Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 143 of 433
Found at i:44087395 original size:30 final size:30
Alignment explanation
Indices: 44087361--44087420 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44087351 ACTTAACAAG
*
44087361 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
44087391 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
44087421 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:44089136 original size:92 final size:92
Alignment explanation
Indices: 44089033--44089217 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
44089023 ATTTTTAATT
44089033 TCTTAATAAATTATGTATAAGCATGCAAATGTATTAATACGTAAATATAAGTTTTAAAGTTATTA
1 TCTTAATAAATTATGTATAAGCATGCAAATGTATTAATACGTAAATATAAGTTTTAAAGTTATTA
44089098 GTTCTATTCAATAAATTAATTTAATAA
66 GTTCTATTCAATAAATTAATTTAATAA
44089125 TCTTAATAAATTATGTATAAGCATGCAAATGTATTAATACGTAAATATAAGTTTTAAAGTTATTA
1 TCTTAATAAATTATGTATAAGCATGCAAATGTATTAATACGTAAATATAAGTTTTAAAGTTATTA
44089190 GTTCTATTCAATAAATTAATTTAATAA
66 GTTCTATTCAATAAATTAATTTAATAA
44089217 T
1 T
44089218 GCATATTAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (92 bp):
TCTTAATAAATTATGTATAAGCATGCAAATGTATTAATACGTAAATATAAGTTTTAAAGTTATTA
GTTCTATTCAATAAATTAATTTAATAA
Found at i:44098026 original size:37 final size:37
Alignment explanation
Indices: 44097976--44098050 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
44097966 ATTTCCTGCT
*
44097976 TCTACTACTCAGTATACTTGTTCTTTTGAGTTAGTTG
1 TCTACTACTCAGTATACTTGTTCCTTTGAGTTAGTTG
44098013 TCTACTACTCAGTATACTTGTTCCTTTGAGTTAGTTG
1 TCTACTACTCAGTATACTTGTTCCTTTGAGTTAGTTG
44098050 T
1 T
44098051 GTTAGATTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (37 bp):
TCTACTACTCAGTATACTTGTTCCTTTGAGTTAGTTG
Found at i:44102355 original size:40 final size:40
Alignment explanation
Indices: 44102265--44102485 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
44102255 ACCTAAGTAT
* ** * *
44102265 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
44102303 CTTTGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
44102343 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * * *
44102383 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44102423 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
44102464 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44102486 CATTCGAATA
Statistics
Matches: 148, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
38 10 0.07
39 17 0.11
40 92 0.62
41 26 0.18
42 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44106209 original size:40 final size:40
Alignment explanation
Indices: 44106150--44106357 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
44106140 CAATTGAATG
* * * *
44106150 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
44106190 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
44106230 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
44106270 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44106310 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
44106350 ATATCCGG
1 ATATCCGG
44106358 TTGTTTTCCG
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:44106288 original size:80 final size:80
Alignment explanation
Indices: 44106151--44106357 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
44106141 AATTGAATGA
* * ** * * *
44106151 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
44106216 TTGTGCTAGT-GATTAC
66 TTGTGCAAGTCG-TT-C
* * * *
44106232 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
44106296 TTGTGCAAGTCGTTC
66 TTGTGCAAGTCGTTC
* *
44106311 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
44106358 TTGTTTTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 107 0.98
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTTC
Found at i:44114337 original size:40 final size:40
Alignment explanation
Indices: 44114195--44114430 Score: 190
Period size: 40 Copynumber: 6.2 Consensus size: 40
44114185 ATTGAATGAT
* * ** * **
44114195 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT-A
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * *
44114234 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TTAA
*
44114274 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
*
44114314 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTCG-T--
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * **
44114351 -T-----CTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * *
44114385 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
44114425 ATCCGG
1 ATCCGG
44114431 TTGTTTCCGA
Statistics
Matches: 164, Mismatches: 19, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
31 28 0.17
32 1 0.01
35 1 0.01
36 1 0.01
39 31 0.19
40 101 0.62
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:44114359 original size:31 final size:31
Alignment explanation
Indices: 44114321--44114385 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
44114311 TAAATCCGGG
44114321 CTAATACCCGAAGGCATTCGTGCAAGTCGTT
1 CTAATACCCGAAGGCATTCGTGCAAGTCGTT
*
44114352 CTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 CTAATACCCGAAGGCATTCGTGCAAGTCGTT
44114383 CTA
1 CTA
44114386 TCCGGGCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (31 bp):
CTAATACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:44114402 original size:71 final size:71
Alignment explanation
Indices: 44114281--44114415 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
44114271 TACATCCGGG
* *
44114281 CTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTCGTGCAA
1 CTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAA
44114346 GTCGTT
66 GTCGTT
* * **
44114352 CTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 CTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCA
44114416 TGTGGTTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (71 bp):
CTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAA
GTCGTT
Found at i:44121820 original size:41 final size:40
Alignment explanation
Indices: 44121657--44121837 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
44121647 ACTTAAGTAT
* ** * *
44121657 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
44121695 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
44121735 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * *
44121775 CTTCGGGTTTTGGCCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATGC
44121816 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44121838 CATTCGAATA
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
38 11 0.09
39 15 0.12
40 64 0.53
41 30 0.25
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44121834 original size:81 final size:79
Alignment explanation
Indices: 44121657--44121837 Score: 238
Period size: 81 Copynumber: 2.3 Consensus size: 79
44121647 ACTTAAGTAT
* * *
44121657 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTC
* *
44121721 ACTAGCATAAATGC
66 ACTAGCACAAAAGC
** * * * *
44121735 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTGGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATAGT
44121800 CACTTAGCACAAAAGC
65 CAC-TAGCACAAAAGC
44121816 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44121838 CATTCGAATA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 12 0.13
79 16 0.18
80 29 0.33
81 32 0.36
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTC
ACTAGCACAAAAGC
Found at i:44124259 original size:29 final size:30
Alignment explanation
Indices: 44124204--44124261 Score: 100
Period size: 29 Copynumber: 1.9 Consensus size: 30
44124194 AATAGATGAT
44124204 TAAATAAGTTATTTTTTTTATTATATTTAGA
1 TAAATAAGTTA-TTTTTTTATTATATTTAGA
44124235 TAAATAAGTTA-TTTTTTATTATATTTA
1 TAAATAAGTTATTTTTTTATTATATTTA
44124262 AATCAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 16 0.59
31 11 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TAAATAAGTTATTTTTTTATTATATTTAGA
Found at i:44124500 original size:40 final size:40
Alignment explanation
Indices: 44124455--44124640 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
44124445 GATTCGGATA
*
44124455 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * * *
44124495 TATATATGGCATTTAGTGTGCGATTCGAAATAACTTCAGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * * *
44124535 TATATATGGTACTTAGTGTGCGAGATCGAGATAGCTTTGTC
1 TATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGGC
* * **
44124576 TATGTAAGGCACTTAGTGTGCAAGATTATA-ATAGCTTCGGC
1 TATATATGGCACTTAGTGTGC--GATTCGAGATAGCTTCGGC
* *
44124617 TATGTATTGGCACTTAATGTGCGA
1 TATATA-TGGCACTTAGTGTGCGA
44124641 GATATCGAGT
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
40 58 0.49
41 44 0.37
42 15 0.13
43 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
Found at i:44131714 original size:71 final size:71
Alignment explanation
Indices: 44131630--44131793 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44131620 CGATTTGTCT
44131630 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44131695 CTTTCA
66 CTTTCA
44131701 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44131766 CTTTCA
66 CTTTCA
44131772 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
44131794 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:44139229 original size:71 final size:71
Alignment explanation
Indices: 44139143--44139306 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44139133 CGATTTGTCT
44139143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44139208 CTTTCA
66 CTTTCA
44139214 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44139279 CTTTCA
66 CTTTCA
44139285 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
44139307 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:44144500 original size:71 final size:71
Alignment explanation
