Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 85 of 310
Found at i:27406151 original size:14 final size:14
Alignment explanation
Indices: 27406128--27406162 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27406118 GGGCATGGTT
*
27406128 GTGTGATGGTGTGA
1 GTGTGGTGGTGTGA
27406142 GTGTGGTGGTGTGA
1 GTGTGGTGGTGTGA
*
27406156 GTTTGGT
1 GTGTGGT
27406163 TGTCTAGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (14 bp):
GTGTGGTGGTGTGA
Found at i:27406233 original size:18 final size:17
Alignment explanation
Indices: 27406197--27406250 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
27406187 AAATTGGGCT
27406197 TGTAGGCCACACGAGCA
1 TGTAGGCCACACGAGCA
27406214 TGTAGGCCCACACG-GACA
1 TGTAGG-CCACACGAG-CA
27406232 TGT----CACACGAGCA
1 TGTAGGCCACACGAGCA
27406245 TGTAGG
1 TGTAGG
27406251 TTTTAGGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
13 11 0.35
14 1 0.03
17 7 0.23
18 12 0.39
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.15
Consensus pattern (17 bp):
TGTAGGCCACACGAGCA
Found at i:27410472 original size:27 final size:27
Alignment explanation
Indices: 27410442--27410599 Score: 118
Period size: 27 Copynumber: 5.9 Consensus size: 27
27410432 GTCAAATTGT
* *
27410442 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
*** *
27410469 AAAATTACCGTTTTACCCTTGATTTAT
1 AAAATTACCAAATTACCCTTGATTTAC
* **** *
27410496 AGAATTACTGTTTTACCCTTAATTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
* **** *
27410523 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
* * *
27410550 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAATTACCCTTGATTTAC
*
27410577 AAAATTACCAAAATACCCTTGAT
1 AAAATTACCAAATTACCCTTGAT
27410600 CAGTAAAATT
Statistics
Matches: 110, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (27 bp):
AAAATTACCAAATTACCCTTGATTTAC
Found at i:27410502 original size:54 final size:54
Alignment explanation
Indices: 27410442--27410585 Score: 162
Period size: 54 Copynumber: 2.7 Consensus size: 54
27410432 GTCAAATTGT
* * * * *
27410442 AAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTAT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* **** * * *
27410496 AGAATTACTGTTTTACCCTTAATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
*
27410550 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACC
27410586 AAAATACCCT
Statistics
Matches: 69, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
Found at i:27410607 original size:27 final size:27
Alignment explanation
Indices: 27410536--27410841 Score: 172
Period size: 27 Copynumber: 11.3 Consensus size: 27
27410526 ATTACTGTTT
* ** *
27410536 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* **
27410563 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
**
27410590 TACCCTTGATCAGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * * * *
27410617 TA-CCGTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
27410643 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAA
* * *
27410670 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTTGATTTGTAAAATTACCAAAA
**
27410697 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* ** * *
27410724 TACCCCTGATTTACAAAGTTA-TAGAAA
1 TACCCTTGATTTGTAAAATTACCA-AAA
* *
27410751 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTGT-AAAATTACCA-AAA
* * ** **
27410780 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * * * *
27410807 TAGCCTTGGTTTTTAGATTTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
27410834 CACCCTTG
1 TACCCTTG
27410842 TAGGACGAAA
Statistics
Matches: 218, Mismatches: 52, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
26 24 0.11
27 167 0.77
28 8 0.04
29 19 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:27410689 original size:80 final size:80
Alignment explanation
Indices: 27410550--27410740 Score: 206
Period size: 80 Copynumber: 2.4 Consensus size: 80
27410540 CTCGATTTAC
* * *
27410550 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
27410615 AATACCGTGGTCTGT
66 AATACCGTGGTCTGT
* ** ** * *
27410630 AAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAG-TTTGTGAAATTACCG
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACC-CTAGATCAGTAAAATTACCA
* ** *
27410694 AAATACCCTCAATTTGT
65 AAATACCGT-GGTCTGT
*
27410711 AAAATTACCAAAATACCCCT-GATTTACAAA
1 AAAATTACTAAAATACCCCTAG-TTTACAAA
27410741 GTTATAGAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
80 59 0.66
81 31 0.34
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
AATACCGTGGTCTGT
Found at i:27410902 original size:27 final size:27
Alignment explanation
Indices: 27410859--27410924 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
27410849 AAATGACTAA
*
27410859 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
27410886 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
27410913 AATACCCCTGTA
1 AATACCCCTGTA
27410925 TCGTAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.09
27 29 0.88
28 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:27410930 original size:27 final size:27
Alignment explanation
Indices: 27410880--27410931 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
27410870 TAGGTAAAAA
*
27410880 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGCGTAAAGT
*
27410907 GACCGTAATA-CCCCTGTATCGTAAA
1 GACCGTAA-AGCCCCTGTAGCGTAAA
27410932 ATGATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGCGTAAAGT
Found at i:27412173 original size:31 final size:31
Alignment explanation
Indices: 27412130--27412204 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
27412120 ACGATTACTG
27412130 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* * *
27412161 GGCCAAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
27412192 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
27412205 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:27412275 original size:42 final size:42
Alignment explanation
Indices: 27412228--27412319 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
27412218 TGGCCCATAG
* ** *
27412228 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
27412270 GCCCATTTTAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
27412312 GCCCATTT
1 GCCCATTT
27412320 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:27414056 original size:40 final size:39
Alignment explanation
Indices: 27414019--27414196 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
27414009 ATATCCGGAC
27414019 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
27414059 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
27414099 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
27414139 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
27414178 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
27414197 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:27414109 original size:80 final size:79
Alignment explanation
Indices: 27414025--27414196 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
27414015 GGACTAAGAT
*
27414025 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
27414089 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
27414105 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
27414170 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
27414184 CCGAAGGCATTTG
1 CCGAAGGCATTTG
27414197 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:27414214 original size:79 final size:80
Alignment explanation
Indices: 27414052--27414229 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
27414042 AGATACAAAT
* * * *
27414052 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
27414117 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
27414132 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
27414196 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
27414211 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
27414230 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:27421967 original size:40 final size:39
Alignment explanation
Indices: 27421936--27422145 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
27421926 GGACTAAGAT
* *
27421936 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
27421976 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
27422016 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
27422056 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
27422096 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
27422135 CCGAAGGCATT
1 CCGAAGGCATT
27422146 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:27422099 original size:120 final size:120
Alignment explanation
Indices: 27421883--27422145 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
27421873 TTGAATGCTG
* *
27421883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
27421947 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
27422003 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
27422066 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
27422122 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27422146 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:27422165 original size:79 final size:80
Alignment explanation
Indices: 27421884--27422180 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
27421874 TGAATGCTGT
* ** * * * **
27421884 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
27421947 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
27421964 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
27422028 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
27422044 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
27422108 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
