Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 160 of 427
Found at i:44231119 original size:23 final size:24
Alignment explanation
Indices: 44231088--44231251 Score: 257
Period size: 23 Copynumber: 7.0 Consensus size: 24
44231078 AGGAAGTGCA
44231088 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
44231112 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
44231135 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
44231159 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
44231182 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
44231205 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
44231228 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44231252 ATGATAAACA
Statistics
Matches: 132, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
23 87 0.66
24 38 0.29
25 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:44231157 original size:47 final size:47
Alignment explanation
Indices: 44231088--44231251 Score: 262
Period size: 47 Copynumber: 3.5 Consensus size: 47
44231078 AGGAAGTGCA
44231088 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
44231135 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
44231182 AAAAGGGCTT-TGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
*
44231228 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44231252 ATGATAAACA
Statistics
Matches: 111, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
46 31 0.28
47 72 0.65
48 8 0.07
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:44231202 original size:70 final size:69
Alignment explanation
Indices: 44231089--44231230 Score: 250
Period size: 70 Copynumber: 2.0 Consensus size: 69
44231079 GGAAGTGCAA
44231089 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAG
44231154 TTATT
65 TTATT
44231159 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATTAAAAGGGCTTTGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAG
*
44231223 TTGTT
65 TTATT
44231228 AAA
1 AAA
44231231 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
69 15 0.21
70 46 0.66
71 9 0.13
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (69 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGT
TATT
Found at i:44231477 original size:30 final size:31
Alignment explanation
Indices: 44231443--44231505 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
44231433 CGTTTACAGT
44231443 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
44231473 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
44231504 AA
1 AA
44231506 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:44233517 original size:40 final size:40
Alignment explanation
Indices: 44233485--44233835 Score: 506
Period size: 40 Copynumber: 8.8 Consensus size: 40
44233475 CCAGCATGAT
* * * *
44233485 TGCTCATCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
44233525 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
44233565 TGCTCTTCGGAACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44233605 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* **
44233644 TGCTCTTCGGAACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44233684 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
44233724 TGCTCTTTGGGACTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44233764 TGCTCTTCGGGACTTAGCCCCGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44233804 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
44233836 CTCAATTCTC
Statistics
Matches: 277, Mismatches: 33, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
39 34 0.12
40 243 0.88
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:44233715 original size:119 final size:120
Alignment explanation
Indices: 44233485--44233835 Score: 515
Period size: 119 Copynumber: 2.9 Consensus size: 120
44233475 CCAGCATGAT
* * * * ** *
44233485 TGCTCATCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
44233550 TATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
44233605 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
**
44233669 CGTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
44233724 TGCTCTTTGGGACTTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCCGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
44233789 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGGTATATCACT
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
44233836 CTCAATTCTC
Statistics
Matches: 205, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 105 0.51
120 100 0.49
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:44233809 original size:199 final size:200
Alignment explanation
Indices: 44233469--44233835 Score: 538
Period size: 199 Copynumber: 1.8 Consensus size: 200
44233459 GCCCGAATAC
* * *
44233469 ACGTCACCAGCATGATTGCTCATCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACGTCACCAGCACGAATGCTCATCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCG
** * * **
44233534 GGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGATACATCACTAG
66 GGACTTAGCACGAATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCCGATACATCACTAG
*
44233599 CACGAATGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCC
131 CACGAATGCTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCC
44233663 CGGAT
196 CGGAT
* * * * * *
44233668 ACGTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTTG
1 ACGTCACCAGCACGAATGCTCATCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCG
* * *
44233733 GGACTTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCCGATATATCACTAG
66 GGACTTAGCACGAATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCCGATACATCACTAG
* *
44233798 CACGAATGCTCTTCGGGACTTAGCCCGGGTATATCACT
131 CACGAATGCTCTTCGGGACTTAGCACGGATATATCACT
44233836 CTCAATTCTC
Statistics
Matches: 146, Mismatches: 21, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
199 129 0.88
200 17 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (200 bp):
ACGTCACCAGCACGAATGCTCATCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCG
GGACTTAGCACGAATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCCGATACATCACTAG
CACGAATGCTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCC
CGGAT
Found at i:44235379 original size:46 final size:46
Alignment explanation
Indices: 44235311--44235447 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
44235301 TATATATACA
* * * *
44235311 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
44235357 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
44235403 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
44235448 ATGCATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:44235481 original size:47 final size:47
Alignment explanation
Indices: 44235421--44235612 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
44235411 ACACATTTCG
* * * *
44235421 CATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
44235468 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
44235515 CATTGGCCATTCGGGCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44235562 CATTGGCCATTCGGCCTTATCACACATACGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44235609 CATT
1 CATT
44235613 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44239270 original size:30 final size:30
Alignment explanation
Indices: 44239236--44239296 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44239226 TTCCCGAGCC
44239236 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
44239266 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
44239296 T
1 T
44239297 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:44240073 original size:68 final size:66
Alignment explanation
Indices: 44240001--44240149 Score: 167
Period size: 67 Copynumber: 2.2 Consensus size: 66
44239991 CATCATGTGT
* * * *
44240001 ACAAGAGAGCTACAGGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC-GG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44240064 TGTAG
62 TGTAG
* * * *
44240069 ACAAGAGATCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGCATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44240134 AG
65 AG
44240136 ACAAGAGAGCTACG
1 ACAAGAGAGCTACG
44240150 AGATAAATTG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 24 0.35
65 3 0.04
66 3 0.04
67 27 0.39
68 12 0.17
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGGCATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44240105 original size:64 final size:64
Alignment explanation
Indices: 44240025--44240208 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
44240015 GGACATTATG
* * * *
44240025 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGATCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44240089 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44240154 AA
63 AA
* * *
44240156 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATG-AGTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44240209 CGAACCATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 2 0.02
63 18 0.18
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44247317 original size:42 final size:42
Alignment explanation
Indices: 44247207--44247368 Score: 211
Period size: 42 Copynumber: 3.8 Consensus size: 42
44247197 TAATACCAAC
** *
44247207 GCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCGAT
1 GCCATATCCCAGATATGGTCTTACA-CAAAGTCTCATATCGAT
* * *
44247249 GCCAATAGCCCAGCTATGGTCTTACACAAAGTCTTATATCGAT
1 GCC-ATATCCCAGATATGGTCTTACACAAAGTCTCATATCGAT
* *
44247292 GCCATATCCTAGATATGGTCTTACACGAAGTCTCATAGT-GAT
1 GCCATATCCCAGATATGGTCTTACACAAAGTCTCATA-TCGAT
44247334 GCCATATCCCAGATATGGTCTTACACAAAGTCTCA
1 GCCATATCCCAGATATGGTCTTACACAAAGTCTCA
44247369 ATAACCCTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
42 70 0.67
43 34 0.33
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACAAAGTCTCATATCGAT
Found at i:44250129 original size:43 final size:43
Alignment explanation
Indices: 44250095--44250248 Score: 247
Period size: 43 Copynumber: 3.6 Consensus size: 43