Indices: 44144416--44144579 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44144406 CGATTTGTCT
44144416 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44144481 CTTTCA
66 CTTTCA
44144487 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44144552 CTTTCA
66 CTTTCA
44144558 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
44144580 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:44152067 original size:71 final size:71
Alignment explanation
Indices: 44151983--44152146 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44151973 CGATTTGTCT
44151983 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44152048 CTTTCA
66 CTTTCA
44152054 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
44152119 CTTTCA
66 CTTTCA
44152125 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
44152147 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:44152184 original size:71 final size:70
Alignment explanation
Indices: 44151983--44152180 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
44151973 CGATTTGTCT
* * * *
44151983 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
44152048 CTTTCA
65 CTTTCA
* * * *
44152054 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
44152119 CTTTCA
65 CTTTCA
* *
44152125 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
44152181 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:44164686 original size:13 final size:13
Alignment explanation
Indices: 44164668--44164701 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
44164658 CTGAGCACAC
44164668 GCCCGTGTTCTTG
1 GCCCGTGTTCTTG
44164681 GCCCGTGTTCTTG
1 GCCCGTGTTCTTG
44164694 GCCCGTGT
1 GCCCGTGT
44164702 CCCTCACCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.35
Consensus pattern (13 bp):
GCCCGTGTTCTTG
Found at i:44168113 original size:50 final size:52
Alignment explanation
Indices: 44168027--44168125 Score: 175
Period size: 50 Copynumber: 1.9 Consensus size: 52
44168017 ATGCATGACT
*
44168027 TAATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGTTA
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATGTTA
44168079 TAATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCATG
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATG
44168126 ACTTTATTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 29 0.63
51 11 0.24
52 6 0.13
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (52 bp):
TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATGTTA
Found at i:44169880 original size:18 final size:18
Alignment explanation
Indices: 44169859--44169895 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44169849 CAAGCTCACA
44169859 TTCTCTTTCAGTCTCTTT
1 TTCTCTTTCAGTCTCTTT
* *
44169877 TTCTTTTTCATTCTCTTT
1 TTCTCTTTCAGTCTCTTT
44169895 T
1 T
44169896 CTCATAGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (18 bp):
TTCTCTTTCAGTCTCTTT
Found at i:44170031 original size:12 final size:13
Alignment explanation
Indices: 44170009--44170054 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
44169999 CTTCTCTCTC
44170009 TTTCTTCATTTTT
1 TTTCTTCATTTTT
44170022 TTTC-TCATTTTT
1 TTTCTTCATTTTT
*
44170034 TCTTCTTCAATTTCT
1 T-TTCTTC-ATTTTT
44170049 TTTCTT
1 TTTCTT
44170055 TTTCTCTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.31
13 7 0.24
14 7 0.24
15 6 0.21
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTCATTTTT
Found at i:44170965 original size:20 final size:20
Alignment explanation
Indices: 44170936--44170985 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
44170926 ATTTTTTTTC
44170936 AATT-TTTTTTCAACTTCAA
1 AATTCTTTTTTCAACTTCAA
44170955 AATTCTTTTTTCAACTTCAA
1 AATTCTTTTTTCAACTTCAA
*
44170975 ATTTCTTTTTT
1 AATTCTTTTTT
44170986 TTTTTCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTCTTTTTTCAACTTCAA
Found at i:44175506 original size:52 final size:51
Alignment explanation
Indices: 44175377--44175508 Score: 194
Period size: 50 Copynumber: 2.6 Consensus size: 51
44175367 ATTTGTTCTG
* * *
44175377 CATTTAATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* *
44175428 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
*
44175479 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
44175509 ATTTTTTGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 33 0.46
51 14 0.20
52 24 0.34
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:44177141 original size:50 final size:52
Alignment explanation
Indices: 44177031--44177149 Score: 188
Period size: 50 Copynumber: 2.3 Consensus size: 52
44177021 ATGCACAAAT
* * *
44177031 GAGTTACTTAATGCATGGCTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGGCATAATTTAATGATGCAAACTTTAACTAACATGA
*
44177083 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGGCATAATTTAATGATGCAAACTTTAACTAACATGA
44177133 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
44177150 ACTTTATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 29 0.46
51 11 0.17
52 23 0.37
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGGCATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:44178476 original size:30 final size:30
Alignment explanation
Indices: 44178442--44178529 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
44178432 TAGGTATTTT
**
44178442 CACACGGGTAAACCACACGCCTTTGTGTGA
1 CACACGGGTAAACCACACGCCCGTGTGTGA
**
44178472 CACACGGGTAGGCCACACGCCCGTGTGTGA
1 CACACGGGTAAACCACACGCCCGTGTGTGA
** * * * *
44178502 TGCATGGGCAAGCCACACGCCCATGTGT
1 CACACGGGTAAACCACACGCCCGTGTGT
44178530 CATGGCCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (30 bp):
CACACGGGTAAACCACACGCCCGTGTGTGA
Found at i:44180710 original size:48 final size:48
Alignment explanation
Indices: 44180546--44180866 Score: 223
Period size: 48 Copynumber: 6.7 Consensus size: 48
44180536 TTATGAGAGC
* * * *
44180546 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACG-AGA-CG-TGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATATAGATAT
* * * * * * *
44180590 CAATGTAAGACCATGTCTGGGACACGACATTGGCACGTATAAAGGTTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATATAGATAT
*
44180638 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATATAGCTAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATATAGATAT
* * * * * *
44180686 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGAATATGTGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAT-AGATAT
* * * * *
44180735 CTGGTGTAAGACCATGTCTGGGACATAGCATCAGC-C-TCAATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT--ATATAGATA-T
* * * *
44180785 CAGTGTAAGACCATATTTGGGACATGGCATC-G-AC-T-TGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-ATAGAT-A-T
* *
44180832 CAGTGTAAGACCATGCCTGGGACATGGCATTGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
44180867 TCATGCCTTA
Statistics
Matches: 220, Mismatches: 42, Indels: 25
0.77 0.15 0.09
Matches are distributed among these distances:
44 9 0.04
45 16 0.07
46 12 0.05
47 30 0.14
48 86 0.39
49 35 0.16
50 32 0.15
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATATAGATAT
Found at i:44188501 original size:49 final size:50
Alignment explanation
Indices: 44188378--44188507 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 50
44188368 ATAGAGGTGT
*
44188378 TAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTAAGAGC
* * * *
44188428 TAGTGTAAGGCCATGTCTGGGACATGGCGTCGACCTCA-AT-T-TCAATAG-
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-AGATATGT-AAGAGC
44188476 TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATC
44188508 AGCGTCATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
48 2 0.03
49 32 0.46
50 35 0.50
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTAAGAGC
Found at i:44190266 original size:62 final size:62
Alignment explanation
Indices: 44190169--44190287 Score: 229
Period size: 62 Copynumber: 1.9 Consensus size: 62
44190159 AGGTTATTAA
*
44190169 ACCATTCATTATCTCCTAGTATTTAATCCATACATCTTCATACATTCACCAAGCAATGGAAT
1 ACCATTCACTATCTCCTAGTATTTAATCCATACATCTTCATACATTCACCAAGCAATGGAAT
44190231 ACCATTCACTATCTCCTAGTATTTAATCCATACATCTTCATACATTCACCAAGCAAT
1 ACCATTCACTATCTCCTAGTATTTAATCCATACATCTTCATACATTCACCAAGCAAT
44190288 CATATTCCAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (62 bp):
ACCATTCACTATCTCCTAGTATTTAATCCATACATCTTCATACATTCACCAAGCAATGGAAT
Found at i:44190784 original size:2 final size:2
Alignment explanation
Indices: 44190777--44190803 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44190767 ATCAAGTATC
44190777 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
44190804 GTATGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44193370 original size:20 final size:20
Alignment explanation
Indices: 44193347--44193394 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
44193337 CTTAATAAAT
*
44193347 AAATAAATAAATTAA-AATTA
1 AAATAAATAAAATAATAA-TA
44193367 AAATTAAA-AAAATAATAATA
1 AAA-TAAATAAAATAATAATA
44193387 AAATAAAT
1 AAATAAAT
44193395 GGACTCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAAATAAAATAATAATA
Found at i:44201296 original size:21 final size:21
Alignment explanation
Indices: 44201270--44201313 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44201260 ATATAGCTAG
44201270 AAATGGGTAGATCATGCTTCA
1 AAATGGGTAGATCATGCTTCA
*
44201291 AAATGGGTAGATCGTGCTTCA
1 AAATGGGTAGATCATGCTTCA
44201312 AA
1 AA
44201314 GACTTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (21 bp):
AAATGGGTAGATCATGCTTCA
Found at i:44202194 original size:2 final size:2
Alignment explanation
Indices: 44202187--44202223 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
44202177 CACAACTAAC
44202187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44202224 TATTTGCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44205777 original size:20 final size:21
Alignment explanation
