Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 149 of 211
Found at i:44172785 original size:25 final size:25
Alignment explanation
Indices: 44172730--44172819 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
44172720 ACTGATTTAT
* *
44172730 AGCTCATAAGAGCATACCGATTTAA
1 AGCTCGTAAGAGCATACCGATCTAA
* * *
44172755 ATCTCGTAAGAGCATATCGATCTAC
1 AGCTCGTAAGAGCATACCGATCTAA
* * *
44172780 AGCTCG-AATAAGTATACCGAT-TCAT
1 AGCTCGTAA-GAGCATACCGATCT-AA
*
44172805 AGCTCGTATGAGCAT
1 AGCTCGTAAGAGCAT
44172820 TCATGTACGT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
24 3 0.06
25 45 0.92
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (25 bp):
AGCTCGTAAGAGCATACCGATCTAA
Found at i:44176644 original size:30 final size:28
Alignment explanation
Indices: 44176603--44176685 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 28
44176593 TGTGTGAACC
* * *
44176603 CCCTTTAGGCGAACCTTTGTATGTGCGAA
1 CCCTATAGGCGAACCCTTGTATGTG-AAA
*
44176632 CCTCTATAGGCGAAACCCCTTGCATGTGAAA
1 CC-CTATAGGCG-AA-CCCTTGTATGTGAAA
44176663 CCCTATAGGCGAACCCTTGTATG
1 CCCTATAGGCGAACCCTTGTATG
44176686 CGGCCCCCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 9 0.20
29 4 0.09
30 17 0.37
31 6 0.13
32 10 0.22
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (28 bp):
CCCTATAGGCGAACCCTTGTATGTGAAA
Found at i:44177007 original size:17 final size:16
Alignment explanation
Indices: 44176959--44177007 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
44176949 GCAAACTGTA
*
44176959 ATATGTGAACCTTTAT
1 ATATGTGAACCTATAT
*
44176975 ATATATGAATCCTATATT
1 ATATGTGAA-CCTATA-T
*
44176993 GTATGTGAACCTATA
1 ATATGTGAACCTATA
44177008 AGTCTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.30
17 11 0.41
18 8 0.30
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (16 bp):
ATATGTGAACCTATAT
Found at i:44179262 original size:14 final size:14
Alignment explanation
Indices: 44179243--44179269 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44179233 TATTATAATA
44179243 AATTAAAGAAAAAT
1 AATTAAAGAAAAAT
44179257 AATTAAAGAAAAA
1 AATTAAAGAAAAA
44179270 AAGAAGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AATTAAAGAAAAAT
Found at i:44180530 original size:27 final size:27
Alignment explanation
Indices: 44180492--44180557 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
44180482 ATGATTATGT
44180492 GAAATGATTATA-AGAATTGGTTATATA
1 GAAATGATTATATAGAA-TGGTTATATA
44180519 GAAATAGA-TATATAGAATGGTTATAT-
1 GAAAT-GATTATATAGAATGGTTATATA
44180545 G-AATCGATTATAT
1 GAAAT-GATTATAT
44180558 GGAAATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
25 5 0.14
26 6 0.17
27 18 0.51
28 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (27 bp):
GAAATGATTATATAGAATGGTTATATA
Found at i:44180555 original size:13 final size:13
Alignment explanation
Indices: 44180474--44180596 Score: 92
Period size: 13 Copynumber: 9.4 Consensus size: 13
44180464 TTGAAATCGC
44180474 TATATGAAATGAT
1 TATATGAAATGAT
*
44180487 TATGTGAAATGAT
1 TATATGAAATGAT
* * *
44180500 TATAAGAATTGGT
1 TATATGAAATGAT
44180513 TATATAGAAATAGA-
1 TATAT-GAAAT-GAT
*
44180527 TATAT-AGAATGGT
1 TATATGA-AATGAT
44180540 TATATG-AATCGAT
1 TATATGAAAT-GAT
*
44180553 TATATGGAAATAAT
1 TATAT-GAAATGAT
* *
44180567 TATATTAAGTG-T
1 TATATGAAATGAT
*
44180579 TATATGAAATGTT
1 TATATGAAATGAT
44180592 TATAT
1 TATAT
44180597 TCATAAATAT
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
12 15 0.18
13 49 0.58
14 17 0.20
15 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.40
Consensus pattern (13 bp):
TATATGAAATGAT
Found at i:44193541 original size:22 final size:22
Alignment explanation
Indices: 44193507--44193549 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44193497 CGGGGGTAGA
* *
44193507 CTCTAAATTAGTATCTGATATG
1 CTCTAAATCAGTACCTGATATG
*
44193529 CTCTACATCAGTACCTGATAT
1 CTCTAAATCAGTACCTGATAT
44193550 ACTTTGTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (22 bp):
CTCTAAATCAGTACCTGATATG
Found at i:44203898 original size:11 final size:11
Alignment explanation
Indices: 44203878--44203907 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44203868 TCCCGAAATC
*
44203878 TAAAAACCATT
1 TAAAACCCATT
44203889 TAAAACCCATT
1 TAAAACCCATT
44203900 TAAAACCC
1 TAAAACCC
44203908 TGTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAACCCATT
Found at i:44210720 original size:25 final size:25
Alignment explanation
Indices: 44210692--44210761 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
44210682 CAGGCCCATT
*
44210692 TTCACAGCTTGTGTGAGCATTCTGA
1 TTCACAGCTTGTGTGAGCATTCTAA
**
44210717 TTCACAGCTCATGTGAGCATTCTAA
1 TTCACAGCTTGTGTGAGCATTCTAA
*
44210742 TTCACCGCTTGTGTGAGCAT
1 TTCACAGCTTGTGTGAGCAT
44210762 ACATGTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
TTCACAGCTTGTGTGAGCATTCTAA
Found at i:44216276 original size:22 final size:20
Alignment explanation
Indices: 44216246--44216296 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
44216236 GGTTATGTTA
*
44216246 TTAAATTAATAAATAATATATG
1 TTAAGTTAATAAATAA-AT-TG
**
44216268 TTAAGTTAATGCATAAATTG
1 TTAAGTTAATAAATAAATTG
44216288 TTAAGTTAA
1 TTAAGTTAA
44216297 AAAAAAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 11 0.42
21 2 0.08
22 13 0.50
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (20 bp):
TTAAGTTAATAAATAAATTG
Found at i:44217074 original size:20 final size:20
Alignment explanation
Indices: 44217049--44217088 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44217039 CGTAAAATGA
*
44217049 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
44217069 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
44217089 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:44217078 original size:34 final size:35
Alignment explanation
Indices: 44217034--44217100 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44217024 CAGTAAAATA
*
44217034 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
44217068 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
44217101 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:44217104 original size:14 final size:15
Alignment explanation
Indices: 44217028--44217104 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
44217018 GATTGCCAGT
* *
44217028 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
44217042 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
44217056 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
44217076 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
44217091 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
44217105 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:44218180 original size:40 final size:40
Alignment explanation
Indices: 44218125--44218222 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
44218115 AGGTTCTGTT
* * *
44218125 TCTAGCAGGTTTATTGTCACTGAAATTTTCAAATTTAATG
1 TCTAGCAGGCTTATTGCCACTGAAATTTTCAAACTTAATG
* *
44218165 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGCCACTGAAATTTTCAAACTTAATG
*
44218205 TCTAGCAGGCTTAATGCC
1 TCTAGCAGGCTTATTGCC
44218223 GGTGTCCTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (40 bp):
TCTAGCAGGCTTATTGCCACTGAAATTTTCAAACTTAATG
Found at i:44221247 original size:27 final size:27
Alignment explanation
Indices: 44221190--44221269 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
44221180 AATTGAACTA
*
44221190 ATCATTCAT-CCTTCATGGGATAATA-T
1 ATCATTCATCCCTT-AAGGGATAATATT
*
44221216 GTCATTCATCCCTTAAGGGATAATATT
1 ATCATTCATCCCTTAAGGGATAATATT
* *
44221243 ATCA-TCTATCCCTTGATGGATAATATT
1 ATCATTC-ATCCCTTAAGGGATAATATT
44221270 TCACATTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 20 0.43
27 26 0.57
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (27 bp):
ATCATTCATCCCTTAAGGGATAATATT
Found at i:44222610 original size:26 final size:26
Alignment explanation
Indices: 44222551--44222603 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
44222541 CATTAGGGTG
*
44222551 TAGCAGGCTTTGTACTGGTGTATATT
1 TAGCAGGCTTTGTACTGATGTATATT
* *
44222577 TAGCAGGCTTTGTGCTGATGTTTATT
1 TAGCAGGCTTTGTACTGATGTATATT
44222603 T
1 T
44222604 TGTAGGCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.45
Consensus pattern (26 bp):
TAGCAGGCTTTGTACTGATGTATATT
Found at i:44223842 original size:17 final size:17
Alignment explanation
Indices: 44223820--44223917 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
44223810 TTTAAATTGC
44223820 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
44223837 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
44223857 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
** * *
44223874 TACATAAGTCTTGAATTAAC
1 TACATAA-T-TAAAAAT-AT
*
44223894 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
44223911 TACATAA
1 TACATAA
44223918 GTCTTGAATT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 23 0.41
18 8 0.14
19 9 0.16
20 16 0.29
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:44223923 original size:37 final size:38
Alignment explanation
Indices: 44223781--44223938 Score: 227