44250085 TGGCATTACA
44250095 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAG
*
44250138 CCTGCTAGGCACGAAAGCCCGAATACACATCA-TCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACT-GGCACGAAG
* *
44250181 CCTGCTTGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAG
* *
44250224 TCTGCTAGGCTCGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
44250249 TAATACCAGC
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.01
43 101 0.99
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAG
Found at i:44250297 original size:38 final size:38
Alignment explanation
Indices: 44250241--44250324 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
44250231 GGCTCGAAGG
* * *
44250241 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
44250279 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
44250317 CCCGGATA
1 CCCGGATA
44250325 CACATCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:44255242 original size:39 final size:39
Alignment explanation
Indices: 44255188--44255331 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
44255178 GAATGTTCGA
44255188 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
44255227 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
44255266 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
44255305 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
44255332 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:44255278 original size:78 final size:79
Alignment explanation
Indices: 44255189--44255359 Score: 272
Period size: 78 Copynumber: 2.2 Consensus size: 79
44255179 AATGTTCGAG
44255189 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
44255253 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
44255267 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
44255332 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** *
44255346 CCATAACCGGGCTA
1 TGATATCCGGGCTA
44255360 TGTCCCGAGG
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 54 0.64
79 31 0.36
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:44270387 original size:40 final size:39
Alignment explanation
Indices: 44270264--44270391 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
44270254 AAATTGAATG
* * * *
44270264 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTG--ATT
* **
44270304 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGATT
*
44270344 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGATT
44270384 ATATCCGG
1 ATATCCGG
44270392 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 71 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGATT
Found at i:44274576 original size:40 final size:39
Alignment explanation
Indices: 44274515--44274592 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
44274505 TTAGACAAAC
*
44274515 ATTAATGATGTCAAAATTAAGACACATAATTAAA-ACACAT
1 ATTAATGATGTCAAAACTAAG--ACATAATTAAAGACACAT
*
44274555 ATTAATTATGTTC-AAACTAAGACATAATTAAAGACACA
1 ATTAATGATG-TCAAAACTAAGACATAATTAAAGACACA
44274593 AACTAAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 11 0.32
39 5 0.15
40 16 0.47
41 2 0.06
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (39 bp):
ATTAATGATGTCAAAACTAAGACATAATTAAAGACACAT
Found at i:44276363 original size:40 final size:40
Alignment explanation
Indices: 44276197--44276381 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
44276187 TTCGAATGAT
* * *
44276197 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
44276237 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
44276277 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
44276317 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
44276358 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
44276382 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:44276375 original size:80 final size:80
Alignment explanation
Indices: 44276197--44276384 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
44276187 TTCGAATGAT
* *
44276197 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
44276262 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
44276277 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
44276338 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
44276358 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
44276385 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:44282886 original size:40 final size:40
Alignment explanation
Indices: 44282801--44282951 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
44282791 AATTGAATGA
* * *
44282801 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
44282841 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
44282882 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
44282921 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44282952 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:44282965 original size:40 final size:40
Alignment explanation
Indices: 44282837--44282967 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
44282827 TATGCTGGAA
* * *
44282837 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
44282877 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
44282917 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
44282957 ATTATATCCGG
1 ATTATATCCGG
44282968 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:44295218 original size:27 final size:27
Alignment explanation
Indices: 44295197--44295330 Score: 189
Period size: 27 Copynumber: 5.0 Consensus size: 27
44295187 ATGAAATAAC
*
44295197 TGTTTTGCCCTTATGAGGTGAAATGAT
1 TGTTTTGCCCTTATGAGGTAAAATGAT
* *
44295224 TGTTTTGCCCTTATGTGGTAAAATGAC
1 TGTTTTGCCCTTATGAGGTAAAATGAT
* * *
44295251 TGTTCTGCCCCTATGTGGTAAAATGAT
1 TGTTTTGCCCTTATGAGGTAAAATGAT
*
44295278 TGTTTTGCCCTTCTGAGGTAAAATGAT
1 TGTTTTGCCCTTATGAGGTAAAATGAT
44295305 TGTTTTGCCCTTAT-ATGGTAAAATGA
1 TGTTTTGCCCTTATGA-GGTAAAATGA
44295331 CTGAAATGTC
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 94 0.99
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.40
Consensus pattern (27 bp):
TGTTTTGCCCTTATGAGGTAAAATGAT
Found at i:44295351 original size:81 final size:81
Alignment explanation
Indices: 44295197--44295353 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
44295187 ATGAAATAAC
* * ***
44295197 TGTTTTGCCCTTATGAGGTGAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTCTGCCCC
1 TGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGACTGAAATGCCCC
**
44295262 TATGTGGTAAAATGAT
66 TACATGGTAAAATGAT
* * *
44295278 TGTTTTGCCCTTCTGAGGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGACTGAAATGTCCT
1 TGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGACTGAAATGCCCC
44295343 TACATGGTAAA
66 TACATGGTAAA
44295354 TTGACTATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (81 bp):
TGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATATGGTAAAATGACTGAAATGCCCC
TACATGGTAAAATGAT
Found at i:44303077 original size:43 final size:43
Alignment explanation
Indices: 44302952--44303093 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
44302942 CGATATGTGT
* *
44302952 TTTCGTGTAAGAC-CTCGTCTGGGAC-GTTGGCATCAACT-TATGA
1 TTTCATGTAAGACTCT-GTCTGGGACAG-TGGCATCAA-TATTTGA
* * * *
44302995 TTTACGTGTAAGACTATGTTTGGGACA-TCAGCATC-ATATTTGA
1 TTT-CATGTAAGACTCTGTCTGGGACAGT-GGCATCAATATTTGA
*
44303038 TTTCATGTAAGACTCTGTCTGGGACAGTGGCATCAATATTTAA
1 TTTCATGTAAGACTCTGTCTGGGACAGTGGCATCAATATTTGA
*
44303081 TTACATGTAAGAC
1 TTTCATGTAAGAC
44303094 CACGTCTAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
42 26 0.32
43 32 0.39
44 23 0.28
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (43 bp):
TTTCATGTAAGACTCTGTCTGGGACAGTGGCATCAATATTTGA
Found at i:44303112 original size:43 final size:43
Alignment explanation
Indices: 44302957--44303113 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
44302947 TGTGTTTTCG
* * * *
44302957 TGTAAGACCTCGTCTGGGACGTTGGCATCAACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCAA-TAT-TTAATTACA
* * * * ** * *
44303001 TGTAAGACTATGTTTGGGACATCAGCATC-ATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATATTTAATTACA
*
44303043 TGTAAGACTC-TGTCTGGGACAG-TGGCATCAATATTTAATTACA
1 TGTAAGAC-CACGTCTGGGAC-GTTGGCATCAATATTTAATTACA
*
44303086 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
44303114 TGTACAAGCT
Statistics
Matches: 86, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
42 29 0.34
43 35 0.41
44 22 0.26
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATATTTAATTACA
Found at i:44311674 original size:40 final size:40
Alignment explanation
Indices: 44311628--44311767 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
44311618 CGGATATAAC
*
44311628 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGGTT-TAGT
* *
44311668 GACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* * * * * *
44311708 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* *
44311747 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
44311768 ATCCTAGTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.38
40 48 0.55
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
Found at i:44311804 original size:79 final size:80
Alignment explanation
Indices: 44311636--44311818 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 80
44311626 ACGACTCGCT
* ** * * *
44311636 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGTACTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGGACCTAACCCG
* *
44311700 GGTTTAGTAACTTGCA
65 GATATAGTAACTTGCA
* **
44311716 CAAATGCCTTCGG-GCTTAGCCCGGATTTATTAACTCGCACGAATGCCTTC-GGATCCTAGTCCG
1 CAAATGCCTTCGGTACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGGA-CCTAACCCG
*
44311779 GATATAGTCACTTAGCA
65 GATATAGTAACTT-GCA
44311796 CAAA-GCCTTCGGTACTTAGCCCG
1 CAAATGCCTTCGGTACTTAGCCCG
44311819 AACATCATTT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.61
80 31 0.36
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGTACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGGACCTAACCCGG
ATATAGTAACTTGCA
Found at i:44319716 original size:79 final size:81
Alignment explanation
Indices: 44319615--44319799 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
44319605 ACGACTCGCT
** * *
44319615 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
44319678 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
44319695 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
44319759 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
44319775 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44319800 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:44319799 original size:40 final size:39
Alignment explanation
Indices: 44319608--44319799 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
44319598 GGATATAACG
* ** * *
44319608 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
44319648 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
44319688 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
44319727 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
44319767 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
44319800 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:44321741 original size:21 final size:20
Alignment explanation
Indices: 44321717--44321759 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
44321707 AAATGAGTTG
44321717 AAACGAGCTAAAATCAAGCTC
1 AAACGAGCTAAAA-CAAGCTC
*
44321738 AAACGAGCTAAAACGAGCTC
1 AAACGAGCTAAAACAAGCTC
44321758 AA
1 AA
44321760 GTGAGTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.12
Consensus pattern (20 bp):
AAACGAGCTAAAACAAGCTC
Found at i:44321751 original size:10 final size:10
Alignment explanation
Indices: 44321717--44321756 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
44321707 AAATGAGTTG
44321717 AAACGAGCTA
1 AAACGAGCTA
* *
44321727 AAATCAAGCTC
1 AAA-CGAGCTA
44321738 AAACGAGCTA
1 AAACGAGCTA
44321748 AAACGAGCT
1 AAACGAGCT
44321757 CAAGTGAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.12
Consensus pattern (10 bp):
AAACGAGCTA
Found at i:44326163 original size:43 final size:41
Alignment explanation
Indices: 44326093--44326211 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 41
44326083 ACACATAGTA
* * * *
44326093 TCATAACAATGTCATATCCCAGATATGGTCTTACACGAG-A
1 TCATAACGATGCCATAGCCCAGATATGGTCTTACACGAGCC
* * **
44326133 TCTAGTAACGATGCCAATAGCCCAGCTATGGCCTTATTCGAGCC
1 TC-A-TAACGATGCC-ATAGCCCAGATATGGTCTTACACGAGCC
* *
44326177 TCATATCGATGCCATATCCCAGATATGGTCTTACA
1 TCATAACGATGCCATAGCCCAGATATGGTCTTACA
44326212 TGAAGTCTCA
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
40 2 0.03
41 18 0.30
42 17 0.28
43 22 0.36
44 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (41 bp):
TCATAACGATGCCATAGCCCAGATATGGTCTTACACGAGCC
Found at i:44326222 original size:42 final size:41
Alignment explanation
Indices: 44326105--44326255 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 41
44326095 ATAACAATGT
* *
44326105 CATATCCCAGATATGGTCTTACACGAGATCT-AGTAACGATGC
1 CATATCCCAGATATGGTCTTACATGAG-TCTCA-TATCGATGC
* * * * *
44326147 CAATAGCCCAGCTATGGCCTTA-TTCGAGCCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACAT-GAGTCTCATATCGATGC
* *
44326189 CATATCCCAGATATGGTCTTACATGAAGTCTCATATTGATGT
1 CATATCCCAGATATGGTCTTACATG-AGTCTCATATCGATGC
** *
44326231 CATATCTTAGATATGATCTTACATG
1 CATATCCCAGATATGGTCTTACATG
44326256 TAATCTTAGT
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 18 0.21
42 48 0.55
43 21 0.24
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACATGAGTCTCATATCGATGC
Found at i:44331882 original size:40 final size:40
Alignment explanation
Indices: 44331755--44331884 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
44331745 ATGCTGGAAA
* *
44331755 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44331795 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44331835 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44331875 TTATATCCGG
1 TTATATCCGG
44331885 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:44335589 original size:40 final size:40
Alignment explanation
Indices: 44335462--44335591 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
44335452 ATGCTGGAAA
* *
44335462 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44335502 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44335542 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44335582 TTATATCCGG
1 TTATATCCGG
44335592 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:44337581 original size:40 final size:39
Alignment explanation
Indices: 44337536--44337742 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
44337526 CGGAATACAA
*
44337536 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44337576 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44337616 CCGGATTTAACAACTTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
44337655 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
44337695 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
44337735 CCGGATAT
1 CCGGATAT
44337743 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
38 4 0.03
39 27 0.19
40 105 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:44337675 original size:79 final size:80
Alignment explanation
Indices: 44337536--44337741 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 80
44337526 CGGAATACAA
* *
44337536 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
44337600 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * **
44337616 CCGGATTTAACAACTTGCACGAATGCCTTC-GGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
44337679 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** ** * *
44337695 CCGGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
44337742 TCATTCAATT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
78 4 0.04
79 58 0.55
80 43 0.41
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:44345169 original size:80 final size:80
Alignment explanation
Indices: 44345085--44345233 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44345075 TATGGTAACC
* * * *
44345085 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44345149 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44345165 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44345230 CCGG
66 CCGG
44345234 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:44345175 original size:40 final size:38
Alignment explanation
Indices: 44345126--44345233 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44345116 ATCACGATTT
*
44345126 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44345166 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44345206 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44345234 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:44348454 original size:21 final size:22
Alignment explanation
Indices: 44348402--44348454 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
44348392 AAATAAAGTC
*
44348402 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
44348423 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
44348445 CATGTATCAT
1 CATGTATCAT
44348455 CACTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:44349037 original size:17 final size:17
Alignment explanation
Indices: 44348991--44349040 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
44348981 ATTAACATTT
44348991 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
* *
44349008 TTATAATTGATCGGGCA
1 TTATCATTTATCGGGCA
44349025 CTT-TCATTTATCGGGC
1 -TTATCATTTATCGGGC
44349041 TTTTACGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 26 0.93
18 2 0.07
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:44349836 original size:43 final size:43
Alignment explanation
Indices: 44349788--44349875 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
44349778 CTCCTATTTA
*
44349788 CTACAAATTCTGAGGCTTCATGACTTGGAAAATTTAAAACTTT
1 CTACAAATTCTGAGGCTTCATGACTTGAAAAATTTAAAACTTT
44349831 CTACAAATTCTGAGGCTTCATGACTTGAAAAATTTAAAACTTT
1 CTACAAATTCTGAGGCTTCATGACTTGAAAAATTTAAAACTTT
44349874 CT
1 CT
44349876 TAAATCATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (43 bp):
CTACAAATTCTGAGGCTTCATGACTTGAAAAATTTAAAACTTT
Found at i:44355409 original size:26 final size:26
Alignment explanation
Indices: 44355380--44355431 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44355370 CCCTAGGGAG
44355380 TTAATTAAAAAGAGATTTCAATTATT
1 TTAATTAAAAAGAGATTTCAATTATT
44355406 TTAATTAAAAAGAGATTTCAATTATT
1 TTAATTAAAAAGAGATTTCAATTATT
44355432 CAACCTAGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (26 bp):
TTAATTAAAAAGAGATTTCAATTATT
Found at i:44357461 original size:40 final size:40
Alignment explanation
Indices: 44357406--44357573 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
44357396 TGAATGATAC
* *
44357406 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
44357446 CCGGGCTAAGACCCGAAGGCATTCGTACGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
44357486 CCGGGCTAAGACCCGAAGACATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
44357526 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
44357566 CC-GGCTAA
1 CCGGGCTAA
44357574 ATTCCGAAGA
Statistics
Matches: 102, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
39 6 0.06
40 94 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:44357563 original size:80 final size:80
Alignment explanation
Indices: 44357406--44357573 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
44357396 TGAATGATAC
* * * ** *
44357406 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGACATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
*
44357471 TACGAGTTGTTATAT
66 TACGAGTGGTTATAT
* * *
44357486 CCGGGCTAAGACCCGAAGACATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGACATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC-ATTC
* **
44357550 GTGCTTGTGGTTATAT
65 GTACGAGTGGTTATAT
44357566 CC-GGCTAA
1 CCGGGCTAA
44357574 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 65 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