Indices: 44205752--44205791 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44205742 TTAAATTTAT
44205752 TTATTT-AAAATAAATTAAAG
1 TTATTTAAAAATAAATTAAAG
*
44205772 TTATTTAAAAATAGATTAAA
1 TTATTTAAAAATAAATTAAA
44205792 TTGTGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTATTTAAAAATAAATTAAAG
Found at i:44207714 original size:21 final size:21
Alignment explanation
Indices: 44207681--44207722 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44207671 TCTTCTTCTT
* *
44207681 TTTTTTTTTATATCATATTTA
1 TTTTCTTTAATATCATATTTA
44207702 TTTTCTTTAATATCATATTTA
1 TTTTCTTTAATATCATATTTA
44207723 ACGATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCTTTAATATCATATTTA
Found at i:44212105 original size:11 final size:11
Alignment explanation
Indices: 44212089--44212118 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44212079 TTAAATTGTA
44212089 ATAATTATATT
1 ATAATTATATT
44212100 ATAATTATATT
1 ATAATTATATT
44212111 AT-ATTATA
1 ATAATTATA
44212119 CTATGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAATTATATT
Found at i:44212539 original size:3 final size:3
Alignment explanation
Indices: 44212531--44212559 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44212521 AAATAGATAT
44212531 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44212560 GTTAACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44213045 original size:11 final size:11
Alignment explanation
Indices: 44213029--44213053 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44213019 GAATTTAAGG
44213029 TAGAAATTGAA
1 TAGAAATTGAA
44213040 TAGAAATTGAA
1 TAGAAATTGAA
44213051 TAG
1 TAG
44213054 GAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:44214290 original size:12 final size:12
Alignment explanation
Indices: 44214267--44214297 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
44214257 TATTAGAAAG
44214267 TGAAATTATGAAT
1 TGAAA-TATGAAT
44214280 TGAAATATGAAT
1 TGAAATATGAAT
44214292 TGAAAT
1 TGAAAT
44214298 TGAGATATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:44214321 original size:26 final size:25
Alignment explanation
Indices: 44214264--44214322 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
44214254 AAGTATTAGA
* *
44214264 AAGTGAAATTATGAATTGAAATATG
1 AAGTGAAATTATGAATCGAAATAAG
*
44214289 AATTGAAATTGA-GATATCGAAATAAG
1 AAGTGAAATT-ATGA-ATCGAAATAAG
44214315 AAGTGAAA
1 AAGTGAAA
44214323 ATAGAATGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (25 bp):
AAGTGAAATTATGAATCGAAATAAG
Found at i:44221997 original size:28 final size:28
Alignment explanation
Indices: 44221928--44222028 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44221918 GACAAGATTG
* * * *
44221928 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44221958 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44221986 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44222015 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44222029 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44222022 original size:29 final size:28
Alignment explanation
Indices: 44221957--44222028 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
44221947 AAAATTGTAC
*
44221957 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
44221985 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
44222014 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44222029 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:44229670 original size:28 final size:28
Alignment explanation
Indices: 44229601--44229701 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44229591 GACAAGATTG
* * * *
44229601 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44229631 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44229659 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44229688 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44229702 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44229695 original size:29 final size:28
Alignment explanation
Indices: 44229630--44229701 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
44229620 AAAATTGTAC
*
44229630 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
44229658 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
44229687 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44229702 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:44233645 original size:28 final size:28
Alignment explanation
Indices: 44233576--44233676 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44233566 GACAAGATTG
* * * *
44233576 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44233606 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44233634 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44233663 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44233677 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44233670 original size:29 final size:28
Alignment explanation
Indices: 44233605--44233676 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
44233595 AAAATTGTAC
*
44233605 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
44233633 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
44233662 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44233677 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:44243397 original size:15 final size:17
Alignment explanation
Indices: 44243379--44243410 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44243369 TAGCATGTTT
44243379 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
44243394 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
44243411 CAAGTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:44248104 original size:40 final size:40
Alignment explanation
Indices: 44248019--44248169 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
44248009 AATTGAATGA
* * *
44248019 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
44248059 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
44248100 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
44248139 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44248170 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:44248183 original size:40 final size:40
Alignment explanation
Indices: 44248055--44248185 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
44248045 TATGCTGGAA
* * *
44248055 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
44248095 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
44248135 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
44248175 ATTATATCCGG
1 ATTATATCCGG
44248186 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:44256095 original size:40 final size:40
Alignment explanation
Indices: 44256029--44256179 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
44256019 AAATTGAATG
* * *
44256029 ATATCCGGGCTAA-ATCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
44256068 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
44256108 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
44256148 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44256180 ACGTGATTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:44256193 original size:40 final size:40
Alignment explanation
Indices: 44256065--44256195 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
44256055 TATGCTGGAA
* * *
44256065 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
44256105 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
44256145 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
44256185 ATTATATCCGG
1 ATTATATCCGG
44256196 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:44262879 original size:43 final size:44
Alignment explanation
Indices: 44262789--44262943 Score: 142
Period size: 43 Copynumber: 3.6 Consensus size: 44
44262779 ACAGAGATGT
* * *
44262789 GATTACATGTAAGACCAGGTCTAGGACATTGGCAT-TGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAATGA
* *
44262832 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATC-TGTAATGA
* * * * *
44262875 GATTACCTGTAAGACCCTATCTGGGACAGTGGCATC-G-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTA-ATGA
*
44262918 GA-TAGCATGTAAGACCATATCTGGGA
1 GATTA-CATGTAAGACCATGTCTGGGA
44262944 TACGGCATTG
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 85 0.90
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAATGA
Found at i:44275561 original size:34 final size:34
Alignment explanation
Indices: 44275523--44275592 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
44275513 ACTATTTCGA
*
44275523 TAGCTAGTGTTAGGAGTTCGAGACTTAACTAACT
1 TAGCTAGTGTTAGGAGTGCGAGACTTAACTAACT
44275557 TAGCTAGTGTTAGGAGTGCGAGACTTAACTAACT
1 TAGCTAGTGTTAGGAGTGCGAGACTTAACTAACT
44275591 TA
1 TA
44275593 AATGTAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (34 bp):
TAGCTAGTGTTAGGAGTGCGAGACTTAACTAACT
Found at i:44280570 original size:43 final size:43
Alignment explanation
Indices: 44280466--44280574 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
44280456 TTAGGTTACA
* *
44280466 GATATGTGATTACGTGTAAGACCGTGTCTGGGACATTGGAATC
1 GATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGAATC
* * *
44280509 GTTAAT-CGATTACGTGTAAGACCCTG-CTTGGGACAGTGGCATC
1 GAT-ATGTGATTACGTGTAAGACCCTGTC-TGGGACAGTGGAATC
* *
44280552 GATATGTGATAACATGTAAGACC
1 GATATGTGATTACGTGTAAGACC
44280575 ATATCTAGGA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.06
43 49 0.91
44 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGAATC
Found at i:44285177 original size:18 final size:18
Alignment explanation
Indices: 44285150--44285189 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
44285140 GGAGATATCT
*
44285150 CTTTCAAAACTGTTTTCA
1 CTTTCAAAACTATTTTCA
*
44285168 CTTTCCAAACTATTTTCA
1 CTTTCAAAACTATTTTCA
44285186 -TTTC
1 CTTTC
44285190 TGTAAGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (18 bp):
