Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 85 of 190
Found at i:24861100 original size:23 final size:23
Alignment explanation
Indices: 24861043--24861101 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
24861033 GTGTTATAAT
* *
24861043 GTTCATGTTTTAGTTTCTGTTAT
1 GTTCATGTTTTGGTTTCTGTTAA
24861066 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
24861089 GTTCATGTTTTGG
1 GTTCATGTTTTGG
24861102 ATCATGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.12, C:0.08, G:0.22, T:0.58
Consensus pattern (23 bp):
GTTCATGTTTTGGTTTCTGTTAA
Found at i:24861114 original size:35 final size:35
Alignment explanation
Indices: 24861068--24861134 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
24861058 TCTGTTATGT
24861068 TCATGTTTTGGTTTCTGTTAAGTTCATGTTTTGGA
1 TCATGTTTTGGTTTCTGTTAAGTTCATGTTTTGGA
24861103 TCATGTTTTGGTTTCTGTTAAGTTCATGTTTT
1 TCATGTTTTGGTTTCTGTTAAGTTCATGTTTT
24861135 TCTGTATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.13, C:0.09, G:0.21, T:0.57
Consensus pattern (35 bp):
TCATGTTTTGGTTTCTGTTAAGTTCATGTTTTGGA
Found at i:24861121 original size:12 final size:12
Alignment explanation
Indices: 24861043--24861115 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
24861033 GTGTTATAAT
24861043 GTTCATGTTTTAG
1 GTTCATGTTTT-G
* *
24861056 TTTC-TGTTAT-
1 GTTCATGTTTTG
24861066 GTTCATGTTTTG
1 GTTCATGTTTTG
**
24861078 GTTTC-TG-TTAA
1 G-TTCATGTTTTG
24861089 GTTCATGTTTTG
1 GTTCATGTTTTG
*
24861101 GATCATGTTTTG
1 GTTCATGTTTTG
24861113 GTT
1 GTT
24861116 TCTGTTAAGT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
10 6 0.13
11 10 0.22
12 23 0.51
13 6 0.13
ACGTcount: A:0.12, C:0.08, G:0.22, T:0.58
Consensus pattern (12 bp):
GTTCATGTTTTG
Found at i:24861138 original size:19 final size:20
Alignment explanation
Indices: 24861114--24861155 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24861104 CATGTTTTGG
24861114 TTTCTG-TTAAGTTCATGTT
1 TTTCTGATTAAGTTCATGTT
*
24861133 TTTCTGTATTAAGTTGATGTT
1 TTTCTG-ATTAAGTTCATGTT
24861154 TT
1 TT
24861156 CCATTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.60
Consensus pattern (20 bp):
TTTCTGATTAAGTTCATGTT
Found at i:24861231 original size:19 final size:20
Alignment explanation
Indices: 24861207--24861248 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24861197 CATGTTTTGG
*
24861207 TTTCTG-TTACGTTGATGTT
1 TTTCTGATTAAGTTGATGTT
24861226 TTTCTGTATTAAGTTGATGTT
1 TTTCTG-ATTAAGTTGATGTT
24861247 TT
1 TT
24861249 CCCATACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.14, C:0.07, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTCTGATTAAGTTGATGTT
Found at i:24862087 original size:16 final size:16
Alignment explanation
Indices: 24862066--24862102 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
24862056 ATATTATATT
24862066 ATATTTTTTATTTTTA
1 ATATTTTTTATTTTTA
24862082 ATATTTTTTATTTTTA
1 ATATTTTTTATTTTTA
24862098 ATATT
1 ATATT
24862103 CCAATTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATATTTTTTATTTTTA
Found at i:24862102 original size:130 final size:130
Alignment explanation
Indices: 24861955--24862766 Score: 1364
Period size: 131 Copynumber: 6.2 Consensus size: 130
24861945 AAGTTTGGAT
* * *
24861955 TTTTTTATATATAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAATGC
1 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGC
* *
24862020 ATAAAACTAATTAAATTATATATTTACAAATTAATTATATTATATTATATTTTTTATTTTTAATA
66 ATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATATTTTTTATTTTTAATA
* * *
24862085 TTTTTTATTTTTAATATTCCAATTTATCAAATAATGCATTTGAGTAAATTAAAAAATAATTAAAT
1 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTG-TTAAAAT-AAAAATAATTAAAT
*
24862150 GCATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATATTTTAATATTTTTA
64 GCATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATATTTT-TTATTTTTA
24862215 ATA
128 ATA
* *
24862218 TTTTTTATTTTTCATATTCCAATTTATTAAATAA-GTCATTTGCTAAAATAAAAATAATTAAATG
1 TTTTTTATTTTTAATATTCCAATTTATTAAATAATG-CATTTGTTAAAATAAAAATAATTAAATG
* * *
24862282 CATAAAACTAATTAAATTATGTATTAACAAATTAATTAAATTAAATTAATTTTTTTTATTTTTAA
65 CATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATT-ATATTTTTTATTTTTAA
24862347 TA
129 TA
*
24862349 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAATTGC
1 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGC
* *
24862414 ATAAAACTAATTAAATTATGTATTAACAAATTAATTAAATTATA-TATA--TATT-TTTTTAATA
66 ATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATATTTTTTATTTTTAATA
24862475 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGC
1 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGC
24862540 ATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATATTTTTTATTTTTAATA
66 ATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATATTTTTTATTTTTAATA
24862605 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGC
1 TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGC
* *
24862670 CTAAAACTAATTAAATTATGTATTAACAAATTAATTATAGTATATTATATTTTTTTATTTTTAAT
66 ATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATA-TTTTTTATTTTTAAT
24862735 A
130 A
24862736 TTTTTTATTTTTAATATTCCAATTTATTAAA
1 TTTTTTATTTTTAATATTCCAATTTATTAAA
24862767 ATAAAAATAA
Statistics
Matches: 643, Mismatches: 28, Indels: 21
0.93 0.04 0.03
Matches are distributed among these distances:
126 116 0.18
127 7 0.01
129 5 0.01
130 160 0.25
131 226 0.35
132 80 0.12
133 49 0.08
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (130 bp):
TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGC
ATAAAACTAATTAAATTATGTATTAACAAATTAATTATATTATATTATATTTTTTATTTTTAATA
Found at i:24862352 original size:16 final size:16
Alignment explanation
Indices: 24862327--24862366 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
24862317 TTAAATTAAA
*
24862327 TTAATTTTTTTTATTT
1 TTAATATTTTTTATTT
24862343 TTAATATTTTTTATTT
1 TTAATATTTTTTATTT
24862359 TTAATATT
1 TTAATATT
24862367 CCAATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTAATATTTTTTATTT
Found at i:24862596 original size:114 final size:120
Alignment explanation
Indices: 24862342--24862606 Score: 425
Period size: 126 Copynumber: 2.2 Consensus size: 120
24862332 TTTTTTTATT
24862342 TTTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAAT
1 TTTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAAT
*
24862407 TAATTGCATAAAACTAATTAAATTATGTATTAACAAATTAATTAAATTATATATATA
66 TAAATGCATAAAACTAATTAAATTATGTATTAAC-AA-TAATTAAATTATATATATA
24862464 TTTTTTTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAA
1 ----TTTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAA
24862529 TAATTAAATGCATAAAACTAATTAAATTATGTATTAAC-A-AATT-AATTATAT-TATA
62 TAATTAAATGCATAAAACTAATTAAATTATGTATTAACAATAATTAAATTATATATATA
24862584 -TT-ATATTTTTTATTTTTAATATT
1 TTTAATATTTTTTATTTTTAATATT
24862607 TTTTATTTTT
Statistics
Matches: 138, Mismatches: 1, Indels: 12
0.91 0.01 0.08
Matches are distributed among these distances:
114 21 0.15
115 2 0.01
120 4 0.03
121 8 0.06
122 4 0.03
124 1 0.01
126 98 0.71
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (120 bp):
TTTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAAT
TAAATGCATAAAACTAATTAAATTATGTATTAACAATAATTAAATTATATATATA
Found at i:24862607 original size:16 final size:16
Alignment explanation
Indices: 24862586--24862622 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
24862576 ATATTATATT
24862586 ATATTTTTTATTTTTA
1 ATATTTTTTATTTTTA
24862602 ATATTTTTTATTTTTA
1 ATATTTTTTATTTTTA
24862618 ATATT
1 ATATT
24862623 CCAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATATTTTTTATTTTTA
Found at i:24862741 original size:16 final size:16
Alignment explanation
Indices: 24862720--24862753 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24862710 TATATTATAT
24862720 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
24862736 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
24862752 TT
1 TT
24862754 CCAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:24862812 original size:18 final size:18
Alignment explanation
Indices: 24862784--24862831 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
24862774 TAATTAAATT
*
24862784 ATATATTTAATTATTA-A
1 ATATCTTTAATTATTATA
*
24862801 ATATCGTTTAATAATTATA
1 ATATC-TTTAATTATTATA
*
24862820 ATGTCTTTAATT
1 ATATCTTTAATT
24862832 GCTTTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (18 bp):
ATATCTTTAATTATTATA
Found at i:24864407 original size:30 final size:30
Alignment explanation
Indices: 24864373--24864444 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
24864363 TCTAGCATCC
* *
24864373 CCATTCAGCTCCCTAAATACATGCATGCCT
1 CCATTCAGCTCCCTAAACACATGCATGCAT
* *
24864403 CCATTCAGCTCCTTAAACACATTCATGCAT
1 CCATTCAGCTCCCTAAACACATGCATGCAT
**
24864433 TAATTCAGCTCC
1 CCATTCAGCTCC
24864445 ATATGCACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.28, C:0.35, G:0.08, T:0.29
Consensus pattern (30 bp):
CCATTCAGCTCCCTAAACACATGCATGCAT
Found at i:24883068 original size:35 final size:35
Alignment explanation
Indices: 24883029--24883096 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
24883019 ACAAAGTCAT
*
24883029 CATTACCTTGTTG-ATGTAAGTGTGTTTTCGTCCAA
1 CATTACCTTG-TGCATGTAAGTCTGTTTTCGTCCAA
24883064 CATTACCTTGTGCATGTAAGTCTGTTTTCGTCC
1 CATTACCTTGTGCATGTAAGTCTGTTTTCGTCC
24883097 CATTTTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.43
Consensus pattern (35 bp):
CATTACCTTGTGCATGTAAGTCTGTTTTCGTCCAA
Found at i:24883779 original size:29 final size:29
Alignment explanation
Indices: 24883743--24883804 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
24883733 TTATTGACAC
24883743 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
**
24883772 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
24883801 CCAT
1 CCAT
24883805 TGTTTAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTGACGA
Found at i:24887784 original size:51 final size:51
Alignment explanation
Indices: 24887664--24887848 Score: 169
Period size: 51 Copynumber: 3.6 Consensus size: 51
24887654 AAAGTGACGG
* * * * * * *
24887664 TCACGTGTGTAGTACTATGTGTAGGTTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GA
* *
24887714 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GA
* * * * * * * *
24887765 TCACGTGTGTAGTAGTATGTGCAGCCTACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGA
*
24887816 TCACATGTGTAGTACTATGTGTAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
24887849 TGAACCGAAC
Statistics
Matches: 108, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
50 36 0.33
51 70 0.65