27422123 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
27422181 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:27426840 original size:27 final size:27
Alignment explanation
Indices: 27426810--27427066 Score: 151
Period size: 27 Copynumber: 9.4 Consensus size: 27
27426800 GTAAATCAAC
* *
27426810 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
27426837 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * *
27426865 AAAGTCAAGGGTATTTCTA-TAACTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* * ** *
27426893 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * *
27426920 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** * *
27426947 AAACCAAGGGTATTTTGGTAAATTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
27426974 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
27427001 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* ** *
27427028 AAATCAAGGGTAAAAT-AGTAATTTTGT
1 AAACCAAGGGT-ATTTCAGTAATTTTAT
*
27427055 AAATCAAGGGTA
1 AAACCAAGGGTA
27427067 AAATAGTAAT
Statistics
Matches: 191, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 158 0.83
28 16 0.08
29 16 0.08
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:27427039 original size:54 final size:54
Alignment explanation
Indices: 27426787--27427039 Score: 213
Period size: 54 Copynumber: 4.6 Consensus size: 54
27426777 TTTCATCCTA
* * ** * * * **
27426787 CAAGGGTGTTTTGGTAAATCAACAAACCAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
* * * ** * ** *
27426841 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTACAAAC
* **
27426897 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
* * *
27426951 CAAGGGTATTTTGGTAAATTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTCGGTAATTTTACAAAC
* **
27427005 CAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTA
27427040 AAATAGTAAT
Statistics
Matches: 157, Mismatches: 36, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
54 107 0.68
55 16 0.10
56 34 0.22
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
Found at i:27427066 original size:81 final size:81
Alignment explanation
Indices: 27426888--27427066 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 81
27426878 TTTCTATAAC
*** *
27426888 TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCA
1 TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCA
*** *
27426953 AGGGTATTTTGGTAAA
66 AGGGTAAAATAGTAAA
** * ** *
27426969 TTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATC
1 TTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACC
*
27427033 AAGGGTAAAATAGTAAT
65 AAGGGTAAAATAGTAAA
*
27427050 TTTGTAAATCAAGGGTA
1 TTTGTAAATCAGGGGTA
27427067 AAATAGTAAT
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
80 1 0.01
81 76 0.97
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (81 bp):
TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCA
AGGGTAAAATAGTAAA
Found at i:27427067 original size:27 final size:27
Alignment explanation
Indices: 27427016--27427201 Score: 196
Period size: 27 Copynumber: 6.9 Consensus size: 27
27427006 AAGGGTATTT
* *
27427016 TAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
27427043 TAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
27427070 TAGTAATTCTATAAATTGAGGGGAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
27427097 -CGATAATTCTGTAAGTCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
27427124 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* *
27427151 TGGTAATTATGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
27427178 CAGTAATTCTGTAAATCGGGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
27427202 CTTTGGTAAT
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:27427201 original size:81 final size:81
Alignment explanation
Indices: 27427017--27427201 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
27427007 AGGGTATTTT
* * * * *
27427017 AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTAT
1 AGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATGTAAATCAAGGGTAAAATAGTAATTATAT
*
27427082 AAATTGAGGGGAAAAC
66 AAATCGAGGGGAAAAC
* ** *
27427098 -GATAATTCTGTAAGTCGAGGGTAAAACGA-TAATTATGTAAATCGGGGGTAAAATGGTAATTAT
1 AG-TAATTCTGTAAATCGAGGGTAAAA-GAGTAATTATGTAAATCAAGGGTAAAATAGTAATTAT
* *
27427161 GTAAATCGAGGGTAAAAC
64 ATAAATCGAGGGGAAAAC
*
27427179 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
27427202 CTTTGGTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 84 0.97
82 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATGTAAATCAAGGGTAAAATAGTAATTATAT
AAATCGAGGGGAAAAC
Found at i:27427255 original size:27 final size:27
Alignment explanation
Indices: 27427197--27427272 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
27427187 TGTAAATCGG
* * **
27427197 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTTTACAAAACGA
*
27427224 AGGTATTTTAGTAATTTTACAAAACGA
1 GGGTATTTTAGTAATTTTACAAAACGA
* *
27427251 GGGTATTTCAGTATTTTTACAA
1 GGGTATTTTAGTAATTTTACAA
27427273 CTAAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAAACGA
Found at i:27427472 original size:75 final size:75
Alignment explanation
Indices: 27427349--27427498 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
27427339 CTAAAGCCTA
* * * *
27427349 TTCTCGGCCCAAATGGGCCCACACGCTCGTGTGGCCCTTTTAGCCCAAATCTAACCATAGATATG
1 TTCTCAGCCCAAATGGGCCCACACGCTCGCGTGACCCTTTTAGCCCAAATCTAACCACAGATATG
27427414 AGATTCACCT
66 AGATTCACCT
*
27427424 TTCTCAGCCCAAATGGGCCCACACGCTCGCGTGACCCTTTTAGCCCAAATCTAGCCACAGATATG
1 TTCTCAGCCCAAATGGGCCCACACGCTCGCGTGACCCTTTTAGCCCAAATCTAACCACAGATATG
27427489 AGATTCACCT
66 AGATTCACCT
27427499 AGCCTAGTCC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (75 bp):
TTCTCAGCCCAAATGGGCCCACACGCTCGCGTGACCCTTTTAGCCCAAATCTAACCACAGATATG
AGATTCACCT
Found at i:27428919 original size:42 final size:42
Alignment explanation
Indices: 27428867--27428958 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
27428857 TAGTCTCCCC
* * ** *
27428867 AAATGAGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
27428909 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
27428951 AAATGGGC
1 AAATGGGC
27428959 CTAAGGCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:27429219 original size:110 final size:110
Alignment explanation
Indices: 27429021--27429241 Score: 352
Period size: 110 Copynumber: 2.0 Consensus size: 110
27429011 AAAAGGCTTC
*
27429021 GGCCCAGTAATCGTTAAACGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTAAC
1 GGCCCAGTAACCGTTAAACGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTAAC
27429086 CCAAATTGTACTAATACTGTGTTTTCACTGTTTGTTTGTTACTGG
66 CCAAATTGTACTAATACTGTGTTTTCACTGTTTGTTTGTTACTGG
* * * * **
27429131 GGCCTAGTAACCGTTAAATGAAAGGCTTCGGCCCAGTATATGTCGAGACTGAATAGGGCTTTGGC
1 GGCCCAGTAACCGTTAAACGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTAAC
* * *
27429196 CCAGATTGTACTGATACTGTGTTTTCACTGTTTGTTTGTTATTGG
66 CCAAATTGTACTAATACTGTGTTTTCACTGTTTGTTTGTTACTGG
27429241 G
1 G
27429242 ATTACACACT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (110 bp):
GGCCCAGTAACCGTTAAACGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTAAC
CCAAATTGTACTAATACTGTGTTTTCACTGTTTGTTTGTTACTGG
Found at i:27430212 original size:26 final size:26
Alignment explanation
Indices: 27430179--27430229 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
27430169 AACATATTTT
27430179 ATCAAAATTTTA-TCAGGTGTAAAATC
1 ATCAAAATTTTACTCAGG-GTAAAATC
*
27430205 ATCAAAATTTTACTGAGGGTAAAAT
1 ATCAAAATTTTACTCAGGGTAAAAT
27430230 AAGGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (26 bp):
ATCAAAATTTTACTCAGGGTAAAATC
Found at i:27437239 original size:26 final size:26
Alignment explanation
Indices: 27437210--27437267 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
27437200 AAATAAGTAG
27437210 TTAATGGAACCAGTTGGTCAAATCAA
1 TTAATGGAACCAGTTGGTCAAATCAA
*
27437236 TTAATGGAACCAGTTGGTCAAATTAA
1 TTAATGGAACCAGTTGGTCAAATCAA
27437262 TTAATG
1 TTAATG
27437268 AAATCAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (26 bp):
TTAATGGAACCAGTTGGTCAAATCAA
Found at i:27449742 original size:49 final size:49
Alignment explanation
Indices: 27449675--27449868 Score: 194
Period size: 49 Copynumber: 3.9 Consensus size: 49
27449665 GTAGACAAGG
* * *
27449675 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
** *
27449724 TTATTC-GGTACATGTAGTAGCCTGCACTTAGTACTACACA-GTGACCTAA
1 TTA-TCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
** * * * * * * *
27449773 CCATCTGATACACATAGTAACCTGCATTTAGTACTACACACGTGATCGAA
1 TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
*
27449823 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 -TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA
27449869 TCTCACAATA
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
48 7 0.06
49 65 0.56
50 8 0.07
51 37 0.32
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:27452323 original size:27 final size:27
Alignment explanation
Indices: 27452288--27452385 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
27452278 GAACAGATAA
* *
27452288 TGTGACAGAGTCACCAGAATAGATTAT
1 TGTGGCAGAGCCACCAGAATAGATTAT
*
27452315 TGTGGCAGAGCCACCAGAACAGA-TAT
1 TGTGGCAGAGCCACCAGAATAGATTAT
* *
27452341 ATGTGGCAGAGCCACCAG-ATCAGATAAA
1 -TGTGGCAGAGCCACCAGAAT-AGATTAT
*
27452369 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
27452386 GAGGCTTCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
26 4 0.07
27 56 0.92
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAATAGATTAT
Found at i:27452358 original size:54 final size:53
Alignment explanation
Indices: 27452277--27452385 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 53
27452267 CACGGCTGCT
* * *