CTTTCAAAACTATTTTCA
Found at i:44287772 original size:27 final size:27
Alignment explanation
Indices: 44287742--44288027 Score: 425
Period size: 27 Copynumber: 10.7 Consensus size: 27
44287732 GTATTTTGGG
* *
44287742 CATTTTATCACATAAGGGAAAAATTGT
1 CATTTTATCACATAAGGGCAAAATCGT
* *
44287769 CATTTTATCACATATGGG-AAAATTGT
1 CATTTTATCACATAAGGGCAAAATCGT
* *
44287795 CATTTTATCACATATGGGCAAAATCAT
1 CATTTTATCACATAAGGGCAAAATCGT
44287822 CATTTTATCACATAAGGGCAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
*
44287849 CATTTTATCACATAAGGG-AAAATTCTT
1 CATTTTATCACATAAGGGCAAAA-TCGT
44287876 CATTTTATCACATAAGGGCAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
**
44287903 CATTTTATCACATAA-ACCAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
*
44287929 CATTTTATCACATAAGGGCAAAATCAT
1 CATTTTATCACATAAGGGCAAAATCGT
44287956 CATTTTATCACATAAGGGCAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
* *
44287983 CATTTTATCACATGAGGGAAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
*
44288010 CATTTTGTCACATAAGGG
1 CATTTTATCACATAAGGG
44288028 TTCCGGTATG
Statistics
Matches: 238, Mismatches: 17, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
26 54 0.23
27 180 0.76
28 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (27 bp):
CATTTTATCACATAAGGGCAAAATCGT
Found at i:44287924 original size:107 final size:107
Alignment explanation
Indices: 44287742--44288024 Score: 419
Period size: 107 Copynumber: 2.6 Consensus size: 107
44287732 GTATTTTGGG
* *
44287742 CATTTTATCACATAAGGGAAAAATT-GTCATTTTATCACATATGGGAAAATTGTCATTTTATCAC
1 CATTTTATCACATAAGGGAAAAATTCGTCATTTTATCACATAAGGGAAAATCGTCATTTTATCAC
*** *
44287806 ATATGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGT
66 ATA-AACCAAAATCATCATTTTATCACATAAGGGCAAAATCAT
*
44287849 CATTTTATCACATAAGGG-AAAATTCTTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCA
1 CATTTTATCACATAAGGGAAAAATTCGTCATTTTATCACATAAGGG-AAAATCGTCATTTTATCA
*
44287913 CATAAACCAAAATCGTCATTTTATCACATAAGGGCAAAATCAT
65 CATAAACCAAAATCATCATTTTATCACATAAGGGCAAAATCAT
* * *
44287956 CATTTTATCACATAAGGGCAAAA-TCGTCATTTTATCACATGAGGGAAAAATCGTCATTTTGTCA
1 CATTTTATCACATAAGGGAAAAATTCGTCATTTTATCACATAAGGG-AAAATCGTCATTTTATCA
44288020 CATAA
65 CATAA
44288025 GGGTTCCGGT
Statistics
Matches: 161, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
106 6 0.04
107 130 0.81
108 25 0.16
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (107 bp):
CATTTTATCACATAAGGGAAAAATTCGTCATTTTATCACATAAGGGAAAATCGTCATTTTATCAC
ATAAACCAAAATCATCATTTTATCACATAAGGGCAAAATCAT
Found at i:44287925 original size:134 final size:134
Alignment explanation
Indices: 44287742--44288027 Score: 464
Period size: 134 Copynumber: 2.1 Consensus size: 134
44287732 GTATTTTGGG
* **** *
44287742 CATTTTATCACATAAGGGAAAAATTGTCATTTTATCACATATGGGAAAATTGTCATTTTATCACA
1 CATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATAAACCAAAATCGTCATTTTATCACA
* *
44287807 TATGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAAAT
66 TAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAAAA
*
44287872 TCTT
131 TCGT
*
44287876 CATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAACCAAAATCGTCATTTTATCACA
1 CATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATAAACCAAAATCGTCATTTTATCACA
*
44287941 TAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATGAGGGAAAAA
66 TAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAAAA
44288006 TCGT
131 TCGT
*
44288010 CATTTTGTCACATAAGGG
1 CATTTTATCACATAAGGG
44288028 TTCCGGTATG
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 140 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (134 bp):
CATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATAAACCAAAATCGTCATTTTATCACA
TAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAAAA
TCGT
Found at i:44295185 original size:17 final size:18
Alignment explanation
Indices: 44295158--44295191 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44295148 AATTAAATAT
44295158 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
44295176 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
44295192 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:44306405 original size:42 final size:42
Alignment explanation
Indices: 44306338--44306464 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 42
44306328 AGGGTTACTA
* *
44306338 AGATTACGTGCAAGGCCATATCTGGGATATGACATCGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATGACATCGATATG
* * * * *
44306380 AGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATCAATACG
1 AGA-TTACGTGTAAGACCATATCTGGGATA-TGACATCGATATG
* * *
44306423 AGATTACATGTAAGACCATATCTAGGATATGACATTGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATGACATCGATATG
44306465 GTACTGTGTG
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGACATCGATATG
Found at i:44315017 original size:28 final size:28
Alignment explanation
Indices: 44314971--44315039 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
44314961 TTTAAAACCC
*
44314971 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
44314998 TATGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
44315026 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
44315040 TGATCTACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 6 0.16
28 32 0.84
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:44315690 original size:27 final size:27
Alignment explanation
Indices: 44315660--44315721 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
44315650 GGGCAAAATG
44315660 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
44315687 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
44315714 GTAATTTT
1 GTAATTTT
44315722 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:44315734 original size:27 final size:27
Alignment explanation
Indices: 44315704--44315828 Score: 171
Period size: 27 Copynumber: 4.6 Consensus size: 27
44315694 TACCCTACAG
* *
44315704 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
44315731 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
44315758 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
44315785 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
44315812 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
44315829 GTAAATTGAG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 84 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:44315735 original size:54 final size:54
Alignment explanation
Indices: 44315677--44315828 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
44315667 TACCCCACAA
** * * *
44315677 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
44315731 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
44315785 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTT
44315829 GTAAATTGAG
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 84 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:44315793 original size:81 final size:81
Alignment explanation
Indices: 44315675--44315828 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
44315665 TTTACCCCAC
** *
44315675 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
44315739 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
44315756 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
44315820 TGGTAATTT
65 TGGTAATTT
44315829 GTAAATTGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:44319766 original size:27 final size:27
Alignment explanation
Indices: 44319736--44319797 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
44319726 GGGCAAAATG
44319736 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
44319763 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
44319790 GTAATTTT
1 GTAATTTT
44319798 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:44319811 original size:54 final size:54
Alignment explanation
Indices: 44319753--44319903 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
44319743 TACCCCACAA
** * * *
44319753 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
44319807 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * *
44319861 GGGTATTTTGGTGATTTTATAAAC-AAGGGTATTTTGGTAATTT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTT
44319904 GTAAATTGAG
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 20 0.23
54 66 0.77
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:44319869 original size:81 final size:80
Alignment explanation
Indices: 44319751--44319903 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 80
44319741 TTTACCCCAC
** *
44319751 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAA-CAAGGGTATTT
44319815 TGGTAATTTTATAAACA
64 TGGTAATTTTATAAACA
* * *
44319832 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACAAGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACAAGGGTATTTT
44319896 GGTAATTT
65 GGTAATTT
44319904 GTAAATTGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 21 0.33
81 42 0.66
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (80 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACAAGGGTATTTTG
GTAATTTTATAAACA
Found at i:44319897 original size:26 final size:27
Alignment explanation
Indices: 44319780--44319903 Score: 162
Period size: 27 Copynumber: 4.6 Consensus size: 27
44319770 TACCCTACAG
* *
44319780 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
44319807 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
44319834 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
44319861 GGGTATTTTGGTGATTTTATAAA-CAA
1 GGGTATTTTGGTAATTTTATAAACCAA
44319887 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
44319904 GTAAATTGAG
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 18 0.21
27 65 0.77
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:44332814 original size:54 final size:55