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGA
Found at i:24887784 original size:101 final size:102
Alignment explanation
Indices: 24887664--24887848 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
24887654 AAAGTGACGG
* ** *
24887664 TCACGTGTGTAGTACTATGTGTAGGTTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
24887727 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
24887765 TCACGTGTGTAGTAGTATGTGCAGCCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
*
24887830 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
24887849 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.50
102 33 0.45
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:24887908 original size:45 final size:45
Alignment explanation
Indices: 24887852--24887946 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
24887842 TACTATGTGA
* *
24887852 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGATGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCC
* * * * *
24887897 ACCGGACATCATTGATTAATAATGTGGTTGTTTTGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCC
24887942 ACCGA
1 ACCGA
24887947 GTATTTGTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCC
Found at i:24893075 original size:25 final size:25
Alignment explanation
Indices: 24893037--24893164 Score: 127
Period size: 25 Copynumber: 5.2 Consensus size: 25
24893027 GTCATTAGGG
* *
24893037 TTACCGAT-TTCAGCTCGTAA-AGAC
1 TTACCGTTATTCAGCTCGGAAGAG-C
* *
24893061 TTACCGTTATTCAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGGAAGAGC
* * * *
24893086 TTACTGTTATTTAGCTCGGAGGATC
1 TTACCGTTATTCAGCTCGGAAGAGC
* *
24893111 TTACCATTATTTAGCTCGGAAGAGC
1 TTACCGTTATTCAGCTCGGAAGAGC
24893136 TTACCGTTATTCAGCTC-GAAGGAGC
1 TTACCGTTATTCAGCTCGGAA-GAGC
24893161 TTAC
1 TTAC
24893165 AATGTCCCTA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
24 10 0.11
25 76 0.86
26 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGGAAGAGC
Found at i:24893127 original size:50 final size:50
Alignment explanation
Indices: 24893037--24893164 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
24893027 GTCATTAGGG
* * * * *
24893037 TTACCGAT-TTCAGCTCGTAAAGA-CTTACCGTTATTCAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCG-AAGGAGCTTACCATTATTCAGCTCGGAAGAGC
* * * * *
24893086 TTACTGTTATTTAGCTCGGAGGATCTTACCATTATTTAGCTCGGAAGAGC
1 TTACCGTTATTCAGCTCGAAGGAGCTTACCATTATTCAGCTCGGAAGAGC
24893136 TTACCGTTATTCAGCTCGAAGGAGCTTAC
1 TTACCGTTATTCAGCTCGAAGGAGCTTAC
24893165 AATGTCCCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 9 0.14
50 55 0.86
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (50 bp):
TTACCGTTATTCAGCTCGAAGGAGCTTACCATTATTCAGCTCGGAAGAGC
Found at i:24894819 original size:20 final size:20
Alignment explanation
Indices: 24894794--24894833 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24894784 TCGTCGTATG
24894794 AATTTATAAATTTTCACTTA
1 AATTTATAAATTTTCACTTA
24894814 AATTTATAAATTTTCACTTA
1 AATTTATAAATTTTCACTTA
24894834 CTTGTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTATAAATTTTCACTTA
Found at i:24896522 original size:85 final size:84
Alignment explanation
Indices: 24896380--24896579 Score: 319
Period size: 85 Copynumber: 2.4 Consensus size: 84
24896370 ATTCGTTACT
* * * *
24896380 CGGTGGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGAGGAATCAGCACATAGCAACT
1 CGGTGGAATCAGCACTTAGCAACCACTTTAAATTCAGTGATACGAGGAATCAGCACATAACAACC
24896445 CCTTTCACAATCAAAGATA
66 CCTTTCACAATCAAAGATA
*
24896464 CGGTGGAATCAGCACTTAGCAACCATCTTTATATTCAGTGATACGAGGAATCAGCACATAACAAC
1 CGGTGGAATCAGCACTTAGCAACCA-CTTTAAATTCAGTGATACGAGGAATCAGCACATAACAAC
*
24896529 CCCTTTCACAATCAAATATA
65 CCCTTTCACAATCAAAGATA
*
24896549 CGGTGGAATCAGCACTTAGCATCCACCTTTA
1 CGGTGGAATCAGCACTTAGCAACCA-CTTTA
24896580 GAATCAATAA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 24 0.22
85 83 0.78
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACTTTAAATTCAGTGATACGAGGAATCAGCACATAACAACC
CCTTTCACAATCAAAGATA
Found at i:24896529 original size:42 final size:42
Alignment explanation
Indices: 24896388--24896529 Score: 148
Period size: 42 Copynumber: 3.4 Consensus size: 42
24896378 CTCGGTGGAT
* *
24896388 TCAGCACTTAGCAACCA-CCTTAAATTCAGTGATACGAGGAA
1 TCAGCACATAGCAACCATCTTTAAATTCAGTGATACGAGGAA
** *
24896429 TCAGCACATAGCAA-C-TCCTTTCACAA-TCAAAGATACGGTGGAA
1 TCAGCACATAGCAACCAT-CTTT-A-AATTCAGTGATAC-GAGGAA
* *
24896472 TCAGCACTTAGCAACCATCTTTATATTCAGTGATACGAGGAA
1 TCAGCACATAGCAACCATCTTTAAATTCAGTGATACGAGGAA
*
24896514 TCAGCACATAACAACC
1 TCAGCACATAGCAACC
24896530 CCTTTCACAA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
40 1 0.01
41 16 0.20
42 29 0.36
43 29 0.36
44 5 0.06
45 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (42 bp):
TCAGCACATAGCAACCATCTTTAAATTCAGTGATACGAGGAA
Found at i:24896585 original size:43 final size:43
Alignment explanation
Indices: 24896380--24896614 Score: 207
Period size: 43 Copynumber: 5.6 Consensus size: 43
24896370 ATTCGTTACT
* *
24896380 CGGTGGATTCAGCACTTAGCAACCACC-TTA-AATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAA-TCAATGATA
* * * *
24896422 C-GAGGAATCAGCACATAGCAA-CTCCTTTCACAATCAAAGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATA
* * * *
24896464 CGGTGGAATCAGCACTTAGCAACCATCTTTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
* * *
24896507 C-GAGGAATCAGCACATAACAACC-CCTTTCACAATCAAAT-ATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATC-AATGATA
* * * *
24896549 CGGTGGAATCAGCACTTAGCATCCACCTTTAGAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
* *
24896592 TGG-GGAATCAACACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
24896615 GCTTGGGGAA
Statistics
Matches: 153, Mismatches: 30, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
40 3 0.02
41 23 0.15
42 58 0.38
43 59 0.39
44 10 0.07
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
Found at i:24897013 original size:30 final size:30
Alignment explanation
Indices: 24896979--24897037 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
24896969 TCCTTAACTC
24896979 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
24897009 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTGGCAAAATTACAATTTTGCCCC
24897038 AAAGCTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:24902456 original size:25 final size:24
Alignment explanation
Indices: 24902407--24902459 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
24902397 GTCATTAGGG
* *
24902407 TTACTGATTTCAGCTCTTATGAGC
1 TTACTGATCTCAGCTCGTATGAGC
*
24902431 TTACTGATACTCATCTCGTATGAGC
1 TTACTGAT-CTCAGCTCGTATGAGC
24902456 TTAC
1 TTAC
24902460 CATTATTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (24 bp):
TTACTGATCTCAGCTCGTATGAGC
Found at i:24902505 original size:25 final size:25
Alignment explanation
Indices: 24902427--24902538 Score: 82
Period size: 25 Copynumber: 4.5 Consensus size: 25
24902417 CAGCTCTTAT
* * * * *
24902427 GAGCTTACTGATACTCATCTCGTAT
1 GAGCTTACCGTTACTCAGCTCGGAA
* * **
24902452 GAGCTTACCATTATTCAG-TTTGAA
1 GAGCTTACCGTTACTCAGCTCGGAA
24902476 GGAGCTTACCGTTACTCAGCTCGGAA
1 -GAGCTTACCGTTACTCAGCTCGGAA
* * * *
24902502 GAGCTTATCGTTATTCAGCTCAGAG
1 GAGCTTACCGTTACTCAGCTCGGAA
*
24902527 GAGCTTATCGTT
1 GAGCTTACCGTT
24902539 TATAGCTCGT
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
24 2 0.03
25 62 0.91
26 4 0.06
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTACCGTTACTCAGCTCGGAA
Found at i:24929406 original size:136 final size:136
Alignment explanation
Indices: 24929127--24929544 Score: 633
Period size: 138 Copynumber: 3.1 Consensus size: 136
24929117 TAGAAAAATG
* *
24929127 AATTATGTTCTTGCAAAAGAATATTAA-TTTCTGTCTTTTATATTTTGACCGAAATTAATTAATA
1 AATTATATTCTTTCAAAAGAATATTAATTTTCTGTCTTTTATATTTTGACCGAAATTAATTAATA
* * *
24929191 TAACTATTTATATTAATAAATTCGGTACAATAAATACAATAAATATTTTGTATGAATCAAATTCA
66 TAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
24929256 TATATT
131 TATATT
* * *
24929262 AATTATATTCTTTCAAAA-AATATTAATTTTCGTATTTTTTATATTTTGACCGAAATTATTTAAT
1 AATTATATTCTTTCAAAAGAATATTAATTTTC-TGTCTTTTATATTTTGACCGAAATTAATTAAT
*
24929326 ATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTC
65 ATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
24929391 ATATATT
130 ATATATT
* ****
24929398 AATTATATTCTTTCTAAAAGAATATTAATTATCATGTCTTTTATATTTTTTTAGAAATTAATTAA
1 AATTATATTCTTTC-AAAAGAATATTAATTTTC-TGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
24929463 TATAATTGTTTATATTAATAAATACGGTAAAATATATACAATTGATATTTTGTATGAATCAAATT
64 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
24929528 CATATATT
129 CATATATT
24929536 AATTATATT
1 AATTATATT
24929545 TATGTTCTCT
Statistics
Matches: 256, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
134 8 0.03
135 20 0.08
136 111 0.43
137 4 0.02
138 113 0.44
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (136 bp):
AATTATATTCTTTCAAAAGAATATTAATTTTCTGTCTTTTATATTTTGACCGAAATTAATTAATA
TAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATT
Found at i:24929491 original size:138 final size:135
Alignment explanation
Indices: 24929127--24929544 Score: 631
Period size: 136 Copynumber: 3.1 Consensus size: 135
24929117 TAGAAAAATG
* *
24929127 AATTATGTTCTTGCAAAAGAATATTAATTTCTGTCTTTTATATTTTGACCGAAATTAATTAATAT
1 AATTATATTCTTTCAAAAGAATATTAATTTCTGTCTTTTATATTTTGACCGAAATTAATTAATAT
* * *
24929192 AACTATTTATATTAATAAATTCGGTACAATAAATACAATAAATATTTTGTATGAATCAAATTCAT
66 AACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
24929257 ATATT
131 ATATT
* * *
24929262 AATTATATTCTTTCAAAA-AATATTAATTTTCGTATTTTTTATATTTTGACCGAAATTATTTAAT
1 AATTATATTCTTTCAAAAGAATATTAA-TTTC-TGTCTTTTATATTTTGACCGAAATTAATTAAT
*
24929326 ATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTC
64 ATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
24929391 ATATATT
129 ATATATT
****
24929398 AATTATATTCTTTCTAAAAGAATATTAATTATCATGTCTTTTATATTTTTTTAGAAATTAATTAA
1 AATTATATTCTTTC-AAAAGAATATTAATT-TC-TGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
24929463 TATAATTGTTTATATTAATAAATACGGTAAAATATATACAATTGATATTTTGTATGAATCAAATT
63 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
24929528 CATATATT
128 CATATATT
24929536 AATTATATT
1 AATTATATT
24929545 TATGTTCTCT
Statistics
Matches: 256, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
134 8 0.03
135 20 0.08
136 111 0.43
137 6 0.02
138 111 0.43
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (135 bp):
AATTATATTCTTTCAAAAGAATATTAATTTCTGTCTTTTATATTTTGACCGAAATTAATTAATAT
AACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATT
Found at i:24932445 original size:12 final size:12
