Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 588 of 770
Found at i:183910673 original size:40 final size:40
Alignment explanation
Indices: 183910589--183910738 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
183910579 AAATTGAATG
* * *
183910589 ATATCCGGGCTAAG-CCCGAAGACAATATGCTG-GA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGTGACT
* * *
183910627 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
183910667 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
183910707 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
183910739 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 14 0.15
40 57 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:183918711 original size:78 final size:78
Alignment explanation
Indices: 183918580--183918728 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
183918570 AAATTGAATG
*
183918580 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
183918645 TTGTGCTAGTGGT
66 TTGTGCTAGTGGT
* * ** *
183918658 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
183918721 ATTTGTGC
64 AATTGTGC
183918729 ACGTGATTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 4 0.06
78 58 0.94
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGT
Found at i:183918742 original size:39 final size:40
Alignment explanation
Indices: 183918580--183918743 Score: 160
Period size: 39 Copynumber: 4.2 Consensus size: 40
183918570 AAATTGAATG
* * * **
183918580 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * *
183918619 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG-GT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
183918658 ATATCCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
183918697 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
183918737 A-ATCCGG
1 ATATCCGG
183918744 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
38 18 0.17
39 48 0.47
40 37 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:183923104 original size:41 final size:41
Alignment explanation
Indices: 183923003--183923113 Score: 140
Period size: 39 Copynumber: 2.8 Consensus size: 41
183922993 CTGGAAATTA
* * *
183923003 TATCCGGGTTAAGACCCGAAGGCAGTT-GTGCTAGTGACTAC
1 TATCCGGGCTAAGACCCGAAGGCA-TTCGTGCGAGTCACTAC
*
183923044 -ATCCGGGC-AAGACCCGAAGGCATTCGTGCGAGTCA-TTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCACTAC
183923082 TATCCGGGCTAAGACCCCGAAGGCATTCGTGC
1 TATCCGGGCTAAGA-CCCGAAGGCATTCGTGC
183923114 ACATGGTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
38 4 0.06
39 30 0.48
40 11 0.18
41 17 0.27
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.21
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCACTAC
Found at i:183930097 original size:79 final size:82
Alignment explanation
Indices: 183929957--183930141 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
183929947 TCGAATGATG
* * *
183929957 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
183930021 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
183930037 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
183930099 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
183930117 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
183930142 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:183930149 original size:40 final size:40
Alignment explanation
Indices: 183929958--183930149 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
183929948 CGAATGATGT
* * * * *
183929958 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
183929998 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
183930038 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
183930077 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
183930117 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
183930150 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:183932037 original size:27 final size:27
Alignment explanation
Indices: 183931996--183932049 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
183931986 TGTCATGTGA
* *
183931996 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
183932023 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
183932050 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:183932357 original size:49 final size:49
Alignment explanation
Indices: 183932278--183932457 Score: 236
Period size: 49 Copynumber: 3.6 Consensus size: 49
183932268 TATTGTGAGA
* *
183932278 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
* * * * * *
183932327 TCACATATGTAGTACTAAGTGCAGGTTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GG
* *
183932378 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
183932427 T-AGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCA-CATGTGTAGTACTAAGTGCAGGCTACTA
183932458 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 66 0.59
50 4 0.04
51 40 0.36
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
Found at i:183932449 original size:100 final size:100
Alignment explanation
Indices: 183932276--183932470 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 100
183932266 TCTATTGTGA
* *
183932276 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACATATGTAGTA
1 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCACATATGTAGTA
* *
183932341 CTAAGTGCAGGTTACTATGCGTACCCGATAACTTC
66 CTAAGTGCAGGCTACTATGCGTACCAGATAACTTC
*
183932376 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGT-AGCATGTGTAGT
1 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCA-CATATGTAGT
183932440 ACTAAGTGCAGGCTACTATGCGTACCAGATA
65 ACTAAGTGCAGGCTACTATGCGTACCAGATA
183932471 GCCTTATCTA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 1 0.01
100 88 0.99
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (100 bp):
GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCACATATGTAGTA
CTAAGTGCAGGCTACTATGCGTACCAGATAACTTC
Found at i:183932500 original size:100 final size:99
Alignment explanation
Indices: 183932277--183932503 Score: 264
Period size: 100 Copynumber: 2.3 Consensus size: 99
183932267 CTATTGTGAG
* ** * *
183932277 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACATATGTAGTAC
1 ATCACGTGTGTAGAAAAAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCACATATGTAGTAC
* *
183932342 TAAGTGCAGGTTACTATGCGTACCCGATAACTTC
66 TAAGTGCAGGCTACTATGCGTACCAGATAACTTC
* ** *
183932376 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGT-AGCATGTGTAGT
1 -ATCACGTGTGTAGAAAAAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCA-CATATGTAGT
*
183932440 ACTAAGTGCAGGCTACTATGCGTACCAGATAGCCTT-
64 ACTAAGTGCAGGCTACTATGCGTACCAGATA-ACTTC
183932476 ATCTACAG-GTGT-GAAAAAATGTGCAGGC
1 ATC-AC-GTGTGTAGAAAAAA-GTGCAGGC
183932504 AACTGAGTAT
Statistics
Matches: 113, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
99 8 0.07
100 101 0.89
101 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (99 bp):
ATCACGTGTGTAGAAAAAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCACATATGTAGTAC
TAAGTGCAGGCTACTATGCGTACCAGATAACTTC
Found at i:183933803 original size:2 final size:2
Alignment explanation
Indices: 183933798--183933830 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
183933788 CTTTTTTCAA
183933798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
183933831 CTAATTGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:183934082 original size:24 final size:24
Alignment explanation
Indices: 183934050--183934138 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
183934040 TGTTACTTAT
183934050 TCGCACACATAGTGCCATTTTTTC
1 TCGCACACATAGTGCCATTTTTTC
* **
183934074 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCATTTTTTC
183934098 TCGCACACATAGTGCCACTTAGTTTT-
1 TCGCACACATAGTGCCA-TT--TTTTC
183934124 T-GCACACATAGTGCC
1 TCGCACACATAGTGCC
183934139 GCATAACCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
24 38 0.68
25 15 0.27
26 1 0.02
27 2 0.04
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (24 bp):
TCGCACACATAGTGCCATTTTTTC
Found at i:183934129 original size:49 final size:48
Alignment explanation
Indices: 183934050--183934161 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 48
183934040 TGTTACTTAT
** *
183934050 TCGCACACATAGTGCCATTTTTTCTCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCATTTTTTCTCGCACACATAGTGCCACATAACC
*
183934098 TCGCACACATAGTGCCACTTAGTTTT-T-GCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCA-TT--TTTTCTCGCACACATAGTGCCACATAACC
*
183934147 TTGCACACATAGTGC
1 TCGCACACATAGTGC
183934162 TGAAATTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
48 17 0.30
49 34 0.61
50 1 0.02
51 4 0.07