Alignment explanation
Indices: 44332694--44332820 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 55
44332684 GGCAATCCTG
* * * *
44332694 CCAAAACAACATGGGCGTGAGACACGCCCGTGTCTATTAACCGTGGTCGAAACTA
1 CCAAAACAACACGGGCGTGAGACACACCCATGTCTATCAACCGTGGTCGAAACTA
** * * * *
44332749 CCAAATTAACACGGGCGTGCGACACACCCATGTC-ATCACCCGTGGTCGAGACTG
1 CCAAAACAACACGGGCGTGAGACACACCCATGTCTATCAACCGTGGTCGAAACTA
* *
44332803 TCAAAAGAACACGGGCGT
1 CCAAAACAACACGGGCGT
44332821 ACGCATTTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
54 31 0.53
55 28 0.47
ACGTcount: A:0.30, C:0.29, G:0.24, T:0.17
Consensus pattern (55 bp):
CCAAAACAACACGGGCGTGAGACACACCCATGTCTATCAACCGTGGTCGAAACTA
Found at i:44339315 original size:24 final size:25
Alignment explanation
Indices: 44339260--44339327 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
44339250 GCTGATTAAT
* *
44339260 AGTAAGCACTATCGAGCTG-GAAAC
1 AGTAAGCTCTAACGAGCTGAGAAAC
44339284 AGTAAGCTCTAACGAGCTGAG-AAC
1 AGTAAGCTCTAACGAGCTGAGAAAC
* *
44339308 AGTAAGCTCTTATGAGCTGA
1 AGTAAGCTCTAACGAGCTGA
44339328 TATATCAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 38 0.97
25 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (25 bp):
AGTAAGCTCTAACGAGCTGAGAAAC
Found at i:44348261 original size:40 final size:39
Alignment explanation
Indices: 44348217--44348409 Score: 233
Period size: 39 Copynumber: 4.9 Consensus size: 39
44348207 GTTCAAAACA
* * ** * *
44348217 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * *
44348257 CCTTCGGGACTTAACTCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
44348297 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
44348336 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
44348375 CCTTCGGGCTTAGCCCAGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
44348410 TTCATTCACA
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 97 0.71
40 39 0.29
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:44348328 original size:39 final size:39
Alignment explanation
Indices: 44348247--44348409 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
44348237 TATGGTAACC
* * *
44348247 CGCACAAATGCCTTCGGGACTTAACTCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
44348287 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
44348326 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
44348365 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
44348404 CGCACA
1 CGCACA
44348410 TTCATTCACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:44350742 original size:22 final size:23
Alignment explanation
Indices: 44350716--44350773 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
44350706 AAATAATAAT
*
44350716 ATAATAAGTAGCAATA-GGG-AAA
1 ATAATAAATA-CAATATGGGTAAA
44350738 ATAATAAATACAATATGGGTAAA
1 ATAATAAATACAATATGGGTAAA
*
44350761 ATAAATATATACA
1 AT-AATAAATACA
44350774 TGATATATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.39
23 5 0.16
24 9 0.29
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (23 bp):
ATAATAAATACAATATGGGTAAA
Found at i:44350810 original size:2 final size:2
Alignment explanation
Indices: 44350803--44350829 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44350793 TACTAAGAAA
44350803 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
44350830 AATAATAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44350898 original size:25 final size:23
Alignment explanation
Indices: 44350870--44350924 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
44350860 ATAACTGATA
*
44350870 ATATTAAATATATACATAATATTAT
1 ATATTAAAT-TATACAT-ATAATAT
* *
44350895 ATA-TGAATTATTCATATAATAT
1 ATATTAAATTATACATATAATAT
44350917 ATATTAAA
1 ATATTAAA
44350925 AAATTGACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 9 0.36
23 9 0.36
24 4 0.16
25 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATTAAATTATACATATAATAT
Found at i:44351105 original size:3 final size:3
Alignment explanation
Indices: 44351097--44351144 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
44351087 ACAAGGATAT
44351097 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44351145 TTGAAACACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44351256 original size:3 final size:3
Alignment explanation
Indices: 44351248--44351287 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
44351238 AATGTATTTC
44351248 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
44351288 TTGAAATGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44351778 original size:11 final size:11
Alignment explanation
Indices: 44351762--44351795 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
44351752 AAGAAAAAAA
44351762 AAGAGAGAGGG
1 AAGAGAGAGGG
44351773 AAGAGAGAGGG
1 AAGAGAGAGGG
44351784 -AGAGAGAAGGG
1 AAGAGAG-AGGG
44351795 A
1 A
44351796 GGGGAATCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (11 bp):
AAGAGAGAGGG
Found at i:44351880 original size:12 final size:12
Alignment explanation
Indices: 44351863--44351905 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
44351853 GGTAAAAATT
44351863 TTTTTTTGTATA
1 TTTTTTTGTATA
44351875 TTTTTTTGTATA
1 TTTTTTTGTATA
*
44351887 TCTTTTTGTATA
1 TTTTTTTGTATA
44351899 TTTTTTT
1 TTTTTTT
44351906 ATGTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:44352322 original size:35 final size:35
Alignment explanation
Indices: 44352282--44352352 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
44352272 GGAGTGTGTG
*
44352282 ATGGTGTTGGTGGCAGACAGCATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
*
44352317 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
44352352 A
1 A
44352353 GAGGCAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.46, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
Found at i:44353290 original size:72 final size:72
Alignment explanation
Indices: 44353154--44354208 Score: 703
Period size: 72 Copynumber: 13.8 Consensus size: 72
44353144 CATGTGAACC
* *
44353154 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAA
44353219 CGTGTCTT
65 CGTGTCTT
** * *
44353227 GAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
44353292 GTGTCTT
66 GTGTCTT
44353299 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
44353364 GTGTCTT
66 GTGTCTT
* *
44353371 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAA-AACAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAATTAC-----
* * *
44353434 TTGAAAATACCTCAG-CGTGT
60 CT---CA-ACGT--GTC-T-T
* * * *
44353454 GA-GCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAAT
1 GAGGCTCA-ACT-----CACCTCTCGCAATATGAGTTGA--TTTTTGA-AAACAGAAATTGAAAT
*
44353518 TACCTCAACGTGTCCT
57 TACCTCAACGTGTCTT
* * **
44353534 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGATGAACAGAAATTGAAA--AACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAATTACCTCAA
** *
44353596 ATTGAAAATACCT
65 CGTG----T-CTT
* * * * * * * * * * ** ****** ** **
44353609 CAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGATGAACAGAAAT
1 GAG-GC-TCAACTCA-CCTC-TCGCA-ATAT-G-AGT-TGA-TTTTTGAAAACAGAAATTGAAA-
*
44353674 TAAAATTACCTCAACGTGTCCT
56 -----TTACCTCAACGTGTCTT
44353696 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAGAA-TAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAA-ACAGAAATTGA-AATTAC
* * * *
44353760 CTTAGCATGTGAAC-C
60 CTCA--ACGTG-TCTT
* *
44353775 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAA
44353840 CGTGTCTT
65 CGTGTCTT
** *
44353848 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
44353913 GTGTCTT
66 GTGTCTT
44353920 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
44353985 GTGTCTT
66 GTGTCTT
* * **
44353992 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTACGAACAGAAATTGAAAAACAGAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAA-A-ACA--G--AAATTGAAATT-
** ** * *
44354057 AAAATACCTCAGCGT-GT
58 -ACCT-CAAC-GTGTCTT
* * * *
44354074 GA-GCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAAT
1 GAGGCTCA-ACT-----CACCTCTCGCAATATGAGTTGA--TTTTTGA-AAACAGAAATTGAAAT
*
44354138 TACCTCAACGTGTCCT
57 TACCTCAACGTGTCTT
*
44354154 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAA
44354209 AACAGAAATT
Statistics
Matches: 775, Mismatches: 126, Indels: 163
0.73 0.12 0.15
Matches are distributed among these distances:
70 6 0.01
71 8 0.01
72 335 0.43
73 66 0.09
74 4 0.01
75 68 0.09
76 13 0.02
77 12 0.02
78 3 0.00
79 55 0.07
80 22 0.03
81 20 0.03
82 22 0.03
83 31 0.04
84 13 0.02
85 8 0.01
86 2 0.00
87 30 0.04
88 26 0.03
89 4 0.01
91 19 0.02
92 8 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (72 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
GTGTCTT
Found at i:44353429 original size:14 final size:14
Alignment explanation
Indices: 44353412--44353440 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44353402 GATTTTGACG
44353412 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44353426 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44353440 A
1 A
44353441 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:44353541 original size:163 final size:163
Alignment explanation
Indices: 44353266--44355070 Score: 2469
Period size: 163 Copynumber: 11.5 Consensus size: 163
44353256 TTGAATTTTG
* * *
44353266 AAAACAGAAATTGAAATTACCTCAACGTGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
* * *
44353328 TTGA--TTTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
65 TTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
44353390 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
44353424 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
*
44353489 TGATTTTTTTGATGAATAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
*
44353554 CAATATGAGTTGATTTTGATGAACAGAAATTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
*