Alignment explanation
Indices: 24932428--24932452 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24932418 CACGCCCGTA
24932428 TGCTAGGTCGTG
1 TGCTAGGTCGTG
24932440 TGCTAGGTCGTG
1 TGCTAGGTCGTG
24932452 T
1 T
24932453 AACAGCTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.40, T:0.36
Consensus pattern (12 bp):
TGCTAGGTCGTG
Found at i:24933337 original size:15 final size:16
Alignment explanation
Indices: 24933308--24933337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24933298 CAAACATGCT
24933308 TTAACACATTATCAAA
1 TTAACACATTATCAAA
24933324 TTAACACA-TATCAA
1 TTAACACATTATCAA
24933338 CAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:24936348 original size:45 final size:45
Alignment explanation
Indices: 24936299--24936412 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
24936289 TGTCATGACG
* * **
24936299 TCTTTCAGCTATGGTTTTACTCATTTATATCATGACGTTGTAGCA
1 TCTTTCAGCTATGGTCTTACTCATTTATAGCATGACGTCATAGCA
* * * *
24936344 TCTTTCAACTATGGTCTTACTCATTTATAGCGTGATGTCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTATAGCATGACGTCATAGCA
24936389 TCTTTCAGCTATGGTCTTACTCAT
1 TCTTTCAGCTATGGTCTTACTCAT
24936413 CTGTAGGCGT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTATAGCATGACGTCATAGCA
Found at i:24941626 original size:13 final size:14
Alignment explanation
Indices: 24941598--24941627 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24941588 GTTAAATTGG
24941598 AAAGATGATAAAAT
1 AAAGATGATAAAAT
24941612 AAAGATGAT-AAAT
1 AAAGATGATAAAAT
24941625 AAA
1 AAA
24941628 TTAACTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (14 bp):
AAAGATGATAAAAT
Found at i:24942531 original size:25 final size:25
Alignment explanation
Indices: 24942497--24942737 Score: 170
Period size: 25 Copynumber: 9.7 Consensus size: 25
24942487 ACACACCACA
* *
24942497 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
*
24942522 GCTCTCATGAGCTTCCCGTTATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
* * *
24942547 GCTCCCACGAGCTTCCCGATAATTG
1 GCTCTCATGAGCTTCCCGATATTTG
* * * *
24942572 GCTTTCATGAGCTTTCTGAT-TAATG
1 GCTCTCATGAGCTTCCCGATAT-TTG
**
24942597 GCTCTCCGGAGCTTCCCGATA-TTG
1 GCTCTCATGAGCTTCCCGATATTTG
*
24942621 GCTCGT-ATGAGCTTCCTGATATTTG
1 GCTC-TCATGAGCTTCCCGATATTTG
* *
24942646 GCTCTCTTGAGCTTCTC-AT-TTATG
1 GCTCTCATGAGCTTCCCGATATT-TG
* **
24942670 GCTCGT-ATGAGCTTCCCGTTACATG
1 GCTC-TCATGAGCTTCCCGATATTTG
* * * * *
24942695 GGTCACATGAGCTTCCTGTTATATG
1 GCTCTCATGAGCTTCCCGATATTTG
** *
24942720 GCTCGAAAGAGCTTCCCG
1 GCTCTCATGAGCTTCCCG
24942738 TTACATGCTC
Statistics
Matches: 166, Mismatches: 40, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.01
24 36 0.22
25 128 0.77
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATATTTG
Found at i:24942640 original size:49 final size:51
Alignment explanation
Indices: 24942505--24942685 Score: 173
Period size: 49 Copynumber: 3.6 Consensus size: 51
24942495 CAGCTCTTAT
* *
24942505 GAGCATCCCGATATTTGGCTC-TCATGAGCTTCCCG-TTATTTGGCTC-CCAC
1 GAGCTTCCCGATA-TTGGCTCGTCATGAGCTTCCTGATTATTTGGCTCTCC-C
* * * *
24942555 GAGCTTCCCGATAATTGGCT-TTCATGAGCTTTCTGATTA-ATGGCTCTCCG
1 GAGCTTCCCGAT-ATTGGCTCGTCATGAGCTTCCTGATTATTTGGCTCTCCC
**
24942605 GAGCTTCCCGATATTGGCTCGT-ATGAGCTTCCTGA-TATTTGGCTCTCTT
1 GAGCTTCCCGATATTGGCTCGTCATGAGCTTCCTGATTATTTGGCTCTCCC
* *
24942654 GAGCTTCTC-ATTTATGGCTCGT-ATGAGCTTCC
1 GAGCTTCCCGATAT-TGGCTCGTCATGAGCTTCC
24942686 CGTTACATGG
Statistics
Matches: 112, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
48 5 0.04
49 53 0.47
50 48 0.43
51 6 0.05
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (51 bp):
GAGCTTCCCGATATTGGCTCGTCATGAGCTTCCTGATTATTTGGCTCTCCC
Found at i:24942680 original size:24 final size:24
Alignment explanation
Indices: 24942605--24942684 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
24942595 TGGCTCTCCG
*
24942605 GAGCTTCCCGATA-TTGGCTCGTAT
1 GAGCTTCTC-ATATTTGGCTCGTAT
* *
24942629 GAGCTTCCTGATATTTGGCTC-TCTT
1 GAGCTT-CTCATATTTGGCTCGT-AT
24942654 GAGCTTCTCAT-TTATGGCTCGTAT
1 GAGCTTCTCATATT-TGGCTCGTAT
24942678 GAGCTTC
1 GAGCTTC
24942685 CCGTTACATG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
23 2 0.04
24 28 0.61
25 16 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.39
Consensus pattern (24 bp):
GAGCTTCTCATATTTGGCTCGTAT
Found at i:24942705 original size:74 final size:74
Alignment explanation
Indices: 24942520--24942723 Score: 214
Period size: 74 Copynumber: 2.7 Consensus size: 74
24942510 TCCCGATATT
* * * * *
24942520 TGGCTCTCATGAGCTTCCCGTTATTTGGCTCCCACGAGCTTCCCGATAATTGGCTTTCATGAGCT
1 TGGCTCTCATGAGCTTCCCGTTA-TTGGCTCACATGAGCTTCCTGATATTTGGCTCTCATGAGCT
*
24942585 TTCTGATTAA
65 TTCTCATTAA
** * ** *
24942595 TGGCTCTCCGGAGCTTCCCGATATTGGCTCGTATGAGCTTCCTGATATTTGGCTCTCTTGAGC-T
1 TGGCTCTCATGAGCTTCCCGTTATTGGCTCACATGAGCTTCCTGATATTTGGCTCTCATGAGCTT
*
24942659 TCTCATTTA
66 TCTCATTAA
* * * *
24942668 TGGCTCGT-ATGAGCTTCCCGTTACATGGGTCACATGAGCTTCCTGTTATATGGCTC
1 TGGCTC-TCATGAGCTTCCCGTTA-TTGGCTCACATGAGCTTCCTGATATTTGGCTC
24942724 GAAAGAGCTT
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
73 26 0.25
74 60 0.57
75 20 0.19
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (74 bp):
TGGCTCTCATGAGCTTCCCGTTATTGGCTCACATGAGCTTCCTGATATTTGGCTCTCATGAGCTT
TCTCATTAA
Found at i:24942706 original size:49 final size:50
Alignment explanation
Indices: 24942619--24942744 Score: 139
Period size: 49 Copynumber: 2.5 Consensus size: 50
24942609 TTCCCGATAT
* * ** * *
24942619 TGGCTCGTATGAGCTTCCTGATATTTGGCTCTCTTGAGCTT-CTCATT-TA
1 TGGCTCGTATGAGCTTCCCGTTACATGGCTCACATGAGCTTCCT-ATTATA
* *
24942668 TGGCTCGTATGAGCTTCCCGTTACATGGGTCACATGAGCTTCCTGTTATA
1 TGGCTCGTATGAGCTTCCCGTTACATGGCTCACATGAGCTTCCTATTATA
* *
24942718 TGGCTCGAAAGAGCTTCCCGTTACATG
1 TGGCTCGTATGAGCTTCCCGTTACATG
24942745 CTCGTATGAG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 36 0.55
50 29 0.45
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (50 bp):
TGGCTCGTATGAGCTTCCCGTTACATGGCTCACATGAGCTTCCTATTATA
Found at i:24943974 original size:29 final size:29
Alignment explanation
Indices: 24943933--24943993 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
24943923 AAGTACCCAG
24943933 TTTAGTCCCTACTTGTTTCTAATGTATAT
1 TTTAGTCCCTACTTGTTTCTAATGTATAT
* *
24943962 TTTAGTTCTTACTTGTTTCTAATGTATAT
1 TTTAGTCCCTACTTGTTTCTAATGTATAT
24943991 TTT
1 TTT
24943994 GGGCCTCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (29 bp):
TTTAGTCCCTACTTGTTTCTAATGTATAT
Found at i:24944097 original size:21 final size:21
Alignment explanation
Indices: 24944068--24944111 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
24944058 AAATGATATG
*
24944068 AAATGTTTGTTATATGATCTAT
1 AAATGTTTGGTA-ATGATCTAT
*
24944090 AAAT-TTTGGTAATGCTCTAT
1 AAATGTTTGGTAATGATCTAT
24944110 AA
1 AA
24944112 CCCTGTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 6 0.30
22 4 0.20
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (21 bp):
AAATGTTTGGTAATGATCTAT
Found at i:24956430 original size:8 final size:8
Alignment explanation
Indices: 24956417--24956442 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24956407 GATTTCTAGT
24956417 TTGATGTC
1 TTGATGTC
24956425 TTGATGTC
1 TTGATGTC
24956433 TTGATGTC
1 TTGATGTC
24956441 TT
1 TT
24956443 ATTTGGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.54
Consensus pattern (8 bp):
TTGATGTC
Found at i:24957977 original size:46 final size:47
Alignment explanation
Indices: 24957924--24958019 Score: 158
Period size: 46 Copynumber: 2.0 Consensus size: 47
24957914 AATTAAATTA
*
24957924 ACCATTATTAGCAGGTTTAGTTTC-TAAGTCATGCATATATATATAT
1 ACCATTATTAGCAGGTTTAGTTTCTTAAGTAATGCATATATATATAT
24957970 ACCATTATTAGCAGGTTTAGTTTCATTTAAGTAATGCATATATATATAT
1 ACCATTATTAGCAGGTTTAGTTTC--TTAAGTAATGCATATATATATAT
24958019 A
1 A
24958020 TATTAGTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
46 24 0.52
49 22 0.48
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (47 bp):
ACCATTATTAGCAGGTTTAGTTTCTTAAGTAATGCATATATATATAT
Found at i:24961305 original size:30 final size:30
Alignment explanation
Indices: 24961269--24961329 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
24961259 TAGAATTTTC
24961269 AAAATTATCGGAACATGAAGATGATAACAT
1 AAAATTATCGGAACATGAAGATGATAACAT
24961299 AAAATTATCGGAACATGAAGATGATAACAT
1 AAAATTATCGGAACATGAAGATGATAACAT
24961329 A
1 A
24961330 CTTAACTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.23
Consensus pattern (30 bp):
AAAATTATCGGAACATGAAGATGATAACAT
Found at i:24961926 original size:21 final size:22
Alignment explanation
Indices: 24961902--24961944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24961892 TTCCATGTAA
* *
24961902 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
24961923 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
24961945 ACTTCGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:24963471 original size:49 final size:50
Alignment explanation
Indices: 24963418--24963699 Score: 158
Period size: 50 Copynumber: 5.7 Consensus size: 50
24963408 CAAAGCTATG
* * * *
24963418 TCCCAGACATAGTCTCACATGAGATGTT-TCTTGTA-TTGCCAATGCCATA
1 TCCCAGACATGGTCTCACATGAGA-GTTCTCATATAGGTGCCAATGCCATA
** * * *
24963467 TCCCAGTTATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTCACATGAGAGTTCTCATATAGGTGCCAATGCCATA
* ** * ** * * *
24963517 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACT-CCATG
1 TCCCAGACATGGTCTCACATGAGAGTTCTCATATAGGTGCCAA-TGCCATA
* * * ** * * *
24963567 TACCAGACATGGTCTTACATGGGACCTCTCATCTCA-GTGCCAACGCCATG
1 TCCCAGACATGGTCTCACATGAGAGTTCTCATAT-AGGTGCCAATGCCATA
* * * ** * * * *
24963617 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTCACATGAGAGTTCTCATATAGGTGCCAATGCCATA
* * **
24963667 TCCCATACATGGTCTTACATGAGACCTCTCATA
1 TCCCAGACATGGTCTCACATGAGAGTTCTCATA
24963700 ATCTCAATAA
Statistics
Matches: 197, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
48 3 0.02
49 25 0.13
50 168 0.85
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTCACATGAGAGTTCTCATATAGGTGCCAATGCCATA
Found at i:24963521 original size:50 final size:50
Alignment explanation
Indices: 24963454--24963743 Score: 296
Period size: 50 Copynumber: 5.7 Consensus size: 50
24963444 TTTCTTGTAT
* ** * ** *
24963454 TGCCAATGCCATATCCCAGTTATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* ** *
24963504 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
*
24963554 TGCCAACT-CCATGTACCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGG
* * *
24963604 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * **
24963654 TGCCAACGCCATGTCCCATACATGGTCTTACATGAGACCTCTCATAATCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GG
* *
24963710 TGGCAATGCCATGTCCTAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
24963744 AGATCTCTTT
Statistics
Matches: 201, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
50 166 0.83
51 1 0.00
53 4 0.02
56 30 0.15
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:24963582 original size:100 final size:100
Alignment explanation
Indices: 24963475--24963699 Score: 326
Period size: 100 Copynumber: 2.2 Consensus size: 100
24963465 TATCCCAGTT
** * * * *
24963475 ATGGTCTTACATGAGAGTTCTCATAT-AGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGG
1 ATGGTCTTACATGAGACCTCTCATATCA-GTGCCAACGCCATGTCCCAAACATGGTCTTACAGGG
*
24963539 GACCTCTCATCTCGGTGCCAACTCCATGTACCAGAC
65 GACCTCTCATCTCGGTGCCAACGCCATGTACCAGAC
* * *
24963575 ATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAAACATGGTCTTACATGGG
1 ATGGTCTTACATGAGACCTCTCATATCAGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
* *
24963640 ACCTCTCATCTCGGTGCCAACGCCATGTCCCATAC
66 ACCTCTCATCTCGGTGCCAACGCCATGTACCAGAC
24963675 ATGGTCTTACATGAGACCTCTCATA
1 ATGGTCTTACATGAGACCTCTCATA
24963700 ATCTCAATAA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 109 0.99
101 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (100 bp):
ATGGTCTTACATGAGACCTCTCATATCAGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
ACCTCTCATCTCGGTGCCAACGCCATGTACCAGAC
Found at i:24967764 original size:43 final size:43
Alignment explanation
Indices: 24967688--24967825 Score: 138
Period size: 43 Copynumber: 3.3 Consensus size: 43
24967678 ACATCCTTAT
** * * *
24967688 AAACTGCCACTGGGCTGTGGATGCACAATATATTTGCTGATAA
1 AAACTGCCACTAAGCTATGGGTGCACAACATATTTGCTGATAA
* *
24967731 AAACTGCCACTAAGTTATGGGTGCATAACATATTTG-TAGATAA
1 AAACTGCCACTAAGCTATGGGTGCACAACATATTTGCT-GATAA
** * * *
24967774 AAACTGCCACTGGGCTGTGGGTGCACATCATATTTGCAGAT--
1 AAACTGCCACTAAGCTATGGGTGCACAACATATTTGCTGATAA
24967815 AAACTGCCACT
1 AAACTGCCACT
24967826 GGTTTACTCT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 11 0.14
42 1 0.01
43 67 0.85
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AAACTGCCACTAAGCTATGGGTGCACAACATATTTGCTGATAA
Found at i:24980377 original size:29 final size:29
Alignment explanation
Indices: 24980334--24980687 Score: 492
Period size: 29 Copynumber: 12.2 Consensus size: 29
24980324 GTATTGATGC
* **
24980334 CCATCGAATATGAAAAGGGATAGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * *
24980363 TCATCGAATATGAAAAAGGATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
24980392 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
24980421 ACATCGAATATGAAAAGGGATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
**
24980450 CCATCGAATATGAAAAGGGATGGTGGCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
*
24980479 CCATCGAATATGAAAAAGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* **
24980508 CCATTGAATATGAAAAGGGATGGTGGCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
*
24980537 CCATCGAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* **
24980566 CCATTGAATATGAAAAGGGATGGTGGCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
*
24980595 CCATCGAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* **
24980624 CCATCGAATATGGAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
24980653 CCACCGAATATGAAAAGGGATAGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
24980682 CCATCG
1 CCATCG
24980688 TTTAGCACAC
Statistics
Matches: 281, Mismatches: 44, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 281 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:24980426 original size:58 final size:58
Alignment explanation
Indices: 24980334--24980687 Score: 546
Period size: 58 Copynumber: 6.1 Consensus size: 58
24980324 GTATTGATGC
* * * * *
24980334 CCATCGAATATGAAAAGGGATAGTGACGATCATCGAATATGAAAAAGGATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCGA
** * *
24980392 CCATCGAATATGAAAAGGGATGGTTTCGAACATCGAATATGAAAAGGGATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCGA
*
24980450 CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAAGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCGA
* *
24980508 CCATTGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCGA
* *
24980566 CCATTGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCGA
* * * *
24980624 CCATCGAATATGGAAAGGGATGGTGACGACCACCGAATATGAAAAGGGATAGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCGA
24980682 CCATCG
1 CCATCG
24980688 TTTAGCACAC
Statistics
Matches: 277, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 277 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (58 bp):
CCATCGAATATGAAAAGGGATGGTGGCGACCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:24985564 original size:15 final size:13
Alignment explanation
Indices: 24985544--24985584 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
24985534 TGCAATTTTG
24985544 AATAAAGGATAGCAA
1 AATAAAGGATA--AA
24985559 AATAAAGGAT-AA
1 AATAAAGGATAAA
24985571 AATAAAGGATAAA
1 AATAAAGGATAAA
24985584 A
1 A
24985585 TAGACTAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.48
13 3 0.12
15 10 0.40
ACGTcount: A:0.66, C:0.02, G:0.17, T:0.15
Consensus pattern (13 bp):
AATAAAGGATAAA
Found at i:24985574 original size:12 final size:12
Alignment explanation
Indices: 24985557--24985586 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
24985547 AAAGGATAGC
24985557 AAAATAAAGGAT
1 AAAATAAAGGAT
24985569 AAAATAAAGGAT
1 AAAATAAAGGAT
24985581 AAAATA
1 AAAATA
24985587 GACTAGGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (12 bp):
AAAATAAAGGAT
Found at i:25001406 original size:40 final size:40
Alignment explanation
Indices: 25001348--25001592 Score: 285
Period size: 40 Copynumber: 6.1 Consensus size: 40
25001338 TCATTATTTG
* * * *
25001348 ATTCACGGTTACCAAAGTACAAACAAGGGCACGTACGTGC
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC
* * * *
25001388 ATTCAGTGGTACTGAAGTACAAACAAGGGAACATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC
* * * *
25001428 ATTCAGGGGTATCGAAGTACAAATAGGGGTACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC
** * *
25001468 ATTCAATGGTACCGAAGTAAAAATAAGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC
* *
25001508 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGAGC
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC
* * *
25001548 ATTCAAGGGTACCGAAGTAGAAA-TAGAGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAAG-GGCACGTATGTGC
25001588 ATTCA
1 ATTCA
25001593 AACAATAATT
Statistics
Matches: 172, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 171 0.99
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC
Found at i:25001564 original size:120 final size:120
Alignment explanation
Indices: 25001357--25001593 Score: 339
Period size: 120 Copynumber: 2.0 Consensus size: 120
25001347 GATTCACGGT
* * *
25001357 TACCAAAGTACAAACAAGGGCACGTACGTGCATTCAGTGGTACTGAAGTACAAACAAGGGAACAT
1 TACCAAAGTAAAAACAAGGGCACGTACGTGCATTCAGGGGTACCGAAGTACAAACAAGGGAACAT
* * * * *
25001422 ATGTGCATTCAGGGGTATCGAAGTACAAATAGGGGTACGTATGTGCATTCAATGG
66 ATGAGCATTCAAGGGTACCGAAGTACAAATAGAGGCACGTATGTGCATTCAATGG
* * * * * *
25001477 TACCGAAGTAAAAATAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGT
1 TACCAAAGTAAAAACAAGGGCACGTACGTGCATTCAGGGGTACCGAAGTACAAACAAGGGAACAT
*
25001542 ATGAGCATTCAAGGGTACCGAAGTAGAAATAGAGGCACGTATGTGCATTCAA
66 ATGAGCATTCAAGGGTACCGAAGTACAAATAGAGGCACGTATGTGCATTCAA
25001594 ACAATAATTA
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 102 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.20
Consensus pattern (120 bp):
TACCAAAGTAAAAACAAGGGCACGTACGTGCATTCAGGGGTACCGAAGTACAAACAAGGGAACAT
ATGAGCATTCAAGGGTACCGAAGTACAAATAGAGGCACGTATGTGCATTCAATGG
Found at i:25015386 original size:30 final size:31
Alignment explanation
Indices: 25015331--25015398 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
25015321 ACCTTTAAAA
** * **
25015331 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
25015362 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
25015392 TATTTAC
1 TATTTAC
25015399 TCTTAGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:25016145 original size:18 final size:18
Alignment explanation
Indices: 25016122--25016158 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25016112 GACTTTAAAG
25016122 TAGATAACGAGGTGCCAA
1 TAGATAACGAGGTGCCAA
*
25016140 TAGATAACGAGGTGTCAA
1 TAGATAACGAGGTGCCAA
25016158 T
1 T
25016159 CTTCCTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (18 bp):
TAGATAACGAGGTGCCAA
Found at i:25019475 original size:22 final size:22
Alignment explanation
Indices: 25019449--25019493 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
25019439 ATTATGTGTA
25019449 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
25019471 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
25019493 T
1 T
25019494 GGGTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:25023431 original size:40 final size:40
Alignment explanation
Indices: 25023331--25023575 Score: 249
Period size: 40 Copynumber: 6.2 Consensus size: 40
25023321 ATATTATTTG
* * *
25023331 ATTCACGGTTACCAAAGTACAAATAGGGGCACATATGTGC
1 ATTCAAGGGTACCGAAGTACAAATAGGGGCACATATGTGC
* *
25023371 ATT-TAGGGTACTGAAGTACAAATAGGGGCACATATGTGC
1 ATTCAAGGGTACCGAAGTACAAATAGGGGCACATATGTGC
* * * * *
25023410 ATTCAGGGGTACCAAAGTACAAAAAGAGGCACGTATGTGC
1 ATTCAAGGGTACCGAAGTACAAATAGGGGCACATATGTGC
*** * * ** *
25023450 ATTCAACAATACTGAAGTACAAATAGGGGAATGTATGTGA
1 ATTCAAGGGTACCGAAGTACAAATAGGGGCACATATGTGC
* * * *
25023490 ATTCAGGGGTACCGAAGTAAAAACAGGAGCACATATGTGC
1 ATTCAAGGGTACCGAAGTACAAATAGGGGCACATATGTGC
* * * *
25023530 ATTCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTCC
1 ATTCAAGGGTACCGAAGTACAAATAGGGGCACATATGTGC
25023570 ATTCAA
1 ATTCAA
25023576 AGAATAATTA
Statistics
Matches: 163, Mismatches: 41, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
39 34 0.21
40 129 0.79
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
ATTCAAGGGTACCGAAGTACAAATAGGGGCACATATGTGC
Found at i:25023548 original size:120 final size:119
Alignment explanation
Indices: 25023345--25023575 Score: 318
Period size: 120 Copynumber: 1.9 Consensus size: 119
25023335 ACGGTTACCA
* * * * * * *
25023345 AAGTACAAATAGGGGCACATATGTGCATTTAGGGTACTGAAGTACAAATAGGGGCACATATGTGC
1 AAGTACAAATAGGGGAACATATGTGAATTCAGGGTACCGAAGTAAAAACAGGAGCACATATGTGC
* *
25023410 ATTCAGGGGTACCAAAGTACAAAAAGAGGCACGTATGTGCATTCAACAATACTG
66 ATTCAAGGGTACCAAAGTACAAAAAGAGGCACGTATGTCCATTCAACAATACTG
**
25023464 AAGTACAAATAGGGGAATGTATGTGAATTCAGGGGTACCGAAGTAAAAACAGGAGCACATATGTG
