Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 73 of 186
Found at i:23486772 original size:13 final size:13
Alignment explanation
Indices: 23486754--23486779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23486744 TAATTTTGTA
23486754 TATCTGTATCTGT
1 TATCTGTATCTGT
23486767 TATCTGTATCTGT
1 TATCTGTATCTGT
23486780 ACATGGGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
TATCTGTATCTGT
Found at i:23488637 original size:18 final size:19
Alignment explanation
Indices: 23488607--23488643 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
23488597 GTAACTACTC
23488607 ATTTTCCCTATTAT-AAAT
1 ATTTTCCCTATTATGAAAT
23488625 ATTTT-CCTCATTATGAAAT
1 ATTTTCCCT-ATTATGAAAT
23488644 TCTTTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTTCCCTATTATGAAAT
Found at i:23491749 original size:22 final size:22
Alignment explanation
Indices: 23491723--23491806 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 22
23491713 CTTCAAATTT
*
23491723 AGTAGGTAAAGTATCAATTTGA
1 AGTAGGCAAAGTATCAATTTGA
* *
23491745 AGTAGCCAAAGCATCATGGATTATG-
1 AGTAGGCAAAGTATCA---ATT-TGA
*
23491770 A-TAGGGAAAGTATCAATTTGA
1 AGTAGGCAAAGTATCAATTTGA
* *
23491791 AGTAGCCAAAGCATCA
1 AGTAGGCAAAGTATCA
23491807 TGGATTATGA
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
20 2 0.04
21 4 0.09
22 24 0.51
24 11 0.23
25 4 0.09
26 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (22 bp):
AGTAGGCAAAGTATCAATTTGA
Found at i:23491779 original size:24 final size:25
Alignment explanation
Indices: 23491745--23491816 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 25
23491735 ATCAATTTGA
23491745 AGTAGCCAAAGCATCATGGATTATG
1 AGTAGCCAAAGCATCATGGATTATG
** *
23491770 A-TAGGGAAAGTATCA---ATT-TG
1 AGTAGCCAAAGCATCATGGATTATG
23491790 AAGTAGCCAAAGCATCATGGATTATG
1 -AGTAGCCAAAGCATCATGGATTATG
23491816 A
1 A
23491817 AATAGCATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.06
21 4 0.11
22 11 0.31
24 11 0.31
25 5 0.14
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (25 bp):
AGTAGCCAAAGCATCATGGATTATG
Found at i:23491797 original size:46 final size:46
Alignment explanation
Indices: 23491725--23491816 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
23491715 TCAAATTTAG
*
23491725 TAGGTAAAGTATCAATTTGAAGTAGCCAAAGCATCATGGATTATGA
1 TAGGGAAAGTATCAATTTGAAGTAGCCAAAGCATCATGGATTATGA
23491771 TAGGGAAAGTATCAATTTGAAGTAGCCAAAGCATCATGGATTATGA
1 TAGGGAAAGTATCAATTTGAAGTAGCCAAAGCATCATGGATTATGA
23491817 AATAGCATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (46 bp):
TAGGGAAAGTATCAATTTGAAGTAGCCAAAGCATCATGGATTATGA
Found at i:23492150 original size:84 final size:84
Alignment explanation
Indices: 23492057--23492217 Score: 304
Period size: 84 Copynumber: 1.9 Consensus size: 84
23492047 GCAGACGAGG
23492057 TTGAAGATAACAAGAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
1 TTGAAGATAACAAGAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
23492122 TGGAGAGCTGTAGACGAAC
66 TGGAGAGCTGTAGACGAAC
23492141 TTGAAGATAACAAGAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
1 TTGAAGATAACAAGAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
* *
23492206 TGGGGAGTTGTA
66 TGGAGAGCTGTA
23492218 TCTTGCACCA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.41, C:0.07, G:0.33, T:0.19
Consensus pattern (84 bp):
TTGAAGATAACAAGAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
TGGAGAGCTGTAGACGAAC
Found at i:23495916 original size:31 final size:31
Alignment explanation
Indices: 23495881--23495942 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
23495871 ATATTGTAGA
23495881 CCTTAAAGAAATAATAAAAAATAAATATTTT
1 CCTTAAAGAAATAATAAAAAATAAATATTTT
23495912 CCTTAAAGAAATAATAAAAAATAAATATTTT
1 CCTTAAAGAAATAATAAAAAATAAATATTTT
23495943 TACTTCGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (31 bp):
CCTTAAAGAAATAATAAAAAATAAATATTTT
Found at i:23499865 original size:35 final size:35
Alignment explanation
Indices: 23499819--23499930 Score: 174
Period size: 35 Copynumber: 3.2 Consensus size: 35
23499809 TGAAGATCTT
*
23499819 GAAGAAAATGGAAGGAAAATAAAAAAGAATAGAGA
1 GAAGAAGATGGAAGGAAAATAAAAAAGAATAGAGA
**
23499854 GAAGAAGATGGAAGGAAAATAAAAAAG-ATCCAGA
1 GAAGAAGATGGAAGGAAAATAAAAAAGAATAGAGA
23499888 G-AGAAGATGGAAGGAAAATAAAAAAGAACTAGAGA
1 GAAGAAGATGGAAGGAAAATAAAAAAGAA-TAGAGA
23499923 GAAGAAGA
1 GAAGAAGA
23499931 AATGAAGAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.36
34 7 0.10
35 31 0.45
36 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.28, T:0.08
Consensus pattern (35 bp):
GAAGAAGATGGAAGGAAAATAAAAAAGAATAGAGA
Found at i:23499898 original size:33 final size:33
Alignment explanation
Indices: 23499821--23499927 Score: 151
Period size: 33 Copynumber: 3.2 Consensus size: 33
23499811 AAGATCTTGA
* **
23499821 AGAAAATGGAAGGAAAATAAAAAAGAATAGAGAG
1 AGAAGATGGAAGGAAAATAAAAAAG-ATCCAGAG
23499855 AAGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
1 -AGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
* *
23499889 AGAAGATGGAAGGAAAATAAAAAAGAACTAGAG
1 AGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
23499922 AGAAGA
1 AGAAGA
23499928 AGAAATGAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
33 37 0.55
34 6 0.09
35 24 0.36
ACGTcount: A:0.62, C:0.03, G:0.27, T:0.08
Consensus pattern (33 bp):
AGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
Found at i:23513680 original size:7 final size:6
Alignment explanation
Indices: 23513653--23513678 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23513643 TATTTTTTCC
23513653 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
23513679 TCAAAGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:23515756 original size:40 final size:40
Alignment explanation
Indices: 23515701--23515998 Score: 476
Period size: 40 Copynumber: 7.5 Consensus size: 40
23515691 TGGATGATAA
* * *
23515701 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
23515741 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23515781 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23515821 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23515861 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23515901 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
23515941 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
23515981 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
23515999 TACTTGGCTT
Statistics
Matches: 246, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.07
40 230 0.93
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23523728 original size:40 final size:40
Alignment explanation
Indices: 23523645--23523907 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
23523635 TTGAATGCTG
* * * * * *
23523645 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
23523685 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
23523725 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23523765 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23523805 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23523845 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23523884 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23523908 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:23523927 original size:79 final size:80
Alignment explanation
Indices: 23523684--23523942 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
23523674 AAGTGAATAT
* * * * * *
23523684 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
23523748 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
** * *
23523764 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
23523829 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
23523844 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
23523908 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
23523923 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
23523943 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:23526320 original size:16 final size:17
Alignment explanation
Indices: 23526288--23526321 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23526278 GGGGATGGCG
23526288 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
23526305 TTTGTTT-ATTTTTATT
1 TTTGTTTGATGTTTATT
23526321 T
1 T
23526322 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:23528666 original size:38 final size:38
Alignment explanation
Indices: 23528623--23528774 Score: 286
Period size: 38 Copynumber: 4.0 Consensus size: 38
23528613 TTCATCCTTT
* *
23528623 TTCATTTCTTCTGGCCGAAAATTCTAAGGAATGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
23528661 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
23528699 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
