Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 167 of 235
Found at i:56364358 original size:40 final size:40
Alignment explanation
Indices: 56363323--56364355 Score: 1915
Period size: 40 Copynumber: 25.8 Consensus size: 40
56363313 ATTACCACAA
* * * ** *
56363323 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
*
56363363 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363403 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTC
56363445 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363485 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363525 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363565 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363605 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363645 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363685 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363725 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363765 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363805 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363845 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363885 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363925 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56363965 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56364005 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56364045 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56364085 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56364125 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56364165 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56364205 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
56364245 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* * *
56364285 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
56364325 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATA
56364356 AAAATCAAAT
Statistics
Matches: 977, Mismatches: 13, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 933 0.95
41 4 0.00
42 39 0.04
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:56368307 original size:76 final size:76
Alignment explanation
Indices: 56368209--56368356 Score: 253
Period size: 76 Copynumber: 1.9 Consensus size: 76
56368199 TTGTTAATAA
*
56368209 AAAGATAGTAATTACCAGTACTTTTAGTCCTCGTGGATACGATATTTCCGGTCTCACCAT-AACT
1 AAAGATAGTAATTACCAGTACTTTTAGTCCTCGTGGATACGATATTTCCAGTCTCACC-TCAACT
56368273 ATACTACTATTC
65 ATACTACTATTC
* *
56368285 AAAGATAGTAATTACTAGTACTTTTAGTCCTCGTGGATACGATATTTCTAGTCTCACCTCAACTA
1 AAAGATAGTAATTACCAGTACTTTTAGTCCTCGTGGATACGATATTTCCAGTCTCACCTCAACTA
56368350 TACTACT
66 TACTACT
56368357 GTTCGATAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
75 1 0.01
76 67 0.99
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (76 bp):
AAAGATAGTAATTACCAGTACTTTTAGTCCTCGTGGATACGATATTTCCAGTCTCACCTCAACTA
TACTACTATTC
Found at i:56372235 original size:38 final size:38
Alignment explanation
Indices: 56372095--56372215 Score: 152
Period size: 38 Copynumber: 3.1 Consensus size: 38
56372085 AAACCCAAAC
* * ***
56372095 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTTAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* * *
56372135 ATAATACCAGCACTAGGCTTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
56372173 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
56372211 ATAAT
1 ATAAT
56372216 TCTAGCATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 46 0.66
39 3 0.04
40 21 0.30
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:56373513 original size:221 final size:221
Alignment explanation
Indices: 56373130--56373572 Score: 886
Period size: 221 Copynumber: 2.0 Consensus size: 221
56373120 CCACTGCAAG
56373130 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
1 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
56373195 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGTT
66 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGTT
56373260 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
131 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
56373325 CTCTTCACTATGAATCAAATTTCTCA
196 CTCTTCACTATGAATCAAATTTCTCA
56373351 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
1 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
56373416 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGTT
66 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGTT
56373481 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
131 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
56373546 CTCTTCACTATGAATCAAATTTCTCA
196 CTCTTCACTATGAATCAAATTTCTCA
56373572 T
1 T
56373573 CGTACAGAAT
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 222 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (221 bp):
TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGTT
TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
CTCTTCACTATGAATCAAATTTCTCA
Found at i:56382587 original size:81 final size:81
Alignment explanation
Indices: 56382492--56382676 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 81
56382482 TACACTACAG
* * * * * *
56382492 GGGTATTTTAGTAATTTTATAAATTGGGGGTATTTTGGTAATTTTACAAAATAGGTACATTT-TG
1 GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAAATAGGGACATTTCAG
*
56382556 ATAATTTTACAAACCGA
66 -TAATTTTAAAAACCGA
* **
56382573 GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAACTAGGGGTATTTCAG
1 GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAAATAGGGACATTTCAG
*
56382638 TAATTTTAAAAACTGA
66 TAATTTTAAAAACCGA
56382654 GGGTATTTC-GATAATTTTACAAA
1 GGGTATTTCAG-TAATTTTACAAA
56382677 CCAGGGTCTC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 89 0.98
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAAATAGGGACATTTCAG
TAATTTTAAAAACCGA
Found at i:56382650 original size:27 final size:27
Alignment explanation
Indices: 56382463--56382682 Score: 182
Period size: 27 Copynumber: 8.1 Consensus size: 27
56382453 TTTGCCCTAC
* *
56382463 AGGGGTATTTCGGTAATTTTACACTAC-
1 AGGGGTATTTCAGTAATTTTACA-AACT
* * *
56382490 AGGGGTATTTTAGTAATTTTATAAATT
1 AGGGGTATTTCAGTAATTTTACAAACT
* ** *
56382517 GGGGGTATTTTGGTAATTTTACAAAAT
1 AGGGGTATTTCAGTAATTTTACAAACT
*** *
56382544 AGGTACATTT-TGATAATTTTACAAAC-
1 AGGGGTATTTCAG-TAATTTTACAAACT
*
56382570 CGAGGGTATTTCAGTAATTTTACAAA-T
1 AG-GGGTATTTCAGTAATTTTACAAACT
* *
56382597 TGGGAGTATTTTAGTAATTTTACAAACT
1 AGGG-GTATTTCAGTAATTTTACAAACT
*
56382625 AGGGGTATTTCAGTAATTTTAAAAACT
1 AGGGGTATTTCAGTAATTTTACAAACT
*
56382652 -GAGGGTATTTC-GATAATTTTACAAACC
1 AG-GGGTATTTCAG-TAATTTTACAAACT
56382679 AGGG
1 AGGG
56382683 TCTCAACGAC
Statistics
Matches: 156, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.04
27 143 0.92
28 6 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCAGTAATTTTACAAACT
Found at i:56386136 original size:58 final size:60
Alignment explanation
Indices: 56386058--56386199 Score: 207
Period size: 60 Copynumber: 2.4 Consensus size: 60
56386048 TGTACATTAT
** * * *
56386058 GGATTTAGCCCAGACGGGTAATCCA-ATTAG-GGTCATTAAGGGTGTTTGTCACTATAAG
1 GGATTTAGCCTGGACTGGTAATCCAGATCAGAGCTCATTAAGGGTGTTTGTCACTATAAG
* *
56386116 GGATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTTGTCACTATAAG
1 GGATTTAGCCTGGACTGGTAATCCAGATCAGAGCTCATTAAGGGTGTTTGTCACTATAAG
56386176 GGATTTAGCCTGGACTGGTAATCC
1 GGATTTAGCCTGGACTGGTAATCC
56386200 CGATATCATC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 21 0.28
59 3 0.04
60 50 0.68
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (60 bp):
GGATTTAGCCTGGACTGGTAATCCAGATCAGAGCTCATTAAGGGTGTTTGTCACTATAAG
Found at i:56399084 original size:10 final size:10
Alignment explanation
Indices: 56399069--56399100 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
56399059 TTTTTGTAAT
56399069 AATAACATAA
1 AATAACATAA
56399079 AATAACATAA
1 AATAACATAA
56399089 AATAA-ATAA
1 AATAACATAA
56399098 AAT
1 AAT
56399101 TCAGGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (10 bp):
AATAACATAA
Found at i:56403591 original size:46 final size:46
Alignment explanation
Indices: 56403541--56403630 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
56403531 TACAGTTACT
* *
56403541 GATCTAAAAACTTGTTCTGAATCAAATTCAGCTCTATTCAGACACC
1 GATCTAAAAACTTATTCTGAATCAAATTCAGCCCTATTCAGACACC
* * *
56403587 GATCTAACAACTTATTCTGAATCGAATTTAGCCCTATTCAGACA
1 GATCTAAAAACTTATTCTGAATCAAATTCAGCCCTATTCAGACA
56403631 GTCTCTAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (46 bp):
GATCTAAAAACTTATTCTGAATCAAATTCAGCCCTATTCAGACACC
Found at i:56411863 original size:31 final size:31
Alignment explanation
Indices: 56411822--56411885 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56411812 CCTTTTCATA
*
56411822 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
56411853 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
56411884 TT
1 TT
56411886 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:56412131 original size:49 final size:47
Alignment explanation
Indices: 56412078--56412223 Score: 186
Period size: 49 Copynumber: 3.0 Consensus size: 47
56412068 TGCTTTATCA
* *
56412078 TATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTA-TAACTGGGGCATAAGCCCTTTT
*
56412127 TATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCCTTCAT
1 TATAACTGGGGCATAAGCCCTTT-T-ATAACTGGGGCATAAGCCCTT-TT
* *
56412177 CATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
56412224 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
47 1 0.01
48 29 0.33
49 33 0.38
50 24 0.28
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
Found at i:56412132 original size:24 final size:24
Alignment explanation
Indices: 56412079--56412223 Score: 179
Period size: 25 Copynumber: 6.0 Consensus size: 24
56412069 GCTTTATCAT
*
