Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 144 of 343
Found at i:47790767 original size:27 final size:27
Alignment explanation
Indices: 47790737--47790793 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
47790727 ATCGTCATTC
*
47790737 TACCATACAGGGGTATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
*
47790764 TACCCTACAGGGGCATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
47790791 TAC
1 TAC
47790794 AAACTGGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (27 bp):
TACCATACAGGGGCATTACGGTAATTT
Found at i:47792670 original size:60 final size:60
Alignment explanation
Indices: 47792558--47792673 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
47792548 ACAATTTCAC
* * * *
47792558 TTGGGTCTCAGCCCTTATCAGAATCAATTGGGCCTAGCCAATTTTCAAAATCAGTAATAG
1 TTGGGTCTCAGCCCTTAACAGAATCAAGTGGGCCTAGCCAATGTACAAAATCAGTAATAG
* * *
47792618 TTGGGTCT-AGCCCATTAACAGAATCAGGTGGGCCTAAGCCCA-GTACAGAATCAGTA
1 TTGGGTCTCAGCCC-TTAACAGAATCAAGTGGGCCT-AGCCAATGTACAAAATCAGTA
47792674 TCAGATGTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 5 0.11
60 37 0.79
61 5 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (60 bp):
TTGGGTCTCAGCCCTTAACAGAATCAAGTGGGCCTAGCCAATGTACAAAATCAGTAATAG
Found at i:47792818 original size:22 final size:22
Alignment explanation
Indices: 47792793--47792845 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
47792783 CTAAGTCAAT
* *
47792793 AGGACGGCTCAATGTCATAGAC
1 AGGACGGCTCAACGCCATAGAC
*
47792815 AGGACGGCTCAACGCCGTAGAC
1 AGGACGGCTCAACGCCATAGAC
*
47792837 AGGATGGCT
1 AGGACGGCT
47792846 AAAGGCTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.32, T:0.15
Consensus pattern (22 bp):
AGGACGGCTCAACGCCATAGAC
Found at i:47793125 original size:27 final size:27
Alignment explanation
Indices: 47793095--47793151 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
47793085 ATCGTCATTC
*
47793095 TACCATACAGGGGTATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
*
47793122 TACCCTACAGGGGCATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
47793149 TAC
1 TAC
47793152 AAACTGGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (27 bp):
TACCATACAGGGGCATTACGGTAATTT
Found at i:47796003 original size:22 final size:22
Alignment explanation
Indices: 47795978--47796030 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
47795968 CTAAGTCAAT
* *
47795978 AGGACGGCTCAATGTCATAGAC
1 AGGACGGCTCAACGCCATAGAC
*
47796000 AGGACGGCTCAACGCCGTAGAC
1 AGGACGGCTCAACGCCATAGAC
*
47796022 AGGATGGCT
1 AGGACGGCT
47796031 AAAGGCTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.32, T:0.15
Consensus pattern (22 bp):
AGGACGGCTCAACGCCATAGAC
Found at i:47796305 original size:26 final size:27
Alignment explanation
Indices: 47796276--47796331 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
47796266 ATCGTCATTC
*
47796276 TACCATACAGGGGTATTACGGT-ATTT
1 TACCATACAGGGGCATTACGGTAATTT
*
47796302 TACCCTACAGGGGCATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
47796329 TAC
1 TAC
47796332 AAACTGGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (27 bp):
TACCATACAGGGGCATTACGGTAATTT
Found at i:47796340 original size:26 final size:26
Alignment explanation
Indices: 47796276--47796340 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
47796266 ATCGTCATTC
* *
47796276 TACCATACAGGGGTATTACGGTATTT
1 TACCAAACAGGGGCATTACGGTATTT
**
47796302 TACCCTACAGGGGCATTACGGTAATTT
1 TACCAAACAGGGGCATTACGGT-ATTT
*
47796329 TA-CAAACTGGGG
1 TACCAAACAGGGG
47796341 TCTTAACGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (26 bp):
TACCAAACAGGGGCATTACGGTATTT
Found at i:47798201 original size:60 final size:60
Alignment explanation
Indices: 47798089--47798204 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
47798079 ACAATTTCAC
* * * *
47798089 TTGGGTCTCAGCCCTTATCAGAATCAATTGGGCCTAGCCAATTTTCAAAATCAGTAATAG
1 TTGGGTCTCAGCCCTTAACAGAATCAAGTGGGCCTAGCCAATGTACAAAATCAGTAATAG
* * *
47798149 TTGGGTCT-AGCCCATTAACAGAATCAGGTGGGCCTAAGCCCA-GTACAGAATCAGTA
1 TTGGGTCTCAGCCC-TTAACAGAATCAAGTGGGCCT-AGCCAATGTACAAAATCAGTA
47798205 TCAGATGTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 5 0.11
60 37 0.79
61 5 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (60 bp):
TTGGGTCTCAGCCCTTAACAGAATCAAGTGGGCCTAGCCAATGTACAAAATCAGTAATAG
Found at i:47798347 original size:22 final size:22
Alignment explanation
Indices: 47798322--47798374 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
47798312 CTAAGTCAAT
* *
47798322 AGGACGGCTCAATGTCATAGAC
1 AGGACGGCTCAACGCCATAGAC
*
47798344 AGGACGGCTCAACGCCGTAGAC
1 AGGACGGCTCAACGCCATAGAC
*
47798366 AGGATGGCT
1 AGGACGGCT
47798375 AAAGGCTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.32, T:0.15
Consensus pattern (22 bp):
AGGACGGCTCAACGCCATAGAC
Found at i:47798653 original size:27 final size:27
Alignment explanation
Indices: 47798623--47798679 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
47798613 ATCGTCATTC
*
47798623 TACCATACAGGGGTATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
*
47798650 TACCCTACAGGGGCATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
47798677 TAC
1 TAC
47798680 AAACTGGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (27 bp):
TACCATACAGGGGCATTACGGTAATTT
Found at i:47801093 original size:18 final size:18
Alignment explanation
Indices: 47801067--47801101 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47801057 TCGTAATGTT
*
47801067 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
47801085 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
47801102 CTTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:47801810 original size:27 final size:27
Alignment explanation
Indices: 47801748--47801812 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
47801738 CGGCATATTC
47801748 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
47801775 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
47801802 GTCTTTTTACC
1 GTCATTTTACC
47801813 TATTTGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:47801896 original size:27 final size:27
Alignment explanation
Indices: 47801866--47802095 Score: 175
Period size: 27 Copynumber: 8.4 Consensus size: 27
47801856 GTAAATCTAC
*
47801866 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
*
47801893 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTT-TAGTAATTTTGT
*
47801919 AGAAAGTCAAGGGTA-TTTATGTAATTTTGT
1 --AAACT-AAGGGTATTTTA-GTAATTTTGT
* * *
47801949 AAA-TCAGGGGTATTTTGGTAATTTTACT
1 AAACT-AAGGGTATTTTAGTAATTTT-GT
* ** * *
47801977 -AATTAAGGGTATTTCGGTAATTTCGC
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * **
47802003 AAAC-CAGTGGTATTTTGGTAATTTTAC
1 AAACTAAG-GGTATTTTAGTAATTTTGT
* *
47802030 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
*
47802057 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
*
47802084 AAACTGAGGGTA
1 AAACTAAGGGTA
47802096 AAACGATAAT
Statistics
Matches: 164, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.02
27 131 0.80
28 16 0.10
29 13 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTGT
Found at i:47802015 original size:54 final size:54
Alignment explanation
Indices: 47801851--47802095 Score: 242
Period size: 54 Copynumber: 4.5 Consensus size: 54
47801841 TACAAGGGTG
* * * * *
47801851 TTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACTAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
* * * ** * *
47801905 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTATGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
* * * *
47801961 TTTTGGTAATTTTACTAATTAAGGGTATTTCGGTAATTTCGCAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
* *
47802015 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG-GGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC-AGTGGTA
* ** *
47802069 TTTTAGTAATTTTGTAAACTGAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
47802096 AAACGATAAT
Statistics
Matches: 154, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
54 101 0.66
55 19 0.12
56 34 0.22
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
Found at i:47802066 original size:81 final size:80
Alignment explanation
Indices: 47801843--47802080 Score: 216
Period size: 81 Copynumber: 2.9 Consensus size: 80
47801833 TTTCATCCTA
* * * * ** *
47801843 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTT
47801908 CTA-TAATTTTTAGAAAG
66 C-AGTAA--TTTAGAAAG
** * *
47801925 TCAAGGGTATTTAT-GTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACT-AATTAAGGGT
1 -CAAGGGTATTT-TGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTT-GTAAACTAAGGGT
* *
47801987 ATTTCGGTAATTTCGCAAA-
62 ATTTCAGTAATTTAG-AAAG
* *
47802006 CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 CAAG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATT
*
47802071 TTAGTAATTT
65 TCAGTAATTT
47802081 TGTAAACTGA
Statistics
Matches: 125, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
80 5 0.04
81 61 0.49
82 5 0.04
83 52 0.42
84 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTT
CAGTAATTTAGAAAG
Found at i:47802105 original size:27 final size:27
Alignment explanation
Indices: 47802074--47802230 Score: 226
Period size: 27 Copynumber: 5.8 Consensus size: 27
47802064 GGGTATTTTA
*
47802074 GTAATTTTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
47802101 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
47802128 GTATTTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
47802155 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
47802182 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
47802209 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
47802231 CTTTGGTAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 115 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:47802139 original size:81 final size:81
Alignment explanation
Indices: 47802050--47802249 Score: 242
Period size: 81 Copynumber: 2.5 Consensus size: 81
47802040 TATTTTGGTA
* * * * * *
47802050 ATTT-TGTAAACCAAGGGTATTTTAGTAATTTTGTAAA-CTGAGGGTAAAACGATAATTCTGTAA
1 ATTTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATC-AAGGGTAAAACGATAATTCTGTAA
47802113 ATCGAGGGTAAAACGGT
65 ATCGAGGGTAAAACGGT
* ** * * *
47802130 ATTTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTGTAAA
1 ATTTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTAAAACGATAATTCTGTAAA
47802195 TCGAGGGTAAAACGGT
66 TCGAGGGTAAAACGGT
* * *
47802211 AATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAAT
1 ATTTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAAT
47802250 TGAGGACATT
Statistics
Matches: 99, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 4 0.04
81 94 0.95
82 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (81 bp):
ATTTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTAAAACGATAATTCTGTAAA
TCGAGGGTAAAACGGT
Found at i:47802241 original size:54 final size:54
Alignment explanation
Indices: 47802046--47802230 Score: 219
Period size: 54 Copynumber: 3.4 Consensus size: 54
47802036 GGGGTATTTT
* * *** * *