23528737 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
23528775 GGAGTTCTTG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 112 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:23529684 original size:40 final size:40
Alignment explanation
Indices: 23529615--23529734 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
23529605 CCTAAAGGGT
* *
23529615 TTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCT-AGCGACTATATCCGGGCTAAGATCCGAAGGCA
23529656 TTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCGAAGGCA
1 TTTGTGCTAGCGACTATATCCGGGCTAAGAT-CCGAAGGCA
* * * * *
23529696 TTTATGCTAGTGACCATATCCGGGTTAAGACCCGAAGGC
1 TTTGTGCTAGCGACTATATCCGGGCTAAGATCCGAAGGC
23529735 CTTGTGCGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 61 0.87
41 8 0.11
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TTTGTGCTAGCGACTATATCCGGGCTAAGATCCGAAGGCA
Found at i:23538631 original size:40 final size:39
Alignment explanation
Indices: 23538537--23538681 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 39
23538527 TACTCAAATG
* *
23538537 ATATTCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCC-GAAGGCATTTGTGCT-AGCGACT
* *
23538578 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
23538618 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGCGACT
* *
23538658 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
23538682 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 25 0.28
42 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:23546400 original size:25 final size:25
Alignment explanation
Indices: 23546372--23546423 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
23546362 TACAACTACT
23546372 CAAATGTATATATAGTTATGAATAA
1 CAAATGTATATATAGTTATGAATAA
23546397 CAAATGTATATATAGTTATGAATAA
1 CAAATGTATATATAGTTATGAATAA
23546422 CA
1 CA
23546424 GACACTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (25 bp):
CAAATGTATATATAGTTATGAATAA
Found at i:23547612 original size:66 final size:66
Alignment explanation
Indices: 23547506--23547638 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
23547496 TTCATGTTTG
23547506 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
1 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
23547571 C
66 C
23547572 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
1 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
23547637 C
66 C
23547638 T
1 T
23547639 TTGGGTTTCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (66 bp):
TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
C
Found at i:23553248 original size:15 final size:15
Alignment explanation
Indices: 23553209--23553288 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
23553199 GTATCTTGGG
*
23553209 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
23553224 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
23553239 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
23553254 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
23553269 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
23553283 TTTCTT
1 TTTCTT
23553289 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:23553278 original size:30 final size:30
Alignment explanation
Indices: 23553200--23553287 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
23553190 CATAGTATCG
* * *
23553200 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
23553230 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
23553260 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
23553288 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:23555729 original size:46 final size:46
Alignment explanation
Indices: 23555679--23555854 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
23555669 TGGTTGAGCA
23555679 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23555725 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23555770 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
23555818 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23555855 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23555835 original size:93 final size:93
Alignment explanation
Indices: 23555676--23555846 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23555666 GGATGGTTGA
* *
23555676 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23555741 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23555769 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23555834 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23555847 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23564653 original size:22 final size:22
Alignment explanation
Indices: 23564603--23564645 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23564593 CTGCATCTGT
**
23564603 AATTGATATGTTCTGTATTTGC
1 AATTGATATGTTCTGTATCCGC
23564625 AATTGATATGTTCTGTATCCG
1 AATTGATATGTTCTGTATCCG
23564646 ATTTTGATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.47
Consensus pattern (22 bp):
AATTGATATGTTCTGTATCCGC
Found at i:23569406 original size:42 final size:42
Alignment explanation
Indices: 23569359--23569450 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
23569349 TGGTGGTGAA
*
23569359 GCTTCTGTTCAAGCCCAAAGCCAGGTC-CAACAAGGTCCC-CTT
1 GCTTCTGTTCAAGCCCAAAGCCA-GTCTCAACAAGG-CCCTATT
* **
23569401 GCTTCTGTTGAAGCCCAAATTCAGTCTCAACAAGGCCCTATT
1 GCTTCTGTTCAAGCCCAAAGCCAGTCTCAACAAGGCCCTATT
23569443 GCTTCTGT
1 GCTTCTGT
23569451 CTCATCCCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 6 0.14
42 38 0.86
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (42 bp):
GCTTCTGTTCAAGCCCAAAGCCAGTCTCAACAAGGCCCTATT
Found at i:23583423 original size:11 final size:11
Alignment explanation
Indices: 23583409--23583443 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
23583399 ATTTTTTTGA
23583409 AAAAGAAAAAG
1 AAAAGAAAAAG
23583420 AAAAAGAAAAAG
1 -AAAAGAAAAAG
*
23583432 AAAATAAAAAG
1 AAAAGAAAAAG
23583443 A
1 A
23583444 TACTAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:23583441 original size:6 final size:6
Alignment explanation
Indices: 23583407--23583435 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23583397 AAATTTTTTT
23583407 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
23583436 TAAAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:23584100 original size:5 final size:5
Alignment explanation
Indices: 23584090--23584120 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
23584080 CAATTTTGAT
23584090 AAATA AAATA AAATA AAATA AAATA TAAATA
1 AAATA AAATA AAATA AAATA AAATA -AAATA
23584121 GTTTATTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:23584819 original size:19 final size:20
Alignment explanation
Indices: 23584781--23584832 Score: 97
Period size: 19 Copynumber: 2.6 Consensus size: 20
23584771 ATATAACATC
23584781 TTTACTTTTCTGGAAAATGA
1 TTTACTTTTCTGGAAAATGA
23584801 TTTACTTTTCTGG-AAATGA
1 TTTACTTTTCTGGAAAATGA
23584820 TTTACTTTTCTGG
1 TTTACTTTTCTGG
23584833 TGTTTGGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTACTTTTCTGGAAAATGA
Found at i:23585294 original size:46 final size:46
Alignment explanation
Indices: 23585221--23585339 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
23585211 AATAATATTA
* * * *
23585221 TCCAAATGCATAATTAGTAGTACACCACATGATAACAAAAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAAAAACATTG
* *
23585267 TCCATGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAAAAACATTG
23585313 TCCAAGTGCATAACTAATATTACACCA
1 TCCAAGTGCATAACTAATATTACACCA
23585340 TATTAAAACT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (46 bp):
TCCAAGTGCATAACTAATATTACACCACATGATAACAAAAACATTG
Found at i:23586342 original size:32 final size:32
Alignment explanation
Indices: 23586293--23586353 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
23586283 TGTCAATCAT
23586293 TTCAATATCCAACAAGCTTA-AAACATAATAAA
1 TTCAATATCCAACAAGC-TAGAAACATAATAAA
* *
23586325 TTCAATATCTAATAAGCTAGAAACATAAT
1 TTCAATATCCAACAAGCTAGAAACATAAT
23586354 CAATATCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTAGAAACATAATAAA
Found at i:23589955 original size:28 final size:28
Alignment explanation
Indices: 23589923--23589992 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
23589913 AATGAGATTG
*
23589923 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
23589951 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
23589979 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23589993 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:23597399 original size:15 final size:15
Alignment explanation
Indices: 23597379--23597432 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
