Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 173 of 230
Found at i:51617309 original size:15 final size:16
Alignment explanation
Indices: 51617268--51617332 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
51617258 CAAATATAAA
* *
51617268 TAAATAATGA-ATTGA
1 TAAATAATTATATTGT
*
51617283 TAAAT-ATAATATTGT
1 TAAATAATTATATTGT
51617298 T-AATCAA-TATATT-T
1 TAAAT-AATTATATTGT
51617312 TAAATAATTATATTG-
1 TAAATAATTATATTGT
51617327 TAAATA
1 TAAATA
51617333 TTTTTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 10 0.24
15 30 0.73
16 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
TAAATAATTATATTGT
Found at i:51619448 original size:28 final size:25
Alignment explanation
Indices: 51619417--51619493 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 25
51619407 AATAAATTCA
51619417 TTCAATTTTAAAAATATAAATAAATATT
1 TTCAATTTTAAAAA-ATAAA-AAATA-T
**
51619445 TTCAAAATTAAAAAGATTAAGAAAATAT
1 TTCAATTTTAAAAA-A-TAA-AAAATAT
*
51619473 TTAAATTTTAAAAAATAAAAA
1 TTCAATTTTAAAAAATAAAAA
51619494 TATGGGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.07
26 3 0.07
27 1 0.02
28 25 0.61
29 8 0.20
30 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (25 bp):
TTCAATTTTAAAAAATAAAAAATAT
Found at i:51622379 original size:14 final size:15
Alignment explanation
Indices: 51622346--51622381 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
51622336 CCACTTGTTT
*
51622346 TTTTAATTTTATATA
1 TTTTAGTTTTATATA
51622361 TTTTAGTTTTATA-A
1 TTTTAGTTTTATATA
51622375 TTTTAGT
1 TTTTAGT
51622382 CACTTGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTAGTTTTATATA
Found at i:51623365 original size:32 final size:32
Alignment explanation
Indices: 51623324--51623390 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
51623314 ATGAGAAAAG
51623324 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
1 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
51623356 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
1 ATTGTTTAAAATTGTGATTCCATGTCATTCTT
51623388 ATT
1 ATT
51623391 CCTTTCCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (32 bp):
ATTGTTTAAAATTGTGATTCCATGTCATTCTT
Found at i:51629253 original size:21 final size:20
Alignment explanation
Indices: 51629215--51629254 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51629205 AATTTTAAAA
**
51629215 TATTTTTAAAATTCTTTTTT
1 TATTTTTAAAATAATTTTTT
51629235 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
51629255 CGTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:51633682 original size:24 final size:24
Alignment explanation
Indices: 51633617--51633686 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
51633607 CTAATAATTG
51633617 TAAAAATTATAATTATTTTTAAAT
1 TAAAAATTATAATTATTTTTAAAT
* * * * **
51633641 GAATAACTATTACAATTTTTAAAT
1 TAAAAATTATAATTATTTTTAAAT
*
51633665 TAAAAATTCTAATTATTTTTAA
1 TAAAAATTATAATTATTTTTAA
51633687 TTGTATAAGT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (24 bp):
TAAAAATTATAATTATTTTTAAAT
Found at i:51657720 original size:17 final size:17
Alignment explanation
Indices: 51657700--51657732 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51657690 TGATTGTTTG
51657700 TTTTTCTGTTTT-TTTTC
1 TTTTTCT-TTTTGTTTTC
51657717 TTTTTCTTTTTGTTTT
1 TTTTTCTTTTTGTTTT
51657733 AGGAAACCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTTGTTTTC
Found at i:51659107 original size:13 final size:13
Alignment explanation
Indices: 51659089--51659115 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51659079 CCACATTAGT
51659089 AATCTATTAGTGG
1 AATCTATTAGTGG
51659102 AATCTATTAGTGG
1 AATCTATTAGTGG
51659115 A
1 A
51659116 TTAAGAAATT
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:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
AATCTATTAGTGG
Found at i:51664125 original size:20 final size:20
Alignment explanation
Indices: 51664091--51664128 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51664081 CATCCATACC
51664091 ATTTGGCATACATTCAAAGG
1 ATTTGGCATACATTCAAAGG
51664111 ATTTGAGCATA-ATTCAAA
1 ATTTG-GCATACATTCAAA
51664129 CACACATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTTGGCATACATTCAAAGG
Found at i:51667002 original size:47 final size:49
Alignment explanation
Indices: 51666943--51667036 Score: 129
Period size: 47 Copynumber: 1.9 Consensus size: 49
51666933 ATTACTTTAA
* * **
51666943 TATTAAATTAATATAATATTTA-T-CAAGATAAATTTAATATTAAACAT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATAATATTAAACAT
51666990 TATTAAAATAATAGAATATTTATCTACAAGATAAACATAATATTAAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATAATATTAAA
51667037 TTTAATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 20 0.50
49 1 0.03
50 19 0.47
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (49 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATAATATTAAACAT
Found at i:51673014 original size:17 final size:17
Alignment explanation
Indices: 51672992--51673025 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51672982 CATTATGCAT
*
51672992 GAAAAATATAAAAGACA
1 GAAAAATACAAAAGACA
51673009 GAAAAATACAAAAGACA
1 GAAAAATACAAAAGACA
51673026 TAATAGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAAATACAAAAGACA
Found at i:51673354 original size:38 final size:38
Alignment explanation
Indices: 51673303--51673378 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
51673293 CCAAGACTAG
*
51673303 CCATCTTCCCAATTGAAATTGTAGACGACATAATAATC
1 CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
* *
51673341 CCATCTCCCCAATTGGAATTGTGGACGACATAATAATC
1 CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
51673379 TTTCTCAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (38 bp):
CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
Found at i:51676441 original size:26 final size:27
Alignment explanation
Indices: 51676411--51676466 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
51676401 TTTTTGAAAA
*
51676411 AAATGT-CTATTCGCATAATTTTTCCT
1 AAATGTACTATTCACATAATTTTTCCT
* *
51676437 AAATGTACCTATTCACGTAATTTTTTCT
1 AAATGTA-CTATTCACATAATTTTTCCT
51676465 AA
1 AA
51676467 CATTTATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
28 19 0.76
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (27 bp):
AAATGTACTATTCACATAATTTTTCCT
Found at i:51678563 original size:24 final size:24
Alignment explanation
Indices: 51678516--51678563 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
51678506 TAAGAATTTG
* *
51678516 AAAAATATATTATAAAATGTAATA
1 AAAAATAAATTATAAAATGAAATA
51678540 AAAAATAAATTATATAAAT-AAATA
1 AAAAATAAATTATA-AAATGAAATA
51678564 TAAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAAATAAATTATAAAATGAAATA
Found at i:51682105 original size:17 final size:17
Alignment explanation
Indices: 51682083--51682115 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51682073 TGCGATTTAA
*
51682083 TTTTTTTTTTGTTTTTG
1 TTTTTTATTTGTTTTTG
51682100 TTTTTTATTTGTTTTT
1 TTTTTTATTTGTTTTT
51682116 TCGTTAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTATTTGTTTTTG
Found at i:51685307 original size:18 final size:17
Alignment explanation
Indices: 51685281--51685314 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51685271 GTTACTCTTG
51685281 TAAAATATTAAATTAAAA
1 TAAAATATT-AATTAAAA
*
51685299 TAAATTATTAATTAAA
1 TAAAATATTAATTAAA
51685315 TTCCAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATATTAATTAAAA
Found at i:51685617 original size:18 final size:20
Alignment explanation
Indices: 51685594--51685631 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 20
51685584 TTACATGTAC
51685594 AAATAA-TTGAAA-AATAAA
1 AAATAACTTGAAACAATAAA
51685612 AAATAACTTTGAAACAATAA
1 AAATAAC-TTGAAACAATAA
51685632 TATTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATAACTTGAAACAATAAA
Found at i:51699623 original size:23 final size:23
Alignment explanation
Indices: 51699589--51699654 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
51699579 AATCTGAAAT
51699589 AATAATAAATAATAAATTTAAG-
1 AATAATAAATAATAAATTTAAGC
* *
51699611 AATAAATATATAATAAATCTAAGC
1 AAT-AATAAATAATAAATTTAAGC
*
51699635 TAATAATACATAA-AAATTTA
1 -AATAATAAATAATAAATTTA
51699655 TGATGTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.08
23 23 0.62
24 8 0.22
25 3 0.08
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (23 bp):
AATAATAAATAATAAATTTAAGC
Found at i:51704169 original size:27 final size:27
Alignment explanation
Indices: 51704139--51704316 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
51704129 ATATTGAGTC
* * * *
51704139 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
51704166 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51704193 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
51704221 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
51704248 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
51704275 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51704302 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51704317 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:51704278 original size:82 final size:81
Alignment explanation
Indices: 51704160--51704315 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
51704150 TGCTATATAA
* *
51704160 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
51704225 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
51704242 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
51704306 CACTTAGTGC
65 CACTTAGTGC
51704316 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:51707966 original size:13 final size:13
Alignment explanation