1 AAGTACAAATAGGGGAACATATGTGAATTCA-GGGTACCGAAGTAAAAACAGGAGCACATATGTG
* * * *
25023529 CATTCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTCCATTCAA
65 CATTCAAGGGTACCAAAGTACAAAAAGAGGCACGTATGTCCATTCAA
25023576 AGAATAATTA
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
119 26 0.27
120 70 0.73
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (119 bp):
AAGTACAAATAGGGGAACATATGTGAATTCAGGGTACCGAAGTAAAAACAGGAGCACATATGTGC
ATTCAAGGGTACCAAAGTACAAAAAGAGGCACGTATGTCCATTCAACAATACTG
Found at i:25023574 original size:80 final size:79
Alignment explanation
Indices: 25023331--25023574 Score: 278
Period size: 80 Copynumber: 3.1 Consensus size: 79
25023321 ATATTATTTG
* * * * *
25023331 ATTCACGGTTACCAAAGTACAAATAGGGGCACATATGTGCATT-TAGGGTACTGAAGTACAAATA
1 ATTCAGGGGTACCAAAGTA-AAAAAGGAGCACATATGTGCATTCAAGGGTACTGAAGTACAAATA
*
25023395 GGGGCACATATGTGC
65 GGGGCACGTATGTGC
* ***
25023410 ATTCAGGGGTACCAAAGTACAAAAA-GAGGCACGTATGTGCATTCAACAATACTGAAGTACAAAT
1 ATTCAGGGGTACCAAAGTA-AAAAAGGA-GCACATATGTGCATTCAAGGGTACTGAAGTACAAAT
* * *
25023474 AGGGGAATGTATGTGA
64 AGGGGCACGTATGTGC
* *
25023490 ATTCAGGGGTACCGAAGTAAAAACAGGAGCACATATGTGCATTCAAGGGTA-TCGAAGTACAAAC
1 ATTCAGGGGTACCAAAGTAAAAA-AGGAGCACATATGTGCATTCAAGGGTACT-GAAGTACAAAT
*
25023554 AGGGGCACGTATGTCC
64 AGGGGCACGTATGTGC
25023570 ATTCA
1 ATTCA
25023575 AAGAATAATT
Statistics
Matches: 137, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
79 41 0.30
80 93 0.68
81 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (79 bp):
ATTCAGGGGTACCAAAGTAAAAAAGGAGCACATATGTGCATTCAAGGGTACTGAAGTACAAATAG
GGGCACGTATGTGC
Found at i:25026781 original size:21 final size:20
Alignment explanation
Indices: 25026743--25026782 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25026733 TATTTAAAAT
*
25026743 ATGTGTTTTAATGGCTAGAA
1 ATGTGTTTTAAAGGCTAGAA
*
25026763 ATGTGATTTTAAAGTCTAGA
1 ATGTG-TTTTAAAGGCTAGA
25026783 CAACATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (20 bp):
ATGTGTTTTAAAGGCTAGAA
Found at i:25029359 original size:19 final size:20
Alignment explanation
Indices: 25029312--25029356 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
25029302 TGAAATAAAG
25029312 TAAAAACTAAATTAAAACCC
1 TAAAAACTAAATTAAAACCC
25029332 TAAAAACTAAATTAAAACCC
1 TAAAAACTAAATTAAAACCC
25029352 TAAAA
1 TAAAA
25029357 CTAGCTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAACTAAATTAAAACCC
Found at i:25034793 original size:26 final size:27
Alignment explanation
Indices: 25034743--25034796 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
25034733 ATGCAGTCTG
25034743 AGTGCACCAATTCAAAAAAAATTAACT
1 AGTGCACCAATTCAAAAAAAATTAACT
*
25034770 AGTGCACTAATTC-AAAAAAATTAACT
1 AGTGCACCAATTCAAAAAAAATTAACT
25034796 A
1 A
25034797 AGCTTGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (27 bp):
AGTGCACCAATTCAAAAAAAATTAACT
Found at i:25035376 original size:33 final size:34
Alignment explanation
Indices: 25035304--25035376 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
25035294 AAGTTAATAT
* *
25035304 GAATGCCTCCTGTAGTGCTATTATTTCTTGACAGG
1 GAAT-CCTCCTGTAGTGCTATTATTTCTAGACAGA
* *
25035339 GAATCCTCTTGTAGT-CTATTATTTCTAGATAGA
1 GAATCCTCCTGTAGTGCTATTATTTCTAGACAGA
25035372 GAATC
1 GAATC
25035377 TTAATAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 20 0.59
34 10 0.29
35 4 0.12
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (34 bp):
GAATCCTCCTGTAGTGCTATTATTTCTAGACAGA
Found at i:25036802 original size:14 final size:14
Alignment explanation
Indices: 25036781--25036819 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
25036771 CTATGATTGA
25036781 AAACTCTTTACTGT
1 AAACTCTTTACTGT
*
25036795 ATACTCTTTACTGT
1 AAACTCTTTACTGT
25036809 AAACTCTTTAC
1 AAACTCTTTAC
25036820 GAAAGCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (14 bp):
AAACTCTTTACTGT
Found at i:25037778 original size:23 final size:23
Alignment explanation
Indices: 25037749--25037795 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
25037739 ATATAGTCTT
*
25037749 TATATTA-ATTATAAATGTTATAA
1 TATATTATATTAT-AATATTATAA
25037772 TATATTATATTATAATATTATAA
1 TATATTATATTATAATATTATAA
25037795 T
1 T
25037796 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATTATATTATAATATTATAA
Found at i:25039450 original size:41 final size:41
Alignment explanation
Indices: 25039387--25039507 Score: 138
Period size: 41 Copynumber: 2.9 Consensus size: 41
25039377 ACTAATCTGA
* * * *
25039387 TTTATTGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGC
1 TTTA-TGCCGGTGAAATTATTCAGACTATAAGTCTAGCAGGC
* *
25039429 TTTATGCCGGTGAAATTATTCAGACTATACGTCTAGTAGGC
1 TTTATGCCGGTGAAATTATTCAGACTATAAGTCTAGCAGGC
*
25039470 TTAATGCCGGTGATACA-T-TTCAGACTATAAGTCTAGCA
1 TTTATGCCGGTGA-A-ATTATTCAGACTATAAGTCTAGCA
25039508 AGCTAAAAGC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 62 0.90
42 6 0.09
43 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (41 bp):
TTTATGCCGGTGAAATTATTCAGACTATAAGTCTAGCAGGC
Found at i:25039729 original size:13 final size:13
Alignment explanation
Indices: 25039711--25039735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25039701 TTATTAAATA
25039711 TATATGCATTTGG
1 TATATGCATTTGG
25039724 TATATGCATTTG
1 TATATGCATTTG
25039736 ATAAACAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TATATGCATTTGG
Found at i:25043730 original size:19 final size:19
Alignment explanation
Indices: 25043697--25043736 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25043687 AAAGTATCAT
* *
25043697 ATTAATTTTAATTTATTTG
1 ATTAATTTCAATTTACTTG
*
25043716 ATTAATTTCATTTTACTTG
1 ATTAATTTCAATTTACTTG
25043735 AT
1 AT
25043737 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTCAATTTACTTG
Found at i:25048197 original size:14 final size:14
Alignment explanation
Indices: 25048180--25048206 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25048170 TTTAAAAGTG
25048180 CAAAAAGAAAATTT
1 CAAAAAGAAAATTT
25048194 CAAAAAGAAAATT
1 CAAAAAGAAAATT
25048207 AAATGAGTAG
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:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (14 bp):
CAAAAAGAAAATTT
Found at i:25055893 original size:14 final size:15
Alignment explanation
Indices: 25055868--25055906 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
25055858 TTACATACAT
*
25055868 ATCAAAATATCAATC
1 ATCATAATATCAATC
*
25055883 -TCATCATATCAATC
1 ATCATAATATCAATC
25055897 ATCATAATAT
1 ATCATAATAT
25055907 TCACAAGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (15 bp):
ATCATAATATCAATC
Found at i:25057211 original size:23 final size:23
Alignment explanation
Indices: 25057180--25057230 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
25057170 TGGTCACCGG
*
25057180 CGGCGGTGACAACGGTGGTCTGA
1 CGGCTGTGACAACGGTGGTCTGA
25057203 CGGCTGTGACAACGGTGGTCTGA
1 CGGCTGTGACAACGGTGGTCTGA
25057226 CGGCT
1 CGGCT
25057231 CGGTGGAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.16, C:0.24, G:0.41, T:0.20
Consensus pattern (23 bp):
CGGCTGTGACAACGGTGGTCTGA
Found at i:25080626 original size:20 final size:20
Alignment explanation
Indices: 25080594--25080631 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25080584 TTGAATTGTA
25080594 TTTAAACAGTAAT-TTAAAT
1 TTTAAACAGTAATCTTAAAT
25080613 TTTAAACAAGTAATCTTAA
1 TTTAAAC-AGTAATCTTAA
25080632 TACTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTAAACAGTAATCTTAAAT
Found at i:25088609 original size:41 final size:41
Alignment explanation
Indices: 25088550--25088732 Score: 203
Period size: 41 Copynumber: 4.5 Consensus size: 41
25088540 AATTATTCTA
* *
25088550 TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
* *
25088591 TGAATTGCACATATGTGCCCCTGTTTGTACTTTAGTACCCC
1 TGAATTGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
* * * *
25088632 TAAATTGCATATACGTGCCCCTTG-TTGTATTTC-G-ACACCC
1 TGAATTGCACATATGTG-CCCTTGTTTGTACTTCAGTAC-CCC
* *
25088672 ATAAATTGCACATATGTGTCCC-TGTTTGTACTTCAGTACCCT
1 -TGAATTGCACATATGTG-CCCTTGTTTGTACTTCAGTACCCC
*
25088714 TGAATTACACATATGTGCC
1 TGAATTGCACATATGTGCC
25088733 TCTGTTTACG
Statistics
Matches: 119, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.02
40 8 0.07
41 99 0.83
42 8 0.07
43 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
Found at i:25088689 original size:82 final size:82
Alignment explanation
Indices: 25088552--25088732 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 82
25088542 TTATTCTATG
** * *
25088552 AATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCCTGTTT
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGACACCCATAAATTGCACATATGTGCCCCTGTTT
*
25088617 GTACTTTAGTACCCCTA
66 GTACTTCAGTACCCCTA
* * *
25088634 AATTGCATATACGTGCCCCTTG-TTGTATTTCGACACCCATAAATTGCACATATGTGTCCCTGTT
1 AATTGCACATACGTG-CCCTTGTTTGTACTTCGACACCCATAAATTGCACATATGTGCCCCTGTT
* *
25088698 TGTACTTCAGTACCCTTG
65 TGTACTTCAGTACCCCTA
* *
25088716 AATTACACATATGTGCC
1 AATTGCACATACGTGCC
25088733 TCTGTTTACG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 2 0.02
82 77 0.91
83 6 0.07
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (82 bp):
AATTGCACATACGTGCCCTTGTTTGTACTTCGACACCCATAAATTGCACATATGTGCCCCTGTTT
GTACTTCAGTACCCCTA
Found at i:25097109 original size:25 final size:24
Alignment explanation
Indices: 25097076--25097145 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
25097066 GGTTACCTAT
*
25097076 TTTATAGCTCGTGAGAGCATACTGA
1 TTTATAGCTCGTGAGAGCATAC-CA
* *
25097101 TTTATAGCTCGTAAAAGCATACCA
1 TTTATAGCTCGTGAGAGCATACCA
* * *
25097125 TTCATGGCTCATGAGAGCATA
1 TTTATAGCTCGTGAGAGCATA
25097146 TTGACTCACA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
24 17 0.46
25 20 0.54
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (24 bp):
TTTATAGCTCGTGAGAGCATACCA
Found at i:25104583 original size:25 final size:25
Alignment explanation
Indices: 25104528--25104655 Score: 125
Period size: 25 Copynumber: 5.0 Consensus size: 25
25104518 TCATTAGGGT
* *
25104528 TACCTATTTATAGCTCGTGTGAGAGCA
1 TACCGATTTATAGCTC--GTAAGAGCA
25104555 TACCGATTTATAGCTCGTAAGAGCA
1 TACCGATTTATAGCTCGTAAGAGCA
* *
25104580 TACCGATTCATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTCGTAAGAGCA
* *
25104605 TACCGATCTT-CAGCTC-AAATGAGCA
1 TACCGAT-TTATAGCTCGTAA-GAGCA
* * *
25104630 TACTGATTCATAGCTCGTATGAGCA
1 TACCGATTTATAGCTCGTAAGAGCA
25104655 T
1 T
25104656 GCATGTACAT
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.02
25 65 0.77
26 2 0.02
27 15 0.18
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
TACCGATTTATAGCTCGTAAGAGCA
Found at i:25104620 original size:50 final size:50