TACGAGTGGTTATAT
Found at i:44362492 original size:55 final size:55
Alignment explanation
Indices: 44362362--44362494 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 55
44362352 CCACAGCCAT
* * * *
44362362 GCGAACCTGCCAAAACAACATGGGCGTACGACACGCCGGTGCCTAGAAACCATGG
1 GCGAACCTGCCAAAACAACACGGGCGTACGACACGCCCGTGACAAGAAACCATGG
* * * ** * * * *
44362417 CCGAACTTGTCAAATTAACACGGGCGTGCGAGATGCCCGTGACAAGAAACCGTGG
1 GCGAACCTGCCAAAACAACACGGGCGTACGACACGCCCGTGACAAGAAACCATGG
44362472 GCGAACCTGCCAAAACAACACGG
1 GCGAACCTGCCAAAACAACACGG
44362495 ATGTGGGCCT
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.32, C:0.29, G:0.27, T:0.12
Consensus pattern (55 bp):
GCGAACCTGCCAAAACAACACGGGCGTACGACACGCCCGTGACAAGAAACCATGG
Found at i:44364587 original size:94 final size:94
Alignment explanation
Indices: 44364423--44364593 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 94
44364413 TTTGTGTGCT
* *
44364423 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATCCAGACGAGGGCTACTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGAACATGGAATCGGCATCCAGACGAGGGCTACAGTAAGACATGTCTG
44364488 AGACATGCATCAACCATATTATGAGAGCC
66 AGACATGCATCAACCATATTATGAGAGCC
* * * * *
44364517 AGTGTAAGACCATGTCTGGAACAT-GACATCGGTA-CAGAGATGAGTGCTAGAGTAAGACATGTC
1 AGTGTAAGACCATGTCTGGAACATGGA-ATCGGCATC-CAGACGAGGGCTACAGTAAGACATGTC
*
44364580 TGGGACATGCATCA
64 TGAGACATGCATCA
44364594 GCCTCGACAG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 3 0.04
94 64 0.96
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGAACATGGAATCGGCATCCAGACGAGGGCTACAGTAAGACATGTCTG
AGACATGCATCAACCATATTATGAGAGCC
Found at i:44368905 original size:40 final size:40
Alignment explanation
Indices: 44368861--44369010 Score: 221
Period size: 40 Copynumber: 3.8 Consensus size: 40
44368851 ATAACCACAA
44368861 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
44368901 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
* * *** *
44368941 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
*
44368981 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
44369011 ATAATCACTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
Found at i:44369011 original size:40 final size:40
Alignment explanation
Indices: 44368845--44369048 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
44368835 CGGGATTCAA
* * *
44368845 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** * *
44368885 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
44368925 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
44368965 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
44369005 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
44369045 CCGG
1 CCGG
44369049 GTATCATTCA
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 140 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:44375507 original size:47 final size:46
Alignment explanation
Indices: 44375396--44375702 Score: 227
Period size: 47 Copynumber: 6.5 Consensus size: 46
44375386 TGATTTGTGC
* * *
44375396 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCCAGACAAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAT-CAGATAAGA
* * *
44375444 GCTAGTGTAAGACATGTCAGGGACATGCATCAGCCAT-ATTATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATCA-GATAAGA
* * * * *
44375490 GCCAGTGTAAGACCATGTCTAGGACATGACATC-GGCATAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGCCAT-CAGATAAGA
* *
44375538 GCCAGAGTAAGACATGTCTGGGACATGCATCAGCC-TC-GACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATCAGATA-AG--A
* * * * *
44375585 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCCA--AGAGT-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATCAGA-TAAGA
* *
44375629 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-CAGATA--AGA
*
44375677 GCCAGTGTAAGACTATGTCTAGGACA
1 GCCAGTGTAAGAC-ATGTCTGGGACA
44375703 CGGCATCGAC
Statistics
Matches: 203, Mismatches: 36, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 31 0.15
45 4 0.02
46 28 0.14
47 83 0.41
48 43 0.21
49 12 0.06
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATCAGATAAGA
Found at i:44375561 original size:94 final size:93
Alignment explanation
Indices: 44375396--44375702 Score: 333
Period size: 94 Copynumber: 3.3 Consensus size: 93
44375386 TGATTTGTGC
* * *
44375396 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACA-AGGGCTAGTGTAAGACATG
1 GCCAGTGTAAGACCATGTCTAGGACAT-GCATCGGCAT--AGAGATAGTGCTAGTGTAAGACATG
*
44375460 TCAGGGACATGCATCAGCCAT-ATTATAAGA
63 TCTGGGACATGCATCAGCCATCATTATAAGA
* *
44375490 GCCAGTGTAAGACCATGTCTAGGACATGACATCGGCATAGAGATGAGTGCCAGAGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTAGGACATG-CATCGGCATAGAGAT-AGTGCTAGTGTAAGACATGT
* * *
44375555 CTGGGACATGCATCAGCC-TCGA-CAGAGATA
64 CTGGGACATGCATCAGCCATC-ATTATA-AGA
* * * *
44375585 GCCAGTGTAAGA-CGTGTCTGGGACACGCATCGGCCA-AGAG-TTGTGCTAGTGTAAGACATGTC
1 GCCAGTGTAAGACCATGTCTAGGACATGCATCGG-CATAGAGATAGTGCTAGTGTAAGACATGTC
*
44375647 TGGGACATGCATCAG-CATGCATATATGAGA
65 TGGGACATGCATCAGCCAT-CAT-TATAAGA
*
44375677 GCCAGTGTAAGACTATGTCTAGGACA
1 GCCAGTGTAAGACCATGTCTAGGACA
44375703 CGGCATCGAC
Statistics
Matches: 179, Mismatches: 22, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
90 1 0.01
91 35 0.20
92 20 0.11
93 23 0.13
94 85 0.47
95 15 0.08
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.21
Consensus pattern (93 bp):
GCCAGTGTAAGACCATGTCTAGGACATGCATCGGCATAGAGATAGTGCTAGTGTAAGACATGTCT
GGGACATGCATCAGCCATCATTATAAGA
Found at i:44383816 original size:47 final size:46
Alignment explanation
Indices: 44383745--44384017 Score: 209
Period size: 47 Copynumber: 5.8 Consensus size: 46
44383735 TAGGGAAGGT
*
44383745 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCAT-ATCTCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCAA
* * *
44383792 GTCGATGCCATGTCCCAAACATGGTCTTACACT-GACT-ATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCATCATCTC-AA
* * * *
44383840 GCCAATGCATGTCCCATG-CATGTCTTACACTAGCTTAT-GTCTCGAG
1 GCCGATGCATGTCCCA-GACATGTCTTACACTAGCTCATCATCTC-AA
* * ** * * *
44383886 GCCGACGCATCTCTTAGACATGTCTTACACTAGC-CCTCGTCTTAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCAA
* * ***
44383931 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCAA
44383980 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCAT
44384018 ACACGAATGA
Statistics
Matches: 182, Mismatches: 30, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 71 0.39
47 78 0.43
48 28 0.15
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCAA
Found at i:44384012 original size:140 final size:140
Alignment explanation
Indices: 44383760--44384014 Score: 356
Period size: 140 Copynumber: 1.8 Consensus size: 140
44383750 TGCCATGTCC
*
44383760 TAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACATGGTCTTACACT
1 TAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAACATGGTCTTACACT
*
44383825 GACTATCATCTCGTAGCCAATGCATGTCCCATGCATGTCTTACACTAGCTTATGTCTCGAGGCCG
66 GACTATCATATCGTAGCCAATGCATGTCCCATGCATGTCTTACACTAGCTTATGTCTCGAGGCCG
44383890 ACGCATCTCT
131 ACGCATCTCT
* * * *
44383900 TAGACAT-GTCTTACACTAGC-CCTCGTCTTAATGCCGATGCCATGTCCCAGACATGGTCTTACA
1 TAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAAACATGGTCTTACA
* * * *
44383963 CTGGCTCTCATAAT-GTGGCCGATGCATGTCCCA-GACATGTCTTACACTAGCT
64 CTGACTATCAT-ATCGTAGCCAATGCATGTCCCATG-CATGTCTTACACTAGCT
44384015 CATACACGAA
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
138 2 0.02
139 19 0.19
140 79 0.78
141 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
TAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAACATGGTCTTACACT
GACTATCATATCGTAGCCAATGCATGTCCCATGCATGTCTTACACTAGCTTATGTCTCGAGGCCG
ACGCATCTCT
Found at i:44393052 original size:43 final size:43
Alignment explanation
Indices: 44392995--44393080 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
44392985 TGCCTCTGAG
44392995 AATAACAGGACTTATAGAGTACCCAGAAGAGATTACTGTAATA
1 AATAACAGGACTTATAGAGTACCCAGAAGAGATTACTGTAATA
44393038 AATAACAGGACTTATAGAGTACCCAGAAGAGATTACTGTAATA
1 AATAACAGGACTTATAGAGTACCCAGAAGAGATTACTGTAATA
44393081 TACTCAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (43 bp):
AATAACAGGACTTATAGAGTACCCAGAAGAGATTACTGTAATA
Found at i:44397067 original size:26 final size:26
Alignment explanation
Indices: 44397009--44397110 Score: 165
Period size: 26 Copynumber: 4.0 Consensus size: 26
44396999 CTGGAGGCCT
44397009 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
44397033 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44397059 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
44397085 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44397111 GGAAAGCCCA
Statistics
Matches: 74, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
23 5 0.07
24 7 0.09
25 10 0.14
26 52 0.70
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:44404504 original size:40 final size:40
Alignment explanation
Indices: 44404417--44404567 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
44404407 AATTGAATGA
* * * **
44404417 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
44404457 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
44404498 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* *
44404537 TATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44404568 AAATCGTGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 81 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:44404581 original size:40 final size:40
Alignment explanation
Indices: 44404498--44404599 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
44404488 TAGTGGCTAC
* * **
44404498 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* * *
44404538 ATCCGGGCTAAGACCCGAGGGCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* * *
44404578 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
44404600 CTTGGTGCGG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
Found at i:44407557 original size:26 final size:24