Period size: 37 Copynumber: 4.3 Consensus size: 38
44223771 GAATTAAATC
* * *
44223781 ACTACATAATTAAAAGCATTACATAAATCTTTAAATT-
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
* * *
44223818 GCTACATAATTAAAAATATTACATAAGTCTTTGAA-TC
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
44223855 ACTACATAATTAAAAACATTACATAAGTC-TTGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
44223892 ACTACATAATTAAAAACATTACATAAGTC-TTGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
44223929 AC-ACATAATT
1 ACTACATAATT
44223939 GACATGTAAG
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
36 14 0.13
37 97 0.87
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (38 bp):
ACTACATAATTAAAAACATTACATAAGTCTTTGAATTA
Found at i:44227950 original size:6 final size:6
Alignment explanation
Indices: 44227939--44227987 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
44227929 TGTGAGTGAC
* * *
44227939 AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG AAAGTG AAAGTG AAAGTG
1 AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG AGAGTG
44227987 A
1 A
44227988 AATTGTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.41, C:0.00, G:0.43, T:0.16
Consensus pattern (6 bp):
AGAGTG
Found at i:44227951 original size:18 final size:18
Alignment explanation
Indices: 44227930--44227969 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44227920 GTCGTGAGTT
*
44227930 GTGAGTGACAGAGTGAGA
1 GTGAGAGACAGAGTGAGA
**
44227948 GTGAGAGTGAGAGTGAGA
1 GTGAGAGACAGAGTGAGA
44227966 GTGA
1 GTGA
44227970 AAGTGAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.47, T:0.17
Consensus pattern (18 bp):
GTGAGAGACAGAGTGAGA
Found at i:44228172 original size:16 final size:16
Alignment explanation
Indices: 44228151--44228190 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
44228141 GGTGTTGTGA
44228151 AAATTGGGCTGGAATT
1 AAATTGGGCTGGAATT
**
44228167 AAATTGGGCTGGGTTT
1 AAATTGGGCTGGAATT
44228183 AAATTGGG
1 AAATTGGG
44228191 AGGGAATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.33
Consensus pattern (16 bp):
AAATTGGGCTGGAATT
Found at i:44236181 original size:9 final size:9
Alignment explanation
Indices: 44236155--44236205 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 9
44236145 ATTTAAATAA
*
44236155 ATTTTTATT
1 ATTTTTAAT
44236164 ATCTTTTAAT
1 AT-TTTTAAT
44236174 ATTTTTAAT
1 ATTTTTAAT
*
44236183 A-TTATAA-
1 ATTTTTAAT
44236190 ATTTTTAAT
1 ATTTTTAAT
44236199 AATTTTT
1 -ATTTTT
44236206 TAATTGAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
7 1 0.03
8 10 0.29
9 10 0.29
10 14 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:44236195 original size:16 final size:16
Alignment explanation
Indices: 44236151--44236199 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
44236141 ATCAATTTAA
*
44236151 ATAAATTTTTATTATCTT
1 ATAAATTTTTA--ATATT
*
44236169 TTAATATTTTTAATATT
1 ATAA-ATTTTTAATATT
44236186 ATAAATTTTTAATA
1 ATAAATTTTTAATA
44236200 ATTTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 10 0.37
17 7 0.26
18 3 0.11
19 7 0.26
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATAAATTTTTAATATT
Found at i:44242254 original size:31 final size:30
Alignment explanation
Indices: 44242219--44242278 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
44242209 AGAGGTGGGA
*
44242219 TGGGAAGAGAATAAAAGTTTTAAGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAAGGGAAAAG
* * *
44242250 TGGGAGGGAGTAAAAATTTTGAGGGAAAA
1 TGGGAGAGAATAAAAATTTTAAGGGAAAA
44242279 TAAAATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAAGGGAAAAG
Found at i:44242506 original size:9 final size:9
Alignment explanation
Indices: 44242492--44242528 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44242482 TATAGTTTGA
44242492 TATTCGAAT
1 TATTCGAAT
44242501 TATTCGAAT
1 TATTCGAAT
*
44242510 TATTCGAGT
1 TATTCGAAT
44242519 TATTCGAAT
1 TATTCGAAT
44242528 T
1 T
44242529 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44242787 original size:16 final size:16
Alignment explanation
Indices: 44242758--44242793 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
44242748 ATCTAAATAA
44242758 TCAA-ATTCAATCTAT
1 TCAATATTCAATCTAT
*
44242773 TCAATATTCATTCTAT
1 TCAATATTCAATCTAT
44242789 TCAAT
1 TCAAT
44242794 TTAGTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
TCAATATTCAATCTAT
Found at i:44246230 original size:21 final size:22
Alignment explanation
Indices: 44246204--44246244 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44246194 ATAAATGCTG
44246204 TTTTAT-ATT-ATTATTTTTATA
1 TTTTATAATTAATT-TTTTTATA
44246225 TTTTATAATTAATTTTTTTA
1 TTTTATAATTAATTTTTTTA
44246245 AAAATTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 9 0.50
23 3 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATAATTAATTTTTTTATA
Found at i:44246341 original size:22 final size:23
Alignment explanation
Indices: 44246293--44246341 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
44246283 CTTTTTTTCA
*
44246293 TTTAAAATATAATTAATTTAATAT
1 TTTAAAATATAA-TAATTAAATAT
* *
44246317 TTTATAATATAA-AATTAAATTT
1 TTTAAAATATAATAATTAAATAT
44246339 TTT
1 TTT
44246342 TTATTTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAAAATATAATAATTAAATAT
Found at i:44248357 original size:17 final size:17
Alignment explanation
Indices: 44248332--44248366 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44248322 TTGGTTAAAA
* *
44248332 ATTACCCGAATTACCCG
1 ATTAACCGAATTAACCG
44248349 ATTAACCGAATTAACCG
1 ATTAACCGAATTAACCG
44248366 A
1 A
44248367 AAATTACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTAACCGAATTAACCG
Found at i:44249692 original size:34 final size:34
Alignment explanation
Indices: 44249643--44249887 Score: 194
Period size: 34 Copynumber: 7.2 Consensus size: 34
44249633 AAATACATGT
* *
44249643 TAAGCAAGTTTATTGCTACTGTATTGATTTATTA
1 TAAGCATGTTAATTGCTACTGTATTGATTTATTA
*
44249677 TAAGCATGTTAATTGCTACTGTATTGACTTGA-TA
1 TAAGCATGTTAATTGCTACTGTATTGA-TTTATTA
* * * * * *
44249711 TAAACATATTTATTGCTACCGTAATGATCTATTA
1 TAAGCATGTTAATTGCTACTGTATTGATTTATTA
* *
44249745 TAAGCATGTTAATTGCTACTGTAGTGACTTGA-TA
1 TAAGCATGTTAATTGCTACTGTATTGA-TTTATTA
* * * * * *
44249779 TAAACATATTTATTGCTACCGTAATGATCTATTA
1 TAAGCATGTTAATTGCTACTGTATTGATTTATTA
* * * * *
44249813 TAAGCATG-AATATTTCTATTGTATCGATTTGTTA
1 TAAGCATGTTA-ATTGCTACTGTATTGATTTATTA
* * *
44249847 TAAGCATGTT-ATTGCTA-TCGTATTAATCTGTTA
1 TAAGCATGTTAATTGCTACT-GTATTGATTTATTA
44249880 TAAGCATG
1 TAAGCATG
44249888 ACATGTTGCA
Statistics
Matches: 164, Mismatches: 40, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
32 1 0.01
33 29 0.18
34 129 0.79
35 5 0.03
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (34 bp):
TAAGCATGTTAATTGCTACTGTATTGATTTATTA
Found at i:44249744 original size:68 final size:68
Alignment explanation
Indices: 44249651--44249887 Score: 307
Period size: 68 Copynumber: 3.5 Consensus size: 68
44249641 GTTAAGCAAG
* * *
44249651 TTTATTGCTACTGTATTGATTTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAAC
1 TTTATTGCTACCGTAATGATCTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAAC
44249716 ATA
66 ATA
*
44249719 TTTATTGCTACCGTAATGATCTATTATAAGCATGTTAATTGCTACTGTAGTGACTTGATATAAAC
1 TTTATTGCTACCGTAATGATCTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAAC
44249784 ATA
66 ATA
* * * * * * *
44249787 TTTATTGCTACCGTAATGATCTATTATAAGCATG-AATATTTCTATTGTATCGATTTGTTATAAG
1 TTTATTGCTACCGTAATGATCTATTATAAGCATGTTA-ATTGCTACTGTATTGACTTGATATAAA
44249851 CAT-
65 CATA
* * * * *
44249854 GTTATTGCTATCGTATTAATCTGTTATAAGCATG
1 TTTATTGCTACCGTAATGATCTATTATAAGCATG
44249888 ACATGTTGCA
Statistics
Matches: 151, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
67 30 0.20
68 121 0.80
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (68 bp):
TTTATTGCTACCGTAATGATCTATTATAAGCATGTTAATTGCTACTGTATTGACTTGATATAAAC
ATA
Found at i:44249973 original size:21 final size:22
Alignment explanation
Indices: 44249949--44250003 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
44249939 GTTTATCAGG
44249949 AACG-ACTAGTGGTTCATCCAC
1 AACGTACTAGTGGTTCATCCAC
*
44249970 AACGTATTTCAGTGGTTCATCCAC
1 AACGTA-CT-AGTGGTTCATCCAC
44249994 AACGTACTAG
1 AACGTACTAG
44250004 CAGCTTGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 3 0.10
23 2 0.07
24 20 0.69
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (22 bp):
AACGTACTAGTGGTTCATCCAC
Found at i:44250833 original size:13 final size:14
Alignment explanation
Indices: 44250809--44250842 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
44250799 TCCTCAGAAA
44250809 TTAAAGCAATTG-TT
1 TTAAA-CAATTGTTT
44250823 TTAAACAATTGTTT
1 TTAAACAATTGTTT
44250837 TTAAAC
1 TTAAAC
44250843 TCCGATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (14 bp):
TTAAACAATTGTTT
Found at i:44251213 original size:3 final size:3
Alignment explanation
Indices: 44251205--44251244 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
44251195 TTAACGTGAC
*