56412079 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
56412103 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
56412128 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
56412153 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
*
56412178 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
56412201 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
56412224 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.19
24 33 0.31
25 55 0.51
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:56412295 original size:9 final size:9
Alignment explanation
Indices: 56412281--56412337 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
56412271 ATCTCATGTG
56412281 CATATCATA
1 CATATCATA
*
56412290 CATATCATGTG
1 CATATCA--TA
56412301 CATATCATA
1 CATATCATA
* *
56412310 CATGTCATGTG
1 CATATCA--TA
56412321 CATATCATA
1 CATATCATA
56412330 CATATCAT
1 CATATCAT
56412338 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:56412297 original size:20 final size:20
Alignment explanation
Indices: 56412269--56412339 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
56412259 GCATTTATGA
*
56412269 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
56412289 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
56412309 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
56412329 ACATATCATGT
1 ACATATCATGT
56412340 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:56412304 original size:11 final size:11
Alignment explanation
Indices: 56412274--56412328 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56412264 TATGAACATC
56412274 TCATGTGCATA
1 TCATGTGCATA
*
56412285 TCA--TACATA
1 TCATGTGCATA
56412294 TCATGTGCATA
1 TCATGTGCATA
* *
56412305 TCA--TACATG
1 TCATGTGCATA
56412314 TCATGTGCATA
1 TCATGTGCATA
56412325 TCAT
1 TCAT
56412329 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:56421407 original size:40 final size:39
Alignment explanation
Indices: 56421309--56421571 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
56421299 TCCTCGTTCA
* * * *
56421309 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
56421348 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
56421387 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
56421427 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
56421467 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
56421507 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
56421548 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56421572 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:56421531 original size:120 final size:119
Alignment explanation
Indices: 56421309--56421571 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
56421299 TCCTCGTTCA
* * *
56421309 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
56421374 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
56421427 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
56421492 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
56421548 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56421572 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:56421580 original size:41 final size:41
Alignment explanation
Indices: 56421503--56421580 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56421493 TTTGTATCTC
* * *
56421503 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56421544 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56421581 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56426263 original size:118 final size:118
Alignment explanation
Indices: 56426055--56426292 Score: 449
Period size: 118 Copynumber: 2.0 Consensus size: 118
56426045 CACCCGGTTT
* *
56426055 CCCACTCTGATTTTCATTCTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATC
1 CCCACTCTGATTTACATTCTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACCGATC
56426120 CGCACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTA
66 CGCACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTA
*
56426173 CCCACTCTGATTTACATTCTGTTCAGACAACCTCGGGCAATCTTTAATGAAGTGGTCAACCGATC
1 CCCACTCTGATTTACATTCTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACCGATC
56426238 CGCACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTA
66 CGCACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTA
56426291 CC
1 CC
56426293 GCAATATCGA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
118 117 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (118 bp):
CCCACTCTGATTTACATTCTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACCGATC
CGCACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTA
Found at i:56435994 original size:93 final size:93
Alignment explanation
Indices: 56435882--56436052 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56435872 GCCCATAAGT
* *
56435882 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56435947 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
56435975 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56436040 CGAGTTCGGATGC
66 CGAGCTCGGATGC
56436053 TCAAACATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56436049 original size:46 final size:46
Alignment explanation
Indices: 56435874--56436049 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56435864 TGTAACCCGC
* *
56435874 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56435920 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
56435966 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56436013 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56436050 TGCTCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:56438485 original size:30 final size:30
Alignment explanation
Indices: 56438441--56438529 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
56438431 CAAAGATAAC
56438441 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56438470 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
56438500 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
56438530 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56438489 original size:15 final size:15
Alignment explanation
Indices: 56438441--56438520 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
56438431 CAAAGATAAC
*
56438441 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56438455 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56438470 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56438485 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56438500 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56438515 AAGAAA
1 AAGAAA
56438521 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56438529 original size:15 final size:15
Alignment explanation
Indices: 56438452--56438529 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
56438442 AGAAAACCGA
56438452 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56438467 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56438481 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56438496 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56438512 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56438527 ATA
1 ATA
56438530 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56441567 original size:93 final size:93
Alignment explanation
Indices: 56441455--56441625 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56441445 GCCCATAAGT
* *
56441455 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56441520 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
56441548 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56441613 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56441626 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:56441622 original size:46 final size:46
Alignment explanation
Indices: 56441447--56441622 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56441437 TGTAACCCGC
* * *
56441447 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56441493 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
56441543 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56441586 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56441623 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56449727 original size:49 final size:49
Alignment explanation
Indices: 56449670--56449985 Score: 509
Period size: 49 Copynumber: 6.6 Consensus size: 49
56449660 TTAAACCCAT
56449670 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
56449719 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
56449768 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
56449817 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
56449866 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* * ** * * *
56449913 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
56449960 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
56449986 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
47 95 0.37
48 1 0.00
49 160 0.62
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:56469599 original size:46 final size:48
Alignment explanation
Indices: 56469463--56469683 Score: 208
Period size: 46 Copynumber: 4.7 Consensus size: 48
56469453 AGGGTATAAT
** * * **
56469463 GCCGATGCCATGTATCAGAAATGGTCTTACACTAGCTCTCACATATCCTT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCT-CAA
* *
56469513 GCCGATGCCATGTCCCAGATATGGTCTTACACT-G-AC-ACATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCA-A
*
56469559 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTC-AA
* *
56469605 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-CGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCAA
***
56469650 TGTTAATGCCATGTCCCAGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
56469684 GACTCTCATA
Statistics
