Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 86 of 295
Found at i:27085253 original size:27 final size:27
Alignment explanation
Indices: 27085219--27085398 Score: 243
Period size: 27 Copynumber: 6.7 Consensus size: 27
27085209 TGGATAAGTT
* *
27085219 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
27085246 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
27085273 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
27085300 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
27085327 ATAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
27085354 GTAGAAATACCGTAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
27085381 GTAGAATTACCGAGATAC
1 GTAGAATTACCGAAATAC
27085399 TCTTGTGGGC
Statistics
Matches: 134, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:27086156 original size:31 final size:32
Alignment explanation
Indices: 27086118--27086179 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
27086108 CTCGCTGCAA
* *
27086118 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
27086149 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
27086180 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:27087321 original size:26 final size:26
Alignment explanation
Indices: 27087292--27087344 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
27087282 CTGAGACTGT
*
27087292 AGCTAGGCTACCGTAAAAGGAAACAA
1 AGCTAGGCTACCGCAAAAGGAAACAA
27087318 AGCTAGGCTACCGCAAAAGGAAACAA
1 AGCTAGGCTACCGCAAAAGGAAACAA
27087344 A
1 A
27087345 CTCAAACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.09
Consensus pattern (26 bp):
AGCTAGGCTACCGCAAAAGGAAACAA
Found at i:27091321 original size:27 final size:26
Alignment explanation
Indices: 27091277--27091328 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27091267 CTCGCTGCAA
*
27091277 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
27091304 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
27091329 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:27096709 original size:31 final size:31
Alignment explanation
Indices: 27096661--27096745 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
27096651 TCAATCTCAG
27096661 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * *
27096691 CATGTCACTGTGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
27096722 CATATCACTGGGCCGAAGCCTTTA
1 CATATCACTGGGCCGAAGCCTTTA
27096746 TTGTAAAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:27096991 original size:25 final size:25
Alignment explanation
Indices: 27096963--27097032 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
27096953 CTCTTTTAAT
*
27096963 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27096988 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27097013 AACTGGGGCAAAGCTCTTTT
1 AACTGGGGCAAAGCCCTTTT
27097033 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:27097096 original size:11 final size:11
Alignment explanation
Indices: 27097080--27097138 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
27097070 TATATGAATT
27097080 TATCATGTGCA
1 TATCATGTGCA
*
27097091 TATCA--TACA
1 TATCATGTGCA
27097100 TATCATGTGCA
1 TATCATGTGCA
*
27097111 TATCA--TACA
1 TATCATGTGCA
*
27097120 TATCATATGCA
1 TATCATGTGCA
27097131 TATCATGT
1 TATCATGT
27097139 CAAATAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 16 0.41
11 23 0.59
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:27097103 original size:9 final size:9
Alignment explanation
Indices: 27097089--27097136 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
27097079 TTATCATGTG
27097089 CATATCATA
1 CATATCATA
*
27097098 CATATCATGTG
1 CATATCA--TA
27097109 CATATCATA
1 CATATCATA
27097118 CATATCATA
1 CATATCATA
27097127 TGCATATCAT
1 --CATATCAT
27097137 GTCAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 17 0.52
11 16 0.48
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:27097105 original size:20 final size:20
Alignment explanation
Indices: 27097080--27097136 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
27097070 TATATGAATT
27097080 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
27097100 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
*
27097120 TATCATATGCATATCAT
1 TATCATGTGCATATCAT
27097137 GTCAAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:27101488 original size:25 final size:25
Alignment explanation
Indices: 27101454--27101523 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
27101444 CTCTTTTAAT
*
27101454 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
27101479 AACTGGGGCAAAGCCATTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27101504 AACTGGGGTAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27101524 GCATTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:27104216 original size:37 final size:37
Alignment explanation
Indices: 27104166--27104244 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
27104156 TTATTACGAA
* * *
27104166 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
27104203 GTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27104240 GTCTT
1 GTCTT
27104245 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27104437 original size:49 final size:49
Alignment explanation
Indices: 27104365--27104939 Score: 879
Period size: 49 Copynumber: 12.0 Consensus size: 49
27104355 CTTCGGGACT
* * * *
27104365 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCC
* * * *
27104412 TGTCACATATATATACACTTCCACATTCATCACTTCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
27104461 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
27104508 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
27104555 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
27104604 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
27104653 TATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
27104700 TATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
27104749 TATCACATATATATACACTTTCACATTCATCACATCGGCCTTTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
27104798 TATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
27104847 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
27104894 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
27104940 TTACTATCAT
Statistics
Matches: 495, Mismatches: 26, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
47 230 0.46
48 3 0.01
49 262 0.53
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:27104680 original size:145 final size:143
Alignment explanation
Indices: 27104363--27104942 Score: 923
Period size: 145 Copynumber: 4.0 Consensus size: 143
27104353 CCCTTCGGGA
* * * * * *
27104363 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCA-GCCCTGTCACATATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCCTATCACATATATATA
* * *
27104427 CACTTCCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCAC
27104492 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
* *
27104506 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
27104571 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATACACTTTCACATTCATCA
27104636 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
* * *
27104651 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
27104716 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATACACTTTCACATTCATCA
*
27104781 CATCGGCCTTTAGGC
129 CATCGGCCATTAGGC
*
27104796 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATAT
1 CTTA--TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
*
27104859 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCA
27104924 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
27104939 CTTA
1 CTTA
27104943 CTATCATTTC
Statistics
Matches: 411, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
142 2 0.00
143 131 0.32
145 230 0.56
147 48 0.12
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:27108752 original size:40 final size:40
Alignment explanation
Indices: 27108707--27108862 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
27108697 CGAATACACT
* * *
27108707 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** *
27108747 ACACCAGCACAAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
27108787 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
27108827 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGA
27108863 CATCATTCGA
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:27109209 original size:29 final size:29
Alignment explanation
Indices: 27109170--27109248 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