44251205 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44251245 AAGATACAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:44253166 original size:16 final size:18
Alignment explanation
Indices: 44253143--44253182 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
44253133 ATTAAGAATT
44253143 TATTTAAATTTT-ATATA
1 TATTTAAATTTTAATATA
44253160 T-TTTAAATTTTAATATA
1 TATTTAAATTTTAATATA
44253177 TATTTA
1 TATTTA
44253183 GGGATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 7 0.33
18 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTAAATTTTAATATA
Found at i:44253469 original size:14 final size:14
Alignment explanation
Indices: 44253450--44253510 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
44253440 CATATTAAGG
44253450 CTAAATTTTAAACC
1 CTAAATTTTAAACC
* *
44253464 CTAAATATTAAA-T
1 CTAAATTTTAAACC
* *
44253477 CTTAATTATTAAATC
1 CTAAATT-TTAAACC
**
44253492 CTAAATCCTAAACC
1 CTAAATTTTAAACC
44253506 CTAAA
1 CTAAA
44253511 CCCTAAAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
13 5 0.14
14 26 0.72
15 5 0.14
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (14 bp):
CTAAATTTTAAACC
Found at i:44253880 original size:54 final size:54
Alignment explanation
Indices: 44253798--44253905 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
44253788 TAACTTGCAG
*
44253798 CAGCTTCCAACCTGTCTGTACTCCGTACCACCTCCTAATGGACTTACCAATCTT
1 CAGCTTCCAACCTGTCTGCACTCCGTACCACCTCCTAATGGACTTACCAATCTT
*
44253852 CAGCTTCTAACCTGTCTGCACTCCGTACCACCTCCTAATGGACTTACCAATCTT
1 CAGCTTCCAACCTGTCTGCACTCCGTACCACCTCCTAATGGACTTACCAATCTT
44253906 TCTGTGCAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.30
Consensus pattern (54 bp):
CAGCTTCCAACCTGTCTGCACTCCGTACCACCTCCTAATGGACTTACCAATCTT
Found at i:44261503 original size:21 final size:19
Alignment explanation
Indices: 44261467--44261545 Score: 76
Period size: 19 Copynumber: 4.2 Consensus size: 19
44261457 ATATGTGAAT
* *
44261467 TTAATATGTATAATAT-TA
1 TTAATATATATATTATATA
44261485 TTAACTATATATATTATATA
1 TTAA-TATATATATTATATA
44261505 GTTAATA-ATATATGTGA-AT-
1 -TTAATATATATAT-T-ATATA
44261524 TTAATATATATATTATATA
1 TTAATATATATATTATATA
44261543 TTA
1 TTA
44261546 TAATAATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
17 1 0.02
18 13 0.25
19 25 0.49
20 7 0.14
21 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAATATATATATTATATA
Found at i:44269410 original size:16 final size:16
Alignment explanation
Indices: 44269391--44269421 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44269381 ATTTTAAAAA
*
44269391 ATATAGCTTGGTTCAT
1 ATATAGCTCGGTTCAT
44269407 ATATAGCTCGGTTCA
1 ATATAGCTCGGTTCA
44269422 ACCGGTCCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (16 bp):
ATATAGCTCGGTTCAT
Found at i:44283470 original size:13 final size:13
Alignment explanation
Indices: 44283452--44283476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44283442 GGTTTTACCA
44283452 TCTTTTCTTTTTT
1 TCTTTTCTTTTTT
44283465 TCTTTTCTTTTT
1 TCTTTTCTTTTT
44283477 CTTTTTGCCA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TCTTTTCTTTTTT
Found at i:44291989 original size:15 final size:15
Alignment explanation
Indices: 44291969--44291998 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44291959 GTAAATTTTG
*
44291969 GGTTTTAGGATTAAA
1 GGTTTTAGGACTAAA
44291984 GGTTTTAGGACTAAA
1 GGTTTTAGGACTAAA
44291999 TTAAATAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (15 bp):
GGTTTTAGGACTAAA
Found at i:44295765 original size:42 final size:42
Alignment explanation
Indices: 44295680--44295798 Score: 98
Period size: 42 Copynumber: 2.8 Consensus size: 42
44295670 TCATATTAGT
* * * * *
44295680 TTCCGTTCAACCATAATGGGTTTCCATTCAGCTCTATTA--AGC
1 TTCCATTCAACCCTTATGAGTTTCCGTTCAGCTC--TTACGAGC
* * *
44295722 TTCTATTTAACCCTTCTGAGTTTCCGTTCAGCTCTTACGAGC
1 TTCCATTCAACCCTTATGAGTTTCCGTTCAGCTCTTACGAGC
* * * *
44295764 TTCCGTTCAACCCTTATGGGTTTCTGTTTAGCTCT
1 TTCCATTCAACCCTTATGAGTTTCCGTTCAGCTCT
44295799 CATGAATTTC
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
40 3 0.05
42 57 0.95
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (42 bp):
TTCCATTCAACCCTTATGAGTTTCCGTTCAGCTCTTACGAGC
Found at i:44295779 original size:21 final size:22
Alignment explanation
Indices: 44295730--44295779 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
44295720 GCTTCTATTT
*
44295730 AACCCTT-CTGAGTTTCCGTTC
1 AACCCTTACTGAGCTTCCGTTC
* *
44295751 AGCTCTTAC-GAGCTTCCGTTC
1 AACCCTTACTGAGCTTCCGTTC
44295772 AACCCTTA
1 AACCCTTA
44295780 TGGGTTTCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.18, C:0.34, G:0.14, T:0.34
Consensus pattern (22 bp):
AACCCTTACTGAGCTTCCGTTC
Found at i:44296192 original size:236 final size:236
Alignment explanation
Indices: 44295779--44296251 Score: 874
Period size: 236 Copynumber: 2.0 Consensus size: 236
44295769 TTCAACCCTT
*
44295779 ATGGGTTTCTGTTTAGCTCTCATGAATTTCTGTTCAACCTTCAGGCTTCTGAAAAAGATGTACTC
1 ATGGGTTTCTGTTTAGCTCTCATGAACTTCTGTTCAACCTTCAGGCTTCTGAAAAAGATGTACTC
* * *
44295844 ATATCCGTAAGTCGTTCTTCTAATGGTAAGTTATAAAGAGTTGTCTTGGATGATATATGTATATG
66 ATATCCGTAAGTCGCTCTTCGAATGGTAAGTTATAAAGAGTTGTCTTGGATGATATATGCATATG
44295909 AAGAAACAGTAAAAGAATGATATGTATCATGAAATGTATATATATATCAATATCTTGATATGTTG
131 AAGAAACAGTAAAAGAATGATATGTATCATGAAATGTATATATATATCAATATCTTGATATGTTG
*
44295974 ATTCATGGAAATTATGTAAGTTGAAATGAGTAATAAATTCA
196 ATTCATGGAAATTATGTAAGTTGAAACGAGTAATAAATTCA
*
44296015 ATGGGTTTCTGTTTAGCTCTCATGAGCTTCTGTTCAACCTTCAGGCTTCTGAAAAAGATGTACTC
1 ATGGGTTTCTGTTTAGCTCTCATGAACTTCTGTTCAACCTTCAGGCTTCTGAAAAAGATGTACTC
*
44296080 ATATCCGTAAGTCGCTCTTCGAATGGTAAGTTATAAGGAGTTGTCTTGGATGATATATGCATATG
66 ATATCCGTAAGTCGCTCTTCGAATGGTAAGTTATAAAGAGTTGTCTTGGATGATATATGCATATG
*
44296145 AAGACACAGTAAAAGAATGATATGTATCATGAAATGTATATATATATCAATATCTTGATATGTTG
131 AAGAAACAGTAAAAGAATGATATGTATCATGAAATGTATATATATATCAATATCTTGATATGTTG
44296210 ATTCATGGAAATTATGTAAGTTGAAACGAGTAATAAATTCA
196 ATTCATGGAAATTATGTAAGTTGAAACGAGTAATAAATTCA
44296251 A
1 A
44296252 GTGTGACATG
Statistics
Matches: 229, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
236 229 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (236 bp):
ATGGGTTTCTGTTTAGCTCTCATGAACTTCTGTTCAACCTTCAGGCTTCTGAAAAAGATGTACTC
ATATCCGTAAGTCGCTCTTCGAATGGTAAGTTATAAAGAGTTGTCTTGGATGATATATGCATATG
AAGAAACAGTAAAAGAATGATATGTATCATGAAATGTATATATATATCAATATCTTGATATGTTG
ATTCATGGAAATTATGTAAGTTGAAACGAGTAATAAATTCA
Found at i:44297663 original size:34 final size:33
Alignment explanation
Indices: 44297577--44297797 Score: 173
Period size: 34 Copynumber: 6.5 Consensus size: 33
44297567 ATTAATACGA
* *
44297577 TAGCAAT-AACATGCTTATAACAAATCGA-TACAA
1 TAGCAATAAACATGCTTATAA-TAATC-ATTACAG
* ** *
44297610 TAGAAATATTCATGCTTATAATAGATCATTACGG
1 TAGCAATAAACATGCTTATAATA-ATCATTACAG
* * *
44297644 TAGCAATAAATATGTTTAT-ATCAAGTCACTACAG
1 TAGCAATAAACATGCTTATAAT-AA-TCATTACAG
* *
44297678 TAGCAATTAACATGCTTATAATAGATCATTACGG
1 TAGCAATAAACATGCTTATAATA-ATCATTACAG
* * *
44297712 TAGCAATAAATATGTTTAT-ATCAAGTCAATACAG
1 TAGCAATAAACATGCTTATAAT-AA-TCATTACAG
*
44297746 TAGCAATTAACATGCTTATAATAAATCCA-TACAG
1 TAGCAATAAACATGCTTATAAT-AAT-CATTACAG
*
44297780 TAGCAATAAACTTGCTTA
1 TAGCAATAAACATGCTTA
44297798 ACATGTATTT
Statistics
Matches: 148, Mismatches: 29, Indels: 21
0.75 0.15 0.11
Matches are distributed among these distances:
33 14 0.09
34 125 0.84
35 9 0.06
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (33 bp):
TAGCAATAAACATGCTTATAATAATCATTACAG
Found at i:44297697 original size:68 final size:68
Alignment explanation
Indices: 44297553--44297789 Score: 300
Period size: 68 Copynumber: 3.5 Consensus size: 68
44297543 TGCAACATGT
* * * * * * * * * * *
44297553 CATGCTTATAACAGATTAATACGATAGCAAT-AACATGCTTATAACAAATCGATACAATAG-AAA
1 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
*
44297616 TATT
66 TA-A
*
44297620 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCACTACAGTAGCAAT
1 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
44297685 TAA
66 TAA
44297688 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
1 CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
44297753 TAA
66 TAA
* *
44297756 CATGCTTATAATAAATCCA-TACAGTAGCAATAAA
1 CATGCTTATAATAGAT-CATTACGGTAGCAATAAA
44297790 CTTGCTTAAC
Statistics
Matches: 151, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
67 27 0.18
68 118 0.78
69 6 0.04
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (68 bp):
CATGCTTATAATAGATCATTACGGTAGCAATAAATATGTTTATATCAAGTCAATACAGTAGCAAT
TAA
Found at i:44299098 original size:17 final size:17
Alignment explanation
Indices: 44299073--44299107 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44299063 TGGGTAATTT
* *
44299073 TCGGTTAATTCGGTTAA
1 TCGGGTAATTCGGGTAA
44299090 TCGGGTAATTCGGGTAA
1 TCGGGTAATTCGGGTAA
44299107 T
1 T
44299108 TTTTAACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (17 bp):
TCGGGTAATTCGGGTAA
Found at i:44301124 original size:22 final size:23
Alignment explanation
Indices: 44301099--44301147 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
44301089 CTTTAAATAA
*