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (48 bp):
TCGCACACATAGTGCCATTTTTTCTCGCACACATAGTGCCACATAACC
Found at i:183934546 original size:19 final size:20
Alignment explanation
Indices: 183934524--183934561 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
183934514 TAATTTCTTC
*
183934524 TTTTATTCCTATT-TTTATT
1 TTTTATTCATATTATTTATT
183934543 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
183934562 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTCATATTATTTATT
Found at i:183940878 original size:24 final size:24
Alignment explanation
Indices: 183940846--183940933 Score: 108
Period size: 24 Copynumber: 3.6 Consensus size: 24
183940836 TCTTACTTAT
183940846 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTTTC
* **
183940870 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTC
183940894 TCGCACACATAGTGCCACTTAGTTTT-
1 TCGCACACATAGTGCCAC---GTTTTC
183940920 T-GCACACATAGTGC
1 TCGCACACATAGTGC
183940934 TGCATAACTG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
24 38 0.69
25 13 0.24
26 1 0.02
27 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTTTTC
Found at i:183940884 original size:49 final size:49
Alignment explanation
Indices: 183940822--183940934 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 49
183940812 TTTGAAAGTC
* *
183940822 CGCACACATAGTGCTCTTACTTAT-TCGCACACATAGTGCCAC-GTTTTCT
1 CGCACACATAGTGCTCAT-CTAATCTCGCACACATAGTGCCACTGTTTT-T
*
183940871 CGCACACATAGTGC-CATGTAATCTCGCACACATAGTGCCACTTAGTTTTT
1 CGCACACATAGTGCTCATCTAATCTCGCACACATAGTGCCAC-T-GTTTTT
183940921 -GCACACATAGTGCT
1 CGCACACATAGTGCT
183940935 GCATAACTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
47 3 0.05
48 20 0.36
49 27 0.48
50 1 0.02
51 5 0.09
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (49 bp):
CGCACACATAGTGCTCATCTAATCTCGCACACATAGTGCCACTGTTTTT
Found at i:183945422 original size:40 final size:40
Alignment explanation
Indices: 183945066--183945412 Score: 523
Period size: 40 Copynumber: 8.7 Consensus size: 40
183945056 GAGAGTTATA
* *
183945066 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
183945106 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
183945146 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
183945186 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
183945226 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
183945266 TATATCCGGGCTAAGTCTCGAAGGGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * * *
183945306 TATATCCTGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
183945346 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
183945386 TATATCCGGGCTAGGTCTCGAAGAGCA
1 TATATCCGGGCTAAGTCCCGAAGAGCA
183945413 ATCATGCTGG
Statistics
Matches: 282, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 282 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:183946968 original size:40 final size:40
Alignment explanation
Indices: 183946923--183947089 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
183946913 CGGAATATAA
183946923 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
183946963 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
183947003 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
183947043 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
183947082 CCGGATAT
1 CCGGATAT
183947090 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:183947073 original size:80 final size:79
Alignment explanation
Indices: 183946939--183947089 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
183946929 ATAATCACGT
*
183946939 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
183947004 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
183947019 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
183947082 CCGGATAT
64 CCGGATAT
183947090 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:183953466 original size:40 final size:40
Alignment explanation
Indices: 183953402--183953545 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 40
183953392 GCCTACTGGA
* * * *
183953402 CTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* *
183953442 CTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
** * * *
183953482 CTTAGCCCGGATATAATTACTAGCATAAATGTCC-TCGGGA
1 CTTAGCCCGGATATAACAACTTGCACAAATG-CCTTCGGGT
* *
183953522 CTTAGCCCGGATATCACAATTTGC
1 CTTAGCCCGGATATAACAACTTGC
183953546 TCATGCACAC
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 83 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
Found at i:183955662 original size:48 final size:49
Alignment explanation
Indices: 183955591--183955820 Score: 245
Period size: 48 Copynumber: 4.7 Consensus size: 49
183955581 TGAGGTCACG
183955591 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGCGCA
* * * * * * *
183955639 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAG-GCGCA
* ** *
183955690 TGTGTAGTACTAAGTGCAGG-TACTACGTGTATCAGATGGTTAGG-TCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGCGCA
* * *
183955737 CGGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-GATAATT-GGTTGCA
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG-CGCA
* *
183955786 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
183955821 AATAGCTTGT
Statistics
Matches: 148, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 3 0.02
48 90 0.61
49 19 0.13
50 14 0.09
51 22 0.15
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGCGCA
Found at i:183955759 original size:99 final size:97
Alignment explanation
Indices: 183955586--183955820 Score: 289
Period size: 99 Copynumber: 2.4 Consensus size: 97
183955576 TATTGTGAGG
* *
183955586 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCGCATGTGTAGTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCACAGGTGTAGTACTA
*
183955651 AGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AGTGCAGGCTACTACGCGTA-CCGATAA-TTCGA
* **
183955685 TCACGTGTGTAGTACTAAGTGCAGG-TACTACGTGTATCAGATGGTTAGGTCAC-GGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GG-CACAGGTGTAGTAC
* * * *
183955748 TAAGTGTAGGCTACTACGTGTACCGATAATTGGT
64 TAAGTGCAGGCTACTACGCGTACCGATAATTCGA
* *
183955782 TGCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
183955821 AATAGCTTGT
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
96 20 0.17
97 15 0.13
98 27 0.23
99 55 0.46
100 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (97 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCACAGGTGTAGTACTA
AGTGCAGGCTACTACGCGTACCGATAATTCGA
Found at i:183957592 original size:29 final size:28
Alignment explanation
Indices: 183957554--183957656 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 28
183957544 TGAGAGATTA
*
183957554 GCACTGAGTGTGCGAGCTTGAAATGCATG
1 GCACTAAGTGTGCGAG-TTGAAATGCATG
183957583 GCACTAAGTGTGCGAGGTTGAAATGCATG
1 GCACTAAGTGTGCGA-GTTGAAATGCATG
* * **
183957612 GCACTATAGTGTTGTGAGTTTAAAGTATATG
1 GCACTA-AGTG-TGCGAGTTGAAA-TGCATG
183957643 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
183957657 CGGCTGATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
29 35 0.55
30 15 0.23
31 14 0.22
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTGAAATGCATG
Found at i:183967224 original size:29 final size:29
Alignment explanation
Indices: 183967191--183967255 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
183967181 GTGACGAGAT
183967191 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
183967220 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
183967249 CGGCACT
1 TGGCACT
183967256 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:183984435 original size:38 final size:39
Alignment explanation
Indices: 183984289--183984450 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
183984279 TATGGTAACC
** *
183984289 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
183984329 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
183984368 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
183984407 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
183984445 CGCACA
1 CGCACA
183984451 TTCATTCACA
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 29 0.25
39 69 0.61
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:183991715 original size:26 final size:26
Alignment explanation
Indices: 183991679--183991732 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
183991669 CATACTCCAC
183991679 TATTACGAACCATTTTCGCATGGCCG
1 TATTACGAACCATTTTCGCATGGCCG
183991705 TATTACGAACCATTTTCGCATGGCCG
1 TATTACGAACCATTTTCGCATGGCCG
183991731 TA
1 TA
183991733 CACATATACA