Matches: 146, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 62 0.42
47 16 0.11
48 11 0.08
49 1 0.01
50 30 0.21
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCAA
Found at i:56473299 original size:46 final size:48
Alignment explanation
Indices: 56473215--56473432 Score: 199
Period size: 46 Copynumber: 4.7 Consensus size: 48
56473205 GGTATAATGC
* * * *
56473215 CGATGCCATGTCCCAAATATGGTCTTACACT-G-ACACATCTCGTA-GCT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCGTAGGCT
56473262 -GATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCG-AGGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTAGGCT
* * *
56473308 -GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC-AATG-T
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGGCT
* * *
56473353 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-GG-T
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGTAGGCT
*
56473401 CGATGCATGTCCTAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
56473433 ACACAAATAA
Statistics
Matches: 145, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 68 0.47
47 28 0.19
48 23 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGGCT
Found at i:56475156 original size:48 final size:48
Alignment explanation
Indices: 56475103--56475199 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
56475093 TATGTGGTCA
56475103 AGCCACTTTCAGTACTTCCTCCATCAATAACCCAGTCCCATGCATCAG
1 AGCCACTTTCAGTACTTCCTCCATCAATAACCCAGTCCCATGCATCAG
*
56475151 AGCCACTTTCAGTACTTCCTCCATCAATAACCTAGTCCCATGCATCAG
1 AGCCACTTTCAGTACTTCCTCCATCAATAACCCAGTCCCATGCATCAG
56475199 A
1 A
56475200 TAATAATAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.28, C:0.36, G:0.10, T:0.26
Consensus pattern (48 bp):
AGCCACTTTCAGTACTTCCTCCATCAATAACCCAGTCCCATGCATCAG
Found at i:56478374 original size:80 final size:81
Alignment explanation
Indices: 56478266--56478427 Score: 301
Period size: 80 Copynumber: 2.0 Consensus size: 81
56478256 CCTCAATTTA
56478266 CTCCTATTTCATACATTCATGCCTTAGTTGTTATTATGCCATTT-ACTCACATTTCCATCATCAA
1 CTCCTATTTCATACATTCATGCCTTAGTTGTTATTATGCCATTTAAC-CACATTTCCATCATCAA
56478330 ACATACATGATCATATC
65 ACATACATGATCATATC
56478347 CTCC-ATTTCATACATTCATGCCTTAGTTGTTATTATGCCATTTAACCACATTTCCATCATCAAA
1 CTCCTATTTCATACATTCATGCCTTAGTTGTTATTATGCCATTTAACCACATTTCCATCATCAAA
56478411 CATACATGATCATATC
66 CATACATGATCATATC
56478427 C
1 C
56478428 ATAATTCATC
Statistics
Matches: 80, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
80 74 0.93
81 6 0.08
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (81 bp):
CTCCTATTTCATACATTCATGCCTTAGTTGTTATTATGCCATTTAACCACATTTCCATCATCAAA
CATACATGATCATATC
Found at i:56479171 original size:48 final size:49
Alignment explanation
Indices: 56479104--56479286 Score: 208
Period size: 48 Copynumber: 3.9 Consensus size: 49
56479094 CACATGGTAG
* *
56479104 GATGCCAATGCCATA-TCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAACGCCATAGTCCCAGACATGGTCTTACATGGGATCACATATC
*
56479152 GATGCCAACGCCA-AGTCCCAGACATGGTCTTACATGGGATCACATATA
1 GATGCCAACGCCATAGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
56479200 GATG-C--CG--ATAG-CCCAG-CTATGGTCTTATATGAAATTACATATC
1 GATGCCAACGCCATAGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
56479243 GATGCCAGA-GCCAT-GTCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCA-ACGCCATAGTCCCAGACATGGTCTTACATGGGATCACA
56479287 CATAACCCTA
Statistics
Matches: 112, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
42 1 0.01
43 30 0.27
44 3 0.03
45 2 0.02
46 1 0.01
47 3 0.03
48 71 0.63
49 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (49 bp):
GATGCCAACGCCATAGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:56479275 original size:91 final size:90
Alignment explanation
Indices: 56479111--56479286 Score: 264
Period size: 91 Copynumber: 1.9 Consensus size: 90
56479101 TAGGATGCCA
* **
56479111 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCAACGCCAAGTCCCAGACA
1 ATGCCATAGCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAACGCCAAGTCCCAGACA
56479176 TGGTCTTACATGGGATCACATATAG
66 TGGTCTTACATGGGATCACATATAG
* * * *
56479201 ATGCCGATAGCCCAGCTATGGTCTTATATGAAATTACATATCGATGCCAGA-GCCATGTCCCAGA
1 ATGCC-ATAGCCCAGATATGGTCTTACATGAAATCACATATCGATGCCA-ACGCCAAGTCCCAGA
56479265 CATGGTCTTACATGGGATCACA
64 CATGGTCTTACATGGGATCACA
56479287 CATAACCCTA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
90 5 0.06
91 71 0.92
92 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (90 bp):
ATGCCATAGCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAACGCCAAGTCCCAGACA
TGGTCTTACATGGGATCACATATAG
Found at i:56482103 original size:29 final size:29
Alignment explanation
Indices: 56482021--56482108 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 29
56482011 ACATACATGT
* * **
56482021 ATATGACCCACTAGGCCC-AATCTTATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
56482049 ATATGGCCCATT-GGCCCACATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
56482077 GTATGGCCCATTAGGCCCAAATCACATAC
1 ATATGGCCCATTAGGCCCAAATCACATTC
56482106 ATA
1 ATA
56482109 GTCATGCTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 5 0.10
28 28 0.57
29 16 0.33
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:56482197 original size:17 final size:17
Alignment explanation
Indices: 56482177--56482216 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
56482167 TAGGCCCTAC
56482177 AGCCCATTGGGCCCATT
1 AGCCCATTGGGCCCATT
*
56482194 AGCCTATTGGGCCCATT
1 AGCCCATTGGGCCCATT
*
56482211 ACCCCA
1 AGCCCA
56482217 CTTTGGCCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.23
Consensus pattern (17 bp):
AGCCCATTGGGCCCATT
Found at i:56488666 original size:17 final size:19
Alignment explanation
Indices: 56488644--56488680 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
56488634 CACATTGAAG
56488644 TGTTTT-ATCGAAAA-CCT
1 TGTTTTCATCGAAAATCCT
*
56488661 TGTTTTCATTGAAAATCCT
1 TGTTTTCATCGAAAATCCT
56488680 T
1 T
56488681 CCTTAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (19 bp):
TGTTTTCATCGAAAATCCT
Found at i:56489830 original size:28 final size:28
Alignment explanation
Indices: 56489798--56489885 Score: 108
Period size: 28 Copynumber: 3.1 Consensus size: 28
56489788 ACGTACATGT
*
56489798 ATATGGCCCACTAGGCCCAATCTA-ATTC
1 ATATGGCCCATTAGGCCCAATC-ACATTC
56489826 ATATGGCCCATTA-GCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
* *
56489854 GTATGGCCCATTAGGCCCAAATCACATAC
1 ATATGGCCCATTAGGCCC-AATCACATTC
56489883 ATA
1 ATA
56489886 GTCATGCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
27 5 0.09
28 32 0.60
29 16 0.30
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:56499556 original size:23 final size:23
Alignment explanation
Indices: 56499526--56499601 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 23
56499516 AATATACACA
56499526 AAAATATTAAAAAAATATTATAT
1 AAAATATTAAAAAAATATTATAT
* * *
56499549 AAATTATTAAAACAATATAATAT
1 AAAATATTAAAAAAATATTATAT
*
56499572 AAAATAGCTTCAAAATAATAGTTATAT
1 AAAATA--TT-AAAAAAATA-TTATAT
56499599 AAA
1 AAA
56499602 GTGAGAAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
23 25 0.58
25 2 0.05
26 8 0.19
27 8 0.19
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (23 bp):
AAAATATTAAAAAAATATTATAT
Found at i:56510920 original size:40 final size:40
Alignment explanation
Indices: 56510853--56511033 Score: 224
Period size: 40 Copynumber: 4.5 Consensus size: 40
56510843 ACCCAAGTAT
* *
56510853 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
56510892 CTTCGGGTCTTAGCTCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
56510932 CTTCGGGTCTTAGCTCGGATATAATC-ACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTAGCACAAATGC
* * **
56510972 CTTCGGGACTTGGCCCGGATATAGTTACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
*
56511012 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
56511034 CATTCAAATA
Statistics
Matches: 128, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 113 0.88
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:56514567 original size:62 final size:62
Alignment explanation
Indices: 56514470--56514592 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
56514460 AGTTCTATAT
*
56514470 AACTGTGATAAAATCAGGAAGTTTTTAGGAGATATTAGGAAGTATAAGGATTTGAAAAGAAA
1 AACTGTGATAAAATCAGGAAGTTTTTAGGAGATATTAGGAAGTATAAGGATTCGAAAAGAAA
56514532 AACTGTGATAAAATCAGGAAGTTTTTAGGAGATATTAGGAAGTATAAGGATTCGAAAAGAA
1 AACTGTGATAAAATCAGGAAGTTTTTAGGAGATATTAGGAAGTATAAGGATTCGAAAAGAA
56514593 GTAACCGAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (62 bp):
AACTGTGATAAAATCAGGAAGTTTTTAGGAGATATTAGGAAGTATAAGGATTCGAAAAGAAA
Found at i:56514700 original size:31 final size:31
Alignment explanation
Indices: 56514665--56514726 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
56514655 CAATAATAAG
56514665 TAAAAACAGAAAATAATAAATAAATATTTCT
1 TAAAAACAGAAAATAATAAATAAATATTTCT
*
56514696 TAAAAATAGAAAATAATAAATAAATATTTCT
1 TAAAAACAGAAAATAATAAATAAATATTTCT
56514727 AAACATCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (31 bp):
TAAAAACAGAAAATAATAAATAAATATTTCT
Found at i:56521882 original size:16 final size:16
Alignment explanation
Indices: 56521861--56521900 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
56521851 TCTCAGAAGA
56521861 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
56521877 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
56521893 ATAAAGAA
1 ATAAAGAA
56521901 ATCTTCAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.12
Consensus pattern (16 bp):
ATAAAGAATACAAAAC
Found at i:56530246 original size:30 final size:30
Alignment explanation
Indices: 56530212--56530272 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56530202 TTCCCGAGCC
56530212 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