44301099 AAAAAATTTAATT-TTATATTAT
1 AAAAAATTAAATTATTATATTAT
* *
44301121 AAAATATTAAATTAATTATATTTT
1 AAAAAATTAAATT-ATTATATTAT
44301145 AAA
1 AAA
44301148 TGAAAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAAAATTAAATTATTATATTAT
Found at i:44301230 original size:22 final size:21
Alignment explanation
Indices: 44301196--44301236 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
44301186 TGACAATTTT
44301196 TAAAAAAATTAATTATAAAATA
1 TAAAAAAATTAA-TATAAAATA
44301218 TAAAAATAA-TAATATAAAA
1 TAAAAA-AATTAATATAAAA
44301237 CAGCATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAAAATTAATATAAAATA
Found at i:44304668 original size:16 final size:16
Alignment explanation
Indices: 44304647--44304682 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
44304637 TTTGGACTAA
44304647 ATTGAATAGAATGAAT
1 ATTGAATAGAATGAAT
*
44304663 ATTGAATAGATTGAAT
1 ATTGAATAGAATGAAT
44304679 -TTGA
1 ATTGA
44304683 TTATTTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (16 bp):
ATTGAATAGAATGAAT
Found at i:44304929 original size:9 final size:9
Alignment explanation
Indices: 44304912--44304948 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44304902 TGAGTTTTCG
44304912 AATTCGAAT
1 AATTCGAAT
*
44304921 AACTCGAAT
1 AATTCGAAT
44304930 AATTCGAAT
1 AATTCGAAT
44304939 AATTCGAAT
1 AATTCGAAT
44304948 A
1 A
44304949 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44311263 original size:16 final size:17
Alignment explanation
Indices: 44311242--44311290 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
44311232 ATTAAAAAAT
44311242 TATTAAAAATTTATA-A
1 TATTAAAAATTTATAGA
*
44311258 TATTAAAAATATTAAAAGA
1 TATTAAAAAT-TT-ATAGA
*
44311277 TAATAAAAATTTAT
1 TATTAAAAATTTAT
44311291 TTAAATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 10 0.37
17 3 0.11
18 4 0.15
19 10 0.37
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TATTAAAAATTTATAGA
Found at i:44311268 original size:9 final size:9
Alignment explanation
Indices: 44311236--44311286 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
44311226 AATTCAATTA
44311236 AAAAATTATT
1 AAAAA-TATT
44311246 AAAAAT-TT
1 AAAAATATT
*
44311254 -ATAATATT
1 AAAAATATT
44311262 AAAAATATT
1 AAAAATATT
*
44311271 AAAAGATAAT
1 AAAA-ATATT
44311281 AAAAAT
1 AAAAAT
44311287 TTATTTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
7 4 0.11
8 4 0.11
9 14 0.40
10 13 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATATT
Found at i:44315069 original size:26 final size:26
Alignment explanation
Indices: 44315034--44315085 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
44315024 AATGTGAAAG
*
44315034 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
44315060 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
44315086 TTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:44315270 original size:102 final size:104
Alignment explanation
Indices: 44314958--44315323 Score: 562
Period size: 104 Copynumber: 3.5 Consensus size: 104
44314948 TATATAAAAA
** * * *
44314958 GGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCTTT
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTT
**
44315022 GAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCGAG
65 GAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
44315061 GGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
1 GGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
* * *
44315126 GAAATGAAAAGGGGGGTTGCTATGTCCTGATTCCCCTGAG
65 GAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
44315166 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATAT-CACCATATCTTTG
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
44315230 AAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
66 AAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
* **
44315268 GGGTTGCTAAGTGCTGATT-CCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
44315324 ATAATGGCTA
Statistics
Matches: 243, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
101 28 0.12
102 55 0.23
103 40 0.16
104 88 0.36
105 32 0.13
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
AAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
Found at i:44322244 original size:26 final size:25
Alignment explanation
Indices: 44322194--44322241 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
44322184 AATGTGAAAG
*
44322194 GGGGTTGCTATGTGCTGATTCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCGA
44322219 GGGGTTGCTAAGTGCTGATTCCC
1 GGGGTTGCTAAGTGCTGATTCCC
44322242 CGATTCATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.21, G:0.35, T:0.31
Consensus pattern (25 bp):
GGGGTTGCTAAGTGCTGATTCCCGA
Found at i:44322320 original size:102 final size:102
Alignment explanation
Indices: 44322116--44322481 Score: 592
Period size: 102 Copynumber: 3.6 Consensus size: 102
44322106 TGTATATAAA
** * * *
44322116 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
44322180 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
44322218 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
44322283 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
44322320 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
44322385 TGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* * **
44322423 AGGGGTTGCTAAGTGCTAATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
44322482 ATAATGGCTA
Statistics
Matches: 250, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
101 24 0.10
102 165 0.66
103 61 0.24
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:44322330 original size:26 final size:26
Alignment explanation
Indices: 44322295--44322346 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
44322285 AAATGAAAAG
*
44322295 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
44322321 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
44322347 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:44325506 original size:5 final size:5
Alignment explanation
Indices: 44325489--44325563 Score: 80
Period size: 5 Copynumber: 15.0 Consensus size: 5
44325479 TTCTATACAA
* * * *
44325489 ATCAT ATCTT ATCAT ATCAT GA-CAT ATCAT GTCAT GTCAT ATCAA ATCAT
1 ATCAT ATCAT ATCAT ATCAT -ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT
* *
44325539 AGCAT ATCAT ATCAT ATCAA ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT
44325564 TTCCTACCCC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
4 1 0.02
5 56 0.97
6 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (5 bp):
ATCAT
Found at i:44325813 original size:14 final size:14
Alignment explanation
Indices: 44325786--44325821 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
44325776 AAACACATGC
44325786 ATATCATA-ATCAT
1 ATATCATACATCAT
44325799 ATATCATACATCAT
1 ATATCATACATCAT
*
44325813 ACATCATAC
1 ATATCATAC
44325822 TTATTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATCATACATCAT
Found at i:44327765 original size:30 final size:30
Alignment explanation
Indices: 44327689--44327771 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
44327679 ATTGGACCTG
* *
44327689 AATTTTAAAATATAAAAAGTAGAGAGACTA
1 AATTTTAAAATATAAAAAGTATAAAGACTA
*
44327719 AATTTCTAAAA-ATAAAAA-TATAAAGATTA
1 AATTT-TAAAATATAAAAAGTATAAAGACTA
*
44327748 AATTTTAAAATGTTAAAAAGTATA
1 AATTTTAAAAT-ATAAAAAGTATA
44327772 GGGACTCACG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
28 5 0.11
29 13 0.29
30 18 0.40
31 9 0.20
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (30 bp):
AATTTTAAAATATAAAAAGTATAAAGACTA
Found at i:44329293 original size:5 final size:5
Alignment explanation
Indices: 44329277--44329331 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
44329267 AGTGAGACTT
* * *
44329277 TTAAA TTAAAA TTAAA TTAAA --AAA -CAAA TCAAA TCAAA TTAAA TTAAA
1 TTAAA TT-AAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
44329325 TTAAA TT
1 TTAAA TT
44329332 TTTTTATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
3 3 0.07
4 3 0.07
5 35 0.76
6 5 0.11
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (5 bp):
TTAAA
Found at i:44335021 original size:3 final size:3
Alignment explanation
Indices: 44335013--44335037 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44335003 CTCACAGAAG
44335013 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
44335038 GTTGTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:44335069 original size:3 final size:3
Alignment explanation
Indices: 44335042--44335134 Score: 123
Period size: 3 Copynumber: 31.0 Consensus size: 3
44335032 ATGATGGTTG
* * * * * * *
44335042 TTA TTG TTA TTG TTG TTA TTG TTA TTA TTG TTA TTA TTG TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44335090 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44335135 CCTGAACATG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44340134 original size:12 final size:12
Alignment explanation
Indices: 44340117--44340145 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44340107 GATCAAAGTA
44340117 AAGGAAATGAAG
1 AAGGAAATGAAG