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:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (26 bp):
TATTACGAACCATTTTCGCATGGCCG
Found at i:183993435 original size:30 final size:30
Alignment explanation
Indices: 183993399--183993529 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
183993389 GACAAGATTG
* * * * *
183993399 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
183993429 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
183993457 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
183993487 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
183993516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
183993530 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:183993490 original size:58 final size:58
Alignment explanation
Indices: 183993399--183993529 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
183993389 GACAAGATTG
* * * * * *
183993399 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
183993457 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
183993516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
183993530 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:184009194 original size:41 final size:41
Alignment explanation
Indices: 184009149--184009266 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
184009139 TGAAAGATAA
184009149 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
184009190 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
184009220 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
184009261 ATGTAG
1 ATGTAG
184009267 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:184009205 original size:71 final size:71
Alignment explanation
Indices: 184009117--184009280 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
184009107 GAGATGTATC
184009117 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
184009182 AGGACA
66 AGGACA
184009188 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
184009253 AGGACA
66 AGGACA
184009259 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
184009281 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:184010650 original size:40 final size:40
Alignment explanation
Indices: 184010595--184010801 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 40
184010585 TGTTACAAAG
* * *
184010595 CCCGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAAT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
*
184010635 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
* *
184010675 CCCGAAGGCAATTGTGTGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
* *
184010715 CCTGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
* * **
184010755 CCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAAC
1 CCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGT
184010794 CCCGAAGG
1 CCCGAAGG
184010802 TACTTGGTTT
Statistics
Matches: 151, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.11
40 135 0.89
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
Found at i:184018725 original size:40 final size:40
Alignment explanation
Indices: 184018664--184018850 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
184018654 ATTCGGATTG
*
184018664 ATAACTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
184018703 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
184018743 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
184018783 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
184018823 ATAA-CGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
184018851 AGCAGTAGCT
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 35 0.25
40 105 0.75
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:184020885 original size:3 final size:3
Alignment explanation
Indices: 184020861--184020943 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
184020851 GTTTTATTTT
* *
184020861 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
184020904 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
184020944 ATGTGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:184020918 original size:21 final size:18
Alignment explanation
Indices: 184020865--184020938 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
184020855 TATTTTTTAT
* *
184020865 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
184020884 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
184020902 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
184020923 TTTATATTATTATTAT
1 TTTATATTATTATTAT
184020939 ATTATATGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 22 0.46
19 9 0.19
20 5 0.10
21 12 0.25
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:184020930 original size:12 final size:12
Alignment explanation
Indices: 184020854--184020943 Score: 78
Period size: 12 Copynumber: 7.3 Consensus size: 12
184020844 GAGCTTTGTT
* *
184020854 TTATTTTTTATT
1 TTATTATTTATA
*
184020866 TTATTATTTTTA
1 TTATTATTTATA
*
184020878 CTATTATTTATA
1 TTATTATTTATA
184020890 TTATTA-TTATTA
1 TTATTATTTA-TA
184020902 TT-TCTCATGTATATA
1 TTAT-T-AT-T-TATA
184020917 TTATTATTTATA
1 TTATTATTTATA
184020929 TTATTA-TTATA
1 TTATTATTTATA
184020940 TTAT
1 TTAT
184020944 ATGTGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
11 13 0.20
12 39 0.60
13 2 0.03
14 2 0.03
15 6 0.09
16 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:184021200 original size:10 final size:10
Alignment explanation
Indices: 184021169--184021212 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
184021159 TATATTAGTG
*
184021169 TATATTTTTA
1 TATATTTATA
* *
184021179 TGTATATATA
1 TATATTTATA
184021189 TATATTTATA
1 TATATTTATA
*
184021199 TATATTAATA
1 TATATTTATA
184021209 TATA
1 TATA
184021213 GTATTGTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TATATTTATA
Found at i:184021311 original size:23 final size:21
Alignment explanation
Indices: 184021276--184021350 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 21
184021266 TTTCTATATT
184021276 TATTATTAT-TATTATATAGTA
1 TATTATT-TCTATTATATAGTA
*
184021297 GTATGTATTTCTATTATATACATA
1 -TAT-TATTTCTATTATATA-GTA
*
184021321 TATATATTTTTA-TATATAGTA
1 TAT-TATTTCTATTATATAGTA
184021342 TTATTATTT
1 -TATTATTT
184021351 ACTTTACTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
21 7 0.16
22 13 0.29
23 23 0.51
24 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTCTATTATATAGTA
Found at i:184032000 original size:44 final size:44
Alignment explanation
Indices: 184031861--184032009 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 44
184031851 CACAGATCTT
* * * *** *
184031861 ACCCCATAAGTAGTAGGGGAACAGATCGAACGCAACGAGCTTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAATAATGAGCTTTA
* * ** * *
184031905 ACCCCCTAAGCAGTAGGGTAACA-AGTTGAAGTTCAT-AGATCTTA
1 ACCCCCTAAGCAGTAGGGAAACAGA-TCGAAAATAATGAGCT-TTA
* *
184031949 TCACCCTAAGCAGTAGGGAAACAGATCGAAAATAATGAGCTTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAATAATGAGCTTTA
184031993 ACCCCCTAAGCAGTAGG
1 ACCCCCTAAGCAGTAGG
184032010 ATAACAAGCC
Statistics
Matches: 81, Mismatches: 20, Indels: 8
0.74 0.18 0.07
Matches are distributed among these distances:
43 4 0.05
44 73 0.90
45 4 0.05
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (44 bp):
ACCCCCTAAGCAGTAGGGAAACAGATCGAAAATAATGAGCTTTA
Found at i:184032002 original size:88 final size:86
Alignment explanation
Indices: 184031845--184032017 Score: 240
Period size: 88 Copynumber: 2.0 Consensus size: 86
184031835 TTAGAATAAG
* * **
184031845 TGAATTCACAGATCTTACCCCATAAGTAGTAGGGGAACAGATCGAACGCAACGAGCTTTAACCCC
1 TGAATTCACAGATCTTACCCCATAAGCAGTAGGGAAACAGATCGAAAACAACGAGCTTTAACCCC
*
184031910 CTAAGCAGTAGGGTAACAAGT
66 CTAAGCAGTAGGATAACAAGT
* * *
184031931 TGAAGTTCATAGATCTTATCACCC-TAAGCAGTAGGGAAACAGATCGAAAATAATGAGCTTTAAC
1 TGAA-TTCACAGATCTTA-C-CCCATAAGCAGTAGGGAAACAGATCGAAAACAACGAGCTTTAAC
184031995 CCCCTAAGCAGTAGGATAACAAG
63 CCCCTAAGCAGTAGGATAACAAG
184032018 CCAAATTTAC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 4 0.05
87 12 0.16
88 57 0.75
89 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (86 bp):
TGAATTCACAGATCTTACCCCATAAGCAGTAGGGAAACAGATCGAAAACAACGAGCTTTAACCCC
CTAAGCAGTAGGATAACAAGT
Found at i:184032401 original size:44 final size:44
Alignment explanation
Indices: 184032172--184032498 Score: 201
Period size: 44 Copynumber: 7.5 Consensus size: 44
184032162 AGATCTCAAC
184032172 CCCCTAAGCAGTAGGGAAA-AGAT-TGAAGATGATGAGTCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCT-AAGATGATGAGTCTTAAA
* * * * * *
184032215 CCCCTAAGCAGTAGGGTAACACG--CTAA-AT-TTACAGACCTCAAT
1 CCCCTAAGCAGTAGGGAAACA-GATCTAAGATGAT-GAG-TCTTAAA