44353587 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
*
44353652 T-AATTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
***
44353716 CAATATGAGTTGATTTT---------TTTTTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
* * * * * * * *
44353740 AAGACAGAAATTGAGAATACCTTAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
* * **
44353805 TGA-TTTTTTGA-AAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
66 TGATTTTTTTGATGAACAGAAATT-AAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
*
44353867 GCAATATGAGTTGA-ATT------------TTG-
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
* * *
44353887 AAAACAGAAATTGAAATTACCTCAACGTGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
* * *
44353949 TTGA--TTTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
65 TTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
44354011 GCAATATGAGTTGATTTT-ACGAACAGAAATTGA
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
44354044 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
*
44354109 TGATTTTTTTGATGAATAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
44354174 CAATATGAGTTGATTTTGACGAACAGAAATTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
* *
44354207 AAAACAGAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
44354272 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
***
44354337 CAATATGAGTTGATTTT---------TTTTTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
* * * * * * *
44354361 AAGACAGAAATTGAGAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
* * **
44354426 TGA-TTTTTTGA-AAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
66 TGATTTTTTTGATGAACAGAAATT-AAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
*
44354488 GCAATATGAGTTGA-ATT------------TTG-
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
* * *
44354508 AAAACAGAAATTGAAATTACCTCAACGTGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
* * *
44354570 TTGA--TTTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
65 TTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
44354632 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
*
44354666 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCACAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
44354731 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
44354796 CAATATGAGTTGATTTTGACGAACAGAAATTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
*
44354829 AAAACAGAAATTG-AAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
44354893 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
*
44354958 CAATATGAGTTGATTTTTTTTGATGAACAGAAATTGA
131 CAATATGAGTTGA----TTTTGACGAACAGAAATTGA
* *
44354995 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
44355060 TGATTTTTTTG
66 TGATTTTTTTG
44355071 GTAGAATTTG
Statistics
Matches: 1500, Mismatches: 89, Indels: 107
0.88 0.05 0.06
Matches are distributed among these distances:
143 6 0.00
144 132 0.09
145 68 0.05
147 49 0.03
148 6 0.00
151 4 0.00
152 112 0.07
153 85 0.06
154 64 0.04
156 3 0.00
157 31 0.02
158 56 0.04
159 33 0.02
160 66 0.04
161 9 0.01
162 284 0.19
163 399 0.27
166 32 0.02
167 61 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (163 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTGACGAACAGAAATTGA
Found at i:44353586 original size:14 final size:14
Alignment explanation
Indices: 44353575--44353603 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44353565 GATTTTGATG
44353575 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44353589 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44353603 A
1 A
44353604 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:44354051 original size:14 final size:14
Alignment explanation
Indices: 44354032--44354060 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44354022 TGATTTTACG
44354032 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44354046 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44354060 A
1 A
44354061 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:44354289 original size:621 final size:622
Alignment explanation
Indices: 44353071--44355068 Score: 3696
Period size: 621 Copynumber: 3.2 Consensus size: 622
44353061 AGTGTGTGAT
* * *
44353071 CTGAAGCTCAATTCACCTCTTGCAATATGAGTTGATTTTTTTTTTTGAAAGACAGAAATTGAGAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTTGAAAGACAGAAATTGAGAA
44353136 TACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAG
64 TACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAG
*
44353201 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTG
129 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
44353266 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
194 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
44353331 ATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
259 ATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
44353396 TGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGA
324 TGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGA
44353461 GACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAATTACCTCAA
389 GACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAATTACCTCAA
*
44353526 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATGAACAGAAATTGAAAAA
454 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAA
* *
44353591 CAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTT-AA
519 CAGAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGAT
44353655 TTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
584 TTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
44353694 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAGAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAGAATA
*
44353759 CCTTAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAA
66 CCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAA
44353824 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
131 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
44353889 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
196 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
44353954 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
261 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
44354019 AGTTGATTTT-ACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
326 AGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
44354083 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAATTACCTCAACG
391 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAATTACCTCAACG
44354148 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA
456 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA
44354213 GAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
521 GAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
44354278 TTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
586 TTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
44354315 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAGAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAGAATA
44354380 CCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAA
66 CCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAA
44354445 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
131 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
44354510 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
196 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
44354575 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
261 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
44354640 AGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
326 AGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
* *
44354705 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACG
391 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAATTACCTCAACG
44354770 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA
456 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA
44354835 GAAATT-GAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
521 GAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
44354899 TTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
586 TTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
44354936 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACAGAAATTGAAAAACA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT--T-----GAAA--G----ACA
* ** * * *
44355001 GAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
53 GAAATTGAGAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTT
44355066 TTT
118 TTT
44355069 TGGTAGAATT
Statistics
Matches: 1343, Mismatches: 17, Indels: 19
0.97 0.01 0.01
Matches are distributed among these distances:
620 242 0.18
621 810 0.60
622 188 0.14
623 33 0.02
628 4 0.00
630 1 0.00
634 65 0.05
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (622 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAGAATA
CCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAA
ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGA
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAATAGAAATTAAAATTACCTCAACG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA
GAAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGATGAACAGAAATTAAAATTACCTCAACGTGTC
Found at i:44354548 original size:72 final size:73
Alignment explanation
Indices: 44354207--44354830 Score: 599
Period size: 72 Copynumber: 8.2 Consensus size: 73
44354197 CAGAAATTGA
* * *
44354207 AAAACAGAAATTGGAAA-TACCTCAGCGCGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGA
1 AAAACAGAAATT-GAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGA
44354270 GTTGATTTTTTTG
62 GTTGA-TTTTTTG
* * *
44354283 ATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
44354348 GATTTTTTTTTG
65 GA---TTTTTTG
* * * *