23597369 TATCGTATCT
23597379 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
23597394 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
*
23597408 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
23597424 -GGTTTTCTT
1 TGGGTTTCTT
23597433 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.36
15 17 0.52
16 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:23600022 original size:49 final size:49
Alignment explanation
Indices: 23599892--23600033 Score: 189
Period size: 49 Copynumber: 2.9 Consensus size: 49
23599882 TCTATTGTGA
23599892 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC-AAAACTGT
* * * * *
23599943 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAA--ACTGT
23599992 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
23600034 GATAGCTTCG
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 41 0.52
50 3 0.04
51 35 0.44
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAACTGT
Found at i:23603761 original size:17 final size:19
Alignment explanation
Indices: 23603719--23603762 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
23603709 ACGAAATTTT
*
23603719 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
23603738 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
23603756 AA-TATTA
1 AATTATTA
23603763 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:23606162 original size:20 final size:20
Alignment explanation
Indices: 23606119--23606166 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
23606109 GCTGTTTTGT
23606119 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
23606139 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
23606158 TAT-GGCCAA
1 TATGGGCCAA
23606167 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:23606233 original size:60 final size:59
Alignment explanation
Indices: 23606157--23606295 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
23606147 AACTGTGTTA
* * * *
23606157 ATATGGCCAAGGCCCAATATATCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATA-CTCGAATATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
23606217 ATATGGGCTAGGCCCAATATACTCTAATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCGAATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
*
23606277 ATATGTGCTAAGGCCCAAT
1 ATATGGGCT-AGGCCCAAT
23606296 TAACACTGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 5 0.07
60 48 0.72
61 14 0.21
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCGAATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:23608412 original size:14 final size:13
Alignment explanation
Indices: 23608369--23608419 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
23608359 CATAAAGACT
23608369 AATTAATTTAATTC
1 AATT-ATTTAATTC
*
23608383 CATT-TTTAACTTC
1 AATTATTTAA-TTC
23608396 AATTATTTAATTGC
1 AATTATTTAATT-C
*
23608410 AATTAATTAA
1 AATTATTTAA
23608420 ATAATAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.16
13 8 0.26
14 18 0.58
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (13 bp):
AATTATTTAATTC
Found at i:23610936 original size:48 final size:46
Alignment explanation
Indices: 23610855--23610971 Score: 112
Period size: 48 Copynumber: 2.5 Consensus size: 46
23610845 CGATAAGTAC
* * * * * *
23610855 CTATACCATGGCCTGAAGCCATATCAAGGTAACT-TATCTTCGAAGTA
1 CTATATCATGGCCTGAAGCCAAATC-AGGTAACTCAAAC-CCGAAATA
23610902 CTGATATCATGGCCTGAAGCCAAATC-GGTATAACTCAAACCCGAAATA
1 CT-ATATCATGGCCTGAAGCCAAATCAGG--TAACTCAAACCCGAAATA
*
23610950 CTATATAATGGCCTGAAGCCAA
1 CTATATCATGGCCTGAAGCCAA
23610972 CTTAATGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
46 2 0.03
47 21 0.36
48 34 0.58
49 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (46 bp):
CTATATCATGGCCTGAAGCCAAATCAGGTAACTCAAACCCGAAATA
Found at i:23613579 original size:44 final size:44
Alignment explanation
Indices: 23613516--23613606 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
23613506 CGAGTCACAC
23613516 GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
1 GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
*
23613560 GCCCGTGTGCTCAACCGTGTGGACTAGAAATAGGCTTGTTTTAT
1 GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
23613604 GCC
1 GCC
23613607 ACTTTTCCCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (44 bp):
GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
Found at i:23614820 original size:20 final size:20
Alignment explanation
Indices: 23614793--23614901 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
23614783 TGTATAAACT
* *
23614793 GTAATTCATTCATATAACTA
1 GTAATTCATCCATATAACCA
* *
23614813 GTAGTTCATCCGTATAACCA
1 GTAATTCATCCATATAACCA
* *
23614833 GTAATTCATCCGTAATAA-TA
1 GTAATTCATCCAT-ATAACCA
* * *
23614853 GTAATTTATCTATATCAA-AA
1 GTAATTCATCCATAT-AACCA
23614873 GTAATTCATCCATATCAA-CA
1 GTAATTCATCCATAT-AACCA
*
23614893 ATAATTCAT
1 GTAATTCAT
23614902 TCATTTCTAC
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
19 2 0.03
20 67 0.92
21 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
GTAATTCATCCATATAACCA
Found at i:23615116 original size:25 final size:23
Alignment explanation
Indices: 23615088--23615242 Score: 78
Period size: 23 Copynumber: 6.9 Consensus size: 23
23615078 AAGCTCTTGC
23615088 TGAGCTGATAAATAGTAAGCTCTAT
1 TGAGCTG--AAATAGTAAGCTCTAT
*
23615113 TGAGCTGAAATGGTAAGCTCTA-
1 TGAGCTGAAATAGTAAGCTCTAT
* *
23615135 TCAGGCTG-AACAGTAAGCTCTA-
1 TGA-GCTGAAATAGTAAGCTCTAT
23615157 T---CTGAACA-A-TAAGCTCTAT
1 TGAGCTGAA-ATAGTAAGCTCTAT
* * *
23615176 CGAGTTG-AACAGTAAGCTC-AT
1 TGAGCTGAAATAGTAAGCTCTAT
* * * * *
23615197 ACGAGCTGAATTGGTAAGCTCCAA
1 -TGAGCTGAAATAGTAAGCTCTAT
*
23615221 TGAGATGAAAATAGTAAGCTCT
1 TGAGCTG-AAATAGTAAGCTCT
23615243 TACGAGCTGA
Statistics
Matches: 101, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
18 12 0.12
19 2 0.02
20 2 0.02
21 4 0.04
22 30 0.30
23 32 0.32
24 12 0.12
25 7 0.07
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAATAGTAAGCTCTAT
Found at i:23615128 original size:23 final size:25
Alignment explanation
Indices: 23615075--23615161 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 25
23615065 AGCCATGATC
23615075 GGTAAGCTCT-TGCTGAGCTGATAAAT
1 GGTAAGCTCTAT-CTGAGCTGA-AAAT
*
23615101 AGTAAGCTCTAT-TGAGCTG-AAAT
1 GGTAAGCTCTATCTGAGCTGAAAAT
* *
23615124 GGTAAGCTCTATCAG-GCTGAACA-
1 GGTAAGCTCTATCTGAGCTGAAAAT
23615147 -GTAAGCTCTATCTGA
1 GGTAAGCTCTATCTGA
23615162 ACAATAAGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
22 13 0.25
23 19 0.37
24 3 0.06
25 7 0.13
26 9 0.17
27 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (25 bp):
GGTAAGCTCTATCTGAGCTGAAAAT
Found at i:23615153 original size:22 final size:21
Alignment explanation
Indices: 23615101--23615194 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 21
23615091 GCTGATAAAT
*
23615101 AGTAAGCTCTATTGAGCTGAA-
1 AGTAAGCTCTATCG-GCTGAAC
23615122 ATGGTAAGCTCTATCAGGCTGAAC
1 A--GTAAGCTCTATC-GGCTGAAC
23615146 AGTAAGCTCTAT---CTGAAC
1 AGTAAGCTCTATCGGCTGAAC
* *
23615164 AATAAGCTCTATCGAGTTGAAC
1 AGTAAGCTCTATCG-GCTGAAC
23615186 AGTAAGCTC
1 AGTAAGCTC
23615195 ATACGAGCTG
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
18 17 0.28
21 1 0.02
22 24 0.39
23 17 0.28
24 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (21 bp):
AGTAAGCTCTATCGGCTGAAC
Found at i:23615163 original size:18 final size:18
Alignment explanation
Indices: 23615140--23615176 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23615130 CTCTATCAGG
*
23615140 CTGAACAGTAAGCTCTAT
1 CTGAACAATAAGCTCTAT
23615158 CTGAACAATAAGCTCTAT
1 CTGAACAATAAGCTCTAT
23615176 C
1 C
23615177 GAGTTGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (18 bp):
CTGAACAATAAGCTCTAT
Found at i:23615201 original size:22 final size:22
Alignment explanation
Indices: 23615103--23615206 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 22
23615093 TGATAAATAG
* *
23615103 TAAGCTCTATTGAGCTGAA-ATGG
1 TAAGCTCTATCGAGCTGAACA--A
*
23615126 TAAGCTCTATC-AGGCTGAACAG
1 TAAGCTCTATCGA-GCTGAACAA
23615148 TAAGCTCTAT----CTGAACAA
1 TAAGCTCTATCGAGCTGAACAA
* *
23615166 TAAGCTCTATCGAGTTGAACAG
1 TAAGCTCTATCGAGCTGAACAA
23615188 TAAGCTC-ATACGAGCTGAA
1 TAAGCTCTAT-CGAGCTGAA
23615207 TTGGTAAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
18 17 0.25
21 2 0.03
22 33 0.48
23 16 0.23
24 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (22 bp):
TAAGCTCTATCGAGCTGAACAA
Found at i:23615217 original size:23 final size:23
Alignment explanation
Indices: 23615187--23615270 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 23
23615177 GAGTTGAACA
23615187 GTAAGCTCATACGAGCTGAATTG
1 GTAAGCTCATACGAGCTGAATTG
* * * *
23615210 GTAAGCTCCA-ATGAGATGAAAATA
1 GTAAGCT-CATACGAGCTG-AATTG
*