* **
184032258 CCCCTAAGAAGTAGGGAAGTAGAT-TGAAGATGATGAGTCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCT-AAGATGATGAGTCTTAAA
* * * * *
184032302 ACCCTAAGCAGTAGGGTAACAGA-CTAA-AT-TTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCTAAGATGAT-GAG-TCTTAAA
* ** *
184032345 CCCCTAAACAGTAGGGAAACAGATCTAAGGCGATGAGCCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCTAAGATGATGAGTCTTAAA
* * * ** * **
184032389 CCCCTAAGCAGTAGGGTAACAG-GCTGATTTTACAAGATCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCTAAGATGATGAG-TCTTAAA
* ** * *
184032433 CACCTAAGCAGTAGGGAAACAGATC-AATGATGACAAGCCTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCTAA-GATGATGAGTCTTAAA
*
184032477 CCCCTAAGCAGTAGGGTAACAG
1 CCCCTAAGCAGTAGGGAAACAG
184032499 GTTGAAAATC
Statistics
Matches: 211, Mismatches: 54, Indels: 37
0.70 0.18 0.12
Matches are distributed among these distances:
41 2 0.01
42 9 0.04
43 76 0.36
44 108 0.51
45 14 0.07
46 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (44 bp):
CCCCTAAGCAGTAGGGAAACAGATCTAAGATGATGAGTCTTAAA
Found at i:184032472 original size:88 final size:87
Alignment explanation
Indices: 184032156--184032499 Score: 424
Period size: 87 Copynumber: 4.0 Consensus size: 87
184032146 CAGATTGAAG
* *
184032156 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAA-AGATTGAAGATGATGAGTCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTCAAGATGATGAGCCTTAAACCCCT
*
184032220 AAGCAGTAGGGTAACACGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
* * * ** * * *
184032242 ATTTACAGACCTCAATCCCCTAAGAAGTAGGGAAGTAGATTGAAGATGATGAGTCTTAAAACCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTCAAGATGATGAGCCTTAAACCCCT
*
184032307 AAGCAGTAGGGTAACAGACTAA
66 AAGCAGTAGGGTAACAGGCTAA
* * **
184032329 ATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGA-TCTAAGGCGATGAGCCTTAAACCCC
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTC-AAGATGATGAGCCTTAAACCCC
*
184032393 TAAGCAGTAGGGTAACAGGCTGA
65 TAAGCAGTAGGGTAACAGGCTAA
* * * * ** *
184032416 TTTTACAAGATCTTAAACACCTAAGCAGTAGGGAAACAGA-TCAATGATGACAAGCCTTAACCCC
1 ATTTAC-AGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTCAA-GATGATGAGCCTTAAACCC
184032480 CTAAGCAGTAGGGTAACAGG
64 CTAAGCAGTAGGGTAACAGG
184032500 TTGAAAATCA
Statistics
Matches: 224, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
86 32 0.14
87 126 0.56
88 66 0.29
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (87 bp):
ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTCAAGATGATGAGCCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAA
Found at i:184032962 original size:13 final size:14
Alignment explanation
Indices: 184032946--184032974 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
184032936 TAACCCAACC
184032946 CCAAAAAA-AAAAA
1 CCAAAAAAGAAAAA
184032959 CCAAAAAAGAAAAA
1 CCAAAAAAGAAAAA
184032973 CC
1 CC
184032975 TTAATCCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.21, G:0.03, T:0.00
Consensus pattern (14 bp):
CCAAAAAAGAAAAA
Found at i:184033447 original size:3 final size:3
Alignment explanation
Indices: 184033436--184033518 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
184033426 TTTTATTTTT
* *
184033436 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
184033479 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
184033519 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:184033493 original size:21 final size:18
Alignment explanation
Indices: 184033440--184033522 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
184033430 ATTTTTTTAT
* *
184033440 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
184033459 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
184033477 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
184033498 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
184033515 TTATATAT
1 TT-TATAT
184033523 GCCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:184033762 original size:19 final size:19
Alignment explanation
Indices: 184033735--184033786 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
184033725 CTATTACTAT
*
184033735 TATTATTATATAT-TAGTGTA
1 TATT-TTATATATATA-TATA
*
184033755 TATTTTATGTATATATATA
1 TATTTTATATATATATATA
184033774 TATTTTATATATA
1 TATTTTATATATA
184033787 GTATTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
TATTTTATATATATATATA
Found at i:184046604 original size:23 final size:24
Alignment explanation
Indices: 184046565--184046611 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
184046555 TAATATTACA
*
184046565 TAAAGATATACTTATATAT-ATAT
1 TAAAGATATACTCATATATGATAT
184046588 TAAAGATATA-TGCATATATGATAT
1 TAAAGATATACT-CATATATGATAT
184046612 AATACATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 16 0.76
24 4 0.19
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (24 bp):
TAAAGATATACTCATATATGATAT
Found at i:184046935 original size:14 final size:14
Alignment explanation
Indices: 184046918--184046952 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
184046908 CTATACGTAA
* *
184046918 ATATATATATATAC
1 ATATATACATAAAC
184046932 ATATATACATAAAC
1 ATATATACATAAAC
184046946 ATATATA
1 ATATATA
184046953 AACATTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATATACATAAAC
Found at i:184047091 original size:3 final size:3
Alignment explanation
Indices: 184047083--184047140 Score: 91
Period size: 3 Copynumber: 19.0 Consensus size: 3
184047073 ACAAAAGCAC
184047083 ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
184047129 AT- ATCA ATA ATA
1 ATA AT-A ATA ATA
184047141 TGAAAATAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.87
4 5 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:184048453 original size:31 final size:30
Alignment explanation
Indices: 184048381--184048453 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
184048371 TGGTACTAAG
*
184048381 AAAATATATATATATATAAATAATAGTATT
1 AAAATATATATATATATAAATAATAATATT
* *
184048411 AGAAATCATATAGTATATATAACTGATAATATT
1 A-AAAT-ATATA-TATATATAAATAATAATATT
184048444 AAAATATATA
1 AAAATATATA
184048454 CATAATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATATATATATATATAAATAATAATATT
Found at i:184048677 original size:3 final size:3
Alignment explanation
Indices: 184048669--184048710 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
184048659 ACAAGGATAT
*
184048669 ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
184048711 TTGAAACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:184048822 original size:3 final size:3
Alignment explanation
Indices: 184048814--184048874 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
184048804 AATGTATTTC
*
184048814 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
184048862 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
184048875 TTGAAATGCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:184049364 original size:11 final size:12
Alignment explanation
Indices: 184049348--184049383 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
184049338 AGAAAAAAAA
184049348 GAAGAGAG-AGG
1 GAAGAGAGAAGG
184049359 GAAGAGAGAAGG
1 GAAGAGAGAAGG
184049371 G-AGAGAGAAGG
1 GAAGAGAGAAGG
184049382 GA
1 GA
184049384 GGGGAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:184049535 original size:12 final size:12
Alignment explanation
Indices: 184049477--184049526 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
184049467 AAAAAAAAAA
184049477 TTTGTATA-TTT
1 TTTGTATATTTT
*
184049488 TTTGTTTATTTT
1 TTTGTATATTTT
*
184049500 TTTGTATATCTT
1 TTTGTATATTTT
184049512 TTTGTATATTTT
1 TTTGTATATTTT
184049524 TTT
1 TTT
184049527 TTATGTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 7 0.21
12 27 0.79
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTGTATATTTT
Found at i:184049956 original size:35 final size:35
Alignment explanation
Indices: 184049916--184049986 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
184049906 GGAGTGTGTG
*
184049916 ATGGTGTTGGTGGCAGACAACATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
* *
184049951 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
184049986 A
1 A
184049987 GAAGCAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.45, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
Found at i:184053923 original size:20 final size:20
Alignment explanation
Indices: 184053890--184053927 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
184053880 ATTTTTTAAG
*
184053890 TTATAAATATTTCAATTTTGA
1 TTATAAATAATTC-ATTTTGA
184053911 TTAT-AATAATTCATTTT
1 TTATAAATAATTCATTTT
184053928 ATTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 7 0.44