Indices: 51707948--51707973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51707938 GTTGAATAAA
51707948 GTAATAAAGTGAT
1 GTAATAAAGTGAT
51707961 GTAATAAAGTGAT
1 GTAATAAAGTGAT
51707974 AAGTAAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GTAATAAAGTGAT
Found at i:51733387 original size:17 final size:18
Alignment explanation
Indices: 51733365--51733401 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
51733355 CTAAATTTAC
*
51733365 AACCTTAAACTC-TAAAA
1 AACCTTAAACCCTTAAAA
51733382 AACCTTAAACCCTTAAAA
1 AACCTTAAACCCTTAAAA
51733400 AA
1 AA
51733402 AGGTCGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (18 bp):
AACCTTAAACCCTTAAAA
Found at i:51735202 original size:51 final size:51
Alignment explanation
Indices: 51735078--51735262 Score: 221
Period size: 51 Copynumber: 3.6 Consensus size: 51
51735068 GTGAAAGTGA
* *
51735078 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-AATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGT-AT
* * * * * * *
51735128 AGGTCGCATGTGTAGTACCATGTGCAGACTACTATGCGTATCAGATAGTTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTAT
* * * *
51735179 TGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTAT
*
51735230 TGGTCACATATGTAGTACTATGTGCAGGCTACT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACT
51735263 GTGTGAACTG
Statistics
Matches: 111, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 34 0.31
51 75 0.68
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTAT
Found at i:51735330 original size:45 final size:45
Alignment explanation
Indices: 51735274--51735362 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
51735264 TGTGAACTGA
* * *
51735274 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCT-AATTCCACCGG
1 ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAA-TCCACCGG
51735319 ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCG
1 ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCG
51735363 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (45 bp):
ACATAATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCGG
Found at i:51745854 original size:29 final size:29
Alignment explanation
Indices: 51745791--51745854 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
51745781 TCTTTTTCTC
* * *
51745791 TTAAAAATTGAGTTATTTCTCTAAATATT
1 TTAAAAATTGACTCATTTCCCTAAATATT
* * *
51745820 TAAAAAATTGACTCATTTCCCTAATTTTT
1 TTAAAAATTGACTCATTTCCCTAAATATT
51745849 TTAAAA
1 TTAAAA
51745855 TATGACATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (29 bp):
TTAAAAATTGACTCATTTCCCTAAATATT
Found at i:51749856 original size:23 final size:23
Alignment explanation
Indices: 51749825--51749882 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
51749815 CCAATAGGGG
*
51749825 ACTTTTGTTACTAGTACTCTAGT
1 ACTTATGTTACTAGTACTCTAGT
* * * *
51749848 ACTTCTGTTATTAGTACTTTGGT
1 ACTTATGTTACTAGTACTCTAGT
51749871 ACTTATGTTACT
1 ACTTATGTTACT
51749883 GGCACTACGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.50
Consensus pattern (23 bp):
ACTTATGTTACTAGTACTCTAGT
Found at i:51751203 original size:32 final size:32
Alignment explanation
Indices: 51751162--51751227 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
51751152 ACAATAAATG
*
51751162 TTTGGATAATTACCCTTGAATTTTTGTAGACA
1 TTTGGATAATTACCCTTGAACTTTTGTAGACA
51751194 TTTGGATAATTACCCTTGAACTTTTGTAGACA
1 TTTGGATAATTACCCTTGAACTTTTGTAGACA
51751226 TT
1 TT
51751228 AATTTATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (32 bp):
TTTGGATAATTACCCTTGAACTTTTGTAGACA
Found at i:51753932 original size:12 final size:13
Alignment explanation
Indices: 51753910--51753938 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
51753900 ATGCAAAATT
51753910 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
51753923 AGAAAG-AAAGAA
1 AGAAAGAAAAGAA
51753935 AGAA
1 AGAA
51753939 TTGAATGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:51755285 original size:42 final size:42
Alignment explanation
Indices: 51755223--51755367 Score: 202
Period size: 42 Copynumber: 3.5 Consensus size: 42
51755213 GTGTAACACA
* *
51755223 CCCGTGTGCCAGGCTGTGTAACTCTCTGAGTTGCCCCACATG
1 CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
*
51755265 CCCGTAG-GCTAGGTCGTGTAACTCTCTGAGTTGCCCCACATG
1 CCCGT-GTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
* * *
51755307 CTCGTGTGCTAGGCCGTATAACTCTCTTAGTTGCCCCACATG
1 CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
* *
51755349 CCCATGTGCTAAGCCGTGT
1 CCCGTGTGCTAGGCCGTGT
51755368 GTTAGGCCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.16, C:0.32, G:0.25, T:0.28
Consensus pattern (42 bp):
CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
Found at i:51757003 original size:60 final size:60
Alignment explanation
Indices: 51756905--51757018 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
51756895 GAAAGGACTG
*
51756905 TTCATAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAGGTACTA
1 TTCAGAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAGGTACTA
*
51756965 TTCAGAATAGACTTCGAGAACAATGAAATATGGCTCTACCAAGGAACAATGCAG
1 TTCAGAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAG
51757019 CCATACCCCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.21
Consensus pattern (60 bp):
TTCAGAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAGGTACTA
Found at i:51763383 original size:18 final size:18
Alignment explanation
Indices: 51763362--51763409 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
51763352 AAGAAGTTGA
51763362 TGTTGCAGAAGCA-GAAGT
1 TGTTGCAGAAG-AGGAAGT
*
51763380 TGTTGTAGAAGAGGAAGT
1 TGTTGCAGAAGAGGAAGT
*
51763398 TGTTGCTGAAGA
1 TGTTGCAGAAGA
51763410 AGAGAAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.31, C:0.06, G:0.35, T:0.27
Consensus pattern (18 bp):
TGTTGCAGAAGAGGAAGT
Found at i:51763411 original size:39 final size:36
Alignment explanation
Indices: 51763342--51763420 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 36
51763332 AGAAGACACT
* *
51763342 GTTGTTGAGAAAGAAGTTGATGTTGCAGAAGCAG-AA
1 GTTGTTGAGAAAGAAGTTGATGCTGAAGAAG-AGAAA
*
51763378 GTTGTTGTAGAAGAGGAAGTTGTTGCTGAAGAAGAGAAA
1 GTTGTTG-AGAA-A-GAAGTTGATGCTGAAGAAGAGAAA
51763417 GTTG
1 GTTG
51763421 CTAAAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 7 0.19
37 4 0.11
38 3 0.08
39 22 0.61
ACGTcount: A:0.34, C:0.04, G:0.35, T:0.27
Consensus pattern (36 bp):
GTTGTTGAGAAAGAAGTTGATGCTGAAGAAGAGAAA
Found at i:51763880 original size:17 final size:17
Alignment explanation
Indices: 51763858--51763891 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51763848 GATAAGTATA
*
51763858 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
51763875 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
51763892 AGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:51766772 original size:20 final size:20
Alignment explanation
Indices: 51766710--51766774 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
51766700 AAATGCGTTT
* *
51766710 AGGGGTACTGAAGTACACAC
1 AGGGGTGCTGAAGTACAAAC
* * *
51766730 A-GGG-GCATGTATGTGCAATC
1 AGGGGTGC-TG-AAGTACAAAC
51766750 AGGGGTGCTGAAGTACAAAC
1 AGGGGTGCTGAAGTACAAAC
51766770 AGGGG
1 AGGGG
51766775 CACGTCTATG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 20 0.61
21 5 0.15
22 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.37, T:0.17
Consensus pattern (20 bp):
AGGGGTGCTGAAGTACAAAC
Found at i:51766794 original size:40 final size:40
Alignment explanation
Indices: 51766709--51766860 Score: 138
Period size: 40 Copynumber: 3.9 Consensus size: 40
51766699 TAAATGCGTT
* *
51766709 TAGGGGTACTGAAGTACACACAGGGGCATG-TATGTGC-AA
1 TAGGGGTACTGAAGTACAAACAGGGGCACGTTATGT-CAAA
*
51766748 TCAGGGGTGCTGAAGTACAAACAGGGGCACGTCTATGT-AAA
1 T-AGGGGTACTGAAGTACAAACAGGGGCACGT-TATGTCAAA
* * * *
51766789 TAGGGGT-C-AAAGTACAAAAAAGGGCACG-TATGTCCAAT
1 TAGGGGTACTGAAGTACAAACAGGGGCACGTTATGT-CAAA
* *
51766827 TAGGGGTACCGAAGTACAAATAGGGGCAC-TTATG
1 TAGGGGTACTGAAGTACAAACAGGGGCACGTTATG
51766861 AGCAATCATT
Statistics
Matches: 94, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
36 5 0.05
38 26 0.28
39 3 0.03
40 52 0.55
41 3 0.03
42 5 0.05
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.20
Consensus pattern (40 bp):
TAGGGGTACTGAAGTACAAACAGGGGCACGTTATGTCAAA
Found at i:51772134 original size:42 final size:42
Alignment explanation
Indices: 51772075--51772160 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
51772065 TTTAGTATAA
51772075 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
1 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
51772117 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
1 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
51772159 AA
1 AA
51772161 AGTGCCCCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (42 bp):
AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
Found at i:51777913 original size:20 final size:20
Alignment explanation
Indices: 51777881--51778028 Score: 72
Period size: 20 Copynumber: 7.5 Consensus size: 20
51777871 GGGTACTGAA
*
51777881 GTACAAACAGGGGCACGTAT
1 GTACAATCAGGGGCACGTAT
* * *
51777901 GTGCAATCAGGGGTAC-TGAA
1 GTACAATCAGGGGCACGT-AT
* *
51777921 GTACAAAT-TGGGGCACATAT
1 GTAC-AATCAGGGGCACGTAT
* * * * *
51777941 GTGCAAACAGGGGTA-TTAAA
1 GTACAATCAGGGGCACGT-AT
*
51777961 GTACAAACAGGGGCACGTAT
1 GTACAATCAGGGGCACGTAT
* *
51777981 GTACAATCA-GGGTATCG-AA
1 GTACAATCAGGGGCA-CGTAT
* *
51778000 GTACAAACAAGGGCACGTAT
1 GTACAATCAGGGGCACGTAT
*
51778020 GTGCAATCA
1 GTACAATCA
51778029 TTCAATAATT
Statistics
Matches: 93, Mismatches: 26, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