44354360 AAAGACAGAAATTGAGAA-TACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATA
1 AAA-ACAGAAATTGA-AATTACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATG
44354423 AGTTGATTTTTTG
61 AGTTGATTTTTTG
* **
44354436 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
44354501 A-ATTTTG
66 ATTTTTTG
44354508 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
44354573 A-TTTTTG
66 ATTTTTTG
44354580 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
44354645 A--TTTTG
66 ATTTTTTG
* * * * * *
44354651 ACGAACAGAAATTGAAA-AACAGAAATTGAAAATACCTCAG-CGTGTGA-GCTGAGACTCAACTC
1 A-AAACAGAAATTGAAATTAC-----CT---CA-ACGT--GTC-T-TGAGGCTCA-ACT-----C
*
44354713 ACCTCTCACAATATGAGTTGATTTTTTTG
46 ACCTCTCGCAATATGAGTTGA-TTTTTTG
* * *
44354742 ATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
44354807 GA--TTTTG
65 GATTTTTTG
*
44354814 ACGAACAGAAATTGAAA
1 A-AAACAGAAATTGAAA
44354831 AACAGAAATT
Statistics
Matches: 470, Mismatches: 40, Indels: 80
0.80 0.07 0.14
Matches are distributed among these distances:
71 8 0.02
72 174 0.37
73 34 0.07
74 3 0.01
75 76 0.16
76 16 0.03
77 43 0.09
78 2 0.00
79 37 0.08
80 10 0.02
81 6 0.01
82 7 0.01
83 9 0.02
84 1 0.00
87 1 0.00
88 21 0.04
91 20 0.04
92 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (73 bp):
AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:44354671 original size:14 final size:14
Alignment explanation
Indices: 44354654--44354682 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44354644 GATTTTGACG
44354654 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44354668 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44354682 A
1 A
44354683 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:44354834 original size:14 final size:14
Alignment explanation
Indices: 44354817--44354844 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44354807 GATTTTGACG
44354817 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44354831 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44354845 TACCTCAGCG
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:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:44354890 original size:87 final size:87
Alignment explanation
Indices: 44354774--44355066 Score: 263
Period size: 87 Copynumber: 3.4 Consensus size: 87
44354764 TCAACGTGTC
*
44354774 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATGAACAGAAATTGAAAAACAGAAA
44354839 TTGAAATACCTCAGCGCGTGAG
66 TTGAAATACCTCAGCGCGTGAG
*
44354861 CTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATT-AAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGATGAACAGAAATTGAAAA--A-
** ** * * *
44354925 CTCAACGTG---T-CCTGAG-GC-TCAA
60 CAGAAATTGAAATACCTCAGCGCGTGAG
* * * * * * * **
44354947 CTCA-CCTC-TCGCA-ATAT-G-AGT-TGA-TTTTTTTTGATGAACAGAAATTGAAAAACAGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATGAACAGAAATTGAAAAACAGAAA
44355005 TTGAAAATACCTCAGCGCGTGAG
66 TTG-AAATACCTCAGCGCGTGAG
44355028 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
44355067 TTTGGTAGAA
Statistics
Matches: 151, Mismatches: 34, Indels: 41
0.67 0.15 0.18
Matches are distributed among these distances:
74 5 0.03
75 1 0.01
76 18 0.12
77 4 0.03
78 1 0.01
79 7 0.05
80 5 0.03
81 7 0.05
82 4 0.03
83 5 0.03
84 5 0.03
85 4 0.03
86 7 0.05
87 39 0.26
88 11 0.07
89 5 0.03
90 17 0.11
91 1 0.01
92 5 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (87 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATGAACAGAAATTGAAAAACAGAAA
TTGAAATACCTCAGCGCGTGAG
Found at i:44355000 original size:14 final size:14
Alignment explanation
Indices: 44354983--44355011 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44354973 TTTTTTGATG
44354983 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44354997 AACAGAAATTGAAA
1 AACAGAAATTGAAA
44355011 A
1 A
44355012 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:44363665 original size:40 final size:40
Alignment explanation
Indices: 44363621--44363812 Score: 239
Period size: 39 Copynumber: 4.9 Consensus size: 40
44363611 GTTCAAAACA
* * ** * *
44363621 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* *
44363661 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
*
44363701 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* *
44363740 CCTTC-GG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* *
44363778 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACA
44363813 TTCATTCACA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 35 0.26
39 62 0.45
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:44363758 original size:38 final size:39
Alignment explanation
Indices: 44363651--44363812 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
44363641 TATGGTAACC
* *
44363651 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
44363691 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
44363730 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
44363768 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
44363807 CGCACA
1 CGCACA
44363813 TTCATTCACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 62 0.54
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:44363776 original size:77 final size:79
Alignment explanation
Indices: 44363651--44363801 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 79
44363641 TATGGTAACC
44363651 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
44363716 CGGATATCATAGCT
66 CGGATATCATAGCT
* * *
44363730 CGCACAATTGCCTTC-GG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
44363793 CGGATATCA
66 CGGATATCA
44363802 CAATTCGCAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 53 0.77
78 2 0.03
79 14 0.20
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:44369781 original size:40 final size:40
Alignment explanation
Indices: 44369696--44369846 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
44369686 AATTGAATGA
* * *
44369696 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
44369736 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
44369777 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
44369816 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44369847 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:44369860 original size:40 final size:40
Alignment explanation
Indices: 44369732--44369862 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
44369722 TATGCTGGAA
* * *
44369732 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
44369772 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
44369812 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
44369852 ATTATATCCGG
1 ATTATATCCGG
44369863 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:44375399 original size:80 final size:80
Alignment explanation
Indices: 44375315--44375463 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44375305 TATGGTAACC
* * * *
44375315 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44375379 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44375395 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44375460 CCGG
66 CCGG
44375464 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44375405 original size:40 final size:38
Alignment explanation
Indices: 44375356--44375463 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44375346 ATCACGATTT
*
44375356 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44375396 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44375436 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44375464 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44381872 original size:39 final size:39
Alignment explanation
Indices: 44381780--44381941 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
44381770 TGTGAATGAA
*
44381780 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAA-GCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
44381818 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
44381857 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
44381896 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
44381936 TGTGCG
1 TGTGCG
44381942 GGTTACCATA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
38 33 0.29
39 65 0.57
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:44381957 original size:40 final size:39
Alignment explanation
Indices: 44381780--44381971 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
44381770 TGTGAATGAA
* *
44381780 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAA-GCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
44381818 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
44381857 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
44381896 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
44381936 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
44381972 TGTTTTGAAC
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 33 0.24
39 65 0.47
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:44387487 original size:40 final size:40
Alignment explanation
Indices: 44387442--44387609 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
44387432 CGGAATATAA
44387442 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44387482 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44387522 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44387562 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
44387602 CCGGATAT
1 CCGGATAT
44387610 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44387592 original size:80 final size:80
Alignment explanation
Indices: 44387458--44387607 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
44387448 ATAATCACGT
*
44387458 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
44387522 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