21 4 0.25
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATAAATAATTCATTTTGA
Found at i:184054095 original size:112 final size:113
Alignment explanation
Indices: 184053977--184054215 Score: 276
Period size: 112 Copynumber: 2.1 Consensus size: 113
184053967 AAAAAATATA
* *
184053977 TATTATATATATTTAATAAGGCTTTTTTATATAAAATAATTAAAATGCTCATTGTATGTAAA-TT
1 TATTATATATATTT-A-AA-GCTTTTTTATATAAAATAATTAAAATACTCATTGGATGTAAAGTT
184054041 TATTA-TATA-ATATGCATATGAATTGAT-GAAATTATATTTTATTATTT-T
63 TATTATTATAGATATGCATATGAATTGATGGAAA-TATATTTTATTATTTAT
* * * * *
184054089 TATTATAT-TCA-TTAGAGTTTTTTTATATAAAATAATTGAAGTACTTATTGGATGTAAAGTTTA
1 TATTATATAT-ATTTAAAGCTTTTTTATATAAAATAATTAAAATACTCATTGGATGTAAAGTTTA
* * *
184054152 TTATTATATGATATGTATATGAATTGATGGAAATATCTTTTATTCTTTAT
65 TTATTATA-GATATGCATATGAATTGATGGAAATATATTTTATTATTTAT
184054202 TATTATATTATATT
1 TATTATA-TATATT
184054216 GACAATTGAA
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
108 36 0.34
109 8 0.07
110 5 0.05
111 3 0.03
112 39 0.36
113 12 0.11
114 2 0.02
115 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (113 bp):
TATTATATATATTTAAAGCTTTTTTATATAAAATAATTAAAATACTCATTGGATGTAAAGTTTAT
TATTATAGATATGCATATGAATTGATGGAAATATATTTTATTATTTAT
Found at i:184054097 original size:108 final size:113
Alignment explanation
Indices: 184053977--184054210 Score: 293
Period size: 108 Copynumber: 2.1 Consensus size: 113
184053967 AAAAAATATA
* *
184053977 TATTATATATATTTAATAAG-GCTTTTTTATATAAAATAATTAAAATGCTCATTGTATGTAAA-T
1 TATTAT-TATATTTAATAAGAGCTTTTTTATATAAAATAATTAAAATACTCATTGGATGTAAAGT
184054040 TTATTA-TATA-ATATGCATATGAATTGAT-GAAATTATATTTTATTATT
65 TTATTATTATAGATATGCATATGAATTGATGGAAA-TATATTTTATTATT
* * * * * *
184054087 T-TTATTATA-TTCATTAGAGTTTTTTTATATAAAATAATTGAAGTACTTATTGGATGTAAAGTT
1 TATTATTATATTTAATAAGAGCTTTTTTATATAAAATAATTAAAATACTCATTGGATGTAAAGTT
* * *
184054150 TATTATTATATGATATGTATATGAATTGATGGAAATATCTTTTATTCTT
66 TATTATTATA-GATATGCATATGAATTGATGGAAATATATTTTATTATT
184054199 TATTATTATATT
1 TATTATTATATT
184054211 ATATTGACAA
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
107 6 0.06
108 40 0.38
109 11 0.10
110 5 0.05
112 30 0.29
113 12 0.11
114 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (113 bp):
TATTATTATATTTAATAAGAGCTTTTTTATATAAAATAATTAAAATACTCATTGGATGTAAAGTT
TATTATTATAGATATGCATATGAATTGATGGAAATATATTTTATTATT
Found at i:184057922 original size:5 final size:5
Alignment explanation
Indices: 184057901--184057953 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
184057891 TGTTAAAATA
* *
184057901 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
184057949 TATAT
1 TATAT
184057954 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:184057932 original size:10 final size:9
Alignment explanation
Indices: 184057898--184057954 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
184057888 ATGTGTTAAA
184057898 ATATATATT
1 ATATATATT
*
184057907 AAAT-TATT
1 ATATATATT
184057915 AT-TATATT
1 ATATATATT
184057923 ATAGTATATT
1 ATA-TATATT
184057933 ATAT-TA-T
1 ATATATATT
184057940 ATATTATATT
1 ATA-TATATT
184057950 ATATA
1 ATATA
184057955 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:184057944 original size:12 final size:12
Alignment explanation
Indices: 184057899--184057954 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
184057889 TGTGTTAAAA
*
184057899 TATATATTAAAT
1 TATATATTATAT
184057911 TAT-TATTATATT
1 TATATATTATA-T
184057923 ATAGTATATTATAT
1 -TA-TATATTATAT
184057937 TATATATTATAT
1 TATATATTATAT
184057949 TATATA
1 TATATA
184057955 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:184059290 original size:18 final size:19
Alignment explanation
Indices: 184059269--184059307 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
184059259 ATATATAGAT
184059269 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
184059287 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
184059306 AT
1 AT
184059308 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:184059655 original size:39 final size:39
Alignment explanation
Indices: 184059545--184059679 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
184059535 GACCTCGAGT
* * * *
184059545 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
184059586 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
184059624 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
184059663 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
184059680 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:184059823 original size:18 final size:19
Alignment explanation
Indices: 184059802--184059842 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
184059792 AATGAAATGA
184059802 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
184059820 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
184059839 GAAA
1 GAAA
184059843 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:184061174 original size:12 final size:12
Alignment explanation
Indices: 184061157--184061182 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
184061147 AATAGAGAAA
184061157 AATAATAAATAT
1 AATAATAAATAT
184061169 AATAATAAATAT
1 AATAATAAATAT
184061181 AA
1 AA
184061183 CGATATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:184061431 original size:11 final size:11
Alignment explanation
Indices: 184061415--184061444 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
184061405 TAACATTAGG
184061415 AATATATATAT
1 AATATATATAT
*
184061426 AATATAAATAT
1 AATATATATAT
184061437 AATATATA
1 AATATATA
184061445 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:184062165 original size:12 final size:12
Alignment explanation
Indices: 184062148--184062189 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
184062138 GGTGGTAGAC
184062148 AATGGGAGGAAA
1 AATGGGAGGAAA
184062160 AATGGGAGGAAA
1 AATGGGAGGAAA
184062172 AATGGGAGGAAA
1 AATGGGAGGAAA
184062184 AATGGG
1 AATGGG
184062190 GCAAGTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.43, T:0.10
Consensus pattern (12 bp):
AATGGGAGGAAA
Found at i:184062255 original size:7 final size:7
Alignment explanation
Indices: 184062243--184062274 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
184062233 TTTTGTTAGG
184062243 TTTTTTC
1 TTTTTTC
184062250 TTTTTTC
1 TTTTTTC
184062257 TTTTTTC
1 TTTTTTC
184062264 TTTTTT-
1 TTTTTTC
184062270 TTTTT
1 TTTTT
184062275 GGGTTAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTC
Found at i:184062255 original size:24 final size:25
Alignment explanation
Indices: 184062215--184062261 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
184062205 GTTAGGTGGC
184062215 TAGGTTTTTTTAGTTTT-TTTTTGT
1 TAGGTTTTTTTAGTTTTCTTTTTGT
*
184062239 TAGGTTTTTTCT-TTTTTCTTTTT
1 TAGGTTTTTT-TAGTTTTCTTTTT
184062262 TCTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.06, C:0.04, G:0.13, T:0.77
Consensus pattern (25 bp):
TAGGTTTTTTTAGTTTTCTTTTTGT
Found at i:184063149 original size:30 final size:30
Alignment explanation
Indices: 184063113--184063174 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
184063103 TTTTGAAGAA
184063113 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
184063143 CAGAAATTAAAAAGCTCAACTCATCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
184063173 CA
1 CA
184063175 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:184063288 original size:14 final size:14
Alignment explanation
Indices: 184063265--184063299 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
184063255 TGAGTTGATT
184063265 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
184063278 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
184063292 TTTGAAAA
1 TTTGAAAA
184063300 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:184063344 original size:88 final size:86
Alignment explanation
Indices: 184063191--184063359 Score: 232
Period size: 88 Copynumber: 1.9 Consensus size: 86
184063181 GTTGAAATTT
* * *
184063191 TTTGAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
1 TTTGAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATAT
*
184063256 GAGTTGATTTTTGAAAACAGAA
66 GAGCTGA-TTTTGAAAACAGAA
** * *
184063278 TTTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTG-AAAACAGAAATTGAAAATACCTCAG-CACGTGACCCAAGGCTCAACTCACCTCTCGCAAT
184063342 ATGAGCTGATTTTGAAAA
64 ATGAGCTGATTTTGAAAA
184063360 AGTAGAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
87 14 0.19
88 58 0.81
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (86 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATAT
GAGCTGATTTTGAAAACAGAA