47802046 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAA-CTGAGGGTAAAAC
1 GGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATC-GAGGGTAAAAC
* * * * * *
47802100 GATAATTCTGTAAATCGAGGGTAAAACGGTATTTCTGTAAATTGAGGGTAAAAT
1 GGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
*
47802154 GGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
*
47802208 GGTAATTCTGTAAATCGAGGGTA
1 GGTAATTCTGTAAATCAAGGGTA
47802231 CTTTGGTAAT
Statistics
Matches: 108, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (54 bp):
GGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:47809141 original size:40 final size:40
Alignment explanation
Indices: 47809115--47809296 Score: 303
Period size: 40 Copynumber: 4.5 Consensus size: 40
47809105 ATGGTCGTTA
47809115 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTC
*
47809155 GCACAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
47809195 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
* * *
47809235 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
*
47809275 GCACAAATGTCTTCGGGACTTA
1 GCACAAATGCCTTCGGGACTTA
47809297 ACCCTGTTAG
Statistics
Matches: 135, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 133 0.99
41 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
Found at i:47814559 original size:47 final size:47
Alignment explanation
Indices: 47814482--47815124 Score: 1106
Period size: 47 Copynumber: 13.6 Consensus size: 47
47814472 CCTTCGGGAT
* * * * * *
47814482 TTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
47814529 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
47814576 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47814623 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
47814670 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47814719 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47814766 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
47814813 TTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47814860 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47814907 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
47814954 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCT
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47815003 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47815050 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
47815099 TTATCACGTATATACACTTTCACATT
1 TTATCACATATATACACTTTCACATT
47815125 TATTCAAATA
Statistics
Matches: 569, Mismatches: 21, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
47 431 0.76
49 138 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:47814897 original size:237 final size:235
Alignment explanation
Indices: 47814482--47815124 Score: 1115
Period size: 237 Copynumber: 2.7 Consensus size: 235
47814472 CCTTCGGGAT
* * * * * * *
47814482 TTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACT
47814547 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
47814612 GCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47814677 ATATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
196 --ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
47814719 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACT
47814784 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
47814849 GCGATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
47814914 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
196 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
47814954 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCTTTATCACATATATACA
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACA
47815019 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
64 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
*
47815084 ATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATT
127 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
47815125 TATTCAAATA
Statistics
Matches: 388, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
235 46 0.12
237 278 0.72
239 64 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (235 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:47817392 original size:85 final size:85
Alignment explanation
Indices: 47817263--47817441 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
47817253 TATTTTATTG
* *
47817263 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGCTTT
47817328 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
47817348 CTCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGCTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGCTTT
47817413 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47817433 CCCATGCTC
1 CCCATGCTC
47817442 ATGGCCGGCC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGCTTT
TAGCCATAACATCTTGTCCA
Found at i:47819029 original size:47 final size:47
Alignment explanation
Indices: 47818978--47819222 Score: 418
Period size: 47 Copynumber: 5.2 Consensus size: 47
47818968 CACTTCCACG
**
47818978 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
47819025 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
47819072 TTTATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
47819119 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
47819166 TTCATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
47819213 TTCATCACAT
1 TTCATCACAT
47819223 AGAATCCTAA
Statistics
Matches: 186, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 186 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:47819056 original size:22 final size:22
Alignment explanation
Indices: 47819028--47819150 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
47819018 GTTCACATTC
47819028 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
47819050 ATCACATATTTG-CATGTTC-ACATTT
1 ATCAC--ATTGGCCA--TTCGGC-CTT
47819075 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
47819097 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
47819121 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
47819144 ATCACAT
1 ATCACAT
47819151 ATTTGCATGT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 23 0.31
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47819126 original size:25 final size:24
Alignment explanation
Indices: 47819097--47819221 Score: 63
Period size: 23 Copynumber: 5.2 Consensus size: 24
47819087 ATTCGGCCTT
47819097 ATCACACATATGCATGTTCACATTC
1 ATCACACAT-TGCATGTTCACATTC
* *
47819122 AT--CACATTGGCCA--TTCGGCCTT-
1 ATCACACATT-G-CATGTTC-ACATTC
*
47819144 ATCACATATTTGCATGTTCACATTC
1 ATCACACA-TTGCATGTTCACATTC
*
47819169 AT--CACATTGGCCA--TTCGACCTT-
1 ATCACACATT-G-CATGTTC-ACATTC
47819191 ATCACACATATGCATGTTCACATTC
1 ATCACACAT-TGCATGTTCACATTC
47819216 ATCACA
1 ATCACA
47819222 TAGAATCCTA
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 13 0.18
23 21 0.28
24 21 0.28
25 19 0.26
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (24 bp):
ATCACACATTGCATGTTCACATTC
Found at i:47823169 original size:24 final size:24
Alignment explanation
Indices: 47823139--47823185 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
47823129 ATGTATTGGC
47823139 AAATGCCAAAATGCCGAAAAGCCA
1 AAATGCCAAAATGCCGAAAAGCCA
* *
47823163 AAATGCCGAAATGCTGAAAAGCC
1 AAATGCCAAAATGCCGAAAAGCC
47823186 GAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (24 bp):
AAATGCCAAAATGCCGAAAAGCCA
Found at i:47823181 original size:8 final size:8
Alignment explanation
Indices: 47823139--47823189 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
47823129 ATGTATTGGC
*
47823139 AAATGCCA
1 AAATGCCG
47823147 AAATGCCG
1 AAATGCCG
* *
47823155 AAAAGCCA
1 AAATGCCG
47823163 AAATGCCG
1 AAATGCCG
*
47823171 AAATGCTG
1 AAATGCCG
*
47823179 AAAAGCCG
1 AAATGCCG
47823187 AAA
1 AAA
47823190 GTTTGGCTAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.10
Consensus pattern (8 bp):
AAATGCCG
Found at i:47823455 original size:29 final size:28
Alignment explanation
Indices: 47823400--47823512 Score: 127
Period size: 29 Copynumber: 4.0 Consensus size: 28
47823390 GTGAGCTTGA
* * *
47823400 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
47823428 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
47823457 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
47823486 ATATGAATATGATTGGGCTTAGTGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
47823513 GAGATACATG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 24 0.33
29 49 0.67
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:47829465 original size:27 final size:26
Alignment explanation
Indices: 47829416--47829508 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
47829406 GGCAAATCAA
*
47829416 TCATTTTA-CCTTACAAGGGTATTACAG
1 TCATTTTACCCTT-C-AGGGTATTTCAG
*
47829443 TCATTTTACCCTTCAGGGATATTTTAG
1 TCATTTTACCCTTCAGGG-TATTTCAG
* **
47829470 TCATTCTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCT-TCAGGGTATTTCAG
*
47829497 TCATCTTACCCT
1 TCATTTTACCCT
47829509 ATAAGGCTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
26 4 0.07
27 43 0.78
28 8 0.15
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (26 bp):
TCATTTTACCCTTCAGGGTATTTCAG
Found at i:47829556 original size:27 final size:27
Alignment explanation
Indices: 47829526--47829865 Score: 452
Period size: 27 Copynumber: 12.7 Consensus size: 27
47829516 TGTTTCGGTA
*
47829526 ATTTTATCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
**
47829553 ATTTTATCACATAAGGACAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
** *
47829580 ATTTTATCACATGGGGGCAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * *
47829607 ATTTTATCACATGAGGGCAAAATCGTT
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
47829634 ATTTTATCACATAAGAGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
** * *
47829661 ATTTTATCACATAAGCATAGAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
** *
47829688 ATTTTATCACATAAGGACAACATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
47829715 ATTTTATCACAT-AGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
47829741 ATTTTATCACAT-AGGGTAAAATCGCC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
47829767 ATTTTATCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
47829794 ATTTTATCACATAAGGGCAAAAGT-GTC
1 ATTTTATCACATAAGGGTAAAA-TCGTC
*
47829821 ATTTTATCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
47829848 ATTTTATCACATAAGGGT
1 ATTTTATCACATAAGGGT
47829866 TCAGGTACGC
Statistics
Matches: 280, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
26 49 0.17
27 230 0.82
28 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTTTATCACATAAGGGTAAAATCGTC
Found at i:47839919 original size:20 final size:20
Alignment explanation
Indices: 47839896--47839941 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
47839886 TAAGCTCGGT
*
47839896 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACAAGCTGAAA
* *
47839916 TGAGCTCAAATAAGCTGAAT
1 TGAGCTCAAACAAGCTGAAA
47839936 TGAGCT
1 TGAGCT
47839942 GGACGGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTGAAA
Found at i:47848259 original size:13 final size:13