27452277 AGAACAGATAATGTGACAGAGTCACCAGAAT-AGATTATTGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAG-ATCAGATAAATGTGGCAGAGCCACC
* *
27452330 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAAATGTGGCAGAGCCACC
27452384 AG
1 AG
27452386 GAGGCTTCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGAGCCACCAGATCAGATAAATGTGGCAGAGCCACC
Found at i:27459137 original size:15 final size:16
Alignment explanation
Indices: 27459119--27459159 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
27459109 AAATCGAGTT
*
27459119 TTTTTTTAAAT-TTTG
1 TTTTTGTAAATCTTTG
*
27459134 TTTTTGAAAATCTTTG
1 TTTTTGTAAATCTTTG
27459150 TTTTTGTAAA
1 TTTTTGTAAA
27459160 CCCATTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (16 bp):
TTTTTGTAAATCTTTG
Found at i:27460158 original size:26 final size:26
Alignment explanation
Indices: 27460120--27460230 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
27460110 AGCATGGCTG
* *
27460120 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
27460146 CTAGAACAGATAATTATGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
27460173 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
27460200 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
27460227 CCAG
1 CCAG
27460231 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 12 0.17
27 58 0.81
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27461541 original size:25 final size:23
Alignment explanation
Indices: 27461513--27461579 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 23
27461503 TTGGCTGACC
27461513 AAATCTTGCTCCTTGATCAGCTCCT
1 AAATCTT-CTCCTT-ATCAGCTCCT
27461538 AAATCTTCTCCCCTTATCAGCTCCT
1 AAATCTTCT--CCTTATCAGCTCCT
27461563 AAATCTTCTCCCTTATC
1 AAATCTTCT-CCTTATC
27461580 CCCTCCTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
24 10 0.25
25 26 0.65
26 4 0.10
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.37
Consensus pattern (23 bp):
AAATCTTCTCCTTATCAGCTCCT
Found at i:27461585 original size:24 final size:25
Alignment explanation
Indices: 27461523--27461586 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
27461513 AAATCTTGCT
*
27461523 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
27461549 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
27461573 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
27461587 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:27463084 original size:15 final size:15
Alignment explanation
Indices: 27463037--27463092 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
27463027 TAAGAAAATT
27463037 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
27463052 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
27463067 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
27463082 GAATAACGAAA
1 GAATAAAGAAA
27463093 CCCAAGATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 28 0.82
16 3 0.09
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:27466157 original size:49 final size:49
Alignment explanation
Indices: 27466090--27466286 Score: 207
Period size: 50 Copynumber: 4.0 Consensus size: 49
27466080 GTAGACAAGG
* * * *
27466090 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
27466139 TTATCCGGTACACGTAGTAGCCTGCACTTAGTCCTACACACGTGACCTAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * * *
27466189 CCA-CCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCC-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * *
27466239 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
27466287 TCACAATAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 42 0.34
50 43 0.35
51 36 0.30
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:27466287 original size:101 final size:99
Alignment explanation
Indices: 27466104--27466287 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
27466094 CTGGTACGCA
* *
27466104 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
27466169 GTCCTACACACGTGACCTAACCACCTGATACACG
66 GTACTACACACGCGACCTAACCACCTGATACACG
* * * * *
27466203 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
27466268 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
27466288 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 28 0.38
100 3 0.04
101 42 0.58
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCACCTGATACACG
Found at i:27466834 original size:74 final size:74
Alignment explanation
Indices: 27466734--27466880 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
27466724 TTATTAACAC
*
27466734 ACGAACTTACCTCGATCTAGAAACGACAATTTACCATTTTAGTCCATAACCTTGTATTTTCCCGA
1 ACGAACTTACCTCGATCCAGAAACGACAATTTACCATTTTAGTCCATAACCTTGTATTTTCCCGA
27466799 TTTAAGCCT
66 TTTAAGCCT
*
27466808 ACGAACTTACCTCGATCCAGAAACGACAATTTACCATTTTAGTCCATAACCTTGTATTTTCTCGA
1 ACGAACTTACCTCGATCCAGAAACGACAATTTACCATTTTAGTCCATAACCTTGTATTTTCCCGA
27466873 TTTAAGCC
66 TTTAAGCC
27466881 CGAATCTCGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (74 bp):
ACGAACTTACCTCGATCCAGAAACGACAATTTACCATTTTAGTCCATAACCTTGTATTTTCCCGA
TTTAAGCCT
Found at i:27469189 original size:27 final size:28
Alignment explanation
Indices: 27469135--27469199 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
27469125 ACACATTTAA
*
27469135 TTCACAATTTAGTCCTCAAAAACCTCATT
1 TTCACAAATTAGTCCTCAAAAACCTCA-T
* *
27469164 TTCACAAATTAG-CC-CAAATAGCTCAT
1 TTCACAAATTAGTCCTCAAAAACCTCAT
27469190 TTCATCAAAT
1 TTCA-CAAAT
27469200 ATTCAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.16
27 14 0.44
28 2 0.06
29 11 0.34
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (28 bp):
TTCACAAATTAGTCCTCAAAAACCTCAT
Found at i:27470376 original size:47 final size:47
Alignment explanation
Indices: 27470323--27470494 Score: 201
Period size: 47 Copynumber: 3.7 Consensus size: 47
27470313 AGATATTTGA
27470323 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
27470370 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
* *
27470418 G--TCTGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
27470463 GCATCTGAGCTCATTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
27470495 ACTTATGGAT
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.25
47 60 0.56
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27470446 original size:46 final size:47
Alignment explanation
Indices: 27470379--27470548 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 47
27470369 GGCATCCGAA
*
27470379 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-GTCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTCTGAG
* * *
27470425 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAC--GG--TCTGAG
*
27470472 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTC-GAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTCTGAG
27470518 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27470549 GCAGGTTACA
Statistics
Matches: 107, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 56 0.52
47 30 0.28
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTCTGAG
Found at i:27470491 original size:93 final size:93
Alignment explanation
Indices: 27470332--27470540 Score: 366
Period size: 93 Copynumber: 2.2 Consensus size: 93
27470322 AGCATCCGAA
*
27470332 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
*
27470397 AGTTCACTTATGGATGCGAAC-GTCTGAG
66 AGTTCACTTATGGATGCAAACGGTC-GAG
* *
27470425 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCTGAGCTCATTGAGTTGAGTCCG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
27470490 AGTTCACTTATGGATGCAAACGGTCGAG
66 AGTTCACTTATGGATGCAAACGGTCGAG
27470518 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
27470541 ACTTATGGGC
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 108 0.97
94 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
AGTTCACTTATGGATGCAAACGGTCGAG
Found at i:27475408 original size:17 final size:18
Alignment explanation
Indices: 27475375--27475409 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27475365 TTTTAAGAAG
27475375 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
27475393 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
27475410 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:27478552 original size:29 final size:29
Alignment explanation
Indices: 27478511--27478610 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
27478501 AATGTGACTA
*
27478511 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
27478540 GGCCTAATTGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
27478569 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
27478597 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
27478611 GATACAAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 16 0.26
29 45 0.74
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:27478606 original size:28 final size:29
Alignment explanation
Indices: 27478496--27478610 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
27478486 GTGAGAATGA
* * *
27478496 ATATGAATGTGA-CTAGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
27478524 ATATAAATGTGATTTGGGCCTAATTGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
27478553 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
27478582 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
27478610 A
1 A
27478611 GATACAAGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.38
29 45 0.61
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:27487877 original size:44 final size:42
Alignment explanation
Indices: 27487814--27487968 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
27487804 ATGTGTTATT
27487814 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTAC
* *
27487858 GTGTAAGACCACGTCTGGGATGTTAGCATCGTATTTGATTT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTAC
**
27487900 GTGTAAGACCGTGTCTGGGACAG-TGGCATCGATATTTGA-TTAC
1 GTGTAAGACCACGTCTGGGAC-GTTGGCATCG--ATTTGATTTAC
* *
27487943 ATGTAAGACCACGTCTAGGACGTTGG
1 GTGTAAGACCACGTCTGGGACGTTGG
27487969 ATTGTACGAG
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 29 0.30
43 35 0.36
44 31 0.32
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTAC
Found at i:27488282 original size:13 final size:15
Alignment explanation
Indices: 27488264--27488295 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
27488254 GTTTATATGT
27488264 TTTATTTG-ATA-AG
1 TTTATTTGTATATAG
27488277 TTTATTTGTATATAG
1 TTTATTTGTATATAG
27488292 TTTA
1 TTTA
27488296 CTAAGCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTATTTGTATATAG
Found at i:27490037 original size:30 final size:30
Alignment explanation
Indices: 27490003--27490060 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27489993 TTTTTGGACT
* *
27490003 TAGGGGTAAAATGGTTATTTTGCAAAAGAC
1 TAGGGGCAAAATGGTCATTTTGCAAAAGAC
*
27490033 TAGGGGCAAAATGGTCATTTTGCCAAAG
1 TAGGGGCAAAATGGTCATTTTGCAAAAG
27490061 TATAGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCAAAAGAC
Found at i:27490442 original size:46 final size:46
Alignment explanation
Indices: 27490385--27490558 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 46
27490375 GAACTATTGT
* *
27490385 GAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATAACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAACGA
* * *
27490431 GAGCCAGTGTAAGGCCATGTTTAGGACATGGCATC-G--ACAGTGAGACGA
1 GAGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCACA-T-A-ACGA
** * * *
27490479 GA-CCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGA-GATGTA
1 GAGCC-AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAACG-A
27490526 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
27490559 ACTACAAGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
45 3 0.03
46 48 0.47
47 33 0.32
48 17 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAACGA
Found at i:27491774 original size:21 final size:22
Alignment explanation
Indices: 27491734--27491775 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27491724 GTCGAATTGG
27491734 TCACATGAGCGTGTTGCCCCTC
1 TCACATGAGCGTGTTGCCCCTC
27491756 TCACAT-AGGCGTG-TGCCCCT
1 TCACATGA-GCGTGTTGCCCCT
27491776 GTGTCTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.14, C:0.36, G:0.24, T:0.26
Consensus pattern (22 bp):
TCACATGAGCGTGTTGCCCCTC
Found at i:27497753 original size:47 final size:47
Alignment explanation
Indices: 27497680--27497810 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 47
27497670 GGACTATTGT
* *
27497680 GAGCTAGTGTAAGACATGTCTAGGACACGCATCAGCCA--TATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACACGCATCAGCCAGTTA-GACGA
* * *
27497726 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-GACAGTTAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACA-CGCATCAGCCAGTTAGACGA
*
27497774 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCC
1 GAGCTAGTGTAAGACATGTCTGGGACACGCATCAGCC
27497811 TCGAGATGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 19 0.26
47 28 0.39
48 23 0.32
49 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACACGCATCAGCCAGTTAGACGA
Found at i:27505867 original size:43 final size:43
Alignment explanation
Indices: 27505763--27505880 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 43
27505753 TAGGATTTTT
* * *
27505763 GATATGTGATTACGTGTAAGACCATGTCTGGAACATCAGTATC
1 GATATGTGATTACATGTAAGACCATGTCTGGGACATCAGCATC
* * *
27505806 G-TATTTGATT-CTTGTAAGACCTTGTCTGGGACAGTC-GCATC
1 GATATGTGATTACATGTAAGACCATGTCTGGGACA-TCAGCATC
*
27505847 GATATGTGATTACATGTAAGACCACGTCTGGGAC
1 GATATGTGATTACATGTAAGACCATGTCTGGGAC
27505881 GTTGGCATTG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
41 25 0.40
42 18 0.29
43 20 0.32
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATATGTGATTACATGTAAGACCATGTCTGGGACATCAGCATC
Found at i:27505980 original size:56 final size:56
Alignment explanation
Indices: 27505894--27506084 Score: 278
Period size: 56 Copynumber: 3.4 Consensus size: 56
27505884 GGCATTGTAC
* * **
27505894 GATATGTGTCTGTGAGTAAGACCATATTTAATATGTTGGCATCGATATGTGATTCT
1 GATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
*
27505950 GATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCC
1 GATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
**
27506006 GATATGTGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT-T
1 GATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
*
27506061 CGATATGTGT-TAACGAGTAAGACC
1 -GATATGTGTGT-GCGAGTAAGACC
27506085 CTATCTGGGA
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
55 1 0.01
56 123 0.99
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (56 bp):
GATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
Found at i:27506104 original size:56 final size:56
Alignment explanation
Indices: 27505932--27506111 Score: 204
Period size: 56 Copynumber: 3.2 Consensus size: 56
27505922 TAATATGTTG
* * * ** *
27505932 GCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTG
1 GCATCGATATGTGATTCCGATATGTGTGTACGAGTAAGACCACGTTTAAGACATTA
* * *
27505988 GCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACATTG
1 GCATCGATATGTGATTCCGATATGTGTGTACGAGTAAGACCACGTTTAAGACATTA
* **
27506044 GCATCGATATGTGATTTCGATATGTGT-TAACGAGTAAGACC-C-TATCTGGGACATTA
1 GCATCGATATGTGATTCCGATATGTGTGT-ACGAGTAAGACCACGT-T-TAAGACATTA
27506100 GCATCGATATGT
1 GCATCGATATGT
27506112 AATTACATGT
Statistics
Matches: 112, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
54 1 0.01
55 3 0.03
56 108 0.96
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
GCATCGATATGTGATTCCGATATGTGTGTACGAGTAAGACCACGTTTAAGACATTA
Found at i:27506104 original size:112 final size:112
Alignment explanation
Indices: 27505893--27506111 Score: 257
Period size: 112 Copynumber: 2.0 Consensus size: 112
27505883 TGGCATTGTA
* * **
27505893 CGATATGTGTCTGTGAGTAAGACCATATTTAATATGTTGGCATCGATATGTGATTCTGATATGTG
1 CGATATGTGTCTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCTGATATGTG
* * ** *
27505958 TGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTC
66 TGTACGAGTAAGACCACGTTTAAGACATTAGCATCGATATGTGATTC
* *
27506005 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT-TCGATATGT
1 CGATATGTGTCTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCT-GATATGT
**
27506069 GT-TAACGAGTAAGACC-C-TATCTGGGACATTAGCATCGATATGT
65 GTGT-ACGAGTAAGACCACGT-T-TAAGACATTAGCATCGATATGT
27506112 AATTACATGT
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
110 1 0.01
111 4 0.04
112 85 0.94
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (112 bp):
CGATATGTGTCTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCTGATATGTG
TGTACGAGTAAGACCACGTTTAAGACATTAGCATCGATATGTGATTC
Found at i:27507443 original size:13 final size:14
Alignment explanation
Indices: 27507415--27507447 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
27507405 CATTTTGACC
*
27507415 ATGTTTATATTTAT
1 ATGTTTATATTGAT
27507429 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
27507442 ATGTTT
1 ATGTTT
27507448 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:27512740 original size:41 final size:40
Alignment explanation
Indices: 27512613--27512757 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
27512603 CTCGCACAAG
* * * * * *
27512613 GCCTTCGAGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
27512653 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
27512693 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
27512734 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27512758 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:27513695 original size:53 final size:53
Alignment explanation
Indices: 27513615--27513717 Score: 206
Period size: 53 Copynumber: 1.9 Consensus size: 53
27513605 CACCAAACCA
27513615 TTTCAATTTTGGTCATGGTTAAACAAAGAACTTAATGTCTCACTCAAAAATGC
1 TTTCAATTTTGGTCATGGTTAAACAAAGAACTTAATGTCTCACTCAAAAATGC
27513668 TTTCAATTTTGGTCATGGTTAAACAAAGAACTTAATGTCTCACTCAAAAA
1 TTTCAATTTTGGTCATGGTTAAACAAAGAACTTAATGTCTCACTCAAAAA
27513718 CGGTAAAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (53 bp):
TTTCAATTTTGGTCATGGTTAAACAAAGAACTTAATGTCTCACTCAAAAATGC
Found at i:27521328 original size:48 final size:47
Alignment explanation
Indices: 27521214--27521534 Score: 435
Period size: 48 Copynumber: 6.8 Consensus size: 47
27521204 TCAAATTAAC
* * *
27521214 ATGTATAAACATGGCATATCCACTTAGCACCACGTTTATGAATCAAT
1 ATGTGTAACCATGGCATATCCACTTAGCACCACGTTCATGAATCAAT
* * *
27521261 ATATGTAACCATGGCATATCCACTTAGTACCACGTTACATGTATCAAT
1 ATGTGTAACCATGGCATATCCACTTAGCACCACGTT-CATGAATCAAT
* * *
27521309 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAAT
1 ATGTGTAACCATGGCATATCCACTTAGCACCACGTTCATGAATCAAT
* * *
27521356 ATATGTAACCATGGCATATCCACTTAGTACCACGTTACATGTATCAAT
1 ATGTGTAACCATGGCATATCCACTTAGCACCACGTT-CATGAATCAAT
* * *
27521404 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAAT
1 ATGTGTAACCATGGCATATCCACTTAGCACCACGTTCATGAATCAAT
* * *
27521451 ATATGTAACCATGGCATATCCACTTAGTACCACGTTACATGTATCAAT
1 ATGTGTAACCATGGCATATCCACTTAGCACCACGTT-CATGAATCAAT
* *
27521499 ATGTGTAATCATGGTATATCCACTTAGCACCACGTT
1 ATGTGTAACCATGGCATATCCACTTAGCACCACGTT
27521535 TTTTTCTTTC
Statistics
Matches: 237, Mismatches: 34, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
47 114 0.48
48 123 0.52
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (47 bp):
ATGTGTAACCATGGCATATCCACTTAGCACCACGTTCATGAATCAAT
Found at i:27521340 original size:95 final size:95
Alignment explanation
Indices: 27521214--27521535 Score: 617
Period size: 95 Copynumber: 3.4 Consensus size: 95
27521204 TCAAATTAAC
* * *