27109160 CTTAATAATC
*
27109170 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
27109200 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
27109229 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27109249 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:27109291 original size:43 final size:43
Alignment explanation
Indices: 27109230--27109332 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
27109220 TGCATTTCAA
27109230 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
27109273 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
27109316 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
27109333 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:27111249 original size:37 final size:37
Alignment explanation
Indices: 27111199--27111277 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27111189 TTATTACGAA
* * *
27111199 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27111236 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27111273 GTCTT
1 GTCTT
27111278 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27111619 original size:49 final size:49
Alignment explanation
Indices: 27111396--27111923 Score: 827
Period size: 47 Copynumber: 11.1 Consensus size: 49
27111386 CCCTTCGGGA
* * * *
27111396 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
27111443 CCTGTCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27111491 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27111538 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27111585 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27111634 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27111681 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27111730 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27111778 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27111827 C-TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27111873 CCTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27111920 CTTA
1 CTTA
27111924 CTATCATTTC
Statistics
Matches: 453, Mismatches: 18, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
46 50 0.11
47 185 0.41
48 80 0.18
49 138 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27117571 original size:26 final size:26
Alignment explanation
Indices: 27117542--27117648 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
27117532 TGGTACAAAT
27117542 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
27117568 TGATAAAGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
27117593 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27117619 TGATAATGGCTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27117645 TGAT
1 TGAT
27117649 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
25 22 0.30
26 51 0.70
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27117602 original size:51 final size:52
Alignment explanation
Indices: 27117542--27117648 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
27117532 TGGTACAAAT
27117542 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
* * *
27117593 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGCTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
27117645 TGAT
1 TGAT
27117649 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 46 0.88
52 6 0.12
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
Found at i:27119302 original size:27 final size:27
Alignment explanation
Indices: 27119270--27119401 Score: 144
Period size: 27 Copynumber: 4.9 Consensus size: 27
27119260 AGGAAGCGTC
*
27119270 CTGGTGGTTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
27119297 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
27119324 CTGGTGGCTATGCCACAAATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
27119351 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
* * *
27119378 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTATGCCACAATTATCTG
27119402 GCAGCCTCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.09
27 83 0.90
28 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:27119354 original size:54 final size:54
Alignment explanation
Indices: 27119270--27119401 Score: 178
Period size: 54 Copynumber: 2.5 Consensus size: 54
27119260 AGGAAGCGTC
* * *
27119270 CTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACA-ATATCTGTAT
*
27119324 CTGGTGGCTATGCCACAAATATCTGTTCTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
* * *
27119378 CTGGTGACTTTGTCAC-AATATCTG
1 CTGGTGGCTATGCCACAAATATCTG
27119402 GCAGCCTCAC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
53 16 0.23
54 54 0.77
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
Found at i:27120888 original size:25 final size:25
Alignment explanation
Indices: 27120844--27120920 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 25
27120834 GCCTAGCCTC
*
27120844 TTTTAAT-AATTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
27120868 TTTTAATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
***
27120893 TTTCGGTAAACTGGGGCAAAG-CCT
1 TTTTAATAAACTGGGGCAAAGCCCT
27120917 TTTT
1 TTTT
27120921 GCACTTCCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.28
25 34 0.72
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:27121381 original size:17 final size:17
Alignment explanation
Indices: 27121359--27121398 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
27121349 TTTATCCAAA
*
27121359 TGGGCCAGGAAGCCCAT
1 TGGGCCAGAAAGCCCAT
*
27121376 TGGGCCCGAAAGCCCAT
1 TGGGCCAGAAAGCCCAT
27121393 TGGGCC
1 TGGGCC
27121399 TAATTTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.20, C:0.33, G:0.35, T:0.12
Consensus pattern (17 bp):
TGGGCCAGAAAGCCCAT
Found at i:27123158 original size:3 final size:3
Alignment explanation
Indices: 27123150--27123183 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
27123140 ATTTAATTAC
*
27123150 TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
27123184 TTTATAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:27123184 original size:12 final size:12
Alignment explanation
Indices: 27123143--27123184 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
27123133 ATTACATATT
27123143 TAATTACTAATAA
1 TAATTA-TAATAA
*
27123156 TAATAATAATAA
1 TAATTATAATAA
27123168 TAATTATAATAA
1 TAATTATAATAA
27123180 TAATT
1 TAATT
27123185 TTATAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
TAATTATAATAA
Found at i:27126289 original size:23 final size:25
Alignment explanation
Indices: 27126263--27126314 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
27126253 AGTAAGCCAT
*
27126263 ATACAAACAAATAAAC-TTATC-AA
1 ATACAAACAAATAAACATCATCTAA
*
27126286 ATAC-AACATATAAACATCATCTAA
1 ATACAAACAAATAAACATCATCTAA
27126310 ATACA
1 ATACA
27126315 TATACTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.42
23 8 0.33
24 6 0.25
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (25 bp):
ATACAAACAAATAAACATCATCTAA
Found at i:27126696 original size:42 final size:43
Alignment explanation
Indices: 27126584--27126756 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
27126574 AGCTCGTACA
* * * * *
27126584 ATGCCAACGTCTCACACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* *
27126627 ATGCCACTATCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
* *
27126669 ATGCCAATGTCCCAGACGTGGTTTTACACATAAATCATAAGT-T-G
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-GAAATCA-AA-TATCG
* * * * * *
27126713 ATGCCAACGTTCCAAACGTGGTCTTACATGAAAACACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
27126756 A
1 A
27126757 AAATCCTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.27
43 44 0.43
44 28 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:27129523 original size:40 final size:40
Alignment explanation
Indices: 27129451--27129661 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
27129441 TTTTCGAAAT
** * *
27129451 TTAG-CCGGATATAACCACTTGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
27129489 TTAGCCCAGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
27129529 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
27129569 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
27129609 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCAGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
27129649 TTAGCCCGGATAT
1 TTAGCCCGGATAT
27129662 CATTCAAATA
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
38 4 0.03
39 15 0.10
40 125 0.86
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:27133631 original size:19 final size:19
Alignment explanation