19 19 0.20
20 69 0.74
21 5 0.05
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (20 bp):
GTACAATCAGGGGCACGTAT
Found at i:51778005 original size:39 final size:40
Alignment explanation
Indices: 51777871--51778028 Score: 221
Period size: 40 Copynumber: 4.0 Consensus size: 40
51777861 ATGCGTTCAA
51777871 GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
1 GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
** * *
51777911 GGGTACTGAAGTACAAATTGGGGCACATATGTGCAAACAG
1 GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
* * *
51777951 GGGTATTAAAGTACAAACAGGGGCACGTATGTACAATCA-
1 GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
*
51777990 GGGTA-TCGAAGTACAAACAAGGGCACGTATGTGCAATCA
1 GGGTACT-GAAGTACAAACAGGGGCACGTATGTGCAATCA
51778029 TTCAATAATT
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 68 0.66
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (40 bp):
GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
Found at i:51780265 original size:29 final size:29
Alignment explanation
Indices: 51780240--51780392 Score: 157
Period size: 29 Copynumber: 5.2 Consensus size: 29
51780230 ACGATGGTTG
*
51780240 TCACCATCCCTTTTCATATTTGATGGTCGA
1 TCACCATCCCTTTTCATAGTTGATGGTC-A
* * *
51780270 -AACCATCCCTTTTCATTAATCGATGGTCA
1 TCACCATCCCTTTTCA-TAGTTGATGGTCA
* * *
51780299 TCACCATCCCTTTTCATAGTCGATAGTAA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
** *
51780328 AAACTATCCCTTTTCATA-TATGATGGTCA
1 TCACCATCCCTTTTCATAGT-TGATGGTCA
* *
51780357 TCACCATCCGTTTTCATAGTTGATGGTCG
1 TCACCATCCCTTTTCATAGTTGATGGTCA
51780386 TCACCAT
1 TCACCAT
51780393 TGTAACACCC
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.01
29 75 0.74
30 25 0.25
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (29 bp):
TCACCATCCCTTTTCATAGTTGATGGTCA
Found at i:51780337 original size:59 final size:59
Alignment explanation
Indices: 51780231--51780376 Score: 188
Period size: 59 Copynumber: 2.5 Consensus size: 59
51780221 AGTGTGCTAA
** * * * **
51780231 CGATGGTTGTCACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCAT-TAAT
1 CGATGGTCATCACCATCCCTTTTCATAGTCGATAGTAAAAACCATCCCTTTTCATAT-AT
*
51780290 CGATGGTCATCACCATCCCTTTTCATAGTCGATAGTAAAAACTATCCCTTTTCATATAT
1 CGATGGTCATCACCATCCCTTTTCATAGTCGATAGTAAAAACCATCCCTTTTCATATAT
*
51780349 -GATGGTCATCACCATCCGTTTTCATAGT
1 CGATGGTCATCACCATCCCTTTTCATAGT
51780377 TGATGGTCGT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
58 27 0.35
59 49 0.64
60 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (59 bp):
CGATGGTCATCACCATCCCTTTTCATAGTCGATAGTAAAAACCATCCCTTTTCATATAT
Found at i:51781846 original size:40 final size:40
Alignment explanation
Indices: 51781794--51782065 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
51781784 ATAACCACAA
* * * *
51781794 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
51781834 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
51781874 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
51781914 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
51781956 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
51781996 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
51782036 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
51782066 GTATTCAAAT
Statistics
Matches: 217, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
40 178 0.82
42 39 0.18
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:51781987 original size:122 final size:122
Alignment explanation
Indices: 51781794--51782073 Score: 458
Period size: 122 Copynumber: 2.3 Consensus size: 122
51781784 ATAACCACAA
* * * *
51781794 GCACAATTGCCTTCGGGTCTTAACCCGGGTATA-G-CAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
* * *
51781857 CCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CCCAGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
51781914 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
*
51781979 CCCAGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
66 CCCAGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
51782036 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAT-TCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAA
51782074 ATGCTCATGC
Statistics
Matches: 149, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
120 30 0.20
121 5 0.03
122 114 0.77
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (122 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
CCCAGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:51784131 original size:29 final size:29
Alignment explanation
Indices: 51784089--51784170 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
51784079 TGTCACAACC
*
51784089 ATCCCTTTTCATAGTCGATGGTCGAAACT
1 ATCCCTTTTCATAGTCGATAGTCGAAACT
*
51784118 ATCCCTTTTCATAGTTGATAGTCGAAACT
1 ATCCCTTTTCATAGTCGATAGTCGAAACT
*
51784147 ATCCCTTTTCATAGTGGATAGTCG
1 ATCCCTTTTCATAGTCGATAGTCG
51784171 TCGATACGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAGTCGATAGTCGAAACT
Found at i:51787269 original size:13 final size:13
Alignment explanation
Indices: 51787251--51787285 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
51787241 ACACGACTGT
51787251 ATGGCTGAGGGAC
1 ATGGCTGAGGGAC
51787264 ATGGCT-ATGGGAC
1 ATGGCTGA-GGGAC
51787277 ATGGCTGAG
1 ATGGCTGAG
51787286 TGGCTAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.23, C:0.14, G:0.43, T:0.20
Consensus pattern (13 bp):
ATGGCTGAGGGAC
Found at i:51788632 original size:26 final size:26
Alignment explanation
Indices: 51788602--51788666 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
51788592 ACAAAACATC
* *
51788602 GGCTCAAAGCCTGCTAAATATTCATT
1 GGCTCAAAGCCTGCTAAATATACACT
*
51788628 GGCTCAAAGCATGCTAAATATACACT
1 GGCTCAAAGCCTGCTAAATATACACT
* *
51788654 GACACAAAGCCTG
1 GGCTCAAAGCCTG
51788667 ATACACTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (26 bp):
GGCTCAAAGCCTGCTAAATATACACT
Found at i:51790441 original size:26 final size:25
Alignment explanation
Indices: 51790399--51790447 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
51790389 AATGCATCTT
* *
51790399 TTTTAAAAACATTTTGGGCTTCTCA
1 TTTTAAAAACATCTTGGGATTCTCA
*
51790424 TTTTAAAAATTATCTTGGGATTCT
1 TTTTAAAAA-CATCTTGGGATTCT
51790448 TGGGTTGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (25 bp):
TTTTAAAAACATCTTGGGATTCTCA
Found at i:51791824 original size:18 final size:19
Alignment explanation
Indices: 51791801--51791839 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
51791791 CTAAATTTCC
*
51791801 AACCTTAAACTC-TAAAAA
1 AACCTTAAACCCTTAAAAA
*
51791819 AACCTTGAACCCTTAAAAA
1 AACCTTAAACCCTTAAAAA
51791838 AA
1 AA
51791840 GGTCGAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.21
Consensus pattern (19 bp):
AACCTTAAACCCTTAAAAA
Found at i:51794770 original size:18 final size:17
Alignment explanation
Indices: 51794742--51794790 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
51794732 TAAATTTCTT
*
51794742 TATATACTTTTTGAAATA
1 TATATAATTTTTGAAA-A
* *
51794760 TTTATAATTTTTTAAAA
1 TATATAATTTTTGAAAA
*
51794777 TATATAAATTTTGA
1 TATATAATTTTTGA
51794791 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TATATAATTTTTGAAAA
Found at i:51794777 original size:19 final size:19
Alignment explanation
Indices: 51794726--51794788 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
51794716 AAAAATTTTC
* *
51794726 ATTTTTTAAATTTCTTTATA
1 ATTTTTTAAA-ATATTTATA
* *
51794746 TACTTTTTGAAATATTTATA
1 -ATTTTTTAAAATATTTATA
*
51794766 ATTTTTTAAAATATATA-A
1 ATTTTTTAAAATATTTATA
51794784 ATTTT
1 ATTTT
51794789 GATTTTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
18 6 0.17
19 14 0.40
20 7 0.20
21 8 0.23
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTTTTAAAATATTTATA
Found at i:51794812 original size:19 final size:19
Alignment explanation
Indices: 51794749--51794855 Score: 74
Period size: 19 Copynumber: 5.3 Consensus size: 19
51794739 CTTTATATAC
* *
51794749 TTTTTGAAA-TATTTATAA
1 TTTTTAAAATTATTTTTAA
*
51794767 TTTTTTAAAATATATAAATTTTGA
1 -TTTTTAAAAT-TAT---TTTTAA
*
51794791 TTTTTATAATTATTTTTAA
1 TTTTTAAAATTATTTTTAA
*
51794810 -TTTTAAACATTATTTTGAA
1 TTTTTAAA-ATTATTTTTAA
*
51794829 TTTTAGAAAATTATTTTGTAA
1 TTTT-TAAAATTATTTT-TAA
51794850 TTTTTA
1 TTTTTA
51794856 TTGAGAGAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
18 6 0.09
19 23 0.33
20 12 0.17
21 12 0.17
22 3 0.04
23 9 0.13
24 4 0.06
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTTAAAATTATTTTTAA
Found at i:51794843 original size:20 final size:19
Alignment explanation
Indices: 51794784--51794853 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
51794774 AAATATATAA
* *
51794784 ATTTTG-ATTTTTATAATT
1 ATTTTGAATTTTAAAAATT
* *
51794802 ATTTTTAATTTTAAACATT
1 ATTTTGAATTTTAAAAATT
51794821 ATTTTGAATTTTAGAAAATT
1 ATTTTGAATTTTA-AAAATT
51794841 ATTTTGTAATTTT
1 ATTTTG-AATTTT
51794854 TATTGAGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 5 0.12
19 21 0.49
20 11 0.26
21 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:51796976 original size:23 final size:23
Alignment explanation
Indices: 51796946--51797003 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
51796936 GCAATAGGAG
*
51796946 ACTTTTGTTACTAGTACTCTGGT
1 ACTTTTGTTACTAGTACTCTAGT
* *
51796969 ACTTTTGTTATTAGTACTTTAGT
1 ACTTTTGTTACTAGTACTCTAGT
*
51796992 ACTTATGTTACT
1 ACTTTTGTTACT
51797004 GGCACTTCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (23 bp):
ACTTTTGTTACTAGTACTCTAGT
Found at i:51814037 original size:138 final size:138
Alignment explanation
Indices: 51813780--51814041 Score: 418