Alignment explanation
Indices: 47848241--47848267 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47848231 TTCGTCATTT
47848241 TAATGAATTAAAA
1 TAATGAATTAAAA
47848254 TAATGAATTAAAA
1 TAATGAATTAAAA
47848267 T
1 T
47848268 GGGAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
TAATGAATTAAAA
Found at i:47848423 original size:12 final size:12
Alignment explanation
Indices: 47848401--47848429 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47848391 ATGCTCTATG
47848401 TATTT-TACCCA
1 TATTTCTACCCA
47848412 TATTTCTACCCA
1 TATTTCTACCCA
47848424 TATTTC
1 TATTTC
47848430 ATGCTAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
TATTTCTACCCA
Found at i:47852213 original size:27 final size:27
Alignment explanation
Indices: 47852164--47852278 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
47852154 GGCAAATCAA
* *
47852164 TCATTTTACCTTA-CAAGGGTATTACAG
1 TCATTTTACCCTATC-AGGGTATTTCAG
*
47852191 TCATTTTACCCT-TCAGGGATATTTTAG
1 TCATTTTACCCTATCAGGG-TATTTCAG
* **
47852218 TCATTCTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATCAGGGTATTTCAG
* *
47852245 TCATCTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATCAGGGTATTTCAG
*
47852272 TAATTTT
1 TCATTTT
47852279 GTCACATAAG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.05
27 65 0.89
28 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATCAGGGTATTTCAG
Found at i:47852304 original size:27 final size:27
Alignment explanation
Indices: 47852274--47852641 Score: 495
Period size: 27 Copynumber: 13.7 Consensus size: 27
47852264 TATTTCAGTA
* *
47852274 ATTTTGTCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
47852301 ATTTTATCACATAATGGAAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * * *
47852328 ATTTTATCACATGAGGGCAGAATCGTT
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
47852355 ATTTTATCACATAAGAGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * *
47852382 ATTTTATCACATAAGCGTAGAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
47852409 ATTTTATCACATAAGGGCAACATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
47852436 ATTTTATCACAT-AGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
**
47852462 ATTTTATCACATAAGGGTAAAATCACC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
47852489 ATTTTATCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
47852516 ATTTTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * *
47852543 ATTTTATCACATAAGGGAAAAAGCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * *
47852570 ATTTTAGCACATAAGGGCAAAAGCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
47852597 ATTTTGTCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
47852624 ATTTTATCACATAAGGGT
1 ATTTTATCACATAAGGGT
47852642 TCACGTACGC
Statistics
Matches: 300, Mismatches: 40, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
26 24 0.08
27 276 0.92
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (27 bp):
ATTTTATCACATAAGGGTAAAATCGTC
Found at i:47865042 original size:44 final size:44
Alignment explanation
Indices: 47864992--47865150 Score: 164
Period size: 44 Copynumber: 3.6 Consensus size: 44
47864982 TATGTGTTAT
* *
47864992 CGTGTAATACCACGTCTGGGACATTGGCATCGACTTCTGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTCTTA
* * * *
47865036 CGTGTAAGACCATGTCTGGGACATTGG--T-GTCTT-TAATCGATA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCT-GTC-TTA
* *
47865078 TCGTGTAAGACCACGTCTGGGACGTTGTCATCGACTTCTGTCTTA
1 -CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTCTTA
* * *
47865123 CGTGTAAGACCATGTTTAGGACATTGGC
1 CGTGTAAGACCACGTCTGGGACATTGGC
47865151 GTCGTTAATC
Statistics
Matches: 91, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
41 5 0.05
42 3 0.03
43 24 0.26
44 48 0.53
45 3 0.03
46 6 0.07
47 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTCTTA
Found at i:47865091 original size:87 final size:87
Alignment explanation
Indices: 47864989--47865176 Score: 295
Period size: 87 Copynumber: 2.2 Consensus size: 87
47864979 CTATATGTGT
* * *
47864989 TATCGTGTAATACCACGTCTGGGACATTGGCATCGACTTCTGTTTTACGTGTAAGACCATGTCTG
1 TATCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTCTTACGTGTAAGACCATGTCTA
* *
47865054 GGACATTGGTGTCTTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
* * *
47865076 TATCGTGTAAGACCACGTCTGGGACGTTGTCATCGACTTCTGTCTTACGTGTAAGACCATGTTTA
1 TATCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTCTTACGTGTAAGACCATGTCTA
47865141 GGACATTGGCGTCGTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
*
47865163 TTTCGTGTAAGACC
1 TATCGTGTAAGACC
47865177 CTATTTGGGA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (87 bp):
TATCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTCTTACGTGTAAGACCATGTCTA
GGACATTGGCGTCGTTAATCGA
Found at i:47865186 original size:87 final size:87
Alignment explanation
Indices: 47864989--47865198 Score: 278
Period size: 87 Copynumber: 2.4 Consensus size: 87
47864979 CTATATGTGT
* * * *
47864989 TATCGTGTAATACCACGTCTGGGACATTGGCATCGACTTCTGTTTTACGTGTAAGACCATGTCTG
1 TATCGTGTAAGACCACATCTGGGACATTGGCATCGACTTCTGTCTTACGTGTAAGACCATGTCTA
* *
47865054 GGACATTGGTGTCTTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
* * * *
47865076 TATCGTGTAAGACCACGTCTGGGACGTTGTCATCGACTTCTGTCTTACGTGTAAGACCATGTTTA
1 TATCGTGTAAGACCACATCTGGGACATTGGCATCGACTTCTGTCTTACGTGTAAGACCATGTCTA
47865141 GGACATTGGCGTCGTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
* * * *
47865163 TTTCGTGTAAGACC-CTATTTGGGATAGTGGCATCGA
1 TATCGTGTAAGACCAC-ATCTGGGACATTGGCATCGA
47865199 TGTTTGATTA
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 106 0.99
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (87 bp):
TATCGTGTAAGACCACATCTGGGACATTGGCATCGACTTCTGTCTTACGTGTAAGACCATGTCTA
GGACATTGGCGTCGTTAATCGA
Found at i:47866258 original size:12 final size:12
Alignment explanation
Indices: 47866241--47866272 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
47866231 TGGTCGTGTG
47866241 TGGCACACGGGC
1 TGGCACACGGGC
47866253 TGGCACACGGGC
1 TGGCACACGGGC
47866265 TGGCACAC
1 TGGCACAC
47866273 AGGCGTGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.34, G:0.38, T:0.09
Consensus pattern (12 bp):
TGGCACACGGGC
Found at i:47876943 original size:46 final size:46
Alignment explanation
Indices: 47876893--47877064 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
47876883 TGAGCATCCA
47876893 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCG
* *
47876939 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G--TCCG
* *
47876986 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCC-G
* *
47877032 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47877065 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 5 0.05
46 57 0.53
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCG
Found at i:47877045 original size:93 final size:93
Alignment explanation
Indices: 47876886--47877057 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
47876876 GGATGGTTGA
* *
47876886 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
47876951 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
47876979 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
47877043 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
47877058 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47889147 original size:27 final size:27
Alignment explanation
Indices: 47889116--47889210 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 27
47889106 TTAGTTTACC
* *
47889116 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTCAAATACCTTCGATTTGTA
* *
47889143 AAATTAC-CAAAGTACCTCCGATTTATA
1 AAATTACTCAAA-TACCTTCGATTTGTA
*
47889170 AAATTACCCAAATATCC-TCGATTTGTA
1 AAATTACTCAAATA-CCTTCGATTTGTA
* *
47889197 AAATCACTGAAATA
1 AAATTACTCAAATA
47889211 AGATAGAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.05
27 47 0.84
28 6 0.11
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTCAAATACCTTCGATTTGTA
Found at i:47889435 original size:27 final size:27
Alignment explanation
Indices: 47889213--47889427 Score: 299
Period size: 27 Copynumber: 8.0 Consensus size: 27
47889203 CTGAAATAAG
47889213 ATAGAATTACCATTTTACCCTCGA--T
1 ATAGAATTACCATTTTACCCTCGATTT
* * **
47889238 ACAAAATTACTGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* * *
47889265 ACAGAATTACCGTTTTACCCTAGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
47889292 GTAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
47889319 ATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
47889346 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* *
47889373 ATAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* *
47889400 ATAGAATTACTATTTTATCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
47889427 A
1 A
47889428 CAAAATTATT
Statistics
Matches: 168, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
25 20 0.12
27 148 0.88
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
ATAGAATTACCATTTTACCCTCGATTT
Found at i:47889462 original size:81 final size:81
Alignment explanation
Indices: 47889225--47889462 Score: 205
Period size: 81 Copynumber: 3.0 Consensus size: 81
47889215 AGAATTACCA
* * ** * * **
47889225 TTTTACCCTCGA--TACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTAG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATAATACCCTAG
** * * *
47889288 ATTTGTAGAATTACCA
66 ATTTACAAAATTATCG
* * * ** *
47889304 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATAATACCCTAG
* *
47889369 ATTTATAGAATTATCG
66 ATTTACAAAATTATCG
* * **
47889385 TTTTACCCTCGATTTATAGAATTACTATTTTATCCTCGATTTACAAAATTATTGA-AATACCCTT
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTA-CCATAATACCC-T
47889449 AG-TTTACAAAATTA
64 AGATTTACAAAATTA
47889463 CCAAAATACC
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
79 12 0.09
81 119 0.89
82 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (81 bp):
TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATAATACCCTAG
ATTTACAAAATTATCG
Found at i:47889469 original size:27 final size:26
Alignment explanation
Indices: 47889424--47889527 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 26
47889414 TTATCCTCGA
***
47889424 TTTACAAAATTATTGAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCC-TAG
*
47889451 TTTACAAAATTACCAAAATACCCTCG
1 TTTACAAAATTACCAAAATACCCTAG
* * * *
47889477 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-CAAAATTACCAAAATA-CCCTAG
** *
47889505 TTTGTAAAATTACTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
47889528 CTGAATTATA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.11
27 50 0.79
28 6 0.10
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (26 bp):
TTTACAAAATTACCAAAATACCCTAG
Found at i:47889476 original size:54 final size:53
Alignment explanation
Indices: 47889418--47889557 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 53
47889408 ACTATTTTAT
* * *
47889418 CCTCGATTTACAAAATTATTGAAATACCCTTAGTTTACAAAATTACCAAAATAC
1 CCTCGA-TTATAAAATTACTGAAATACCCCTAGTTTACAAAATTACCAAAATAC
* ** * ** *