Alignment explanation
Indices: 25104528--25104655 Score: 145
Period size: 50 Copynumber: 2.5 Consensus size: 50
25104518 TCATTAGGGT
* * * *
25104528 TACCTATTTATAGCTCGTGTGAGAGCATACCGATTTATAGCTCGTAA-GAGCA
1 TACCGATTCATAGCTC--GTGAGAGCATACCGATTTACAGCTC-AAATGAGCA
25104580 TACCGATTCATAGCTCGTGAGAGCATACCGATCTT-CAGCTCAAATGAGCA
1 TACCGATTCATAGCTCGTGAGAGCATACCGAT-TTACAGCTCAAATGAGCA
*
25104630 TACTGATTCATAGCTCGT-ATGAGCAT
1 TACCGATTCATAGCTCGTGA-GAGCAT
25104656 GCATGTACAT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
49 3 0.04
50 49 0.72
51 2 0.03
52 14 0.21
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (50 bp):
TACCGATTCATAGCTCGTGAGAGCATACCGATTTACAGCTCAAATGAGCA
Found at i:25112548 original size:30 final size:30
Alignment explanation
Indices: 25112459--25112548 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
25112449 AATGAATATG
* *
25112459 AAAAGGGATGGTTTTGACCATTGATTAAAG
1 AAAAGGGATGGTTTTGACCATCGATTAAAA
*
25112489 AAAAGGGATGGTTTCGACCATCGATTAAAA
1 AAAAGGGATGGTTTTGACCATCGATTAAAA
* *
25112519 AAAAGGGATGGTTTTGAACATCGTTTAAAA
1 AAAAGGGATGGTTTTGACCATCGATTAAAA
25112549 CACTTGTGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (30 bp):
AAAAGGGATGGTTTTGACCATCGATTAAAA
Found at i:25112650 original size:30 final size:29
Alignment explanation
Indices: 25112616--25112680 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
25112606 GGTATGATGT
*
25112616 ACCATCAATTAAAGAAAAGGGATGGTTTTG
1 ACCATCAATTAAA-AAAAGGGATGGTTTCG
**
25112646 ACCATTGATTAAAAAAAGGGATGGTTTCG
1 ACCATCAATTAAAAAAAGGGATGGTTTCG
25112675 ACCATC
1 ACCATC
25112681 GTTTAGCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (29 bp):
ACCATCAATTAAAAAAAGGGATGGTTTCG
Found at i:25112669 original size:29 final size:30
Alignment explanation
Indices: 25112623--25112679 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
25112613 TGTACCATCA
*
25112623 ATTAAAGAAAAGGGATGGTTTTGACCATTG
1 ATTAAAGAAAAGGGATGGTTTCGACCATTG
25112653 ATTAAA-AAAAGGGATGGTTTCGACCAT
1 ATTAAAGAAAAGGGATGGTTTCGACCAT
25112680 CGTTTAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (30 bp):
ATTAAAGAAAAGGGATGGTTTCGACCATTG
Found at i:25112708 original size:140 final size:141
Alignment explanation
Indices: 25112482--25112759 Score: 468
Period size: 140 Copynumber: 2.0 Consensus size: 141
25112472 TTGACCATTG
*
25112482 ATTAAAGAAAAGGGATGGTTTCGACCATCGATTAAAAAAAAGGGATGGTTTTGAACATCGTTTAA
1 ATTAAAGAAAAGGGATGGTTTCGACCATCGATTAAAAAAAAGGGATGGTTTCGAACATCGTTTAA
25112547 AACACTTGTGTGAGCTACGGTAAGGGTTCCGATTGACTTCACTACAACAAATATGGAAAGGTATG
66 AACACTTGTGTGAGCTACGGTAAGGGTTCCGATTGACTTCACTACAACAAATATGGAAAGGTATG
25112612 ATGTACCATCA
131 ATGTACCATCA
* * * *
25112623 ATTAAAGAAAAGGGATGGTTTTGACCATTGATT-AAAAAAAGGGATGGTTTCGACCATCGTTTAG
1 ATTAAAGAAAAGGGATGGTTTCGACCATCGATTAAAAAAAAGGGATGGTTTCGAACATCGTTTAA
* * * *
25112687 CACACTTGTGTGAGCTCCGGTAAGGGTTCTGATTGACTTCACTACGACAAATATGGAAAGGTATG
66 AACACTTGTGTGAGCTACGGTAAGGGTTCCGATTGACTTCACTACAACAAATATGGAAAGGTATG
25112752 ATGTACCA
131 ATGTACCA
25112760 ATGATCAAAG
Statistics
Matches: 128, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
140 97 0.76
141 31 0.24
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (141 bp):
ATTAAAGAAAAGGGATGGTTTCGACCATCGATTAAAAAAAAGGGATGGTTTCGAACATCGTTTAA
AACACTTGTGTGAGCTACGGTAAGGGTTCCGATTGACTTCACTACAACAAATATGGAAAGGTATG
ATGTACCATCA
Found at i:25115721 original size:13 final size:14
Alignment explanation
Indices: 25115705--25115746 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
25115695 AAAACAAGTG
25115705 AGGAAAA-AGAAAA
1 AGGAAAAGAGAAAA
25115718 AGGAAAAGAGAAAA
1 AGGAAAAGAGAAAA
* *
25115732 A-TAAAAGTGAAAA
1 AGGAAAAGAGAAAA
25115745 AG
1 AG
25115747 AAGAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (14 bp):
AGGAAAAGAGAAAA
Found at i:25115759 original size:22 final size:20
Alignment explanation
Indices: 25115707--25115767 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
25115697 AACAAGTGAG
* * *
25115707 GAAAAAGAAAAAGGAAAAGA
1 GAAAAATAAAATGAAAAAGA
25115727 GAAAAATAAAAGTGAAAAAGA
1 GAAAAATAAAA-TGAAAAAGA
25115748 -AGAAAATGAAAATGAAAAAG
1 GA-AAAAT-AAAATGAAAAAG
25115768 GCGAAAAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 11 0.31
21 20 0.57
22 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (20 bp):
GAAAAATAAAATGAAAAAGA
Found at i:25115774 original size:21 final size:22
Alignment explanation
Indices: 25115721--25115767 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
25115711 AAGAAAAAGG
25115721 AAAAG-AGAAAAAT-AAAAGTGA
1 AAAAGAAG-AAAATGAAAAGTGA
25115742 AAAAGAAGAAAATGAAAA-TGA
1 AAAAGAAGAAAATGAAAAGTGA
25115763 AAAAG
1 AAAAG
25115768 GCGAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAGAAAATGAAAAGTGA
Found at i:25121393 original size:29 final size:29
Alignment explanation
Indices: 25121326--25121559 Score: 303
Period size: 29 Copynumber: 8.1 Consensus size: 29
25121316 GTATTGACGC
**
25121326 CCATCGAATATGAAAAGGGAT-GTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
25121354 CCATCGAATATGAAAAGAGATTGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
25121383 CCATTGAATATGAAAAGGGATTGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
25121412 CCATTGAATATGAAAAGTGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
**
25121441 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
**
25121470 CCATTAAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
*
25121499 CCATCGAATATGAAAAGGGATGGTGAT-GA
1 CCATCGAATATGAAAAGGGATGGT-TTCGA
* *
25121528 GCATCGAATATGAAAA-GGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
25121556 CCAT
1 CCAT
25121560 TGTTTATGTA
Statistics
Matches: 181, Mismatches: 22, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
27 1 0.01
28 31 0.17
29 148 0.82
30 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:25121425 original size:58 final size:57
Alignment explanation
Indices: 25121326--25121559 Score: 335
Period size: 58 Copynumber: 4.1 Consensus size: 57
25121316 GTATTGACGC
*
25121326 CCATCGAATATGAAAAGGGAT-GTGACGACCATCGAATATGAAAAGAGATTGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAG-GATGGTTTCGA
* * ** *
25121383 CCATTGAATATGAAAAGGGATTGTTTCGACCATTGAATATGAAAAGTGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAG-GATGGTTTCGA
**
25121441 CCATCGAATATGAAAAGGGATGGTGACGACCATTAAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAA-GGATGGTTTCGA
* * *
25121499 CCATCGAATATGAAAAGGGATGGTGATGAGCATCGAATATGAAAAGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGATGGTTTCGA
25121556 CCAT
1 CCAT
25121560 TGTTTATGTA
Statistics
Matches: 159, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
57 35 0.22
58 123 0.77
59 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (57 bp):
CCATCGAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGATGGTTTCGA
Found at i:25124728 original size:31 final size:31
Alignment explanation
Indices: 25124680--25124754 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 31
25124670 ATATTCATAA
25124680 TTATGGAAAGTAT-GAGTTCATATAAATTATGT
1 TTAT-GAAA-TATAGAGTTCATATAAATTATGT
25124712 TTATGAAATATAGAGTTCATATAAATTATGT
1 TTATGAAATATAGAGTTCATATAAATTATGT
25124743 TTATGAAATATA
1 TTATGAAATATA
25124755 TCTTATCATG
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
30 3 0.07
31 35 0.83
32 4 0.10
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (31 bp):
TTATGAAATATAGAGTTCATATAAATTATGT
Found at i:25125550 original size:30 final size:30
Alignment explanation
Indices: 25125516--25125572 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
25125506 ATGGCCTAAG
* * *
25125516 ACACGGGCATGCGTCTCAGCCGTGTGTGAC
1 ACACGGCCATGCGACACAGCCGTGTGTGAC
*
25125546 ACACGGCCATGCGACACAGTCGTGTGT
1 ACACGGCCATGCGACACAGCCGTGTGT
25125573 CCCTTGTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (30 bp):
ACACGGCCATGCGACACAGCCGTGTGTGAC
Found at i:25142986 original size:27 final size:27
Alignment explanation
Indices: 25142956--25143121 Score: 180
Period size: 27 Copynumber: 6.1 Consensus size: 27
25142946 TATAACAATC
25142956 ATTTTACCCTATAG-GGGTATTTCAGTA
1 ATTTTACCC-ATAGAGGGTATTTCAGTA
*
25142983 ATTTTACCCATCA-AGGATATTTCAGTA
1 ATTTTACCCAT-AGAGGGTATTTCAGTA
*
25143010 ATTTTACCCATCGAGGGTATTTC-GATA
1 ATTTTACCCATAGAGGGTATTTCAG-TA
*
25143037 ATTTTACCCATTA-AGGGTATTTCAATA
1 ATTTTACCCA-TAGAGGGTATTTCAGTA
* * *
25143064 ATTTTACCTATTGAGGGTATTTC-GATC
1 ATTTTACCCATAGAGGGTATTTCAG-TA
* *
25143091 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCATAGAGGGTATTTCAGTA
25143118 ATTT
1 ATTT
25143122 AACAACCTTT
Statistics
Matches: 117, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.03
27 111 0.95
28 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (27 bp):
ATTTTACCCATAGAGGGTATTTCAGTA
Found at i:25143039 original size:54 final size:54
Alignment explanation
Indices: 25142956--25143121 Score: 219
Period size: 54 Copynumber: 3.1 Consensus size: 54
25142946 TATAACAATC
*
25142956 ATTTTACCCTATAG-GGGTATTTC-AGTAATTTTACCCATCAAGGATATTTCAGTA
1 ATTTTACCC-ATAGAGGGTATTTCGA-TAATTTTACCCATCAAGGGTATTTCAGTA
* * *
25143010 ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATTAAGGGTATTTCAATA
1 ATTTTACCCATAGAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAGTA
* * * * *
25143064 ATTTTACCTATTGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCATAGAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAGTA
25143118 ATTT
1 ATTT
25143122 AACAACCTTT
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
53 3 0.03
54 95 0.96
55 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (54 bp):
ATTTTACCCATAGAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAGTA
Found at i:25143085 original size:81 final size:81
Alignment explanation
Indices: 25142956--25143121 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 81
25142946 TATAACAATC
* *
25142956 ATTTTACCCTATAGGGGTATTTCAGTAATTTTACCCATCAAGGATATTTC-AGTAATTTTACCCA
1 ATTTTACCCTATAAGGGTATTTCAATAATTTTACCCATCAAGGATATTTCGA-TAATTTTACCCA
25143020 TCGAGGGTATTTC-GATA
65 TCGAGGGTATTTCAG-TA
* ** * * *
25143037 ATTTTACCC-ATTAAGGGTATTTCAATAATTTTACCTATTGAGGGTATTTCGATCATTTTACCCT
1 ATTTTACCCTA-TAAGGGTATTTCAATAATTTTACCCATCAAGGATATTTCGATAATTTTACCCA
25143101 TCGAGGGTATTTCAGTA
65 TCGAGGGTATTTCAGTA
25143118 ATTT
1 ATTT
25143122 AACAACCTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 1 0.01
81 71 0.96
82 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (81 bp):
ATTTTACCCTATAAGGGTATTTCAATAATTTTACCCATCAAGGATATTTCGATAATTTTACCCAT
CGAGGGTATTTCAGTA
Found at i:25147884 original size:266 final size:266
Alignment explanation
Indices: 25147407--25147942 Score: 955