56530242 TAGGGGCAAAATTGTAATTTTGTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
56530272 T
1 T
56530273 GAGGTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:56530718 original size:17 final size:17
Alignment explanation
Indices: 56530696--56530731 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
56530686 ATTATGGATA
56530696 TTATGGGAAATTGTAAG
1 TTATGGGAAATTGTAAG
56530713 TTATGGGAAATTGTAAG
1 TTATGGGAAATTGTAAG
56530730 TT
1 TT
56530732 CATATGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (17 bp):
TTATGGGAAATTGTAAG
Found at i:56531063 original size:68 final size:64
Alignment explanation
Indices: 56530953--56531205 Score: 230
Period size: 68 Copynumber: 3.9 Consensus size: 64
56530943 ATACAAATAG
** * * * *
56530953 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA
56531017 TTA
63 -TA
* *
56531020 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTACGAGAT
56531084 A
64 A
* * *
56531085 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGCTACGA
1 TATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGCTACGA
56531148 GATA
61 GATA
* * *
56531152 AAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
56531206 CAAACTATAT
Statistics
Matches: 155, Mismatches: 19, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 19 0.12
64 20 0.13
65 5 0.03
66 19 0.12
67 34 0.22
68 49 0.32
69 2 0.01
70 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:56537970 original size:20 final size:20
Alignment explanation
Indices: 56537904--56537970 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
56537894 ATTTTAGTAA
*
56537904 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
56537924 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
56537944 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56537964 ACATGAT
1 ACATGAT
56537971 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56538099 original size:24 final size:24
Alignment explanation
Indices: 56538020--56538137 Score: 143
Period size: 23 Copynumber: 5.0 Consensus size: 24
56538010 GAGGAAGTGC
* **
56538020 AAAAGAGCTTATGCCATAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
56538044 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
56538067 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
56538090 AAAAGGGCTTTTGCCCCGGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56538114 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56538138 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
23 43 0.52
24 30 0.36
25 10 0.12
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:56538366 original size:31 final size:31
Alignment explanation
Indices: 56538331--56538394 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
56538321 CGTTTACAGT
56538331 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
56538362 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56538393 AA
1 AA
56538395 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56544206 original size:44 final size:44
Alignment explanation
Indices: 56544155--56544245 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
56544145 AAAAAAAGAG
56544155 AAAGAGTGTGTTCATCTTCTTCTCCATCTTGCCAAAACCGAAAC
1 AAAGAGTGTGTTCATCTTCTTCTCCATCTTGCCAAAACCGAAAC
56544199 AAAGAGTGTGTTCATCTTCTTCTCCATCTTGCCAAAACCGAAAC
1 AAAGAGTGTGTTCATCTTCTTCTCCATCTTGCCAAAACCGAAAC
56544243 AAA
1 AAA
56544246 AAGGAAAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (44 bp):
AAAGAGTGTGTTCATCTTCTTCTCCATCTTGCCAAAACCGAAAC
Found at i:56545352 original size:28 final size:28
Alignment explanation
Indices: 56545284--56545434 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
56545274 GAGATTGGCG
* * * * *
56545284 CTAAGTGTGCGGGTTTAAATTGTACAGGA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
56545313 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
56545341 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
56545369 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
56545397 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56545424 CTGAGTGTGCG
1 CTAAGTGTGCG
56545435 GACTTAATAT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.21
28 73 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:56550575 original size:13 final size:13
Alignment explanation
Indices: 56550553--56550585 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56550543 AATGGTTTGT
56550553 TTAT-TAAACTAA
1 TTATCTAAACTAA
56550565 TTATCTAAACTAA
1 TTATCTAAACTAA
*
56550578 TTAACTAA
1 TTATCTAA
56550586 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:56558515 original size:48 final size:48
Alignment explanation
Indices: 56558463--56558954 Score: 713
Period size: 48 Copynumber: 10.2 Consensus size: 48
56558453 GATAAATATA
*
56558463 TATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATAAG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAG
* *
56558511 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAA-AATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAA-G
* *
56558559 TATGAGATATGTATATGTGGCAAAGCCGAATGGCTACTGTGAAATATA-
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA-AG
* *
56558607 TATGAGATATGTATATGTGGTAAAGCCGAATGTCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAG
* *
56558655 TATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTACTGTGAAATATA-
1 TATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATA-AG
* * *
56558705 TATGAGAAATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAG
* *
56558753 TATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAG
*
56558803 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATA-
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA-AG
*
56558851 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAG
* *
56558899 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAG
*
56558947 TAGGAGAT
1 TATGAGAT
56558955 GTGTGTATAT
Statistics
Matches: 409, Mismatches: 23, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
47 2 0.00
48 315 0.77
49 1 0.00
50 91 0.22
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAG
Found at i:56565809 original size:40 final size:40
Alignment explanation
Indices: 56565732--56565831 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
56565722 ACCCAAGTTT
* * *
56565732 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGC
* * * *
56565771 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGC
56565811 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
56565832 TCATTCAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.19
40 42 0.81
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGC
Found at i:56568150 original size:40 final size:40
Alignment explanation
Indices: 56568077--56568296 Score: 236
Period size: 40 Copynumber: 5.5 Consensus size: 40
56568067 TATTCGAATG
* *
56568077 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
56568117 ATATCCGGACTAAGATCCGTAGGCATTTGTGCTAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
56568157 ATATCCGGGCTAAGATCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
56568197 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCCAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * **
56568237 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
56568276 ATATCC-GGCTAA-ATTCCGAAG
1 ATATCCGGGCTAAGA-TCCGAAG
56568297 ATGCTTGGGT
Statistics
Matches: 153, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 17 0.11
40 120 0.78
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:56568565 original size:22 final size:22
Alignment explanation
Indices: 56568523--56568567 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56568513 AAAATGTGCA
* *
56568523 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
56568545 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
56568567 T
1 T
56568568 GAAACTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:56584673 original size:53 final size:53
Alignment explanation
Indices: 56584587--56584733 Score: 149
Period size: 53 Copynumber: 2.7 Consensus size: 53
56584577 TTTTCCTTTT
* * * * *
56584587 TGAACTTAC-AATTGCAATGTCTTGACATAGTCTTACGTGGTATCC-CTGCCTTA
1 TGAACTCACTAATTGC-ATGTCTTGGCATGGTCTTACATGGGA-CCTCTGCCTTA
* *
56584640 TGAACTCACTAATTGCATGTCTTGGCATGGTCTTAAATGGGACCTTTGCCTTA
1 TGAACTCACTAATTGCATGTCTTGGCATGGTCTTACATGGGACCTCTGCCTTA
56584693 TAGTAACTCA-TCAA-TGCCATGTCTTGGCATGGTCTTACATG
1 T-G-AACTCACT-AATTG-CATGTCTTGGCATGGTCTTACATG
56584734 ATTTCCTTGC
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
52 2 0.03
53 37 0.46
54 10 0.12
55 31 0.39
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (53 bp):
TGAACTCACTAATTGCATGTCTTGGCATGGTCTTACATGGGACCTCTGCCTTA
Found at i:56584781 original size:54 final size:55
Alignment explanation
Indices: 56584655--56584795 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 55
56584645 TCACTAATTG
* * ** **
56584655 CATGTCTTGGCATGGTCTTAAATGGGA-CCTTTGCCTTATAGTAACTCATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCC-TTGCCCGATAGTAACTCATCAATGC
* * *
56584710 CATGTCTTGGCATGGTCTTACATGATTTCCTTGCCCGATAG-AACTTATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCCGATAGTAACTCATCAATGC
56584764 CATGCCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTT
56584796 ATCTTACCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
54 42 0.55
55 32 0.42
56 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (55 bp):
CATGCCTTGGCATGGTCTTACATGATATCCTTGCCCGATAGTAACTCATCAATGC
Found at i:56584912 original size:24 final size:24
Alignment explanation
Indices: 56584880--56584927 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56584870 ATGGTCGTAC
56584880 ATGGAGTCCTTAATCAATGCCGAT
1 ATGGAGTCCTTAATCAATGCCGAT
56584904 ATGGAGTCCTTAATCAATGCCGAT
1 ATGGAGTCCTTAATCAATGCCGAT