44340129 AAGGAAATGAAG
1 AAGGAAATGAAG
44340141 AAGGA
1 AAGGA
44340146 CGATTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (12 bp):
AAGGAAATGAAG
Found at i:44348721 original size:51 final size:52
Alignment explanation
Indices: 44348588--44348727 Score: 178
Period size: 51 Copynumber: 2.7 Consensus size: 52
44348578 GATGAACATG
* * *
44348588 TGTGTAGTACTGTGTGAAGGCTACTACATGAATC-AATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATAAATGATGGTCACA
* * * * *
44348639 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAA-AAGCT-TTGGTCACT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATAA-ATGATGGTCACA
44348690 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAT
44348728 GATAAAAGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 73 0.96
52 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (52 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATAAATGATGGTCACA
Found at i:44348748 original size:51 final size:50
Alignment explanation
Indices: 44348582--44348758 Score: 140
Period size: 51 Copynumber: 3.4 Consensus size: 50
44348572 GGTATCGATG
* * * *
44348582 AACATGTGTGTAGTACTGTGTGAAGGCTACTACATGAATC-AATAAATGATGGT
1 AACATG-G-GTAGTACTATGTGAAGGCTACTACGTGTATCGAAT-GAT-ATGGT
* * * * * * *
44348635 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAAGCTTTGGT
1 AACATGGGTAGTACTATGTGAAGGCTACTACGTGTATCG-AATGATATGGT
* * * **
44348686 CACTTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAAAGT
1 AACATGGGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGAT-ATGGT
*
44348737 AACATGGGTAGTACTGTGTGAA
1 AACATGGGTAGTACTATGTGAA
44348759 AAACCCCAAA
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
50 4 0.04
51 86 0.88
52 1 0.01
53 7 0.07
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (50 bp):
AACATGGGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATATGGT
Found at i:44348986 original size:37 final size:38
Alignment explanation
Indices: 44348917--44348989 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
44348907 ATGTGTGGAA
* **
44348917 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
44348955 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
44348990 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:44351256 original size:42 final size:42
Alignment explanation
Indices: 44351193--44351276 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
44351183 ACGAGTTAGA
*
44351193 ATCTTAATCGACTCTTTCTCATAGGTTAGATCAATTTGAACT
1 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
44351235 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
1 ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
44351277 TCAATCTCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (42 bp):
ATCTTAATCGACTCTTCCTCATAGGTTAGATCAATTTGAACT
Found at i:44356378 original size:29 final size:30
Alignment explanation
Indices: 44356319--44356376 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
44356309 TCCGAGCCTT
*
44356319 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
44356349 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
44356377 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:44356606 original size:13 final size:13
Alignment explanation
Indices: 44356588--44356619 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44356578 TTTCCAGCAA
44356588 TTATGAATTTATT
1 TTATGAATTTATT
44356601 TTATGAATTTATT
1 TTATGAATTTATT
*
44356614 TGATGA
1 TTATGA
44356620 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:44356827 original size:50 final size:50
Alignment explanation
Indices: 44356714--44356955 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
44356704 ATTTGGGTAA
* * * *
44356714 AGAGATCCCATGTAAGACCATGTCTGGGACATGGTATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
44356770 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
44356820 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
44356870 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCA-CTATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
44356920 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
44356956 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.01
50 89 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:44356902 original size:100 final size:103
Alignment explanation
Indices: 44356714--44356963 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
44356704 ATTTGGGTAA
*
44356714 AGAGATCCCATGTAAGACCATGTCTGGGACATGGTATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
44356779 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCA-CGATCACG
* * *
44356820 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
44356882 TAAGACCATGTCTGGGACATGGCATGGGCACTATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACGATCACG
* *
44356920 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
44356964 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 2 0.02
100 49 0.37
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACGATCACG
Found at i:44361262 original size:25 final size:25
Alignment explanation
Indices: 44361233--44361297 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
44361223 GACATACCAT
44361233 AGCTCGCATGAGCTTCCCGTTATTC
1 AGCTCGCATGAGCTTCCCGTTATTC
* *
44361258 AGCTCGCATGAGCTTCCTGTTATTT
1 AGCTCGCATGAGCTTCCCGTTATTC
* *
44361283 TGCTCGTATGAGCTT
1 AGCTCGCATGAGCTT
44361298 ACTAATTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCGTTATTC
Found at i:44363415 original size:15 final size:15
Alignment explanation
Indices: 44363395--44363425 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44363385 AGTATGCATA
44363395 TCAATAAATTAAGTC
1 TCAATAAATTAAGTC
44363410 TCAATAAATTAAGTC
1 TCAATAAATTAAGTC
44363425 T
1 T
44363426 GAGCATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
TCAATAAATTAAGTC
Found at i:44364033 original size:20 final size:18
Alignment explanation
Indices: 44363986--44364034 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
44363976 CAAGATAAAC
44363986 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
44364003 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
44364023 ATTAAATTAATA
1 ATTAAATTAATA
44364035 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:44368132 original size:19 final size:19
Alignment explanation
Indices: 44368088--44368132 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
44368078 ATGAAAACTC
44368088 AAAAGAAAAGAAAAATGAGA
1 AAAAG-AAAGAAAAATGAGA
*
44368108 AGAAGAAAGAAAAATTGA-A
1 AAAAGAAAGAAAAA-TGAGA
44368127 AAAAGA
1 AAAAGA
44368133 GAGTGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAAGAAAGAAAAATGAGA
Found at i:44368142 original size:26 final size:30
Alignment explanation
Indices: 44368104--44368176 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 30
44368094 AAAGAAAAAT
* *
44368104 GAGAAGAAGAAAGAAAAATTGA-AAAA-AGA
1 GAGATGAA-AAAGAAAAAGTGAGAAAAGAGA
44368133 GAG-TG-AAAAG--AAAGTGAGAAAAGAGA
1 GAGATGAAAAAGAAAAAGTGAGAAAAGAGA
44368159 GAGATGAAAAAGAAAAAG
1 GAGATGAAAAAGAAAAAG
44368177 CAAGTGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
24 6 0.17
25 4 0.11
26 10 0.28
27 3 0.08
28 6 0.17
29 3 0.08
30 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (30 bp):
GAGATGAAAAAGAAAAAGTGAGAAAAGAGA
Found at i:44368170 original size:24 final size:23
Alignment explanation
Indices: 44368107--44368170 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
44368097 GAAAAATGAG
* *
44368107 AAGA-AGAAAGAAAAATTGAAAA
1 AAGAGAGAGAGAAAAAGTGAAAA
* * *
44368129 AAGAGAGTGAAAAGAAAGTGAGAA
1 AAGAGAGAGAGAA-AAAGTGAAAA
44368153 AAGAGAGAGATGAAAAAG
1 AAGAGAGAGA-GAAAAAG
44368171 AAAAAGCAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
22 4 0.12
23 5 0.16
24 21 0.66
25 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (23 bp):
AAGAGAGAGAGAAAAAGTGAAAA
Found at i:44375574 original size:172 final size:172
Alignment explanation
Indices: 44375283--44375601 Score: 505
Period size: 172 Copynumber: 1.9 Consensus size: 172
44375273 GAATACCACC
44375283 TTTTTTCCTTTATATGCTTATAAACACAAGGTTCATCAAAGTTTGGCTCAAATCCAAAAGTCTCG
1 TTTTTTCCTTTATATGCTTATAAACACAAGGTTCATCAAAGTTTGGCTCAAATCCAAAAGTCTCG
* * *
44375348 AGTGTTTGATCAATTTTTTTATTCAATGAGCGAGACGCCTGCTTAAGTCCATAAATGGATCTTAG
66 AGTGTTTGATCAAATCTTTTATTCAATGAGCGAGACGCCTGCTTAAGACCATAAATGGATCTTAG
44375413 CAGTTTGCAAACTTTCTATCCTTTATTCACTTATAAAATTTT
131 CAGTTTGCAAACTTTCTATCCTTTATTCACTTATAAAATTTT
* * * * * * *
44375455 TTTTTTCGTTTATATGCTTATAAACACAAGGTTCATCAATGTTTTGTTCATATCTAAAAGTCTTG
1 TTTTTTCCTTTATATGCTTATAAACACAAGGTTCATCAAAGTTTGGCTCAAATCCAAAAGTCTCG
* * *
44375520 A-TCGTTTGATCAAATCTTTTATTCCATGAGCGTGATGCCTGCTTAAGACCATAAATGGATCTTA
66 AGT-GTTTGATCAAATCTTTTATTCAATGAGCGAGACGCCTGCTTAAGACCATAAATGGATCTTA
44375584 GCAGTTTGCAAACTTTCT
130 GCAGTTTGCAAACTTTCT
44375602 GCACTTTTCC
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
171 1 0.01
172 132 0.99
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (172 bp):
TTTTTTCCTTTATATGCTTATAAACACAAGGTTCATCAAAGTTTGGCTCAAATCCAAAAGTCTCG