Found at i:184063527 original size:72 final size:72
Alignment explanation
Indices: 184063377--184063571 Score: 250
Period size: 72 Copynumber: 2.7 Consensus size: 72
184063367 ATTAAAAGGT
* * * * * * * *
184063377 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
184063442 CCTGAGGC
65 CCCGAGGC
*
184063450 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGC
184063514 CCCGAGGC
65 CCCGAGGC
* *
184063522 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAA
184063572 GGCTTAACTC
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 7 0.07
72 69 0.64
73 31 0.29
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:184063723 original size:71 final size:70
Alignment explanation
Indices: 184063607--184063817 Score: 280
Period size: 72 Copynumber: 3.0 Consensus size: 70
184063597 AGTCAAACTA
*
184063607 AAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACA
1 AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTGAAAACA
184063672 ACAATT
65 ACAATT
* ** * ** *
184063678 AAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTGTCGCAATATGAGTTGAAGTTAAAACAC
1 AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAA-AC
*
184063743 AAAAATT
64 AACAATT
* *
184063750 GAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA-A
1 AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAAACA
184063814 ACAA
65 ACAA
184063818 AAATTAAAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
70 4 0.03
71 53 0.45
72 61 0.52
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (70 bp):
AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTGAAAACAA
CAATT
Found at i:184065265 original size:46 final size:46
Alignment explanation
Indices: 184065198--184065372 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
184065188 TGTAACCCGC
*
184065198 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
184065244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* ** *
184065294 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
184065337 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
184065373 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:184065317 original size:93 final size:93
Alignment explanation
Indices: 184065205--184065376 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
184065195 CGCCCATAAG
** *
184065205 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
184065270 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
184065298 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
184065363 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
184065377 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:184072354 original size:46 final size:46
Alignment explanation
Indices: 184072287--184072458 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
184072277 TGTAACCCGC
*
184072287 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
184072333 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
184072383 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
184072426 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
184072459 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:184081237 original size:41 final size:41
Alignment explanation
Indices: 184081148--184081284 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
184081138 TTCACACAAT
* * * *
184081148 TGCCTTCGGGAATTTACCCGGA-TTTAGTAACTCGCAC-GAA
1 TGCCTTTGGGACTTAACCC-GATTTTAGTAACTCGCACAAAA
* *
184081188 TGCCTTTGGGACTTAACTCGATTTTGGTAACTCGCACAAAA
1 TGCCTTTGGGACTTAACCCGATTTTAGTAACTCGCACAAAA
* * *
184081229 TGCCTTTGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAA
1 TGCCTTTGGGACTTAACCCGATTTTAGTAAC-TCGCACAAAA
*
184081271 -GCCTTCGGGACTTA
1 TGCCTTTGGGACTTA
184081285 GCCCAGATAC
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 29 0.35
41 42 0.51
42 9 0.11
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (41 bp):
TGCCTTTGGGACTTAACCCGATTTTAGTAACTCGCACAAAA
Found at i:184086927 original size:24 final size:24
Alignment explanation
Indices: 184086895--184087053 Score: 264
Period size: 24 Copynumber: 6.6 Consensus size: 24
184086885 TATCTCAAAT
*
184086895 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
184086919 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
184086943 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
184086967 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
184086991 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
184087015 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
184087039 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
184087054 ACATAATAAG
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 131 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:184087066 original size:48 final size:48
Alignment explanation
Indices: 184086895--184087075 Score: 256
Period size: 48 Copynumber: 3.8 Consensus size: 48
184086885 TATCTCAAAT
* *
184086895 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
*
184086943 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
* * *
184086991 GCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
* ** *
184087039 GCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ATTTACTATAGCACTATGTGTGC
184087076 CACATTCGGT
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
48 118 0.97
49 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
Found at i:184087067 original size:72 final size:72
Alignment explanation
Indices: 184086895--184087075 Score: 222
Period size: 72 Copynumber: 2.5 Consensus size: 72
184086885 TATCTCAAAT
* * * *
184086895 GCACTATGTGTGCGA-TTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAT
1 GCACTATGTGTGCGACAT-AATATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGAT
*
184086959 TTACTATG
65 TTACTATA
** * * *
184086967 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATT
1 GCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
*
184087032 TGCTATA
66 TACTATA
*
184087039 GCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
184087076 CACATTCGGT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 91 0.93
73 7 0.07
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (72 bp):
GCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
TACTATA
Found at i:184088681 original size:22 final size:23
Alignment explanation
Indices: 184088656--184088704 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
184088646 AAAGAAGAAG
184088656 TTAGTCTTGGTTAAATGACTC-A
1 TTAGTCTTGGTTAAATGACTCAA
184088678 TTAGTCTTGGTTAAATGACTCAA
1 TTAGTCTTGGTTAAATGACTCAA
184088701 TTAG
1 TTAG
184088705 GTATGAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
TTAGTCTTGGTTAAATGACTCAA
Found at i:184093494 original size:39 final size:39
Alignment explanation
Indices: 184093440--184093625 Score: 293
Period size: 39 Copynumber: 4.8 Consensus size: 39
184093430 GAATGTTCGG
184093440 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
184093479 GTGATATCCGAGCTAAGCCTGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* * *
184093518 GTGGTATCTGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
184093557 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
184093596 GTGATATCCGGGTTAAGTCCCGAAGG-AATT
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATT
184093626 TATGCGAGCT
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 126 0.94
40 8 0.06
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:184096810 original size:53 final size:53
Alignment explanation
Indices: 184096725--184096829 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
184096715 TTCCCTTTTA
* * * ** * *
184096725 AACTTACCATTTCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCATTGCCTTATG
*
184096778 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCATTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCATTGCCTTAT
184096830 CGTAGTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCATTGCCTTATG
Found at i:184101878 original size:40 final size:40
Alignment explanation
Indices: 184101833--184101962 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
184101823 CGGAATACAA
184101833 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
184101873 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
184101913 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
184101953 CCGGATATAA
1 CCGGATATAA
184101963 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:184101977 original size:40 final size:40
Alignment explanation
Indices: 184101833--184101996 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
184101823 CGGAATACAA