23615234 GTAAGCTCTTACGAGCTGATATATCG
1 GTAAGCTCATACGAGCTGA-AT-T-G
23615260 GTAAGCTCATA
1 GTAAGCTCATA
23615271 TAAGCAATGG
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
23 15 0.33
24 19 0.42
25 1 0.02
26 10 0.22
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (23 bp):
GTAAGCTCATACGAGCTGAATTG
Found at i:23618587 original size:42 final size:42
Alignment explanation
Indices: 23618528--23618691 Score: 166
Period size: 42 Copynumber: 3.8 Consensus size: 42
23618518 AGGGTATGTG
*
23618528 TGATTTCGTGTAAGACCATATCTGGGATATGGCATTGATATT
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * **
23618570 TGATTTCGTGTAAGACCATGTCTGGGACATGACATCAATACG
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
* * * *
23618612 AGATATCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATAT
1 TGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATAT-T
** * *
23618656 GTGATCCCATCTAAGACCATATCTGGGATATGGCAT
1 -TGATTTCGTGTAAGACCATATCTGGGATATGGCAT
23618692 TGGCATCTTA
Statistics
Matches: 95, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 58 0.61
43 9 0.09
44 6 0.06
45 22 0.23
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
Found at i:23622744 original size:19 final size:19
Alignment explanation
Indices: 23622707--23622744 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23622697 CTAATTAAGT
*
23622707 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
23622726 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
23622745 GAAAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:23622941 original size:29 final size:29
Alignment explanation
Indices: 23622902--23622958 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
23622892 ATATATTATT
*
23622902 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAA-TAAATTG
23622931 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATAAATT
23622959 AAGAAAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATAAATTG
Found at i:23623059 original size:33 final size:32
Alignment explanation
Indices: 23623017--23623088 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
23623007 AAATGAGTAC
23623017 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
23623051 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
23623083 -TTTTAT
1 ATTTTAT
23623089 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 7 0.19
33 17 0.46
34 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:23623176 original size:23 final size:22
Alignment explanation
Indices: 23623141--23623185 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
23623131 AAAATACAAA
23623141 TGTAAAATATATATGTGTATATT
1 TGTAAAATATATATGTGT-TATT
* * *
23623164 TGTAATATTTATATTTGTTATT
1 TGTAAAATATATATGTGTTATT
23623186 AAATAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (22 bp):
TGTAAAATATATATGTGTTATT
Found at i:23623412 original size:18 final size:18
Alignment explanation
Indices: 23623391--23623425 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23623381 AAACTAAAGT
* *
23623391 AAAAATAAAAGATAAAAC
1 AAAAAAAAAACATAAAAC
23623409 AAAAAAAAAACATAAAA
1 AAAAAAAAAACATAAAA
23623426 AGAAACAGAA
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:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAACATAAAAC
Found at i:23624092 original size:15 final size:15
Alignment explanation
Indices: 23624072--23624102 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23624062 ATTGTTGTTT
23624072 TTATTATTATATGTG
1 TTATTATTATATGTG
23624087 TTATTATTATATGTG
1 TTATTATTATATGTG
23624102 T
1 T
23624103 ATGGAAAGAT
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:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (15 bp):
TTATTATTATATGTG
Found at i:23625235 original size:25 final size:27
Alignment explanation
Indices: 23625198--23625250 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
23625188 TCAAACATGC
23625198 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
23625224 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
23625250 A
1 A
23625251 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:23626770 original size:32 final size:32
Alignment explanation
Indices: 23626733--23626797 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
23626723 AATGCTTACC
23626733 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
23626765 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
23626797 A
1 A
23626798 AATGCATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:23627153 original size:28 final size:29
Alignment explanation
Indices: 23627122--23627184 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
23627112 TATTAAATTG
* *
23627122 AATGTATA-TGAATATG-TAATTATTGTGA
1 AATGGATATTGAA-ATGATAATTACTGTGA
23627150 AATGGATATTGAAATGATTAATTACTGTG-
1 AATGGATATTGAAATGA-TAATTACTGTGA
23627179 AATGGA
1 AATGGA
23627185 GAAATGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 10 0.33
29 10 0.33
30 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (29 bp):
AATGGATATTGAAATGATAATTACTGTGA
Found at i:23630231 original size:31 final size:31
Alignment explanation
Indices: 23630178--23630237 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
23630168 GATAAGCACA
* *
23630178 AAATTAAGAATAAGCGTTAAGTTCAGGTATT
1 AAATTAAGAAAAAGCGTCAAGTTCAGGTATT
* * *
23630209 AAATTAGGAAAAAGTGTCAAGTTTAGGTA
1 AAATTAAGAAAAAGCGTCAAGTTCAGGTA
23630238 CCAAATGTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (31 bp):
AAATTAAGAAAAAGCGTCAAGTTCAGGTATT
Found at i:23633074 original size:20 final size:20
Alignment explanation
Indices: 23633049--23633089 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23633039 CCTAATTTCT
*
23633049 TTTAAATCTATATATATATA
1 TTTAAAACTATATATATATA
* *
23633069 TTTAAAACTTTATGTATATA
1 TTTAAAACTATATATATATA
23633089 T
1 T
23633090 AATATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAAAACTATATATATATA
Found at i:23637279 original size:19 final size:19
Alignment explanation
Indices: 23637255--23637295 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23637245 GATGTCTCCT
*
23637255 TTACATT-CATGCATTTGCA
1 TTACATTACAT-CATCTGCA
23637274 TTACATTACATCATCTGCA
1 TTACATTACATCATCTGCA
23637293 TTA
1 TTA
23637296 AAGGCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (19 bp):
TTACATTACATCATCTGCA
Found at i:23640683 original size:18 final size:19
Alignment explanation
Indices: 23640639--23640677 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
23640629 ATTTTATTTG
23640639 AAGTAAATTTTAAAAACATA
1 AAGTAAATTTT-AAAACATA
23640659 AAGTAAATTTT-AAACATA
1 AAGTAAATTTTAAAACATA
23640677 A
1 A
23640678 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
AAGTAAATTTTAAAACATA
Found at i:23640938 original size:27 final size:28
Alignment explanation
Indices: 23640908--23640994 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 28
23640898 TTAATAATAT
*
23640908 AAATTAA-AT-AAACAAAATAAAATAAGA
1 AAATTAATATAAAACAAAA-AAAATAAAA
**
23640935 AAA-TAATATAAAACTTAAAAAATAAAA
1 AAATTAATATAAAACAAAAAAAATAAAA
* * *
23640962 AAATTAAGAAAAAGACAAAATTAAATAAAA
1 AAATTAATATAAA-ACAAAA-AAAATAAAA
23640992 AAA
1 AAA
23640995 GTAAAAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.06
27 16 0.34
28 13 0.28
29 4 0.09
30 11 0.23
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (28 bp):
AAATTAATATAAAACAAAAAAAATAAAA
Found at i:23640940 original size:36 final size:35
Alignment explanation
Indices: 23640900--23641000 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 35
23640890 TTTTAAAATT
23640900 AATAATATAAATTAAATAAACAAAATAAAATAAGAA
1 AATAATATAAATTAAATAAA-AAAATAAAATAAGAA
*
23640936 AATAATATAAAACTTAAA-AAATAAAA-AAATTAAGAA
1 AATAATAT-AAA-TTAAATAAA-AAAATAAAATAAGAA
*
23640972 AA-AGACA-AAATTAAATAAAAAAAGTAAAA
1 AATA-ATATAAATTAAATAAAAAAA-TAAAA
23641001 AAATTAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
33 9 0.16
34 6 0.11
35 4 0.07
36 21 0.38
37 10 0.18
38 5 0.09
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (35 bp):
AATAATATAAATTAAATAAAAAAATAAAATAAGAA
Found at i:23640945 original size:18 final size:18
Alignment explanation
Indices: 23640900--23640986 Score: 67
Period size: 18 Copynumber: 4.9 Consensus size: 18
23640890 TTTTAAAATT
23640900 AATAATAT-AAATTAAATA
1 AATAATATAAAATTAAA-A
* *
23640918 AACAAAATAAAA-TAAGAA
1 AATAATATAAAATTAA-AA
23640936 AATAATATAAAACTTAAAA
1 AATAATATAAAA-TTAAAA
*
23640955 AATAA-A-AAAATTAAGA
1 AATAATATAAAATTAAAA
* *
23640971 AA-AAGACAAAATTAAA
1 AATAATATAAAATTAAA
23640987 TAAAAAAAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
15 2 0.04
16 8 0.14
17 12 0.21
18 21 0.37
19 11 0.19
20 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAATATAAAATTAAAA
Found at i:23640958 original size:16 final size:16