47889472 CCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATAC
1 CCTCGATTA-TAAAATTACTGAAATACCCCTAGTTTACAAAATTACCAAAATAC
47889526 CC-CTGAATTATAAAATTACTGAAATACCCCTA
1 CCTC-G-ATTATAAAATTACTGAAATACCCCTA
47889558 TTGGGTAGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
53 3 0.04
54 63 0.91
55 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (53 bp):
CCTCGATTATAAAATTACTGAAATACCCCTAGTTTACAAAATTACCAAAATAC
Found at i:47889528 original size:27 final size:27
Alignment explanation
Indices: 47889456--47889556 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
47889446 CTTAGTTTAC
* *
47889456 AAAATTACCAAAATA-CCCTCG-ATCAGT
1 AAAATTACTAAAATACCCCT-GAAT-TGT
* **
47889483 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGAATTGT
*
47889510 AAAATTACTAAAATACCCCTGAATTAT
1 AAAATTACTAAAATACCCCTGAATTGT
*
47889537 AAAATTACTGAAATACCCCT
1 AAAATTACTAAAATACCCCT
47889557 ATTGGGTAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 60 0.92
28 5 0.08
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGAATTGT
Found at i:47889569 original size:27 final size:27
Alignment explanation
Indices: 47889539--47889844 Score: 381
Period size: 27 Copynumber: 11.6 Consensus size: 27
47889529 TGAATTATAA
* * *
47889539 AATTACTGAAATACCCCTATTGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
47889566 AATTATCGCAATA-CCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47889592 AATTACCG-----CCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47889614 AATTACCGGAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47889641 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47889668 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47889695 AATTAACGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47889722 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47889749 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47889776 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
47889803 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47889830 AATTACCGAGATACC
1 AATTACCGAAATACC
47889845 TTGTGAGGTA
Statistics
Matches: 242, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.08
26 17 0.07
27 206 0.85
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47889681 original size:54 final size:54
Alignment explanation
Indices: 47889485--47889844 Score: 365
Period size: 54 Copynumber: 6.8 Consensus size: 54
47889475 CGATCAGTAA
** * ** * *** *
47889485 AATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCCTGAATTATAA
1 AATTACCAAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** * * * * *
47889539 AATTACTGAAATACCCCTATTGGGTAGAATTATCGCAATA-CCCTGTAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
47889592 AATTACC-----GCCCTTGTAGGGTAGAATTACCGGAATACTCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** * *
47889641 AATTACCGGAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* ** *
47889695 AATTAACGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
47889749 AATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
47889803 AATTACTAAAATACCCCTGTAGGGTAGAATTACCGAGATACC
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACC
47889845 TTGTGAGGTA
Statistics
Matches: 256, Mismatches: 43, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
48 22 0.09
49 18 0.07
53 15 0.06
54 201 0.79
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:47890302 original size:31 final size:31
Alignment explanation
Indices: 47890264--47890342 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
47890254 TTGCATTCAC
* *
47890264 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
47890295 ATTCTGATTTTGATTCTGTTACTTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
47890326 ATTCTG-TTTCTGATTCT
1 ATTCTGATTT-TGATTCT
47890343 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 3 0.07
31 41 0.93
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:47892384 original size:27 final size:27
Alignment explanation
Indices: 47892354--47892413 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
47892344 CTTTGACTTG
47892354 TAAAATTA-CCAAAGTACCCCCGATTTA
1 TAAAATTACCCAAA-TACCCCCGATTTA
* * *
47892381 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACCCAAATACCCCCGATTTA
47892408 TAAAAT
1 TAAAAT
47892414 CACTGAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
TAAAATTACCCAAATACCCCCGATTTA
Found at i:47892487 original size:27 final size:27
Alignment explanation
Indices: 47892428--47892675 Score: 329
Period size: 27 Copynumber: 9.3 Consensus size: 27
47892418 GAAATAAGAT
*
47892428 AGAATTACCATTTTACCCTTGA--TAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
47892453 AAAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
47892480 AGAATTACCATTTTACCCTAGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
47892507 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
47892534 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
47892561 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
47892588 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
47892615 AGAATTACCGTTTTACCATTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
** *
47892642 AGAATTACTGTTTTATCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
47892669 AAAATTA
1 AGAATTA
47892676 TTGAAATACC
Statistics
Matches: 200, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
25 19 0.09
27 181 0.90
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:47892750 original size:27 final size:27
Alignment explanation
Indices: 47892696--47892795 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
47892686 CTTAGTTTAA
*
47892696 AAAATTACC-AAATA-CCCTCG-ATCAGT
1 AAAATTACCAAAATACCCCT-GAAT-TGT
**
47892722 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGAATTGT
*
47892749 AAAATTACTAAAATACCCCTGAATTGT
1 AAAATTACCAAAATACCCCTGAATTGT
* *
47892776 AAAATTATCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
47892796 ATAAGGTAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
26 9 0.14
27 49 0.78
28 5 0.08
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGAATTGT
Found at i:47892808 original size:27 final size:27
Alignment explanation
Indices: 47892724--47893034 Score: 349
Period size: 27 Copynumber: 11.6 Consensus size: 27
47892714 CGATCAGTAA
* ** *
47892724 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
** * ** *
47892751 AATTACTAAAATACCCCTGAATTGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
47892778 AATTATCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
47892805 AATTATCGCAAT-TCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47892831 AATTACCGAAATACCGCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47892858 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* * *
47892885 AATTATCGCAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47892912 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
47892939 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47892966 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47892993 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47893020 AATTACCGAGATACC
1 AATTACCGAAATACC
47893035 TTGTGAGGTA
Statistics
Matches: 245, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.09
27 222 0.91
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47893492 original size:6 final size:6
Alignment explanation
Indices: 47893454--47893532 Score: 56
Period size: 6 Copynumber: 12.8 Consensus size: 6
47893444 TTGCATTCAC
* *
47893454 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* *
47893503 -TTACCTG ATACTA ATTCTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCT
47893533 AGTTCTAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
5 5 0.09
6 43 0.75
7 6 0.11
8 2 0.04
9 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:47893492 original size:31 final size:31
Alignment explanation
Indices: 47893454--47893532 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
47893444 TTGCATTCAC
* *
47893454 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
47893485 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
47893516 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
47893533 AGTTCTAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:47908568 original size:39 final size:39
Alignment explanation
Indices: 47908523--47908707 Score: 307
Period size: 39 Copynumber: 4.7 Consensus size: 39
47908513 TGTGTGAGAT
* *
47908523 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
47908562 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
47908601 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
47908640 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
47908679 TTATATCCAGGCTAAGTTCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
47908708 TGGGTTGGAA
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 139 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
Found at i:47910409 original size:21 final size:21
Alignment explanation
Indices: 47910385--47910435 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
47910375 CTGTATGTGG
47910385 ATGACATACTTATCATAGGAA
1 ATGACATACTTATCATAGGAA
*
47910406 ATGACATACTTATCATGGGAA
1 ATGACATACTTATCATAGGAA
47910427 ATGACATAC
1 ATGACATAC
47910436 CTACCTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
ATGACATACTTATCATAGGAA
Found at i:47912699 original size:40 final size:40
Alignment explanation
Indices: 47912647--47912814 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
47912637 CCTTCAGGAT
* *
47912647 TTAG-CCGAATATAGCAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGAC
* *
47912686 TCAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGAC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGAC
*
47912726 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGAC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGAC
* *
47912766 TTAGCCCAGATATAGTC-ACTAGCACAAATGCCTTCG-GATC
1 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGAGA-C
*
47912806 TTAGTCCGG
1 TTAGCCCGG
47912815 TTATCATCCG
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 5 0.04
40 111 0.96
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGAC
Found at i:47920732 original size:40 final size:40
Alignment explanation
Indices: 47920663--47920827 Score: 244
Period size: 40 Copynumber: 4.2 Consensus size: 40
47920653 AACCCAAGTA
* * *
47920663 CCTTCGGGATTTA-CCCGAATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47920702 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT-G
*
47920743 CGTT-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
47920782 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47920822 CCTTCG
1 CCTTCG
47920828 AATCTTAGTC
Statistics
Matches: 115, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.14
40 95 0.83
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47926098 original size:114 final size:113
Alignment explanation
Indices: 47925926--47926153 Score: 357
Period size: 114 Copynumber: 2.0 Consensus size: 113