Period size: 266 Copynumber: 2.0 Consensus size: 266
25147397 GTTTAAGCTC
** *
25147407 ATCAAACCAAGTGCACCACATACGACCTCGAAAGGCCCATCCAACCTTACACACCATGTATGTGG
1 ATCAAACCAAGCACACCACATACGACCTCGAAAGGCCCATCCAACCCTACACACCATGTATGTGG
* * *
25147472 ACTAAGCCACTCAGATAATAATACGCAGTAAGGCTAGCGTATATGCCGTACAGTGCATTGCGGTA
66 ACTAAGCCACTCAGATAATAATACGCAGCAAGGCTAGCATATATGCAGTACAGTGCATTGCGGTA
25147537 AACCACTGTACAGACATGTTGCAGTTTAAACTGCCAGATAAAATAATAGTACGCAACAAAGTTGA
131 AACCACTGTACAGACATGTTGCAGTTTAAACTGCCAGATAAAATAATAGTACGCAACAAAGTTGA
* *
25147602 CGTACATGTAGTGCAGTGCGGTAAACCACTGTACCGATAAGTTTGCAGTTAAACTGCCAGATCAG
196 CGTACATGCAGTGCAGTGCGGTAAACCACTGTACCGATAAGTTTGCAGTTAAACTGCAAGATCAG
25147667 ATCAGA
261 ATCAGA
*
25147673 ATCAAACCAAGCACACCACATAGGACCTCGAAAGGCCCATCCAACCCTACACACCATGTATGTGG
1 ATCAAACCAAGCACACCACATACGACCTCGAAAGGCCCATCCAACCCTACACACCATGTATGTGG
25147738 ACTAAGCCACTCAGATAATAATACGCAGCAAGGCTAGCATATATGCAGTACAGTGCATTGCGGTA
66 ACTAAGCCACTCAGATAATAATACGCAGCAAGGCTAGCATATATGCAGTACAGTGCATTGCGGTA
* *
25147803 AACCATTGTACAGACATGTTGCAGTTTAAATTGCCAGATAAAATAATAGTACGCAACAAAGTTGA
131 AACCACTGTACAGACATGTTGCAGTTTAAACTGCCAGATAAAATAATAGTACGCAACAAAGTTGA
* *
25147868 CGTACATGCGGTGCAGTGCGGTAAACCACTGTACCGATAAGTTTGCAGTTAAACTGGAAGATCAG
196 CGTACATGCAGTGCAGTGCGGTAAACCACTGTACCGATAAGTTTGCAGTTAAACTGCAAGATCAG
25147933 ATCAGA
261 ATCAGA
25147939 ATCA
1 ATCA
25147943 GTCTTCTCTT
Statistics
Matches: 257, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
266 257 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (266 bp):
ATCAAACCAAGCACACCACATACGACCTCGAAAGGCCCATCCAACCCTACACACCATGTATGTGG
ACTAAGCCACTCAGATAATAATACGCAGCAAGGCTAGCATATATGCAGTACAGTGCATTGCGGTA
AACCACTGTACAGACATGTTGCAGTTTAAACTGCCAGATAAAATAATAGTACGCAACAAAGTTGA
CGTACATGCAGTGCAGTGCGGTAAACCACTGTACCGATAAGTTTGCAGTTAAACTGCAAGATCAG
ATCAGA
Found at i:25152421 original size:25 final size:26
Alignment explanation
Indices: 25152380--25152443 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
25152370 TAGCCTACAC
25152380 TAATAAGAGTTTAAGT-GTGAAACTAA
1 TAATAAGAGTTTAAGTGGT-AAACTAA
*
25152406 TAATAAG-TTTTAAGTGGTAAACTAA
1 TAATAAGAGTTTAAGTGGTAAACTAA
25152431 -AA-ACAGAGTTTAA
1 TAATA-AGAGTTTAA
25152444 CTGGGAGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 1 0.03
24 4 0.12
25 19 0.58
26 9 0.27
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.31
Consensus pattern (26 bp):
TAATAAGAGTTTAAGTGGTAAACTAA
Found at i:25156819 original size:94 final size:95
Alignment explanation
Indices: 25156706--25156884 Score: 306
Period size: 94 Copynumber: 1.9 Consensus size: 95
25156696 AACGAGATAA
* *
25156706 AAAAGGGATTTGATATATTCCTTATCAAATATGGAAATATAATTTAATTATTATTTAAAAGAGTT
1 AAAAGGGAATTGATATATTCCTTATCAAATAAGGAAATATAATTTAATTATTATTTAAAAGAGTT
25156771 TTAAAGAAATAATAATTAAATTTCAAAATC
66 TTAAAGAAATAATAATTAAATTTCAAAATC
* *
25156801 AAAA-GGAATTGATATATTCCTTATGAGATAAGGAAATATAATTTAATTATTATTTAAAAGAGTT
1 AAAAGGGAATTGATATATTCCTTATCAAATAAGGAAATATAATTTAATTATTATTTAAAAGAGTT
*
25156865 TTAGAGAAATAATAATTAAA
66 TTAAAGAAATAATAATTAAA
25156885 AAGAATTTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 75 0.95
95 4 0.05
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (95 bp):
AAAAGGGAATTGATATATTCCTTATCAAATAAGGAAATATAATTTAATTATTATTTAAAAGAGTT
TTAAAGAAATAATAATTAAATTTCAAAATC
Found at i:25156911 original size:48 final size:48
Alignment explanation
Indices: 25156840--25156962 Score: 178
Period size: 48 Copynumber: 2.6 Consensus size: 48
25156830 AAGGAAATAT
*
25156840 AATTTAATTATTATTTAAAAGAGTTTTAGAGAAATA-ATAATTAAAAAG
1 AATTTAATTATTATTTAAAAGAGTTTTAAAGAAA-AGATAATTAAAAAG
* *
25156888 AATTTAATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATAG
1 AATTTAATTATTATTTAAAAGAGTTTTAAAGAAAAGATAATTAAAAAG
*
25156936 AA-TTAAGTTCTTATTTAAAAGAGTTTT
1 AATTTAA-TTATTATTTAAAAGAGTTTT
25156963 TAAAATTCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
47 5 0.07
48 64 0.93
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.41
Consensus pattern (48 bp):
AATTTAATTATTATTTAAAAGAGTTTTAAAGAAAAGATAATTAAAAAG
Found at i:25156915 original size:22 final size:22
Alignment explanation
Indices: 25156842--25156916 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
25156832 GGAAATATAA
25156842 TTTAATTATTATTTAAAAGAGT
1 TTTAATTATTATTTAAAAGAGT
* * * *
25156864 TTTAGAGAAATAATAATTAAAA-AGAA
1 TTT----AATTATTATTTAAAAGAG-T
25156890 TTTAATTATTATTTAAAAGAGT
1 TTTAATTATTATTTAAAAGAGT
25156912 TTTAA
1 TTTAA
25156917 ATAAAAGATA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 2 0.05
26 15 0.38
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
TTTAATTATTATTTAAAAGAGT
Found at i:25159788 original size:22 final size:22
Alignment explanation
Indices: 25159745--25159793 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
25159735 GGCTAAGAGT
* *
25159745 CATAAACAAGATAGCTATAAGC
1 CATAAACAAGATAGCAACAAGC
*
25159767 TATAAAC-AGAATAGCAACAAGC
1 CATAAACAAG-ATAGCAACAAGC
25159789 CATAA
1 CATAA
25159794 GTACAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.16
Consensus pattern (22 bp):
CATAAACAAGATAGCAACAAGC
Found at i:25159877 original size:26 final size:26
Alignment explanation
Indices: 25159859--25159909 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25159849 CCATCAATAG
*
25159859 CATCGCAGCAAAGTTGCCAGCAACAA
1 CATCGCAGCAAAGCTGCCAGCAACAA
* *
25159885 TATCGCAGCAAAGCTGCCAGTAACA
1 CATCGCAGCAAAGCTGCCAGCAACA
25159910 GTATATGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.29, G:0.20, T:0.14
Consensus pattern (26 bp):
CATCGCAGCAAAGCTGCCAGCAACAA
Found at i:25159956 original size:27 final size:27
Alignment explanation
Indices: 25159901--25159960 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
25159891 AGCAAAGCTG
*
25159901 CCAGTAACAGTATATGTGGCCAAGTCA
1 CCAGTAACAGTATATGTGGCCAAGCCA
*
25159928 CCAGTAACAGTGAT-TGTGG-TAGAGCCA
1 CCAGTAACAGT-ATATGTGGCCA-AGCCA
25159955 CCAGTA
1 CCAGTA
25159961 CAATACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 26 0.90
28 2 0.07
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCCAAGCCA
Found at i:25160195 original size:27 final size:27
Alignment explanation
Indices: 25160162--25160466 Score: 342
Period size: 27 Copynumber: 11.3 Consensus size: 27
25160152 GGTATTTCAA
* *
25160162 TCATTTAACCCTATA-AGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* *
25160188 TCATTTTACCCTATAAGGACATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* **
25160215 TCATTTTAACCTACGGGGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* * *
25160242 TCATTTTACCCTACAGGGCCATTACGA
1 TCATTTTACCCTATAGGGGCATTACGG
* * *
25160269 TCATTTTATCGTACAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* ** **
25160296 TCATTTTACCCTACAAAGGCATTATAG
1 TCATTTTACCCTATAGGGGCATTACGG
* * *
25160323 TTATTTTACCCTATAGGGGCACTACGA
1 TCATTTTACCCTATAGGGGCATTACGG
*
25160350 TCATTTTACCCTATAGGGGCATTATGG
1 TCATTTTACCCTATAGGGGCATTACGG
*
25160377 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
*
25160404 TCATTTTACCCTATAGGGGCATTACAG
1 TCATTTTACCCTATAGGGGCATTACGG
* * * * *
25160431 TCATTTTATCCTACAGGAGCATTATGA
1 TCATTTTACCCTATAGGGGCATTACGG
25160458 TCATTTTAC
1 TCATTTTAC
25160467 GGCCCAAGCC
Statistics
Matches: 233, Mismatches: 45, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
26 14 0.06
27 219 0.94
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGCATTACGG
Found at i:25160243 original size:54 final size:54
Alignment explanation
Indices: 25160108--25160466 Score: 362
Period size: 54 Copynumber: 6.7 Consensus size: 54
25160098 GGGCAAAATA
* * * * * * * * * *
25160108 GTCA-TTTACCGTCCAGGGGCATTACGGTTATTTAACCTTACAGAGGTATTTCA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACG
* * * * * *
25160161 ATCATTTAACCCTATA-AGGCATTACGGTCATTTTACCCTATAAGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACG
* * * *
25160214 GTCATTTTAACCTACGGGGGCATTACGGTCATTTTACCCTACAGGGCCATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACG
* * * * ** **
25160268 ATCATTTTATCGTACAGGGGCATTACGGTCATTTTACCCTACAAAGGCATTATA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACG
* * * * *
25160322 GTTATTTTACCCTATAGGGGCACTACGATCATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACG
*
25160376 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACG
* * * *
25160430 GTCATTTTATCCTACAGGAGCATTATGATCATTTTAC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTAC
25160467 GGCCCAAGCC
Statistics
Matches: 249, Mismatches: 55, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
53 40 0.16
54 209 0.84
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACG
Found at i:25160292 original size:81 final size:81
Alignment explanation
Indices: 25160112--25160465 Score: 372
Period size: 81 Copynumber: 4.4 Consensus size: 81
25160102 AAAATAGTCA
* * * * * * *
25160112 TTTACCGTCCAGGGGCATTACGGTTA-TTTAACCTTACAGAGGTATTTCAATCATTTAACCCTAT
1 TTTACCCTACAGGGGCATTACGGTCATTTTAACC-TACAGAGGCATTACAGTCATTTTACCCTAT
* *
25160176 A-AGGCATTACGGTCAT
65 AGGGGCATTACGATCAT
* * * * * * *
25160192 TTTACCCTATAAGGACATTACGGTCATTTTAACCTACGGGGGCATTACGGTCATTTTACCCTACA
1 TTTACCCTACAGGGGCATTACGGTCATTTTAACCTACAGAGGCATTACAGTCATTTTACCCTATA
*
25160257 GGGCCATTACGATCAT
66 GGGGCATTACGATCAT
* * * * * *
25160273 TTTATCGTACAGGGGCATTACGGTCATTTTACCCTACAAAGGCATTATAGTTATTTTACCCTATA
1 TTTACCCTACAGGGGCATTACGGTCATTTTAACCTACAGAGGCATTACAGTCATTTTACCCTATA
*
25160338 GGGGCACTACGATCAT
66 GGGGCATTACGATCAT
* * * * *
25160354 TTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATA
1 TTTACCCTACAGGGGCATTACGGTCATTTTAACCTACAGAGGCATTACAGTCATTTTACCCTATA
25160419 GGGGCATTAC-AGTCAT
66 GGGGCATTACGA-TCAT
* * * *
25160435 TTTATCCTACAGGAGCATTATGATCATTTTA
1 TTTACCCTACAGGGGCATTACGGTCATTTTA
25160466 CGGCCCAAGC
Statistics
Matches: 225, Mismatches: 46, Indels: 5
0.82 0.17 0.02
Matches are distributed among these distances:
80 44 0.20
81 181 0.80
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (81 bp):
TTTACCCTACAGGGGCATTACGGTCATTTTAACCTACAGAGGCATTACAGTCATTTTACCCTATA
GGGGCATTACGATCAT
Found at i:25162759 original size:17 final size:18
Alignment explanation
Indices: 25162721--25162762 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25162711 CCTATCGTGG
*
25162721 TTTAAAAATCTATTCCCT
1 TTTAAAAATCTATTACCT
*
25162739 TTTAAAAATTTATTACC-
1 TTTAAAAATCTATTACCT
25162756 TTTAAAA
1 TTTAAAA
25162763 CCTTATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTAAAAATCTATTACCT
Found at i:25163474 original size:22 final size:21
Alignment explanation
Indices: 25163421--25163484 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 21