* **
184101833 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
184101873 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
184101913 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
184101953 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
184101993 CCGG
1 CCGG
184101997 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:184110019 original size:40 final size:40
Alignment explanation
Indices: 184109877--184110041 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
184109867 CGGAATATAA
**
184109877 CCGGATATAA-CACGTGCACAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
* *
184109915 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
184109955 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
184109995 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
184110034 CCGGATAT
1 CCGGATAT
184110042 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
38 9 0.09
39 21 0.20
40 73 0.71
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:184113135 original size:27 final size:28
Alignment explanation
Indices: 184113105--184113174 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
184113095 ATAATAAGTC
*
184113105 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
184113132 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
184113160 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
184113175 GTACAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:184121049 original size:27 final size:28
Alignment explanation
Indices: 184121019--184121088 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
184121009 ATAATAAGTC
*
184121019 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
184121046 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
184121074 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
184121089 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:184125305 original size:50 final size:48
Alignment explanation
Indices: 184125246--184125427 Score: 171
Period size: 50 Copynumber: 3.8 Consensus size: 48
184125236 TAGGGTATAA
* *
184125246 TGCCAATGCCATGTCTCAGACAAGGTCTTACACTAGCTCTTACATATCCG
1 TGCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTC-TACAT-TCCG
* * *
184125296 TGCCGATGCCATGTCCCA-AGCATGGTCTTACACT-G-AC-ACATTTCG
1 TGCCGATGCCATGTCCCAGA-CAAGGTCTTACACTAGCTCTACATTCCG
* * **
184125341 TAGCCGATG-CATGTCCCAGAC-ATGTCTTACACTAGCTCT-CGTCTCAA
1 T-GCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTACAT-TCCG
* *
184125388 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 TGCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCT
184125428 CATAATGTGG
Statistics
Matches: 108, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
44 10 0.09
45 15 0.14
46 22 0.20
47 14 0.13
48 16 0.15
49 2 0.02
50 29 0.27
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTACATTCCG
Found at i:184125448 original size:47 final size:45
Alignment explanation
Indices: 184125347--184125470 Score: 126
Period size: 47 Copynumber: 2.7 Consensus size: 45
184125337 TTCGTAGCCG
* *
184125347 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGCCA
* *
184125393 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AATGTGGTCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGATCAA--T-GCCA
* *
184125441 ATGCATGTCCCAAACATATCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
184125471 ACACAAATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.03
46 15 0.23
47 28 0.42
48 21 0.32
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGCCA
Found at i:184125463 original size:94 final size:92
Alignment explanation
Indices: 184125296--184125470 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 92
184125286 TACATATCCG
* * *
184125296 TGCCGATGCCATGTCCCAAGCATGGTCTTACACTGACACATTTCGTAGCCGATGCATGTCCCAGA
1 TGCCGATGCCATGTCCCAAGCATGGTCTTACACTGACACATATCGTAGCCAATGCATGTCCCAAA
*
184125361 CATGTCTTACACTAGCTCTCGTCTCAA
66 CATATCTTACACTAGCTCTCGTCTCAA
* * * *
184125388 TGCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCAATGCATGTCC
1 TGCCGATGCCATGTCCCAAG-CATGGTCTTACACT-G-ACACAT-ATCGTAGCCAATGCATGTCC
184125451 CAAACATATCTTACACTAGC
62 CAAACATATCTTACACTAGC
184125471 ACACAAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
91 2 0.03
92 31 0.44
93 1 0.01
94 36 0.51
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAAGCATGGTCTTACACTGACACATATCGTAGCCAATGCATGTCCCAAA
CATATCTTACACTAGCTCTCGTCTCAA
Found at i:184125733 original size:25 final size:25
Alignment explanation
Indices: 184125705--184125754 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
184125695 CAACACATAA
184125705 TGTTATTTACATTTGACATCACTTT
1 TGTTATTTACATTTGACATCACTTT
184125730 TGTTATTTACATTTGACATCACTTT
1 TGTTATTTACATTTGACATCACTTT
184125755 CTTATATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (25 bp):
TGTTATTTACATTTGACATCACTTT
Found at i:184125764 original size:24 final size:25
Alignment explanation
Indices: 184125707--184125764 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
184125697 ACACATAATG
*
184125707 TTATTTACATTTGACATCACTTTTG
1 TTATTTACATTTGACATCACTTTTC
184125732 TTATTTACATTTGACATCAC-TTTC
1 TTATTTACATTTGACATCACTTTTC
*
184125756 TTATATACA
1 TTATTTACA
184125765 ATATCATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.50
Consensus pattern (25 bp):
TTATTTACATTTGACATCACTTTTC
Found at i:184125832 original size:23 final size:23
Alignment explanation
Indices: 184125806--184125849 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
184125796 GGCAAGATAT
*
184125806 ATTTTCAAGAATAATAGCAATAG
1 ATTTTCAAGAATAATAACAATAG
*
184125829 ATTTTCAAGTATAATAACAAT
1 ATTTTCAAGAATAATAACAAT
184125850 GGCATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
ATTTTCAAGAATAATAACAATAG
Found at i:184134367 original size:15 final size:15
Alignment explanation
Indices: 184134349--184134390 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
184134339 TCCATAACGG
*
184134349 AGAAATCCAGAATAT
1 AGAAATCCAGAATAA
184134364 AGAAATCCA-ACATAA
1 AGAAATCCAGA-ATAA
*
184134379 ATAAATCCAGAA
1 AGAAATCCAGAA
184134391 GAAAATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.17
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:184139480 original size:29 final size:29
Alignment explanation
Indices: 184139440--184139513 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
184139430 GTTGAGAGAT
* *
184139440 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
184139469 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
184139498 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
184139514 CGGCTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:184147528 original size:29 final size:29
Alignment explanation
Indices: 184147488--184147590 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
184147478 GTTGAGAGAT
*
184147488 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
184147517 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
184147546 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
184147575 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
184147591 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:184149748 original size:14 final size:15
Alignment explanation
Indices: 184149729--184149768 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
184149719 GAAGATGGAT
184149729 AAATAAA-AAAAAAG
1 AAATAAATAAAAAAG
*
184149743 AAATAAATAAAATAG
1 AAATAAATAAAAAAG
184149758 AATATAAATAA
1 AA-ATAAATAA
184149769 GATAAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.30
15 8 0.35
16 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (15 bp):
AAATAAATAAAAAAG
Found at i:184150445 original size:11 final size:11
Alignment explanation
Indices: 184150429--184150453 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
184150419 GCGATTATTG
184150429 TATTTATTGTA
1 TATTTATTGTA
184150440 TATTTATTGTA
1 TATTTATTGTA
184150451 TAT
1 TAT
184150454 AAATATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:184151074 original size:21 final size:21
Alignment explanation
Indices: 184151035--184151074 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
184151025 TTTATTTAAA
*
184151035 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
184151056 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
184151075 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:184151218 original size:14 final size:14
Alignment explanation
Indices: 184151199--184151227 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
184151189 TAGATAAATA
184151199 ATAATCTATATAAC
1 ATAATCTATATAAC
184151213 ATAATCTATATAAC