AGTGTTTGATCAAATCTTTTATTCAATGAGCGAGACGCCTGCTTAAGACCATAAATGGATCTTAG
CAGTTTGCAAACTTTCTATCCTTTATTCACTTATAAAATTTT
Found at i:44378752 original size:57 final size:57
Alignment explanation
Indices: 44378664--44378779 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
44378654 TTGAGTGTAT
44378664 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
1 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
44378721 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
1 AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
44378778 AA
1 AA
44378780 TCTCTCTAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (57 bp):
AACCATTGACTCAACACCCATCCTGAACATGCTTTCATTTGTGAGTCATATTGGGAC
Found at i:44380264 original size:14 final size:15
Alignment explanation
Indices: 44380233--44380265 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
44380223 CTCTAGAAAT
44380233 TTTATAGAATAATTTC
1 TTTATAGAAT-ATTTC
44380249 TTTATAGAAT-TTTC
1 TTTATAGAATATTTC
44380263 TTT
1 TTT
44380266 GTACAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTATAGAATATTTC
Found at i:44380333 original size:39 final size:39
Alignment explanation
Indices: 44380279--44380358 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
44380269 CAACTTTCTA
44380279 TTGAATTCAAGTGTATGTAAATAATGACCCA-AGACTCTC
1 TTGAATTCAAGTGTATGTAAATAATGACCCAGAG-CTCTC
*
44380318 TTGAATTCCAGTGTATGTAAATAATGACCCAGAGCTCTC
1 TTGAATTCAAGTGTATGTAAATAATGACCCAGAGCTCTC
44380357 TT
1 TT
44380359 TATATAGGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 37 0.95
40 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (39 bp):
TTGAATTCAAGTGTATGTAAATAATGACCCAGAGCTCTC
Found at i:44380517 original size:62 final size:59
Alignment explanation
Indices: 44380411--44380527 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
44380401 ATCACTTTAA
* * *
44380411 TATTAAATTAATATAATATTTACCAAGATAAATATTAGATTAAATTTAATATTAAATTT
1 TATTAAAATAATATAATATTTACCAAGATAAACATTAAATTAAATTTAATATTAAATTT
*
44380470 TATTAAAATAATATAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTA-C--CAAGATAAACATTAAATTAAATTTAATATTAA
44380528 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
60 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATATAATATTTACCAAGATAAACATTAAATTAAATTTAATATTAAATTT
Found at i:44380553 original size:20 final size:18
Alignment explanation
Indices: 44380506--44380612 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 18
44380496 CAAGATAAAC
44380506 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
44380523 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
44380543 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
* *
44380562 ATTTAGATAAATA-TTAA-
1 A-TTAAATTAATATTTAAT
*
44380579 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
44380599 ATTAAAATAATATT
1 ATTAAATTAATATT
44380613 ATTTCTGGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
16 4 0.06
17 14 0.21
18 6 0.09
19 14 0.21
20 30 0.44
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:44380600 original size:37 final size:37
Alignment explanation
Indices: 44380498--44380601 Score: 89
Period size: 37 Copynumber: 3.0 Consensus size: 37
44380488 TTTATCTACA
* *
44380498 AGATAAACATTAAATTAAATTTAATATT-AA-GA--T
1 AGATAAATATTAAATTAAATTTAATATTAAACTATTT
* * *
44380531 A-ATCACT-TTAATATTAAA-TTAATA-AAATACTATTT
1 AGATAAATATTAA-ATTAAATTTAATATTAA-ACTATTT
44380566 AGATAAATATTAAATTAAATTTAATATTAAACTATT
1 AGATAAATATTAAATTAAATTTAATATTAAACTATT
44380602 AAAATAATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
31 11 0.21
32 10 0.19
33 2 0.04
35 2 0.04
36 10 0.19
37 16 0.30
38 2 0.04
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (37 bp):
AGATAAATATTAAATTAAATTTAATATTAAACTATTT
Found at i:44392527 original size:22 final size:23
Alignment explanation
Indices: 44392476--44392528 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
44392466 TTTTTATACA
* *
44392476 ATTATAATTATAATTTTAGTTAT
1 ATTATAATTAAAATTTTAATTAT
*
44392499 ATT-TAATTAAAATTTTAATTGT
1 ATTATAATTAAAATTTTAATTAT
44392521 -TTATAATT
1 ATTATAATT
44392529 CAGTACAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTATAATTAAAATTTTAATTAT
Found at i:44395096 original size:17 final size:18
Alignment explanation
Indices: 44395074--44395108 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44395064 TTTTTTATAA
*
44395074 TATTTTTTAATA-ACTTT
1 TATTTTATAATAGACTTT
44395091 TATTTTATAATAGACTTT
1 TATTTTATAATAGACTTT
44395109 CAAAAGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TATTTTATAATAGACTTT
Found at i:44402871 original size:79 final size:81
Alignment explanation
Indices: 44402733--44402916 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
44402723 CGAATGATGT
* *
44402733 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
*
44402797 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
44402813 CTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCATT
*
44402875 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
44402892 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44402917 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
GTGCGAGATACTATAA
Found at i:44402923 original size:40 final size:40
Alignment explanation
Indices: 44402732--44402916 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
44402722 TCGAATGATG
* * * *
44402732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
44402772 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44402812 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44402851 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44402892 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44402917 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44402938 original size:79 final size:79
Alignment explanation
Indices: 44402788--44402939 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
44402778 CTAAGATCCG
* * **
44402788 AAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
44402853 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
44402867 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
44402930 ATCC-GGTTAA
63 ATCCGGGTTAA
44402940 ATTCCGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.57
80 25 0.40
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:44410792 original size:79 final size:81
Alignment explanation
Indices: 44410657--44410840 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
44410647 CGAATGATGT
*
44410657 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
44410721 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * **
44410737 CTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
*
44410799 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
44410816 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44410841 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 31 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAA
Found at i:44410847 original size:40 final size:40
Alignment explanation
Indices: 44410656--44410840 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
44410646 TCGAATGATG
* * *
44410656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
44410696 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44410736 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44410775 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44410816 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44410841 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.27
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44418825 original size:43 final size:43
Alignment explanation
Indices: 44418777--44418886 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 43
44418767 ACAGATCTTG
*
44418777 TCTCCCTAAGCA-ACAGTGGAGCAGATCGAAGCCAG-AAACCTTA
1 TCTCCCTAAG-ATACAGCGGAGCAGATCGAAGCCAGTAAACC-TA
* * * *
44418820 TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
1 TCTCCCTAAGA-TACAGCGGAGCAGATCGAAGCCAGTAAACCTA
* *
44418864 TCTCCCTGAGATTACAGTGGAGC
1 TCTCCCTAAGA-TACAGCGGAGC
44418887 GGATTAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 9 0.16
44 44 0.76
45 4 0.07
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (43 bp):
TCTCCCTAAGATACAGCGGAGCAGATCGAAGCCAGTAAACCTA
Found at i:44418844 original size:44 final size:44
Alignment explanation
Indices: 44418789--44418886 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
44418779 TCCCTAAGCA
44418789 ACAGTGGAGCAGATCGAAGCCAG-AAACCTTATCTCCCTGAGATT
1 ACAGTGGAGCAGATCGAAGCCAGTAAACC-TATCTCCCTGAGATT
* * * *
44418833 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATCGAAGCCAGTAAACCTATCTCCCTGAGATT
44418877 ACAGTGGAGC
1 ACAGTGGAGC
44418887 GGATTAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 44 0.92
45 4 0.08
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (44 bp):
ACAGTGGAGCAGATCGAAGCCAGTAAACCTATCTCCCTGAGATT
Found at i:44418910 original size:44 final size:44
Alignment explanation
Indices: 44418816--44419169 Score: 144
Period size: 44 Copynumber: 7.6 Consensus size: 44
44418806 AGCCAGAAAC
* ** **