56584928 GCCATGTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATGGAGTCCTTAATCAATGCCGAT
Found at i:56585670 original size:31 final size:30
Alignment explanation
Indices: 56585635--56585692 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56585625 GTAACTCAAA
*
56585635 CTTTGGCAAAATTGCAATTTTGCCCCTAAAC
1 CTTT-GCAAAATTACAATTTTGCCCCTAAAC
* *
56585666 CTTTGCGAAATTACGATTTTGCCCCTA
1 CTTTGCAAAATTACAATTTTGCCCCTA
56585693 GGCTCGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTGCAAAATTACAATTTTGCCCCTAAAC
Found at i:56586685 original size:40 final size:40
Alignment explanation
Indices: 56586634--56586719 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
56586624 GTTCCAATAT
*
56586634 ATAGCCGAAGCTATCTTGAATCGCACACTAAGTGCCATAC
1 ATAGCCAAAGCTATCTTGAATCGCACACTAAGTGCCATAC
*
56586674 ATAGCCAAAGCTATCTTGAATCGCACACTAAGTGCCTTAC
1 ATAGCCAAAGCTATCTTGAATCGCACACTAAGTGCCATAC
56586714 ATAGCC
1 ATAGCC
56586720 CAATTGTGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (40 bp):
ATAGCCAAAGCTATCTTGAATCGCACACTAAGTGCCATAC
Found at i:56589613 original size:39 final size:39
Alignment explanation
Indices: 56589352--56589605 Score: 384
Period size: 39 Copynumber: 6.5 Consensus size: 39
56589342 ACAAAGCATG
* * *
56589352 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
56589392 CGGGACTTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
56589432 CGGGGCTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
56589471 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
56589510 CGGGACTTAGCCCAAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
56589549 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
56589588 CGGGACTTAGCCCGGATA
1 CGGGACTTAGCCCGGATA
56589606 GAGCACCATT
Statistics
Matches: 197, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 177 0.90
40 20 0.10
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:56589725 original size:28 final size:27
Alignment explanation
Indices: 56589686--56589767 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 27
56589676 ATTTAATCAT
*
56589686 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATA-TTTGCACACTAAGTGCCATTC
* *
56589714 TTAATATCTTGCACATTAAGTGCCATTC
1 TCAATAT-TTGCACACTAAGTGCCATTC
* *
56589742 TCAATATTTCGTACACTAAGTACCAT
1 TCAATATTT-GCACACTAAGTGCCAT
56589768 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 3 0.07
28 42 0.93
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (27 bp):
TCAATATTTGCACACTAAGTGCCATTC
Found at i:56595959 original size:39 final size:39
Alignment explanation
Indices: 56595892--56596114 Score: 340
Period size: 39 Copynumber: 5.7 Consensus size: 39
56595882 ACAAAGCATG
* * *
56595892 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
56595932 CGGGACTTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
56595972 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
56596011 TGGGACTTAGCCCAGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
56596050 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
56596089 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
56596115 TTATAAAGTC
Statistics
Matches: 169, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 149 0.88
40 20 0.12
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:56598189 original size:40 final size:40
Alignment explanation
Indices: 56598119--56598286 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
56598109 CGGGGTTTAG
** * *
56598119 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
56598158 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
56598198 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * ** * * *
56598238 CTGGATGTAGTCGGTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAAC
56598279 CCGGATAT
1 CCGGATAT
56598287 CATTCGAGTA
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 15 0.14
40 60 0.58
41 29 0.28
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:56598269 original size:41 final size:39
Alignment explanation
Indices: 56598142--56598286 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 39
56598132 CTCGCACAAG
* * * * *
56598142 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56598182 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * * *
56598222 GCCTTCGGATCTTAGTCTGGATGTAGTCGGTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCGGATATAGTC-GCTAGCACAAAT
56598263 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTC-GGACTTAGCCCGGATAT
56598287 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56599568 original size:121 final size:121
Alignment explanation
Indices: 56599354--56599573 Score: 440
Period size: 121 Copynumber: 1.8 Consensus size: 121
56599344 AGAACTCAAG
56599354 CTAGCAACTAAAAACATGCATGAATCTCATGGCACAACCTCAAACATACCTTAATCTAGATACAA
1 CTAGCAACTAAAAACATGCATGAATCTCATGGCACAACCTCAAACATACCTTAATCTAGATACAA
56599419 GTATGGCCAAACCTCTTCCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCC
66 GTATGGCCAAACCTCTTCCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCC
56599475 CTAGCAACTAAAAACATGCATGAATCTCATGGCACAACCTCAAACATACCTTAATCTAGATACAA
1 CTAGCAACTAAAAACATGCATGAATCTCATGGCACAACCTCAAACATACCTTAATCTAGATACAA
56599540 GTATGGCCAAACCTCTTCCTAATCCTCTTCCAAA
66 GTATGGCCAAACCTCTTCCTAATCCTCTTCCAAA
56599574 ATTTTCGGCC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 99 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (121 bp):
CTAGCAACTAAAAACATGCATGAATCTCATGGCACAACCTCAAACATACCTTAATCTAGATACAA
GTATGGCCAAACCTCTTCCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCC
Found at i:56601897 original size:24 final size:24
Alignment explanation
Indices: 56601868--56601919 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
56601858 CCTTTATACC
* *
56601868 CATATACACGTAAA-CACATCCATA
1 CATATACAC-AAAAGCACATACATA
56601892 CATATACACAAAAGCACATACATA
1 CATATACACAAAAGCACATACATA
56601916 CATA
1 CATA
56601920 CCTTTCACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.50, C:0.27, G:0.04, T:0.19
Consensus pattern (24 bp):
CATATACACAAAAGCACATACATA
Found at i:56603903 original size:24 final size:24
Alignment explanation
Indices: 56603874--56603951 Score: 113
Period size: 24 Copynumber: 3.3 Consensus size: 24
56603864 GAGGCCTAGC
*
56603874 CTCTTTTAATAACTAGGGCAAAAG
1 CTCTTTTAATAACTAGGGCATAAG
56603898 CTCTTTTAATAACTAGGGCATAAG
1 CTCTTTTAATAACTAGGGCATAAG
* *
56603922 C-CCTTTAATAACTGGGGCATAAG
1 CTCTTTTAATAACTAGGGCATAAG
*
56603945 CCCTTTT
1 CTCTTTT
56603952 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 21 0.43
24 28 0.57
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (24 bp):
CTCTTTTAATAACTAGGGCATAAG
Found at i:56603932 original size:23 final size:23
Alignment explanation
Indices: 56603878--56603950 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
56603868 CCTAGCCTCT
* *
56603878 TTTAATAACTAGGGCAAAAGCTCT
1 TTTAATAACTAGGGCATAAGC-CC
56603902 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCC
*
56603925 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCC
56603948 TTT
1 TTT
56603951 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 26 0.57
24 20 0.43
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (23 bp):
TTTAATAACTAGGGCATAAGCCC
Found at i:56604026 original size:20 final size:20
Alignment explanation
Indices: 56604001--56604067 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
56603991 TTATGAATAC
56604001 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56604021 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
56604041 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56604061 ACCATGT
1 ATCATGT
56604068 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56613415 original size:25 final size:25
Alignment explanation
Indices: 56613387--56613442 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
56613377 GTTGAAAAAA
56613387 TCATTCCTAAACCTGAAAAACTGGG
1 TCATTCCTAAACCTGAAAAACTGGG
*
56613412 TCATTTGCTAAACCTGAAAAACTGGG
1 TCA-TTCCTAAACCTGAAAAACTGGG
56613438 TCATT
1 TCATT
56613443 TGCTGTTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (25 bp):
TCATTCCTAAACCTGAAAAACTGGG
Found at i:56613423 original size:26 final size:26
Alignment explanation
Indices: 56613393--56613446 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
56613383 AAAATCATTC
56613393 CTAAACCTGAAAAACTGGGTCATTTG
1 CTAAACCTGAAAAACTGGGTCATTTG
56613419 CTAAACCTGAAAAACTGGGTCATTTG
1 CTAAACCTGAAAAACTGGGTCATTTG
56613445 CT
1 CT
56613447 GTTTGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (26 bp):
CTAAACCTGAAAAACTGGGTCATTTG
Found at i:56628334 original size:20 final size:20
Alignment explanation
Indices: 56628311--56628376 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
56628301 ATAAGTGATA
56628311 TATGTGATGTATATATGTCT
1 TATGTGATGTATATATGTCT
56628331 TATGTGATGGT-T-TGAT-T-T
1 TATGTGAT-GTATAT-ATGTCT
*
56628349 GA-GATGATGTATATATGTCT
1 TATG-TGATGTATATATGTCT
56628369 TATGTGAT
1 TATGTGAT
56628377 ATGGCATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
17 3 0.08
18 9 0.25
19 4 0.11
20 17 0.47
21 3 0.08
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (20 bp):
TATGTGATGTATATATGTCT
Found at i:56644018 original size:45 final size:45
Alignment explanation
Indices: 56643964--56644098 Score: 168
Period size: 45 Copynumber: 3.0 Consensus size: 45
56643954 AGCTGATGAG
**
56643964 CAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATCGAGCTGAA
1 CAGTAAGCTCTATTGAGCTGAAATAGTAAGCTCTATCGAGCTGAA
*
56644009 CAGTAAGCTCTATTGAGCT-AAATAGTAAGCTCGTA-CGAGCTAAAA
1 CAGTAAGCTCTATTGAGCTGAAATAGTAAGCTC-TATCGAGCT-GAA
* *
56644054 CGGTAAGCTCTAATGAGCTGAAAATAGTAAGCTCT-TACGAGCTGA
1 CAGTAAGCTCTATTGAGCTG-AAATAGTAAGCTCTAT-CGAGCTGA
56644099 TATATCAGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
44 17 0.22
45 40 0.51
46 2 0.03
47 19 0.24