27521214 ATGTATAAACATGGCATATCCACTTAGCACCACGTTTATGAATCAATATATGTAACCATGGCATA
1 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAATATATGTAACCATGGCATA
27521279 TCCACTTAGTACCACGTTACATGTATCAAT
66 TCCACTTAGTACCACGTTACATGTATCAAT
27521309 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAATATATGTAACCATGGCATA
1 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAATATATGTAACCATGGCATA
27521374 TCCACTTAGTACCACGTTACATGTATCAAT
66 TCCACTTAGTACCACGTTACATGTATCAAT
27521404 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAATATATGTAACCATGGCATA
1 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAATATATGTAACCATGGCATA
27521469 TCCACTTAGTACCACGTTACATGTATCAAT
66 TCCACTTAGTACCACGTTACATGTATCAAT
27521499 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTT
1 ATGTGTAATCATGGTATATCCACTTAGCACCACGTTT
27521536 TTTTCTTTCT
Statistics
Matches: 224, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 224 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (95 bp):
ATGTGTAATCATGGTATATCCACTTAGCACCACGTTTATGAATCAATATATGTAACCATGGCATA
TCCACTTAGTACCACGTTACATGTATCAAT
Found at i:27522815 original size:13 final size:13
Alignment explanation
Indices: 27522797--27522830 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
27522787 CCAAACGTCG
27522797 AAATTTTCGAACA
1 AAATTTTCGAACA
*
27522810 AAATTTTCGAACG
1 AAATTTTCGAACA
27522823 AAATTTTC
1 AAATTTTC
27522831 ACGAAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (13 bp):
AAATTTTCGAACA
Found at i:27526911 original size:93 final size:93
Alignment explanation
Indices: 27526749--27526929 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
27526739 CCACACGCCC
* **
27526749 GTGTGGTTAACCTGTGTGGGCCCACACGGCAGTGTGGTTCACCCGTGTGGGCCCACACGGTAGTA
1 GTGTGGTTAACCCGTGTGGGCCCACACGGCAGTGTGGTTCACCCGTGTGGGCCCACACGACAGTA
27526814 TGGTTCACCCATGTGGGCCCACATGGTA
66 TGGTTCACCCATGTGGGCCCACATGGTA
* * * * *
27526842 GTGTGGTTCACCCGTGTGGGCCTACACGGCCGTGTGGTTCACCTGTGTGGGCCTC-CACGACCGT
1 GTGTGGTTAACCCGTGTGGGCCCACACGGCAGTGTGGTTCACCCGTGTGGGCC-CACACGACAGT
* *
27526906 GTGGTTCACTCATGTGGGCCCACA
65 ATGGTTCACCCATGTGGGCCCACA
27526930 CGACCTAACC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 76 0.99
94 1 0.01
ACGTcount: A:0.14, C:0.29, G:0.33, T:0.24
Consensus pattern (93 bp):
GTGTGGTTAACCCGTGTGGGCCCACACGGCAGTGTGGTTCACCCGTGTGGGCCCACACGACAGTA
TGGTTCACCCATGTGGGCCCACATGGTA
Found at i:27526934 original size:31 final size:31
Alignment explanation
Indices: 27526738--27526931 Score: 228
Period size: 31 Copynumber: 6.3 Consensus size: 31
27526728 GGCCCAGAAT
* * *
27526738 CCCACACGCCCGTGTGGTTAACCTGTGTGGG
1 CCCACACGGCCGTGTGGTTCACCCGTGTGGG
*
27526769 CCCACACGGCAGTGTGGTTCACCCGTGTGGG
1 CCCACACGGCCGTGTGGTTCACCCGTGTGGG
** * *
27526800 CCCACACGGTAGTATGGTTCACCCATGTGGG
1 CCCACACGGCCGTGTGGTTCACCCGTGTGGG
* **
27526831 CCCACATGGTAGTGTGGTTCACCCGTGTGGG
1 CCCACACGGCCGTGTGGTTCACCCGTGTGGG
* *
27526862 CCTACACGGCCGTGTGGTTCACCTGTGTGGG
1 CCCACACGGCCGTGTGGTTCACCCGTGTGGG
* * *
27526893 CCTC-CACGACCGTGTGGTTCACTCATGTGGG
1 CC-CACACGGCCGTGTGGTTCACCCGTGTGGG
27526924 CCCACACG
1 CCCACACG
27526932 ACCTAACCCA
Statistics
Matches: 141, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
30 1 0.01
31 140 0.99
ACGTcount: A:0.14, C:0.31, G:0.32, T:0.23
Consensus pattern (31 bp):
CCCACACGGCCGTGTGGTTCACCCGTGTGGG
Found at i:27527991 original size:20 final size:20
Alignment explanation
Indices: 27527966--27528005 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27527956 GTGTAAACGA
27527966 AAAAATATATAGGATTTTTC
1 AAAAATATATAGGATTTTTC
27527986 AAAAATATATAGGATTTTTC
1 AAAAATATATAGGATTTTTC
27528006 CTATGTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAAATATATAGGATTTTTC
Found at i:27536952 original size:56 final size:56
Alignment explanation
Indices: 27536886--27536992 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
27536876 AAGGAAAATT
27536886 TACATTATTGGATTAAAAGTTTCGTAACTAGAGATATGGATTTTTTTAGCGTCAGA
1 TACATTATTGGATTAAAAGTTTCGTAACTAGAGATATGGATTTTTTTAGCGTCAGA
**
27536942 TACATTATTGGATTTCAAGTTTCGTAACTAGAGATATGGATTTTTTTAGCG
1 TACATTATTGGATTAAAAGTTTCGTAACTAGAGATATGGATTTTTTTAGCG
27536993 ACTGTGACGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (56 bp):
TACATTATTGGATTAAAAGTTTCGTAACTAGAGATATGGATTTTTTTAGCGTCAGA
Found at i:27543715 original size:79 final size:81
Alignment explanation
Indices: 27543606--27543788 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
27543596 TACTCGTTCA
* *
27543606 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
27543669 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
27543686 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
27543749 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
27543765 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27543789 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:27543788 original size:40 final size:40
Alignment explanation
Indices: 27543585--27543788 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
27543575 CGGAATTTAA
** *
27543585 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27543625 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27543665 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27543704 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27543744 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27543784 CCGGA
1 CCGGA
27543789 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27544982 original size:56 final size:56
Alignment explanation
Indices: 27544915--27545034 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
27544905 TATTAGTTTA
27544915 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
27544971 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27545027 TTGCCCAT
1 TTGCCCAT
27545035 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:27557355 original size:16 final size:16
Alignment explanation
Indices: 27557331--27557361 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27557321 TGGTTATTTG
*
27557331 ATATGTGATGCAAATT
1 ATATATGATGCAAATT
27557347 ATATATGATGCAAAT
1 ATATATGATGCAAAT
27557362 GAAAATATAT
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:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (16 bp):
ATATATGATGCAAATT
Found at i:27557371 original size:19 final size:18
Alignment explanation
Indices: 27557347--27557392 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
27557337 GATGCAAATT
27557347 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
27557366 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
27557384 AGTATATGT
1 A-TATATGT
27557393 ATAAGTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:27564080 original size:30 final size:30
Alignment explanation
Indices: 27564046--27564106 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27564036 TCCTTAACTC
27564046 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27564076 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27564106 A
1 A
27564107 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27568527 original size:30 final size:30
Alignment explanation
Indices: 27568493--27568553 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27568483 TCCTTAACTC
27568493 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27568523 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27568553 A
1 A
27568554 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27570582 original size:53 final size:53
Alignment explanation
Indices: 27570499--27570604 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
27570489 ATGCTTATGT
*
27570499 TAGGTAATGCCTCGTAACCTTAATCCAGCGACAGATACGGGTTAGGGGTGTTA
1 TAGGTAATGCCTCGTAACCCTAATCCAGCGACAGATACGGGTTAGGGGTGTTA
* * *
27570552 TAGGTAATGCCTCGTAACCCTATTCTAGCGACGGATACGGGTTAGGGGTGTTA
1 TAGGTAATGCCTCGTAACCCTAATCCAGCGACAGATACGGGTTAGGGGTGTTA
27570605 CAAGTTGCGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (53 bp):
TAGGTAATGCCTCGTAACCCTAATCCAGCGACAGATACGGGTTAGGGGTGTTA
Found at i:27580101 original size:26 final size:26
Alignment explanation
Indices: 27580071--27580126 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
27580061 TGAAATTCCC
27580071 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27580097 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27580123 ATCA
1 ATCA
27580127 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27580821 original size:20 final size:21
Alignment explanation
Indices: 27580774--27580814 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27580764 CATGTATTTT
*
27580774 AATGATTGATGATAGATTATA
1 AATGTTTGATGATAGATTATA
27580795 AATGTTTGATGATAG-TTATA
1 AATGTTTGATGATAGATTATA
27580815 CAAGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATA
Found at i:27586309 original size:583 final size:583
Alignment explanation
Indices: 27585168--27586451 Score: 1659
Period size: 583 Copynumber: 2.2 Consensus size: 583
27585158 TACACAGGCA
* * *
27585168 TGTGTCCCCTGTTTTGAGAAAAAATTTCAAAGTTTGTGAAAGTTTCTTAAGTTATTAGTTTAGTC
1 TGTGTCCCCTGTTTTGAGAAAAAATTTAAAAGTTCGTGAAAGTTTCTTAAGTTATCAGTTTAGTC
* * * *
27585233 CTGAGTTACTCCAAATGTATGTTTAGGGCCTCGTAGGCTCGTATTAGGGACAAATTGATTTAGAT
66 CTGAATCACTCCAAATGTATGTTTAGGGCCTCGTAGGCTCGTATTAGGGACAAATTGACTGAGAT
*
27585298 TGAATGATGATTGTATGTATTGATTAAATGTTTGAGAAAAGTATGTTTAAATGTGTTGTAAGTCC
131 TGAATGATGATTGTATGTATTGATTAAATGTTTGAGAAAACTATGTTTAAATGTGTTGTAAGTCC
* * *
27585363 GGTAATGCTCCGTAACCCTATTTCAGCGTTGAATACGGGTGAGGGGTGTTGAGTGTGTCCCTGGT
196 GGTAATGCTCCGTAACCCTATTTCAGCGTTGAATACGAGTGAAGGGTGTTGAATGTGTCCCTGGT
* * * * *
27585428 GTTGAATTAAAAATCAAGTCAGTATGCTTCACACGGCCTCACACATGGGTCTGTGACTTGGTCGT
261 GTTGAATTAAAAATCAAGTCAGTATGCTCCACACAGCCTCACACACGGGTCTGTAACTTGGCCGT
* * * * * * ** *