47925916 CCAAACAGGG
* ** * **
47925926 TCTTACTCGCACATATATATCAGAATCAATATCGATGCCAATGTTTTAAACGTGGTCTTACTCGT
1 TCTTACTCGCACACATATATCAGAATCAATATCGATGCCAACATATTAAACGCAGTCTTACTCGT
* *
47925991 ACACATATATCAGAATCACATATCGATGCCAACGTATTAGACGCGGTC
66 ACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGCGGTC
*
47926039 TCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACATATTAAACGCAGTCTTACTCG
1 TCTTACTCGCACACATATATCAGAATCA-ATATCGATGCCAACATATTAAACGCAGTCTTACTCG
*
47926104 TACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGTGGTC
65 TACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGCGGTC
47926153 T
1 T
47926154 TACTCATGAT
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
113 26 0.25
114 78 0.75
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (113 bp):
TCTTACTCGCACACATATATCAGAATCAATATCGATGCCAACATATTAAACGCAGTCTTACTCGT
ACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGCGGTC
Found at i:47926125 original size:56 final size:56
Alignment explanation
Indices: 47925924--47926158 Score: 355
Period size: 56 Copynumber: 4.2 Consensus size: 56
47925914 TCCCAAACAG
* * * * *
47925924 GGTCTTACTCGCACATATATATCAGAATCA-ATATCGATGCCAATGTTTTAAACGT
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
*
47925979 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAGACGC
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
*
47926035 GGTCTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACATATTAAACGC
1 GG--TCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
* * *
47926093 AGTCTTACTCGTACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
47926149 GGTCTTACTC
1 GGTCTTACTC
47926159 ATGATCACAA
Statistics
Matches: 164, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
55 28 0.17
56 83 0.51
58 53 0.32
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
Found at i:47929746 original size:34 final size:32
Alignment explanation
Indices: 47929707--47929800 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 32
47929697 TCAAGCCCAT
*
47929707 TGGGCCTAAGCCCTATTCAGATAACAGCAGATAC
1 TGGGCCTAAGCCCTTTTCAGATAACAGCA-A-AC
* * *
47929741 TGGGCCGAAGCTCTTTTCAGA-ATACAGTAAAC
1 TGGGCCTAAGCCCTTTTCAGATA-ACAGCAAAC
*
47929773 TGGGCCTTAGCCCCTTTTCAGATAACAG
1 TGGGCCTAAG-CCCTTTTCAGATAACAG
47929801 TATGGCCCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
32 10 0.20
33 16 0.32
34 24 0.48
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (32 bp):
TGGGCCTAAGCCCTTTTCAGATAACAGCAAAC
Found at i:47930175 original size:27 final size:26
Alignment explanation
Indices: 47930119--47930175 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
47930109 CAACCTTAAC
* *
47930119 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
47930145 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
47930172 CCTA
1 CCTA
47930176 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:47930443 original size:17 final size:17
Alignment explanation
Indices: 47930421--47930453 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47930411 TACTTTTGCC
47930421 TATTTTT-TTATATTATA
1 TATTTTTATTAT-TTATA
47930438 TATTTTTATTATTTAT
1 TATTTTTATTATTTAT
47930454 TAACCCGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTATTATTTATA
Found at i:47931459 original size:15 final size:15
Alignment explanation
Indices: 47931409--47931466 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
47931399 ATAGAGGAAA
*
47931409 AGAAGAAGAGAAAGT
1 AGAAGAAGAGAAAAT
* * *
47931424 AGATGAAGAGAAGAG
1 AGAAGAAGAGAAAAT
* *
47931439 AAAAGAAAAGAAAAT
1 AGAAGAAGAGAAAAT
47931454 AGAAGAAGA-AAAA
1 AGAAGAAGAGAAAA
47931467 AAACTGAATC
Statistics
Matches: 32, Mismatches: 11, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (15 bp):
AGAAGAAGAGAAAAT
Found at i:47932564 original size:19 final size:18
Alignment explanation
Indices: 47932527--47932570 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
47932517 ATACATACAG
47932527 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
47932544 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
47932563 TACTAATT
1 TAATAATT
47932571 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:47935454 original size:56 final size:56
Alignment explanation
Indices: 47935375--47935522 Score: 224
Period size: 56 Copynumber: 2.6 Consensus size: 56
47935365 CATATACTTT
* * **
47935375 CATATCGATGGCAACATTTTAAACGTGGTCTTACTCGTACACATATATCAGAATCA
1 CATATCGATGCCAACGTAGTAAACGTGGTCTTACTCGTACACATATATCAGAATCA
* *
47935431 CATATTGATGCCAACGTAGTAAACGTGATCTTACTCGTACACATATATCAGAATCA
1 CATATCGATGCCAACGTAGTAAACGTGGTCTTACTCGTACACATATATCAGAATCA
* *
47935487 CATATCGATGTCAACGTATTAAACGTGGTCTTACTC
1 CATATCGATGCCAACGTAGTAAACGTGGTCTTACTC
47935523 ATGATCACAA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 82 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (56 bp):
CATATCGATGCCAACGTAGTAAACGTGGTCTTACTCGTACACATATATCAGAATCA
Found at i:47942973 original size:4 final size:4
Alignment explanation
Indices: 47942966--47942996 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
47942956 AATATCAAAA
*
47942966 AAAG AAAG AAAG AAAG AAAG AAAG AGAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
47942997 AACATTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:47943313 original size:11 final size:11
Alignment explanation
Indices: 47943284--47943313 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47943274 TTGATTAATG
*
47943284 AAATATAATAA
1 AAATATATTAA
47943295 AAATATATTAA
1 AAATATATTAA
47943306 AAATATAT
1 AAATATAT
47943314 ATTGAGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATTAA
Found at i:47946056 original size:22 final size:22
Alignment explanation
Indices: 47946031--47946072 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47946021 CTGAATTTAA
47946031 AATTTATCACACAT-ATTAATCC
1 AATTTATCA-ACATCATTAATCC
*
47946053 AATTTATTAACATCATTAAT
1 AATTTATCAACATCATTAAT
47946073 TTTTTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTATCAACATCATTAATCC
Found at i:47953065 original size:37 final size:37
Alignment explanation
Indices: 47953015--47953093 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47953005 TTATTACGAA
* *
47953015 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
47953052 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
47953089 GTCTT
1 GTCTT
47953094 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:47953288 original size:47 final size:47
Alignment explanation
Indices: 47953210--47953557 Score: 572
Period size: 47 Copynumber: 7.4 Consensus size: 47
47953200 CCCTTCGGGA
* * * * * *
47953210 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
47953257 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47953304 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47953351 CTTATTACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47953398 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47953445 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47953492 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47953539 CTTATCACATATATACACT
1 CTTATCACATATATACACT
47953558 GTCTTGGCTG
Statistics
Matches: 284, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 2 0.01
47 282 0.99
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47955614 original size:826 final size:826
Alignment explanation
Indices: 47954024--47957333 Score: 6586
Period size: 826 Copynumber: 4.0 Consensus size: 826
47954014 ATAATGATTT
47954024 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
1 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
47954089 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
66 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
47954154 TCATAATTTATTCAGCCTCCCATTCAACTCC-AAAATTTATGGTGATTTTCTAAATTCATGTTAC
131 TCATAATTTATTCAGCCTCCCATTCAACTCCAAAAATTTATGGTGATTTTCTAAATTCATGTTAC
47954218 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
196 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
47954283 ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
261 ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
47954348 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
326 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
47954413 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
391 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
47954478 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
456 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
47954543 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
521 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
47954608 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
586 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
47954673 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
651 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
47954738 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
716 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
47954803 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
781 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
47954849 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
1 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
47954914 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
66 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
47954979 TCATAATTTATTCAGCCTCCCATTCAACTCCAAAAATTTATGGTGATTTTCTAAATTCATGTTAC
131 TCATAATTTATTCAGCCTCCCATTCAACTCCAAAAATTTATGGTGATTTTCTAAATTCATGTTAC
47955044 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
196 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
47955109 ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
261 ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
47955174 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
326 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
47955239 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
391 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
47955304 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
456 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
47955369 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
521 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
47955434 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
586 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
47955499 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
651 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
47955564 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
716 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
47955629 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
781 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
47955675 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
1 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
47955740 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
66 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
*
47955805 TCATAATTTATTCAGCCTCCCATTCAACTCCAACAATTTATGGTGATTTTCTAAATTCATGTTAC