Alignment explanation
Indices: 23640908--23641002 Score: 54
Period size: 17 Copynumber: 5.7 Consensus size: 16
23640898 TTAATAATAT
*
23640908 AAATTAAATAAACAAAA
1 AAATTAAA-AAATAAAA
*
23640925 TAAAATAAGAAAATAATATA
1 -AAATTAA-AAAATAA-A-A
23640945 AAACTTAAAAAATAAAA
1 AAA-TTAAAAAATAAAA
*
23640962 AAATTAAGAAAA-AGACA
1 AAATTAA-AAAATA-AAA
23640979 AAATT---AAATAAAA
1 AAATTAAAAAATAAAA
*
23640992 AAAGTAAAAAA
1 AAATTAAAAAA
23641003 ATTAATAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
13 9 0.15
14 1 0.02
16 8 0.13
17 15 0.25
18 12 0.20
19 12 0.20
20 4 0.07
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (16 bp):
AAATTAAAAAATAAAA
Found at i:23641118 original size:20 final size:20
Alignment explanation
Indices: 23641090--23641136 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
23641080 CCAACTTTTC
23641090 AAAAA-TTAAAAA-AAAGTTA
1 AAAAATTTAAAAAGAAA-TTA
23641109 AAAAATTTAAAAAGAAATTA
1 AAAAATTTAAAAAGAAATTA
23641129 AAGAAATT
1 AA-AAATT
23641137 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAGAAATTA
Found at i:23641207 original size:14 final size:14
Alignment explanation
Indices: 23641188--23641214 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23641178 AAAACTATGG
23641188 TTAATATTTAAAAA
1 TTAATATTTAAAAA
23641202 TTAATATTTAAAA
1 TTAATATTTAAAA
23641215 TTTTCAAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:23641229 original size:37 final size:37
Alignment explanation
Indices: 23641193--23641332 Score: 114
Period size: 37 Copynumber: 3.9 Consensus size: 37
23641183 TATGGTTAAT
* *
23641193 ATTT-AAAAAT-TAATATTTAAAAT-TTTCAAAAATTA
1 ATTTGAAAAATAT-ATATTTAAAATATATAAAAAATTA
*
23641228 ATTTGAAAAATATATTTTTAAAATATATAAAAAATTA
1 ATTTGAAAAATATATATTTAAAATATATAAAAAATTA
* * * *
23641265 ATTTCACAAATATATATCTAAAGT-TA-AAAAAA-TA
1 ATTTGAAAAATATATATTTAAAATATATAAAAAATTA
* * * * *
23641299 TTTTTAAAAATA-ATAATTAAAATTTTTAAAAAAT
1 ATTTGAAAAATATATATTTAAAATATATAAAAAAT
23641333 ATTATAAAAC
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
33 8 0.10
34 12 0.14
35 16 0.19
36 18 0.21
37 30 0.36
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (37 bp):
ATTTGAAAAATATATATTTAAAATATATAAAAAATTA
Found at i:23641329 original size:21 final size:21
Alignment explanation
Indices: 23641298--23641386 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 21
23641288 TTAAAAAAAT
23641298 ATTTTTAAAAATAATAATTAAA
1 ATTTTT-AAAATAATAATTAAA
*
23641320 ATTTTTAAAA-AATATTATAAA
1 ATTTTTAAAATAATAAT-TAAA
*
23641341 ACATTTT-AAAT-ATACATTACAA
1 A-TTTTTAAAATAATA-ATTA-AA
*
23641363 ATTTTTAAAAGTTAATAATAAAA
1 ATTTTTAAAA--TAATAATTAAA
23641386 A
1 A
23641387 ATAAAACTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 17
0.71 0.07 0.23
Matches are distributed among these distances:
20 5 0.09
21 21 0.40
22 17 0.32
23 3 0.06
24 4 0.08
25 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (21 bp):
ATTTTTAAAATAATAATTAAA
Found at i:23641346 original size:23 final size:22
Alignment explanation
Indices: 23641293--23641386 Score: 70
Period size: 22 Copynumber: 4.2 Consensus size: 22
23641283 TAAAGTTAAA
23641293 AAAATATTTTTAAAAATAATAAT
1 AAAA-ATTTTTAAAAATAATAAT
* *
23641316 TAAAATTTTTAAAAA-ATATTAT
1 AAAAATTTTTAAAAATA-ATAAT
*
23641338 AAAACA-TTTTAAATATACAT--T
1 AAAA-ATTTTTAAAAATA-ATAAT
* *
23641359 ACAAATTTTTAAAAGTTAATAAT
1 AAAAATTTTTAAAA-ATAATAAT
23641382 AAAAA
1 AAAAA
23641387 ATAAAACTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
20 1 0.02
21 14 0.25
22 28 0.51
23 12 0.22
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (22 bp):
AAAAATTTTTAAAAATAATAAT
Found at i:23641439 original size:18 final size:17
Alignment explanation
Indices: 23641382--23641447 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
23641372 AGTTAATAAT
*
23641382 AAAAAATAAAACTAAATAA
1 AAAAAATAAAA--AAGTAA
* *
23641401 ACAAAATGAAATAAG-AA
1 AAAAAAT-AAAAAAGTAA
23641418 AAAAAATCAAAAAAGTAA
1 AAAAAAT-AAAAAAGTAA
23641436 AAAAAATAAAAA
1 AAAAAATAAAAA
23641448 GACAATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 19 0.49
18 11 0.28
19 6 0.15
20 3 0.08
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAAGTAA
Found at i:23641512 original size:25 final size:25
Alignment explanation
Indices: 23641484--23641540 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
23641474 AAAGTAAAAT
23641484 AAAAGAAATATGAAAATAAAAGAAA
1 AAAAGAAATATGAAAATAAAAGAAA
23641509 AAAAGAAATATGAAAATAAAAGAAA
1 AAAAGAAATATGAAAATAAAAGAAA
*
23641534 AAGAGAA
1 AAAAGAA
23641541 TGTGTAGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (25 bp):
AAAAGAAATATGAAAATAAAAGAAA
Found at i:23645345 original size:56 final size:55
Alignment explanation
Indices: 23645265--23645371 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 55
23645255 AAATTATAGA
**
23645265 TTACAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATAATC
1 TTACAAATTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTATAATC
23645320 TTACAAATTTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTAT
1 TTACAAA-TTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTAT
23645372 CTTCCAATGG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 7 0.14
56 42 0.86
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.38
Consensus pattern (55 bp):
TTACAAATTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTATAATC
Found at i:23647971 original size:46 final size:46
Alignment explanation
Indices: 23647781--23647957 Score: 130
Period size: 46 Copynumber: 3.8 Consensus size: 46
23647771 GTTATTGTGG
* * **
23647781 GCTAGTGTAAGACATGTCTGGGACATGCATC--AACCACA-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCA-AGACAT-A-A
* * * *
23647827 GCCAGTGTAAGACCATGTCTTGGACATGACATCGACATCGAGACGAGT--
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATCAAGAC-A-TAA
* * *
23647875 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACATAA
* *
23647921 GCTAGTGTGAGACATGTTTGGGACATGGCATCGGCAT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCAT
23647958 GAGATATGAG
Statistics
Matches: 103, Mismatches: 18, Indels: 19
0.74 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
46 46 0.45
47 36 0.35
48 15 0.15
49 1 0.01
50 2 0.02
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACATAA
Found at i:23655593 original size:46 final size:47
Alignment explanation
Indices: 23655495--23655669 Score: 200
Period size: 47 Copynumber: 3.7 Consensus size: 47
23655485 TTATGAGAGA
*
23655495 TAGTGTAAGACCATGTCTT-GGACATGGCATCGGCATCGAGACGAGT-GC
1 TAGTGTAAGACCATGT-TTGGGACATGGCATCGGCAT-GAGATGA-TAGC
*
23655543 TAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTATGAGATGATAGT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATGAGATGATAGC
* *
23655589 TAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGAT-ATGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATGAGATGAT-AGC
* * *
23655636 TAGTGTAAGACCGTGTCTGGGA-ATGGCATTGGCA
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
23655670 CCTTACCCAC
Statistics
Matches: 113, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
45 1 0.01
46 39 0.35
47 56 0.50
48 17 0.15
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (47 bp):
TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATGAGATGATAGC
Found at i:23665189 original size:13 final size:13
Alignment explanation
Indices: 23665173--23665198 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23665163 AATAATTTTC
23665173 CTTCCTAAATCAT
1 CTTCCTAAATCAT
23665186 CTTCCTAAATCAT
1 CTTCCTAAATCAT
23665199 ATTATATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
CTTCCTAAATCAT
Found at i:23665190 original size:17 final size:17
Alignment explanation
Indices: 23665157--23665191 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23665147 GCACATATGG
*
23665157 TTCCTAAATAATTTTCC
1 TTCCTAAATAATCTTCC
*
23665174 TTCCTAAATCATCTTCC
1 TTCCTAAATAATCTTCC
23665191 T
1 T
23665192 AAATCATATT
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:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (17 bp):
TTCCTAAATAATCTTCC
Found at i:23668362 original size:14 final size:14
Alignment explanation
Indices: 23668343--23668369 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23668333 CAAACAATCT
23668343 CATGTTTCATGAAG
1 CATGTTTCATGAAG
23668357 CATGTTTCATGAA
1 CATGTTTCATGAA
23668370 AGAACAAAGC
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:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
CATGTTTCATGAAG
Found at i:23668595 original size:31 final size:31
Alignment explanation
Indices: 23668560--23668623 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
23668550 CCAACTTGAG
23668560 GGGAGTATATAAATTATTGATTGTAAATATA