Alignment explanation
Indices: 44407470--44407577 Score: 137
Period size: 26 Copynumber: 4.4 Consensus size: 24
44407460 CTGGAGGCCT
44407470 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
* *
44407494 AGCTCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
44407518 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCA-A
* *
44407544 AGTCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
44407569 AGCCCTTTT
1 AGCCCTTTT
44407578 GCACTTCTCC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 7 0.09
24 22 0.30
25 21 0.28
26 24 0.32
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:44407651 original size:20 final size:20
Alignment explanation
Indices: 44407626--44407700 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
44407616 TTATGATTAC
*
44407626 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
44407646 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
44407666 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
44407686 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
44407701 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44407657 original size:11 final size:11
Alignment explanation
Indices: 44407626--44407681 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
44407616 TTATGATTAC
44407626 ATCATGTGCAT
1 ATCATGTGCAT
* *
44407637 TTCA--TACAT
1 ATCATGTGCAT
44407646 ATCATGTGCAT
1 ATCATGTGCAT
*
44407657 ATCA--TACAT
1 ATCATGTGCAT
44407666 ATCATGTGCAT
1 ATCATGTGCAT
44407677 ATCAT
1 ATCAT
44407682 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:44407698 original size:9 final size:10
Alignment explanation
Indices: 44407643--44407699 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
44407633 GCATTTCATA
44407643 CATATCATGT
1 CATATCATGT
*
44407653 GCATATCAT-A
1 -CATATCATGT
44407663 CATATCATGT
1 CATATCATGT
*
44407673 GCATATCATAT
1 -CATATCATGT
44407684 CA-ATCATGT
1 CATATCATGT
44407693 -ATATCAT
1 CATATCAT
44407700 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:44407756 original size:25 final size:25
Alignment explanation
Indices: 44407728--44407775 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44407718 ATAATTAAAC
* * *
44407728 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
44407753 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
44407776 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:44410568 original size:14 final size:15
Alignment explanation
Indices: 44410538--44410571 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
44410528 TGAACTTTTG
44410538 ATATTTATTACATAA
1 ATATTTATTACATAA
*
44410553 ATATTTGTTA-ATAA
1 ATATTTATTACATAA
44410567 ATATT
1 ATATT
44410572 AAACTGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
ATATTTATTACATAA
Found at i:44422348 original size:25 final size:25
Alignment explanation
Indices: 44422290--44422348 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
44422280 CAGCTCACAT
* *
44422290 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACTGTTATCCAGCTTGGAG
44422315 GAGCTTACTGTTATCCAGCTTGGAG
1 GAGCTTACTGTTATCCAGCTTGGAG
44422340 GAGCTTACT
1 GAGCTTACT
44422349 AATTATCGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (25 bp):
GAGCTTACTGTTATCCAGCTTGGAG
Found at i:44422812 original size:17 final size:17
Alignment explanation
Indices: 44422790--44422831 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
44422780 TACAAGTCAG
* *
44422790 ATATAATATACTTTTAA
1 ATATAATACACATTTAA
44422807 ATATAA-ACACATTTAA
1 ATATAATACACATTTAA
44422823 ATA-AATACA
1 ATATAATACA
44422832 TATAATAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATACACATTTAA
Found at i:44428971 original size:32 final size:31
Alignment explanation
Indices: 44428910--44428978 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
44428900 AGTTCAAACC
*
44428910 ACAGAAACAGAATAAATTGGCCTTAGCCCAGA
1 ACAGAAACAGAATAAA-TGGCCATAGCCCAGA
* *
44428942 ACAGAATACAGAATTAA-GGCCATAGGCCCATA
1 ACAGAA-ACAGAATAAATGGCCATA-GCCCAGA
44428974 ACAGA
1 ACAGA
44428979 TCAGATCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.19
32 17 0.53
33 9 0.28
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (31 bp):
ACAGAAACAGAATAAATGGCCATAGCCCAGA
Found at i:44429152 original size:27 final size:26
Alignment explanation
Indices: 44429117--44429228 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
44429107 AGCATGGCTG
* *
44429117 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
44429143 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
44429171 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
44429198 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
44429225 CCAG
1 CCAG
44429229 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:44429657 original size:8 final size:8
Alignment explanation
Indices: 44429644--44429680 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
44429634 AAAGTACCAA
44429644 CTTTTCGG
1 CTTTTCGG
*
44429652 CATTTCGG
1 CTTTTCGG
44429660 CTTTTCGG
1 CTTTTCGG
44429668 CTTTTCGG
1 CTTTTCGG
44429676 CTTTT
1 CTTTT
44429681 GCCGATCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.24, G:0.22, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:44430697 original size:24 final size:24
Alignment explanation
Indices: 44430665--44430714 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
44430655 ACACAGTTCA
44430665 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
44430689 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
44430713 CC
1 CC
44430715 AGACAGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.42, G:0.04, T:0.32
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:44436970 original size:27 final size:26
Alignment explanation
Indices: 44436935--44437046 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
44436925 AGCATGGCTG
* *
44436935 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
44436961 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
44436989 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
44437016 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
44437043 CCAG
1 CCAG
44437047 GACACTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:44436999 original size:54 final size:54
Alignment explanation
Indices: 44436935--44437046 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
44436925 AGCATGGCTG
*
44436935 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
44436989 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
44437043 CCAG
1 CCAG
44437047 GACACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:44441254 original size:50 final size:50
Alignment explanation
Indices: 44441133--44441725 Score: 447
Period size: 50 Copynumber: 11.9 Consensus size: 50
44441123 ATTGTGAGAA
* * * *** *
44441133 CACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* * *
44441185 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * ** * * *
44441235 CGCATGTCTAGTACGAAGTGCAGGCTACTATGCATACCCGGCA-ACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAG-ATAGTT-AGGT
* * *
44441286 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
44441336 CACATGTGTAG---TAAGTGTAGGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * * *
44441383 CGCATGTCTAGTACGAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
44441434 CACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
44441484 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * *
44441534 CGA-ATGTGTAGTACTAAATGCAAGCTATTACGCGTACCCA-ACAACTTCA-AT
1 C-ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGA-TAGTT-AGGT
* * ** *
44441585 CACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTATTA-A-AGCTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
44441633 CA-AGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGTT-GGC
1 CACA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
44441682 CGCATGTGTAGCACTAAGTGAAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
44441726 CTTCGGTTAC
Statistics
Matches: 419, Mismatches: 101, Indels: 45
0.74 0.18 0.08
Matches are distributed among these distances:
47 42 0.10
48 37 0.09
49 40 0.10
50 154 0.37
51 108 0.26
52 38 0.09
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:44441311 original size:101 final size:100
Alignment explanation
Indices: 44441179--44441664 Score: 402
Period size: 101 Copynumber: 4.9 Consensus size: 100
44441169 TAAGATGGTT
* * * * *
44441179 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGT
* * *
44441244 AGTACGAAGTGCAGGCTACTATGCATACCCGGCA-AC
66 AGTACTAAGTGCAGGCTACTACGCATA-CCAG-ATAC
* *
44441280 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTG
1 TT-AGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTG
* *** *
44441344 TAG---TAAGTGTAGGCTACTACATGTACCAGATAG
65 TAGTACTAAGTGCAGGCTACTACGCATACCAGATAC
* * * * * * * * * * * *
44441377 TTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-ATCACGTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCACATGT
* ** * **
44441441 GTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGG
64 GTAGTACTAAGTGCAGGCTACTACGCATACCAGATAC
* *
44441478 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAAGTCGA-ATGTG
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC-ACATGTG
* * * * *
44441542 TAGTACTAAATGCAAGCTATTACGCGTACCCA-ACAAC
65 TAGTACTAAGTGCAGGCTACTACGCATA-CCAGA-TAC
* ** *
44441579 TTCA-ATCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTATTA-A-AGCTAGGTCA-AGTGT
1 TT-AGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA-TGT
44441640 GTAGTACTAAGTGCAGGCTACTACG
64 GTAGTACTAAGTGCAGGCTACTACG
44441665 TGTATCGGAT
Statistics
Matches: 310, Mismatches: 61, Indels: 30
0.77 0.15 0.07
Matches are distributed among these distances:
96 2 0.01
97 40 0.13
98 31 0.10
99 34 0.11
100 36 0.12
101 165 0.53
102 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (100 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGT
AGTACTAAGTGCAGGCTACTACGCATACCAGATAC
Found at i:44441603 original size:151 final size:151