131 TCATAATTTATTCAGCCTCCCATTCAACTCCAAAAATTTATGGTGATTTTCTAAATTCATGTTAC
47955870 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
196 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
*
47955935 ATATCATATCCATTTGACAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
261 ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
47956000 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
326 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
47956065 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
391 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
47956130 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
456 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
47956195 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
521 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
47956260 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
586 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
47956325 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
651 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
47956390 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
716 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
47956455 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
781 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
47956501 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
1 TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
47956566 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
66 TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
*
47956631 TCATAATTTATTCAGCCTCCCATTCAACTCCAACAATTTATGGTGATTTTCTAAATTCATGTTAC
131 TCATAATTTATTCAGCCTCCCATTCAACTCCAAAAATTTATGGTGATTTTCTAAATTCATGTTAC
47956696 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
196 TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
47956761 ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
261 ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
47956826 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
326 CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
47956891 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
391 AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
47956956 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
456 TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
47957021 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
521 AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
47957086 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
586 TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
47957151 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
651 TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
47957216 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
716 AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
47957281 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
781 CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
47957327 TCTAAAA
1 TCTAAAA
47957334 TCATGCTTAT
Statistics
Matches: 2481, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
825 161 0.06
826 2320 0.94
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (826 bp):
TCTAAAAACGGAACAGAGGATTACAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCA
TTATCGGAAATAAATTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATT
TCATAATTTATTCAGCCTCCCATTCAACTCCAAAAATTTATGGTGATTTTCTAAATTCATGTTAC
TGCTGCTGTCCTGAGCAGGTTTATCACAATTTTACTCTTCTGACATATCCTTTTAGCACTTCATA
ATATCATATCCATTTGGCAACATATCATATCAATAACTTACCTATACTTCATAATAGCCATTAGG
CTATATGCATAAAAATTTACAATAGAGTTATGATTCTTTTAATATGTGCTTAACATATCATACTC
AATCACATTATAGGCTTTAATACTTAAAACTTACCTCGATCGCTAATGTACGTCAATTCCGACTA
TTCGACCAATTTCCCTTTTTCCACGATCCGACTTTGTTTCCATAAGCTCTTGATGCTCAATCAAC
AATTTTTAACTTCAAATTTGCAAACAGCAATGTCATCACTTTACATAACAGAAATTAAATTTCAT
TACTTAAACTATCCACGACAATCACCTTCCGAGCACCTTAATTTTCTTTAAGCTAAACCACCTCA
TAGTATACATATACACATTCGGCTAATTATAAAACAAGTCAGCACTAATAACCGAATCATTGACT
AAAATCACATTCGGTAATATGCTTTTAAATAATTTCAATATTTATTAACATCTAAAACTAATTTG
CTTGGGGTGCCATGAATTATTCAAATCGGCCGAATATCATTGAATC
Found at i:47983492 original size:93 final size:93
Alignment explanation
Indices: 47983384--47983555 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
47983374 GCCCATAAGT
* * * * * * * *
47983384 GAACTCGGACTCAACTCAACGTGTTCGGGCGTTCGCATCCATAAGTGAACTTGGATTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47983449 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
47983477 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
47983542 CGAGTTCGGCTGCC
66 CGAGCTCGGATGCC
47983556 CAAATATCCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:47983535 original size:46 final size:46
Alignment explanation
Indices: 47983376--47983548 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
47983366 TGTAACCCGC
* * * *
47983376 CCATAAGTGAACTCGGACTCAACTCAACGTGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
* * * * *
47983422 CCATAAGTGAACTTGGATTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCAT
* * * *
47983472 -C-TCA-CGAACTCAGACTCAACTAAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
47983515 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
47983549 GGCTGCCCAA
Statistics
Matches: 97, Mismatches: 21, Indels: 18
0.71 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 54 0.56
47 21 0.22
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:47985697 original size:35 final size:35
Alignment explanation
Indices: 47985651--47985723 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
47985641 AGAAATACAG
47985651 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
1 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
47985686 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
1 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
47985721 AGT
1 AGT
47985724 CGGTTATCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (35 bp):
AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
Found at i:47993042 original size:33 final size:33
Alignment explanation
Indices: 47993005--47993074 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
47992995 GAAAGGTAAG
47993005 TATAACAAATCAAAAAGTGTTGGTAAGAATATA
1 TATAACAAATCAAAAAGTGTTGGTAAGAATATA
*
47993038 TATAACAAATCAAAGAGTGTTGGTAAGAATATA
1 TATAACAAATCAAAAAGTGTTGGTAAGAATATA
47993071 TATA
1 TATA
47993075 TGTGTAAGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.29
Consensus pattern (33 bp):
TATAACAAATCAAAAAGTGTTGGTAAGAATATA
Found at i:47999584 original size:19 final size:19
Alignment explanation
Indices: 47999541--47999584 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47999531 ATGAAATCTG
47999541 GGGTTTTAAATGGAAAAAA
1 GGGTTTTAAATGGAAAAAA
** * *
47999560 AAGTTTTAAATGGTAAGAA
1 GGGTTTTAAATGGAAAAAA
47999579 GGGTTT
1 GGGTTT
47999585 CAACAGAAAC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (19 bp):
GGGTTTTAAATGGAAAAAA
Found at i:48002903 original size:42 final size:42
Alignment explanation
Indices: 48002844--48002928 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
48002834 ACGCCCGAAG
48002844 AAAGAAATTTCTGAACTTGACCCAGAGAAATAAGACTGTGGT
1 AAAGAAATTTCTGAACTTGACCCAGAGAAATAAGACTGTGGT
*
48002886 AAAGAAATTTCTGAACTTGACCCAGAGGAATAAGACTGTGGT
1 AAAGAAATTTCTGAACTTGACCCAGAGAAATAAGACTGTGGT
48002928 A
1 A
48002929 GCATATGAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAGAAATTTCTGAACTTGACCCAGAGAAATAAGACTGTGGT
Found at i:48006976 original size:11 final size:11
Alignment explanation
Indices: 48006960--48006989 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
48006950 CTTATTCTCA
48006960 TTGCATATTAT
1 TTGCATATTAT
48006971 TTGCATATTAT
1 TTGCATATTAT
48006982 TTGCATAT
1 TTGCATAT
48006990 GGACTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (11 bp):
TTGCATATTAT
Found at i:48009557 original size:23 final size:25
Alignment explanation
Indices: 48009489--48009558 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
48009479 TCTTCTCTCA
* *
48009489 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATA-ATCAGGAAGCTTACAAAG
*
48009515 AGCCATTAATCGGGAAGCTTACAAAG
1 AGCCA-TAATCAGGAAGCTTACAAAG
48009541 AGCC-T-ATCAGGAAGCTTA
1 AGCCATAATCAGGAAGCTTA
48009559 TCCGGGCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 12 0.31
24 1 0.03
26 24 0.62
27 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
AGCCATAATCAGGAAGCTTACAAAG
Found at i:48010857 original size:25 final size:24
Alignment explanation
Indices: 48010819--48010908 Score: 119
Period size: 24 Copynumber: 3.8 Consensus size: 24
48010809 GGACTCACCA
* *
48010819 CAGCTCGTATGAGCTTATTGATTAT
1 CAGCTCGTAAGAGCTTACTGATT-T
*
48010844 CAGCTCGTAAGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACTGATTT
*
48010868 CAGCTCGTAGGAGCTTACTGA-TT
1 CAGCTCGTAAGAGCTTACTGATTT
*
48010891 CAGCTCGTCAGAGCTTAC
1 CAGCTCGTAAGAGCTTAC
48010909 CATTTTAGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.31
24 20 0.34
25 20 0.34
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTGATTT
Found at i:48010950 original size:24 final size:23
Alignment explanation
Indices: 48010820--48010951 Score: 90
Period size: 23 Copynumber: 5.6 Consensus size: 23
48010810 GACTCACCAC
* * *
48010820 AGCTCGTATGAGCTTATTGATTATC
1 AGCTCGTAAGAGCTTACT-ATT-TT
*
48010845 AGCTCGTAAGAGCTTACTGTTTT
1 AGCTCGTAAGAGCTTACTATTTT
* *
48010868 CAGCTCGTAGGAGCTTACTGA-TTC
1 -AGCTCGTAAGAGCTTACT-ATTTT
* *
48010892 AGCTCGTCAGAGCTTACCATTTT
1 AGCTCGTAAGAGCTTACTATTTT
*
48010915 AGCT--TAATAGAGCTTACTATTCAT
1 AGCTCGT-A-AGAGCTTACTATT-TT
*
48010939 AGCTCGAAAGAGC
1 AGCTCGTAAGAGC
48010952 GGAAATGATA
Statistics
Matches: 84, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 34 0.40
24 31 0.37
25 17 0.20
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTATTTT
Found at i:48018061 original size:47 final size:46
Alignment explanation
Indices: 48017999--48018097 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 46
48017989 TCTTAAATAG
*
48017999 GTCTTAAGTCTATTAATACATG-T-TAATTAGTACAGCATTTTAATGT
1 GTCTTAAGTCTATTAAT--ATGTTATAATAAGTACAGCATTTTAATGT
* *
48018045 GTCTTAAGTTTAATTAATATGTTATAATAAGTACAGCTTTTTAATGT
1 GTCTTAAGTCT-ATTAATATGTTATAATAAGTACAGCATTTTAATGT
48018092 GTCTTA
1 GTCTTA
48018098 GATTAAGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
45 3 0.06
46 11 0.23
47 33 0.70
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (46 bp):
GTCTTAAGTCTATTAATATGTTATAATAAGTACAGCATTTTAATGT
Found at i:48019127 original size:170 final size:170
Alignment explanation
Indices: 48018820--48019133 Score: 513
Period size: 170 Copynumber: 1.8 Consensus size: 170
48018810 AAAACTATTC
*
48018820 AACTATTTAGCTATTCAAGGCAGCCCCTTAAAGGTAGTTCACATCTCTTGGCTGATCATATTCAG
1 AACTATTCAGCTATTCAAGGCAGCCCCTTAAAGGTAGTTCACATCTCTTGGCTGATCATATTCAG
* * * * *
48018885 GTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTTGCCTAGAAAGCATTAACGGATGTTTT
66 CTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGAAAGCATCAACGGACGTTTC
*