Indices: 27133607--27133645 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27133597 AGTAAATTAC
*
27133607 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
27133626 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
27133645 T
1 T
27133646 GCCAGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:27133872 original size:50 final size:50
Alignment explanation
Indices: 27133811--27133907 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
27133801 TATGTACAAG
27133811 GGCTGTTACAAAGTGATTAATGCAACTATTCAAGTTGGGATTGGTTACAT
1 GGCTGTTACAAAGTGATTAATGCAACTATTCAAGTTGGGATTGGTTACAT
*
27133861 GGCTGTTACAAAGTGATTAATGCAGCTATTCAAGTTGGGATTGGTTA
1 GGCTGTTACAAAGTGATTAATGCAACTATTCAAGTTGGGATTGGTTA
27133908 TATACAAAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (50 bp):
GGCTGTTACAAAGTGATTAATGCAACTATTCAAGTTGGGATTGGTTACAT
Found at i:27147332 original size:17 final size:18
Alignment explanation
Indices: 27147310--27147343 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27147300 TGCCTATTAT
27147310 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
27147327 GGGCCCACTTAGCCCAT
1 GGGCCCACATAGCCCAT
27147344 TCCGGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:27150732 original size:49 final size:49
Alignment explanation
Indices: 27150675--27150899 Score: 261
Period size: 49 Copynumber: 4.5 Consensus size: 49
27150665 CTAGTATGTA
*
27150675 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * ** * *
27150724 CAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * * *
27150774 TAGTAGCTTGTACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
* *
27150825 TAGTAGCCTGCACTTAGTACGACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
27150874 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
27150900 CGTGACCTCA
Statistics
Matches: 142, Mismatches: 31, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
49 63 0.44
50 43 0.30
51 36 0.25
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:27158198 original size:43 final size:41
Alignment explanation
Indices: 27158125--27158272 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 41
27158115 CGAAAAGCTC
*
27158125 ATACAATGCCAAC-GTCCCAAATGAGGTCTTACATGTAATCAA
1 ATACGATGCC-ACTGTCCCAAAT-AGGTCTTACATGTAATCAA
* * * * *
27158167 ATATTGATGCCACTGTCCCAGATAGGATCTTACACGAAATCAT
1 ATA-CGATGCCACTGTCCCAAATAGG-TCTTACATGTAATCAA
* *
27158210 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAAATTTCAA
1 ATACGATGCCACTGTCCCAAATA-GGTCTTACATGT-AA--TCAA
27158255 AT-CGATGCCAAC-GTCCCA
1 ATACGATGCC-ACTGTCCCA
27158273 GATGTGGTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
42 32 0.38
43 33 0.39
44 13 0.15
45 6 0.07
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (41 bp):
ATACGATGCCACTGTCCCAAATAGGTCTTACATGTAATCAA
Found at i:27158289 original size:86 final size:85
Alignment explanation
Indices: 27158125--27158294 Score: 197
Period size: 86 Copynumber: 2.0 Consensus size: 85
27158115 CGAAAAGCTC
* *
27158125 ATACAATGCCAACGTCCCAAATGAGGTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGAT
1 ATACAATGCCAACGTCCCAAATCAGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAT
27158190 AGGATCTTACACGAAATCAT
66 AGGATCTTACACGAAATCAT
* *
27158210 ATACGATGCCAATGTCCCAAA-CATGGTCTTACATGTAAATTTC-AA-ATCGATGCCAAC-GTCC
1 ATACAATGCCAACGTCCCAAATCA-GGTCTTACATGT-AA--TCAAATATCGATGCC-ACTGTCC
* *
27158271 CAGAT-GTGGTTTTACACGAAATCA
61 CAGATAG-GATCTTACACGAAATCA
27158295 CATATCGAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
84 1 0.01
85 32 0.44
86 34 0.47
87 4 0.05
88 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAAATCAGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAT
AGGATCTTACACGAAATCAT
Found at i:27165324 original size:17 final size:17
Alignment explanation
Indices: 27165302--27165344 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
27165292 ACGAGCGTGC
27165302 TTATTTAAATATT-ATTT
1 TTATTTAAAT-TTCATTT
**
27165319 TTATTTTTATTTCATTT
1 TTATTTAAATTTCATTT
27165336 TTATTTAAA
1 TTATTTAAA
27165345 ATTCCATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTAAATTTCATTT
Found at i:27183752 original size:40 final size:40
Alignment explanation
Indices: 27183658--27183802 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
27183648 TACTCGAATG
*
27183658 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
27183699 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
27183739 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
27183779 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
27183803 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:27186426 original size:21 final size:21
Alignment explanation
Indices: 27186402--27186471 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
27186392 CACATACATC
27186402 ATGAACTCAGACCATAACTCA
1 ATGAACTCAGACCATAACTCA
** * *
27186423 ATGAGTTCAAATGCCATATATATC-
1 ATGAACTCAGA--CCATA-A-CTCA
*
27186447 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCATAACTCA
27186468 ATGA
1 ATGA
27186472 GTTTAGATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
22 4 0.11
23 5 0.14
24 9 0.26
25 2 0.06
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.23
Consensus pattern (21 bp):
ATGAACTCAGACCATAACTCA
Found at i:27188435 original size:46 final size:44
Alignment explanation
Indices: 27188385--27188555 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 44
27188375 ACGTCTTGTA
27188385 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCT-AAG
* * *
27188431 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTGAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCT-AAG
* * * * **
27188477 GCTGATATCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTAAG
* *
27188525 GCTGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
27188556 AGCTCACACA
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 54 0.52
47 28 0.27
48 21 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTAAG
Found at i:27188505 original size:94 final size:91
Alignment explanation
Indices: 27188297--27188558 Score: 273
Period size: 94 Copynumber: 2.8 Consensus size: 91
27188287 GCGCCTATGC
** * *
27188297 CATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATCTGTGCCGATGCCATGTCCCAGACACG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATCTG-GCCGATG-CATGTCCCAGACA-T
*
27188362 GTCTTACACT-GACACGTCTTGTAGCCGATG
62 GTCTTACACTAG-CACGTCTTGAAGCCGATG
* *
27188392 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-TGGCCGATGCATGTCCCAGACATGTC
* *
27188455 TTACACTAGCAC-TCATCTGAATGCTGATAT
65 TTACACTAGCACGTC-T-TGAA-GCCGAT-G
* * * *
27188485 CATGTCCCAGACATGGTCTTACATTGGCTCT-CATAATGTGGCTGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCTGGCCGATGCATGTCCCAGACATGTC
27188549 TTACACTAGC
65 TTACACTAGC
27188559 TCACACAAGT
Statistics
Matches: 143, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
89 2 0.01
90 14 0.10
91 17 0.12
92 17 0.12
93 17 0.12
94 60 0.42
95 16 0.11
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (91 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATATCTGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCACGTCTTGAAGCCGATG
Found at i:27192877 original size:55 final size:55
Alignment explanation
Indices: 27192793--27192911 Score: 166
Period size: 55 Copynumber: 2.2 Consensus size: 55
27192783 CCCAAAATGT
* * *
27192793 CACACAGCCAAGGCACACGCCCGTGTGCTAGGCTGTGTCCATCACAGGGCTGAAA
1 CACACGGCCAAGGCACACGCCCGTATGCTAGGCTGTGTCCATCACAGGACTGAAA
* * * *
27192848 CACACGGCCAAGGTACATGCCCGTATGCTAGGCTGTGTCCATCACATGACTGAGA
1 CACACGGCCAAGGCACACGCCCGTATGCTAGGCTGTGTCCATCACAGGACTGAAA
*
27192903 CACATGGCC
1 CACACGGCC
27192912 GTGTCTCTGC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.32, G:0.26, T:0.17
Consensus pattern (55 bp):
CACACGGCCAAGGCACACGCCCGTATGCTAGGCTGTGTCCATCACAGGACTGAAA
Found at i:27197844 original size:27 final size:27
Alignment explanation
Indices: 27197814--27198018 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
27197804 ATATTGAGTC
* * *
27197814 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
27197841 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
27197868 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
27197895 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
27197923 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
27197950 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
27197977 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
27198004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27198019 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:27209333 original size:49 final size:47