Alignment explanation
Indices: 44441137--44441719 Score: 791
Period size: 148 Copynumber: 3.9 Consensus size: 151
44441127 TGAGAACACA
* * * * *
44441137 TGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
*
44441202 GTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATG
64 GTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATG
* *
44441267 CATACCCGGCAACTTCAATCACG
129 CGTACCCGACAACTTCAATCACG
*
44441290 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAG---TAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
*
44441352 GTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
44441417 TACCCGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
*
44441438 TGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * * * * * *
44441503 GCAGGCTACTACGTGTACCAGATAGTTAAGTCGAATGTGTAGTACTAAATGCAAGCTATTACGCG
66 GCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
*
44441568 TACCCAACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
* * * * *
44441589 TGTGTAGTAGTAAGTGCAGGCTACTACGTGTATTA-A-AGCTAGGTCAAGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * * * * * *
44441652 GCAGGCTACTACGTGTATCGGATTGTT-GGCCGCATGTGTAGCACTAAGTGAAGGCTACTATGCG
66 GCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
44441716 TACC
131 TACC
44441720 AGATAGCTTC
Statistics
Matches: 388, Mismatches: 39, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
148 176 0.45
149 48 0.12
150 1 0.00
151 128 0.33
153 35 0.09
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
TACCCGACAACTTCAATCACG
Found at i:44441717 original size:299 final size:300
Alignment explanation
Indices: 44441137--44441719 Score: 789
Period size: 299 Copynumber: 1.9 Consensus size: 300
44441127 TGAGAACACA
* * *
44441137 TGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTACAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAA
* * * * * *
44441202 GTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATG
65 GTGCAGGCTACTACATGTACCAGATAGTTAAGTCGAATGTCTAGTACGAAATGCAAGCTACTACG
** * *
44441267 CATACCCGGCAACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
130 CATACCCAACAACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGCT
* * *
44441332 AGGTCACATGTGTAGTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTAC
195 AGGTCACATGTGTAGTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGCCGCATGTCTAGCAC
*
44441397 GAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACG
260 GAAGTGAAGGCTACTATGCGTACCCGACAACTTCAATCACG
* * *
44441438 TGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTACAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAG
* * * *
44441502 TGCAGGCTACTACGTGTACCAGATAGTTAAGTCGAATGTGTAGTACTAAATGCAAGCTATTACGC
66 TGCAGGCTACTACATGTACCAGATAGTTAAGTCGAATGTCTAGTACGAAATGCAAGCTACTACGC
* * *
44441567 GTACCCAACAACTTCAATCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTATTA-A-AGCTA
131 ATACCCAACAACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGCTA
* * * * *
44441630 GGTCA-AGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGTT-GGCCGCATGTGTAG
196 GGTCACA-TGTGTAG---TAAGTGCAGGCTACTACATGTACCAGATAGTTAGGCCGCATGTCTAG
*
44441693 CACTAAGTGAAGGCTACTATGCGTACC
257 CACGAAGTGAAGGCTACTATGCGTACC
44441720 AGATAGCTTC
Statistics
Matches: 245, Mismatches: 33, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
296 1 0.00
297 15 0.06
298 1 0.00
299 167 0.68
300 27 0.11
301 34 0.14
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (300 bp):
TGTGTAGTACTAAGTACAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAG
TGCAGGCTACTACATGTACCAGATAGTTAAGTCGAATGTCTAGTACGAAATGCAAGCTACTACGC
ATACCCAACAACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGCTA
GGTCACATGTGTAGTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGCCGCATGTCTAGCACG
AAGTGAAGGCTACTATGCGTACCCGACAACTTCAATCACG
Found at i:44441944 original size:16 final size:15
Alignment explanation
Indices: 44441923--44441952 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44441913 GAATGGAGTA
44441923 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
44441939 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
44441953 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:44451684 original size:29 final size:29
Alignment explanation
Indices: 44451649--44451713 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
44451639 GTGACGAGAT
*
44451649 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
44451678 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
44451707 CGGCACT
1 TGGCACT
44451714 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:44463737 original size:29 final size:28
Alignment explanation
Indices: 44463653--44463742 Score: 101
Period size: 29 Copynumber: 3.2 Consensus size: 28
44463643 TACATACATG
* *
44463653 CATATGGCCCACT-GGCCCAATCTCATT
1 CATATGGCCCATTAGGCCAAATCTCATT
* * *
44463680 TATATGGCCCATTAGGCCCAAAACACATT
1 CATATGGCCCATTAGG-CCAAATCTCATT
*
44463709 CGTATGGCCCATTAGGCCTAAATCTCATT
1 CATATGGCCCATTAGGCC-AAATCTCATT
44463738 CATAT
1 CATAT
44463743 TCATGATTTC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 11 0.22
28 4 0.08
29 35 0.70
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCAAATCTCATT
Found at i:44468574 original size:50 final size:50
Alignment explanation
Indices: 44468458--44468702 Score: 303
Period size: 50 Copynumber: 4.9 Consensus size: 50
44468448 ATTGTGAGAA
* * * * *
44468458 CACATGTGCAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAG--TTAGGT
* *
44468510 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTTAGGT
* * *
44468560 CGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTTAGGT
** * * *
44468610 CATGTGTGTAGTACTAAGTGCACGCTACTATGTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTTAGGT
* * *
44468659 CACATGTGTAGCACTAAGTGAAGGCTACTATGCGTATCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAG
44468703 CTTCGGTTAC
Statistics
Matches: 168, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
49 39 0.23
50 92 0.55
52 37 0.22
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATAGTTAGGT
Found at i:44468645 original size:100 final size:100
Alignment explanation
Indices: 44468458--44468700 Score: 335
Period size: 100 Copynumber: 2.4 Consensus size: 100
44468448 ATTGTGAGAA
* * * *
44468458 CACATGTGCAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACATGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGG-TTTAGGTCACATGTGTAGTA
*
44468523 CTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
65 CTAAGTGCACGCTACTACGTGTACCAGATAGTT-GGT
* * **
44468560 CGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCATGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTTAGGTCACATGTGTAGTAC
* *
44468624 TAAGTGCACGCTACTATGTGTACCAGATTGTTGGT
66 TAAGTGCACGCTACTACGTGTACCAGATAGTTGGT
* * *
44468659 CACATGTGTAGCACTAAGTGAAGGCTACTATGCGTATCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT
44468701 AGCTTCGGTT
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 40 0.32
100 47 0.38
102 38 0.30
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTTAGGTCACATGTGTAGTAC
TAAGTGCACGCTACTACGTGTACCAGATAGTTGGT
Found at i:44469643 original size:29 final size:29
Alignment explanation
Indices: 44469582--44469680 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 29
44469572 ATAGTAAGTC
44469582 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
*
44469610 CGCACACTTAGTGCTATACAATTCAAGCT
1 CGCACACTTAGTGCTATACAATTCAAACT
*
44469639 CGCACACTTAGTACTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
44469667 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44469681 CAATCTCATT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.49
29 32 0.49
30 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:44476836 original size:29 final size:29
Alignment explanation
Indices: 44476774--44476872 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 29
44476764 ACAGTAAGTC
44476774 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
*
44476802 CGCACACTTAGTGCTATACAATTCAAGCT
1 CGCACACTTAGTGCTATACAATTCAAACT
*
44476831 CACACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
44476859 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44476873 CAATCTCATT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.49
29 32 0.49
30 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:44478528 original size:16 final size:15
Alignment explanation
Indices: 44478507--44478536 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44478497 GAATGAAGTA
44478507 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
44478523 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
44478537 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:44480239 original size:25 final size:25
Alignment explanation
Indices: 44480179--44480240 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
44480169 CTCACATGAG
* *
44480179 CTTACCGTTATTCAGCTCGAAAGAT
1 CTTACCGTTATCCAGCTCGAAAGAA
* *
44480204 CTTATCGTTATCCAGCTCG-GAGAA
1 CTTACCGTTATCCAGCTCGAAAGAA
44480228 CTTACCGATTATC
1 CTTACCG-TTATC
44480241 ACTCGTATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 9 0.29
25 22 0.71
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (25 bp):
CTTACCGTTATCCAGCTCGAAAGAA
Found at i:44483242 original size:28 final size:27
Alignment explanation
Indices: 44483210--44483275 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
44483200 TTGGAGGAAG
*
44483210 TACTG-TATTAGTGGTTTTGCCACGTAAT
1 TACTGCTATTAGTGGCTTTGCCACGT--T
* *
44483238 TACTGCT-CTGGTGGCTTTGCCACGTT
1 TACTGCTATTAGTGGCTTTGCCACGTT
*
44483264 TACTGTTATTAG
1 TACTGCTATTAG
44483276 CAACTTTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 7 0.23
27 2 0.07
28 20 0.67
29 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (27 bp):
TACTGCTATTAGTGGCTTTGCCACGTT
Found at i:44485397 original size:54 final size:56
Alignment explanation
Indices: 44485313--44485446 Score: 197
Period size: 54 Copynumber: 2.4 Consensus size: 56
44485303 TGAGCCCTTA