44387538 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
44387601 CCCGGAT
64 CCCGGAT
44387608 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:44393275 original size:40 final size:39
Alignment explanation
Indices: 44393149--44393293 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
44393139 TGCTGGAAAT
* * * * *
44393149 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
44393188 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
44393229 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
44393268 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
44393294 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:44393318 original size:80 final size:81
Alignment explanation
Indices: 44393150--44393338 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44393140 GCTGGAAATT
* * * *
44393150 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44393215 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44393231 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44393294 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44393310 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44393339 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44398802 original size:40 final size:40
Alignment explanation
Indices: 44398757--44398924 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
44398747 CGGAATATAA
44398757 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44398797 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44398837 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44398877 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
44398917 CCGGATAT
1 CCGGATAT
44398925 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44398907 original size:80 final size:80
Alignment explanation
Indices: 44398773--44398922 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
44398763 ATAATCACGT
*
44398773 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
44398837 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
44398853 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
44398916 CCCGGAT
64 CCCGGAT
44398923 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:44399335 original size:14 final size:14
Alignment explanation
Indices: 44399316--44399343 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44399306 CTTTCTCGGT
44399316 CCTTTCCCTCCATC
1 CCTTTCCCTCCATC
44399330 CCTTTCCCTCCATC
1 CCTTTCCCTCCATC
44399344 TTTTGGTCAC
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:0.07, C:0.57, G:0.00, T:0.36
Consensus pattern (14 bp):
CCTTTCCCTCCATC
Found at i:44400159 original size:26 final size:26
Alignment explanation
Indices: 44400129--44400180 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
44400119 TACTAGGGAG
44400129 ATAAAATTGAACGAAATCAAATCTCA
1 ATAAAATTGAACGAAATCAAATCTCA
*
44400155 ATAAAATTGAACGGAATCAAATCTCA
1 ATAAAATTGAACGAAATCAAATCTCA
44400181 TTCATTTTAT
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:0.52, C:0.15, G:0.10, T:0.23
Consensus pattern (26 bp):
ATAAAATTGAACGAAATCAAATCTCA
Found at i:44401343 original size:25 final size:24
Alignment explanation
Indices: 44401322--44401369 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
44401312 AAATTTTAGT
44401322 TTTATTCAATTATCTAATTTTTCAA
1 TTTATTCAATTATCTAATTTTT-AA
*
44401347 TTTATTGAATTAT-TAATATTTTA
1 TTTATTCAATTATCTAAT-TTTTA
44401370 TATTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTATTCAATTATCTAATTTTTAA
Found at i:44401382 original size:25 final size:25
Alignment explanation
Indices: 44401329--44401382 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
44401319 AGTTTTATTC
* *
44401329 AATTATCTAATTTTTCAATTTATTG
1 AATTATCTAATTTTTCAATTAATTA
44401354 AATTAT-TAATATTTT-ATATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
44401379 AATT
1 AATT
44401383 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:44409650 original size:67 final size:67
Alignment explanation
Indices: 44409542--44409674 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
44409532 CAAGCTCCGC
* *
44409542 TCATTATTCTACATTCACCATAATATCGCTTATTGTAGTGCTTACATTCAGGTCCAACATTTCTA
1 TCATTATTCTACATTCACCATAATATCACTCATTGTAGTGCTTACATTCAGGTCCAACATTTCTA
44409607 AA
66 AA
* *
44409609 TCATTATTCTACATTCACCATAATGTCACTCATTGTAGTGCTTACATTTAGGTCCAACATTTCTA
1 TCATTATTCTACATTCACCATAATATCACTCATTGTAGTGCTTACATTCAGGTCCAACATTTCTA
44409674 A
66 A
44409675 CACTACCCAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (67 bp):
TCATTATTCTACATTCACCATAATATCACTCATTGTAGTGCTTACATTCAGGTCCAACATTTCTA
AA
Found at i:44414574 original size:39 final size:39
Alignment explanation
Indices: 44414520--44414645 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
44414510 TTCAGTGATG
44414520 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
44414559 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
44414598 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
44414637 TATGTCCGG
1 TATATCCGG
44414646 GCTAAAGTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:44414659 original size:39 final size:39
Alignment explanation
Indices: 44414520--44414683 Score: 206
Period size: 39 Copynumber: 4.2 Consensus size: 39
44414510 TTCAGTGATG
* *
44414520 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
44414559 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
44414598 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
44414637 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
44414676 TATA-CCGG
1 TATATCCGG
44414684 GTTTAAATTC
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 9 0.08
39 104 0.92
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:44414698 original size:78 final size:78
Alignment explanation
Indices: 44414520--44414710 Score: 201
Period size: 78 Copynumber: 2.5 Consensus size: 78
44414510 TTCAGTGATG
** * **
44414520 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
44414585 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
44414598 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
44414662 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
** *
44414676 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTATGTGCTGG
44414711 TAATTGGTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
77 21 0.22
78 75 0.78
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:44414710 original size:38 final size:38
Alignment explanation
Indices: 44414538--44414715 Score: 148
Period size: 39 Copynumber: 4.6 Consensus size: 38
44414528 GACTTAGGGT
* **
44414538 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* *
44414577 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* * * *
44414616 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTC
1 CCGCAGGCTATGTGCTGGAATTAT-ACCGGGTTAAAGTC
* * *
44414655 CCGCAGGCT-TCGAGCTGGTATTATACCGGGTTTAAATTC
1 CCGCAGGCTAT-GTGCTGGAATTATACCGGG-TTAAAGTC
44414694 CCGCAGGCT-TGTGCTGGTAATT
1 CCGCAGGCTATGTGCTGG-AATT
44414716 GGTTTCAAGT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 16 0.14
39 102 0.86
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (38 bp):
CCGCAGGCTATGTGCTGGAATTATACCGGGTTAAAGTC
Found at i:44422454 original size:39 final size:39
Alignment explanation
Indices: 44422400--44422515 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
44422390 TTCAGTGATG
44422400 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
44422439 TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
44422478 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
44422516 ATATGTCGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:44423525 original size:24 final size:23
Alignment explanation
Indices: 44423482--44423548 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
44423472 TTAGCTGATG
*
44423482 AACAGTAAGCTCTATTGAGCTAGA
1 AACAGTAAGCTCTA-CGAGCTAGA
* *
44423506 AATAGTAAGCTCTGACGAGCTAGG
1 AACAGTAAGCTCT-ACGAGCTAGA
*
44423530 AACAGTAAGATCTTACGAG
1 AACAGTAAGCTC-TACGAG
44423549 ATGATATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 34 0.94
25 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTACGAGCTAGA
Found at i:44428875 original size:53 final size:54
Alignment explanation
Indices: 44428812--44429017 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
44428802 TTCCTTTTTA
* * *
44428812 AACTTACCATTACCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
44428865 AACTTACCATTGCCATGCCTTGGCGTGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
44428919 TAGTTTATCAATGCCACGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAA
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
44428974 AACTTACCAATT-CCATGCCTTGGCATGGTC-TACTTGGTATCCTT
1 AACTTACC-ATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
44429018 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 31, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
53 56 0.47
54 21 0.18
55 42 0.35
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:44436348 original size:53 final size:54
Alignment explanation
Indices: 44436280--44436485 Score: 193
Period size: 54 Copynumber: 3.8 Consensus size: 54
44436270 TTCCTTTTTA
* *
44436280 AACTTACCATTGCCATGTCTTGACAAGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
44436333 AACTCACCATTGCCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * ** * * *
44436387 TAGTTTCTCAATGACATGT-TTGACATGGTCTTACATAATTTCCTTGCCTTGTAA
1 AACTTAC-CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
44436441 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
44436486 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 30, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
52 1 0.01
53 54 0.46
54 55 0.47
55 8 0.07
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Done.