Period size: 138 Copynumber: 1.9 Consensus size: 138
51813770 TTTATTAAAT
51813780 ATTTTGATGTTTGGCTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
1 ATTTTGATGTTTGGCTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
* ** * *
51813845 CTATGGGCTAATACGAGTTAATGTTGAAAATATGACTAAATTCATAAAGTGTCAAAGTTAATTTG
66 CTATAGGCTAATAAAAGTTAATGTTGAAAATATGACTAAATTCAAAAAGGGTCAAAGTTAATTTG
51813910 GTTTGTTA
131 GTTTGTTA
* *
51813918 ATTTTGATGTTTGGCTAGTTAATTAAAGAAAATGACTAAATCGTAAAAATTGTAAAAGTTAATCG
1 ATTTTGATGTTTGGCTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
* * *
51813983 CTATAGGCTAATAAAAGTTAATTTTGAAAAT-TAGACTAATTTGAAAAAGGGTCAAAGTT
66 CTATAGGCTAATAAAAGTTAATGTTGAAAATAT-GACTAAATTCAAAAAGGGTCAAAGTT
51814042 GTGAGTTTTT
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
137 1 0.01
138 112 0.99
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (138 bp):
ATTTTGATGTTTGGCTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
CTATAGGCTAATAAAAGTTAATGTTGAAAATATGACTAAATTCAAAAAGGGTCAAAGTTAATTTG
GTTTGTTA
Found at i:51823224 original size:14 final size:14
Alignment explanation
Indices: 51823207--51823235 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51823197 ATTGAATGAT
51823207 ATTGATTGATACCA
1 ATTGATTGATACCA
51823221 ATTGATTGATACCA
1 ATTGATTGATACCA
51823235 A
1 A
51823236 CACCATGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (14 bp):
ATTGATTGATACCA
Found at i:51825436 original size:19 final size:19
Alignment explanation
Indices: 51825412--51825458 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
51825402 AAATACTTAT
51825412 AATTTACATAACCAAAACC
1 AATTTACATAACCAAAACC
* *
51825431 AATTTACATAACCGAAACT
1 AATTTACATAACCAAAACC
*
51825450 TATTTACAT
1 AATTTACAT
51825459 GCCACTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (19 bp):
AATTTACATAACCAAAACC
Found at i:51827419 original size:26 final size:26
Alignment explanation
Indices: 51827353--51827419 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
51827343 GATCCCGACC
* * **
51827353 CACAGCTTGTGTGAACAGGCTCATTT
1 CACAGCTCGTGTGAGCAAACTCATTT
*
51827379 CAAAGCTCGTGTGAGCAAACTCATTT
1 CACAGCTCGTGTGAGCAAACTCATTT
51827405 CACAGCTCGTGTGAG
1 CACAGCTCGTGTGAG
51827420 GAAAAATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAACTCATTT
Found at i:51829263 original size:26 final size:26
Alignment explanation
Indices: 51829208--51829263 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
51829198 AATTGACTTG
* * * *
51829208 AAGCCTGCTAAATATACACGATCTCG
1 AAGCATGCTAAATATAAACGATCACA
51829234 AAGCATGCTAAATATAAACTGA-CACA
1 AAGCATGCTAAATATAAAC-GATCACA
51829260 AAGC
1 AAGC
51829264 GTGATACACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (26 bp):
AAGCATGCTAAATATAAACGATCACA
Found at i:51831548 original size:49 final size:49
Alignment explanation
Indices: 51831486--51831608 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
51831476 TCTAGTTCAT
* * * * *
51831486 GTGGTTATATGGTCATGGGTTGAAGTATAAGTA-GGGGTCCTAGTTGACG
1 GTGGTTATGTGGTCATGAGTTGAAGTATAAATATGGAG-CCCAGTTGACG
* * * *
51831535 GTGGTTATGTGGTCACGTGTTGGAGTATAAATATGGAGCCCAGTTGATG
1 GTGGTTATGTGGTCATGAGTTGAAGTATAAATATGGAGCCCAGTTGACG
* *
51831584 GTGG-TATGTAGTCATGAGTTCAAGT
1 GTGGTTATGTGGTCATGAGTTGAAGT
51831609 TTCATGCTAC
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
48 16 0.27
49 41 0.68
50 3 0.05
ACGTcount: A:0.23, C:0.09, G:0.35, T:0.33
Consensus pattern (49 bp):
GTGGTTATGTGGTCATGAGTTGAAGTATAAATATGGAGCCCAGTTGACG
Found at i:51832358 original size:26 final size:26
Alignment explanation
Indices: 51832329--51832378 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
51832319 GAAATATGTG
51832329 GGTCTCCAAGAACTATTGCATCACTA
1 GGTCTCCAAGAACTATTGCATCACTA
51832355 GGTCTCCAAGAACTATTGCATCAC
1 GGTCTCCAAGAACTATTGCATCAC
51832379 CGTTAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (26 bp):
GGTCTCCAAGAACTATTGCATCACTA
Found at i:51838153 original size:50 final size:50
Alignment explanation
Indices: 51838087--51838232 Score: 166
Period size: 50 Copynumber: 2.9 Consensus size: 50
51838077 AATAATAACA
* * ** *
51838087 TGCCAAAGCCATGTCCCTGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *** *
51838137 TGCCCATGCCATGTCCCAGACATTGTCTTATGGGGGACCTCTCATCTAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
51838187 TGCCAACGCCATGTCCCAGACATGGTCTTCCATGAGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
51838233 ACCTCAATAA
Statistics
Matches: 76, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:51842693 original size:25 final size:25
Alignment explanation
Indices: 51842659--51842708 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
51842649 GTTCATAATG
51842659 ATAACTTAACCAAATTAATCCTAAC
1 ATAACTTAACCAAATTAATCCTAAC
51842684 ATAACTTAACCAAATTAATCCTAAC
1 ATAACTTAACCAAATTAATCCTAAC
51842709 CAATCCCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (25 bp):
ATAACTTAACCAAATTAATCCTAAC
Found at i:51842710 original size:15 final size:15
Alignment explanation
Indices: 51842665--51842711 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
51842655 AATGATAACT
51842665 TAACCAAATTAATCC
1 TAACCAAATTAATCC
*
51842680 TAA-C--A-TAA-CT
1 TAACCAAATTAATCC
51842690 TAACCAAATTAATCC
1 TAACCAAATTAATCC
51842705 TAACCAA
1 TAACCAA
51842712 TCCCTATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
10 4 0.16
11 4 0.16
12 1 0.04
13 1 0.04
14 4 0.16
15 11 0.44
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
TAACCAAATTAATCC
Found at i:51855102 original size:23 final size:23
Alignment explanation
Indices: 51855073--51855194 Score: 127
Period size: 23 Copynumber: 5.3 Consensus size: 23
51855063 ATAAGTGCCA
51855073 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
51855096 CACTGATATGTGGTCGTAGCTAG
1 CACTGATATGTAGCCGAAGCTAC
* *
51855119 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
51855142 AACTAATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * **
51855165 CACTTAAACATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
51855188 CACTGAT
1 CACTGAT
51855195 CAATAACACT
Statistics
Matches: 76, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:51855151 original size:46 final size:46
Alignment explanation
Indices: 51855073--51855187 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 46
51855063 ATAAGTGCCA
* * * * * *
51855073 CACTGATATGTAGCCGAAGCTACCACTGATATGTGGTCGTAGCTAG
1 CACTGAAATGTAGCCGAAGCTACAACTAATATGTAGCCGTAGCTAC
*
51855119 CACTGAAATGTAGCCGAAGTTACAACTAATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACAACTAATATGTAGCCGTAGCTAC
* **
51855165 CACTTAAACATAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
51855188 CACTGATCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACAACTAATATGTAGCCGTAGCTAC
Found at i:51862541 original size:30 final size:31
Alignment explanation
Indices: 51862507--51862611 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 31
51862497 AGAATCAGTC
** * *
51862507 TGGGCCTA-AGCCTTATACAATAGCAGTGTG
1 TGGGCCTATAGCCCAATACAATAACAGAGTG
*
51862537 TGGGCC-ATAGCCCAATACAGTAACAGAGTG
1 TGGGCCTATAGCCCAATACAATAACAGAGTG
* * *
51862567 TGGGCCT-TAGTCCAATATAGTAACAGAGTG
1 TGGGCCTATAGCCCAATACAATAACAGAGTG
51862597 TGGGCCT-TAGCCCAA
1 TGGGCCTATAGCCCAA
51862612 AATAGTAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
29 1 0.02
30 64 0.98
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (31 bp):
TGGGCCTATAGCCCAATACAATAACAGAGTG
Found at i:51862617 original size:30 final size:30
Alignment explanation
Indices: 51862534--51862619 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
51862524 CAATAGCAGT
* *
51862534 GTGTGGGCCATAGCCCAATACAGTAACAGA
1 GTGTGGGCCTTAGCCCAATATAGTAACAGA
*
51862564 GTGTGGGCCTTAGTCCAATATAGTAACAGA
1 GTGTGGGCCTTAGCCCAATATAGTAACAGA
*
51862594 GTGTGGGCCTTAGCCCAAAATAGTAA
1 GTGTGGGCCTTAGCCCAATATAGTAA
51862620 TCACTACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATATAGTAACAGA
Found at i:51862776 original size:52 final size:52
Alignment explanation
Indices: 51862696--51862797 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
51862686 ACCAATATCA
* *
51862696 CAGCAAAGCTGCCAATATCAGTAACGCAGCAAAGCTACTAGTAATAGTATAG
1 CAGCAAAGCTGCCAATATCAGTAACGCAGCAAAGCTACCAGTAACAGTATAG
* * * *
51862748 CAGCAAAGCTTCCAGTATCAGTATCGCAGCAAAGCTGCCAGTAACAGTAT
1 CAGCAAAGCTGCCAATATCAGTAACGCAGCAAAGCTACCAGTAACAGTAT
51862798 TTGTGGCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (52 bp):
CAGCAAAGCTGCCAATATCAGTAACGCAGCAAAGCTACCAGTAACAGTATAG
Found at i:51862797 original size:26 final size:26
Alignment explanation
Indices: 51862691--51862797 Score: 124
Period size: 26 Copynumber: 4.1 Consensus size: 26
51862681 AACACACCAA
* * *
51862691 TATCACAGCAAAGCTGCCAATATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * * *
51862717 TAACGCAGCAAAGCTACTAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
51862743 TATAGCAGCAAAGCTTCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
51862769 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
51862795 TAT
1 TAT
51862798 TTGTGGCAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:51863144 original size:80 final size:81
Alignment explanation
Indices: 51863006--51863161 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 81
51862996 TACCTCTCGG
* * *
51863006 GGGTATTTCGATAATTTTAACCTTCGAGGGTATTTCAGAAACTCTACCTTTCGAGGGTATTTTGA
1 GGGTATTTCGATAATTTTAACCTTCGAAGATATTTCAGAAACTCTACCCTTCGAGGGTATTTTGA
51863071 TAATTTGACCCTTCGA
66 TAATTTGACCCTTCGA
* * * *
51863087 GGGT-TTTCGATAATTTTATCCTTTGAAGATATTTC-GATAATTTTACCCTTCGAGGGTATTTTG
1 GGGTATTTCGATAATTTTAACCTTCGAAGATATTTCAGA-AACTCTACCCTTCGAGGGTATTTTG
* *