*
44485313 GCCCGTGTG-CAACACTGACTTTA-AAGCACGGCCATGACACATGCCCGTGTGGCCT
1 GCCCGTG-GACAACACTGACTTTAGAAGCACGGCCATGACACACGCCCGTGTGGCCT
44485368 GCCCGTGGACAA-ACTGACTTTAGAA-CACGGCCATGACACACGCCCGTGTGGCCT
1 GCCCGTGGACAACACTGACTTTAGAAGCACGGCCATGACACACGCCCGTGTGGCCT
*
44485422 GCCTGTGGACAACACTTG-CTTTAGA
1 GCCCGTGGACAACAC-TGACTTTAGA
44485447 TTTTAAGTGC
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
54 50 0.68
55 21 0.29
56 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.20
Consensus pattern (56 bp):
GCCCGTGGACAACACTGACTTTAGAAGCACGGCCATGACACACGCCCGTGTGGCCT
Found at i:44486393 original size:46 final size:47
Alignment explanation
Indices: 44486338--44486504 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 47
44486328 TTTGTAGCCG
*
44486338 ATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCAAGGCCA
1 ATGCATGTCCCAAACATGTCTTACACTGGCTCTACATCTCGAGGCCA
* * * * *
44486384 ATGCATGTCCCAGACATGTCTTACACTAGCTCTA-GTCTCGATGCCG
1 ATGCATGTCCCAAACATGTCTTACACTGGCTCTACATCTCGAGGCCA
* * * * *
44486430 ATGCCATGTCCTAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGCCA
1 ATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTACAT-CTCGAGGCCA
*
44486478 ATGCATGTCCTAAACATGTCTTACACT
1 ATGCATGTCCCAAACATGTCTTACACT
44486505 AGCACACGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 49 0.49
47 28 0.28
48 22 0.22
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAAACATGTCTTACACTGGCTCTACATCTCGAGGCCA
Found at i:44486462 original size:94 final size:92
Alignment explanation
Indices: 44486334--44486507 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 92
44486324 ACATTTTGTA
* *
44486334 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCAAGGCCAATGCATGTCCCAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-AAGGCCAATGCATGTCCCAA
44486397 ACATGTCTTACACTAGCTCTAGTCTCGAT
64 ACATGTCTTACACTAGCTCTAGTCTCGAT
* * * ** *
44486426 GCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATAATGTGGCCAATGCATGTCCTAA
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATAAGGCCAATGCATGTCCCAA
44486491 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
44486508 ACACGAATGA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 49 0.70
95 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATAAGGCCAATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTAGTCTCGAT
Found at i:44488340 original size:30 final size:30
Alignment explanation
Indices: 44488304--44488379 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
44488294 TGGTTCTCAC
* *
44488304 ATCCCTTTTCGTAATTCGATAACCAAAGTT
1 ATCCCTTTTCATAATTCGATAACCAAAGCT
* * *
44488334 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCAAAGCT
44488364 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
44488380 TGATTGTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAACCAAAGCT
Found at i:44488398 original size:30 final size:30
Alignment explanation
Indices: 44488364--44488535 Score: 136
Period size: 30 Copynumber: 5.7 Consensus size: 30
44488354 AGCCGAAGCT
*
44488364 ATCCCTTTTCATAATTTGATTGTCATCACC
1 ATCCCTTTTCATAATTTGATAGTCATCACC
** * ***
44488394 ATCCCTTTTCATTGTTTGATGGTTGCCACC
1 ATCCCTTTTCATAATTTGATAGTCATCACC
* **
44488424 ATCCCTTTTTCATGATTTGATAG-CAAAAGCC
1 ATCCC-TTTTCATAATTTGATAGTCATCA-CC
* * *
44488455 ATCCCTTTTCATAGA-TCGATAGCCA-CGGCC
1 ATCCCTTTTCATA-ATTTGATAGTCATC-ACC
* * *
44488485 ATCCCTTTTCATAATTTGATGGTCGTCACT
1 ATCCCTTTTCATAATTTGATAGTCATCACC
44488515 ATCCCTTTTCATAA-TTGATAG
1 ATCCCTTTTCATAATTTGATAG
44488536 CCGAAGTTAT
Statistics
Matches: 111, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
29 7 0.06
30 79 0.71
31 25 0.23
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCATCACC
Found at i:44488461 original size:91 final size:89
Alignment explanation
Indices: 44488334--44488555 Score: 250
Period size: 91 Copynumber: 2.5 Consensus size: 89
44488324 AACCAAAGTT
* * * *
44488334 ATCCCTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATA-ATTTGATTGTCATC-ACCATC
1 ATCCCTTTTCATA-TTTGATAGCCGAAGCTATCCCTTTTCATAGA-TCGATAGCCA-CGACCATC
** *
44488397 CCTTTTCATTGTTTGATGGTTGCCACC
63 CCTTTTCATAATTTGATGGTCGCCACC
** * *
44488424 ATCCCTTTTTCATGATTTGATAGCAAAAGCCATCCCTTTTCATAGATCGATAGCCACGGCCATCC
1 ATCCC-TTTTCAT-ATTTGATAGCCGAAGCTATCCCTTTTCATAGATCGATAGCCACGACCATCC
* *
44488489 CTTTTCATAATTTGATGGTCGTCACT
64 CTTTTCATAATTTGATGGTCGCCACC
* *
44488515 ATCCCTTTTCATAATTGATAGCCGAAGTTATCCCTTTTCAT
1 ATCCCTTTTCATATTTGATAGCCGAAGCTATCCCTTTTCAT
44488556 TCGTCAATGA
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
89 24 0.22
90 13 0.12
91 71 0.65
92 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (89 bp):
ATCCCTTTTCATATTTGATAGCCGAAGCTATCCCTTTTCATAGATCGATAGCCACGACCATCCCT
TTTCATAATTTGATGGTCGCCACC
Found at i:44496606 original size:40 final size:39
Alignment explanation
Indices: 44496483--44496610 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
44496473 AAATTGAATG
* * * *
44496483 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTG--ATT
* **
44496523 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGATT
*
44496563 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGATT
44496603 ATATCCGG
1 ATATCCGG
44496611 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 71 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGATT
Found at i:44504552 original size:40 final size:39
Alignment explanation
Indices: 44504430--44504556 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
44504420 AAATTGAATG
* * *
44504430 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTG--ATT
* **
44504469 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGATT
*
44504509 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGATT
44504549 ATATCCGG
1 ATATCCGG
44504557 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 14 0.19
40 58 0.78
41 1 0.01
42 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGATT
Found at i:44511320 original size:40 final size:40
Alignment explanation
Indices: 44511216--44511343 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
44511206 CGGAATATAA
** *
44511216 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* * * *
44511256 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
44511296 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
44511336 CCGGATAT
1 CCGGATAT
44511344 CATTCAATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:44529327 original size:17 final size:17
Alignment explanation
Indices: 44529307--44529341 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
44529297 TATATGTGTC
*
44529307 ATTTGATTTTCCAAATG
1 ATTTGATTTGCCAAATG
44529324 ATTTGATTTGCCAAATG
1 ATTTGATTTGCCAAATG
44529341 A
1 A
44529342 AGGCATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (17 bp):
ATTTGATTTGCCAAATG
Found at i:44535349 original size:40 final size:40
Alignment explanation
Indices: 44535275--44535495 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
44535265 AACCCAAGTA
* * *
44535275 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
44535314 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
44535354 CCTTTGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
44535394 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44535434 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
44535473 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
44535496 CATCTGAATA
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
39 37 0.23
40 120 0.75
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:44537059 original size:40 final size:40
Alignment explanation
Indices: 44536976--44537195 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
44536966 ACCCAAGTAT
** * *
44536976 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44537014 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44537054 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
44537094 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
44537134 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
44537175 CCTCGGG-CTTAGCCCGTATAT
1 CTTCGGGTCTTAGCCCGGATAT
44537196 CATTCGAATA
Statistics
Matches: 151, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 109 0.72
41 15 0.10
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44545109 original size:40 final size:40
Alignment explanation
Indices: 44545026--44545246 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
44545016 ACCCAAGTAT
** * *
44545026 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44545064 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44545104 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
44545144 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
44545184 CTTTGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
44545225 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
44545247 CATTCGAATA
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 96 0.64
41 28 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44546799 original size:92 final size:92
Alignment explanation
Indices: 44546671--44546840 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
44546661 GCCCATAAGT
* * *
44546671 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44546736 CGAGTTCGGATGCCTAGTTACACTCAC
66 CGAGTTCGGATGCCTAGTTACACTCAC
*
44546763 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44546828 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44546841 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACACTCAC
Found at i:44546856 original size:46 final size:46
Alignment explanation
Indices: 44546663--44546842 Score: 229
Period size: 46 Copynumber: 3.9 Consensus size: 46
44546653 TGTAACCCGC
* * * *
44546663 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
44546709 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
* * *
44546755 ACACTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCA-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
44546801 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