44418816 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-AT
1 CTTATCTCCCTGAGATTACAGCGGAGCGGATT-AAAATAAAAGAT
* *
44418860 CCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGAT
1 CTTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATAAAAGAT
* * * **
44418904 CTTATCTCTCT-AAAGTTACAGTGGAGTAGATCGCATCAGATTGAAACCAAAA-AT
1 CTTATCTCCCTGAGA-TTACAG-CG-G-AG--CG-----GATT-AAAATAAAAGAT
* * ** **
44418958 CTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGCTAGTA-AT
1 CTTATCTCCCTGAGATTACAGCGGAGCGGATT-AAAATAAAAGAT
* * * *
44419002 CCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGAT
1 CTTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATAAAAGAT
* ** * *
44419046 CTTATCTCTCTGA-AGTTACAGCGGAGTAGATCACATCAGATTGAAGCTAGTAAT
1 CTTATCTCCCTGAGA-TTACAGCGGAGCGGATTA-A--A-A-T-AA--AAG--AT
* * *
44419100 CCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
1 CTTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATAAAAGAT
* *
44419144 TTTATCTCTCTGA-AGTTACAGCGGAG
1 CTTATCTCCCTGAGA-TTACAGCGGAG
44419170 TAGATCGTAT
Statistics
Matches: 230, Mismatches: 52, Indels: 56
0.68 0.15 0.17
Matches are distributed among these distances:
43 13 0.06
44 133 0.58
45 2 0.01
46 2 0.01
47 3 0.01
48 3 0.01
49 5 0.02
50 3 0.01
51 3 0.01
52 2 0.01
53 2 0.01
54 49 0.21
55 10 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATAAAAGAT
Found at i:44419054 original size:142 final size:142
Alignment explanation
Indices: 44418798--44419131 Score: 533
Period size: 142 Copynumber: 2.4 Consensus size: 142
44418788 AACAGTGGAG
* *
44418798 CAGATCGAAGCCAGAAACCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
44418863 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTGG
66 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGCGG
*
44418928 AGTAGATCGCAT
131 AGTAGATCACAT
* * *
44418940 CAGATTGAAACCAAAAATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
44419005 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCGG
66 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGCGG
44419070 AGTAGATCACAT
131 AGTAGATCACAT
* * * * *
44419082 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
44419132 AAAATAAAGG
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 174 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGCGG
AGTAGATCACAT
Found at i:44419103 original size:98 final size:98
Alignment explanation
Indices: 44418984--44419368 Score: 547
Period size: 98 Copynumber: 4.0 Consensus size: 98
44418974 TACAGCGGAG
* *
44418984 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
*
44419049 ATCTCTCTGAAGTTACAGCGGAGTAGATCACAT
66 ATCTCTCTGAAGTTACAGCGGAGTAGATCGCAT
* *
44419082 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATTTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
*
44419147 ATCTCTCTGAAGTTACAGCGGAGTAGATCGTAT
66 ATCTCTCTGAAGTTACAGCGGAGTAGATCGCAT
* *
44419180 CAGATTGAAGCTAGTAATGCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGTAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
*
44419245 ATCTCTCTGAAGTTACAAC---G--GA--G---
66 ATCTCTCTGAAGTTACAGCGGAGTAGATCGCAT
* * * * *
44419268 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGAGGAGTAGATTAAGATAAAGGATTTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
* **
44419333 ATCTCTCTGAAGTTATAGTAGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAGCGGAGTAGATCGCAT
44419366 CAG
1 CAG
44419369 GTCTTATCTC
Statistics
Matches: 258, Mismatches: 19, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
88 74 0.29
91 2 0.01
93 4 0.02
95 2 0.01
98 176 0.68
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (98 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
ATCTCTCTGAAGTTACAGCGGAGTAGATCGCAT
Found at i:44419248 original size:44 final size:44
Alignment explanation
Indices: 44419200--44419395 Score: 129
Period size: 44 Copynumber: 4.5 Consensus size: 44
44419190 CTAGTAATGC
*
44419200 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-TAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT-AAGGATCT
* ** * * *
44419244 TATCTCTCTGA-AGTTACAACGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGATAAG-GATCT
* * * *
44419288 TATCTCCTTGAGATTACAGAGGAGTAGATT-AAGATAAAGGATTT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT-AAGGATCT
* * * * * * *
44419332 TATCTCTCTGA-AGTTATAGTAGAGTAGATCG--CATCAGG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGATAAGGATCT
44419373 TATCTCCCTGAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
44419396 ATAGAGTGAA
Statistics
Matches: 116, Mismatches: 27, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
41 20 0.17
42 4 0.03
43 10 0.09
44 78 0.67
45 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAAGGATCT
Found at i:44419314 original size:240 final size:239
Alignment explanation
Indices: 44418842--44419316 Score: 604
Period size: 240 Copynumber: 2.0 Consensus size: 239
44418832 TACAGCGGAG
44418842 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
* *
44418907 ATCTCTCTAAAGTTACAGTGGAGTAGATCGCATCAGATTGAAACCAAAAATCTTATCTCCCTGAT
66 ATCTCTCTAAAGTTACAGCGGAGTAGATCGCATCAGATTGAAACCAAAAATCTTATCTCCCTGAG
* ** *
44418972 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAA
131 ATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAACGGAACAGATTAAA
* * *
44419037 ATAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCACAT
196 AT-AAGAATCCTATCTCTCTGAAGTTACAGAGGAGTAGATCACAT
* *
44419082 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATTTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
* * * * **
44419147 ATCTCTCTGAAGTTACAGCGGAGTAGATCGTATCAGATTGAAGCTAGTAATGC-TATCTCCCTGA
66 ATCTCTCTAAAGTTACAGCGGAGTAGATCGCATCAGATTGAAACCAAAAAT-CTTATCTCCCTGA
* * * * *
44419211 GATTACAGTGGAGCAGATTAAAG-TAAAG-GATCTTATCTCTCTGA-AGTTACAACGGAGCAGAT
130 GATTACAGCGGAGCAGATTAAAGCT--AGTAATCCTATCTCCCTGAGA-TTACAACGGAACAGAT
**
44419273 TGAAGCT-AGTAATCCTATCTC-CTTG-AGATTACAGAGGAGTAGAT
192 T-AAAATAAG-AATCCTATCTCTC-TGAAG-TTACAGAGGAGTAGAT
44419317 TAAGATAAAG
Statistics
Matches: 203, Mismatches: 24, Indels: 16
0.84 0.10 0.07
Matches are distributed among these distances:
239 7 0.03
240 190 0.94
241 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (239 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
ATCTCTCTAAAGTTACAGCGGAGTAGATCGCATCAGATTGAAACCAAAAATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAACGGAACAGATTAAA
ATAAGAATCCTATCTCTCTGAAGTTACAGAGGAGTAGATCACAT
Found at i:44419329 original size:88 final size:88
Alignment explanation
Indices: 44419180--44419347 Score: 275
Period size: 88 Copynumber: 1.9 Consensus size: 88
44419170 TAGATCGTAT
* *
44419180 CAGATTGAAGCTAGTAATGCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGTAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGAGGAGCAGATTAAAGTAAAGGATCTT
44419245 ATCTCTCTGAAGTTACAACGGAG
66 ATCTCTCTGAAGTTACAACGGAG
* * *
44419268 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGAGGAGTAGATT-AAGATAAAGGATTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGAGGAGCAGATTAAAG-TAAAGGATCT
44419332 TATCTCTCTGAAGTTA
65 TATCTCTCTGAAGTTA
44419348 TAGTAGAGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
87 3 0.04
88 71 0.96
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (88 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGAGGAGCAGATTAAAGTAAAGGATCTT
ATCTCTCTGAAGTTACAACGGAG
Found at i:44421061 original size:17 final size:18
Alignment explanation
Indices: 44421039--44421073 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44421029 TTTTTTATAA
*
44421039 TATTTTTTAATA-ACTTT
1 TATTTTATAATAGACTTT
44421056 TATTTTATAATAGACTTT
1 TATTTTATAATAGACTTT
44421074 CAAAAGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TATTTTATAATAGACTTT
Found at i:44425048 original size:18 final size:18
Alignment explanation
Indices: 44425006--44425048 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
44424996 GCCCATTCCG
*
44425006 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
44425024 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
44425042 AAGTATG
1 AAGTATG
44425049 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:44425553 original size:28 final size:28
Alignment explanation
Indices: 44425516--44425669 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
44425506 TAAATTGTAC
* *
44425516 AGCATTAAGTGTGCAAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
44425544 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
44425572 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
44425600 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
44425628 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
44425655 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44425670 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.20
28 97 0.80
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:44427445 original size:43 final size:43
Alignment explanation
Indices: 44427384--44427467 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
44427374 AATATAAGAA