Alignment explanation
Indices: 27209123--27209388 Score: 186
Period size: 49 Copynumber: 5.6 Consensus size: 47
27209113 CTTGTGTGCC
* * * * *
27209123 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGA-GACGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGATGATGAGAGCT
* * * ** * * *
27209171 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAATAATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGATGATGAGAGCT
* * ** * * * *
27209218 AGTGTAAGACGTGTCTGGGACA--CAT-ATCGGCTAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGATGATG-AGAGCT
27209262 AGTGTAAGACATGTCTGGGACATGCATCAGCAT-GTAT-ATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCG-ATGAT--GAGAGCT
* *
27209310 AGTATAAGACAATGTCTGGGACATGACATCAGCATCGATGATGATAGCT
1 AGTGTAAGAC-ATGTCTGGGACATG-CATCAGCATCGATGATGAGAGCT
27209359 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
27209389 GGCAACTTAT
Statistics
Matches: 171, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
44 27 0.16
45 3 0.02
46 14 0.08
47 43 0.25
48 22 0.13
49 46 0.27
50 13 0.08
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCGATGATGAGAGCT
Found at i:27211836 original size:20 final size:22
Alignment explanation
Indices: 27211813--27211856 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
27211803 GAATACTAGA
27211813 AGAAATCAAA-AAA-TAAAAAG
1 AGAAATCAAAGAAAGTAAAAAG
*
27211833 AG-AATGAAAGAAAGTAAAAAG
1 AGAAATCAAAGAAAGTAAAAAG
27211854 AGA
1 AGA
27211857 TTGATATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.70, C:0.02, G:0.18, T:0.09
Consensus pattern (22 bp):
AGAAATCAAAGAAAGTAAAAAG
Found at i:27218709 original size:49 final size:49
Alignment explanation
Indices: 27218631--27218876 Score: 251
Period size: 49 Copynumber: 5.0 Consensus size: 49
27218621 GTAGCCGAAG
* * * *
27218631 CTATCTGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
27218680 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * * * *
27218730 CCATCTGATACACGTAGTAGCCTGCATTTAGTACTAAACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
27218780 GTTAT-TAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAA
1 -CTATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
27218830 CAATATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
27218877 TCACAATAGC
Statistics
Matches: 158, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
49 77 0.49
50 47 0.30
51 34 0.22
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:27219557 original size:30 final size:30
Alignment explanation
Indices: 27219523--27219583 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
27219513 CCTTTAATAC
27219523 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
* *
27219553 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
27219583 A
1 A
27219584 GGCTCAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:27224485 original size:50 final size:49
Alignment explanation
Indices: 27224355--27224599 Score: 269
Period size: 49 Copynumber: 5.0 Consensus size: 49
27224345 GTAGCCGAAG
* * * * *
27224355 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * *
27224404 TTATC-CAGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAA
1 CTATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
* *
27224454 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * * * * *
27224504 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACA-ATGCGACCAA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* *
27224553 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
27224600 TCACAATAGC
Statistics
Matches: 161, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
48 33 0.20
49 47 0.29
50 47 0.29
51 34 0.21
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:27224559 original size:99 final size:99
Alignment explanation
Indices: 27224369--27224599 Score: 324
Period size: 99 Copynumber: 2.3 Consensus size: 99
27224359 CTGGTACGCA
* * *
27224369 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
* * *
27224434 GTATTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCTGATACACG
* *
27224468 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCA-GTACACATAGTAGCCTGCAC
* *
27224532 TTAGTACTACA-ATGCGACC-AACAATCTGGTACACG
63 TTAGTACTACACACGCGACCTAACAATCTGATACACG
27224567 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
27224600 TCACAATAGC
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
98 1 0.01
99 74 0.63
100 11 0.09
101 32 0.27
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCTGATACACG
Found at i:27226450 original size:17 final size:17
Alignment explanation
Indices: 27226395--27226452 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
27226385 CATCAGCACA
* *
27226395 CCATACATTGAAGCCGT
1 CCATGCATTGAAGCCAT
* *
27226412 CCATGCA-TGTACCTCA-
1 CCATGCATTGAAGC-CAT
27226428 CCATGCATTGAAGCCAT
1 CCATGCATTGAAGCCAT
27226445 CCATGCAT
1 CCATGCAT
27226453 GTGCCTTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.24
Consensus pattern (17 bp):
CCATGCATTGAAGCCAT
Found at i:27227543 original size:10 final size:10
Alignment explanation
Indices: 27227525--27227568 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
27227515 ACCTACAAAC
27227525 AAACACATTA
1 AAACACATTA
*
27227535 AAACTCATT-
1 AAACACATTA
27227544 AAACACATT-
1 AAACACATTA
*
27227553 AAACACATTT
1 AAACACATTA
27227563 AAACAC
1 AAACAC
27227569 TTATTAGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 17 0.55
10 14 0.45
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (10 bp):
AAACACATTA
Found at i:27227549 original size:19 final size:19
Alignment explanation
Indices: 27227525--27227568 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
27227515 ACCTACAAAC
*
27227525 AAACACATTAAAACTCA-TT
1 AAACACATT-AAACACATTT
27227544 AAACACATTAAACACATTT
1 AAACACATTAAACACATTT
27227563 AAACAC
1 AAACAC
27227569 TTATTAGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (19 bp):
AAACACATTAAACACATTT
Found at i:27227552 original size:9 final size:9
Alignment explanation
Indices: 27227525--27227568 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
27227515 ACCTACAAAC
27227525 AAACACATT
1 AAACACATT
*
27227534 AAAACTCATT
1 -AAACACATT
27227544 AAACACATT
1 AAACACATT
27227553 AAACACATTT
1 AAACACA-TT
27227563 AAACAC
1 AAACAC
27227569 TTATTAGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
AAACACATT
Found at i:27230387 original size:51 final size:51
Alignment explanation
Indices: 27230329--27230432 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
27230319 AAATAGCCAA
*
27230329 CTTACCTTATTTTCAAATAGGTAATCAACTATCACATACTTGATCACTTAG
1 CTTACCTTATTTTCAAATAGGTAATCAACTATCACATACTCGATCACTTAG
27230380 CTTACCTTATTTTCAAATAGGTAATCAACTATCACATACTCGATCACTTAG
1 CTTACCTTATTTTCAAATAGGTAATCAACTATCACATACTCGATCACTTAG
27230431 CT
1 CT
27230433 CGATTTACAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37
Consensus pattern (51 bp):
CTTACCTTATTTTCAAATAGGTAATCAACTATCACATACTCGATCACTTAG
Found at i:27230618 original size:41 final size:43
Alignment explanation
Indices: 27230529--27230639 Score: 136
Period size: 41 Copynumber: 2.6 Consensus size: 43
27230519 CAATGCCAAC
* * * *
27230529 TCCCAGACCTGGTCTTACATGTAATCATATCTCGATGCCACTA
1 TCCCAGACATGGTCTTACACGTAATCAAATCACGATGCCACTA
* * *
27230572 TCCCAGACAGGGTCTTACACG-AATCAAAT-ACGATGCCGCTG
1 TCCCAGACATGGTCTTACACGTAATCAAATCACGATGCCACTA
*
27230613 TCCCAGACATGGTCTTAAACGTAATCA
1 TCCCAGACATGGTCTTACACGTAATCA
27230640 CATATCAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 28 0.48
42 12 0.21
43 18 0.31
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCAAATCACGATGCCACTA
Found at i:27230964 original size:16 final size:16
Alignment explanation
Indices: 27230943--27230973 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27230933 TAATCGATAT
*
27230943 TTTGGTTTTTAATTTC
1 TTTGGTTCTTAATTTC
27230959 TTTGGTTCTTAATTT
1 TTTGGTTCTTAATTT
27230974 AAACATATTC
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:0.13, C:0.06, G:0.13, T:0.68
Consensus pattern (16 bp):
TTTGGTTCTTAATTTC
Found at i:27231215 original size:28 final size:28
Alignment explanation
Indices: 27231176--27231233 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
27231166 TTCCATACAT
*
27231176 TTTATTTA-TTTTACATTTTAGTCCCTTAA
1 TTTATTTATTTTTACAATTTAG-CCC-TAA
27231205 TTTA-TTATTTTTACAATTTAGCCCTAA
1 TTTATTTATTTTTACAATTTAGCCCTAA
27231232 TT
1 TT
27231234 ACTTAAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 5 0.19
28 6 0.22
29 16 0.59