1 GGGAGTATATAAATTATTGATTGTAAATATA
23668591 GGGAGTATATAAATTATTGATTGTAAATATA
1 GGGAGTATATAAATTATTGATTGTAAATATA
23668622 GG
1 GG
23668624 TAGTCAGCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (31 bp):
GGGAGTATATAAATTATTGATTGTAAATATA
Found at i:23670222 original size:40 final size:40
Alignment explanation
Indices: 23670174--23670256 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
23670164 GCTAAAAAAA
*
23670174 ATGGCACTTACTGTACGGTTCGAAATAGCTTCGGCTAAAT
1 ATGGCACTTACTGTACGATTCGAAATAGCTTCGGCTAAAT
** * * * *
23670214 ATGGCACTTGGTGTGCGATTGGAGATAGCTTCGGCTAGAT
1 ATGGCACTTACTGTACGATTCGAAATAGCTTCGGCTAAAT
23670254 ATG
1 ATG
23670257 TATATGGCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (40 bp):
ATGGCACTTACTGTACGATTCGAAATAGCTTCGGCTAAAT
Found at i:23670329 original size:28 final size:27
Alignment explanation
Indices: 23670250--23670338 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
23670240 AGCTTCGGCT
23670250 AGATATGT-ATATGGCACTTAGTGTGCA
1 AGATAT-TAATATGGCACTTAGTGTGCA
* * * * *
23670277 AAATATTAATAATGACAATTGGTGTGCG
1 AGATATTAAT-ATGGCACTTAGTGTGCA
* *
23670305 AGATATTGAGTATGGCACTTAGTGTACA
1 AGATATT-AATATGGCACTTAGTGTGCA
23670333 AGATAT
1 AGATAT
23670339 CGAAGATGCA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
26 1 0.02
27 7 0.15
28 37 0.79
29 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (27 bp):
AGATATTAATATGGCACTTAGTGTGCA
Found at i:23673173 original size:16 final size:16
Alignment explanation
Indices: 23673136--23673171 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23673126 AAAGACTTCA
23673136 ATTTTAAATTTGTGTT
1 ATTTTAAATTTGTGTT
*
23673152 AATTTAAATTT-TGTT
1 ATTTTAAATTTGTGTT
23673167 ATTTT
1 ATTTT
23673172 TATTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (16 bp):
ATTTTAAATTTGTGTT
Found at i:23674883 original size:29 final size:29
Alignment explanation
Indices: 23674841--23674897 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
23674831 TAGCTGTTTA
23674841 GCTATATGCGTCTCATTTTCTTAGTCCCT
1 GCTATATGCGTCTCATTTTCTTAGTCCCT
*
23674870 GCTATATGCGTCTCCTTTTCTTAGTCCC
1 GCTATATGCGTCTCATTTTCTTAGTCCC
23674898 CATCAGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.12, C:0.30, G:0.14, T:0.44
Consensus pattern (29 bp):
GCTATATGCGTCTCATTTTCTTAGTCCCT
Found at i:23678161 original size:54 final size:54
Alignment explanation
Indices: 23678097--23678205 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
23678087 AGGTTTACGG
23678097 GTGGAAGAGAGCGGTTTAGTGGCTTTGGGGAGTCTATTGCAGCAAGAGTATAGA
1 GTGGAAGAGAGCGGTTTAGTGGCTTTGGGGAGTCTATTGCAGCAAGAGTATAGA
23678151 GTGGAAGAGAGCGGTTTAGTGGCTTTGGGGAGTCTATTGCAGCAAGAGTATAGA
1 GTGGAAGAGAGCGGTTTAGTGGCTTTGGGGAGTCTATTGCAGCAAGAGTATAGA
23678205 G
1 G
23678206 ATTGATTGGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.26, C:0.09, G:0.39, T:0.26
Consensus pattern (54 bp):
GTGGAAGAGAGCGGTTTAGTGGCTTTGGGGAGTCTATTGCAGCAAGAGTATAGA
Found at i:23678806 original size:40 final size:40
Alignment explanation
Indices: 23678751--23678829 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
23678741 ATTCGTTTGG
*
23678751 CCGGCCCTAAATCAGCTTTGAAATCCTTTTTTCCATGGTT
1 CCGGCCCTAAATCAGCATTGAAATCCTTTTTTCCATGGTT
23678791 CCGGCCCTAAATCAGCATTGAAATCCTTTTTTCCATGGT
1 CCGGCCCTAAATCAGCATTGAAATCCTTTTTTCCATGGT
23678830 CATAGAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (40 bp):
CCGGCCCTAAATCAGCATTGAAATCCTTTTTTCCATGGTT
Found at i:23685055 original size:273 final size:271
Alignment explanation
Indices: 23684570--23685104 Score: 971
Period size: 273 Copynumber: 2.0 Consensus size: 271
23684560 GAAGAGAGGC
*
23684570 GAGGGTCTTTCATTAAAGAGGGAAAAGAGGGGTAGGCTTTGTTCTGAGGGGGCCGCCTTTCGTAG
1 GAGGGTCTTTCATTAAAGAGGGAAAAGAGGGGTAGGCTTTGTTCTGAGGGGGCCGCCTTTCGCAG
23684635 CTTTAGAAAGGAGAGAATTATTGAAAGTCACTCTCTCCAACCTTTTCTATCTATCTTTAGAAGTA
66 CTTTAGAAAGGAGAGAATTATTGAAAGTCACTCTCTCCAACCTTTTCTATCTATCTTTAGAAGTA
*
23684700 GGGCGAGAGAAAGTCAATATGATATTTGCGTTGGTTTTTCCAACAAAATTAAGCACATTTTTGTT
131 GGGCGAGAGAAAGTCAATATGATATTTGCGTTGGTTTTTCCAACAAAACTAAGCACATTTTTGTT
23684765 TTTTTCATTCAGAAGGCTCAGTCCCACACTCTGACTTCAATGATGGAAACAACCTCTGCACTCCG
196 TTTTTCATTCAGAAGGCTCAGTCCCACACTCTGACTTCAATGATGGAAACAACCTCTGCACTCCG
23684830 GCACCCCAATA
261 GCACCCCAATA
* * *
23684841 GAGGGTCTTTCATTAAAGGGGGAAAAGAGGGGTGGGCTTTGTTCTGGGGGGGGGCCGCCTTTCGC
1 GAGGGTCTTTCATTAAAGAGGGAAAAGAGGGGTAGGCTTTGTTCT--GAGGGGGCCGCCTTTCGC
*
23684906 AGCTTTAGAAAGGAGAGAATTGTTGAAAGTCACTCTCTCCAACCTTTTCTATCTATCTTTAGAAG
64 AGCTTTAGAAAGGAGAGAATTATTGAAAGTCACTCTCTCCAACCTTTTCTATCTATCTTTAGAAG
* *
23684971 TAGGGCGAGAGAAAGTCAATATGATATTTGCGTTGGTTTTTCCAACGAAACTAAGCACTTTTTTG
129 TAGGGCGAGAGAAAGTCAATATGATATTTGCGTTGGTTTTTCCAACAAAACTAAGCACATTTTTG
*
23685036 TTTTTTTCATTCGGAAGGCTCAGTCCCACACTCTGACTTCAATGATGGAAACAACCTCTGCACTC
194 TTTTTTTCATTCAGAAGGCTCAGTCCCACACTCTGACTTCAATGATGGAAACAACCTCTGCACTC
23685101 CGGC
259 CGGC
23685105 GCTCCAATGA
Statistics
Matches: 253, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
271 43 0.17
273 210 0.83
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (271 bp):
GAGGGTCTTTCATTAAAGAGGGAAAAGAGGGGTAGGCTTTGTTCTGAGGGGGCCGCCTTTCGCAG
CTTTAGAAAGGAGAGAATTATTGAAAGTCACTCTCTCCAACCTTTTCTATCTATCTTTAGAAGTA
GGGCGAGAGAAAGTCAATATGATATTTGCGTTGGTTTTTCCAACAAAACTAAGCACATTTTTGTT
TTTTTCATTCAGAAGGCTCAGTCCCACACTCTGACTTCAATGATGGAAACAACCTCTGCACTCCG
GCACCCCAATA
Found at i:23691153 original size:51 final size:50
Alignment explanation
Indices: 23690970--23691158 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 50
23690960 ATTGTGAGAA
* * * *** * * *
23690970 CACATGTGTAGTACTATGTGCAGGTTACTATATGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGAT
* * *
23691022 CACGTGCGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGAT
* * * *
23691072 CGCATGTGTAGTACTAACTGTAGGCTACTATGTGTACTC-GATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATAG-TTAGAT
* *
23691123 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
23691159 AAAGATAGCT
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
50 43 0.38
51 36 0.32
52 34 0.30
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGAT
Found at i:23691166 original size:51 final size:51
Alignment explanation
Indices: 23691032--23691251 Score: 183
Period size: 51 Copynumber: 4.3 Consensus size: 51
23691022 CACGTGCGTA
* ** * * * * *
23691032 GTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGGTCGCATGTGTA
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
* * * *** * *
23691082 GTACTAACTGTAGGCTACTATGTGTACTCGATAGCTTCGATCACATGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
*
23691133 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAAGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
* * * * * * * *
23691184 ATACCATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGATTACAAGGGTG
1 GTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTTGATCACAAGTGTG
*
23691235 GTACTATGTGCAGGCCA
1 GTACTAAGTGCAGGCCA
23691252 TCAGGCATCC
Statistics
Matches: 139, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 32 0.23
51 107 0.77
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
Found at i:23702956 original size:40 final size:41
Alignment explanation
Indices: 23702901--23703015 Score: 180
Period size: 40 Copynumber: 2.9 Consensus size: 41
23702891 NNNNNNNNNN
23702901 AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-A
1 AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCA
* *
23702941 AATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCT
1 AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCA
* *
23702982 AA-CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
23703016 AGTTATATCC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
40 67 0.97
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (41 bp):
AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCA
Found at i:23714062 original size:11 final size:10
Alignment explanation
Indices: 23714024--23714064 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
23714014 GCCTAATCCC
23714024 AAATAAAT-A
1 AAATAAATAA
23714033 AAATAAAATAA
1 AAAT-AAATAA
23714044 AAATAAATAA
1 AAATAAATAA
23714054 ATAATAAATAA
1 A-AATAAATAA
23714065 TAAAACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.14
10 11 0.38
11 14 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAATAAATAA
Found at i:23714066 original size:14 final size:14
Alignment explanation
Indices: 23714024--23714077 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
23714014 GCCTAATCCC
*
23714024 AAATAAATA-AAAT
1 AAATAAAAATAAAT
23714037 AAAATAAAAATAAAT
1 -AAATAAAAATAAAT
23714052 AAATAATAAAT-AAT
1 AAATAA-AAATAAAT
23714066 AAA-ACAAAATAA
1 AAATA-AAAATAA