51863150 GTAATTTTACCC
65 ATAATTTGACCC
51863162 ACGAATCGCA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.03
80 59 0.91
81 4 0.06
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.42
Consensus pattern (81 bp):
GGGTATTTCGATAATTTTAACCTTCGAAGATATTTCAGAAACTCTACCCTTCGAGGGTATTTTGA
TAATTTGACCCTTCGA
Found at i:51863161 original size:27 final size:27
Alignment explanation
Indices: 51862992--51863161 Score: 184
Period size: 27 Copynumber: 6.3 Consensus size: 27
51862982 TATAATGGTC
*
51862992 ATTTTA-CCTCTCGGGGGTATTTCGATA
1 ATTTTACCCT-TCGAGGGTATTTCGATA
*
51863019 ATTTTAACCTTCGAGGGTATTTCAGA-A
1 ATTTTACCCTTCGAGGGTATTTC-GATA
* * * *
51863046 ACTCTACCTTTCGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
51863073 ATTTGACCCTTCGAGGGT-TTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * * *
51863099 ATTTTATCCTTTGAAGATATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
51863126 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
51863153 ATTTTACCC
1 ATTTTACCC
51863162 ACGAATCGCA
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 22 0.19
27 90 0.77
28 5 0.04
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:51867132 original size:16 final size:15
Alignment explanation
Indices: 51867105--51867138 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
51867095 ATAACTAGTA
*
51867105 TATAATTATATTTAT
1 TATAATTATATTAAT
51867120 TATAATATATATTAAT
1 TATAAT-TATATTAAT
51867136 TAT
1 TAT
51867139 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:51870900 original size:27 final size:25
Alignment explanation
Indices: 51870870--51870940 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 25
51870860 TATTTTGGTC
51870870 ATTTTACCCTTCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTC-A-A
** * *
51870897 ATTTTACCCTTTTAAGGTATTTCAG
1 ATTTTACCCTTCGAGGGTATTTCAA
*
51870922 ATTTTACCCTTCGGGGGTA
1 ATTTTACCCTTCGAGGGTA
51870941 ATTCGATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 15 0.42
26 1 0.03
27 20 0.56
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTTCGAGGGTATTTCAA
Found at i:51872490 original size:25 final size:25
Alignment explanation
Indices: 51872453--51872506 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
51872443 TGAACCTCTG
* * *
51872453 ACCTTCTTACCACACTTGTGACGCC
1 ACCTCCTTACCACACCTATGACGCC
* *
51872478 ACCTCCTTGCCACACCTATGTCGCC
1 ACCTCCTTACCACACCTATGACGCC
51872503 ACCT
1 ACCT
51872507 TGCCACTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.44, G:0.11, T:0.26
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:51903040 original size:30 final size:30
Alignment explanation
Indices: 51902983--51903042 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51902973 GCTTTTTGAA
* *
51902983 AATATTCACAAAAAGAGGCATCTAATTTTT
1 AATATTCACAAAAAGAGGCACCAAATTTTT
*
51903013 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTCACAAAAAGAGGC-ACCAAATTTTT
51903043 TAAAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTCACAAAAAGAGGCACCAAATTTTT
Found at i:51912759 original size:6 final size:6
Alignment explanation
Indices: 51912751--51912785 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
51912741 GTGTCAGCAT
*
51912751 TTACAT TTACAA TTACAA TTACAA TTACAA TTACA
1 TTACAA TTACAA TTACAA TTACAA TTACAA TTACA
51912786 GACACACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (6 bp):
TTACAA
Found at i:51914809 original size:43 final size:43
Alignment explanation
Indices: 51914655--51914811 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
51914645 AGTATGTACA
* * * *
51914655 ATTCGAAAATAGGGTCACAC-GCCCGTGCCACCAAACCATGTGCA
1 ATTCG-AAATAGGGTCACACAG-TCGTGTCGCCAAACCATGTGCC
* * **
51914699 ACTT-GAAATAGGATCACACAGTCATGTCGCCAAACTGTGTGCC
1 A-TTCGAAATAGGGTCACACAGTCGTGTCGCCAAACCATGTGCC
*
51914742 ATTCGAAATAGGGTCACACGGTCGTGTCGCCAAACCATGTGCC
1 ATTCGAAATAGGGTCACACAGTCGTGTCGCCAAACCATGTGCC
* **
51914785 ATTCAAAATAGGGTCACATTGTCGTGT
1 ATTCGAAATAGGGTCACACAGTCGTGT
51914812 AACAACAGGT
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 87 0.93
44 3 0.03
45 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (43 bp):
ATTCGAAATAGGGTCACACAGTCGTGTCGCCAAACCATGTGCC
Found at i:51921793 original size:22 final size:22
Alignment explanation
Indices: 51921752--51921797 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
51921742 CACTTTCATA
51921752 TTCATCTTCATACTCAAGTCTC
1 TTCATCTTCATACTCAAGTCTC
*
51921774 TTCACTCTTCATATTC-AGTCTC
1 TTCA-TCTTCATACTCAAGTCTC
51921796 TT
1 TT
51921798 TGACATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.20, C:0.30, G:0.04, T:0.46
Consensus pattern (22 bp):
TTCATCTTCATACTCAAGTCTC
Found at i:51925937 original size:15 final size:17
Alignment explanation
Indices: 51925919--51925951 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
51925909 AAACAAAGAA
51925919 AATGAAAA-AG-AATAT
1 AATGAAAAGAGAAATAT
51925934 AATGAAAAGAGAAATAT
1 AATGAAAAGAGAAATAT
51925951 A
1 A
51925952 TTTTTTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (17 bp):
AATGAAAAGAGAAATAT
Found at i:51929170 original size:19 final size:18
Alignment explanation
Indices: 51929136--51929192 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
51929126 ATTATTCTAG
*
51929136 AAAATTTTTCATTTTTTT
1 AAAATTTTTTATTTTTTT
51929154 AAAATTTATTTATTTTTTT
1 AAAATTT-TTTATTTTTTT
*
51929173 GAAATTTTTATAATTTTTTT
1 AAAATTTTT-T-ATTTTTTT
51929193 GAATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.26
19 17 0.50
20 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
AAAATTTTTTATTTTTTT
Found at i:51929197 original size:19 final size:19
Alignment explanation
Indices: 51929165--51929235 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
51929155 AAATTTATTT
51929165 ATTTTTTTGAAATTTTTATA
1 ATTTTTTTG-AATTTTTATA
* *
51929185 ATTTTTTTGAATTTTAAAA
1 ATTTTTTTGAATTTTTATA
* *
51929204 ATTATTTTGAATTATTTTGTA
1 ATTTTTTTGAA-T-TTTTATA
51929225 ATTTTTATTGA
1 ATTTTT-TTGA
51929236 GAGAGACCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 18 0.44
20 10 0.24
21 9 0.22
22 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
ATTTTTTTGAATTTTTATA
Found at i:51956052 original size:6 final size:6
Alignment explanation
Indices: 51956044--51956078 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
51956034 GTGTCAGCAT
*
51956044 TTACAT TTACAA TTACAA TTACAA TTACAA TTACA
1 TTACAA TTACAA TTACAA TTACAA TTACAA TTACA
51956079 GACACACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (6 bp):
TTACAA
Found at i:51958103 original size:43 final size:43
Alignment explanation
Indices: 51957949--51958105 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
51957939 AGTATGTACA
* * * *
51957949 ATTCGAAAATAGGGTCACAC-GCCCGTGCCACCAAACCATGTGCA
1 ATTCG-AAATAGGGTCACACAG-TCGTGTCGCCAAACCATGTGCC
* * **
51957993 ACTT-GAAATAGGATCACACAGTCATGTCGCCAAACTGTGTGCC
1 A-TTCGAAATAGGGTCACACAGTCGTGTCGCCAAACCATGTGCC
*
51958036 ATTCGAAATAGGGTCACACGGTCGTGTCGCCAAACCATGTGCC
1 ATTCGAAATAGGGTCACACAGTCGTGTCGCCAAACCATGTGCC
* **
51958079 ATTCAAAATAGGGTCACATTGTCGTGT
1 ATTCGAAATAGGGTCACACAGTCGTGT
51958106 AACAACAGGT
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 87 0.93
44 3 0.03
45 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (43 bp):
ATTCGAAATAGGGTCACACAGTCGTGTCGCCAAACCATGTGCC
Found at i:51965165 original size:23 final size:23
Alignment explanation
Indices: 51965136--51965183 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
51965126 ACTTTTCATA
51965136 TTCACTCTTCATACTCAAGTCTC
1 TTCACTCTTCATACTCAAGTCTC
*
51965159 TTCACTCTTCATATTCAAGTCTC
1 TTCACTCTTCATACTCAAGTCTC
51965182 TT
1 TT
51965184 TACATTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.31, G:0.04, T:0.44
Consensus pattern (23 bp):
TTCACTCTTCATACTCAAGTCTC
Found at i:51965861 original size:37 final size:37
Alignment explanation
Indices: 51965820--51965893 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
51965810 GTGATTGGAG
51965820 TAAGGTTTCTCCATGAATCTACTCACCAAGCTAACAA
1 TAAGGTTTCTCCATGAATCTACTCACCAAGCTAACAA
51965857 TAAGGTTTCTCCATGAATCTACTCACCAAGCTAACAA
1 TAAGGTTTCTCCATGAATCTACTCACCAAGCTAACAA
51965894 CATACACGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (37 bp):
TAAGGTTTCTCCATGAATCTACTCACCAAGCTAACAA
Found at i:51966350 original size:21 final size:20
Alignment explanation
Indices: 51966324--51966368 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
51966314 AGGATGATTG
51966324 CTTCAACCCGTACAAAGTTTT
1 CTTCAACCCGTA-AAAGTTTT
** *
51966345 CTTCAACTTGTAAAATTTTT
1 CTTCAACCCGTAAAAGTTTT
51966365 CTTC
1 CTTC
51966369 TTCTCCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (20 bp):
CTTCAACCCGTAAAAGTTTT
Found at i:51969359 original size:15 final size:17
Alignment explanation
Indices: 51969341--51969373 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
51969331 AAACAAAGAA
51969341 AATGAAAA-AG-AATAT
1 AATGAAAAGAGAAATAT
51969356 AATGAAAAGAGAAATAT
1 AATGAAAAGAGAAATAT
51969373 A
1 A
51969374 TTTTTTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (17 bp):
AATGAAAAGAGAAATAT
Found at i:51972691 original size:19 final size:18
Alignment explanation
Indices: 51972657--51972713 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
51972647 ATTATTCTAG
*
51972657 AAAATTTTTCATTTTTTT
1 AAAATTTTTTATTTTTTT
51972675 AAAATTTATTTATTTTTTT
1 AAAATTT-TTTATTTTTTT
*
51972694 GAAATTTTTATAATTTTTTT
1 AAAATTTTT-T-ATTTTTTT
51972714 GAATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.26
19 17 0.50
20 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
AAAATTTTTTATTTTTTT
Found at i:51972718 original size:19 final size:19
Alignment explanation