48018950 GGAAGGTTCAAGGATGCCCAAGCTTCCATTTGAAGTCCAA
131 AGAAGGTTCAAGGATGCCCAAGCTTCCATTTGAAGTCCAA
* *
48018990 AACTATTCAGCTATTCAAGGCAGCCCCTTAAAGGCT-GTTCACATCTCTTGGTTGATTATATTCA
1 AACTATTCAGCTATTCAAGGCAGCCCCTTAAAGG-TAGTTCACATCTCTTGGCTGATCATATTCA
* *
48019054 GCTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGGAAGCATCAAGGGACGTTT
65 GCTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGAAAGCATCAACGGACGTTT
48019119 CAGAAGGTTCAAGGA
130 CAGAAGGTTCAAGGA
48019134 AGTTTCCAGC
Statistics
Matches: 132, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
170 131 0.99
171 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (170 bp):
AACTATTCAGCTATTCAAGGCAGCCCCTTAAAGGTAGTTCACATCTCTTGGCTGATCATATTCAG
CTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGAAAGCATCAACGGACGTTTC
AGAAGGTTCAAGGATGCCCAAGCTTCCATTTGAAGTCCAA
Found at i:48021492 original size:65 final size:65
Alignment explanation
Indices: 48021355--48021501 Score: 177
Period size: 65 Copynumber: 2.3 Consensus size: 65
48021345 AATCCATATC
* * * * **
48021355 AGGATGCTCACAAAGAACTGCGTTTGTGTCTGCAACACATGCAAGATCACAACCGATTATAAAAA
1 AGGACGCTCACAAAGAGCTACGTTTGTGTCTGCAACACATGCAAGACCACAACCGACCATAAAAA
* * * * *
48021420 AGGACGCTCACAAAGAGCTACGTTTGTGTCTGCAATATATGCAAGACCACAATCGACCATATAAT
1 AGGACGCTCACAAAGAGCTACGTTTGTGTCTGCAACACATGCAAGACCACAACCGACCATAAAAA
* *
48021485 AGTACGCTCTCAAAGAG
1 AGGACGCTCACAAAGAG
48021502 TTGCGGTAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (65 bp):
AGGACGCTCACAAAGAGCTACGTTTGTGTCTGCAACACATGCAAGACCACAACCGACCATAAAAA
Found at i:48022859 original size:22 final size:22
Alignment explanation
Indices: 48022834--48022877 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48022824 CCAAGTTCCC
* *
48022834 ATGGAGACTTGGGTTGAGTTAA
1 ATGGAAACTTGGGTTAAGTTAA
*
48022856 ATGGAAACTTTGGTTAAGTTAA
1 ATGGAAACTTGGGTTAAGTTAA
48022878 GAAGAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.34
Consensus pattern (22 bp):
ATGGAAACTTGGGTTAAGTTAA
Found at i:48023876 original size:32 final size:32
Alignment explanation
Indices: 48023833--48023911 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
48023823 AACTCTGGAT
*
48023833 AGGAAAGCCTTTGTGACAAGCACTAGATATAA
1 AGGATAGCCTTTGTGACAAGCACTAGATATAA
* * * *
48023865 AGGATAGCCTTTGTGGCGAGTACTGGATATAA
1 AGGATAGCCTTTGTGACAAGCACTAGATATAA
* *
48023897 AGAATAGGCTTTGTG
1 AGGATAGCCTTTGTG
48023912 GCACAATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (32 bp):
AGGATAGCCTTTGTGACAAGCACTAGATATAA
Found at i:48024032 original size:29 final size:29
Alignment explanation
Indices: 48023989--48024057 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
48023979 GTTTAAGAAC
* *
48023989 GCCTTTGTCGTAAATCTTTGAAAGGAAAT
1 GCCTTTGTGGCAAATCTTTGAAAGGAAAT
48024018 GCCTTTGTGGCAAATCTTTGAAAGGAAAT
1 GCCTTTGTGGCAAATCTTTGAAAGGAAAT
*
48024047 GCCTTTATGGC
1 GCCTTTGTGGC
48024058 GATCTCTGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (29 bp):
GCCTTTGTGGCAAATCTTTGAAAGGAAAT
Found at i:48024074 original size:30 final size:29
Alignment explanation
Indices: 48024000--48024079 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
48023990 CCTTTGTCGT
* *
48024000 AAATCTTTGAAAGGAAATGCCTTTGTGGC
1 AAATCTTTCAAAGGAAATGCCTTTATGGC
*
48024029 AAATCTTTGAAAGGAAATGCCTTTATGGC
1 AAATCTTTCAAAGGAAATGCCTTTATGGC
*
48024058 -GATCTCTGTCAAAGGAAA-GCCT
1 AAATCT-T-TCAAAGGAAATGCCT
48024080 CAGTGGCTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 4 0.09
29 33 0.72
30 9 0.20
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (29 bp):
AAATCTTTCAAAGGAAATGCCTTTATGGC
Found at i:48030774 original size:60 final size:60
Alignment explanation
Indices: 48030677--48030796 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
48030667 GGCATTATAG
* *
48030677 AGGGATTATATGCTTATGTATTCTGGAGGAGATCTCACTCCTATTGGTTATATCAATTCT
1 AGGGATTATATGCTTATGTATTCTGGAAGAGACCTCACTCCTATTGGTTATATCAATTCT
* *
48030737 AGGGATTATATGTTTATGTATTCTGGAAGAGACCTCACTCCTATTGGTTATATCGATTCT
1 AGGGATTATATGCTTATGTATTCTGGAAGAGACCTCACTCCTATTGGTTATATCAATTCT
48030797 TACTTCCAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (60 bp):
AGGGATTATATGCTTATGTATTCTGGAAGAGACCTCACTCCTATTGGTTATATCAATTCT
Found at i:48033139 original size:34 final size:34
Alignment explanation
Indices: 48033096--48033168 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
48033086 TATGTATGTG
48033096 ATTATATGACTGGTTACTTCAGAATATTTATGAA
1 ATTATATGACTGGTTACTTCAGAATATTTATGAA
*
48033130 ATTATATGACTGGTTACTTCAGAATATTTATGAC
1 ATTATATGACTGGTTACTTCAGAATATTTATGAA
48033164 ATTAT
1 ATTAT
48033169 GAATGTCTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (34 bp):
ATTATATGACTGGTTACTTCAGAATATTTATGAA
Found at i:48033614 original size:41 final size:41
Alignment explanation
Indices: 48033557--48033642 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
48033547 GAGTTTAGGA
48033557 AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
1 AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
*
48033598 AAATCCATTGTAACACCCTATACCGACCTGGACACTAAGCC
1 AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
48033639 AAAT
1 AAAT
48033643 ATCGAGATGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (41 bp):
AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
Found at i:48046434 original size:46 final size:46
Alignment explanation
Indices: 48046373--48046547 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
48046363 GTAACCCGCG
* *
48046373 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATC
* * *
48046419 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT-
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCGCATC
* *
48046468 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATC
* *
48046512 CATAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48046548 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 60 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATC
Found at i:48046492 original size:93 final size:93
Alignment explanation
Indices: 48046379--48046550 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
48046369 CGCGCATAAG
* * *
48046379 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
48046444 ACGAGTTCGAATGCCTAGTTACATCTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
*
48046472 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
*
48046537 ACGAGTTCGGATGC
66 ACGAGTTCGAATGC
48046551 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCA
Found at i:48054058 original size:93 final size:93
Alignment explanation
Indices: 48053945--48054116 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48053935 CCGCCATAAG
* *
48053945 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48054010 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48054038 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48054103 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48054117 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48054113 original size:46 final size:46
Alignment explanation
Indices: 48053938--48054113 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48053928 ATGTAACCCG
* * *
48053938 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48053984 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48054034 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48054077 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48054114 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48055839 original size:22 final size:22
Alignment explanation
Indices: 48055807--48055850 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
48055797 ATGGAATAAG
48055807 AACACTCAATTTCGGGATTACT
1 AACACTCAATTTCGGGATTACT
* *
48055829 AACACTTAATTTCGGGGTTACT
1 AACACTCAATTTCGGGATTACT
48055851 TCCACCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (22 bp):
AACACTCAATTTCGGGATTACT
Found at i:48057779 original size:12 final size:12
Alignment explanation
Indices: 48057762--48057793 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
48057752 TAGACACACG
48057762 CCCATGTGTCTA
1 CCCATGTGTCTA
48057774 CCCATGTGTCTA
1 CCCATGTGTCTA
*
48057786 CCCGTGTG
1 CCCATGTG
48057794 GACCATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.34, G:0.22, T:0.31
Consensus pattern (12 bp):
CCCATGTGTCTA
Found at i:48059660 original size:13 final size:14
Alignment explanation
Indices: 48059630--48059661 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
48059620 TATAGGTTAA
48059630 AGTGAATGGAAGCT
1 AGTGAATGGAAGCT
48059644 -GTGAATGGAAG-T
1 AGTGAATGGAAGCT
48059656 AGTGAA
1 AGTGAA
48059662 ACCAGGTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 16 0.94
ACGTcount: A:0.38, C:0.03, G:0.38, T:0.22
Consensus pattern (14 bp):
AGTGAATGGAAGCT
Found at i:48060464 original size:27 final size:27
Alignment explanation
Indices: 48060421--48060553 Score: 135
Period size: 27 Copynumber: 4.9 Consensus size: 27
48060411 GCGAGGCTGC
48060421 CAGATAT-TGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAA
* * *
48060447 CAGATATATGTGGTAGAGCCACTAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* * *
48060474 CAGATA-ATTATGGCATAGCCACCAGGA
1 CAGATATA-TGTGGCAGAGCCACCAGAA
*
48060501 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* * * *
48060528 TAGATAAATTGTAGCATAGCCACCAG
1 CAGATATA-TGTGGCAGAGCCACCAG
48060554 GACGCTTCCT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
26 8 0.09
27 62 0.72
28 16 0.19
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATATGTGGCAGAGCCACCAGAA
Found at i:48060495 original size:54 final size:54
Alignment explanation
Indices: 48060421--48060553 Score: 187
Period size: 54 Copynumber: 2.5 Consensus size: 54
48060411 GCGAGGCTGC
* * *
48060421 CAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGCCACTAGAT
1 CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAT
* *
48060474 CAGATAATTATGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAT
* *
48060528 TAGATAAATTGTAGCATAGCCACCAG
1 CAGAT-AATTGTGGCATAGCCACCAG
48060554 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
53 5 0.07
54 47 0.67
55 18 0.26
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAT
Found at i:48062173 original size:49 final size:50
Alignment explanation
Indices: 48062100--48062199 Score: 166
Period size: 49 Copynumber: 2.0 Consensus size: 50
48062090 TGAAATGCCA
48062100 TCATGGAACATTTACCTAAACCATTATCAT-AAACATTTACCTAACCCAT
1 TCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCAT
* * *
48062149 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
1 TCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCAT
48062199 T
1 T
48062200 ATCAATTTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 28 0.60
50 19 0.40
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (50 bp):
TCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCAT
Found at i:48062187 original size:26 final size:26
Alignment explanation
Indices: 48062099--48062203 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
48062089 ATGAAATGCC
*
48062099 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