44427384 AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTCTT
1 AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTCTT
* *
44427427 AGGCATACACTTGGAACATAGGATAGGGGTTTAGGTTATTC
1 AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTC
44427468 CTAAGCTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (43 bp):
AGGCATACACTCGGAACATAGGATAGGGGTTTAGGCTATTCTT
Found at i:44431800 original size:18 final size:19
Alignment explanation
Indices: 44431766--44431801 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44431756 AATTTGGATT
*
44431766 AATTTAATAGTTTTAATTA
1 AATTTAATAGTTATAATTA
44431785 AATTTAAT-GTTATAATT
1 AATTTAATAGTTATAATT
44431802 TGTGTGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
AATTTAATAGTTATAATTA
Found at i:44434295 original size:21 final size:22
Alignment explanation
Indices: 44434242--44434297 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
44434232 GTGTCATAGT
* *
44434242 CACACGGTCGTGTGCCTACTTT
1 CACACGGGCGTGTGCCTACTTC
44434264 CACACGGGCGTGTGCCT-CTTC
1 CACACGGGCGTGTGCCTACTTC
* *
44434285 CATATGGGCGTGT
1 CACACGGGCGTGT
44434298 TGACCCCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.12, C:0.30, G:0.29, T:0.29
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTACTTC
Found at i:44438613 original size:12 final size:11
Alignment explanation
Indices: 44438605--44438635 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44438595 GCTTCTTACA
44438605 TTTTCTCTTAG
1 TTTTCTCTTAG
*
44438616 TTTTCCCTTAG
1 TTTTCTCTTAG
44438627 TTTTCTCTT
1 TTTTCTCTT
44438636 TCAGGTACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.06, T:0.65
Consensus pattern (11 bp):
TTTTCTCTTAG
Found at i:44441398 original size:25 final size:25
Alignment explanation
Indices: 44441370--44441423 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
44441360 TGCTTACTCA
*
44441370 AGCTATAGATCAATATGCTCTCACG
1 AGCTATAAATCAATATGCTCTCACG
** *
44441395 AGCTATAAATCGGTATGCTCTTACG
1 AGCTATAAATCAATATGCTCTCACG
44441420 AGCT
1 AGCT
44441424 GTGGGTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (25 bp):
AGCTATAAATCAATATGCTCTCACG
Found at i:44443673 original size:16 final size:16
Alignment explanation
Indices: 44443652--44443694 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
44443642 CTGAGTTTAG
44443652 TTTTGTTTGATGGAAT
1 TTTTGTTTGATGGAAT
* *
44443668 TTTTGTTT-TTTGAAT
1 TTTTGTTTGATGGAAT
44443683 TTTTGGTTTGAT
1 TTTT-GTTTGAT
44443695 TTGTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 9 0.41
16 12 0.55
17 1 0.05
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.65
Consensus pattern (16 bp):
TTTTGTTTGATGGAAT
Found at i:44448165 original size:18 final size:19
Alignment explanation
Indices: 44448142--44448180 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
44448132 ATTAATTTTG
44448142 ATCAAGTAAATT-AAATTA
1 ATCAAGTAAATTAAAATTA
*
44448160 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
44448179 AT
1 AT
44448181 ATCATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:44448912 original size:23 final size:25
Alignment explanation
Indices: 44448864--44448911 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
44448854 ATTTGTAGAG
44448864 AGAAAATTATCTGAAGATATTATTTT
1 AGAAAATTATCT-AAGATATTATTTT
44448890 AGAAAATT-TCT-AGATA-TATTTT
1 AGAAAATTATCTAAGATATTATTTT
44448912 TCTGATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 3 0.14
26 8 0.36
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (25 bp):
AGAAAATTATCTAAGATATTATTTT
Found at i:44450867 original size:45 final size:44
Alignment explanation
Indices: 44450769--44451068 Score: 179
Period size: 45 Copynumber: 6.7 Consensus size: 44
44450759 AGGAAATGAT
* *
44450769 TAAGACCATAGTTGAAAGACACTATGTCACTATACCG-GAAA-TAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAC-ATA-CGAAAAACT-AA
* * *
44450814 TAAAACCATAGTTGAAAGACACTATGGCACCATACCAAAAACTAG
1 TAAGACCATAGTTGAAAGACACTATGGCA-CATACGAAAAACTAA
* *** ** * * *
44450859 TAAGACCATAGCTGAAAGATGTTAT-G-ACATCACGATTCTATCGAG
1 TAAGACCATAGTTGAAAGACACTATGGCACAT-ACGA--AAAACTAA
* *
44450904 TAAGACCATAGCTGAAAGACACTAT-G-ACATCACGAATCAAACGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACAT-ACGAA--AAACTAA
*
44450949 TAAGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAA-TGAA
1 TAAGACCATAGTTGAAAGACACTATGGC-ACA-TACGAAAAACT-AA
* * *
44450995 TAAGACCGTGGTTGAAAGACACTATGGCATCA-AGTCG-AGAA-TAAA
1 TAAGACCATAGTTGAAAGACACTATGGCA-CATA--CGAAAAACT-AA
* *
44451040 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
44451069 TCCTCCAATT
Statistics
Matches: 208, Mismatches: 31, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.01
43 4 0.02
44 3 0.01
45 152 0.73
46 38 0.18
48 8 0.04
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (44 bp):
TAAGACCATAGTTGAAAGACACTATGGCACATACGAAAAACTAA
Found at i:44451013 original size:46 final size:46
Alignment explanation
Indices: 44450904--44451070 Score: 187
Period size: 45 Copynumber: 3.7 Consensus size: 46
44450894 TTCTATCGAG
* * * * *
44450904 TAAGACCATAGCTGAAAGACACTATGACATCACGA--ATCAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGA-AAAATGAA
* *
44450949 TAAGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
* * * * *
44450995 TAAGACCGTGGTTGAAAGACACTATGGCATCAAGTCG-AGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
*
44451040 TAAGACCATGGTTGAAAGACACCATGGCATC
1 TAAGACCATGGTTGAAAGACACTATGGCATC
44451071 CTCCAATTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
45 67 0.63
46 38 0.36
47 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
Found at i:44451294 original size:41 final size:41
Alignment explanation
Indices: 44451235--44451351 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 41
44451225 TGATGTTGTG
* * * *
44451235 GTGTATTGTATCAAGCTTTGTGCCTAGCAGGCTTTATGCCA
1 GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATGCCA
* * * * *
44451276 GTGTATTATATCAGGCTTTATGCATAGTAGGCTTCGTGTCG
1 GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATGCCA
* * *
44451317 GTGTGTCATATCAGGCTTTGAGCCTAGTAGGCTTC
1 GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTC
44451352 GTGTCGGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (41 bp):
GTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCATGCCA
Found at i:44451352 original size:41 final size:41
Alignment explanation
Indices: 44451283--44451361 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 41
44451273 CCAGTGTATT
44451283 ATATCAGGCTTTATGCATAGTAGGCTTCGTGTCGGTGTGTC
1 ATATCAGGCTTTATGCATAGTAGGCTTCGTGTCGGTGTGTC
*
44451324 ATATCAGGCTTTGA-GCCTAGTAGGCTTCGTGTCGGTGT
1 ATATCAGGCTTT-ATGCATAGTAGGCTTCGTGTCGGTGT
44451362 ATTGTACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.35
Consensus pattern (41 bp):
ATATCAGGCTTTATGCATAGTAGGCTTCGTGTCGGTGTGTC
Found at i:44453995 original size:58 final size:55
Alignment explanation
Indices: 44453900--44454013 Score: 183
Period size: 58 Copynumber: 2.0 Consensus size: 55
44453890 GAAATATTTG
*
44453900 TTTAATATAAATATAGTAATTAGTGAATCTTTATTTTTTTCAGTTCAAATTTGCCTCC
1 TTTAATATAAATATAGTAATTAGTGAATC--TATTTTTTT-AGTTCAAATATGCCTCC
*
44453958 TTTAATATAAATATAGTAATTAGTGAATCTTTTTTTTTAGTTCAAATATGCCTCC
1 TTTAATATAAATATAGTAATTAGTGAATCTATTTTTTTAGTTCAAATATGCCTCC
44454013 T
1 T
44454014 ACACCTCTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
55 17 0.31
56 8 0.15
58 29 0.54
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (55 bp):
TTTAATATAAATATAGTAATTAGTGAATCTATTTTTTTAGTTCAAATATGCCTCC
Found at i:44470103 original size:44 final size:44
Alignment explanation
Indices: 44470046--44470133 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
44470036 AGATCAATTG
* **
44470046 AAGGGTGGTTACATCAAAGACATTTCCAACCACAGTGTTTGAAA
1 AAGGGTGGTTACATCAAAGACATTGCCAACCACAACGTTTGAAA
*
44470090 AAGGGTGGTTACATCAAAGGCATTGCCAACCACAACGTTTGAAA
1 AAGGGTGGTTACATCAAAGACATTGCCAACCACAACGTTTGAAA
44470134 GACTAGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (44 bp):
AAGGGTGGTTACATCAAAGACATTGCCAACCACAACGTTTGAAA
Found at i:44470705 original size:22 final size:21
Alignment explanation
Indices: 44470675--44470737 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
44470665 TTATTGTGAA
**
44470675 TATAA-AAAATTATTTTTACAT
1 TATAATAAAATTAAATTTA-AT
44470696 TATAATAAAATTAAATTTAAT
1 TATAATAAAATTAAATTTAAT
* *
44470717 TATAAATTAAATTAAAATTAA
1 TAT-AATAAAATTAAATTTAA
44470738 AATTTGATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAATAAAATTAAATTTAAT
Found at i:44481481 original size:31 final size:31
Alignment explanation
Indices: 44481446--44481509 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
44481436 TAACAGTTCG
44481446 ATGACTTAAAT-AAAAGCTTTTA-AATAATTCA
1 ATGACTTAAATGAAAA-C-TTTAGAATAATTCA
*
44481477 ATGACTTAAATGAAAACTTTAGAATAGTTCA
1 ATGACTTAAATGAAAACTTTAGAATAATTCA
44481508 AT
1 AT
44481510 AATCGTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 4 0.13
31 22 0.73
32 4 0.13
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (31 bp):
ATGACTTAAATGAAAACTTTAGAATAATTCA
Done.