Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 321 of 425
Found at i:100116987 original size:40 final size:40
Alignment explanation
Indices: 100116943--100117159 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
100116933 CCAGCATGAT
***
100116943 TGCTCTTCGGGACCCAGCTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCTCGGATACATCACTAGCACGAA
* *
100116983 TGCTCTTCGGGATTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCTCGGATACATCACTAGCACGAA
* *
100117023 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCTCGGATACATCACTAGCACGAA
*
100117063 TGCTC-TCGGGATTTAG-TCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGCT-CGGATACATCACTAGCACGAA
100117102 TGCTCTTCGGGATTTAG-TCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCT-CGGATACATCACTAGCACGAA
100117142 TGCTCTTCGGGATTTAGC
1 TGCTCTTCGGGATTTAGC
100117160 CGGCTATACA
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 35 0.21
40 128 0.79
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGCTCGGATACATCACTAGCACGAA
Found at i:100117110 original size:79 final size:79
Alignment explanation
Indices: 100116943--100117162 Score: 343
Period size: 79 Copynumber: 2.8 Consensus size: 79
100116933 CCAGCATGAT
*** * *
100116943 TGCTCTTCGGGACCCAGCTCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCAGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATA
*
100117008 CATCACTAGCACGAA
65 CATCACTAGCACAAA
*
100117023 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTC-TCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATA
100117087 CATCACTAGCACAAA
65 CATCACTAGCACAAA
*
100117102 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCGG
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCGG
100117163 CTATACAACT
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
79 78 0.60
80 51 0.40
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCGGATAC
ATCACTAGCACAAA
Found at i:100119429 original size:2 final size:2
Alignment explanation
Indices: 100119422--100119446 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100119412 TTTGGCCACA
100119422 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
100119447 CATCTCATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100119534 original size:65 final size:65
Alignment explanation
Indices: 100119461--100119592 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
100119451 TCATACATAT
100119461 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
1 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
100119526 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
1 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
100119591 CT
1 CT
100119593 TACCACATAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (65 bp):
CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
Found at i:100119573 original size:32 final size:32
Alignment explanation
Indices: 100119472--100119573 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
100119462 TCACATTAGC
100119472 CATTTGGCTTTACCACATATCTATCTCATACA
1 CATTTGGCTTTACCACATATCTATCTCATACA
* * * ** *
100119504 CATTTCGCATTAGC-CAT-TCGGCCTCACATTAGC-
1 CATTTGGCTTTACCACATATC--TATCTCA-TA-CA
100119537 CATTTGGCTTTACCACATATCTATCTCATACA
1 CATTTGGCTTTACCACATATCTATCTCATACA
100119569 CATTT
1 CATTT
100119574 CGCATTAGCC
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
30 2 0.04
31 4 0.08
32 22 0.43
33 17 0.33
34 4 0.08
35 2 0.04
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.36
Consensus pattern (32 bp):
CATTTGGCTTTACCACATATCTATCTCATACA
Found at i:100119638 original size:47 final size:47
Alignment explanation
Indices: 100119576--100119791 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
100119566 ACACATTTCG
* * * *
100119576 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
100119623 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
100119670 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
100119717 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
100119764 CATTGGCCATTCGGCCTTATCACGCATA
1 CATTGGCCATTCGGCCTTATCACACATA
100119792 TATATACAGG
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:100119682 original size:94 final size:94
Alignment explanation
Indices: 100119576--100119817 Score: 376
Period size: 94 Copynumber: 2.5 Consensus size: 94
100119566 ACACATTTCG
*
100119576 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
100119641 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* * **
100119670 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
100119735 ATCACACATACACATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* *
100119764 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACAT
1 CATTGGCCATTCGGCC-T-T-AC-CACATATATACATGTTCACATTCATCACAT
100119818 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 104 0.79
95 1 0.01
96 1 0.01
97 1 0.01
98 25 0.19
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACACATGTTCACATTCATCA
Found at i:100122982 original size:17 final size:17
Alignment explanation
Indices: 100122960--100122993 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100122950 GAATCATGAA
100122960 TAACTATTGCTTGCTTG
1 TAACTATTGCTTGCTTG
100122977 TAACTATTGCTTGCTTG
1 TAACTATTGCTTGCTTG
100122994 ATCAATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (17 bp):
TAACTATTGCTTGCTTG
Found at i:100123509 original size:16 final size:17
Alignment explanation
Indices: 100123480--100123514 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
100123470 TGAATAAAAA
100123480 AATAAAAAATTATAAAT
1 AATAAAAAATTATAAAT
100123497 AATAAAAAA-TATAAAT
1 AATAAAAAATTATAAAT
100123513 AA
1 AA
100123515 AAGTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAAAATTATAAAT
Found at i:100124110 original size:23 final size:24
Alignment explanation
Indices: 100124084--100124133 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
100124074 TGATTTTTAC
*
100124084 ATTTTA-AATTATTTAATGATAAT
1 ATTTTAGAATTATTTAATAATAAT
* *
100124107 A-TTTAGGATTATTTAGTAATAAT
1 ATTTTAGAATTATTTAATAATAAT
100124130 ATTT
1 ATTT
100124134 AAAAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 4 0.18
23 16 0.73
24 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAATAATAAT
Found at i:100124134 original size:23 final size:23
Alignment explanation
Indices: 100124091--100124134 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
100124081 TACATTTTAA
*
100124091 ATTATTTAATGATAATATTTAGG
1 ATTATTTAATAATAATATTTAGG
*
100124114 ATTATTTAGTAATAATATTTA
1 ATTATTTAATAATAATATTTA
100124135 AAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTATTTAATAATAATATTTAGG
Found at i:100124154 original size:15 final size:16
Alignment explanation
Indices: 100124134--100124173 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 16
100124124 AATAATATTT
100124134 AAAAAATATTTGTTAA
1 AAAAAATATTTGTTAA
100124150 AAAAAGATTTATTTGTTAA
1 AAAAA-A--TATTTGTTAA
100124169 AAAAA
1 AAAAA
100124174 TGAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 1 0.05
19 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (16 bp):
AAAAAATATTTGTTAA
Found at i:100124265 original size:18 final size:17
Alignment explanation
Indices: 100124242--100124282 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
100124232 TCACATCATA
100124242 TTTTTTAACAAATAAATCT
1 TTTTTTAACAAAT-AAT-T
100124261 TTTTTTAACAAATAATT
1 TTTTTTAACAAATAATT
100124278 TTTTT
1 TTTTT
100124283 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 3 0.14
19 13 0.59
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTTAACAAATAATT
Found at i:100124363 original size:18 final size:18
Alignment explanation
Indices: 100124309--100124369 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
100124299 AATTTCACTT
100124309 TTTTTTTACTTTTTTATTAAA
1 TTTTTTTA--TTTTT-TTAAA
* *
100124330 TTTTATCT-TTTCTTTAAA
1 TTTT-TTTATTTTTTTAAA
*
100124348 TTTTTTTATTTTTTTAAG
1 TTTTTTTATTTTTTTAAA
100124366 TTTT
1 TTTT
100124370 CTTTTCTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
17 2 0.06
18 21 0.64
19 4 0.12
21 4 0.12
22 2 0.06
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTTATTTTTTTAAA
Found at i:100124485 original size:22 final size:22
Alignment explanation
Indices: 100124406--100124475 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 22
100124396 TTGGTTATTA
* * *
100124406 ATTTCAAAAATTTAAAATGTAT
1 ATTTTAAAAATTTATAATATAT
* **
100124428 ATTTGAAATGTTTTATAATATAT
1 ATTTTAAA-AATTTATAATATAT
100124451 ATTTTAAAAATTTA-AATAT-T
1 ATTTTAAAAATTTATAATATAT
100124471 ATTTT
1 ATTTT
100124476 TAAATTATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 6 0.15
21 5 0.13
22 11 0.28
23 17 0.44
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTTAAAAATTTATAATATAT
Found at i:100124569 original size:36 final size:33
Alignment explanation
Indices: 100124438--100124574 Score: 132
Period size: 36 Copynumber: 3.9 Consensus size: 33
100124428 ATTTGAAATG
*
100124438 TTTTATAATATATATTTTAAAAATTTAAATATTA-T