Indices: 51972686--51972756 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
51972676 AAATTTATTT
51972686 ATTTTTTTGAAATTTTTATA
1 ATTTTTTTG-AATTTTTATA
* *
51972706 ATTTTTTTGAATTTTAAAA
1 ATTTTTTTGAATTTTTATA
* *
51972725 ATTATTTTGAATTATTTTGTA
1 ATTTTTTTGAA-T-TTTTATA
51972746 ATTTTTATTGA
1 ATTTTT-TTGA
51972757 GAGAGACCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 18 0.44
20 10 0.24
21 9 0.22
22 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
ATTTTTTTGAATTTTTATA
Found at i:51974117 original size:19 final size:19
Alignment explanation
Indices: 51974085--51974121 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
51974075 TTTTTAATAT
51974085 TTTCCCTCCAAACTATTTAC
1 TTTCCCTCCAAACT-TTTAC
51974105 TTTCCCT-CAAACTTTTA
1 TTTCCCTCCAAACTTTTA
51974122 TTCTCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCCCTCCAAACTTTTAC
Found at i:51979212 original size:15 final size:15
Alignment explanation
Indices: 51979192--51979220 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51979182 CATGTAGAAA
51979192 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
51979207 TTAAATTAAACTAA
1 TTAAATTAAACTAA
51979221 TGTAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:51980450 original size:42 final size:41
Alignment explanation
Indices: 51980404--51980484 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 41
51980394 ATGGTAAATC
* *
51980404 CAACAACCCATGTTTATCTTCTCCTCTTTTTAAATTCTTTAT
1 CAACAACCCAAGATTATCTTCTCCT-TTTTTAAATTCTTTAT
*
51980446 CAACAACTCAAGATTATCTTCTCCTTTTTTAAATTCTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTTAAATTCTTT
51980485 TTTTCTAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 14 0.39
42 22 0.61
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (41 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTTAAATTCTTTAT
Found at i:51982067 original size:4 final size:4
Alignment explanation
Indices: 51982058--51982090 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
51982048 CAATTTCAAC
*
51982058 CATT CATT CATT CATT CATT CATT CACT CATT C
1 CATT CATT CATT CATT CATT CATT CATT CATT C
51982091 GCTCATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (4 bp):
CATT
Found at i:51991421 original size:144 final size:144
Alignment explanation
Indices: 51991129--51991423 Score: 459
Period size: 144 Copynumber: 2.0 Consensus size: 144
51991119 AACTTTTGTT
** *
51991129 TTTTTTTTAAAAGGAGAGTTTTAATTTTTAAAATAAAAATCTATTTTTTAGTCATTTTAAAGGAA
1 TTTTTTTTAAAAGGAGAAATTTAATTTTTAAAATAAAAATATATTTTTTAGTCATTTTAAAGGAA
*
51991194 AGATTAAAATTTTAAAATAAAGTTTTGAGTTTTTTCAACTATTTCGAAATAAAATTTTTGATCTT
66 AGATTAAAATTTTAAAATAAAGTTTTGAG-TTTTTCAACTATTTCGAAATAAAAGTTTTGATCTT
51991259 TATGAAAAGTAGTGA
130 TATGAAAAGTAGTGA
** * *
51991274 TTTTTTTTAAAA-GAGAAATTTAGATTTTTAAAAATGTAAATATGTTTTTTAGTCATTTTAAATG
1 TTTTTTTTAAAAGGAGAAATTTA-ATTTTT-AAAATAAAAATATATTTTTTAGTCATTTTAAAGG
* *
51991338 AAAGTTTAAAATTTTTAAATAAAGTTTTGA-TTTTTCAACTATTTCGAAATAAAAGTTTTGATCT
64 AAAGATTAAAATTTTAAAATAAAGTTTTGAGTTTTTCAACTATTTCGAAATAAAAGTTTTGATCT
51991402 TTATGAAAAGTAGTGA
129 TTATGAAAAGTAGTGA
51991418 TTTTTT
1 TTTTTT
51991424 AAAAGAAAAA
Statistics
Matches: 138, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
144 63 0.46
145 18 0.13
146 57 0.41
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (144 bp):
TTTTTTTTAAAAGGAGAAATTTAATTTTTAAAATAAAAATATATTTTTTAGTCATTTTAAAGGAA
AGATTAAAATTTTAAAATAAAGTTTTGAGTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTT
ATGAAAAGTAGTGA
Found at i:51992758 original size:27 final size:27
Alignment explanation
Indices: 51992710--51992954 Score: 112
Period size: 27 Copynumber: 9.1 Consensus size: 27
51992700 TCGATATCTG
* * * *
51992710 GACCGAAATACCCCCAAAGGGTAAAAT
1 GACCAAAATACCCTCGATGGGTAAAAT
* * *
51992737 GACCCAAATATCTTCGATGGGTAAAAT
1 GACCAAAATACCCTCGATGGGTAAAAT
*
51992764 GACCAAAATACCCTCGATGCGTAAAAT
1 GACCAAAATACCCTCGATGGGTAAAAT
* * *
51992791 AACTAAAA-AGCCC-CCATAGGGTAAAAT
1 GACCAAAATA-CCCTCGAT-GGGTAAAAT
* * *
51992818 GACCGAAATACCCCCG-TAGGGTAGAAT
1 GACCAAAATACCCTCGAT-GGGTAAAAT
* *
51992845 -ACCAAAACACCC-CCATAGGGTAAAAT
1 GACCAAAATACCCTCGAT-GGGTAAAAT
* * ** * *
51992871 CATCGTAATACCCTTG-TAGGGCAAAAT
1 GACCAAAATACCCTCGAT-GGGTAAAAT
**
51992898 GACCGTAATA-CCTCTG-TAGGGTAAAAT
1 GACCAAAATACCCTC-GAT-GGGTAAAAT
* * *
51992925 GACCATAATGCCCTTG-TAGGGTAAAAT
1 GACCAAAATACCCTCGAT-GGGTAAAAT
51992952 GAC
1 GAC
51992955 TTTAATATCC
Statistics
Matches: 172, Mismatches: 37, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.01
26 27 0.16
27 139 0.81
28 5 0.03
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (27 bp):
GACCAAAATACCCTCGATGGGTAAAAT
Found at i:51992813 original size:54 final size:53
Alignment explanation
Indices: 51992755--51992870 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 53
51992745 TATCTTCGAT
* *
51992755 GGGTAAAATGACCAAAATACCCTCG-ATGCGTAAAATAACTAAAA-AGCCCCCATA
1 GGGTAAAATGACCAAAATACCCCCGTA-GCGTAAAAT-ACCAAAACA-CCCCCATA
* * *
51992809 GGGTAAAATGACCGAAATACCCCCGTAGGGTAGAATACCAAAACACCCCCATA
1 GGGTAAAATGACCAAAATACCCCCGTAGCGTAAAATACCAAAACACCCCCATA
51992862 GGGTAAAAT
1 GGGTAAAAT
51992871 CATCGTAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
53 23 0.42
54 31 0.56
55 1 0.02
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (53 bp):
GGGTAAAATGACCAAAATACCCCCGTAGCGTAAAATACCAAAACACCCCCATA
Found at i:51992856 original size:26 final size:27
Alignment explanation
Indices: 51992710--51992870 Score: 114
Period size: 27 Copynumber: 6.0 Consensus size: 27
51992700 TCGATATCTG
* * *
51992710 GACCGAAATACCCCCAAAGGGTAAAAT
1 GACCAAAACACCCCCATAGGGTAAAAT
* * ** *
51992737 GACCCAAATATCTTCGAT-GGGTAAAAT
1 GACCAAAACA-CCCCCATAGGGTAAAAT
* * *
51992764 GACCAAAATACCCTCGAT-GCGTAAAAT
1 GACCAAAACACCC-CCATAGGGTAAAAT
* *
51992791 AACTAAAA-AGCCCCCATAGGGTAAAAT
1 GACCAAAACA-CCCCCATAGGGTAAAAT
* * * *
51992818 GACCGAAATACCCCCGTAGGGTAGAAT
1 GACCAAAACACCCCCATAGGGTAAAAT
51992845 -ACCAAAACACCCCCATAGGGTAAAAT
1 GACCAAAACACCCCCATAGGGTAAAAT
51992871 CATCGTAATA
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
26 27 0.25
27 76 0.71
28 4 0.04
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (27 bp):
GACCAAAACACCCCCATAGGGTAAAAT
Found at i:51992939 original size:54 final size:53
Alignment explanation
Indices: 51992806--51993205 Score: 392
Period size: 54 Copynumber: 7.5 Consensus size: 53
51992796 AAAAGCCCCC
* * ** * ** * *
51992806 ATAGGGTAAAATGACCGAAATACCCCCGTAGGGTAGAAT-ACCAAAACACCCCC
1 ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATA-CCCT
* * * *
51992859 ATAGGGTAAAATCATCGTAATACCCTTGTAGGGCAAAATGACCGTAATACCTCT
1 ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACC-CT
* * **
51992913 GTAGGGTAAAATGACCATAATGCCCTTGTAGGGTAAAATGACTTTAATATCCC-
1 ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATA-CCCT
* * * * *
51992966 ATAGGGTAAAATGACTGTAATACCCTTGT-GGGTAAAATAACTGTAATGCCCT
1 ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCT
* * * * * *
51993018 GTAGGGTAAAATGACCGTAATACCCCTGTAGGATAAAATAACCGTAATGCCCTT
1 ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCC-T
* * * * *
51993072 GTAGGGTAAAATAACCATAATGCCCCTGTAGGGTAAAATGATCGTAATACCCCT
1 ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATA-CCCT
* *
51993126 ATAGGGTAAAATGACCGTAATGCCCTTATAGGGTAAAATGACCATAATACCCCT
1 ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATA-CCCT
**
51993180 ATAGGGTAAAATGACATTAATGCCCT
1 ATAGGGTAAAATGACCGTAATGCCCT
51993206 GATGGGTAAA
Statistics
Matches: 293, Mismatches: 47, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
51 3 0.01
52 42 0.14
53 79 0.27
54 164 0.56
55 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (53 bp):
ATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCT
Found at i:51992960 original size:27 final size:27
Alignment explanation
Indices: 51992860--51993205 Score: 351
Period size: 27 Copynumber: 12.9 Consensus size: 27
51992850 AACACCCCCA
* * *
51992860 TAGGGTAAAATCATCGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCTTG
* *
51992887 TAGGGCAAAATGACCGTAAT-ACCTCTG
1 TAGGGTAAAATGACCGTAATGCCCT-TG
*
51992914 TAGGGTAAAATGACCATAATGCCCTTG
1 TAGGGTAAAATGACCGTAATGCCCTTG
** * *
51992941 TAGGGTAAAATGACTTTAATATCCC--A
1 TAGGGTAAAATGACCGTAAT-GCCCTTG
* *
51992967 TAGGGTAAAATGACTGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCTTG
* *
51992994 T-GGGTAAAATAACTGTAATGCCC-TG
1 TAGGGTAAAATGACCGTAATGCCCTTG
* *
51993019 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCTTG
* *
51993046 TAGGATAAAATAACCGTAATGCCCTTG
1 TAGGGTAAAATGACCGTAATGCCCTTG
* * *
51993073 TAGGGTAAAATAACCATAATGCCCCTG
1 TAGGGTAAAATGACCGTAATGCCCTTG
* * * *
51993100 TAGGGTAAAATGATCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATGCCCTTG
*
51993127 TAGGGTAAAATGACCGTAATGCCCTTA
1 TAGGGTAAAATGACCGTAATGCCCTTG
* * * *
51993154 TAGGGTAAAATGACCATAATACCCCTA
1 TAGGGTAAAATGACCGTAATGCCCTTG
**
51993181 TAGGGTAAAATGACATTAATGCCCT
1 TAGGGTAAAATGACCGTAATGCCCT
51993206 GATGGGTAAA
Statistics
Matches: 271, Mismatches: 41, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
25 6 0.02
26 61 0.23
27 198 0.73
28 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATGCCCTTG
Found at i:51993118 original size:81 final size:81
Alignment explanation
Indices: 51992801--51993193 Score: 438
Period size: 81 Copynumber: 4.9 Consensus size: 81
51992791 AACTAAAAAG
* * * ** * * ** **
51992801 CCCCCATAGGGTAAAATGACCGAAATACCCCCGTAGGGTAGAAT-ACCAAAACACCCCCATAGGG
1 CCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCCTGTAGGG
*
51992865 TAAAATCATCGTAATA
66 TAAAATGATCGTAATA
* * * * * *