ACGTcount: A:0.26, C:0.14, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTATTTATTTTTACAATTTAGCCCTAA
Found at i:27232229 original size:27 final size:27
Alignment explanation
Indices: 27232199--27232252 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
27232189 GCATCAAAAC
*
27232199 ATGGAATATGTTATGAATTTTTTCTAA
1 ATGGAATATGTTATGAATCTTTTCTAA
27232226 ATGGAATATGTTATGAATCTTTTCTAA
1 ATGGAATATGTTATGAATCTTTTCTAA
27232253 CTCAGGTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (27 bp):
ATGGAATATGTTATGAATCTTTTCTAA
Found at i:27237308 original size:46 final size:46
Alignment explanation
Indices: 27237164--27237375 Score: 165
Period size: 46 Copynumber: 4.6 Consensus size: 46
27237154 TGTGAGCTAA
*
27237164 TGTAAGACATGTCTGGGACAT-GCATCGGCCACATT---ATGAGAACCAG
1 TGTAAGACATGTCTGGGACATGGCATC-G--ACATTGAGATGAG-TCCAG
*
27237210 TGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGTGCCAA
1 TGTAAGA-CATGTCTGGGACATGGCATCGACATTGAGATGAGT-CCAG
* * *
27237258 TGTAAGACGTGTTTGGGACATGG-ATC-AGCCTTGAGATGTAAGT-CAG
1 TGTAAGACATGTCTGGGACATGGCATCGA-CATTGAGATG--AGTCCAG
* * * *
27237304 TGTAAGACATGCCTGGGACAT-GCATCGAC-TATGAAATGTGT-TAG
1 TGTAAGACATGTCTGGGACATGGCATCGACAT-TGAGATGAGTCCAG
*
27237348 TGTAAGACCATGTCTAGGACATGGCATC
1 TGTAAGA-CATGTCTGGGACATGGCATC
27237376 AACACTTTAC
Statistics
Matches: 138, Mismatches: 14, Indels: 28
0.77 0.08 0.16
Matches are distributed among these distances:
44 11 0.08
45 20 0.14
46 54 0.39
47 30 0.22
48 23 0.17
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGGCATCGACATTGAGATGAGTCCAG
Found at i:27240856 original size:13 final size:13
Alignment explanation
Indices: 27240838--27240864 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27240828 GCTTGGCAGG
27240838 GACACGCCCGTGT
1 GACACGCCCGTGT
27240851 GACACGCCCGTGT
1 GACACGCCCGTGT
27240864 G
1 G
27240865 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:27244922 original size:13 final size:13
Alignment explanation
Indices: 27244904--27244935 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
27244894 AGCACACGGG
27244904 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
27244917 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
27244930 CGTGTG
1 CGTGTG
27244936 ACATTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.41, T:0.31
Consensus pattern (13 bp):
CGTGTGCCTTGGC
Found at i:27249206 original size:14 final size:13
Alignment explanation
Indices: 27249183--27249214 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
27249173 GAAATATCAA
27249183 AACAATAATTAAG
1 AACAATAATTAAG
27249196 AACACATAATTAAG
1 AACA-ATAATTAAG
27249210 AACAA
1 AACAA
27249215 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:27255540 original size:50 final size:51
Alignment explanation
Indices: 27255453--27255550 Score: 146
Period size: 50 Copynumber: 1.9 Consensus size: 51
27255443 TTGCATGACT
* *
27255453 TAATTTAATGATGCAAACTTTAAATAACATGGGGTTACATAATGCATGTAA
1 TAATTTAATGATGCAAACTTTAAATAACATGGAGTTACAAAATGCATGTAA
*
27255504 TAATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACAAAATGCATG
1 TAATTTAATGATGCAAACTTTAAATAACATG-GAGTTACAAAATGCATG
27255551 ACTTTATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 11 0.26
50 26 0.60
51 6 0.14
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (51 bp):
TAATTTAATGATGCAAACTTTAAATAACATGGAGTTACAAAATGCATGTAA
Found at i:27257130 original size:46 final size:46
Alignment explanation
Indices: 27257077--27257252 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
27257067 TATTTGGGCA
* *
27257077 TCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
27257123 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * * * *
27257170 TCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
27257216 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27257253 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
45 1 0.01
46 62 0.59
47 25 0.24
48 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:27257232 original size:93 final size:93
Alignment explanation
Indices: 27257073--27257243 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
27257063 AGGATATTTG
* * *
27257073 GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAG
27257138 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* * * * * *
27257166 GGCATCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAG
27257231 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
27257244 CACTTATGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:27259336 original size:15 final size:15
Alignment explanation
Indices: 27259304--27259332 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27259294 ATTTTTTGTG
27259304 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
27259319 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
27259333 ATTTTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:27260510 original size:43 final size:42
Alignment explanation
Indices: 27260449--27260619 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 42
27260439 TAGGATTTTC
27260449 GATATGTGTATTCATGTAAGACCACGTTTGGGACGTTGGCATT
1 GATATGTG-ATTCATGTAAGACCACGTTTGGGACGTTGGCATT
* * * * *
27260492 GATATGTGATTACGTGTAAGACCATGTTTGGGACATCGACA-T
1 GATATGTGATT-CATGTAAGACCACGTTTGGGACGTTGGCATT
* * ** *
27260534 CATATTTGATTCATGTAAGACC-CTGCATGGGACAG--GAGCATC
1 GATATGTGATTCATGTAAGACCAC-GTTTGGGAC-GTTG-GCATT
* * * *
27260576 GAGATATGATTACATGTAAGACCACGTCTGGGATGTTGGCATT
1 GATATGTGATT-CATGTAAGACCACGTTTGGGACGTTGGCATT
27260619 G
1 G
27260620 TACGGTATGT
Statistics
Matches: 98, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
40 1 0.01
41 19 0.19
42 22 0.22
43 54 0.55
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGTGATTCATGTAAGACCACGTTTGGGACGTTGGCATT
Found at i:27260565 original size:41 final size:43
Alignment explanation
Indices: 27260498--27260599 Score: 111
Period size: 41 Copynumber: 2.4 Consensus size: 43
27260488 CATTGATATG
* ** * *
27260498 TGATTACGTGTAAGACCATGTTTGGGACATCGA-CATC-ATATT
1 TGATTACATGTAAGACCATGCATGGGACA-CGAGCATCGAGATA
* *
27260540 TGATT-CATGTAAGACCCTGCATGGGACAGGAGCATCGAGATA
1 TGATTACATGTAAGACCATGCATGGGACACGAGCATCGAGATA
27260582 TGATTACATGTAAGACCA
1 TGATTACATGTAAGACCA
27260600 CGTCTGGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.04
41 23 0.47
42 13 0.27
43 11 0.22
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGCATGGGACACGAGCATCGAGATA
Found at i:27268871 original size:24 final size:25
Alignment explanation
Indices: 27268843--27268919 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 25
27268833 CGTCGCTGCA
27268843 ATCTGGTGGCCTCGACAATATCTGT
1 ATCTGGTGGCCTCGACAATATCTGT
*
27268868 -TCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGGCCT--CGACAATATCTGT
* *
27268894 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGGCCTCG--ACAATATCTG
27268920 GCAGCCTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 11 0.26
25 1 0.02
26 12 0.28
27 19 0.44
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (25 bp):
ATCTGGTGGCCTCGACAATATCTGT
Found at i:27274780 original size:93 final size:93
Alignment explanation
Indices: 27274667--27274838 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
27274657 CGCCCATAAG
* * *
27274667 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27274732 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
27274760 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27274825 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27274839 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27274835 original size:46 final size:46
Alignment explanation
Indices: 27274660--27274835 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
27274650 TGTAACCCGC
* * * *
27274660 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
27274706 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
27274756 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27274799 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27274836 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27281762 original size:93 final size:93
Alignment explanation
Indices: 27281653--27281824 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
27281643 CGCCCATAAG
* * *
27281653 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27281718 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
27281746 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27281811 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27281825 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27281821 original size:46 final size:46