1 TTTTA-AAT-TAT-TTTTTAAAATTTAAATATTATT
* *
100124473 TTTTAAATTATTTTTTAAATTTTAAGTATTATAT
1 TTTTAAATTATTTTTTAAAATTTAAATATTAT-T
* * *
100124507 TTTTAAATTATGTCTTATAAATTTTAAAAATATATT
1 TTTTAAATTAT-T-TTTTAAAATTTAAATAT-TATT
100124543 TTTTAAATTTATTTTTCTAAAATTTAAATATT
1 TTTTAAA-TTATTTTT-TAAAATTTAAATATT
100124575 TTTAAAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
32 17 0.20
33 3 0.03
34 15 0.17
35 9 0.10
36 35 0.41
37 7 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
TTTTAAATTATTTTTTAAAATTTAAATATTATT
Found at i:100124586 original size:15 final size:15
Alignment explanation
Indices: 100124568--100124602 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
100124558 TCTAAAATTT
100124568 AAATATTTTTAAAAA
1 AAATATTTTTAAAAA
*
100124583 AAATATTTTTAAACA
1 AAATATTTTTAAAAA
100124598 AAATA
1 AAATA
100124603 AAATAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATTTTTAAAAA
Found at i:100124710 original size:19 final size:19
Alignment explanation
Indices: 100124673--100124733 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
100124663 TTAAAAATAA
100124673 AATTTTGAAATTATT-TTTTT
1 AATTTT-AAA-TATTATTTTT
100124693 AATTTTAAATATTATTTTT
1 AATTTTAAATATTATTTTT
*
100124712 AAATATTAAATA-TATTTTT
1 -AATTTTAAATATTATTTTT
100124731 AAT
1 AAT
100124734 AATATTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
18 7 0.18
19 15 0.39
20 16 0.42
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
AATTTTAAATATTATTTTT
Found at i:100124713 original size:13 final size:13
Alignment explanation
Indices: 100124695--100124719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100124685 ATTTTTTTAA
100124695 TTTTAAATATTAT
1 TTTTAAATATTAT
100124708 TTTTAAATATTA
1 TTTTAAATATTA
100124720 AATATATTTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:100124739 original size:21 final size:20
Alignment explanation
Indices: 100124680--100124739 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
100124670 TAAAATTTTG
* *
100124680 AAAT-TATTTTTTTAATTTT
1 AAATATATTTTTATAATATT
100124699 AAATATTATTTTTA-AATATT
1 AAATA-TATTTTTATAATATT
100124719 AAATATATTTTTAATAATATT
1 AAATATATTTTT-ATAATATT
100124740 TAAACATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 11 0.31
20 11 0.31
21 13 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATATATTTTTATAATATT
Found at i:100125112 original size:28 final size:28
Alignment explanation
Indices: 100125081--100125152 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
100125071 TTGAAAGTTT
*
100125081 AAAATATTTAAATATTTTATAATATC-AA
1 AAAATATTTAAATATTTAAT-ATATCAAA
*
100125109 AAAATATTT-AATATTTAATATTTCAAA
1 AAAATATTTAAATATTTAATATATCAAA
100125136 AATAATATTTAAA-ATTT
1 AA-AATATTTAAATATTT
100125153 GAAAAAGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 4 0.10
27 13 0.33
28 20 0.51
29 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
AAAATATTTAAATATTTAATATATCAAA
Found at i:100125143 original size:21 final size:22
Alignment explanation
Indices: 100125117--100125171 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
100125107 AAAAAATATT
*
100125117 TAATATTTAATATTTCAAAAA-
1 TAATATTTAAAATTTCAAAAAG
*
100125138 TAATATTTAAAATTTGAAAAAG
1 TAATATTTAAAATTTCAAAAAG
*
100125160 TAAT-TTCAAAAT
1 TAATATTTAAAAT
100125172 ATATATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
TAATATTTAAAATTTCAAAAAG
Found at i:100125168 original size:34 final size:34
Alignment explanation
Indices: 100125128--100125192 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
100125118 AATATTTAAT
100125128 ATTTCAAAA-ATAATATTTAAAATTTGAAAAAGTA
1 ATTTCAAAATAT-ATATTTAAAATTTGAAAAAGTA
*
100125162 ATTTCAAAATATATATTTAAAATTTTAAAAA
1 ATTTCAAAATATATATTTAAAATTTGAAAAA
100125193 ATATATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (34 bp):
ATTTCAAAATATATATTTAAAATTTGAAAAAGTA
Found at i:100125197 original size:23 final size:23
Alignment explanation
Indices: 100125167--100125235 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
100125157 AAGTAATTTC
100125167 AAAATATATATTTAAAATTTTAA
1 AAAATATATATTTAAAATTTTAA
*
100125190 AAAATATATATTAATAAAATATTTCA
1 AAAATATATATT--TAAAAT-TTTAA
*
100125216 AATATATAT-TTTAAAATTTT
1 AAAATATATATTTAAAATTTT
100125236 TAAAGTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.07
23 18 0.44
25 8 0.20
26 12 0.29
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATATATATTTAAAATTTTAA
Found at i:100125252 original size:47 final size:48
Alignment explanation
Indices: 100125162--100125254 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
100125152 TGAAAAAGTA
*
100125162 ATTTCAAAATATATATTTAAAATTTTAAAAAATATATATTAATAAAAT
1 ATTTCAAAATATATATTTAAAATTTTAAAAAATATATAATAATAAAAT
* **
100125210 ATTTC-AAATATATATTTTAAAATTTTTAAAGTTA-ATAATAATAAA
1 ATTTCAAAATATATA-TTTAAAATTTTAAAAAATATATAATAATAAA
100125255 TAAGTAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 19 0.47
48 21 0.52
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (48 bp):
ATTTCAAAATATATATTTAAAATTTTAAAAAATATATAATAATAAAAT
Found at i:100125266 original size:9 final size:9
Alignment explanation
Indices: 100125252--100125292 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
100125242 TAATAATAAT
*
100125252 AAATAAGTA
1 AAATAAATA
100125261 AAATAAATA
1 AAATAAATA
100125270 AAATAAAT-
1 AAATAAATA
100125278 AAATAAAT-
1 AAATAAATA
100125286 AAATAAA
1 AAATAAA
100125293 AGTCAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 15 0.48
9 16 0.52
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:100125267 original size:13 final size:12
Alignment explanation
Indices: 100125242--100125292 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
100125232 TTTTTAAAGT
100125242 TAATAATAATAAA
1 TAATAA-AATAAA
100125255 TAAGTAAAATAAA
1 TAA-TAAAATAAA
*
100125268 TAAAATAAATAAA
1 TAATA-AAATAAA
100125281 TAA-ATAAATAAA
1 TAATA-AAATAAA
100125293 AGTCAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
12 10 0.29
13 22 0.63
14 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (12 bp):
TAATAAAATAAA
Found at i:100125268 original size:4 final size:4
Alignment explanation
Indices: 100125249--100125292 Score: 61
Period size: 4 Copynumber: 10.5 Consensus size: 4
100125239 AGTTAATAAT
*
100125249 AATA AATA AGTAA AATA AATAA AATA AATA AATA AATA AATA AA
1 AATA AATA AAT-A AATA AAT-A AATA AATA AATA AATA AATA AA
100125293 AGTCAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 29 0.81
5 7 0.19
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:100126772 original size:18 final size:18
Alignment explanation
Indices: 100126749--100126783 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100126739 AATTGAATCT
*
100126749 ATATTACTTTAGTAAAAA
1 ATATTACTTTAATAAAAA
*
100126767 ATATTATTTTAATAAAA
1 ATATTACTTTAATAAAA
100126784 TTCCATCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATTACTTTAATAAAAA
Found at i:100129593 original size:60 final size:60
Alignment explanation
Indices: 100129500--100129621 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
100129490 AATGCACGAT
100129500 TTCAAAATATGATTTAGTCAAGATGACATAATTGTGTTGATTTAATTACATTTCTTTAAC
1 TTCAAAATATGATTTAGTCAAGATGACATAATTGTGTTGATTTAATTACATTTCTTTAAC
*
100129560 TTCAAAATATGATTTAGTTAAGATGACATAATTGTGTTGATTTAATTACATTTCTTTAAC
1 TTCAAAATATGATTTAGTCAAGATGACATAATTGTGTTGATTTAATTACATTTCTTTAAC
100129620 TT
1 TT
100129622 AGAATTATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (60 bp):
TTCAAAATATGATTTAGTCAAGATGACATAATTGTGTTGATTTAATTACATTTCTTTAAC
Found at i:100131522 original size:14 final size:14
Alignment explanation
Indices: 100131497--100131534 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
100131487 TTACTGTGAA
100131497 AAAAT-AAA-AAAT
1 AAAATAAAATAAAT
100131509 AAAATAAAATAAAT
1 AAAATAAAATAAAT
*
100131523 AAAAAAAAATAA
1 AAAATAAAATAA
100131535 CACACAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.22
13 3 0.13
14 15 0.65
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:100137488 original size:25 final size:26
Alignment explanation
Indices: 100137426--100137488 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
100137416 ATATTTTCTC
*
100137426 AAAATTTAAAAATTATTAATGATTCAAT
1 AAAA-TTAAAAATTA-TAATGATTAAAT
100137454 -AAATTGAAAAATTA-AATGATTAAAT
1 AAAATT-AAAAATTATAATGATTAAAT
100137479 AAAATTAAAA
1 AAAATTAAAA
100137489 TTTTGGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 14 0.44
26 7 0.22
27 11 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATTAAAAATTATAATGATTAAAT
Found at i:100139757 original size:21 final size:20
Alignment explanation
Indices: 100139729--100139770 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
100139719 CCGAAGTGTT
100139729 CCCCACTTGGAACTAAGTGA
1 CCCCACTTGGAACTAAGTGA
100139749 CCCCAACTTGGAACTAAGTGA
1 CCCC-ACTTGGAACTAAGTGA
100139770 C
1 C
100139771 AATGGTATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (20 bp):
CCCCACTTGGAACTAAGTGA
Found at i:100146670 original size:2 final size:2
Alignment explanation