51992881 CCCTTGTAGGGCAAAATGACCGTAAT-ACCTCTGTAGGGTAAAATGACCATAATGCCCTTGTAGG
1 CCCCTATAGGGTAAAATGACCGTAATGCCCT-TGTAGGGTAAAATAACCATAATGCCCCTGTAGG
*
51992945 GTAAAATGA-CTTTAATA
65 GTAAAATGATC-GTAATA
* * * **
51992962 TCCC-ATAGGGTAAAATGACTGTAATACCCTTGT-GGGTAAAATAACTGTAATG-CCCTGTAGGG
1 CCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCCTGTAGGG
*
51993024 TAAAATGACCGTAATA
66 TAAAATGATCGTAATA
* * *
51993040 CCCCTGTAGGATAAAATAACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCCTGTAGGG
1 CCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCCTGTAGGG
51993105 TAAAATGATCGTAATA
66 TAAAATGATCGTAATA
* * * *
51993121 CCCCTATAGGGTAAAATGACCGTAATGCCCTTATAGGGTAAAATGACCATAATACCCCTATAGGG
1 CCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCCTGTAGGG
51993186 TAAAATGA
66 TAAAATGA
51993194 CATTAATGCC
Statistics
Matches: 261, Mismatches: 44, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
78 25 0.10
79 43 0.16
80 71 0.27
81 122 0.47
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (81 bp):
CCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCCTGTAGGG
TAAAATGATCGTAATA
Found at i:51993424 original size:27 final size:27
Alignment explanation
Indices: 51993386--51993450 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
51993376 GTGGAGGAAG
51993386 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
51993411 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
*
51993439 TACTATTACTGG
1 TACTGTTACTGG
51993451 CAATTTTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:51999826 original size:93 final size:93
Alignment explanation
Indices: 51999667--51999874 Score: 389
Period size: 93 Copynumber: 2.2 Consensus size: 93
51999657 TTGATGTTGT
**
51999667 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATGGTTGAAAATA
1 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATACAGTTGAAAATA
51999732 TCAGGCGAGCATGAAAATGAGTTTTAGA
66 TCAGGCGAGCATGAAAATGAGTTTTAGA
*
51999760 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCTTTATACAGTTGAAAATA
1 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATACAGTTGAAAATA
51999825 TCAGGCGAGCATGAAAATGAGTTTTAGA
66 TCAGGCGAGCATGAAAATGAGTTTTAGA
51999853 GTTTTAGAGTTTGAAGGTAATT
1 GTTTTAGAGTTTGAAGGTAATT
51999875 TGCATACAAT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 112 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (93 bp):
GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATACAGTTGAAAATA
TCAGGCGAGCATGAAAATGAGTTTTAGA
Found at i:52002416 original size:35 final size:35
Alignment explanation
Indices: 52002361--52002430 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
52002351 AGGCTCCATA
* *
52002361 TATATATTTAACAACCGCATATCACC-ATGTGCATT
1 TATAAATTCAACAACCGCATAT-ACCAATGTGCATT
52002396 TATAAATTCAACAACCGCATATACCTAATGTGCAT
1 TATAAATTCAACAACCGCATATACC-AATGTGCAT
52002431 ATGCCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.65
36 8 0.26
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (35 bp):
TATAAATTCAACAACCGCATATACCAATGTGCATT
Found at i:52002737 original size:41 final size:42
Alignment explanation
Indices: 52002692--52002776 Score: 136
Period size: 41 Copynumber: 2.0 Consensus size: 42
52002682 CCGAAATGTA
* *
52002692 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA-AT
1 TCACCGACATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
*
52002733 TCACCGACATCAAGCCTGCTAGACGTAAAGTCTGTATTACAT
1 TCACCGACATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
52002775 TC
1 TC
52002777 GATCACTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 36 0.90
42 4 0.10
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
TCACCGACATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
Found at i:52004457 original size:13 final size:13
Alignment explanation
Indices: 52004439--52004463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52004429 CAATCACATG
52004439 CACACAAAATAAA
1 CACACAAAATAAA
52004452 CACACAAAATAA
1 CACACAAAATAA
52004464 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:52010081 original size:35 final size:35
Alignment explanation
Indices: 52010026--52010095 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
52010016 AGGCTCCATA
* *
52010026 TATATATTTAACAACCGCATATCACC-ATGTGCATT
1 TATAAATTCAACAACCGCATAT-ACCAATGTGCATT
52010061 TATAAATTCAACAACCGCATATACCTAATGTGCAT
1 TATAAATTCAACAACCGCATATACC-AATGTGCAT
52010096 ATGCCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.65
36 8 0.26
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (35 bp):
TATAAATTCAACAACCGCATATACCAATGTGCATT
Found at i:52010402 original size:41 final size:42
Alignment explanation
Indices: 52010357--52010441 Score: 145
Period size: 41 Copynumber: 2.0 Consensus size: 42
52010347 CCGAAATGTA
*
52010357 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA-AT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
*
52010398 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGTATTACAT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
52010440 TC
1 TC
52010442 GATCACTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
Found at i:52046004 original size:140 final size:140
Alignment explanation
Indices: 52045860--52046132 Score: 327
Period size: 140 Copynumber: 1.9 Consensus size: 140
52045850 AAAAATCGAT
* * *
52045860 AATGTTTTGCGCCCAACGCTAGTCGAAAAAACCGACTAATAGTGTG-CCCAGCACTAGTCGAATA
1 AATGTTTGGCACCCAACGCTAGTCGAAAAAACCGACAAATAGTGTGCCCCA-CACTAGTCGAATA
52045924 ATTGAA-AATGTTTTGCACCCAGCGCTAGTCAAATAAAACGACGAATACTGTG-CCTAGCACTAG
65 ATT-AACAATGTTTTGCACCCAGCGCTAGTCAAATAAAACGACGAATACTGTGACC-AGCACTAG
52045987 TCGAATAACCAAC
128 TCGAATAACCAAC
* ** * ** *
52046000 AATGTTTGGCACCTAGTGCTAGTCGGATCAACCGACAAATAGTGTGCCCCACACTAGTGGAATAA
1 AATGTTTGGCACCCAACGCTAGTCGAAAAAACCGACAAATAGTGTGCCCCACACTAGTCGAATAA
** * * ** * * *
52046065 TTAACAATGTTTTGTGCGCAGCGTTAGTCGGATAAACCGATGAATAGTGTGACCAGCACTAGTCG
66 TTAACAATGTTTTGCACCCAGCGCTAGTCAAATAAAACGACGAATACTGTGACCAGCACTAGTCG
52046130 AAT
131 AAT
52046133 TATCAAAAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
139 2 0.02
140 103 0.93
141 6 0.05
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (140 bp):
AATGTTTGGCACCCAACGCTAGTCGAAAAAACCGACAAATAGTGTGCCCCACACTAGTCGAATAA
TTAACAATGTTTTGCACCCAGCGCTAGTCAAATAAAACGACGAATACTGTGACCAGCACTAGTCG
AATAACCAAC
Found at i:52046148 original size:70 final size:70
Alignment explanation
Indices: 52045724--52046149 Score: 295
Period size: 70 Copynumber: 6.1 Consensus size: 70
52045714 GTAATAATCT
* * * * * * * * * *
52045724 TTTTATGCCCAACGCTAGTTGGATAGACCAACAAATAGTGTGCCCAACAATAGTTGAATAAT-AG
1 TTTTGTGCCCAGCGCTAGTCGAATAAACCGACGAATAGTGTGCCCAGCACTAGTCGAATAATCA-
* **
52045788 ACAACA
65 AAAATG
* * * * * * * * * * *
52045794 TTTTGTGCCCACCGCTAATTGGATAAACCGTCGAATAGTATGTCTC-GCAGTAGCCGAAAAATCG
1 TTTTGTGCCCAGCGCTAGTCGAATAAACCGACGAATAGTGTG-CCCAGCACTAGTCGAATAATCA
*
52045858 ATAATG
65 AAAATG
* * * * **
52045864 TTTTGCGCCCAACGCTAGTCGAAAAAACCGACTAATAGTGTGCCCAGCACTAGTCGAATAATTGA
1 TTTTGTGCCCAGCGCTAGTCGAATAAACCGACGAATAGTGTGCCCAGCACTAGTCGAATAATCAA
52045929 AAATG
66 AAATG
** * * * * *
52045934 TTTTGCACCCAGCGCTAGTCAAATAAAACGACGAATACTGTGCCTAGCACTAGTCGAATAACCAA
1 TTTTGTGCCCAGCGCTAGTCGAATAAACCGACGAATAGTGTGCCCAGCACTAGTCGAATAATCAA
*
52045999 CAATG
66 AAATG
* * * * *
52046004 -TTTG-GCACCTAGTGCTAGTCGGATCAACCGACAAATAGTGTGCCCCA-CACTAGTGGAATAAT
1 TTTTGTGC-CC-AGCGCTAGTCGAATAAACCGACGAATAGTGTG-CCCAGCACTAGTCGAATAAT
* *
52046066 TAACAATG
63 CAAAAATG
* * * * * *
52046074 TTTTGTGCGCAGCGTTAGTCGGATAAACCGATGAATAGTGTGACCAGCACTAGTCGAATTATCAA
1 TTTTGTGCCCAGCGCTAGTCGAATAAACCGACGAATAGTGTGCCCAGCACTAGTCGAATAATCAA
*
52046139 AAATA
66 AAATG
52046144 TTTTGT
1 TTTTGT
52046150 TCTAGTGCTA
Statistics
Matches: 278, Mismatches: 69, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
68 1 0.00
69 11 0.04
70 254 0.91
71 10 0.04
72 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (70 bp):
TTTTGTGCCCAGCGCTAGTCGAATAAACCGACGAATAGTGTGCCCAGCACTAGTCGAATAATCAA
AAATG
Found at i:52046227 original size:20 final size:20
Alignment explanation
Indices: 52046202--52046256 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
52046192 GCAAATCCAT
52046202 AATATCACATTTCATAATTC
1 AATATCACATTTCATAATTC
* *
52046222 AATATCATATTTCATAATTG
1 AATATCACATTTCATAATTC
52046242 AATATCACATATTCA
1 AATATCACAT-TTCA
52046257 CTTCAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (20 bp):
AATATCACATTTCATAATTC
Found at i:52051374 original size:81 final size:83
Alignment explanation
Indices: 52050998--52051403 Score: 362
Period size: 81 Copynumber: 5.0 Consensus size: 83
52050988 TATTTGGACT
* * * *
52050998 GAAATA-CCCCTAAAGGGTAAAATGACCGAAATACCC-CTGATGGGTAAAATGACCAAAATACTC
1 GAAATACCCCCGAATGGGTAAAATGACCGAAATACCCTC-GATAGGTAAAATGACCAAAATACCC
52051061 TCGA-AAGGTAAAATGATC
65 TCGATAAGGTAAAATGATC
* * * *
52051079 GAAATACTCTCGAA-GGGTAAAATGACCGAAATACCC-CTAATAGGTAAAATAACCAAAATACCC
1 GAAATACCCCCGAATGGGTAAAATGACCGAAATACCCTC-GATAGGTAAAATGACCAAAATACCC
52051142 TCGAT--GGATAAAATGATC
65 TCGATAAGG-TAAAATGATC
* * * ***
52051160 GAAATACCCTCG-ATGGGTAAAATGATCGAAATACCCTCGAT-GGCTAAAATAATTGAAATACCC
1 GAAATACCCCCGAATGGGTAAAATGACCGAAATACCCTCGATAGG-TAAAATGACCAAAATACCC
*
52051223 CCG--AAGAGTAAAATGATC
65 TCGATAAG-GTAAAATGATC
* * *
52051241 GAAATA-CCCCAAATGGATAAAATGACCGAAATACCCTCGA-AGGGTTAAATGACCAAAATACCC
1 GAAATACCCCCGAATGGGTAAAATGACCGAAATACCCTCGATA-GGTAAAATGACCAAAATACCC
*
52051304 TCGATAAGGTAAAATGACC
65 TCGATAAGGTAAAATGATC
* * ** * * **
52051323 GAAATACCCCCGTA-GGGTAGAAT-ACTAAAATCCCCTC-ATAAGATAAAATGACCGTAATACCC