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
CAGTAAGCTCTATTGAGCTGAAATAGTAAGCTCTATCGAGCTGAA
Found at i:56644112 original size:26 final size:24
Alignment explanation
Indices: 56643964--56644123 Score: 124
Period size: 22 Copynumber: 6.8 Consensus size: 24
56643954 AGCTGATGAG
*
56643964 CAGTAAGCTC-TATTGAGCTGAAA-
1 CAGTAAGCTCTTA-CGAGCTGAAAT
*
56643987 CGGTAAGCTC-TATCGAGCTG-AA-
1 CAGTAAGCTCTTA-CGAGCTGAAAT
*
56644009 CAGTAAGCTC-TATTGAGCT-AAAT
1 CAGTAAGCTCTTA-CGAGCTGAAAT
* *
56644032 -AGTAAGCTCGTACGAGCT-AAAA
1 CAGTAAGCTCTTACGAGCTGAAAT
* * *
56644054 CGGTAAGCTCTAATGAGCTGAAAAT
1 CAGTAAGCTCTTACGAGCTG-AAAT
56644079 -AGTAAGCTCTTACGAGCTGATATAT
1 CAGTAAGCTCTTACGAGCTGA-A-AT
56644104 CAGTAAGCTCTTACGAGCTG
1 CAGTAAGCTCTTACGAGCTG
56644124 TGGTGAGTCT
Statistics
Matches: 114, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
22 38 0.33
23 35 0.31
24 17 0.15
25 5 0.04
26 19 0.17
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (24 bp):
CAGTAAGCTCTTACGAGCTGAAAT
Found at i:56645646 original size:90 final size:89
Alignment explanation
Indices: 56645526--56645826 Score: 255
Period size: 90 Copynumber: 3.3 Consensus size: 89
56645516 TGTGATCATG
* * * * *
56645526 TATAAGACCATATTAGGGATATGGCTTCGGCACCATTAAGTGATTTCGTGTAAAACCATGTTTGG
1 TATAAGACCATGTTAGGGACATGGCATCGGCACCA-TATGAGATTTCGTGTAAAACCATGTTTGG
* *
56645591 GACATGGCATTGATAAGAGATCCCA
65 GATATGGCATTGATAAGAGGTCCCA
* ** * * *
56645616 TATAAGACCATGTCT-GGGACATGGCATCGGCATCAGTATGAGATCCCATGTAAGACCATAG-CT
1 TATAAGACCATGT-TAGGGACATGGCATCGGCACCA-TATGAGATTTCGTGTAAAACCAT-GTTT
* * * *
56645679 AGGATATGGCATTGGTATCGATGTGAGGTCTCG
63 GGGATATGGCATT-G-AT--A--AGAGGTCCCA
* * * * *
56645712 TATAAGACCATGTTTGGGACATGGCATCGACACCGATATGAGATTTTGTATAAAACCATATTTGG
1 TATAAGACCATGTTAGGGACATGGCATCGGCACC-ATATGAGATTTCGTGTAAAACCATGTTTGG
* *
56645777 GATATGGCATTGATACGTGGTCCCA
65 GATATGGCATTGATAAGAGGTCCCA
* *
56645802 TGTAAGACCATGTTCGGGACATGGC
1 TATAAGACCATGTTAGGGACATGGC
56645827 TTTGGCACTC
Statistics
Matches: 165, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
90 87 0.53
91 3 0.02
92 3 0.02
94 3 0.02
95 2 0.01
96 66 0.40
97 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (89 bp):
TATAAGACCATGTTAGGGACATGGCATCGGCACCATATGAGATTTCGTGTAAAACCATGTTTGGG
ATATGGCATTGATAAGAGGTCCCA
Found at i:56645670 original size:48 final size:48
Alignment explanation
Indices: 56645418--56645740 Score: 180
Period size: 48 Copynumber: 6.8 Consensus size: 48
56645408 ACCATGGTTA
* * ** * * **
56645418 ATGAGATCTCGTGTAAGACCATGTTTGATACATGACATCGACATTCAAA
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TCAGT
* * *
56645467 ATGAGATCCCGTGTAAGATCATGTCTGGGACATGACATCGGTATCAAG-
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-AGT
* ** * * * * * *
56645515 ATGTGATCATGTATAAGACCATAT-TAGGGATATGGCTTCGGCACCATT
1 ATGAGATCCCGTGTAAGACCATGTCT-GGGACATGGCATCGGCATCAGT
* * ** * * *
56645563 AAGTGATTTCGTGTAAAACCATGTTTGGGACATGGCAT-TG-AT-A--
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAGT
* *
56645606 A-GAGATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAGT
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAGT
* * * * *
56645653 ATGAGATCCCATGTAAGACCATAG-CTAGGATATGGCATTGGTATC-GAT
1 ATGAGATCCCGTGTAAGACCAT-GTCTGGGACATGGCATCGGCATCAG-T
* * * * *
56645701 GTGAGGTCTCGTATAAGACCATGTTTGGGACATGGCATCG
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCG
56645741 ACACCGATAT
Statistics
Matches: 208, Mismatches: 53, Indels: 27
0.72 0.18 0.09
Matches are distributed among these distances:
42 29 0.14
43 2 0.01
44 2 0.01
45 2 0.01
46 1 0.00
47 6 0.03
48 127 0.61
49 39 0.19
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (48 bp):
ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAGT
Found at i:56651755 original size:28 final size:29
Alignment explanation
Indices: 56651723--56651785 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
56651713 TACCTGATTC
*
56651723 TGGCCCACTAAGCCC-AATCATATTCATA
1 TGGCCCACTAAGCCCAAATCACATTCATA
* * * *
56651751 TGGCCTATTAAGCCCAAATCACGTTTATA
1 TGGCCCACTAAGCCCAAATCACATTCATA
56651780 TGGCCC
1 TGGCCC
56651786 GTTAGGCCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
TGGCCCACTAAGCCCAAATCACATTCATA
Found at i:56652041 original size:16 final size:16
Alignment explanation
Indices: 56652001--56652043 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
56651991 GTAGCCAAAC
*
56652001 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCGACA
**
56652017 TTTTTACTTTTCGACA
1 TTTCGACTTTTCGACA
56652033 TTTCGACTTTT
1 TTTCGACTTTT
56652044 GCCAATACAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTCGACTTTTCGACA
Found at i:56653185 original size:16 final size:16
Alignment explanation
Indices: 56653145--56653187 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
56653135 ATAAAGAAAA
56653145 TTCGAGATTTCAGGATT
1 TTCG-GATTTCAGGATT
** *
56653162 TTTTGATTTCTGGATT
1 TTCGGATTTCAGGATT
56653178 TTCGGATTTC
1 TTCGGATTTC
56653188 GAGATTTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.16, C:0.12, G:0.21, T:0.51
Consensus pattern (16 bp):
TTCGGATTTCAGGATT
Found at i:56662102 original size:29 final size:28
Alignment explanation
Indices: 56662045--56662152 Score: 87
Period size: 29 Copynumber: 3.8 Consensus size: 28
56662035 TACCTATATC
* *
56662045 TGGCCCATTAAGCCC-AATCATAT-TCATA
1 TGGCCCATT-GGCCCAAATCACATGT-ATA
*
56662073 TGGCCCATTCGGCCCAAATCACCTGTATA
1 TGGCCCATT-GGCCCAAATCACATGTATA
* * * *
56662102 TGGCCCATTAGCCCCAAATAACATTTGTA
1 TGGCCCATT-GGCCCAAATCACATGTATA
*
56662131 TGGCCCGTTGGCCC-AATCACAT
1 TGGCCCATTGGCCCAAATCACAT
56662153 TCATATTCAT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
27 7 0.11
28 17 0.26
29 40 0.62
30 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
TGGCCCATTGGCCCAAATCACATGTATA
Found at i:56662396 original size:8 final size:8
Alignment explanation
Indices: 56662375--56662419 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
56662365 AAACTTTCAA
*
56662375 CTTTTCAG
1 CTTTTCGG
* *
56662383 CATTTCGA
1 CTTTTCGG
56662391 CTTTTCGG
1 CTTTTCGG
56662399 CTTTTCGG
1 CTTTTCGG
*
56662407 CATTTCGG
1 CTTTTCGG
56662415 CTTTT
1 CTTTT
56662420 ACCGATACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.09, C:0.24, G:0.18, T:0.49
Consensus pattern (8 bp):
CTTTTCGG
Found at i:56662404 original size:16 final size:16
Alignment explanation
Indices: 56662369--56662419 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
56662359 ATAGCCAAAC
* * *
56662369 TTTCAACTTTTCAGCA
1 TTTCGACTTTTCGGCT
56662385 TTTCGACTTTTCGGCT
1 TTTCGACTTTTCGGCT
* *
56662401 TTTCGGCATTTCGGCT
1 TTTCGACTTTTCGGCT
56662417 TTT
1 TTT
56662420 ACCGATACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.12, C:0.24, G:0.16, T:0.49
Consensus pattern (16 bp):
TTTCGACTTTTCGGCT
Found at i:56663548 original size:16 final size:16
Alignment explanation
Indices: 56663527--56663573 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
56663517 AAAAATTCAA
56663527 GATTTCAGAATTTTTG
1 GATTTCAGAATTTTTG
*
56663543 GATTTCAGGATTTTTG
1 GATTTCAGAATTTTTG
56663559 GATTTC-GAGATTTTT
1 GATTTCAGA-ATTTTT
56663574 AGGGTGTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.51
Consensus pattern (16 bp):
GATTTCAGAATTTTTG
Found at i:56676334 original size:28 final size:28
Alignment explanation
Indices: 56676271--56676368 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
56676261 ATATTAAGTC
*
56676271 CGCACACTCAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
56676298 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
56676326 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATA-AAATCAAACT
56676355 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56676369 CAATCTCACG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 21 0.34
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:56676363 original size:29 final size:28
Alignment explanation
Indices: 56676270--56676368 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
56676260 TATATTAAGT
* *
56676270 CCGCACACTCAGTGCTATAAAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
56676297 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
56676325 TCGCACACTTAGTGCTGA-ACAATTTAAAC
1 CCGCACACTTAGTGCT-ATACAA-TCAAAC
56676354 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
56676369 CAATCTCACG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 21 0.33
28 22 0.35
29 20 0.32
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:56690346 original size:79 final size:81
Alignment explanation
Indices: 56690244--56690427 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
56690234 GCTCCTCGTT
* *
56690244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
*
56690307 GGAT-TTAGTAAC-TCGCA
64 GGATATT-GTAACTTAGCA
* **
56690324 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGTCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
*
56690388 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
56690404 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56690428 CATCATTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
78 11 0.12
79 59 0.64
80 22 0.24
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCA
Found at i:56690361 original size:39 final size:41
Alignment explanation
Indices: 56690244--56690427 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 41
56690234 GCTCCTCGTT
* *
56690244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
56690284 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
56690324 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * * *
56690363 CAAATGCCTTCGGGTCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAATC-TCGCA
56690404 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56690428 CATCATTCAA
Statistics
Matches: 129, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