44546843 AACCATCCTA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 5 0.04
46 104 0.92
47 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44552412 original size:18 final size:18
Alignment explanation
Indices: 44552389--44552425 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
44552379 TAAAATGAAT
44552389 AGTACAAAGATAGAGATA
1 AGTACAAAGATAGAGATA
44552407 AGTACAAAGATAGAGATA
1 AGTACAAAGATAGAGATA
44552425 A
1 A
44552426 AAACTAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.22, T:0.16
Consensus pattern (18 bp):
AGTACAAAGATAGAGATA
Found at i:44553769 original size:49 final size:48
Alignment explanation
Indices: 44553667--44553790 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 48
44553657 GATAGGCTAT
* * * *
44553667 TGGTAGGGCATGTTAGTTGCTAACCAGATTGGCGTATGAATTGGGCCAT
1 TGGTA-GGCATGTTAGTTGCTAACCAGATTGACGGATGAATCGGGCCAC
* *
44553716 TGGTAGGACATGTTAGTTGCTAACCAGGTTGACAGAGATG-A-CGGGTCAC
1 TGGTAGG-CATGTTAGTTGCTAACCAGATTGAC-G-GATGAATCGGGCCAC
*
44553765 TGGTATGGCATGTTAGTTACTAACCA
1 TGGTA-GGCATGTTAGTTGCTAACCA
44553791 ACCTGTTGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
48 2 0.03
49 55 0.86
50 4 0.06
51 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (48 bp):
TGGTAGGCATGTTAGTTGCTAACCAGATTGACGGATGAATCGGGCCAC
Found at i:44557602 original size:21 final size:24
Alignment explanation
Indices: 44557559--44557604 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
44557549 ACTTCTCACT
44557559 CATTTTTCTCTCTTCATTCCCTTC
1 CATTTTTCTCTCTTCATTCCCTTC
*
44557583 CATTTTT-TCT-TT-ATTTCCTTC
1 CATTTTTCTCTCTTCATTCCCTTC
44557604 C
1 C
44557605 CCTATTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 2 0.10
23 3 0.14
24 7 0.33
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.59
Consensus pattern (24 bp):
CATTTTTCTCTCTTCATTCCCTTC
Found at i:44557964 original size:20 final size:20
Alignment explanation
Indices: 44557941--44557978 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
44557931 CCTCAGTAAG
44557941 ATGTTTGATTAAGTAAAACC
1 ATGTTTGATTAAGTAAAACC
44557961 ATGTTTGATTAAGTAAAA
1 ATGTTTGATTAAGTAAAA
44557979 TCGTGACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGTTTGATTAAGTAAAACC
Found at i:44566853 original size:129 final size:129
Alignment explanation
Indices: 44566701--44566958 Score: 419
Period size: 129 Copynumber: 2.0 Consensus size: 129
44566691 AAGCTCATAA
* *
44566701 TAATACTCTACTAAGGACCTTTTAAGAATAATCATATTATTCTCAGGATATTATTATAAAATAAT
1 TAATACTCGACTAAGGACCTTTTAAGAATAATCATATTATTCTCAAGATATTATTATAAAATAAT
** * *
44566766 TTATTTATATATTCAGAAAAGAAACTGAAATAATAATGATAATA-CTTTGTATTAACAAACGAGG
66 TTATTTATATACCCAAAAAAGAAACTGAAATAATAATGATAATATC-TTATATTAACAAACGAGG
* * *
44566830 TAATACTCGACTAAGGACCTTTTAAGAATAATTATATTATTCTCAATATATTATTATAAAATAGT
1 TAATACTCGACTAAGGACCTTTTAAGAATAATCATATTATTCTCAAGATATTATTATAAAATAAT
44566895 TTATTTATATACCCAAAAAAGAAACTGAAATAATAATGATAATATCTTATATTAACAAACGAGG
66 TTATTTATATACCCAAAAAAGAAACTGAAATAATAATGATAATATCTTATATTAACAAACGAGG
44566959 CAAAACAAGT
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
129 118 0.99
130 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.35
Consensus pattern (129 bp):
TAATACTCGACTAAGGACCTTTTAAGAATAATCATATTATTCTCAAGATATTATTATAAAATAAT
TTATTTATATACCCAAAAAAGAAACTGAAATAATAATGATAATATCTTATATTAACAAACGAGG
Found at i:44568391 original size:27 final size:27
Alignment explanation
Indices: 44568353--44568405 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
44568343 GCAAGAAGCT
44568353 AAACACTTATCAAAAATTGAGAGCAGA
1 AAACACTTATCAAAAATTGAGAGCAGA
44568380 AAACACTTATCAAAAATTGAGAGCAG
1 AAACACTTATCAAAAATTGAGAGCAG
44568406 CAAGTAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (27 bp):
AAACACTTATCAAAAATTGAGAGCAGA
Found at i:44570927 original size:44 final size:44
Alignment explanation
Indices: 44570872--44570959 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
44570862 GATGAATAGC
*
44570872 TAATTCGGTTTGTGCTCTCATAATTCAAGTTCATTAAATAAATA
1 TAATTCAGTTTGTGCTCTCATAATTCAAGTTCATTAAATAAATA
*
44570916 TAATTCAGTTTGTGCTCTCATAATTCAAGTTCGTTAAATAAATA
1 TAATTCAGTTTGTGCTCTCATAATTCAAGTTCATTAAATAAATA
44570960 AACATAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (44 bp):
TAATTCAGTTTGTGCTCTCATAATTCAAGTTCATTAAATAAATA
Found at i:44572745 original size:29 final size:29
Alignment explanation
Indices: 44572703--44572762 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
44572693 GTCAAGTTAG
44572703 GCTAAGTTGTTTCGGCAACGGAAGGTGAC
1 GCTAAGTTGTTTCGGCAACGGAAGGTGAC
44572732 GCTAAGTTGTTTCGGCAACGGAAGGTGAC
1 GCTAAGTTGTTTCGGCAACGGAAGGTGAC
44572761 GC
1 GC
44572763 CACACATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.23
Consensus pattern (29 bp):
GCTAAGTTGTTTCGGCAACGGAAGGTGAC
Found at i:44576903 original size:95 final size:95
Alignment explanation
Indices: 44576747--44576925 Score: 340
Period size: 95 Copynumber: 1.9 Consensus size: 95
44576737 ATGAGTCTGA
*
44576747 AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
1 AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGAGTATGCATTAGTGATCTTTCTCTTCTC
44576812 TAATTCCTCTATTATCAAAGATTAGTCTAG
66 TAATTCCTCTATTATCAAAGATTAGTCTAG
*
44576842 AGTAATATTCCAAATATAAGTACCTGATAAGCAAGAGAGTATGCATTAGTGATCTTTCTCTTCTC
1 AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGAGTATGCATTAGTGATCTTTCTCTTCTC
44576907 TAATTCCTCTATTATCAAA
66 TAATTCCTCTATTATCAAA
44576926 TCCACACATT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (95 bp):
AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGAGTATGCATTAGTGATCTTTCTCTTCTC
TAATTCCTCTATTATCAAAGATTAGTCTAG
Found at i:44592829 original size:21 final size:21
Alignment explanation
Indices: 44592803--44592847 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
44592793 CAATTAACCT
44592803 ATTACTAGGGGTATGATGGTC
1 ATTACTAGGGGTATGATGGTC
44592824 ATTACTAGGGGTATGATGGTC
1 ATTACTAGGGGTATGATGGTC
44592845 ATT
1 ATT
44592848 TCGTCGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.36
Consensus pattern (21 bp):
ATTACTAGGGGTATGATGGTC
Found at i:44593135 original size:17 final size:18
Alignment explanation
Indices: 44593113--44593146 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
44593103 TTATGCTGTG
44593113 GGGCCCACA-AGCCCATT
1 GGGCCCACACAGCCCATT
44593130 GGGCCCACACAGCCCAT
1 GGGCCCACACAGCCCAT
44593147 CTTGGCCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.44, G:0.24, T:0.09
Consensus pattern (18 bp):
GGGCCCACACAGCCCATT
Found at i:44595840 original size:80 final size:80
Alignment explanation
Indices: 44595756--44595904 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44595746 TATGGTAACC
* * * *
44595756 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44595820 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44595836 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44595901 CCGG
66 CCGG
44595905 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:44595846 original size:40 final size:38
Alignment explanation
Indices: 44595797--44595904 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44595787 ATCACGATTT
*
44595797 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44595837 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44595877 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44595905 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:44603798 original size:15 final size:17
Alignment explanation
Indices: 44603780--44603811 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44603770 TAGCATAATT
44603780 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
44603795 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
44603812 CAAGTATCAA
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:44605071 original size:21 final size:22
Alignment explanation
Indices: 44605025--44605071 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
44605015 TCTTAATCTA
44605025 TAAT-ATCAAATTTATCTCATT
1 TAATCATCAAATTTATCTCATT
*
44605046 CAATCATCAAA-TTAT-TCAATT
1 TAATCATCAAATTTATCTC-ATT
44605067 TAATC
1 TAATC
44605072 CCAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 14 0.64
22 6 0.27
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATCATCAAATTTATCTCATT
Found at i:44605177 original size:17 final size:17
Alignment explanation
Indices: 44605155--44605195 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
44605145 CGTAAAATTA
44605155 TTTTCATTTATTCACAT
1 TTTTCATTTATTCACAT
44605172 TTTTCATTTATTCACAT
1 TTTTCATTTATTCACAT
44605189 TTTTCAT
1 TTTTCAT
44605196 CACTCAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTCATTTATTCACAT
Found at i:44607852 original size:51 final size:51
Alignment explanation
Indices: 44607712--44607853 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
44607702 CGGATGCCCG
* *
44607712 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTATCTTCTTCACAAA
* * * *
44607763 GTGGCCTTCACATAGTACCACACTTGTGACCAAGGCTATCTT-TTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTATCTTCTT-CACAAA
* **
44607814 GTGGCCTGCACCTAGTACCACACAGGTGATCAAAGCTATC
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTATC
44607854 GGTAAGCATA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.03
51 74 0.96
52 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACAAA
Found at i:44607945 original size:50 final size:50
Alignment explanation
Indices: 44607806--44607947 Score: 144
Period size: 50 Copynumber: 2.8 Consensus size: 50
44607796 GGCTATCTTT
* * * * * * *
44607806 TACACATAGTGGCCTGCACCTAGTACCACACAGGTGATCAAAGCTATCGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGG
* * **
44607856 TA-AGCATAGTAGCCTACACTTAATACTACACACCCGACCTAA-CCATCTGG
1 TACA-CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATC-GG
*
44607906 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
44607948 AACCTTTTTA
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
49 5 0.07
50 67 0.92
51 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGG
Done.