27585493 GTGGCATAAGTTAGTATACCCTATAGGTTTGGCATGCCTAGCATACGACCTGGCACATTGGCGTG
326 ATGGCATAAGTCAGTATACCCTACAGGTTTGGCAAGCCTAGCACACGACCTAGCACACGGGCATG
* * * *
27585558 TGTGGCCATTTTTAGGGCACATGGGCAAGCCATACAGGTGTGTGTGTTGGCCGTGTGACCAAAGT
391 TGTGGCCATTTTTAGGGCACACGGGCAAGCCACACAGGCGTGTGTGTTGGCCATGTGACCAAAGT
* * * ** * *
27585623 CAGAGAGTTACATGGGGTTGGACATAGGCTTGGAGACGGCCATGTGCTCCCATTTCGAATGTCCA
456 CAAAGAGTTACACGGGATCAGACACAGGCTTGGAGACGGCCATGTGCTCCCATTTCGAATATCCA
* * *
27585688 CACGTCTTGTGACACGGGAGTGTCTGGTGGCCGTGTGAGACACACGGCCTCGCCACATGGGCG
521 CACGGCCTGTGACACGGGAGTGTCTGGTGGCCGTGTGAGAAACACGGCCTCGCCACATGGGCG
*
27585751 TGTGTCCCCTGTTTTGAGAAAAAATTTAAAAGTTCGTGAAAGTTTCTTAATTTATCAGTTTAGTC
1 TGTGTCCCCTGTTTTGAGAAAAAATTTAAAAGTTCGTGAAAGTTTCTTAAGTTATCAGTTTAGTC
* *
27585816 CTGAATCACTCCCAATGTATGTTTA-GGCCTTGTAGGCTCGTATTAGGGACAAATTGACTGAGAT
66 CTGAATCACTCCAAATGTATGTTTAGGGCCTCGTAGGCTCGTATTAGGGACAAATTGACTGAGAT
*
27585880 TGAATGATGATTGTATGTATTGATTAAATGTTTGAGAAAACTATGTTTAAATGTGTTGTAAGTCT
131 TGAATGATGATTGTATGTATTGATTAAATGTTTGAGAAAACTATGTTTAAATGTGTTGTAAGTCC
** ** *
27585945 GGTAATGCTTTGTAACCCTATTTTGGCTTTGAATACGAGTGAAGGGTGTTGTAATGTGTCCCTGG
196 GGTAATGCTCCGTAACCCTATTTCAGCGTTGAATACGAGTGAAGGGTGTTG-AATGTGTCCCTGG
* * * * *
27586010 TGTTGAATTAAAAATCGATTCAGTATGCTCCATATAGCCTCACACACGGGTGTGTAACTTGGCCG
260 TGTTGAATTAAAAATCAAGTCAGTATGCTCCACACAGCCTCACACACGGGTCTGTAACTTGGCCG
* * *
27586075 TATGGCATAAGTCCGTATACCCTACAGTTTTGGCACAGCCTAGCACACGACCTAGCATACGGGCA
325 TATGGCATAAGTCAGTATACCCTACAGGTTTGGCA-AGCCTAGCACACGACCTAGCACACGGGCA
* *
27586140 TGTGTGGCCATTTTTAGGGCACACGGGCTAGCCACACAGGCGTGTGTGTTGGCCATGTGACCCAA
389 TGTGTGGCCATTTTTAGGGCACACGGGCAAGCCACACAGGCGTGTGTGTTGGCCATGTGACCAAA
* *
27586205 GTCAAATAGTTATACGGGATCAGACACAGGC-TGG-GACGCGACCATGTGCTCCCATTTCGAATA
454 GTCAAAGAGTTACACGGGATCAGACACAGGCTTGGAGACG-G-CCATGTGCTCCCATTTCGAATA
* * * * * * * * *
27586268 TCCACACGGCCTGTGACACTGGTGTGTCT-TTGGCTGTGTGAGAAACAC-GACTGGGCTATACGG
517 TCCACACGGCCTGTGACACGGGAGTGTCTGGTGGCCGTGTGAGAAACACGGCCT-CGCCACATGG
*
27586331 GTG
581 GCG
* ** ** * *
27586334 TGTGTCCCCTATTTTTGAGAAAATTTTCTAAGTGTTC-TAAAAGTTTC-TAAGTTATTAGTTTAG
1 TGTGTCCCCT-GTTTTGAGAAAAAATT-TAAAAGTTCGTGAAAGTTTCTTAAGTTATCAGTTTAG
* * * * * ** *
27586397 TCTTGAGCTTC-C-CCGAATGCATGTTTTGGGCCTTATAGGCTCGTATTAGGAACAA
64 TCCTGA--ATCACTCCAAATGTATGTTTAGGGCCTCGTAGGCTCGTATTAGGGACAA
27586452 TATGATTGGT
Statistics
Matches: 606, Mismatches: 85, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
582 150 0.25
583 249 0.41
584 198 0.33
585 9 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (583 bp):
TGTGTCCCCTGTTTTGAGAAAAAATTTAAAAGTTCGTGAAAGTTTCTTAAGTTATCAGTTTAGTC
CTGAATCACTCCAAATGTATGTTTAGGGCCTCGTAGGCTCGTATTAGGGACAAATTGACTGAGAT
TGAATGATGATTGTATGTATTGATTAAATGTTTGAGAAAACTATGTTTAAATGTGTTGTAAGTCC
GGTAATGCTCCGTAACCCTATTTCAGCGTTGAATACGAGTGAAGGGTGTTGAATGTGTCCCTGGT
GTTGAATTAAAAATCAAGTCAGTATGCTCCACACAGCCTCACACACGGGTCTGTAACTTGGCCGT
ATGGCATAAGTCAGTATACCCTACAGGTTTGGCAAGCCTAGCACACGACCTAGCACACGGGCATG
TGTGGCCATTTTTAGGGCACACGGGCAAGCCACACAGGCGTGTGTGTTGGCCATGTGACCAAAGT
CAAAGAGTTACACGGGATCAGACACAGGCTTGGAGACGGCCATGTGCTCCCATTTCGAATATCCA
CACGGCCTGTGACACGGGAGTGTCTGGTGGCCGTGTGAGAAACACGGCCTCGCCACATGGGCG
Found at i:27590431 original size:68 final size:67
Alignment explanation
Indices: 27590359--27590508 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
27590349 CATCATGTGT
* * * *
27590359 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
27590421 ATGTAG
62 ATGTAG
** * *
27590427 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
27590492 AG
66 AG
27590494 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
27590509 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:27590464 original size:64 final size:64
Alignment explanation
Indices: 27590383--27590566 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
27590373 AGACATTATG
* *
27590383 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
27590447 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
27590512 AA
63 AA
* * * *
27590514 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
27590567 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:27594763 original size:68 final size:64
Alignment explanation
Indices: 27594653--27594906 Score: 221
Period size: 68 Copynumber: 3.9 Consensus size: 64
27594643 ATACAGATGG
** * * * *
27594653 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
27594716 ATTA
62 A-TA
* * *
27594720 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGAGAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
27594785 TATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
27594850 TA
63 TA
* * *
27594852 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCT
27594907 GAACTATATG
Statistics
Matches: 154, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 20 0.13
64 25 0.16
65 3 0.02
66 24 0.16
67 32 0.21
68 48 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:27599973 original size:34 final size:34
Alignment explanation
Indices: 27599902--27599988 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 34
27599892 TACTGAATTA
* * *
27599902 GGCTAAGGCCCACACTGATACTATTACCGTAATG
1 GGCTAAGGCCCACACTGATAATACTACAGTAATG
* *
27599936 GGCTAAGGCCCACGCTGATAATGCTACAGATAA-G
1 GGCTAAGGCCCACACTGATAATACTACAG-TAATG
* * *
27599970 GGCTTAGGCCTAGACTGAT
1 GGCTAAGGCCCACACTGAT
27599989 TGTACTGCAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
34 40 0.93
35 3 0.07
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (34 bp):
GGCTAAGGCCCACACTGATAATACTACAGTAATG
Found at i:27601115 original size:43 final size:42
Alignment explanation
Indices: 27601049--27601204 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
27601039 AGCTCATACA
* *
27601049 ATGCC-ATATCCCAGATATGGTCTTACAAGTTATTACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAAG-TATTACATATCG
* * *
27601091 ATGCCACTGTCCCAGACA-GTGTCTTA-AACGAAATTGA-ATAACG
1 ATGCCAATGTCCCAGACATG-GTCTTACAA-G-TATT-ACATATCG
* * *
27601134 ATGCCAATGTCCCAGACATGGTCTTACACGTATT-CTTAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTATTACAT-AT-CG
27601177 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
27601205 TGTAATCAGA
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 12 0.13
43 77 0.83
44 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACAAGTATTACATATCG
Found at i:27614277 original size:28 final size:28
Alignment explanation
Indices: 27614245--27614348 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
27614235 GATTGCATGA
*
27614245 ATATGAATGTGATTGGGCCTGACGGACC
1 ATATGAATGTGATTGGGCCTGATGGACC
*
27614273 ATATGAATGTGATTGGGTCTGATGGACC
1 ATATGAATGTGATTGGGCCTGATGGACC
* *
27614301 ATATGAATGTGATTGGGCCCGATGGGCC
1 ATATGAATGTGATTGGGCCTGATGGACC
27614329 ATATGAATGTGATTGGGCCT
1 ATATGAATGTGATTGGGCCT
27614349 AAAGGGGCTA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTGATGGACC
Found at i:27621493 original size:28 final size:28
Alignment explanation
Indices: 27621453--27621573 Score: 136
Period size: 28 Copynumber: 4.3 Consensus size: 28
27621443 GATTGCATGA
*
27621453 ATATGAAAGTGATTGGGCTTGAAGGGCC
1 ATATGAATGTGATTGGGCTTGAAGGGCC
*
27621481 ATATGAATGTGATTGGGCTTGATGGGCC
1 ATATGAATGTGATTGGGCTTGAAGGGCC
** *
27621509 ATATGAATGTGATTGGGC-CCAGTGGGCC
1 ATATGAATGTGATTGGGCTTGA-AGGGCC
* * *
27621537 ATATGAATGAGATTGGGCCTAAAGGGGCC
1 ATATGAATGTGATTGGGCTTGAA-GGGCC
*
27621566 AAATGAAT
1 ATATGAAT
27621574 AAGTATGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
27 1 0.01
28 67 0.83
29 13 0.16
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.26
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCTTGAAGGGCC
Found at i:27622846 original size:17 final size:18
Alignment explanation
Indices: 27622813--27622846 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27622803 TTCAAAGAAG
27622813 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
27622831 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
27622847 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:27625227 original size:16 final size:16
Alignment explanation
Indices: 27625206--27625238 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27625196 GTGTAACGCC
*
27625206 CCAAAAATCCTGAAAT
1 CCAAAAATCCCGAAAT
27625222 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
27625238 C
1 C
27625239 TTGAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:27626509 original size:16 final size:16
Alignment explanation
Indices: 27626478--27626510 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27626468 AGTCGAAATC
*
27626478 TCAAAATGCCGAAAAG
1 TCAAAATACCGAAAAG
27626494 TCAAAATACCGAAAAG
1 TCAAAATACCGAAAAG
27626510 T
1 T
27626511 TGAAAGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (16 bp):
TCAAAATACCGAAAAG
Found at i:27626781 original size:29 final size:28
Alignment explanation
Indices: 27626726--27626840 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
27626716 GTGAGCATGA
* * * *
27626726 ATATGAATGTGACTGGGCGTAAAGGGCC
1 ATATAAATGTGATTGGGCATAATGGGCC
27626754 ATATAAATGTGATTTGGGCATAATGGGCC
1 ATATAAATGTGA-TTGGGCATAATGGGCC
* *
27626783 ATATACAA-GTGGTTTGGGCCTAATGGGCC
1 ATATA-AATGT-GATTGGGCATAATGGGCC
* ** *
27626812 ATATGAATACGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCATAATGGGCC
27626840 A
1 A
27626841 GATACAGGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 30 0.42
29 39 0.54
30 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCATAATGGGCC
Found at i:27638607 original size:40 final size:40
Alignment explanation
Indices: 27638435--27638600 Score: 298
Period size: 40 Copynumber: 4.2 Consensus size: 40
27638425 AACCCAAGTA
* *
27638435 CCTTCGGGATTTAG-CCGGATATAGAAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