1 ATAATCTATATAAC
184151227 A
1 A
184151228 AAGTAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:184152950 original size:19 final size:19
Alignment explanation
Indices: 184152926--184152965 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
184152916 TTTTTTTTTT
* *
184152926 ATTAGAATCGAAAAGTTTA
1 ATTAGAATAGAAAAGTATA
184152945 ATTAGAATAGAAAAGTATA
1 ATTAGAATAGAAAAGTATA
184152964 AT
1 AT
184152966 AAAAGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (19 bp):
ATTAGAATAGAAAAGTATA
Found at i:184154486 original size:16 final size:16
Alignment explanation
Indices: 184154465--184154497 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
184154455 TCTTATTCCT
*
184154465 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
184154481 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
184154497 T
1 T
184154498 AGAATACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:184160202 original size:14 final size:14
Alignment explanation
Indices: 184160183--184160211 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
184160173 ACAGATGGAT
184160183 TCGTATAATTCTTA
1 TCGTATAATTCTTA
184160197 TCGTATAATTCTTA
1 TCGTATAATTCTTA
184160211 T
1 T
184160212 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:184164444 original size:20 final size:21
Alignment explanation
Indices: 184164378--184164446 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
184164368 TCACTTCGTT
184164378 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
184164399 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
184164420 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
184164441 -CTTTTT
1 TCTTTTT
184164447 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:184166845 original size:18 final size:18
Alignment explanation
Indices: 184166812--184166905 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
184166802 AAGGTTTTCT
184166812 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
184166827 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
184166845 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
184166863 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
184166881 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
184166899 TATTGAT
1 TATTGAT
184166906 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:184175172 original size:14 final size:14
Alignment explanation
Indices: 184175153--184175180 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
184175143 TATATTAGTA
184175153 TTTTCTATTCTATT
1 TTTTCTATTCTATT
184175167 TTTTCTATTCTATT
1 TTTTCTATTCTATT
184175181 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:184175188 original size:6 final size:6
Alignment explanation
Indices: 184175177--184175255 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
184175167 TTTTCTATTC
* *
184175177 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
184175224 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
184175256 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:184175203 original size:11 final size:11
Alignment explanation
Indices: 184175178--184175259 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
184175168 TTTCTATTCT
184175178 ATTAGTATTAG
1 ATTAGTATTAG
184175189 ---AGTATTAG
1 ATTAGTATTAG
**
184175197 ATTAGTATTCT
1 ATTAGTATTAG
*
184175208 ATT-CTATTAG
1 ATTAGTATTAG
184175218 TATTAG-ATTAG
1 -ATTAGTATTAG
184175229 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
184175244 ATTAGTATTAG
1 ATTAGTATTAG
184175255 -TTAGT
1 ATTAGT
184175260 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:184175244 original size:20 final size:21
Alignment explanation
Indices: 184175214--184175259 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
184175204 TTCTATTCTA
184175214 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
184175235 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
184175255 TTAGT
1 TTAGT
184175260 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:184183473 original size:32 final size:32
Alignment explanation
Indices: 184183432--184183493 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
184183422 CATCTATTTT
184183432 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
184183464 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
184183494 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:184187784 original size:40 final size:40
Alignment explanation
Indices: 184187718--184187868 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
184187708 GAAATGAATG
* *
184187718 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
184187757 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
184187797 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
184187837 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
184187869 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:184187852 original size:80 final size:79
Alignment explanation
Indices: 184187720--184187868 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
184187710 AATGAATGAT
*
184187720 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
184187785 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
184187799 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
184187862 TTTGTGC
63 ATTGTGC
184187869 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:184187883 original size:80 final size:79
Alignment explanation
Indices: 184187718--184187884 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
184187708 GAAATGAATG
*
184187718 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
184187783 TTGTGCTAGTGGCT
66 TTGTGCTAATGGCT
* * * * *
184187797 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
184187860 CATTTGTGC-ACATGGTT
63 CAATTGTGCTA-ATGGCT
184187877 ATATCCGG
1 ATATCCGG
184187885 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAATGGCT
Found at i:184195828 original size:40 final size:40
Alignment explanation
Indices: 184195743--184195893 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
184195733 AATTGAATGA
* * *
184195743 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
184195783 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
184195824 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
184195863 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
184195894 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:184195907 original size:40 final size:40
Alignment explanation
Indices: 184195780--184195909 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
184195770 ATGCTGGAAA
* * * *
184195780 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
184195820 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
184195860 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
184195900 TTATATCCGG
1 TTATATCCGG
184195910 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:184200858 original size:29 final size:29
Alignment explanation
Indices: 184200826--184200932 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
184200816 ATACCCTCCG
** *
184200826 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
184200855 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
184200884 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
184200913 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
184200933 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:184202113 original size:18 final size:18
Alignment explanation
Indices: 184202090--184202142 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
184202080 AATGAACACT
184202090 TTTTTTTTCTTTTCTTTG
1 TTTTTTTTCTTTTCTTTG
* *
184202108 -TTTTTTTCATATTCTTTT
1 TTTTTTTTC-TTTTCTTTG
*
184202126 TTTTTTTTCATTTCTTT
1 TTTTTTTTCTTTTCTTT
184202143 ATTCTTCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.28
18 13 0.45
19 8 0.28
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCTTTTCTTTG
Found at i:184203048 original size:2 final size:2
Alignment explanation
Indices: 184203041--184203074 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
184203031 GAGACTAGTC
184203041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
184203075 CATGTCATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:184205106 original size:30 final size:30
Alignment explanation
Indices: 184205072--184205132 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
184205062 TCCTTAACTC
184205072 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
184205102 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
184205132 A
1 A
184205133 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.