1 GAAATACCCCCGAATGGGTAAAATGACCGAAATACCCTCGAT-AGGTAAAATGACCAAAATACCC
*
52051385 -CTG-TAGGGTAAAATGATC
65 TC-GATAAGGTAAAATGATC
52051403 G
1 G
52051404 TAATGCGCTG
Statistics
Matches: 269, Mismatches: 38, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
80 24 0.09
81 205 0.76
82 32 0.12
83 8 0.03
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (83 bp):
GAAATACCCCCGAATGGGTAAAATGACCGAAATACCCTCGATAGGTAAAATGACCAAAATACCCT
CGATAAGGTAAAATGATC
Found at i:52051407 original size:27 final size:28
Alignment explanation
Indices: 52050998--52051400 Score: 322
Period size: 27 Copynumber: 14.9 Consensus size: 28
52050988 TATTTGGACT
*
52050998 GAAATACCCCT-AAAGGGTAAAATGACC
1 GAAATACCCCTCGAAGGGTAAAATGACC
*
52051025 GAAATACCCCT-GATGGGTAAAATGACC
1 GAAATACCCCTCGAAGGGTAAAATGACC
* * * *
52051052 AAAATA-CTCTCGAAAGGTAAAATGATC
1 GAAATACCCCTCGAAGGGTAAAATGACC
*
52051079 GAAATA-CTCTCGAAGGGTAAAATGACC
1 GAAATACCCCTCGAAGGGTAAAATGACC
* *
52051106 GAAATACCCCT--AATAGGTAAAATAACC
1 GAAATACCCCTCGAA-GGGTAAAATGACC
* * * *
52051133 AAAATA-CCCTCGATGGATAAAATGATC
1 GAAATACCCCTCGAAGGGTAAAATGACC
* *
52051160 GAAATA-CCCTCGATGGGTAAAATGATC
1 GAAATACCCCTCGAAGGGTAAAATGACC
* * * **
52051187 GAAATA-CCCTCGATGGCTAAAATAATT
1 GAAATACCCCTCGAAGGGTAAAATGACC
* *
52051214 GAAATACCCC-CGAAGAGTAAAATGATC
1 GAAATACCCCTCGAAGGGTAAAATGACC
* *
52051241 GAAATA-CCC-CAAATGGATAAAATGACC
1 GAAATACCCCTCGAA-GGGTAAAATGACC
*
52051268 GAAATA-CCCTCGAAGGGTTAAATGACC
1 GAAATACCCCTCGAAGGGTAAAATGACC
* *
52051295 AAAATA-CCCTCGATAAGGTAAAATGACC
1 GAAATACCCCTCGA-AGGGTAAAATGACC
* * *
52051323 GAAATACCCC-CGTAGGGTAGAAT-ACT
1 GAAATACCCCTCGAAGGGTAAAATGACC
* * *
52051349 AAAAT-CCCCTC-ATAAGATAAAATGACC
1 GAAATACCCCTCGA-AGGGTAAAATGACC
* *
52051376 GTAATACCCCT-GTAGGGTAAAATGA
1 GAAATACCCCTCGAAGGGTAAAATGA
52051401 TCGTAATGCG
Statistics
Matches: 306, Mismatches: 55, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.01
26 29 0.09
27 236 0.77
28 34 0.11
29 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (28 bp):
GAAATACCCCTCGAAGGGTAAAATGACC
Found at i:52051470 original size:23 final size:23
Alignment explanation
Indices: 52051443--52051486 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
52051433 TGCCCCTCGA
52051443 GGTTAAATGATT-ATTTTGTCTGT
1 GGTTAAATGATTGA-TTTGTCTGT
52051466 GGTTAAATGATTGATTTGTCT
1 GGTTAAATGATTGATTTGTCT
52051487 TTGTTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (23 bp):
GGTTAAATGATTGATTTGTCTGT
Found at i:52051523 original size:24 final size:23
Alignment explanation
Indices: 52051457--52051523 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
52051447 AAATGATTAT
* * *
52051457 TTTGTCTGTGGTTAAATGATTGA
1 TTTGTCTGTGTTTGAATGACTGA
* *
52051480 TTTGTCTTTGTTTGGTATGACTGA
1 TTTGTCTGTGTTT-GAATGACTGA
52051504 TTTGTCTGTAGTTTGAATGA
1 TTTGTCTGT-GTTTGAATGA
52051524 ATCAGTCTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 11 0.31
24 20 0.57
25 4 0.11
ACGTcount: A:0.18, C:0.06, G:0.25, T:0.51
Consensus pattern (23 bp):
TTTGTCTGTGTTTGAATGACTGA
Found at i:52051642 original size:27 final size:27
Alignment explanation
Indices: 52051603--52051654 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
52051593 TACTGTACTG
52051603 GTGGCTCTGCCACA-ATCACTATTACCA
1 GTGGCTCTGCCACATAT-ACTATTACCA
52051630 GTGGCT-TGCCCACATATACTATTAC
1 GTGGCTCTG-CCACATATACTATTAC
52051655 TGGCAGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 2 0.09
27 19 0.83
28 2 0.09
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (27 bp):
GTGGCTCTGCCACATATACTATTACCA
Found at i:52051710 original size:26 final size:26
Alignment explanation
Indices: 52051655--52051710 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
52051645 ATACTATTAC
* *
52051655 TGGCAGCTTTGCTACAATACTATTGC
1 TGGCAGCTTTGCTACAATACTACTGA
* * *
52051681 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTACAATACTACTGA
52051707 TGGC
1 TGGC
52051711 TTTGTGTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (26 bp):
TGGCAGCTTTGCTACAATACTACTGA
Found at i:52051747 original size:32 final size:32
Alignment explanation
Indices: 52051701--52051969 Score: 269
Period size: 32 Copynumber: 8.4 Consensus size: 32
52051691 GCTGCGATGC
*
52051701 TACTGATGGCTTTGTGTCGATCATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * * *
52051733 TATTGATGGTTTTGTACCGATCATAGTACAGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* *
52051765 TACTAATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* *
52051797 TACTGATGGTTTTGTGCCGATCATATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATA-GT-ACTGT
* * *
52051831 TACTGATGGCTGTGTGTCGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* **
52051863 TACTGATGGCTTTGTACCGATCAT-GTTACCAT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
*
52051895 TACTGATGG-TTGTGTGCCGATCATA-TCACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGT
* * *
52051927 TACTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
*
52051958 TACTTATGGCTT
1 TACTGATGGCTT
52051970 GTAGCCAATC
Statistics
Matches: 197, Mismatches: 31, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
31 14 0.07
32 152 0.77
33 5 0.03
34 26 0.13
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGT
Found at i:52051934 original size:130 final size:130
Alignment explanation
Indices: 52051701--52051949 Score: 337
Period size: 130 Copynumber: 1.9 Consensus size: 130
52051691 GCTGCGATGC
* * * *
52051701 TACTGATGGCTTTGTGTCGATCATAGTACTGTTATTGATGGTTTTGTACCGATCATAGTACAGTT
1 TACTGATGGCTGTGTGTCGATCATAGTACTGCTACTGATGGCTTTGTACCGATCATAGTACAGTT
* * *
52051766 ACTAATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGTTTTGTGCCGATCATATTTCACTGT
66 ACTAATGGCTTTGTGCCGATCATAGTACCGCTACTGATGGCTTTGTGCCAATCATATTTCACTGT
52051831 TACTGATGGCTGTGTGTCGATCATA-TCACTGCTACTGATGGCTTTGTACCGATCAT-GTTACCA
1 TACTGATGGCTGTGTGTCGATCATAGT-ACTGCTACTGATGGCTTTGTACCGATCATAG-TA-CA
* *
52051894 -TTACTGATGG-TTGTGTGCCGATCATA-TCACTGCTACTGATGGCTTTGTGCCAATCA
63 GTTACTAATGGCTT-TGTGCCGATCATAGT-ACCGCTACTGATGGCTTTGTGCCAATCA
52051950 CATTACTGTA
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
129 5 0.05
130 98 0.93
131 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (130 bp):
TACTGATGGCTGTGTGTCGATCATAGTACTGCTACTGATGGCTTTGTACCGATCATAGTACAGTT
ACTAATGGCTTTGTGCCGATCATAGTACCGCTACTGATGGCTTTGTGCCAATCATATTTCACTGT
Found at i:52052103 original size:26 final size:26
Alignment explanation
Indices: 52052026--52052090 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
52052016 AGCCATTTTG
52052026 ACTACTGGCAGCTCTACTGCATTATT
1 ACTACTGGCAGCTCTACTGCATTATT
* * *
52052052 ACTATTGGGAGCTCTACTACATTATT
1 ACTACTGGCAGCTCTACTGCATTATT
52052078 ACTACTGGCAGCT
1 ACTACTGGCAGCT
52052091 ATGCTGCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (26 bp):
ACTACTGGCAGCTCTACTGCATTATT
Found at i:52056605 original size:70 final size:70
Alignment explanation
Indices: 52056531--52056943 Score: 333
Period size: 70 Copynumber: 5.9 Consensus size: 70
52056521 GGATAGACCA
* * * * * * * *
52056531 ACGAATAATGTGTACAACATTAGTCGAATAATCCACAATGTTTTGCACCCAGCGCTTGTCGGATA
1 ACGAATAGTGTGTCCAGCACTAGTCGAATAATCGATAATGTTTTGCACCCAGCGCTAGTCAGATA
52056596 AATCG
66 AATCG
* * * * * * *
52056601 ACGAATAATGT-TCCCCA-TATTAGTCGAATAGTCGATAATGTTTTGC-GCTAGGTGCTAGTCAG
1 ACGAATAGTGTGT--CCAGCACTAGTCGAATAATCGATAATGTTTTGCACCCA-GCGCTAGTCAG
52056663 ATAAATCG
63 ATAAATCG
* * * * * * *
52056671 AGGAGTAGTGTGCCCAGCACTAGTCGAATAATCGATAATGTTTTACGCCCAACGCTAGTCTGATA
1 ACGAATAGTGTGTCCAGCACTAGTCGAATAATCGATAATGTTTTGCACCCAGCGCTAGTCAGATA
52056736 AA-CTG
66 AATC-G
* ** * *
52056741 A-G--TAGTGTGTCCAGCACTAGTCGTATAATTAACAATGTTTTGCACCCAGCACTAGTC-GAAT
1 ACGAATAGTGTGTCCAGCACTAGTCGAATAATCGATAATGTTTTGCACCCAGCGCTAGTCAG-AT
52056802 AAA-CTG
65 AAATC-G
* * * * * *
52056808 ACGAATAGTGTGCCCCGCACTAGTTGAATAATTGATAATGTTTTGCGCCCATCGCTAGTCAGATA
1 ACGAATAGTGTGTCCAGCACTAGTCGAATAATCGATAATGTTTTGCACCCAGCGCTAGTCAGATA
52056873 AATCG
66 AATCG
* * * * * * *
52056878 ATGAATAGTGT-CCCTAGCACTAGTCGAATAATCGAAAATTTTTTACGCCCAGCGCTATTCAGAT
1 ACGAATAGTGTGTCC-AGCACTAGTCGAATAATCGATAATGTTTTGCACCCAGCGCTAGTCAGAT
52056942 AA
65 AA
52056944 CCGAAAATAT
Statistics
Matches: 279, Mismatches: 50, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
66 1 0.00
67 55 0.20
68 1 0.00
69 11 0.04
70 205 0.73
71 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (70 bp):
ACGAATAGTGTGTCCAGCACTAGTCGAATAATCGATAATGTTTTGCACCCAGCGCTAGTCAGATA
AATCG
Found at i:52056721 original size:35 final size:34
Alignment explanation
Indices: 52056682--52056930 Score: 104
Period size: 35 Copynumber: 7.2 Consensus size: 34
52056672 GGAGTAGTGT
52056682 GCCCAGCACTAGTCGAATAATCGATAATGTTTTAC
1 GCCCAGCACTAGTCGAATAATCGATAATGTTTT-C
* * * *
52056717 GCCCAACGCTAGTCTG-ATAAACTGAGT-A-G-TGT-
1 GCCCAGCACTAGTC-GAATAATC-GA-TAATGTTTTC
* * ** *
52056749 GTCCAGCACTAGTCGTATAATTAACAATGTTTTGC
1 GCCCAGCACTAGTCGAATAATCGATAATGTTTT-C
* * * *
52056784 ACCCAGCACTAGTCGAATAAACTGACGAATAG-TGT-
1 GCCCAGCACTAGTCGAATAATC-GA-TAAT-GTTTTC
* * *
52056819 GCCCCGCACTAGTTGAATAATTGATAATGTTTTGC
1 GCCCAGCACTAGTCGAATAATCGATAATGTTTT-C
* * *
52056854 GCCCATCGCTAGTC-AGATAAATCGATGAATAG-TGTC
1 GCCCAGCACTAGTCGA-AT-AATCGAT-AAT-GTTTTC
* * *
52056890 -CCTAGCACTAGTCGAATAATCGAAAATTTTTTAC
1 GCCCAGCACTAGTCGAATAATCGATAATGTTTT-C
52056924 GCCCAGC
1 GCCCAGC
52056931 GCTATTCAGA
Statistics
Matches: 151, Mismatches: 40, Indels: 46
0.64 0.17 0.19
Matches are distributed among these distances:
31 3 0.02
32 17 0.11
33 12 0.08
34 12 0.08
35 81 0.54
36 13 0.09
37 11 0.07
38 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (34 bp):
GCCCAGCACTAGTCGAATAATCGATAATGTTTTC
Done.