT
Found at i:50052329 original size:55 final size:55
Alignment explanation
Indices: 50052247--50052357 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
50052237 TGTTTTGAAG
*
50052247 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCTAGA
1 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCCAGA
50052302 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCCAGA
1 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCCAGA
50052357 A
1 A
50052358 GCAGCTCCTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (55 bp):
AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCCAGA
Found at i:50057698 original size:20 final size:20
Alignment explanation
Indices: 50057670--50057710 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50057660 TTATATAAAC
* * *
50057670 TTAAGTCATTTTTTTTTAAT
1 TTAAATCATATTTTTTCAAT
50057690 TTAAATCATATTTTTTCAAT
1 TTAAATCATATTTTTTCAAT
50057710 T
1 T
50057711 CTCTCAACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (20 bp):
TTAAATCATATTTTTTCAAT
Found at i:50061452 original size:16 final size:16
Alignment explanation
Indices: 50061431--50061482 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
50061421 TTTGGTTCGC
50061431 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50061447 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
50061463 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
50061479 TGTA
1 TGTA
50061483 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:50061529 original size:45 final size:44
Alignment explanation
Indices: 50061463--50061557 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
50061453 GGATTAGAGG
* *
50061463 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
50061508 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
50061552 TGTAAT
1 TGTAAT
50061558 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:50061727 original size:25 final size:25
Alignment explanation
Indices: 50061695--50061749 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
50061685 TAATTTAATC
*
50061695 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
50061719 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
50061744 ATATAT
1 ATATAT
50061750 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:50061931 original size:47 final size:46
Alignment explanation
Indices: 50061880--50062040 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
50061870 GATTTAATAA
50061880 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
50061927 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
50061968 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
50062015 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
50062041 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:50065122 original size:60 final size:61
Alignment explanation
Indices: 50065004--50065122 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 61
50064994 ATAATAAATT
* * * ** * *
50065004 TAATAAATTTAGCTCTCAATGTTTACAAAATTAGTCATTTTAGTTTTAATTCTCAAAATAA
1 TAATAAATTTAGCTCTCAATATTTAAAAAATTAGTCAATTTAGTCCTAACTCTAAAAATAA
*
50065065 TAATAAATTTGGC-CTCAATATTTAAAAAATATA-TCAATTTAGTCCTAACTCTAAAAAT
1 TAATAAATTTAGCTCTCAATATTTAAAAAAT-TAGTCAATTTAGTCCTAACTCTAAAAAT
50065123 TTTAAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
60 35 0.71
61 14 0.29
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (61 bp):
TAATAAATTTAGCTCTCAATATTTAAAAAATTAGTCAATTTAGTCCTAACTCTAAAAATAA
Found at i:50066560 original size:17 final size:18
Alignment explanation
Indices: 50066519--50066560 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
50066509 TGTGTTCTTA
*
50066519 ATTGTTTTCACTTTATTT
1 ATTGTTTTCAATTTATTT
*
50066537 ATT-TTTTCAATTTCTTT
1 ATTGTTTTCAATTTATTT
50066554 -TTGTTTT
1 ATTGTTTT
50066561 TTGTTGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 16 0.76
18 3 0.14
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTGTTTTCAATTTATTT
Found at i:50067539 original size:14 final size:15
Alignment explanation
Indices: 50067514--50067542 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50067504 AAAAACATTT
50067514 GAAAATAAAATAAGA
1 GAAAATAAAATAAGA
50067529 GAAAA-AAAATAAGA
1 GAAAATAAAATAAGA
50067543 TAATTAGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
GAAAATAAAATAAGA
Found at i:50067646 original size:18 final size:19
Alignment explanation
Indices: 50067623--50067668 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
50067613 AATATATATA
50067623 TATATAATTT-AGTATTT-T
1 TATATAATTTAAG-ATTTCT
*
50067641 TATATATTTTAAGATTTCT
1 TATATAATTTAAGATTTCT
50067660 TA-ATAATTT
1 TATATAATTT
50067669 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TATATAATTTAAGATTTCT
Found at i:50073698 original size:21 final size:21
Alignment explanation
Indices: 50073646--50073699 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
50073636 ATTGGTATTT
50073646 TATATAAAAAATCATTAAAAA
1 TATATAAAAAATCATTAAAAA
* *
50073667 TTTATAGAAAATCA-TAAAAA
1 TATATAAAAAATCATTAAAAA
*
50073687 CTATAAAAAAAAT
1 -TATATAAAAAAT
50073700 TTAAAGTTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (21 bp):
TATATAAAAAATCATTAAAAA
Found at i:50073901 original size:16 final size:17
Alignment explanation
Indices: 50073875--50073909 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
50073865 CGTCAATAAT
50073875 AATATAAAATTACAAAA
1 AATATAAAATTACAAAA
*
50073892 AATA-AAAATTATAAAA
1 AATATAAAATTACAAAA
50073908 AA
1 AA
50073910 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AATATAAAATTACAAAA
Found at i:50073908 original size:17 final size:17
Alignment explanation
Indices: 50073875--50073917 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
50073865 CGTCAATAAT
*
50073875 AATATAAAATTACAAAA
1 AATATAAAATTAAAAAA
50073892 AATA-AAAATTATAAAAA
1 AATATAAAATTA-AAAAA
*
50073909 AAAATAAAA
1 AATATAAAA
50073918 ATATGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
AATATAAAATTAAAAAA
Found at i:50075263 original size:30 final size:30
Alignment explanation
Indices: 50075208--50075264 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
50075198 ACTGCAGGGG
*
50075208 TCACATGGTTGTGTGGCCATGCCGTGTGAC
1 TCACATGGTTGTGTGGCCATCCCGTGTGAC
50075238 TCACATGGTT-TGTAGGCACA-CCCGTGT
1 TCACATGGTTGTGT-GGC-CATCCCGTGT
50075265 CTCAAGTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 19 0.79
31 2 0.08
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (30 bp):
TCACATGGTTGTGTGGCCATCCCGTGTGAC
Done.