23714078 TTTCTTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 5 0.14
14 22 0.63
15 8 0.23
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:23714066 original size:24 final size:24
Alignment explanation
Indices: 23714024--23714077 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
23714014 GCCTAATCCC
23714024 AAATAAATAAAATAAAATAAAA-A
1 AAATAAATAAAATAAAATAAAACA
*
23714047 TAAATAAATAATAA-ATAATAAAACA
1 -AAATAAATAA-AATAAAATAAAACA
23714072 AAATAA
1 AAATAA
23714078 TTTCTTCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (24 bp):
AAATAAATAAAATAAAATAAAACA
Found at i:23720263 original size:30 final size:30
Alignment explanation
Indices: 23720229--23720289 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
23720219 TCCAAACAAC
23720229 AATAATGAGACTTTCCAGCTAAACGTTCTA
1 AATAATGAGACTTTCCAGCTAAACGTTCTA
23720259 AATAATGAGACTTTCCAGCTAAACGTTCTA
1 AATAATGAGACTTTCCAGCTAAACGTTCTA
23720289 A
1 A
23720290 CATCTGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (30 bp):
AATAATGAGACTTTCCAGCTAAACGTTCTA
Found at i:23721843 original size:18 final size:18
Alignment explanation
Indices: 23721798--23721843 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23721788 TCCCTATCTT
23721798 GACTAGTGTCGTGGGCCC
1 GACTAGTGTCGTGGGCCC
*
23721816 GACTAATGTCGT-GGCCGC
1 GACTAGTGTCGTGGGCC-C
*
23721834 GACTTGTGTC
1 GACTAGTGTC
23721844 AGGTACTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.13, C:0.26, G:0.35, T:0.26
Consensus pattern (18 bp):
GACTAGTGTCGTGGGCCC
Found at i:23724110 original size:12 final size:12
Alignment explanation
Indices: 23724093--23724120 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23724083 TAATAAAATA
23724093 AATAAAAATAAT
1 AATAAAAATAAT
23724105 AATAAAAATAAT
1 AATAAAAATAAT
23724117 AATA
1 AATA
23724121 TCTTCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:23730658 original size:49 final size:49
Alignment explanation
Indices: 23730550--23730767 Score: 130
Period size: 49 Copynumber: 4.6 Consensus size: 49
23730540 ATCTAAGTCG
* * *
23730550 ATGCCATGTCCCATACAGGTCTTACACTGACTTTCATATATCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCA
* ** * * * *
23730599 ATACTTTGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCG-GTGTCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCCA
** * * * * *
23730648 ATGCCATGTCCTGGACAAGTCTTACACTGA----CACATGTC-AAGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCA
* * * * * *
23730692 ATGTCATGTCCCAGATAGGTTTTACA-TTAGCT-TGCATATCTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCGAGGCCA
*
23730741 ATG-CATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
23730768 AGCATATATG
Statistics
Matches: 123, Mismatches: 37, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
43 2 0.02
44 22 0.18
45 5 0.04
48 26 0.21
49 68 0.55
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCA
Found at i:23734872 original size:13 final size:13
Alignment explanation
Indices: 23734856--23734881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23734846 CTGGACACAC
23734856 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
23734869 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
23734882 CACACGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCCGTGTCCTTT
Found at i:23735959 original size:46 final size:44
Alignment explanation
Indices: 23735867--23736170 Score: 274
Period size: 46 Copynumber: 6.6 Consensus size: 44
23735857 AGGCCAATGC
* *
23735867 CATGTCCCAGACATGGTCTTACACTGAC-ATGTCTCGAAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTACGTCTC-AAGCTGATG
*
23735912 CATGTACCAGACATGTCTTACACTGGCTTACGTCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TACGTCTCAA-GCTGATG
* * *
23735958 CATGTCCTAGACATGTCTTACACTGGC-ACTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA--CGTCTCAA-GCTGATG
* * *
23736004 CCATGTCCCAGACATGGTCTTACACTGAC-ATGTCTCGTAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTACGTCTC-AAGCTGATG
* * *
23736050 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TACGTCTCAAGCT-GATG
* *
23736096 CATGTCCCAGAAATGTCTTACACTGGC-ACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA--CGTCTCAA-GCTGATG
* * *
23736142 CCATCTCCCAGACCTGGTTTTACACTGGC
1 -CATGTCCCAGACAT-GTCTTACACTGGC
23736171 ACACAAATTA
Statistics
Matches: 215, Mismatches: 28, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
44 26 0.12
45 32 0.15
46 106 0.49
47 26 0.12
48 25 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTACGTCTCAAGCTGATG
Found at i:23736047 original size:92 final size:89
Alignment explanation
Indices: 23735818--23736171 Score: 311
Period size: 92 Copynumber: 3.8 Consensus size: 89
23735808 TTACCAATGC
* * * **
23735818 CATGTCCCAAATATGGTCTTACACTGGCTATCCTCATCGAGGCCAATGCCATGTCCCAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTAT-GTC-TCGAGGCTGATG-CATGTCCCAGACAT-G
* * *
23735883 TCTTACACTGACAT-GTCTCGAAGCTGATG
61 TCTTACACTGGCATCATCTC-AAGCCGATG
* * * *
23735912 CATGTACCAGACATGTCTTACACTGGCTTACGTCTCAAGGCTGATGCATGTCCTAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGC-TATGTCTCGAGGCTGATGCATGTCCCAGACATGTCTT
23735977 ACACTGGCACTCATCTCAATGCCGATG
65 ACACTGGCA-TCATCTCAA-GCCGATG
*
23736004 CCATGTCCCAGACATGGTCTTACACTGAC-ATGTCTCGTA-GCTGATGCATGTCCCAGACATGTC
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATGTCTCG-AGGCTGATGCATGTCCCAGACATGTC
* * *
23736067 TTACACTGGCTTACATCTCGAGGTCGATG
63 TTACACTGGCAT-CATCTC-AAGCCGATG
* * * * * *
23736096 CATGTCCCAGAAATGTCTTACACTGGC-ACTCGTCTCAATGCCGATGCCATCTCCCAGACCTGGT
1 CATGTCCCAGACATGTCTTACACTGGCTA-T-GTCTCGAGGCTGATG-CATGTCCCAGACAT-GT
*
23736160 TTTACACTGGCA
62 CTTACACTGGCA
23736172 CACAAATTAC
Statistics
Matches: 218, Mismatches: 28, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
90 26 0.12
91 32 0.15
92 81 0.37
93 42 0.19
94 37 0.17
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (89 bp):
CATGTCCCAGACATGTCTTACACTGGCTATGTCTCGAGGCTGATGCATGTCCCAGACATGTCTTA
CACTGGCATCATCTCAAGCCGATG
Found at i:23736112 original size:138 final size:138
Alignment explanation
Indices: 23735818--23736168 Score: 510
Period size: 138 Copynumber: 2.5 Consensus size: 138
23735808 TTACCAATGC
* * * *
23735818 CATGTCCCA-AATATGGTCTTACACTGGCTA-TCCTCATCGAGGCCAATGCCATGTCCCAGACAT
1 CATGTCCCAGAA-AT-GTCTTACACTGGC-ACTCATC-TCAATGCCGATGCCATGTCCCAGACAT
*
23735881 GGTCTTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACGTC
62 GGTCTTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACATC
23735946 TCAAGGCTGATG
127 TCAAGGCTGATG
* *
23735958 CATGTCCTAGACATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGAAATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
* * *
23736023 TTACACTGACATGTCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
66 TTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACATCTCAA
23736088 GG-TCGATG
131 GGCT-GATG
* * * *
23736096 CATGTCCCAGAAATGTCTTACACTGGCACTCGTCTCAATGCCGATGCCATCTCCCAGACCTGGTT
1 CATGTCCCAGAAATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
23736161 TTACACTG
66 TTACACTG
23736169 GCACACAAAT
Statistics
Matches: 192, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
137 1 0.01
138 163 0.85
139 17 0.09
140 10 0.05
141 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (138 bp):
CATGTCCCAGAAATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACATCTCAA
GGCTGATG
Found at i:23736904 original size:12 final size:12
Alignment explanation
Indices: 23736887--23736911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23736877 CAAAAATGTA
23736887 AAAATCATCAAG
1 AAAATCATCAAG
23736899 AAAATCATCAAG
1 AAAATCATCAAG
23736911 A
1 A
23736912 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:23739410 original size:26 final size:27
Alignment explanation
Indices: 23739377--23739437 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
23739367 ATTCACTAAA
23739377 ATACCCCTAAGAATG-AAAATTACCA-T
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
23739403 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
23739429 ATACCCCTA
1 ATACCCCTA
23739438 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 2 0.06
25 12 0.39
26 17 0.55
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:23739614 original size:28 final size:28
Alignment explanation
Indices: 23739548--23739648 Score: 145
Period size: 27 Copynumber: 3.7 Consensus size: 28
23739538 AGTGTTCTAA
23739548 TGGCTCTGCCACAAATATCTG-ATCTGG
1 TGGCTCTGCCACAAATATCTGTATCTGG
*
23739575 TGGCTCTGCCACAAATATCTGTTTCTGG
1 TGGCTCTGCCACAAATATCTGTATCTGG
*
23739603 TGGCTCTACCAC-AATATCTGTATCTGG
1 TGGCTCTGCCACAAATATCTGTATCTGG
* *
23739630 TGACTCTGTCAC-AATATCT
1 TGGCTCTGCCACAAATATCT
23739649 ATTCTGGCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 51 0.76