27638474 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
27638514 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
27638554 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
27638594 CCTTCGG
1 CCTTCGG
27638601 ATCTTAGTCC
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 13 0.11
40 110 0.89
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:27639992 original size:13 final size:13
Alignment explanation
Indices: 27639974--27639999 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27639964 ACTTTTATTT
27639974 TTAACATAAAATA
1 TTAACATAAAATA
27639987 TTAACATAAAATA
1 TTAACATAAAATA
27640000 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:27640517 original size:16 final size:16
Alignment explanation
Indices: 27640496--27640528 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27640486 TTGTAACGCC
27640496 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
27640512 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
27640528 C
1 C
27640529 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:27641945 original size:18 final size:19
Alignment explanation
Indices: 27641912--27641947 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27641902 ATTTGGCCAT
27641912 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
*
27641931 ATGGGCCCG-ATGGGCTA
1 ATGGGCCAGAATGGGCTA
27641948 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:27642093 original size:28 final size:29
Alignment explanation
Indices: 27642027--27642124 Score: 83
Period size: 28 Copynumber: 3.4 Consensus size: 29
27642017 TGAATGTGAC
* * *
27642027 TGGGCCTAACGGGTCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* * *
27642056 TGGGCATAATGGGCCATAT-ACGGTGGTT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* * **
27642084 TGGGCCTAATGAGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
27642112 TGGGCTTAATGGG
1 TGGGCCTAATGGG
27642125 TCAGATACAA
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
28 35 0.65
29 19 0.35
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.30
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:27649723 original size:29 final size:28
Alignment explanation
Indices: 27649673--27649782 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 28
27649663 CATGAATGTG
* *
27649673 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
*
27649701 AATGTGATTTGGGCATAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * * * *
27649730 CAGGTGGTTTTGGCCTAATGGGCCATATG
1 AATGT-GATTGGGCCTAATGGGCCATATA
* *
27649759 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
27649783 GATACAGGTA
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
28 23 0.35
29 41 0.63
30 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:27649788 original size:57 final size:58
Alignment explanation
Indices: 27649683--27649791 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
27649673 AATGTGACTG
* *
27649683 GGCCTAACGGGCCATATAAATGTGATTTGGGCATAATGGGCCATATACAGGTGGTTTT
1 GGCCTAACGGGCCATATAAATATGATTTGGGCATAATGGGCCAGATACAGGTGGTTTT
* * *
27649741 GGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTTGGGCATAATGGGCCAGATACAGGT
27649792 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (58 bp):
GGCCTAACGGGCCATATAAATATGATTTGGGCATAATGGGCCAGATACAGGTGGTTTT
Found at i:27659266 original size:18 final size:18
Alignment explanation
Indices: 27659243--27659278 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27659233 GAGCAATTTC
27659243 CAAGAACTTTGATGAACA
1 CAAGAACTTTGATGAACA
27659261 CAAGAACTTTGATGAACA
1 CAAGAACTTTGATGAACA
27659279 ATGCCCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
CAAGAACTTTGATGAACA
Found at i:27664962 original size:58 final size:58
Alignment explanation
Indices: 27664891--27665069 Score: 143
Period size: 61 Copynumber: 3.1 Consensus size: 58
27664881 TATATATTAT
*
27664891 TTTTA-TAATATTATATATTATGATTTTTT-AATT-CATATAATAATGATTATATTAAGAA
1 TTTTATTAA-ATTATATATTAT-ATTTTTTAAATTGCATATAATAATAATTATATTAA-AA
* *
27664949 TTTTATTAAATTATATA--ATATTTTATTAAATTGTATTTAATAATAATTATATTAAAA
1 TTTTATTAAATTATATATTATATTTT-TTAAATTGCATATAATAATAATTATATTAAAA
* * * * * ** * * *
27665006 TATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTAACAATAATTTTATTAAAA
1 TTTTATTAAATTATATA-TTATA-TTTT-TTAAATTGCATATAATAATAATTATATTAAAA
27665067 TTT
1 TTT
27665070 AATAACAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
55 5 0.05
56 4 0.04
57 20 0.20
58 32 0.32
59 3 0.03
60 2 0.02
61 35 0.35
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (58 bp):
TTTTATTAAATTATATATTATATTTTTTAAATTGCATATAATAATAATTATATTAAAA
Found at i:27665038 original size:61 final size:57
Alignment explanation
Indices: 27664928--27665067 Score: 154
Period size: 61 Copynumber: 2.4 Consensus size: 57
27664918 TTAATTCATA
* * * * *
27664928 TAATAATGATTATATTAAGAATTTTATTAAATTATATAATATTTTATTAAATTGTATT
1 TAATAATAATTATATTAA-AATATGATTAAATTATATAATATTTTATTAAAATATATT
**
27664986 TAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATT
1 TAATAATAATTATATTAAAATATGATTAAATTA--TA-TAATA-TTTTATTAAAATATATT
* *
27665047 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
27665068 TTAATAACAA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
57 13 0.19
58 17 0.25
59 2 0.03
60 3 0.04
61 34 0.49
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (57 bp):
TAATAATAATTATATTAAAATATGATTAAATTATATAATATTTTATTAAAATATATT
Found at i:27665059 original size:26 final size:25
Alignment explanation
Indices: 27665030--27665080 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
27665020 TTATTTTTAT
*
27665030 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATA-ATAACAATAA
*
27665056 TTTTATTAAAATTTAATAACAATAA
1 TTTTATTAAAATATAATAACAATAA
27665081 CAATAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTATTAAAATATAATAACAATAA
Found at i:27665253 original size:46 final size:44
Alignment explanation
Indices: 27665161--27665253 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
27665151 TACAACATCT
*
27665161 ATTCCATTCAACCAAACACAAGAATCCTATTACAACTCTATTCC
1 ATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTCC
*** *
27665205 ATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACACAAGAA-TACT-ATTACAACTCTATTCC
27665251 ATT
1 ATT
27665254 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.50
45 3 0.07
46 18 0.43
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.31
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTCC
Found at i:27665256 original size:16 final size:16
Alignment explanation
Indices: 27665235--27665305 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
27665225 TGAATTACTG
27665235 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
27665251 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
27665267 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
* *
27665283 ATTATAGCCCTATTCC
1 ATTACAGCTCTATTCC
27665299 ATTACAG
1 ATTACAG
27665306 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:27667274 original size:6 final size:6
Alignment explanation
Indices: 27667258--27667299 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
27667248 CTAGCCGAAT
27667258 AGAAGAA AGAAAA AGAAAGA A-AAAA AGAAAA AGAAAA AGAAA
1 AGAA-AA AGAAAA AGAAA-A AGAAAA AGAAAA AGAAAA AGAAA
27667300 GCTCTCATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.06
6 25 0.76
7 6 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:27667300 original size:10 final size:10
Alignment explanation
Indices: 27667260--27667293 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
27667250 AGCCGAATAG
27667260 AAGAAAGAAA
1 AAGAAAGAAA
27667270 AAGAAAG-AA
1 AAGAAAGAAA
27667279 AA-AAAGAAA
1 AAGAAAGAAA
27667288 AAGAAA
1 AAGAAA
27667294 AAGAAAGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.18
9 8 0.36
10 10 0.45
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:27668262 original size:39 final size:40
Alignment explanation
Indices: 27668160--27668350 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 40
27668150 TATCTTGACT
* * **
27668160 CGAAGGCATTCGTACGAGCTACTATATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAATTACTATAT-CCGGGCTAAGTCC
* * *
27668201 CGAAGGCCTTTGTGC-AAGTTACTATATCCGGGC-ACGTCT
1 CGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAGTCC
* * * *
27668240 CGAAGGTATTTTTGCGAATTACTAAATCTGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCC
* * * * * *
27668280 CGAAGGTAATTGTGCGAGTTACTCTAACCGGGCTATGTCC
1 CGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCC
* *
27668320 CGAAGGCATTTGAGCG-AGTAGCTATATCCGG
1 CGAAGGCATTTGTGCGAATTA-CTATATCCGG
27668351 TTAAATTCCG
Statistics
Matches: 117, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
39 31 0.26
40 66 0.56
41 20 0.17
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCC
Found at i:27674169 original size:17 final size:16
Alignment explanation
Indices: 27674125--27674171 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
27674115 TAGTATATAG
27674125 ATTATTT-TTTATTAT
1 ATTATTTATTTATTAT
*
27674140 A-TA-TTATTCATTAT
1 ATTATTTATTTATTAT
27674154 ATTATTTATATTATTAT
1 ATTATTTAT-TTATTAT
27674171 A
1 A
27674172 CATTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.08
14 10 0.38
15 3 0.12
16 4 0.15
17 7 0.27
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTTATTTATTAT
Found at i:27674218 original size:19 final size:19
Alignment explanation
Indices: 27674180--27674218 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27674170 TACATTTTGT
* *
27674180 TTATAAATTTTATTATATA
1 TTATAAATTTTACTACATA
*
27674199 TTATATATTTTACTACATA
1 TTATAAATTTTACTACATA
27674218 T
1 T
27674219 ATTATTCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATAAATTTTACTACATA
Found at i:27674239 original size:56 final size:52
Alignment explanation
Indices: 27674131--27674258 Score: 118
Period size: 56 Copynumber: 2.4 Consensus size: 52
27674121 ATAGATTATT
* **
27674131 TTTTATTATATATTAT-TCATTATATTATTTATATTATTATACATTTTGTTTATAAA
1 TTTTATTATATATTATAT-ATTATACTACATATATTATTATACA-TTTGTTT-T--A
* *
27674187 TTTTATTATATATTATATATTTTACTACATATATTATTCCTTACA-TT-TTTTA
1 TTTTATTATATATTATATATTATACTACATATATTATT--ATACATTTGTTTTA
*
27674239 TTTTATTATAAATTATATAT
1 TTTTATTATATATTATATAT
27674259 ATTCTTTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
52 20 0.32
54 1 0.02
55 3 0.05
56 34 0.54
57 1 0.02
58 4 0.06
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (52 bp):
TTTTATTATATATTATATATTATACTACATATATTATTATACATTTGTTTTA
Found at i:27674823 original size:23 final size:23
Alignment explanation
Indices: 27674757--27674824 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
27674747 TTTGTATTTT
* *
27674757 TGCATGAAATGATAATGTGTATA
1 TGCATGAAATGTTAATGTATATA
* ** * *
27674780 TTCATGTTATTTGTGAT-TATATA
1 TGCATGAAATGT-TAATGTATATA
27674803 TGCATGAAATGTTAATGTATAT
1 TGCATGAAATGTTAATGTATAT
27674825 TGTGTGATTT
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
22 3 0.10
23 25 0.81
24 3 0.10
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
TGCATGAAATGTTAATGTATATA
Found at i:27689087 original size:44 final size:44
Alignment explanation
Indices: 27689032--27689569 Score: 788
Period size: 44 Copynumber: 12.2 Consensus size: 44
27689022 GTAGATCACC
**
27689032 GATAACAGATTTGGCGTCTCTGTATTAACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
27689076 GATGACAGATTTGGTGTATCTGTATTGTCAGAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
27689120 GATAACAGATTTGGCGTCTCTGTATTCTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
27689164 GATGATAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
27689208 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
27689252 GATGACAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
27689296 GATAACAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
27689340 GATGACAGATTCGGTGTCTCTATATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
27689384 GATGACAAATTTGGTGTCTCTGTATTTTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
27689428 GATAACAGATTTGGTGTCTCTGTATTGTCAGAAAGCATATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * *
27689472 GATAGCAGATTTGGCGTGTCTATATTGGCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
27689516 GATAACAGATTTGGCGTTTCTGTATTGACAGAGAGCATATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
27689560 GATAGCAGAT
1 GATAACAGAT
27689570 CTCACATTTG
Statistics
Matches: 444, Mismatches: 50, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 444 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:27691294 original size:21 final size:20
Alignment explanation
Indices: 27691238--27691294 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 20
27691228 ATTTATATTA
27691238 TTATACATTTTATTTATAAATT
1 TTATACA-TTTA-TTATAAATT
*
27691260 TTAT-CATATATTATAAATT
1 TTATACATTTATTATAAATT
27691279 TTACTACATTTATTAT
1 TTA-TACATTTATTAT
27691295 TCCTTACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 12 0.39
20 4 0.13
21 11 0.35
22 4 0.13
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATACATTTATTATAAATT
Found at i:27691348 original size:24 final size:24
Alignment explanation
Indices: 27691287--27691348 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
27691277 TTTTACTACA
* * *
27691287 TTTATTATTCCTTACATTTTTTAT
1 TTTATTATTCATTACATATATTAT
** * *
27691311 TTTATTATAAATTATATATATTCT
1 TTTATTATTCATTACATATATTAT
27691335 TTTATTATTCATTA
1 TTTATTATTCATTA
27691349 AATTAAGTAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTATTATTCATTACATATATTAT
Found at i:27691378 original size:12 final size:12
Alignment explanation
Indices: 27691361--27691395 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
27691351 TTAAGTAAGC
27691361 TTTTTTTAAAAT
1 TTTTTTTAAAAT
27691373 TTTTTTTAAAAT
1 TTTTTTTAAAAT
27691385 TTTTTTATAAA
1 TTTTTT-TAAA
27691396 TTATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTTTTAAAAT
Found at i:27697732 original size:92 final size:92
Alignment explanation
Indices: 27697575--27697758 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
27697565 AAGCAAAGAG
* *
27697575 AAAGTGAGTTTTATACCTGATACTTCATATATTTTATTATATCATAATCATGTTTCAAGTTATTT
1 AAAGTGAATTTTATACCTGATAATTCATATATTTTATTATATCATAATCATGTTTCAAGTTATTT
27697640 TCTATTTTTTCCCATATCATATACCGT
66 TCTATTTTTTCCCATATCATATACCGT
27697667 AAAGTGAATTTTATACCTGATAATTCATATATTTTATTATATCATAATCATGTTTCAAGTTATTT
1 AAAGTGAATTTTATACCTGATAATTCATATATTTTATTATATCATAATCATGTTTCAAGTTATTT
27697732 TCTATTTTTTCCCATATCATATACCGT
66 TCTATTTTTTCCCATATCATATACCGT
27697759 TGCATGTCTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (92 bp):
AAAGTGAATTTTATACCTGATAATTCATATATTTTATTATATCATAATCATGTTTCAAGTTATTT
TCTATTTTTTCCCATATCATATACCGT
Found at i:27699827 original size:32 final size:32
Alignment explanation
Indices: 27699786--27699849 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
27699776 GTGGATAACA
27699786 TTATCCTATGTTGTTCAGACTCTTTCGTTTTC
1 TTATCCTATGTTGTTCAGACTCTTTCGTTTTC
27699818 TTATCCTATGTTGTTCAGACTCTTTCGTTTTC
1 TTATCCTATGTTGTTCAGACTCTTTCGTTTTC
27699850 CCTAATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.22, G:0.12, T:0.53
Consensus pattern (32 bp):
TTATCCTATGTTGTTCAGACTCTTTCGTTTTC
Found at i:27705969 original size:37 final size:37
Alignment explanation
Indices: 27705912--27706017 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
27705902 TATGATCACT
*
27705912 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
27705947 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
*
27705984 TATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
27706018 GAAGCTATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:27706059 original size:52 final size:52
Alignment explanation
Indices: 27705980--27706144 Score: 243
Period size: 46 Copynumber: 3.2 Consensus size: 52
27705970 TAAGTGTAGC
* *
27705980 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
27706033 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
27706085 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
27706131 CACTTTGTCACTTG
1 CACTTT-TCACTTG
27706145 ATCAGAAGTA
Statistics
Matches: 101, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
46 44 0.44
49 1 0.01
50 1 0.01
52 43 0.43
53 12 0.12
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:27708163 original size:52 final size:52
Alignment explanation
Indices: 27708085--27708329 Score: 403
Period size: 52 Copynumber: 4.8 Consensus size: 52
27708075 AAATTCAAGC
27708085 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
* *
27708137 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
*
27708183 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
27708235 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
* *
27708287 GATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAA
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
27708330 AGTGATAAGT
Statistics
Matches: 180, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
46 44 0.24
52 136 0.76
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (52 bp):
GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
Found at i:27708250 original size:98 final size:99
Alignment explanation
Indices: 27708085--27708340 Score: 397
Period size: 98 Copynumber: 2.5 Consensus size: 99
27708075 AAATTCAAGC
*
27708085 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGC
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGC
*
27708150 TTCGGCTATACTTATCTGATCAAGTGAC-AAAGT
66 TTCGGCTACACTTATCTGATCAAGTGACGAAAGT
*
27708183 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGC
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGC
27708248 TTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
66 TTCGGCTACACTTATCTGATCAAGTGAC-----GAAAGT
* * *
27708287 GATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTGAAAAGTG
27708341 GCTACACTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
98 90 0.62
104 44 0.30
105 11 0.08
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (99 bp):
GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGC
TTCGGCTACACTTATCTGATCAAGTGACGAAAGT
Found at i:27708350 original size:37 final size:37
Alignment explanation
Indices: 27708303--27708412 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
27708293 TGATAGCTTC
*
27708303 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
27708340 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
27708377 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
27708412 G
1 G
27708413 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:27709323 original size:21 final size:20
Alignment explanation
Indices: 27709297--27709350 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
27709287 AACAGCGGTG
27709297 GCGGTGAGATTAATTACTGTA
1 GCGGTGAGATTAA-TACTGTA
*
27709318 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATT-AATACTGTA
27709339 GCGGTGAGATTA
1 GCGGTGAGATTA
27709351 GAAACAACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.35, T:0.30
Consensus pattern (20 bp):
GCGGTGAGATTAATACTGTA
Found at i:27710395 original size:18 final size:19
Alignment explanation
Indices: 27710360--27710395 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27710350 ATGATATTAA
27710360 TGATATACCTACAAGGTAG
1 TGATATACCTACAAGGTAG
27710379 TGATATACCTA-AAGGTA
1 TGATATACCTACAAGGTA
27710396 TGAAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (19 bp):
TGATATACCTACAAGGTAG
Done.