25163411 GCCAGTAACT
25163421 AGAATGGCTAAGAGCCATAAAC
1 AGAATGGCTAA-AGCCATAAAC
* *
25163443 A-AGATAGCTATAAGCTATAAAC
1 AGA-ATGGCTA-AAGCCATAAAC
25163465 AGAATGGCTACAAGCCATAA
1 AGAATGGCTA-AAGCCATAA
25163485 GTACAGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 31 0.91
23 2 0.06
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
AGAATGGCTAAAGCCATAAAC
Found at i:25163531 original size:32 final size:32
Alignment explanation
Indices: 25163476--25163617 Score: 153
Period size: 32 Copynumber: 4.5 Consensus size: 32
25163466 GAATGGCTAC
* *
25163476 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* *
25163507 AAGCCATCAGTAGCAGTGATATGATCGGCATA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* * * *
25163539 CAGCCATCAGTAAC-GACAATATGATCGACACA
1 AAGCCATCAGTAGCAG-TAATATGATCGGCACA
* *
25163571 AAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
* *
25163603 CAGCCATCAATAGCA
1 AAGCCATCAGTAGCA
25163618 TCGTAGTAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
31 12 0.13
32 77 0.86
33 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGGCACA
Found at i:25163577 original size:64 final size:64
Alignment explanation
Indices: 25163492--25163611 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
25163482 TAAGTACAGT
* * * *
25163492 AATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCATACAGCCATCAGTAACGAC
1 AATATGATCGACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAGTAACGAC
25163556 AATATGATCGACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCA
1 AATATGATCGACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCA
25163612 ATAGCATCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (64 bp):
AATATGATCGACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAGTAACGAC
Found at i:25163687 original size:27 final size:25
Alignment explanation
Indices: 25163652--25163722 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 25
25163642 TATCGCAGCA
*
25163652 AAGCTACCAGTAACAGTATATGTGACC
1 AAGCCACCAGTAACAGTAT-TGTG-CC
* *
25163679 AAGCCACCAGGAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGT-ATTGTGCC
25163705 AGAGCCACCAGT-ACAGTA
1 A-AGCCACCAGTAACAGTA
25163723 CTTCCTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
26 7 0.18
27 28 0.74
28 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (25 bp):
AAGCCACCAGTAACAGTATTGTGCC
Found at i:25163819 original size:24 final size:24
Alignment explanation
Indices: 25163792--25163843 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
25163782 TCAAAATCAG
25163792 TCATACAAATCACAGACAAACCAA
1 TCATACAAATCACAGACAAACCAA
** * *
25163816 TCATTTACATCACGGACAAACCAA
1 TCATACAAATCACAGACAAACCAA
25163840 TCAT
1 TCAT
25163844 TTACACTCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.29, G:0.06, T:0.19
Consensus pattern (24 bp):
TCATACAAATCACAGACAAACCAA
Found at i:25163844 original size:24 final size:24
Alignment explanation
Indices: 25163800--25163848 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
25163790 AGTCATACAA
25163800 ATCACAGACAAACCAATCATTTAC
1 ATCACAGACAAACCAATCATTTAC
*
25163824 ATCACGGACAAACCAATCATTTAC
1 ATCACAGACAAACCAATCATTTAC
25163848 A
1 A
25163849 CTCGAGGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.20
Consensus pattern (24 bp):
ATCACAGACAAACCAATCATTTAC
Found at i:25163951 original size:27 final size:26
Alignment explanation
Indices: 25163921--25164143 Score: 153
Period size: 27 Copynumber: 8.2 Consensus size: 26
25163911 TATTTCAATC
25163921 TTTTAACCCTAT-GGGGCATTATGATCA
1 TTTT-ACCCTATAGGGGCATTA-GATCA
*
25163948 TTTTACACTATAGGGGCATTACGATCA
1 TTTTACCCTATAGGGGCATTA-GATCA
* * * *
25163975 TTTTACCTTACAAGGGCATTACAGTCA
1 TTTTACCCTATAGGGGCATTAGA-TCA
* **
25164002 TTTTACCCTATAGGGGCATTACAGTTG
1 TTTTACCCTATAGGGGCATTAGA-TCA
*** * * *
25164029 TTTTATTGTACAGGGGCATTACGGTTA
1 TTTTACCCTATAGGGGCATTA-GATCA
*
25164056 TTTTACCCT-TAGAAGGGCATTATGGTCA
1 TTTTACCCTATAG--GGGCATTA-GATCA
* *
25164084 TTTTACCCTACAAGGGCATTACGATCA
1 TTTTACCCTATAGGGGCATTA-GATCA
* * *
25164111 TATTACCCTATAGGAGCATTACGGTCA
1 TTTTACCCTATAGGGGCATTA-GATCA
25164138 TTTTAC
1 TTTTAC
25164144 GGCCCAAGCC
Statistics
Matches: 155, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 9 0.06
27 124 0.80
28 21 0.14
29 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
TTTTACCCTATAGGGGCATTAGATCA
Found at i:25163994 original size:54 final size:54
Alignment explanation
Indices: 25163934--25164143 Score: 221
Period size: 54 Copynumber: 3.9 Consensus size: 54
25163924 TAACCCTATG
* *
25163934 GGGCATTATGATCATTTTACACTATAGGGGCATTACGATCATTTTACCTTACAA
1 GGGCATTACGATCATTTTACCCTATAGGGGCATTACGATCATTTTACCTTACAA
** * *
25163988 GGGCATTAC-AGTCATTTTACCCTATAGGGGCATTAC-AGTTGTTTTA-TTGTACAG
1 GGGCATTACGA-TCATTTTACCCTATAGGGGCATTACGA-TCATTTTACCT-TACAA
* * * * *
25164042 GGGCATTACGGTTATTTTACCCT-TAGAAGGGCATTATGGTCATTTTACCCTACAA
1 GGGCATTACGATCATTTTACCCTATAG--GGGCATTACGATCATTTTACCTTACAA
* * *
25164097 GGGCATTACGATCATATTACCCTATAGGAGCATTACGGTCATTTTAC
1 GGGCATTACGATCATTTTACCCTATAGGGGCATTACGATCATTTTAC
25164144 GGCCCAAGCC
Statistics
Matches: 127, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
53 6 0.05
54 80 0.63
55 38 0.30
56 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (54 bp):
GGGCATTACGATCATTTTACCCTATAGGGGCATTACGATCATTTTACCTTACAA
Found at i:25164130 original size:82 final size:82
Alignment explanation
Indices: 25163882--25164143 Score: 246
Period size: 82 Copynumber: 3.2 Consensus size: 82
25163872 ACCCTCTAGA
* * * * * * ** *
25163882 GGCATTACGGTTA-TTTAACCTTACAGGGGTATTTCAATC-TTTTAACCCTA-TGGGGCATTATG
1 GGCATTACGGTCATTTTACCCTTACAAGGGCATTACAGTCATTTT-ACCCTACAAGGGCATTACG
25163944 ATCATTTTACACTATAGG
65 ATCATTTTACACTATAGG
* * *
25163962 GGCATTACGATCATTTTA-CCTTACAAGGGCATTACAGTCATTTTACCCTATAGGGGCATTAC-A
1 GGCATTACGGTCATTTTACCCTTACAAGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGA
** *** *
25164025 GTTGTTTTATTGTACAGG
66 -TCATTTTACACTATAGG
* * **
25164043 GGCATTACGGTTATTTTACCCTTAGAAGGGCATTATGGTCATTTTACCCTACAAGGGCATTACGA
1 GGCATTACGGTCATTTTACCCTTACAAGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGA
* *
25164108 TCATATTACCCTATAGG
66 TCATTTTACACTATAGG
*
25164125 AGCATTACGGTCATTTTAC
1 GGCATTACGGTCATTTTAC
25164144 GGCCCAAGCC
Statistics
Matches: 146, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
80 35 0.24
81 44 0.30
82 66 0.45
83 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (82 bp):
GGCATTACGGTCATTTTACCCTTACAAGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGA
TCATTTTACACTATAGG
Found at i:25166021 original size:15 final size:15
Alignment explanation
Indices: 25166001--25166038 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25165991 GGAATGAATG
25166001 GTCTTTGATTGTGGT
1 GTCTTTGATTGTGGT
*
25166016 GTCTTTGGTTGTGGT
1 GTCTTTGATTGTGGT
*
25166031 GCCTTTGA
1 GTCTTTGA
25166039 ATGGCATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.11, G:0.34, T:0.50
Consensus pattern (15 bp):
GTCTTTGATTGTGGT
Found at i:25179365 original size:15 final size:15
Alignment explanation
Indices: 25179340--25179374 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25179330 AAGGCCAAGG
25179340 AAGAAAATACTGAGA
1 AAGAAAATACTGAGA
* *
25179355 CAGAAACTACTGAGA
1 AAGAAAATACTGAGA
25179370 AAGAA
1 AAGAA
25179375 TCTGTTGAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.20, T:0.11
Consensus pattern (15 bp):
AAGAAAATACTGAGA
Found at i:25181941 original size:12 final size:12
Alignment explanation
Indices: 25181924--25181948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25181914 CTGTAGGTTT
25181924 ACACGGCCTAGC
1 ACACGGCCTAGC
25181936 ACACGGCCTAGC
1 ACACGGCCTAGC
25181948 A
1 A
25181949 AGTAATCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.40, G:0.24, T:0.08
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:25182020 original size:37 final size:37
Alignment explanation
Indices: 25181943--25182022 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
25181933 AGCACACGGC
* *
25181943 CTAGCAAGTAATCCCATTCTGGCGATGGATAGACTAT
1 CTAGCAAGTAATCCCATTCTGGCGATGAATACACTAT
*
25181980 CTAGCAAGTAA-CCCTATTTTGGCGATGAATACAC-AGT
1 CTAGCAAGTAATCCC-ATTCTGGCGATGAATACACTA-T
25182017 CTAGCA
1 CTAGCA
25182023 CACGGGCATG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 4 0.11
37 34 0.89
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (37 bp):
CTAGCAAGTAATCCCATTCTGGCGATGAATACACTAT
Found at i:25183337 original size:13 final size:13
Alignment explanation
Indices: 25183319--25183343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25183309 GCGATTATAT
25183319 ATTTATTTAATGA
1 ATTTATTTAATGA
25183332 ATTTATTTAATG
1 ATTTATTTAATG
25183344 TTAAATCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTATTTAATGA
Found at i:25183628 original size:50 final size:50
Alignment explanation
Indices: 25183445--25183684 Score: 216
Period size: 49 Copynumber: 4.7 Consensus size: 50
25183435 GTAAAGAGAC
* * *
25183445 CCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TATGAGAGCT
* * * * *
25183501 CCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGATGAGGGTT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGCT
* * *
25183551 CCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGCT
* * * * * * *
25183600 CCCATGTAATACCATATCTGGGATATGGCATTGGCA--GTACAAGAAACCT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATGAGAGCT
* *
25183649 CCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25183685 TGTTATTATC
Statistics
Matches: 153, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 79 0.52
50 37 0.24
51 2 0.01
55 1 0.01
56 33 0.22
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGCT
Found at i:25183628 original size:99 final size:102
Alignment explanation
Indices: 25183450--25183635 Score: 234
Period size: 99 Copynumber: 1.8 Consensus size: 102
25183440 GAGACCCCAT
* **
25183450 GTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTATGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCA
* *
25183515 TGTCTGAGACATGGCGTTGGCACCGAGATGAGGGTTCCCC
63 TATCTGAGACATGGCATTGGCACCGAGATGAGGGTTCCCC
* * *
25183555 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAATACCATAT
1 GTAAGACCATGTATGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
* *
25183617 CTGGGATATGGCATTGGCA
66 CTGAGACATGGCATTGGCA
25183636 GTACAAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
99 39 0.55
100 2 0.03
104 1 0.01
105 29 0.41
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (102 bp):
GTAAGACCATGTATGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
CTGAGACATGGCATTGGCACCGAGATGAGGGTTCCCC
Done.