28 16 0.24
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (28 bp):
TGGCTCTGCCACAAATATCTGTATCTGG
Found at i:23763649 original size:27 final size:27
Alignment explanation
Indices: 23763595--23763649 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
23763585 CACAGGGGTA
* * * *
23763595 GACACACGGCGTGTGTCTTGGCCGTGT
1 GACACACGGCCTGTCTCATGGCCATGT
*
23763622 GACACACGGCCTGTCTCATGGGCATGT
1 GACACACGGCCTGTCTCATGGCCATGT
23763649 G
1 G
23763650 GTCCGACCGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.27, G:0.35, T:0.24
Consensus pattern (27 bp):
GACACACGGCCTGTCTCATGGCCATGT
Found at i:23768578 original size:5 final size:5
Alignment explanation
Indices: 23768568--23768599 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
23768558 GAGTCAAAAA
23768568 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
23768600 GGTTGGCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:23769839 original size:57 final size:58
Alignment explanation
Indices: 23769703--23769857 Score: 161
Period size: 57 Copynumber: 2.7 Consensus size: 58
23769693 GAATAATAGT
* * * * *
23769703 GCATATGTTACAGATAGAATTTAGCACGGACGAGTAATTCTAATGTAAGCCCTCTTGA
1 GCATATGTTATAGATAGGATTTAGCACGGACGGGTAATCCAAATGTAAGCCCTCTTGA
* * * * *
23769761 GCTTAGGTTATAAATTA-GATTTAGCCCGGACGGGTAATCCAAAT-TAAGCTCTCTTGA
1 GCATATGTTATAGA-TAGGATTTAGCACGGACGGGTAATCCAAATGTAAGCCCTCTTGA
* ** *
23769818 GCATATGCTATAGATAGGATTTAGCTTGGACTGGTAATCC
1 GCATATGTTATAGATAGGATTTAGCACGGACGGGTAATCC
23769858 TACTGTAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
56 2 0.03
57 42 0.54
58 32 0.41
59 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (58 bp):
GCATATGTTATAGATAGGATTTAGCACGGACGGGTAATCCAAATGTAAGCCCTCTTGA
Found at i:23772885 original size:30 final size:30
Alignment explanation
Indices: 23772849--23772907 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
23772839 CATATCTGAA
23772849 GCTACAAAACTCAAAATTTAGTTTCGTTAT
1 GCTACAAAACTCAAAATTTAGTTTCGTTAT
* *
23772879 GCTACAAAACTCCAAATTTAGTTTTGTTA
1 GCTACAAAACTCAAAATTTAGTTTCGTTA
23772908 ATATTTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (30 bp):
GCTACAAAACTCAAAATTTAGTTTCGTTAT
Found at i:23780072 original size:46 final size:46
Alignment explanation
Indices: 23780019--23780120 Score: 204
Period size: 46 Copynumber: 2.2 Consensus size: 46
23780009 ATATGATCAT
23780019 ACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 ACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
23780065 ACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 ACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
23780111 ACGAGTTCGG
1 ACGAGTTCGG
23780121 ATGCCCAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (46 bp):
ACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
Found at i:23784640 original size:14 final size:14
Alignment explanation
Indices: 23784621--23784648 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23784611 TGAACTACAT
23784621 AAACAATATAATGA
1 AAACAATATAATGA
23784635 AAACAATATAATGA
1 AAACAATATAATGA
23784649 TTTTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AAACAATATAATGA
Found at i:23784886 original size:9 final size:9
Alignment explanation
Indices: 23784874--23784900 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23784864 ATAACTTGAT
23784874 TAACTCAAA
1 TAACTCAAA
23784883 TAACTCAAA
1 TAACTCAAA
23784892 TAACTCAAA
1 TAACTCAAA
23784901 CTATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
TAACTCAAA
Found at i:23788895 original size:20 final size:20
Alignment explanation
Indices: 23788870--23788910 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23788860 ATAACACATT
23788870 CATGGTGGGCGGCTTACTCC
1 CATGGTGGGCGGCTTACTCC
23788890 CATGGTGGGCGGCTTACTCC
1 CATGGTGGGCGGCTTACTCC
23788910 C
1 C
23788911 CTAAAGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
CATGGTGGGCGGCTTACTCC
Found at i:23790998 original size:47 final size:47
Alignment explanation
Indices: 23790944--23791038 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
23790934 TTTTTTTTTA
*
23790944 TCATGAGTGTTTTTTAAACGGTAAATGATTAGTTATAAAATGTATTT
1 TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
23790991 TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
1 TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
23791038 T
1 T
23791039 ATTTTTATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (47 bp):
TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
Found at i:23791095 original size:51 final size:51
Alignment explanation
Indices: 23791037--23791139 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
23791027 AAAATGTATT
* * *
23791037 TTATTTTTATGAGTGGGGTTTGAAGTCCTATCCTATAATTAAGAAATAAGG
1 TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
23791088 TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
1 TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
23791139 T
1 T
23791140 AAGTATCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (51 bp):
TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
Found at i:23795507 original size:47 final size:47
Alignment explanation
Indices: 23795448--23795577 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
23795438 AAAAGCTGCT
* **
23795448 AATACGTTGTGGATGAACCACTAGTCGAGCAGATGACCGTTGACTAA
1 AATACGTTGTGGATAAACCACTAGTCGAGCAGATGACCGCCGACTAA
* * * * *
23795495 AATATGTTGTGGATAAACCACTGGTCGAACAGATGACTGCCGACTAG
1 AATACGTTGTGGATAAACCACTAGTCGAGCAGATGACCGCCGACTAA
* *
23795542 AATACGTTGTGGATAAACCATTAGTCGAGTAGATGA
1 AATACGTTGTGGATAAACCACTAGTCGAGCAGATGA
23795578 ATTACCGACT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (47 bp):
AATACGTTGTGGATAAACCACTAGTCGAGCAGATGACCGCCGACTAA
Found at i:23798029 original size:31 final size:30
Alignment explanation
Indices: 23797965--23798029 Score: 71
Period size: 30 Copynumber: 2.1 Consensus size: 30
23797955 TCATTTTAAA
* *
23797965 ATATTGATTCTAAATATAAAAAAGCTATTT
1 ATATTGATTCTAAATATAAAAAAGATATAT
23797995 ATATTGATTTCTAAA-ATAAATAAA-ATATCAT
1 ATATTGA-TTCTAAATATAAA-AAAGATAT-AT
23798026 ATAT
1 ATAT
23798030 AATGATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (30 bp):
ATATTGATTCTAAATATAAAAAAGATATAT
Found at i:23800688 original size:24 final size:24
Alignment explanation
Indices: 23800661--23800715 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
23800651 ATGTGAGTAA
*
23800661 GTATGCGAA-ACTTTAGGTAAATAT
1 GTATGCGAACAC-TTAGGTAAATAG
* *
23800685 GTATGCGAACACTTATGTACATAG
1 GTATGCGAACACTTAGGTAAATAG
23800709 GTATGCG
1 GTATGCG
23800716 GATTCTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (24 bp):
GTATGCGAACACTTAGGTAAATAG
Found at i:23800878 original size:13 final size:13
Alignment explanation
Indices: 23800856--23800939 Score: 78
Period size: 13 Copynumber: 6.5 Consensus size: 13
23800846 ATTTAGTACA
23800856 CAAACCCTATATG
1 CAAACCCTATATG
*
23800869 CAAACTCTATATG
1 CAAACCCTATATG
**
23800882 TGAACCCTATATG
1 CAAACCCTATATG
** *
23800895 TGAACCGTATATG
1 CAAACCCTATATG
* *
23800908 CGAACCCTATGTG
1 CAAACCCTATATG
**
23800921 TGAACCCTATATG
1 CAAACCCTATATG
23800934 CAAACC
1 CAAACC
23800940 TGTTATGTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 59 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (13 bp):
CAAACCCTATATG
Found at i:23800908 original size:39 final size:39
Alignment explanation
Indices: 23800858--23800933 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
23800848 TTAGTACACA
*
23800858 AACCCTATATGCAAACTCTATATGTGAACCCTATATGTG
1 AACCCTATATGCAAACCCTATATGTGAACCCTATATGTG
* * *
23800897 AACCGTATATGCGAACCCTATGTGTGAACCCTATATG
1 AACCCTATATGCAAACCCTATATGTGAACCCTATATG
23800934 CAAACCTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (39 bp):
AACCCTATATGCAAACCCTATATGTGAACCCTATATGTG
Found at i:23800922 original size:26 final size:26
Alignment explanation
Indices: 23800858--23800939 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
23800848 TTAGTACACA
** * *
23800858 AACCCTATATGCAAACTCTATATGTG
1 AACCCTATATGTGAACCCTATATGCG
*
23800884 AACCCTATATGTGAACCGTATATGCG
1 AACCCTATATGTGAACCCTATATGCG
* *
23800910 AACCCTATGTGTGAACCCTATATGCA
1 AACCCTATATGTGAACCCTATATGCG
23800936 AACC
1 AACC
23800940 TGTTATGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (26 bp):
AACCCTATATGTGAACCCTATATGCG
Found at i:23807931 original size:38 final size:38
Alignment explanation
Indices: 23807867--23807941 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
23807857 AATCCGAGTT
*
23807867 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
23807905 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
23807942 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Done.