Alignment explanation
Indices: 27281646--27281821 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
27281636 TGTAACCCGC
* * *
27281646 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
27281692 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
27281742 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27281785 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27281822 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27288374 original size:24 final size:24
Alignment explanation
Indices: 27288327--27288374 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
27288317 TCAAAATCAG
*
27288327 CTAAAATATATATAATAGATTGAA
1 CTAAAATATATATAATAGACTGAA
*
27288351 CTAAAATATATATAATAGGCTGAA
1 CTAAAATATATATAATAGACTGAA
27288375 ATATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (24 bp):
CTAAAATATATATAATAGACTGAA
Found at i:27295000 original size:15 final size:16
Alignment explanation
Indices: 27294982--27295014 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27294972 TTCACTTGCC
27294982 TCTTTTTC-ACTCATT
1 TCTTTTTCAACTCATT
27294997 TCTTTTTCTAACTCATT
1 TCTTTTTC-AACTCATT
27295014 T
1 T
27295015 TCAAATTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (16 bp):
TCTTTTTCAACTCATT
Found at i:27295169 original size:18 final size:17
Alignment explanation
Indices: 27295148--27295182 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27295138 TTTTTCAATC
27295148 TCAATCTCTTTTTTCTTT
1 TCAAT-TCTTTTTTCTTT
*
27295166 TCAATTTTTTTTTCTTT
1 TCAATTCTTTTTTCTTT
27295183 CTTCTCTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (17 bp):
TCAATTCTTTTTTCTTT
Found at i:27297117 original size:27 final size:26
Alignment explanation
Indices: 27297087--27297296 Score: 177
Period size: 27 Copynumber: 7.8 Consensus size: 26
27297077 TCCCTATAGA
* *
27297087 GGTATTCCGGTAATTTTACACTACAAG
1 GGTATTTCGGTAATTTTACA-AACAAG
* * *
27297114 GGTATTTGGGTAATTTTACACTACAGG
1 GGTATTTCGGTAATTTTACA-AACAAG
* *
27297141 GGTATTTCGATAATTTTACAAACCGAG
1 GGTATTTCGGTAATTTTACAAA-CAAG
*
27297168 GGTATTTTGGTAATTTTACAAACTAAG
1 GGTATTTCGGTAATTTTACAAAC-AAG
* **
27297195 GGTATTTCAGTAATTTTACAAATTAG
1 GGTATTTCGGTAATTTTACAAACAAG
* **
27297221 GAGTATTTCAGTAATTTTACAAACCGGG
1 G-GTATTTCGGTAATTTTACAAA-CAAG
* * *
27297249 GGTATTTTGATAATTTTACAAACTGAG
1 GGTATTTCGGTAATTTTACAAAC-AAG
***
27297276 GGTATTTTAATAATTTTACAA
1 GGTATTTCGGTAATTTTACAA
27297297 TCCGGGGTCT
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
26 6 0.04
27 147 0.95
28 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAAACAAG
Found at i:27297208 original size:81 final size:81
Alignment explanation
Indices: 27297095--27297296 Score: 257
Period size: 81 Copynumber: 2.5 Consensus size: 81
27297085 GAGGTATTCC
* ** * *
27297095 GGTAATTTTACACTAC-AAGGGTATTTGGGTAATTTTAC-ACTACAGGGGTATTTC-GATAATTT
1 GGTAATTTTACA-AACTAAGGGTATTTCAGTAATTTTACAAAT-CAGGAGTATTTCAG-TAATTT
27297157 TACAAACCGAGGGTATTTT
63 TACAAACCGAGGGTATTTT
*
27297176 GGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATTAGGAGTATTTCAGTAATTTTAC
1 GGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATCAGGAGTATTTCAGTAATTTTAC
*
27297241 AAACCGGGGGTATTTT
66 AAACCGAGGGTATTTT
* * * *
27297257 GATAATTTTACAAACTGAGGGTATTTTAATAATTTTACAA
1 GGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAA
27297297 TCCGGGGTCT
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.02
81 102 0.95
82 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (81 bp):
GGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATCAGGAGTATTTCAGTAATTTTAC
AAACCGAGGGTATTTT
Found at i:27297290 original size:54 final size:54
Alignment explanation
Indices: 27297112--27297303 Score: 201
Period size: 54 Copynumber: 3.6 Consensus size: 54
27297102 TTACACTACA
** * * * *
27297112 AGGGTATTTGGGTAATTTTACACTA-CAGGGGTATTTCGATAATTTTACAAACCG
1 AGGGTATTTTAGTAATTTTACA-AACCGGGGGTATTTTGATAATTTTACAAACTG
* *** * *
27297166 AGGGTATTTTGGTAATTTTACAAACTAAGGGTA-TTTCAGTAATTTTACAAA-TT
1 AGGGTATTTTAGTAATTTTACAAACCGGGGGTATTTTGA-TAATTTTACAAACTG
*
27297219 AGGAGTATTTCAGTAATTTTACAAACCGGGGGTATTTTGATAATTTTACAAACTG
1 AGG-GTATTTTAGTAATTTTACAAACCGGGGGTATTTTGATAATTTTACAAACTG
* *
27297274 AGGGTATTTTAATAATTTTACAATCCGGGG
1 AGGGTATTTTAGTAATTTTACAAACCGGGG
27297304 TCTTAATGAC
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
53 7 0.06
54 100 0.87
55 8 0.07
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCGGGGGTATTTTGATAATTTTACAAACTG
Found at i:27300295 original size:94 final size:93
Alignment explanation
Indices: 27300134--27300309 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 93
27300124 TCACTTGTGT
* *
27300134 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAAATTATGAGAGCCAGAGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCACCAGCCAAATTATGAGAGCCAAAGTAAGACCATG
27300199 TCTAGGACATGGCATCGGTATTGAGACGA
66 TCTAGGACAT-GCATCGGTATTGAGACGA
* * ** *
27300228 GTGCTAGTTTAAGACATGTCTGGGACATGCACCGGCCTCGA-TAGTGATAG-CAAATGTAAGA-C
1 GTGCTAGTGTAAGACATGTCTGGGACATGCACCAGCC-AAATTA-TGAGAGCCAAA-GTAAGACC
*
27300290 ATGTCTGGGACATGCATCGG
63 ATGTCTAGGACATGCATCGG
27300310 CTAAGAGTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
93 7 0.10
94 52 0.73
95 12 0.17
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCACCAGCCAAATTATGAGAGCCAAAGTAAGACCATG
TCTAGGACATGCATCGGTATTGAGACGA
Found at i:27304028 original size:33 final size:33
Alignment explanation
Indices: 27303991--27304056 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
27303981 AACAAGCCGA
*
27303991 TCTCTATTACCATAAACAAAA-AGATAGATTTAT
1 TCTCTATGACCATAAA-AAAAGAGATAGATTTAT
* *
27304024 TCTCTATGGCCATAAAAAAAGAGATCGATTTAT
1 TCTCTATGACCATAAAAAAAGAGATAGATTTAT
27304057 CTTTACAAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (33 bp):
TCTCTATGACCATAAAAAAAGAGATAGATTTAT
Found at i:27328987 original size:46 final size:48
Alignment explanation
Indices: 27328815--27329039 Score: 173
Period size: 50 Copynumber: 4.8 Consensus size: 48
27328805 TCACTAGTGT
* * **
27328815 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACA-TTATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATAGAGATGA
* * ** * *
27328861 GAGCCAAAGTAAGACCATGTCCGGGACATGGCATCGGCATTGAGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGA
* *
27328909 GTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TA-AGA-GTT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATG-A
* * * *
27328953 GTGCTAGTGTAAGACCATGTTTGGGATATGGCATCAGCAT-GCATAT-A
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAG-AGATGA
*
27329000 CGATAGCTAGTGTAAGACCATGTCTGGGACATGGTATCGG
1 -G-T-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
27329040 AAACTTACCC
Statistics
Matches: 138, Mismatches: 28, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 17 0.12
45 12 0.09
46 25 0.18
47 29 0.21
48 22 0.16
49 1 0.01
50 31 0.22
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGA
Found at i:27331952 original size:27 final size:27
Alignment explanation
Indices: 27331922--27332018 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 27
27331912 ATATTGTAAT
*
27331922 AGAGTCACCAGATACAGATA-TTGTGGC
1 AGAGCCACCAGA-ACAGATATTTGTGGC
*
27331949 AGAGCCACTAGAACAGATATTTGTGGC
1 AGAGCCACCAGAACAGATATTTGTGGC
* * * *
27331976 ATAGCCACCAAAAAATAGATATTTGAGGC
1 AGAGCCACC--AGAACAGATATTTGTGGC
27332005 ATG-GCCACCAGAAC
1 A-GAGCCACCAGAAC
27332019 GCTTCCTCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
26 7 0.12
27 27 0.48
29 22 0.39
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
AGAGCCACCAGAACAGATATTTGTGGC
Found at i:27334497 original size:22 final size:21
Alignment explanation
Indices: 27334468--27334508 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
27334458 TTGGTAGATA
27334468 CAATTATCACAAAGCCATAAT
1 CAATTATCACAAAGCCATAAT
*
27334489 CAATATATCACAGAGCCATA
1 CAAT-TATCACAAAGCCATA
27334509 TTTAGGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (21 bp):
CAATTATCACAAAGCCATAAT
Found at i:27334976 original size:27 final size:27
Alignment explanation
Indices: 27334898--27334978 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
27334888 TCATTTTGCC
*
27334898 CTACAAGGGTATTTCGGTAATTTTACA
1 CTACAAGGGTATTTCGATAATTTTACA
*
27334925 CTACAAGGGTATTTCGATAATTTTAGA
1 CTACAAGGGTATTTCGATAATTTTACA
* *
27334952 CTACAAAGGTATTTTGATAATTTTACA
1 CTACAAGGGTATTTCGATAATTTTACA
27334979 AATTGGGGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (27 bp):
CTACAAGGGTATTTCGATAATTTTACA
Found at i:27334989 original size:27 final size:27
Alignment explanation
Indices: 27334959--27335120 Score: 193