Indices: 100146663--100146692 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
100146653 TGGACTCATG
100146663 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
100146693 TTTCAAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:100146878 original size:107 final size:107
Alignment explanation
Indices: 100146692--100146892 Score: 348
Period size: 107 Copynumber: 1.9 Consensus size: 107
100146682 TCTCTCTCTC
* * * *
100146692 TTTTCAAATTCGAGCATTTTGCTGAATGGACTACAATTTAAGGGCATTCGATACTTCCTTTCAAG
1 TTTTCAAATTCGAGCATTTTGCTAAATGGACTACAATTTAAGAGCATTAGATACTTCCTTTCAAC
100146757 TCCCCCAAACTTATTTTTAAAGAATACTTCGAGTAGTTTTTT
66 TCCCCCAAACTTATTTTTAAAGAATACTTCGAGTAGTTTTTT
* *
100146799 TTTTCAAATTCGAGCATTTTGCTAAATGTACTACAATTTTAGAGCATTAGATACTTCCTTTCAAC
1 TTTTCAAATTCGAGCATTTTGCTAAATGGACTACAATTTAAGAGCATTAGATACTTCCTTTCAAC
100146864 TCCCCCAAACTTATTTTTAAAGAATACTT
66 TCCCCCAAACTTATTTTTAAAGAATACTT
100146893 TGAATAGTAC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 88 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (107 bp):
TTTTCAAATTCGAGCATTTTGCTAAATGGACTACAATTTAAGAGCATTAGATACTTCCTTTCAAC
TCCCCCAAACTTATTTTTAAAGAATACTTCGAGTAGTTTTTT
Found at i:100149007 original size:25 final size:27
Alignment explanation
Indices: 100148964--100149024 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
100148954 TTTTCTGAAA
*
100148964 AATTT-AAAAATTATTAATGATTCAAT-
1 AATTTAAAAAATTA-TAATGATTAAATG
100148990 AATTTAAAAAATTA-AATGATTAAATG
1 AATTTAAAAAATTATAATGATTAAATG
*
100149016 AAATTAAAA
1 AATTTAAAA
100149025 TTTAGGGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 10 0.32
26 13 0.42
27 8 0.26
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (27 bp):
AATTTAAAAAATTATAATGATTAAATG
Found at i:100149588 original size:17 final size:18
Alignment explanation
Indices: 100149561--100149594 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100149551 AATTAAATAT
100149561 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
100149579 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
100149595 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:100150956 original size:3 final size:3
Alignment explanation
Indices: 100150950--100150987 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
100150940 CCTCCACCAA
100150950 AAT AAT AAT AAT AAT AAT AAT AA- AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
100150988 CATCTCCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:100150961 original size:6 final size:5
Alignment explanation
Indices: 100150948--100150987 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
100150938 CTCCTCCACC
100150948 AAAAT AATAAT AATAAT AATAAT AAAAT AAAAT AAAAT AA
1 AAAAT AA-AAT AA-AAT AA-AAT AAAAT AAAAT AAAAT AA
100150988 CATCTCCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 17 0.50
6 17 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (5 bp):
AAAAT
Found at i:100154774 original size:40 final size:40
Alignment explanation
Indices: 100154715--100154816 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
100154705 AAATTGAATG
* * *
100154715 ATATCCGGGCTAAGC-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGTTAA-CACCCGAAGACAATTATGCTAGAAACT
* * ***
100154755 ATATCCGGGTTAACACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGTTAACACCCGAAGACAATTATGCTAGAAACT
*
100154795 ATATCCGGGTTAAGACCCGAAG
1 ATATCCGGGTTAACACCCGAAG
100154817 GCATTCGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.02
40 51 0.98
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGTTAACACCCGAAGACAATTATGCTAGAAACT
Found at i:100154817 original size:40 final size:39
Alignment explanation
Indices: 100154754--100154881 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
100154744 TGCTGGAAAT
* *
100154754 TATATCCGGGTTAACACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGC-AGTGAC
* *
100154794 TATATCCGGGTTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGTTAAGACCCGAAGGCAATT-GTGC-AGTGAC
* * *
100154834 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGAC
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCA-GTGAC
100154874 TATATCCG
1 TATATCCG
100154882 ATTATATTCC
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.05
40 68 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGAC
Found at i:100160942 original size:36 final size:35
Alignment explanation
Indices: 100160895--100160977 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 35
100160885 ACTCCCTATT
100160895 TTGGTGTGTTTT-GATTGGACTAGCTCTT-TGGAGCCA
1 TTGGTGTGTTTTGGA-TGGACTAGCTCTTAT-GAG-CA
*
100160931 TTGGTGTGTTTTGGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGGATGGACTAGCTCTTATGAGCA
100160966 TCTGGTGTGTTT
1 T-TGGTGTGTTT
100160978 CGAGCAGATT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
35 3 0.07
36 37 0.86
37 3 0.07
ACGTcount: A:0.13, C:0.11, G:0.31, T:0.45
Consensus pattern (35 bp):
TTGGTGTGTTTTGGATGGACTAGCTCTTATGAGCA
Found at i:100163462 original size:14 final size:15
Alignment explanation
Indices: 100163435--100163469 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
100163425 ACCAAAATCC
*
100163435 TTTTTATTTATTTTG
1 TTTTTATTTATTTTA
100163450 TTTTTATTT-TTTTA
1 TTTTTATTTATTTTA
100163464 TTTTTA
1 TTTTTA
100163470 AATAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:100165038 original size:16 final size:16
Alignment explanation
Indices: 100165017--100165065 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
100165007 TTAATTAAAA
*
100165017 AAGGTAGAAATAACAC
1 AAGGTAAAAATAACAC
100165033 AAGGTAAAAATAACAC
1 AAGGTAAAAATAACAC
* *
100165049 GACGTTAAAAATAACAC
1 -AAGGTAAAAATAACAC
100165066 GACGTTAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (16 bp):
AAGGTAAAAATAACAC
Found at i:100165059 original size:17 final size:17
Alignment explanation
Indices: 100165024--100165073 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
100165014 AAAAAGGTAG
* *
100165024 AAATAACAC-AAGGTAA
1 AAATAACACGACGTTAA
100165040 AAATAACACGACGTTAA
1 AAATAACACGACGTTAA
100165057 AAATAACACGACGTTAA
1 AAATAACACGACGTTAA
100165074 CGATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 9 0.29
17 22 0.71
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (17 bp):
AAATAACACGACGTTAA
Found at i:100166046 original size:29 final size:29
Alignment explanation
Indices: 100166002--100166196 Score: 164
Period size: 29 Copynumber: 6.7 Consensus size: 29
100165992 CAAATTTTAG
* *
100166002 TAAAAGGACGCCTTTGTGGCTATCTTTTT
1 TAAAAGGATGCCTTTGTGGCTATCTTTGT
*
100166031 TAAAAGGATGCTTTTGTGGCTATCTTTGT
1 TAAAAGGATGCCTTTGTGGCTATCTTTGT
* *
100166060 TAAAAGGAAGCCTTTGTGG-TGATCTTAGT
1 TAAAAGGATGCCTTTGTGGCT-ATCTTTGT
* *
100166089 TAAAAGG-TAGCCTTTGTGGCGATCTCTGT
1 TAAAAGGAT-GCCTTTGTGGCTATCTTTGT
* * *
100166118 TAAAAGGAAT-CTTTTGTGGCAATCTCTGT
1 TAAAAGG-ATGCCTTTGTGGCTATCTTTGT
** * * *
100166147 TAAAAAAAAT-CGTTTGTGGCAATATTTGT
1 T-AAAAGGATGCCTTTGTGGCTATCTTTGT
* *
100166176 TAAAAAAGATGTCTTTGTGGC
1 T-AAAAGGATGCCTTTGTGGC
100166197 AAGACTCTGA
Statistics
Matches: 139, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 125 0.90
30 12 0.09
31 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (29 bp):
TAAAAGGATGCCTTTGTGGCTATCTTTGT
Found at i:100166163 original size:87 final size:86
Alignment explanation
Indices: 100165998--100166165 Score: 214
Period size: 87 Copynumber: 1.9 Consensus size: 86
100165988 AACACAAATT
* * * * *
100165998 TTAGTAAAAGGACGCCTTTGTGGCTATCTTTTTTAAAAGGATGCTTTTGTGGCTATCTTTGTTAA
1 TTAGTAAAAGGACGCCTTTGTGGCGATCTCTGTTAAAAGGATGCTTTTGTGGCAATCTCTGTTAA
**
100166063 AAGGAAGCCTTTGTGGTGATC
66 AAAAAAGCCTTTGTGGTGATC
100166084 TTAGTTAAAAGGTA-GCCTTTGTGGCGATCTCTGTTAAAAGGAAT-CTTTTGTGGCAATCTCTGT
1 TTAG-TAAAAGG-ACGCCTTTGTGGCGATCTCTGTTAAAAGG-ATGCTTTTGTGGCAATCTCTGT
* *
100166147 TAAAAAAAATCGTTTGTGG
63 TAAAAAAAAGCCTTTGTGG
100166166 CAATATTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
86 4 0.06
87 63 0.90
88 3 0.04
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (86 bp):
TTAGTAAAAGGACGCCTTTGTGGCGATCTCTGTTAAAAGGATGCTTTTGTGGCAATCTCTGTTAA
AAAAAAGCCTTTGTGGTGATC
Found at i:100168521 original size:50 final size:46
Alignment explanation
Indices: 100168362--100168529 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
100168352 TTATTTGTGT
*
100168362 TCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 TCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACGAGATGTAGA
* * * *
100168408 GCCAGTGTAAGACAAGTATGGGACATGCATCGGCTACGAGATGT-G-
1 TCTAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGAGATGTAGA
* *
100168453 TC-AGTTTAAGACCATGTCTGGGACATAGCATCGGCACGGATATGTGAGA
1 TCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC-GAGATGT-AGA
100168502 TCTAGTGTAAGACCATGTCTGGGACATG
1 TCTAGTGTAAGA-CATGTCTGGGACATG
100168530 GCGTCAGCCT
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
44 8 0.08
45 16 0.16
46 51 0.50
48 1 0.01
49 3 0.03
50 23 0.23
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
TCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGAGATGTAGA
Found at i:100168556 original size:99 final size:96
Alignment explanation
Indices: 100168452--100168627 Score: 248
Period size: 99 Copynumber: 1.8 Consensus size: 96
100168442 TACGAGATGT
* *
100168452 GTCAGTTTAAGACCATGTCTGGGACATAGCATCGGCAC-GGATATG-TGAGATCTAGTGTAAGAC
1 GTCAGTGTAAGACCATGTCTGGGACATAGCATC-G-ACTGGATA-GATGAG-CCT-GTGTAAGAC
*
100168515 CATGTCTGGGACATGGCGTCAGCCTCAATTTCAATA
61 CATGCCTGGGACATGGCGTCAGCCTCAATTTCAATA
* *
100168551 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCCTGTGTAAGACCATGC
1 GTCAGTGTAAGACCATGTCTGGGACATAGCATCGACTGGATAGATGAGCCTGTGTAAGACCATGC
100168616 CTGGGACATGGC
66 CTGGGACATGGC
100168628 ATCGGTATTA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
96 25 0.36
97 5 0.07
98 9 0.13
99 31 0.44
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTGGGACATAGCATCGACTGGATAGATGAGCCTGTGTAAGACCATGC
CTGGGACATGGCGTCAGCCTCAATTTCAATA
Found at i:100176094 original size:45 final size:48
Alignment explanation
Indices: 100176013--100176276 Score: 169
Period size: 45 Copynumber: 5.6 Consensus size: 48
100176003 ACGAGCGCTG
* * * *
100176013 GTGTAAGA-CATGTCTAGGACAT-GCATCGACCT-CGAGA-GTAACCCA
1 GTGTAAGACCATGTTTGGGACATGGCATCG-GCTACGAGATGTAAGCCA
*
100176058 GTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGT--GTCA
1 GTGTAAGACCATGTTTGGGACATGGCATCGGCTACGAGATGTAAGCCA
* * * *
100176102 GTGTCAGACCATGTTTGGGACATGGCATCAGC-ACGGATATGTGAGAGCTA
1 GTGTAAGACCATGTTTGGGACATGGCATCGGCTAC-GAGATGT-A-AGCCA
* ** * *
100176152 GGGTAAGACCATGTTTGGGACATGGCATCGGC--CTTGATTTCGATAGTCA
1 GTGTAAGACCATGTTTGGGACATGGCATCGGCTACGAGATGT--A-AGCCA
* * * * *
100176201 ATGTAAAACCATGTCTGGGACATGGCATCGACTTGA-TAGATG--AGCCA
1 GTGTAAGACCATGTTTGGGACATGGCATCGGC-T-ACGAGATGTAAGCCA
*
100176248 GTGTAAGACCATGTCTGGGACATGGCATC
1 GTGTAAGACCATGTTTGGGACATGGCATC
100176277 AGCATTATAC
Statistics
Matches: 175, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.06
45 47 0.27
46 15 0.09
47 31 0.18
48 3 0.02
49 33 0.19
50 31 0.18
52 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTTTGGGACATGGCATCGGCTACGAGATGTAAGCCA
Found at i:100197529 original size:19 final size:20
Alignment explanation
Indices: 100197475--100197530 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
100197465 ATTAGGCCTT
*
100197475 GCCCATATTAACACAGTTGG
1 GCCCATATTAAAACAGTTGG
*
100197495 GCCCAT-TTCAATACAGTT-G
1 GCCCATATT-AAAACAGTTGG
*
100197514 GCCCATAATAAAACAGT
1 GCCCATATTAAAACAGT
100197531 CTCATATGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (20 bp):
GCCCATATTAAAACAGTTGG
Found at i:100218183 original size:12 final size:14
Alignment explanation
Indices: 100218166--100218197 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
100218156 GCGAAAACAC
100218166 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
100218178 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
100218192 ATGTGT
1 ATGTGT
100218198 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:100218562 original size:343 final size:343
Alignment explanation
Indices: 100217936--100218621 Score: 1185
Period size: 343 Copynumber: 2.0 Consensus size: 343
100217926 ATAAGTCCTT
*
100217936 TTCACCGATTGTGCTACTAAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTACA
1 TTCACCGATTGTGCTACCAAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTACA
100218001 ATATTTTGTTATTATATGAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
66 ATATTTTGTTATTATATGAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
100218066 AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCATCGGA
131 AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCATCGGA
* * *
100218131 ATAGAAAAGATACGGATGATCCATTGCGAAAACACATGTGTAGTACTATGTGTAGGCTACTATGT
196 ATAGAAAAGATACGAATGATCCATTGCGAAAACACATGTGTAGTACTATGTGCAGACTACTATGT
*
100218196 GTTTAAAATGGTTTTAGGTCACGTGTGTCGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
261 GTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
*
100218261 TCGATCACATGTGTGGTA
326 TCAATCACATGTGTGGTA
* * * * *
100218279 TTCACCGATTGTTCTACCGAGGTAATTTTGTATGTAAATAAGATATCGTTTTTACTTATGTTATA
1 TTCACCGATTGTGCTACCAAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTACA
*
100218344 ATATTTTGTTATTATATGAAAGGTGGTTGCTTATTGAATGATCACTTGATGTAAATTATGAATTG
66 ATATTTTGTTATTATATGAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
* * *
100218409 AAATTGATTATGGATGAATTGATACAATGTTGAACAGTGAGGAATTTTCTGGTTGGACC-TCCGG
131 AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCAT-CGG
* * *
100218473 AATAGAAAAGATACGAATGATCCGTTGTGAAAACATATGTGTAGTACTATGTGCAGACTACTATG
195 AATAGAAAAGATACGAATGATCCATTGCGAAAACACATGTGTAGTACTATGTGCAGACTACTATG
100218538 TGTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGC
260 TGTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGC
*
100218603 TTCAATCACATGTTTGGTA
325 TTCAATCACATGTGTGGTA
100218622 AGTGTAAGCC
Statistics
Matches: 323, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
342 1 0.00
343 322 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (343 bp):
TTCACCGATTGTGCTACCAAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTACA
ATATTTTGTTATTATATGAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCATCGGA
ATAGAAAAGATACGAATGATCCATTGCGAAAACACATGTGTAGTACTATGTGCAGACTACTATGT
GTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
TCAATCACATGTGTGGTA
Found at i:100223624 original size:21 final size:22
Alignment explanation
Indices: 100223598--100223638 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
100223588 TACTAGCCAC
100223598 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
100223619 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
100223639 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:100224920 original size:47 final size:46
Alignment explanation
Indices: 100224797--100224946 Score: 157
Period size: 47 Copynumber: 3.3 Consensus size: 46
100224787 CCTGGACATA
* *
100224797 GTCTTACACTAGC-T-CA-ACTCGTAGTCGATGCATGTCCCAGGCAT
1 GTCTTACACTAGCTTACATAAT-GTAGCCGATGCATGTCCCAGGCAT
** *
100224841 GTCTTACACTAGCTTACATCTTG-AGGCTGATGCATGTCCCAGGCAT
1 GTCTTACACTAGCTTACATAATGTA-GCCGATGCATGTCCCAGGCAT
* * *
100224887 GGTCTTACACTGGCTCT-CGTAATGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTAGCT-TACATAATGTAGCCGATGCATGTCCCAGGCAT
100224934 GTCTTACACTAGC
1 GTCTTACACTAGC
100224947 ACACAATAAC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
44 13 0.15
45 2 0.02
46 34 0.39
47 37 0.42
48 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
GTCTTACACTAGCTTACATAATGTAGCCGATGCATGTCCCAGGCAT
Found at i:100226858 original size:17 final size:18
Alignment explanation
Indices: 100226836--100226869 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100226826 TAAGAGTTGA
*
100226836 TAAA-TTTATTTTTCTAT
1 TAAATTTTATTATTCTAT
100226853 TAAATTTTATTATTCTA
1 TAAATTTTATTATTCTA
100226870 GAAAGTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTTTATTATTCTAT
Found at i:100230461 original size:49 final size:49
Alignment explanation
Indices: 100230389--100230613 Score: 198
Period size: 49 Copynumber: 4.7 Consensus size: 49
100230379 TGATATATGT
* *
100230389 GCTAGTGCAAAACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
* * * * * *
100230438 GCTAGTGTAAGACCTGTCTGGGACACGGCATCAGCCTCAAGATATGTA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATG-AGA
* * * * *
100230487 GCTAGTGTAAGATCTGTCTGGGACATGGCATTGGC-TTG--AGGTGTG-
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
* * *
100230532 TC-AGTGTAAGACCTGTTTGGGACATGGCATCGACA-CAGATA-AGTGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATC-GATAGA-TGAGA
* *
100230580 GCTAGTGTAAGACTTGTCTGGGACAAGG-ATCGGC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGC
100230614 CTCAGTGTAA
Statistics
Matches: 137, Mismatches: 30, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
44 28 0.20
45 2 0.01
46 3 0.02
47 4 0.03
48 7 0.05
49 92 0.67
50 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
Found at i:100231787 original size:40 final size:41
Alignment explanation
Indices: 100231742--100231837 Score: 160
Period size: 40 Copynumber: 2.4 Consensus size: 41
100231732 TCAAGGTTTT
100231742 TGGACACGGGCGTGTCATGGCCGTGTGAGGGACACGA-G-CA
1 TGGACACGGGCGTGTCATGGCCGTGTGAGGGACA-GAGGCCA
*
100231782 TGGACACGGGCGTGTCATGGCCGTGTGAGGGACATAGGCCA
1 TGGACACGGGCGTGTCATGGCCGTGTGAGGGACAGAGGCCA
100231823 TGGACACGGGCGTGT
1 TGGACACGGGCGTGT
100231838 GCCAGAGCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
39 1 0.02
40 35 0.66
41 17 0.32
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.17
Consensus pattern (41 bp):
TGGACACGGGCGTGTCATGGCCGTGTGAGGGACAGAGGCCA
Found at i:100236316 original size:38 final size:38
Alignment explanation
Indices: 100236265--100236499 Score: 371
Period size: 38 Copynumber: 6.1 Consensus size: 38
100236255 ATATTCGATG
100236265 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
100236303 TATATCCGGGTTAAATCCAGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