48062125 ATCAT-AAACATTTACCTAACCCA-T
1 ATCATGGAACATTTACCTAACCCATT
* *
48062149 -TCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
48062174 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48062200 ATCA
1 ATCA
48062204 ATTTGTACCA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 4 0.06
24 16 0.23
25 17 0.25
26 32 0.46
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:48067308 original size:16 final size:16
Alignment explanation
Indices: 48067283--48067313 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48067273 CAATCTTTAT
*
48067283 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
48067299 AAAATCTTTGTTTTT
1 AAAATCTTTGTTTTT
48067314 CTAAACCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:48068318 original size:27 final size:28
Alignment explanation
Indices: 48068278--48068413 Score: 151
Period size: 27 Copynumber: 5.0 Consensus size: 28
48068268 GCGAGACTGC
48068278 CAGATAT-TGTGGCAGAGCCACCAGA-A
1 CAGATATATGTGGCAGAGCCACCAGAGA
*
48068304 CAGATATATGTGGCAGAGCCACCAGA-T
1 CAGATATATGTGGCAGAGCCACCAGAGA
* *
48068331 CAGATA-ATTGTGGCATAGCCACTA-AGA
1 CAGATATA-TGTGGCAGAGCCACCAGAGA
*
48068358 CAGATATATGTGGCAGAGCCACCAGATA
1 CAGATATATGTGGCAGAGCCACCAGAGA
* *
48068386 -AGATAAATTGTGGCATAGCCACCA-AGA
1 CAGATATA-TGTGGCAGAGCCACCAGAGA
48068413 C
1 C
48068414 GCTTCCTCCA
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 9 0.10
27 66 0.71
28 18 0.19
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (28 bp):
CAGATATATGTGGCAGAGCCACCAGAGA
Found at i:48068351 original size:54 final size:54
Alignment explanation
Indices: 48068278--48068413 Score: 213
Period size: 54 Copynumber: 2.5 Consensus size: 54
48068268 GCGAGACTGC
*
48068278 CAGAT-ATTGTGGCAGAGCCACC-AGAACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAAG-ACAGATATATGTGGCAGAGCCACCAGAT
*
48068331 CAGATAATTGTGGCATAGCCACTAAGACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGCCACCAGAT
*
48068385 AAGATAAATTGTGGCATAGCCACCAAGAC
1 CAGAT-AATTGTGGCATAGCCACCAAGAC
48068414 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
53 5 0.07
54 47 0.62
55 24 0.32
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
CAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGCCACCAGAT
Found at i:48069995 original size:26 final size:26
Alignment explanation
Indices: 48069964--48070071 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
48069954 TGAAATGGCC
*
48069964 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
48069990 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
48070016 ACCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
48070042 ACCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
48070068 ATCA
1 ATCA
48070072 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:48074674 original size:47 final size:47
Alignment explanation
Indices: 48074616--48075057 Score: 722
Period size: 47 Copynumber: 9.4 Consensus size: 47
48074606 CAGCCAAGAC
*
48074616 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48074663 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48074710 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48074757 AGTGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
48074804 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
48074851 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48074898 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48074945 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
48074992 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
48075039 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
48075058 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 371 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:48077038 original size:41 final size:41
Alignment explanation
Indices: 48076992--48077081 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
48076982 CACAAAAATA
* * *
48076992 AATTCATGGGTACCGAAGTACAAACGAGGGCA-TGTATGTGC
1 AATTCAAGGGTACCGAAGTACAAACAAGGG-AGCGTATGTGC
*
48077033 AATTCAAGGGTACCGAAGTACAAATAAGGGAGCGTATGTGC
1 AATTCAAGGGTACCGAAGTACAAACAAGGGAGCGTATGTGC
48077074 AATTCAAG
1 AATTCAAG
48077082 AATAATTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21
Consensus pattern (41 bp):
AATTCAAGGGTACCGAAGTACAAACAAGGGAGCGTATGTGC
Found at i:48086534 original size:45 final size:45
Alignment explanation
Indices: 48086454--48086617 Score: 258
Period size: 45 Copynumber: 3.7 Consensus size: 45
48086444 CTAGAATTTT
*
48086454 GCCTGCTAGGCTCGAA-GCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
* * *
48086498 GCCTGCTAGGCTCAAAGGCCCGAGTGGTATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
* *
48086543 GCCTGCTAGGCTTAAAGACCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
*
48086588 GCCTGCTAGGTTCAAAGGCCCGAATAGTAT
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTAT
48086618 TGTGCGGTGT
Statistics
Matches: 107, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 15 0.14
45 92 0.86
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
Found at i:48094312 original size:45 final size:45
Alignment explanation
Indices: 48094166--48094383 Score: 279
Period size: 45 Copynumber: 5.0 Consensus size: 45
48094156 TTTTATCAAA
* * **
48094166 TCACCGGCATT-TAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* *
48094208 TCACCGGCATT-TTGCCTACTAGGCTCAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
48094251 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCC-AAGTGGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAA-TAGTATC
48094296 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
48094341 TCACCGGCATTATAGCCTGCTACGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
48094384 CTGTGCGATA
Statistics
Matches: 155, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
41 7 0.05
42 27 0.17
43 11 0.07
44 18 0.12
45 90 0.58
46 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:48101322 original size:28 final size:27
Alignment explanation
Indices: 48101273--48101354 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
48101263 ATGCCATTGA
*
48101273 ATACTCAATATTCTGCATACTAAGTGAC
1 ATACTCAATA-TCTGCACACTAAGTGAC
* *
48101301 ATACTCGATATCTAGCACACTAAGTGCC
1 ATACTCAATATCT-GCACACTAAGTGAC
** *
48101329 ATTTTCAATGTCTCGCACACTAAGTG
1 ATACTCAATATCT-GCACACTAAGTG
48101355 CAATGCTCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 3 0.07
28 42 0.93
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (27 bp):
ATACTCAATATCTGCACACTAAGTGAC
Found at i:48101355 original size:28 final size:28
Alignment explanation
Indices: 48101315--48101412 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
48101305 TCGATATCTA
48101315 GCACACTAAGTGCCATTTTCAATGTCTC
1 GCACACTAAGTGCCATTTTCAATGTCTC
* ** * *
48101343 GCACACTAAGTGCAATGCTCGATGTCTT
1 GCACACTAAGTGCCATTTTCAATGTCTC
* *
48101371 GCACATTAAATGCCATTTTCAATGTCTC
1 GCACACTAAGTGCCATTTTCAATGTCTC
* *
48101399 ACACACTAACTGCC
1 GCACACTAAGTGCC
48101413 GTACATAGCC
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (28 bp):
GCACACTAAGTGCCATTTTCAATGTCTC
Found at i:48101364 original size:56 final size:56
Alignment explanation
Indices: 48101291--48101407 Score: 164
Period size: 56 Copynumber: 2.1 Consensus size: 56
48101281 TATTCTGCAT
* *
48101291 ACTAAGTGACATACTCGATATCTAGCACACTAAGTGCCATTTTCAATGTCTCGCAC
1 ACTAAGTGACATACTCGATATCTAGCACACTAAATGCCATTTTCAATGTCTCACAC
* * * *
48101347 ACTAAGTG-CAATGCTCGATGTCTTGCACATTAAATGCCATTTTCAATGTCTCACAC
1 ACTAAGTGAC-ATACTCGATATCTAGCACACTAAATGCCATTTTCAATGTCTCACAC
48101403 ACTAA
1 ACTAA
48101408 CTGCCGTACA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 1 0.02
56 53 0.98
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (56 bp):
ACTAAGTGACATACTCGATATCTAGCACACTAAATGCCATTTTCAATGTCTCACAC
Found at i:48109067 original size:20 final size:22
Alignment explanation
Indices: 48109039--48109088 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
48109029 TGTTATGTAT
*
48109039 GTATCGATATTGCCTTT-A-TG
1 GTATTGATATTGCCTTTAAGTG
* *
48109059 GTATTGATATTTCTTTTAAGTG
1 GTATTGATATTGCCTTTAAGTG
48109081 GTATTGAT
1 GTATTGAT
48109089 GCCACATGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.56
21 1 0.04
22 10 0.40
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (22 bp):
GTATTGATATTGCCTTTAAGTG
Found at i:48120053 original size:13 final size:13
Alignment explanation
Indices: 48120035--48120074 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
48120025 AGTTTGGCAA
*
48120035 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
48120048 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
48120061 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
48120074 T
1 T
48120075 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:48140775 original size:26 final size:27
Alignment explanation
Indices: 48140725--48140776 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
48140715 TTTGATTGGT
*
48140725 TAAGATTATTTTATTATTATTTTAATA
1 TAAGATTATTTTATTATTATGTTAATA
48140752 TAAGA-TATTTTATTATT-TAGTTAAT
1 TAAGATTATTTTATTATTAT-GTTAAT
48140777 GGTTAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 17 0.74
27 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (27 bp):
TAAGATTATTTTATTATTATGTTAATA
Found at i:48142731 original size:223 final size:223
Alignment explanation
Indices: 48142322--48142772 Score: 667
Period size: 223 Copynumber: 2.0 Consensus size: 223
48142312 CCTATAGAGG
*
48142322 TCATACGACACTTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATTGCCTTACA
1 TCATACGACACTTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATCGCCTTACA
48142387 TAGAATACTTACTCCTCATAAAACATAACCCGTCCCATAGCCAGATACAGACAGAACATCAGATA
66 TAGAATACTTACTCCTCATAAAACATAACCCGTCCCATAGCCAGATACAGACAGAACATCAGATA
* * * *
48142452 AAATAGAATAACATATACCAGAATGTATATCACATGCATGCTTGTATAACAAATACTAAACATGC
131 AAACAAAATAACAGATACCAGAACGTATATCACATGCATGCTTGTATAACAAATACTAAACATGC
48142517 TCATACATAACAGAATAGATCATACATA
196 TCATACATAACAGAATAGATCATACATA
* * * * *
48142545 -CATACGACACTTTTCAGAATAATTGCAGCATTGGTGCGAGTATATTGGTGAAATATCGCCTTAC
1 TCATACGACAC-TTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATCGCCTTAC
* * * * *
48142609 ATAGAATACTTCCTTCTCATAAAACATAACCCG-CCTTATAGCCAGATACAGACAGAGCATTAGA
65 ATAGAATACTTACTCCTCATAAAACATAACCCGTCC-CATAGCCAGATACAGACAGAACATCAGA
* *
48142673 TAAAACAAAATAACAGATACCAGAACGTATATTACATGTATGCTCATGTA-AA-AAATACTAAAC
129 TAAAACAAAATAACAGATACCAGAACGTATATCACATGCATGCT--TGTATAACAAATACTAAAC
* *
48142736 ATGCTCATACATAACATAATATATCATACATA
192 ATGCTCATACATAACAGAATAGATCATACATA
48142768 TCATA
1 TCATA
48142773 TTACACTATA
Statistics
Matches: 204, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
222 12 0.06
223 182 0.89
224 6 0.03
225 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (223 bp):
TCATACGACACTTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATCGCCTTACA
TAGAATACTTACTCCTCATAAAACATAACCCGTCCCATAGCCAGATACAGACAGAACATCAGATA
AAACAAAATAACAGATACCAGAACGTATATCACATGCATGCTTGTATAACAAATACTAAACATGC
TCATACATAACAGAATAGATCATACATA
Done.