Period size: 27 Copynumber: 6.0 Consensus size: 27
27334949 AGACTACAAA
*
27334959 GGTATTTT-GATAATTTTACAAATTGGG
1 GGTATTTTAG-TAATTTTACAAACTGGG
* *
27334986 GGTATTTTAGTAATTTTACAAACTAGA
1 GGTATTTTAGTAATTTTACAAACTGGG
*
27335013 GGTATTTTAGTAATTTTACAAACTGGA
1 GGTATTTTAGTAATTTTACAAACTGGG
** *
27335040 GGTATTTCGGTAATTTTACAAGCTGGG
1 GGTATTTTAGTAATTTTACAAACTGGG
* * *
27335067 GGTATTTCAGTAATTTTACAAAGT-AG
1 GGTATTTTAGTAATTTTACAAACTGGG
* *
27335093 GGTATTTCAGTAATTTTACAATCTGGG
1 GGTATTTTAGTAATTTTACAAACTGGG
27335120 G
1 G
27335121 TCTTAACGAT
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.19
27 94 0.80
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAACTGGG
Found at i:27334989 original size:54 final size:54
Alignment explanation
Indices: 27334931--27335113 Score: 169
Period size: 54 Copynumber: 3.4 Consensus size: 54
27334921 TACACTACAA
* * *
27334931 GGGTATTTCGATAATTTTAGACTAC-AAAGGTATTTT-GATAATTTTACAAATTGG
1 GGGTATTTCGATAATTTTACA-AACTAAAGGTATTTTAG-TAATTTTACAAACTGG
* *
27334985 GGGTATTT-TAGTAATTTTACAAACTAGAGGTATTTTAGTAATTTTACAAACTGG
1 GGGTATTTCGA-TAATTTTACAAACTAAAGGTATTTTAGTAATTTTACAAACTGG
* * * *** * * *
27335039 AGGTATTTCGGTAATTTTACAAGCTGGGGGTATTTCAGTAATTTTACAAAGT-A
1 GGGTATTTCGATAATTTTACAAACTAAAGGTATTTTAGTAATTTTACAAACTGG
27335092 GGGTATTTC-AGTAATTTTACAA
1 GGGTATTTCGA-TAATTTTACAA
27335114 TCTGGGGTCT
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
53 22 0.20
54 85 0.79
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAAACTAAAGGTATTTTAGTAATTTTACAAACTGG
Found at i:27335027 original size:81 final size:80
Alignment explanation
Indices: 27334904--27335113 Score: 244
Period size: 81 Copynumber: 2.6 Consensus size: 80
27334894 TGCCCTACAA
* * * * * *
27334904 GGGTATTTCGGTAATTTTACACTACAAGGGTATTTC-GATAATTTTAGACTAC-AAAGGTATTTT
1 GGGTATTTCAGTAATTTTACA-AACTAGGGTATTTCAG-TAATTTTACA-AACTAAAGGTATTTC
*
27334967 GATAATTTTACAAATTGG
63 GATAATTTTACAAACTGG
* * ** *
27334985 GGGTATTTTAGTAATTTTACAAACTAGAGGTATTTTAGTAATTTTACAAACTGGAGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAACTAG-GGTATTTCAGTAATTTTACAAACTAAAGGTATTTCGA
*
27335050 TAATTTTACAAGCTGG
65 TAATTTTACAAACTGG
*
27335066 GGGTATTTCAGTAATTTTACAAAGTAGGGTATTTCAGTAATTTTACAA
1 GGGTATTTCAGTAATTTTACAAACTAGGGTATTTCAGTAATTTTACAA
27335114 TCTGGGGTCT
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 26 0.24
81 83 0.75
82 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGTATTTCAGTAATTTTACAAACTAAAGGTATTTCGAT
AATTTTACAAACTGG
Found at i:27337832 original size:24 final size:26
Alignment explanation
Indices: 27337784--27337847 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 26
27337774 GAGAAGGGTT
27337784 GAAATTGGCTAAGTGAAATGATGATA
1 GAAATTGGCTAAGTGAAATGATGATA
*
27337810 GAAA-TGGCTAGGTG-AATGATGAT-
1 GAAATTGGCTAAGTGAAATGATGATA
27337833 GAAGATTCGGCTAAG
1 GAA-ATT-GGCTAAG
27337848 GTTTGAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.09
24 10 0.30
25 10 0.30
26 10 0.30
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (26 bp):
GAAATTGGCTAAGTGAAATGATGATA
Found at i:27339220 original size:27 final size:26
Alignment explanation
Indices: 27339164--27339220 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
27339154 CAACCTTAAC
* * *
27339164 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
27339190 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
27339217 CCTA
1 CCTA
27339221 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:27340480 original size:10 final size:10
Alignment explanation
Indices: 27340465--27340498 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
27340455 GAAAGTAGAT
27340465 GAAGAGAAAA
1 GAAGAGAAAA
27340475 GAAGAGAAAA
1 GAAGAGAAAA
*
27340485 GAAAAGAAGAA
1 GAAGAGAA-AA
27340496 GAA
1 GAA
27340499 AAAATTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
GAAGAGAAAA
Found at i:27340487 original size:15 final size:15
Alignment explanation
Indices: 27340446--27340500 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
27340436 ATGGGGGAAA
*
27340446 AGAAGAAGAGAAAGTAG
1 AGAA-AAGA-AAAGAAG
*
27340463 ATGAAGAGAAAAGAAG
1 A-GAAAAGAAAAGAAG
27340479 AGAAAAGAAAAGAAG
1 AGAAAAGAAAAGAAG
27340494 AAGAAAA
1 -AGAAAA
27340501 AATTGAATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 13 0.39
16 13 0.39
17 4 0.12
18 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (15 bp):
AGAAAAGAAAAGAAG
Found at i:27341459 original size:27 final size:25
Alignment explanation
Indices: 27341429--27341493 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
27341419 TATTTTTCTC
*
27341429 ATCTAATAATAATAATTTTATAAATAT
1 ATCTAATAATAA-AAATTTA-AAATAT
*
27341456 ATCTAATCATAAAAATTTAAAATAT
1 ATCTAATAATAAAAATTTAAAATAT
*
27341481 -CCTTAATAATAAA
1 ATC-TAATAATAAA
27341494 TACAGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.45
26 6 0.18
27 11 0.33
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
ATCTAATAATAAAAATTTAAAATAT
Found at i:27348711 original size:27 final size:27
Alignment explanation
Indices: 27348649--27348746 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 27
27348639 ATAATAAGCC
*
27348649 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATC-AACT
27348677 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* * *
27348704 CGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA--TCAACT
27348733 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27348747 CAATCTCATG
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
27 24 0.38
28 20 0.32
29 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:27356673 original size:28 final size:29
Alignment explanation
Indices: 27356641--27356739 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
27356631 ATAATAAGCC
*
27356641 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
27356669 CGCACACTTAGTGC-TATATAATC-AAGCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
27356697 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
27356726 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27356740 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:27361077 original size:46 final size:46
Alignment explanation
Indices: 27361027--27361202 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
27361017 TGGTTGAGCA
27361027 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
27361073 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
27361118 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
27361166 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27361203 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 6 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:27361183 original size:93 final size:93
Alignment explanation
Indices: 27361024--27361195 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
27361014 GGATGGTTGA
*
27361024 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGT
27361089 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27361117 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTC-CGAACTCGTTGAG
27361181 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
27361196 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27380330 original size:10 final size:10
Alignment explanation
Indices: 27380315--27380346 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
27380305 TTCTCTTTTC
27380315 TTGATATAAA
1 TTGATATAAA
27380325 TTGATATAAA
1 TTGATATAAA
27380335 TTGATATAAA
1 TTGATATAAA
27380345 TT
1 TT
27380347 AAACTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (10 bp):
TTGATATAAA
Found at i:27382658 original size:28 final size:27
Alignment explanation
Indices: 27382602--27382653 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
27382592 CATTTCATTC
* *
27382602 ATTTCACATTTTAGTCCCTCATTTACAA
1 ATTTCACAATTTAGTCCAT-ATTTACAA
27382630 ATTTCACAATTTAGTCCAT-TTTAC
1 ATTTCACAATTTAGTCCATATTTAC
27382654 TCAAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
28 17 0.77
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTTCACAATTTAGTCCATATTTACAA
Found at i:27413030 original size:16 final size:16
Alignment explanation
Indices: 27413009--27413051 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
27412999 CGAAATATCG
*
27413009 AAAAGCCAAAATGCTG
1 AAAAGCCAAAATGCTA
* *
27413025 AGAAGCCGAAATGCTA
1 AAAAGCCAAAATGCTA
27413041 AAAAGCCAAAA
1 AAAAGCCAAAA
27413052 GTTTGGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (16 bp):
AAAAGCCAAAATGCTA
Found at i:27413304 original size:28 final size:27
Alignment explanation
Indices: 27413264--27413351 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 27