100236341 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
100236379 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
100236419 AATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
100236457 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
100236495 TATAT
1 TATAT
100236500 TCAGGCCTTC
Statistics
Matches: 182, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 143 0.79
39 9 0.05
40 30 0.16
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:100236449 original size:78 final size:76
Alignment explanation
Indices: 100236266--100236493 Score: 375
Period size: 78 Copynumber: 3.0 Consensus size: 76
100236256 TATTCGATGT
*
100236266 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCAGCAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
*
100236331 GTGCTGGTAAT
66 GTGCTGGTAAA
*
100236342 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG-TTAAA-TCCCGCAGGCT
100236407 TCGTGCTGGTAAA
64 TCGTGCTGGTAAA
* * * *
100236420 ATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTA
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
100236485 GTGCTGGTA
66 GTGCTGGTA
100236494 TTATATTCAG
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
76 66 0.46
77 9 0.06
78 67 0.47
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (76 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
GTGCTGGTAAA
Found at i:100236489 original size:116 final size:114
Alignment explanation
Indices: 100236265--100236499 Score: 371
Period size: 116 Copynumber: 2.0 Consensus size: 114
100236255 ATATTCGATG
* ** *
100236265 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCAGCAGGCTT
1 TATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAATCCAGCAGGCTT
* * *
100236330 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
66 CGTGCTGGTAATATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
*
100236379 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAATCCCGCAGGC
1 TATATCCGGG-TTAAA-ACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAATCCAGCAGGC
*
100236444 TTCGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
64 TTCGTGCTGGTAATATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
100236495 TATAT
1 TATAT
100236500 TCAGGCCTTC
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 10 0.09
115 5 0.05
116 95 0.86
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (114 bp):
TATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAATCCAGCAGGCTT
CGTGCTGGTAATATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
Found at i:100236621 original size:43 final size:43
Alignment explanation
Indices: 100236497--100236608 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
100236487 GCTGGTATTA
*
100236497 TATTCAGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
100236540 TATTCGGGGCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
100236583 TATTCAGGCCTTCGTGCCTAGCAGGC
1 TATTCAGGCCTTCGTGCCTAGCAGGC
100236609 ATAATGCCGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:100238789 original size:12 final size:12
Alignment explanation
Indices: 100238774--100238798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100238764 TTAGTATTTG
100238774 TTCATTTTGTCA
1 TTCATTTTGTCA
100238786 TTCATTTTGTCA
1 TTCATTTTGTCA
100238798 T
1 T
100238799 GACACACAAT
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:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (12 bp):
TTCATTTTGTCA
Found at i:100241058 original size:42 final size:42
Alignment explanation
Indices: 100240994--100241148 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
100240984 CTAAAACTAT
*
100240994 GTGTAAGACCATATCTGGGATATGGCATCAATGTAAGATTTC
1 GTGTAAGACCATATCTGAGATATGGCATCAATGTAAGATTTC
* * *
100241036 GTGTAAGACCATATTTGAGATATGGCATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGAGATATGGCATCAATGTAAGATTTC
* * * *** **
100241078 GTGTAAGACCATAGT-TGGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATA-TCTGAGATA-TGGCATCAATGTAAGATTTC
* *
100241121 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGAGATATGGCAT
100241149 TGGTATGGTA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGATATGGCATCAATGTAAGATTTC
Found at i:100241126 original size:43 final size:42
Alignment explanation
Indices: 100241037--100241148 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
100241027 TAAGATTTCG
* ** ** *
100241037 TGTAAGACCATATTTGAGATATGGCATCGATGTGAGATTTCG
1 TGTAAGACCATAGTTGAGATATGGCATCGATACGAGATCCCA
* *
100241079 TGTAAGACCATAGTTGGGCTATTGGCATCGATACGAGATCCCA
1 TGTAAGACCATAGTTGAGATA-TGGCATCGATACGAGATCCCA
*
100241122 TGTAAGACCATA-TCTGGGATATGGCAT
1 TGTAAGACCATAGT-TGAGATATGGCAT
100241149 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGTTGAGATATGGCATCGATACGAGATCCCA
Found at i:100247479 original size:6 final size:6
Alignment explanation
Indices: 100247461--100247504 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
100247451 TGCAAATGAA
* * *
100247461 TCATTT CTCATTT TCATTT TCATTT CCATTT CCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
100247505 GAGAAAACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:100247485 original size:12 final size:12
Alignment explanation
Indices: 100247462--100247504 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
100247452 GCAAATGAAT
*
100247462 CATTTCTCATTTT
1 CATTT-TCATTTC
100247475 CATTTTCATTTC
1 CATTTTCATTTC
*
100247487 CATTTCCATTTC
1 CATTTTCATTTC
100247499 CATTTT
1 CATTTT
100247505 GAGAAAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:100247496 original size:18 final size:19
Alignment explanation
Indices: 100247461--100247503 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
100247451 TGCAAATGAA
*
100247461 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
100247480 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
*
100247498 CCATTT
1 TCATTT
100247504 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:100250813 original size:22 final size:22
Alignment explanation
Indices: 100250787--100250832 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
100250777 GCATGGTAGT
* *
100250787 ATGTGTTAAATGCTTTAATATA
1 ATGTGATAAATGATTTAATATA
*
100250809 ATGTGATAAATGATTTATTATA
1 ATGTGATAAATGATTTAATATA
100250831 AT
1 AT
100250833 TATGAGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (22 bp):
ATGTGATAAATGATTTAATATA
Found at i:100258600 original size:33 final size:32
Alignment explanation
Indices: 100258512--100258605 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
100258502 TTTTTGAGTG
**
100258512 GTACACACAAAGTATACCTTTCCTTTTCAAGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* * * *
100258544 GTACACATAAAGTGTACATAACCTTTTCATGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* *
100258576 GATATACACAAAGTATACCCAACCTTTTCA
1 G-TACACACAAAGTATACCTAACCTTTTCA
100258606 CATTTGATAG
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
32 27 0.54
33 23 0.46
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (32 bp):
GTACACACAAAGTATACCTAACCTTTTCAAGT
Found at i:100258643 original size:29 final size:29
Alignment explanation
Indices: 100258598--100258693 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
100258588 GTATACCCAA
* *
100258598 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGTTATC
** *
100258627 CCTTTTCACATTCGATAGCTGAGGTTATC
1 CCTTTTCACATTCGATAGCCAAAGTTATC
* *
100258656 CCTTTTCACATTCAATAGCCTAAGTTATC
1 CCTTTTCACATTCGATAGCCAAAGTTATC
* *
100258685 ACTATTCAC
1 CCTTTTCAC
100258694 TGATTAGGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.36
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCAAAGTTATC
Found at i:100258736 original size:31 final size:31
Alignment explanation
Indices: 100258684--100258848 Score: 240
Period size: 31 Copynumber: 5.3 Consensus size: 31
100258674 CCTAAGTTAT
* * * *
100258684 CACTATTCACTGATTAGGTAGCTGGAGCTAC
1 CACTTTTCACTGATCAGGTAGCCGAAGCTAC
* *
100258715 CACTTTTCACTAATCAAGTAGCCGAAGCTAC
1 CACTTTTCACTGATCAGGTAGCCGAAGCTAC
* *
100258746 TACTTTTCACTGATCAGGTAGCCGAAGCTAA
1 CACTTTTCACTGATCAGGTAGCCGAAGCTAC
* *
100258777 CACTTTTCACTGATCAGGTAACCGAAGTTAC
1 CACTTTTCACTGATCAGGTAGCCGAAGCTAC
100258808 CACTTTTCACTGATCAGGTAGCCGAAGCTAC
1 CACTTTTCACTGATCAGGTAGCCGAAGCTAC
100258839 CACTTTTCAC
1 CACTTTTCAC
100258849 ATTGTACGCA
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 118 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
CACTTTTCACTGATCAGGTAGCCGAAGCTAC
Found at i:100261587 original size:46 final size:46
Alignment explanation
Indices: 100261535--100261622 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
100261525 GAAGGAAATA
* * *
100261535 AAAACCTAATATGATAGAGAAAATAAGTAAAACTAAAACTTTTAAT
1 AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTTTTAAT
*
100261581 AAAACCTGATATAATAAAGAAAATAAATAAAACTAAAACTTT
1 AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTTT
100261623 GATTGTTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.59, C:0.09, G:0.07, T:0.25
Consensus pattern (46 bp):
AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTTTTAAT
Found at i:100263534 original size:27 final size:27
Alignment explanation
Indices: 100263503--100263558 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
100263493 AAATAATTCA
100263503 TTGAGTTAGCTCCGACATATATAAATC
1 TTGAGTTAGCTCCGACATATATAAATC
100263530 TTGAGTTAGCTCCGACATATATAAATC
1 TTGAGTTAGCTCCGACATATATAAATC
100263557 TT
1 TT
100263559 TATTCTCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (27 bp):
TTGAGTTAGCTCCGACATATATAAATC
Found at i:100267288 original size:46 final size:48
Alignment explanation
Indices: 100267192--100267292 Score: 170
Period size: 46 Copynumber: 2.1 Consensus size: 48
100267182 CTCTTCAATA
100267192 TAGTGAGCTTATACATGTGAGACAGGGGATGCCATGTGTCAAGATCTTAT
1 TAGTGAGCTTATACATGTGAGACA--GGATGCCATGTGTCAAGATCTTAT
100267242 TAGTGAGCTTATACATGTGAGACA-G-TGCCATGTGTCAAGATCTTAT
1 TAGTGAGCTTATACATGTGAGACAGGATGCCATGTGTCAAGATCTTAT
100267288 TAGTG
1 TAGTG
100267293 CCAAAGTCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
46 26 0.51
47 1 0.02
50 24 0.47
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (48 bp):
TAGTGAGCTTATACATGTGAGACAGGATGCCATGTGTCAAGATCTTAT
Found at i:100268158 original size:18 final size:18
Alignment explanation
Indices: 100268135--100268171 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
100268125 GTAACTTTTC
100268135 TTTCTTCTTCTTTTTATT
1 TTTCTTCTTCTTTTTATT
* *
100268153 TTTCTTTTTTTTTTTATT
1 TTTCTTCTTCTTTTTATT
100268171 T
1 T
100268172 CTCTGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTCTTCTTCTTTTTATT
Found at i:100268164 original size:16 final size:17
Alignment explanation
Indices: 100268130--100268183 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
100268120 CAATGGTAAC
*
100268130 TTTTCTTTCTTCTTCTTT
1 TTTTATTTCTTCTT-TTT
100268148 TTATT-TTTCTT-TTTTT
1 TT-TTATTTCTTCTTTTT
100268164 TTTTATTTC-TCTGTTTT
1 TTTTATTTCTTCT-TTTT
100268181 TTT
1 TTT
100268184 CTTGAGTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 3 0.09
16 10 0.31
17 9 0.28
18 8 0.25
19 2 0.06
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTATTTCTTCTTTTT
Found at i:100268180 original size:18 final size:18
Alignment explanation
Indices: 100268145--100268183 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
100268135 TTTCTTCTTC
* *
100268145 TTTTTATTTTTCTTTTTT
1 TTTTTATTTCTCTGTTTT
100268163 TTTTTATTTCTCTGTTTT
1 TTTTTATTTCTCTGTTTT
100268181 TTT
1 TTT
100268184 CTTGAGTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTATTTCTCTGTTTT
Found at i:100270898 original size:2 final size:2
Alignment explanation
Indices: 100270891--100270927 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
100270881 CAAATAGGTG
100270891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100270928 GTTAGCTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100272566 original size:87 final size:86
Alignment explanation
Indices: 100272421--100272613 Score: 325
Period size: 87 Copynumber: 2.2 Consensus size: 86
100272411 TTAAGGTATG
* * *
100272421 GATTTTGTTCGGTTTTTGATAATTTCTACGTTTTTGTAATTGTTGCTTCGTATACTATCTTCTGC
1 GATTTTGTTCGATTTTTGATAATTTCTACGTTTTTGTAATGGTTGCTTCGTATACTATCTTCGGC
100272486 TATATAAGGCACTAAATGTGC
66 TATATAAGGCACTAAATGTGC
*
100272507 GATTTTGTTCGATATTTTGATTATTTCTACGTTTTTGTAATGGTTGCTTCGTATACTATCTTCGG
1 GATTTTGTTCGAT-TTTTGATAATTTCTACGTTTTTGTAATGGTTGCTTCGTATACTATCTTCGG
100272572 CTATATAAGGCACTAAATGTGC
65 CTATATAAGGCACTAAATGTGC
100272594 GATTTTGTTCTG-TTTTTGAT
1 GATTTTGTTC-GATTTTTGAT
100272614 CATTACGTAT
Statistics
Matches: 101, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
86 19 0.19
87 81 0.80
88 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (86 bp):
GATTTTGTTCGATTTTTGATAATTTCTACGTTTTTGTAATGGTTGCTTCGTATACTATCTTCGGC
TATATAAGGCACTAAATGTGC
Found at i:100279200 original size:24 final size:24
Alignment explanation
Indices: 100279160--100279221 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
100279150 GATTATGTAG
100279160 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
100279184 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
100279209 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
100279222 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:100280421 original size:29 final size:29
Alignment explanation
Indices: 100280388--100280452 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
100280378 GTGACGAGAT
*
100280388 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
100280417 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
100280446 CGGCACT
1 TGGCACT
100280453 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:100290786 original size:12 final size:12
Alignment explanation
Indices: 100290769--100290794 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100290759 ATTGGGCTGT
100290769 TACAGGTATCGA
1 TACAGGTATCGA
100290781 TACAGGTATCGA
1 TACAGGTATCGA
100290793 TA
1 TA
100290795 TTCATGTTGT
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:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (12 bp):
TACAGGTATCGA
Found at i:100291662 original size:15 final size:15
Alignment explanation
Indices: 100291630--100291658 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
100291620 ATTTTATGTG
100291630 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
100291645 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
100291659 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:100292896 original size:56 final size:56
Alignment explanation
Indices: 100292796--100292905 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 56
100292786 CCATGGCATC
** *
100292796 AATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGATTCT
1 AATATATGTGTGCGAGTAAGACCACGTTGGATACGTTGGCATCGATATGCGATTCT
*
100292852 AATATATGTGTGCGAGTAAGACC-CTGTCTGGGATA-G-TGGTATCGATATGCGATT
1 AATATATGTGTGCGAGTAAGACCAC-GT-T-GGATACGTTGGCATCGATATGCGATT
100292906 ACATGTAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
55 1 0.02
56 41 0.87
57 2 0.04
58 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (56 bp):
AATATATGTGTGCGAGTAAGACCACGTTGGATACGTTGGCATCGATATGCGATTCT
Found at i:100295347 original size:344 final size:344
Alignment explanation
Indices: 100294720--100295364 Score: 1263
Period size: 344 Copynumber: 1.9 Consensus size: 344
100294710 AAATGGTTAT
100294720 ATGTGAGTTTAATAAAACTGAATTGTGTTTTGTGTATTATTGATTCAAGAATTTATAAACTAAAG
1 ATGTGAGTTTAATAAAACTGAATTGTGTTTTGTGTATTATTGATTCAAGAATTTATAAACTAAAG
*
100294785 TTATAAATGTATATTTCTGAACATGGTCTGATAGACTGTGTAAATGTGAGAAAGTTTTATCTTTT
66 TTATAAATGTATATTTCTGAACATGGTCTGATAGACTGTGTAAATGTGAGAAAGATTTATCTTTT
*
100294850 CCGGTAATGCCTCGTAACCCAGTCCGGCGACGGATACGGGTTAGGAGTGTTACAGTGAAATTACA
131 CCGGTAATGCCTCGTAACCCAGTCCGGCGACGGATAAGGGTTAGGAGTGTTACAGTGAAATTACA
100294915 ATTTAACCAAAATAAAATACATAACAATACATAATTATACCCTATGAACTTACCAGGTACAAACA
196 ATTTAACCAAAATAAAATACATAACAATACATAATTATACCCTATGAACTTACCAGGTACAAACA
100294980 ACAACAATTGAAGTGCCAAAGACTAATATGATAGTCTCTATTAATAAGGAGGATGAGGAGCTAGA
261 ACAACAATTGAAGTGCCAAAGACTAATATGATAGTCTCTATTAATAAGGAGGATGAGGAGCTAGA
100295045 GGGTAAGATTTTGAGTTTA
326 GGGTAAGATTTTGAGTTTA
100295064 ATGTGAGTTTAATAAAACTGAATTGTGTTTTGTGTATTATTGATTCAAGAATTTATAAACTAAAG
1 ATGTGAGTTTAATAAAACTGAATTGTGTTTTGTGTATTATTGATTCAAGAATTTATAAACTAAAG
*
100295129 TTATTAATGTATATTTCTGAACATGGTCTGATAGACTGTGTAAATGTGAGAAAGATTTATCTTTT
66 TTATAAATGTATATTTCTGAACATGGTCTGATAGACTGTGTAAATGTGAGAAAGATTTATCTTTT
100295194 CCGGTAATGCCTCGTAACCCAGTCCGGCGACGGATAAGGGTTAGGAGTGTTACAGTGAAATTACA
131 CCGGTAATGCCTCGTAACCCAGTCCGGCGACGGATAAGGGTTAGGAGTGTTACAGTGAAATTACA
100295259 ATTTAACCAAAATAAAATACATAACAATACATAATTATACCCTATGAACTTACCAGGTACAAACA
196 ATTTAACCAAAATAAAATACATAACAATACATAATTATACCCTATGAACTTACCAGGTACAAACA
100295324 ACAACAATTGAAGTGCCAAAGACTAATATGATAGTCTCTAT
261 ACAACAATTGAAGTGCCAAAGACTAATATGATAGTCTCTAT
100295365 GATACTTAAA
Statistics
Matches: 298, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
344 298 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (344 bp):
ATGTGAGTTTAATAAAACTGAATTGTGTTTTGTGTATTATTGATTCAAGAATTTATAAACTAAAG
TTATAAATGTATATTTCTGAACATGGTCTGATAGACTGTGTAAATGTGAGAAAGATTTATCTTTT
CCGGTAATGCCTCGTAACCCAGTCCGGCGACGGATAAGGGTTAGGAGTGTTACAGTGAAATTACA
ATTTAACCAAAATAAAATACATAACAATACATAATTATACCCTATGAACTTACCAGGTACAAACA
ACAACAATTGAAGTGCCAAAGACTAATATGATAGTCTCTATTAATAAGGAGGATGAGGAGCTAGA
GGGTAAGATTTTGAGTTTA
Found at i:100296827 original size:19 final size:19
Alignment explanation
Indices: 100296803--100296843 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
100296793 CGATCCGTGA
* *
100296803 CCATAACGCATATTACGAC
1 CCATAACGCACATTACAAC
100296822 CCATAACGCACATTACAAC
1 CCATAACGCACATTACAAC
100296841 CCA
1 CCA
100296844 AGACGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.37, G:0.07, T:0.17
Consensus pattern (19 bp):
CCATAACGCACATTACAAC
Found at i:100311194 original size:21 final size:21
Alignment explanation
Indices: 100311165--100311211 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