38 1 0.01
39 54 0.42
40 63 0.49
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:56693226 original size:55 final size:54
Alignment explanation
Indices: 56693131--56693280 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
56693121 CTACTTTGTT
* ** * *
56693131 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
56693185 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
56693240 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
56693281 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:56693243 original size:27 final size:27
Alignment explanation
Indices: 56693103--56693280 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
56693093 TAAATTGTAC
56693103 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
56693130 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
56693156 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
56693184 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
56693212 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
56693239 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
56693266 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56693281 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:56693244 original size:82 final size:81
Alignment explanation
Indices: 56693104--56693259 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
56693094 AAATTGTACA
* * * *
56693104 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
56693169 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
56693185 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
56693248 TGTGCGAGTTGA
63 TGTGCGAATTGA
56693260 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:56699263 original size:27 final size:27
Alignment explanation
Indices: 56699233--56699410 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
56699223 ATATTGAGCC
* *
56699233 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
56699260 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
56699287 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
56699315 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
56699342 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
56699369 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
56699396 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56699411 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56699345 original size:55 final size:54
Alignment explanation
Indices: 56699233--56699410 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
56699223 ATATTGAGCC
* * * * *
56699233 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
56699287 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
56699342 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
56699396 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56699411 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:56704066 original size:25 final size:25
Alignment explanation
Indices: 56704037--56704084 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56704027 TTAAAATATG
* * *
56704037 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
56704062 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
56704085 GTTTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:56704168 original size:11 final size:11
Alignment explanation
Indices: 56704132--56704187 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
56704122 CATGGTATGT
56704132 ATGATATGCAC
1 ATGATATGCAC
* *
56704143 ATGACATG--T
1 ATGATATGCAC
56704152 ATGATATGCAC
1 ATGATATGCAC
*
56704163 ATGATATG--T
1 ATGATATGCAC
56704172 ATGATATGCAC
1 ATGATATGCAC
56704183 ATGAT
1 ATGAT
56704188 GTATTCATAA
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:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56704187 original size:20 final size:20
Alignment explanation
Indices: 56704121--56704187 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
56704111 ATTTTGATAA
*
56704121 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
56704141 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
56704161 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56704181 ACATGAT
1 ACATGAT
56704188 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56704266 original size:25 final size:25
Alignment explanation
Indices: 56704238--56704357 Score: 208
Period size: 25 Copynumber: 4.9 Consensus size: 25
56704228 AGGAAGTGTA
56704238 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
56704263 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
56704288 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
56704313 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
56704337 AAAGGGCTT-TGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
56704358 TAAAAGAGGC
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 12 0.13
24 9 0.10
25 71 0.77
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:56704391 original size:75 final size:75
Alignment explanation
Indices: 56704238--56704381 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 75
56704228 AGGAAGTGTA
* *
56704238 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATGCCC
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCC
56704303 CAGTTATGAT
66 CAGTTATGAT
* *
56704313 AAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGGCC
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC
56704374 TCCAGTTA
65 -CCAGTTA
56704382 AATGGTAAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
72 9 0.14
73 22 0.35
74 9 0.14
75 23 0.37
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (75 bp):
AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCC
CAGTTATGAT
Found at i:56704611 original size:31 final size:31
Alignment explanation
Indices: 56704576--56704638 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
56704566 CGTTTACAGT
*
56704576 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
* **
56704607 AAAGGCTTCGGCCTAGTGTTACGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
56704638 A
1 A
56704639 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:56711754 original size:17 final size:18
Alignment explanation
Indices: 56711732--56711769 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
56711722 TATAATAAGG
56711732 TTATTAAGGTAAAT-TTA
1 TTATTAAGGTAAATATTA
* *
56711749 TTATTAATGTTAATATTA
1 TTATTAAGGTAAATATTA
56711767 TTA
1 TTA
56711770 AAAGAAAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
TTATTAAGGTAAATATTA
Found at i:56712693 original size:22 final size:22
Alignment explanation
Indices: 56712667--56712730 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
56712657 AGCTTACCAT
*
56712667 TTCAGCACGTATGAA-CTTACTG
1 TTCAGCACG-ATAAAGCTTACTG
* *
56712689 TTCAGCTCGATAAAGCTTATTG
1 TTCAGCACGATAAAGCTTACTG
** *
56712711 TTCAGCTTGATAGAGCTTAC
1 TTCAGCACGATAAAGCTTAC
56712731 CCTTTCATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 4 0.11
22 31 0.89
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (22 bp):
TTCAGCACGATAAAGCTTACTG
Found at i:56720841 original size:14 final size:14
Alignment explanation
Indices: 56720822--56720848 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56720812 TTGGTAACCT
56720822 GTAAAAGCTTTTCC
1 GTAAAAGCTTTTCC
56720836 GTAAAAGCTTTTC
1 GTAAAAGCTTTTC
56720849 AGGTATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (14 bp):
GTAAAAGCTTTTCC
Found at i:56744162 original size:20 final size:20
Alignment explanation
Indices: 56744116--56744179 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
56744106 TCCAAACACC
56744116 AGAAAAGTAAATCATTTTCA
1 AGAAAAGTAAATCATTTTCA
56744136 A-AAAAGTAAATCATTTTCA
1 AGAAAAGTAAATCATTTTCA
*
56744155 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCATTTTCA
56744175 AGAAA
1 AGAAA
56744180 TAATTTTCTG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 19 0.45
20 23 0.55
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCA
Found at i:56745500 original size:27 final size:28
Alignment explanation
Indices: 56745470--56745621 Score: 100
Period size: 27 Copynumber: 5.6 Consensus size: 28
56745460 CTGCAATGGC
56745470 ATTTCGA-TAATTTTACAAATTGGGGGT
1 ATTTCGAGTAATTTTACAAATTGGGGGT
* * *
56745497 ATTTC-AGTTATTTTACAAGTTGGGCGT
1 ATTTCGAGTAATTTTACAAATTGGGGGT
* * * ** * *
56745524 CTTTAGA-TAATTTCATGAATCGAGGGT
1 ATTTCGAGTAATTTTACAAATTGGGGGT
* **
56745551 ATTTCG-GTAATTTCACAAATCAGGGGT
1 ATTTCGAGTAATTTTACAAATTGGGGGT
* * **
56745578 A-TTCCAGTAATTTAACAACCTGGGGGT
1 ATTTCGAGTAATTTTACAAATTGGGGGT
*
56745605 ATTT-TAGTAATTTTACA
1 ATTTCGAGTAATTTTACA
56745622 GATCGAGGGT
Statistics
Matches: 93, Mismatches: 27, Indels: 10
0.72 0.21 0.08
Matches are distributed among these distances:
26 4 0.04
27 86 0.92
28 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (28 bp):
ATTTCGAGTAATTTTACAAATTGGGGGT
Found at i:56745631 original size:27 final size:26
Alignment explanation
Indices: 56745541--56745631 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
56745531 TAATTTCATG
* *
56745541 AATCGAGGGTATTTCGGTAATTTCAC
1 AATCGAGGGTATTTCAGTAATTTAAC
*
56745567 AAATC-AGGGGTATTCCAGTAATTTAAC
1 -AATCGA-GGGTATTTCAGTAATTTAAC
* * * *
56745594 AACCTGGGGGTATTTTAGTAATTTTAC
1 AATC-GAGGGTATTTCAGTAATTTAAC
56745621 AGATCGAGGGT
1 A-ATCGAGGGT
56745632 CTTAACGACC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
26 4 0.08
27 44 0.88
28 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (26 bp):
AATCGAGGGTATTTCAGTAATTTAAC
Found at i:56750774 original size:28 final size:29
Alignment explanation
Indices: 56750730--56750809 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 29
56750720 CATACATGCT
*
56750730 TATGGCCCACTAAGCCC-AATCTCAT-TCA
1 TATGGCCCACTAAGCCCAAATCACATCT-A
*
56750758 TATGGCCCA-TCAGGCCCAAATCACATCTA
1 TATGGCCCACT-AAGCCCAAATCACATCTA
* *
56750787 TATGGCCAACT-AGGCCAAATCAC
1 TATGGCCCACTAAGCCCAAATCAC
56750810 TTTTACAGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.02
28 24 0.56
29 16 0.37
30 2 0.05
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (29 bp):
TATGGCCCACTAAGCCCAAATCACATCTA
Found at i:56751057 original size:16 final size:16
Alignment explanation
Indices: 56751036--56751080 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
56751026 AACTTTCAGC
56751036 TTTTCGGCATTTAAGA
1 TTTTCGGCATTTAAGA
* *
56751052 TTTTCGGCATTTCAGT
1 TTTTCGGCATTTAAGA
*
56751068 TTTTCGGGATTTA
1 TTTTCGGCATTTA
56751081 CCGATCTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTTCGGCATTTAAGA
Found at i:56753251 original size:47 final size:47
Alignment explanation
Indices: 56753178--56753440 Score: 294
Period size: 47 Copynumber: 5.6 Consensus size: 47
56753168 CATCCATAAG
* *
56753178 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACGCAACAAGTTCGGATGCCTAGTTACATCTCA
* *
56753225 TGAACTCGGACTCAACGCAACAAGTTCGGA---C-A-TTCGCATCCATAA
1 TGAACTCGGACTCAACGCAACAAGTTCGGATGCCTAGTT-ACAT-C-TCA
* *
56753270 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACGCAACAAGTTCGGATGCCTAGTTACATCTCA
* *
56753318 TGAACTCGGACTCAACGCAACAAGTTCGGA---C-A-TTCGCATCCATAA
1 TGAACTCGGACTCAACGCAACAAGTTCGGATGCCTAGTT-ACAT-C-TCA
* *
56753363 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACGCAACAAGTTCGGATGCCTAGTTACATCTCA
56753411 TGAACTCGGACTCAACGCAACAAGTTCGGA
1 TGAACTCGGACTCAACGCAACAAGTTCGGA
56753441 CATTCGCATC
Statistics
Matches: 180, Mismatches: 18, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 4 0.02
45 4 0.02
46 56 0.31
47 84 0.47
48 4 0.02
49 4 0.02
50 8 0.04
51 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
TGAACTCGGACTCAACGCAACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:56753261 original size:93 final size:93
Alignment explanation
Indices: 56753133--56753489 Score: 669
Period size: 93 Copynumber: 3.8 Consensus size: 93
56753123 GCCCATAAGC
* * * * *
56753133 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56753198 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
56753226 GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56753291 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
56753319 GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56753384 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
56753412 GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56753477 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56753490 TCAACCATCC
Statistics
Matches: 259, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACGCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:56753486 original size:46 final size:46
Alignment explanation
Indices: 56753125--56753486 Score: 361
Period size: 46 Copynumber: 7.8 Consensus size: 46
56753115 TGTAACCCGC
* * * *
56753125 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56753171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
56753221 -C-TCA-TGAACTCGGACTCAACGCAACAAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56753264 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
56753314 -C-TCA-TGAACTCGGACTCAACGCAACAAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56753357 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
56753407 -C-TCA-TGAACTCGGACTCAACGCAACAAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56753450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56753487 TGCTCAACCA
Statistics
Matches: 261, Mismatches: 28, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.02
43 12 0.05
44 6 0.02
45 6 0.02
46 118 0.45
47 84 0.32
48 6 0.02
49 6 0.02
50 11 0.04
51 6 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56759052 original size:28 final size:28
Alignment explanation
Indices: 56759011--56759097 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
56759001 AAGTCCACAT
*
56759011 ACATTCTTATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
* * *
56759039 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCC-AATC
* *
56759068 ACA-ACTATATGGCCCACTAGGCCTAATC
1 ACATTC-ATATGGCCCACTAGGCCCAATC
56759096 AC
1 AC
56759098 TTTTACAGTC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
28 27 0.56
29 21 0.44
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:56759185 original size:17 final size:18
Alignment explanation
Indices: 56759163--56759197 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56759153 TTTCCTATTA
56759163 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
56759180 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
56759198 GTTGGCCCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:56760139 original size:4 final size:4
Alignment explanation
Indices: 56760132--56760157 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
56760122 ATATATAATA
56760132 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
56760158 CATACAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:56764025 original size:30 final size:30
Alignment explanation
Indices: 56763990--56764050 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56763980 TCCTTAACTC
*
56763990 AAACTTTTGCAAAATTATAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
56764020 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
56764050 A
1 A
56764051 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:56766261 original size:47 final size:47
Alignment explanation
Indices: 56766198--56766539 Score: 531
Period size: 47 Copynumber: 7.3 Consensus size: 47
56766188 CCCTTCGGGA
* * *
56766198 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * *
56766245 CTTATCACATATATACACCTCCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56766292 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56766339 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56766386 CTTGTCACATATATACACTTTCACATTAATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56766433 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56766480 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
56766527 CTTATCACATATA
1 CTTATCACATATA
56766540 CATATCTTGT
Statistics
Matches: 266, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 266 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:56771280 original size:44 final size:44
Alignment explanation
Indices: 56771209--56771359 Score: 159
Period size: 43 Copynumber: 3.5 Consensus size: 44
56771199 TATGTGTTAT
* * *
56771209 CGTGTAAGACCACGTCTAGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATTTA
*
56771253 CGTGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTA
* * * *
56771295 TGTGTAAGACC-CTATCTGGGACAGTGGCATTGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTTA
* *
56771338 CATGTAAGACCACGTCTCGGAC
1 CGTGTAAGACCACGTCTGGGAC
56771360 GTTGCCATTG
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
42 28 0.31
43 32 0.36
44 29 0.33
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTA
Found at i:56771345 original size:43 final size:42
Alignment explanation
Indices: 56771250--56771349 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
56771240 GACTTATGAT
* *
56771250 TTACGTGTAAGACCATGTCTGGGACATTGGCATCATATTTGA
1 TTACGTGTAAGACCATATCTGGGACAGTGGCATCATATTTGA
** * *
56771292 TTTTGTGTAAGACCCTATCTGGGACAGTGGCATTGATATTTGA
1 TTACGTGTAAGACCATATCTGGGACAGTGGCA-TCATATTTGA
*
56771335 TTACATGTAAGACCA
1 TTACGTGTAAGACCA
56771350 CGTCTCGGAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TTACGTGTAAGACCATATCTGGGACAGTGGCATCATATTTGA
Found at i:56775205 original size:68 final size:68
Alignment explanation
Indices: 56775096--56775248 Score: 306
Period size: 68 Copynumber: 2.2 Consensus size: 68
56775086 TAGATGAAAT
56775096 GTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACGAGATACTAT
1 GTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACGAGATACTAT
56775161 GTA
66 GTA
56775164 GTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACGAGATACTAT
1 GTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACGAGATACTAT
56775229 GTA
66 GTA
56775232 GTAGCTAGGTCACATGT
1 GTAGCTAGGTCACATGT
56775249 GTGATACGAG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACGAGATACTAT
GTA
Found at i:56775271 original size:68 final size:68
Alignment explanation
Indices: 56775096--56775287 Score: 264
Period size: 68 Copynumber: 2.8 Consensus size: 68
56775086 TAGATGAAAT
* * *
56775096 GTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACGAGATACTAT
1 GTAGCTAGGTCACATGTATGATACTGAGTGCACACCATGTGTACAAGAGAGCTACGAGATACTAT
56775161 GTA
66 GTA
* * *
56775164 GTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACGAGATACTAT
1 GTAGCTAGGTCACATGTATGATACTGAGTGCACACCATGTGTACAAGAGAGCTACGAGATACTAT
56775229 GTA
66 GTA
* *
56775232 GTAGCTAGGTCACATGTGTGATAC-GAGATGTATC-CCATGTAG-ACAAGAGAGCTACG
1 GTAGCTAGGTCACATGTATGATACTGAG-TGCA-CACCATGT-GTACAAGAGAGCTACG
56775288 GGAGAAGATA
Statistics
Matches: 116, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
67 3 0.03
68 111 0.96
69 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTATGATACTGAGTGCACACCATGTGTACAAGAGAGCTACGAGATACTAT
GTA
Found at i:56775901 original size:59 final size:59
Alignment explanation
Indices: 56775826--56775943 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
56775816 CTATGTGATC
*
56775826 CCCTGTTCTAAATTTGAAAAATCATTAAAAATTGTAAAAAACTAGTTAAGAAATATAGT
1 CCCTGTTCTAAATTTGAAAAATCATTAAAAATTGTAAAAAACTAATTAAGAAATATAGT
* *
56775885 CCCTGTTCTAACTTTGAAAAATCATTAAAAATTGTACAAAACTAATTAAGAAATATAGT
1 CCCTGTTCTAAATTTGAAAAATCATTAAAAATTGTAAAAAACTAATTAAGAAATATAGT
56775944 TTATATTTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (59 bp):
CCCTGTTCTAAATTTGAAAAATCATTAAAAATTGTAAAAAACTAATTAAGAAATATAGT
Done.