100311155 TTCAAGGGTA
* *
100311165 TGTCATGACACCCTCAGTCTG
1 TGTCGTGACACCCTCAATCTG
100311186 TGTCGTGACACCCTCAATCTG
1 TGTCGTGACACCCTCAATCTG
100311207 TGTCG
1 TGTCG
100311212 CAACATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.32, G:0.21, T:0.30
Consensus pattern (21 bp):
TGTCGTGACACCCTCAATCTG
Found at i:100313661 original size:21 final size:21
Alignment explanation
Indices: 100313632--100313678 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
100313622 TTCAAGGGTA
* *
100313632 TGTCATGACACCCTCAGTCTG
1 TGTCGTGACACCCTCAATCTG
100313653 TGTCGTGACACCCTCAATCTG
1 TGTCGTGACACCCTCAATCTG
100313674 TGTCG
1 TGTCG
100313679 CAACATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.32, G:0.21, T:0.30
Consensus pattern (21 bp):
TGTCGTGACACCCTCAATCTG
Found at i:100314730 original size:17 final size:17
Alignment explanation
Indices: 100314710--100314745 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
100314700 GTTTTAAAAG
100314710 AAAAAATAGATTAATGT
1 AAAAAATAGATTAATGT
100314727 AAAAAATAGATTAATGT
1 AAAAAATAGATTAATGT
100314744 AA
1 AA
100314746 CACCTGGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (17 bp):
AAAAAATAGATTAATGT
Found at i:100321490 original size:3 final size:3
Alignment explanation
Indices: 100321482--100321538 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
100321472 AATACTAGCG
100321482 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100321530 ATAA ATA AT
1 AT-A ATA AT
100321539 GGTAACAGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100323509 original size:44 final size:42
Alignment explanation
Indices: 100323414--100323519 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 42
100323404 TCTTCGATCA
* *
100323414 GCTCAACTGCAACTTCAGAGATAAGACTTGCAGCTTTGACCT
1 GCTCTACTGCAACTTCAGAGACAAGACTTGCAGCTTTGACCT
* * * *
100323456 GCTCTACTGCAACTTTAGGGAGACAAGATTTGTAGCTTTGACGT
1 GCTCTACTGCAACTTCA--GAGACAAGACTTGCAGCTTTGACCT
100323500 GCT-TCACTGC-ACTTCAGAGA
1 GCTCT-ACTGCAACTTCAGAGA
100323520 GTCCAAATCT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
41 4 0.07
42 15 0.28
43 6 0.11
44 29 0.54
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (42 bp):
GCTCTACTGCAACTTCAGAGACAAGACTTGCAGCTTTGACCT
Found at i:100323772 original size:54 final size:54
Alignment explanation
Indices: 100323690--100323854 Score: 312
Period size: 54 Copynumber: 3.0 Consensus size: 54
100323680 AATGTGCCGC
*
100323690 AAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAA
100323744 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAA
100323798 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATT-AA
100323853 AA
1 AA
100323855 TACCTCAGCG
Statistics
Matches: 109, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
54 105 0.96
55 4 0.04
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:100323980 original size:87 final size:87
Alignment explanation
Indices: 100323834--100324013 Score: 272
Period size: 87 Copynumber: 2.1 Consensus size: 87
100323824 GAGTTGATTT
*
100323834 TTGAAAAACAGAAATTGAAAATACCTCAGCGTATATTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATATATTGAGGCTCAACTCACCTCTCGCAATATGA
* *
100323899 GTTGATTTTTTTG-AAACATAAA
66 GTTGA-TTTTTGGCAAACAAAAA
** * * *
100323921 TTGAAAAATGGAAATTGAAAATACCTCAGCATGTCTTGAGGGTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATATATTGAGGCTCAACTCACCTCTCGCAATATGA
100323986 GTTGATTTTTGGCAAACAAAAA
66 GTTGATTTTTGGCAAACAAAAA
100324008 TTGAAA
1 TTGAAA
100324014 TTACCTCAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 6 0.07
87 78 0.93
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATATATTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGGCAAACAAAAA
Found at i:100324049 original size:73 final size:73
Alignment explanation
Indices: 100323932--100324068 Score: 247
Period size: 73 Copynumber: 1.9 Consensus size: 73
100323922 TGAAAAATGG
* *
100323932 AAATTGAAAATACCTCAGCATGTCTTGAGGGTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
100323997 GCAAACAA
66 GCAAACAA
*
100324005 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
100324069 TTGAAAACAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (73 bp):
AAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
GCAAACAA
Found at i:100325678 original size:11 final size:10
Alignment explanation
Indices: 100325657--100325715 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
100325647 GACCTCTCCA
100325657 TTTTC-TTTT
1 TTTTCTTTTT
*
100325666 CTTTCTTTTT
1 TTTTCTTTTT
100325676 TCTTTCTTTCTT
1 T-TTTCTTT-TT
100325688 TTTT-TTTTT
1 TTTTCTTTTT
*
100325697 TTTTATTTTT
1 TTTTCTTTTT
*
100325707 TTTGCTTTT
1 TTTTCTTTT
100325716 GAATGAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 10 0.24
10 19 0.45
11 10 0.24
12 3 0.07
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:100325681 original size:15 final size:16
Alignment explanation
Indices: 100325657--100325707 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
100325647 GACCTCTCCA
100325657 TTTTCTTTTCTTTCTT
1 TTTTCTTTTCTTTCTT
100325673 TTTTC-TTTCTTTCTT
1 TTTTCTTTTCTTTCTT
* * *
100325688 TTTTTTTTTTTTTATT
1 TTTTCTTTTCTTTCTT
100325704 TTTT
1 TTTT
100325708 TTGCTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTCTTTCTT
Found at i:100326308 original size:9 final size:9
Alignment explanation
Indices: 100326294--100326319 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
100326284 AATTGATCTC
100326294 TTTTTTTTA
1 TTTTTTTTA
100326303 TTTTTTTTA
1 TTTTTTTTA
100326312 TTTTTTTT
1 TTTTTTTT
100326320 TCTTTTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:100328690 original size:15 final size:17
Alignment explanation
Indices: 100328654--100328690 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
100328644 CCTATTTAGG
100328654 CATTTCATTCATCAAAA
1 CATTTCATTCATCAAAA
*
100328671 GATTTCATT-A-CAAAA
1 CATTTCATTCATCAAAA
100328686 CATTT
1 CATTT
100328691 TTCCATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.50
16 1 0.06
17 8 0.44
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (17 bp):
CATTTCATTCATCAAAA
Found at i:100332528 original size:21 final size:22
Alignment explanation
Indices: 100332502--100332544 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
100332492 TGGTAAGAAC
*
100332502 ATATATAAGAAATAGTA-TAAA
1 ATATATAACAAATAGTACTAAA
*
100332523 ATATATAACTAATAGTACTAAA
1 ATATATAACAAATAGTACTAAA
100332545 GGTATATATA
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:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (22 bp):
ATATATAACAAATAGTACTAAA
Found at i:100334012 original size:26 final size:26
Alignment explanation
Indices: 100333983--100334090 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
100333973 TGATACAAAT
100333983 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100334009 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100334035 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100334061 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100334087 TGAT
1 TGAT
100334091 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100337547 original size:26 final size:26
Alignment explanation
Indices: 100337518--100337572 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
100337508 TTTATTATTA
100337518 TATTATATTGTCAAATAAATAAATTT
1 TATTATATTGTCAAATAAATAAATTT
100337544 TATTATATTGTCAAATAAATAAATTT
1 TATTATATTGTCAAATAAATAAATTT
100337570 TAT
1 TAT
100337573 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
TATTATATTGTCAAATAAATAAATTT
Found at i:100337547 original size:31 final size:28
Alignment explanation
Indices: 100337511--100337568 Score: 93
Period size: 26 Copynumber: 2.1 Consensus size: 28
100337501 TTTATTATTT
100337511 ATTATTATATTATATTGTCAAATAAATAA
1 ATTATT-TATTATATTGTCAAATAAATAA
100337540 A-T-TTTATTATATTGTCAAATAAATAA
1 ATTATTTATTATATTGTCAAATAAATAA
100337566 ATT
1 ATT
100337569 TTATCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 23 0.82
27 3 0.11
28 1 0.04
29 1 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (28 bp):
ATTATTTATTATATTGTCAAATAAATAA
Found at i:100339238 original size:14 final size:14
Alignment explanation
Indices: 100339219--100339252 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
100339209 GTGGTCTAAT
100339219 CTGTAATGTAGTAA
1 CTGTAATGTAGTAA
100339233 CTGTAATGTAGTAA
1 CTGTAATGTAGTAA
*
100339247 TTGTAA
1 CTGTAA
100339253 GTCGGGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (14 bp):
CTGTAATGTAGTAA
Found at i:100340583 original size:35 final size:35
Alignment explanation
Indices: 100340544--100340615 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
100340534 GTTTTTAAGG
* *
100340544 TTAGGGTTTTGCCAAAATAAGTTAAGGTTTAGTGT
1 TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT
* ** *
100340579 TTAGGTTTTTGTTAAAACAAGTTAGGGTTTAGAGT
1 TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT
100340614 TT
1 TT
100340616 TAGTAGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.04, G:0.25, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT
Found at i:100340721 original size:25 final size:24
Alignment explanation
Indices: 100340693--100340742 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
100340683 TTTTAATAAA
*
100340693 TTAAGTAAATTAGGGTTCTAGAGTT
1 TTAAATAAATTAGGGTT-TAGAGTT
*
100340718 TTAAATAAATTAGGGTTTAGGGTT
1 TTAAATAAATTAGGGTTTAGAGTT
100340742 T
1 T
100340743 ATAGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.42
Consensus pattern (24 bp):
TTAAATAAATTAGGGTTTAGAGTT
Found at i:100340725 original size:34 final size:33
Alignment explanation
Indices: 100340665--100340796 Score: 144
Period size: 34 Copynumber: 3.9 Consensus size: 33
100340655 AAATTTATTC
* * *
100340665 AAATTAAGGTTTAGGATTTTTTAATAAATTAAGT
1 AAATTAGGGTTTA-GAGTTTTAAATAAATTAAGT
*
100340699 AAATTAGGGTTCTAGAGTTTTAAATAAATTAGGGT
1 AAATTAGGGTT-TAGAGTTTTAAATAAATTA-AGT
*
100340734 ---TTAGGGTTTATAGTTTTTAAATAAATTAAGT
1 AAATTAGGGTTTAGAG-TTTTAAATAAATTAAGT
*
100340765 AAATTAGGGTTTTAGGGTTTTAAATAAATTAA
1 AAATTAGGG-TTTAGAGTTTTAAATAAATTAA
100340797 ATTAGGGTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
31 6 0.07
32 22 0.27
34 46 0.55
35 9 0.11
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (33 bp):
AAATTAGGGTTTAGAGTTTTAAATAAATTAAGT
Found at i:100341507 original size:24 final size:24
Alignment explanation
Indices: 100341480--100341531 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
100341470 TATTTAAAAG
100341480 AAATTATATTT-TATTAAAA-ATATA
1 AAATTA-ATTTATATTAAAATAT-TA
100341504 AAATTAATTTACTATTAAAATATTA
1 AAATTAATTTA-TATTAAAATATTA
100341529 AAA
1 AAA
100341532 ACAACTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.16
24 6 0.24
25 13 0.52
26 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTAATTTATATTAAAATATTA
Found at i:100345057 original size:15 final size:14
Alignment explanation
Indices: 100345037--100345071 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
100345027 ACTATTTTAA
*
100345037 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
100345051 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
100345066 GGTTTA
1 GGTTTA
100345072 AGGGTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:100345057 original size:22 final size:22
Alignment explanation
Indices: 100345032--100345078 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
100345022 AAGTTACTAT
* *
100345032 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
100345054 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
100345076 TTT
1 TTT
100345079 GGATTTAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:100345114 original size:29 final size:29
Alignment explanation
Indices: 100345082--100345172 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
100345072 AGGGTTTGGA
* * *
100345082 TTTAAGGTTTAGGGGTTAGGGGTTCAGGG
1 TTTAAGGTTTAGGGATTAGGAGTTTAGGG
*
100345111 TTTATA-TTTTA-GGATTTA--ATGTTTAGGG
1 TTTA-AGGTTTAGGGA-TTAGGA-GTTTAGGG
*
100345139 TTTAGGGTTTAGGGATTAGGAGTTTAGGG
1 TTTAAGGTTTAGGGATTAGGAGTTTAGGG
100345168 TTTAA
1 TTTAA
100345173 ATTAATTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
28 20 0.42
29 26 0.54
30 2 0.04
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (29 bp):
TTTAAGGTTTAGGGATTAGGAGTTTAGGG
Found at i:100345148 original size:14 final size:14
Alignment explanation
Indices: 100345032--100345171 Score: 93
Period size: 14 Copynumber: 9.8 Consensus size: 14
100345022 AAGTTACTAT
* *
100345032 TTTAAGGTTTATGG
1 TTTAGGGTTTAGGG
*
100345046 ATTATGGGTTTAGGG
1 TTTA-GGGTTTAGGG
* *
100345061 ATTATGGTTTAAGGG
1 TTTAGGGTTT-AGGG
* *
100345076 TTT-GGATTTAAGG
1 TTTAGGGTTTAGGG
*
100345089 TTTAGGGGTTAGGGG
1 TTTAGGGTTTA-GGG
* ***
100345104 TTCAGGGTTTATAT
1 TTTAGGGTTTAGGG
* **
100345118 TTTAGGATTTAATG
1 TTTAGGGTTTAGGG
100345132 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
*
100345146 TTTAGGGATTAGGAG
1 TTTAGGGTTTAGG-G
100345161 TTTAGGGTTTA
1 TTTAGGGTTTA
100345172 AATTAATTAA
Statistics
Matches: 95, Mismatches: 26, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
13 6 0.06
14 49 0.52
15 40 0.42
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:100345165 original size:43 final size:43
Alignment explanation
Indices: 100345051--100345172 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
100345041 TATGGATTAT
* *
100345051 GGGTTTAGGGATTATGGTTTAAGG-GTTT-GGATTTAAGGTTTA
1 GGGTTTAGGGTTTAGGGTTT-AGGAGTTTAGGATTTAAGGTTTA
* * * * *
100345093 GGGGTTAGGGGTTCAGGGTTTA-TATTTTAGGATTTAATGTTTA
1 GGGTTTA-GGGTTTAGGGTTTAGGAGTTTAGGATTTAAGGTTTA
* *
100345136 GGGTTTAGGGTTTAGGGATTAGGAGTTTAGGGTTTAA
1 GGGTTTAGGGTTTAGGGTTTAGGAGTTTAGGATTTAA
100345173 ATTAATTAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
42 22 0.35
43 41 0.65
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (43 bp):
GGGTTTAGGGTTTAGGGTTTAGGAGTTTAGGATTTAAGGTTTA
Found at i:100345809 original size:15 final size:16
Alignment explanation
Indices: 100345791--100345829 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
100345781 AAAAAAATTT
100345791 AAAATTTAAA-AATAA
1 AAAATTTAAACAATAA
*
100345806 AAAA-TAAAACAATAA
1 AAAATTTAAACAATAA
100345821 AAAATTTAA
1 AAAATTTAA
100345830 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTTAAACAATAA
Found at i:100350227 original size:23 final size:23
Alignment explanation
Indices: 100350201--100350309 Score: 116
Period size: 23 Copynumber: 4.7 Consensus size: 23
100350191 AAATGTTGTT
100350201 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAAGTGCTGCA
* *
100350224 AATTGAAGTGTTTAAA-TACTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
100350247 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
100350270 AATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
100350293 AATTGGAGTGTTTAAGT
1 AATTGAAGTGTTAAAGT
100350310 ACTTATTTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.12
23 53 0.73
24 11 0.15
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGCTGCA
Found at i:100350240 original size:46 final size:46
Alignment explanation
Indices: 100350178--100350309 Score: 176
Period size: 46 Copynumber: 2.9 Consensus size: 46
100350168 CAACTCATGT
* * * *
100350178 AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCA
*
100350224 AATTGAAGTGTTTAAATACTGTAAATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* * *
100350270 AATTGAAGTGTTTGAATGCTGTAAATTGGAGTGTTTAAGT
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGT
100350310 ACTTATTTTG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
46 74 0.97
47 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (46 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
Found at i:100353501 original size:12 final size:11
Alignment explanation
Indices: 100353486--100353556 Score: 56
Period size: 12 Copynumber: 6.2 Consensus size: 11
100353476 TCATGATTAC
100353486 TATATATTAGTG
1 TATATATTA-TG
*
100353498 TATATA-TATT
1 TATATATTATG
100353508 TATATATATATG
1 TATATAT-TATG
* *
100353520 TATATGTT-TT
1 TATATATTATG
100353530 TAATATATTTATG
1 T-ATATA-TTATG
100353543 TATATACTTATG
1 TATATA-TTATG
100353555 TA
1 TA
100353557 GCATTATTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
10 9 0.19
11 7 0.15
12 29 0.62
13 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:100353627 original size:31 final size:30
Alignment explanation
Indices: 100353585--100353662 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
100353575 TTTATCCCTA
100353585 ATAT-TTATGTATTATGTAAATATTTTAAT
1 ATATATTATGTATTATGTAAATATTTTAAT
* * **
100353614 ATTATATTATGTA-TATCTATATATTTTTGT
1 A-TATATTATGTATTATGTAAATATTTTAAT
100353644 ATATATTATGTATATATGT
1 ATATATTATGTAT-TATGT
100353663 TTTCAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 12 0.30
30 17 0.43
31 11 0.28
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATTATGTAAATATTTTAAT
Found at i:100353766 original size:19 final size:19
Alignment explanation
Indices: 100353742--100353778 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
100353732 CTATTTTATA
*
100353742 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
100353761 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
100353779 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:100353884 original size:20 final size:20
Alignment explanation
Indices: 100353783--100353887 Score: 62
Period size: 20 Copynumber: 5.2 Consensus size: 20
100353773 ATCATTATTA
*
100353783 TTTATATATATATGTATGTA-
1 TTTATATAT-TATGTATATAT
*
100353803 TTTATATAGCGTATG-A-ATAGT
1 TTTATATA--TTATGTATATA-T
100353824 TTT-TATATTAT-TATAT-T
1 TTTATATATTATGTATATAT
*
100353841 TCTAATATATATAT-TATATGTAT
1 T-TTATATAT-TATGTATA--TAT
100353864 TTTATATATTATGTATATAT
1 TTTATATATTATGTATATAT
100353884 TTTA
1 TTTA
100353888 ATGTTATTAG
Statistics
Matches: 67, Mismatches: 5, Indels: 26
0.68 0.05 0.27
Matches are distributed among these distances:
17 2 0.03
18 5 0.07
19 9 0.13
20 27 0.40
21 10 0.15
22 12 0.18
23 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTATATATTATGTATATAT
Done.