27413254 ATTGCATGAC
27413264 TATGAATGTGATTAGGGCTGATGGGCCA
1 TATGAATGTGATT-GGGCTGATGGGCCA
*
27413292 TATGAATGTGATTGGGGCCGATGGGCCA
1 TATGAATGTGATT-GGGCTGATGGGCCA
*
27413320 TATGAATGAGATTGGGCCT-AGTGGGCCA
1 TATGAATGTGATTGGG-CTGA-TGGGCCA
27413348 TATG
1 TATG
27413352 CATGCATGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
27 4 0.07
28 50 0.93
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (27 bp):
TATGAATGTGATTGGGCTGATGGGCCA
Found at i:27413738 original size:38 final size:39
Alignment explanation
Indices: 27413670--27413745 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 39
27413660 ATGCAGAACA
* *
27413670 CATATTAATGATGTTCAAACTATGACATAATTAAAGACT
1 CATATTAATGATGTTCAAACTAGGAAATAATTAAAGACT
27413709 CATATTAATGATGTTC-AACTAGGAAATAATTAAAGAC
1 CATATTAATGATGTTCAAACTAGGAAATAATTAAAGAC
27413746 ACAAACTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 19 0.54
39 16 0.46
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (39 bp):
CATATTAATGATGTTCAAACTAGGAAATAATTAAAGACT
Found at i:27414163 original size:32 final size:32
Alignment explanation
Indices: 27414120--27414181 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
27414110 GAGATAAATT
* **
27414120 AGATACGTTAAAACTTGCGTTGATGTTATATC
1 AGATACATTAAAACTTGCACTGATGTTATATC
27414152 AGATACATTAAAACTTGCACTGATGTTATA
1 AGATACATTAAAACTTGCACTGATGTTATA
27414182 CTCTCTTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
AGATACATTAAAACTTGCACTGATGTTATATC
Found at i:27421676 original size:23 final size:22
Alignment explanation
Indices: 27421653--27421767 Score: 106
Period size: 23 Copynumber: 5.0 Consensus size: 22
27421643 TAAGCTCCTC
27421653 TTGAGCTGATGAATAGTAAGCTCTA
1 TTGAGCTGA--AATAGTAAGCTC-A
**
27421678 TTGAGCTGAAACGGTAAGCTCTA
1 TTGAGCTGAAATAGTAAGCTC-A
*
27421701 TCGAGCTG-AATAGTAAGCTCA
1 TTGAGCTGAAATAGTAAGCTCA
*
27421722 TATGAGCTGAAATGGTAAGCTCCA
1 T-TGAGCTGAAATAGTAAGCT-CA
* *
27421746 ATGAGTTGAAAATAGTAAGCTC
1 TTGAGCTG-AAATAGTAAGCTC
27421768 TTACGAGCTG
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.03
22 16 0.21
23 36 0.47
24 13 0.17
25 9 0.12
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (22 bp):
TTGAGCTGAAATAGTAAGCTCA
Found at i:27443087 original size:27 final size:27
Alignment explanation
Indices: 27443038--27443112 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
27443028 ATTACCAAAG
27443038 TACCCCCGATTTACAAAATTACTGTTT
1 TACCCCCGATTTACAAAATTACTGTTT
27443065 TACCCCCGATTTACAAAATTACTGTTT
1 TACCCCCGATTTACAAAATTACTGTTT
*
27443092 TACCCTCGATTTACAAAATTA
1 TACCCCCGATTTACAAAATTA
27443113 TTGAAATACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
TACCCCCGATTTACAAAATTACTGTTT
Found at i:27443122 original size:27 final size:27
Alignment explanation
Indices: 27442993--27443122 Score: 109
Period size: 27 Copynumber: 4.8 Consensus size: 27
27442983 AATACTTTAG
* * *
27442993 TTTACCAAATTAATGAAATACCCTCGA
1 TTTACAAAATTACTGAAATACCCCCGA
* ** *
27443020 CTTGTAAAATTAC-CAAAGTACCCCCGA
1 TTTACAAAATTACTGAAA-TACCCCCGA
***
27443047 TTTACAAAATTACTGTTTTACCCCCGA
1 TTTACAAAATTACTGAAATACCCCCGA
*** *
27443074 TTTACAAAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTGAAATACCCCCGA
*
27443101 TTTACAAAATTATTGAAATACC
1 TTTACAAAATTACTGAAATACC
27443123 TCTATAGGGT
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.04
27 79 0.96
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCCCGA
Found at i:27443138 original size:27 final size:27
Alignment explanation
Indices: 27443108--27443177 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
27443098 CGATTTACAA
*
27443108 AATTATTGAAATACCTC-TATAGGGTAG
1 AATTACTGAAATACC-CATATAGGGTAG
*
27443135 AATTACTGAAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCATATAGGGTAG
* *
27443162 AATTACCGAGATACCC
1 AATTACTGAAATACCC
27443178 TTGTGGGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCATATAGGGTAG
Found at i:27443186 original size:27 final size:27
Alignment explanation
Indices: 27443127--27443195 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
27443117 AATACCTCTA
*
27443127 TAGGGTAGAATTACTGAAATACCCATG
1 TAGGGTAGAATTACCGAAATACCCATG
* *
27443154 TAGGGTAGAATTACCGAGATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCATG
* *
27443181 TGGGGTAAAATTACC
1 TAGGGTAGAATTACC
27443196 ATTTTTCCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCATG
Found at i:27443792 original size:27 final size:27
Alignment explanation
Indices: 27443762--27443869 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
27443752 ATTCTGTTAA
* *
27443762 GTGGATTTGCCACATTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* *
27443789 GTGGCTATGCCACAAATATTTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
*
27443816 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* * * *
27443843 GTGACTCTGTCACAATACCTG-TTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
27443869 G
1 G
27443870 CAACCATGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 12 0.18
27 49 0.73
28 6 0.09
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:27444025 original size:6 final size:6
Alignment explanation
Indices: 27443986--27444132 Score: 61
Period size: 6 Copynumber: 23.7 Consensus size: 6
27443976 TTGCATTCAC
* * * * *
27443986 ATTCTG ATTTTG ATTCTG -TTACTTG ATACTG ATTCTG ATTTTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
27444036 ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTTTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
27444086 ATTTTG ATTCTG ATTCTT ATTCTG -TCACCTG ATTCTG ATTCTG ATTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTC
27444133 CCATTTTGAT
Statistics
Matches: 104, Mismatches: 22, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
5 8 0.08
6 79 0.76
7 11 0.11
8 6 0.06
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:27444042 original size:25 final size:25
Alignment explanation
Indices: 27443986--27444097 Score: 92
Period size: 25 Copynumber: 4.7 Consensus size: 25
27443976 TTGCATTCAC
* * * *
27443986 ATTCTGATTTTGATTCTGTTACTTG
1 ATTCTGATTCTGATTCTGTCACCTA
* *
27444011 ATACTGATTCTGATTTTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
27444036 ATTCTGATTCT-A---T-T-ACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
27444055 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
* *
27444080 ATTTTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
27444098 ATTCTTATTC
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
19 14 0.21
20 2 0.03
21 1 0.01
23 1 0.01
24 2 0.03
25 48 0.71
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:27444053 original size:19 final size:19
Alignment explanation
Indices: 27444017--27444065 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
27444007 CTTGATACTG
* *
27444017 ATTCTGATTTTGTCACCTA
1 ATTCTGATTCTATCACCTA
* *
27444036 ATTCTGATTCTATTACCTG
1 ATTCTGATTCTATCACCTA
*
27444055 ATACTGATTCT
1 ATTCTGATTCT
27444066 GATTCTGTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTCTGATTCTATCACCTA
Found at i:27444059 original size:44 final size:44
Alignment explanation
Indices: 27443996--27444127 Score: 152
Period size: 44 Copynumber: 3.2 Consensus size: 44
27443986 ATTCTGATTT
* * *
27443996 TGATTCTGTTACTTGATACTGATTCTGATTTTGTCACCTAATTC
1 TGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTC
*
27444040 TGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTT
1 TGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTC
* * *
27444084 TGA---T-TT---TGATTCTGATTCTTATTCTGTCACCTGATTC
1 TGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTC
27444121 TGATTCT
1 TGATTCT
27444128 GATTCCCATT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
37 30 0.39
40 3 0.04
41 1 0.01
44 43 0.56
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (44 bp):
TGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTC
Found at i:27444071 original size:31 final size:31
Alignment explanation
Indices: 27444036--27444132 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 31
27444026 TTGTCACCTA
*
27444036 ATTCTGATTCTATTACCTGATACTGATTCTG
1 ATTCTGATTCTATTACCTGATTCTGATTCTG
* * *
27444067 ATTCTG-TCACCTAATT--TTGATTTTGATTCTG
1 ATTCTGAT--TCT-ATTACCTGATTCTGATTCTG
* * *
27444098 ATTCTTATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTATTACCTGATTCTGATTCTG
27444129 ATTC
1 ATTC
27444133 CCATTTTGAT
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
29 1 0.02
30 3 0.06
31 40 0.80
32 3 0.06
33 3 0.06
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTATTACCTGATTCTGATTCTG
Found at i:27444100 original size:37 final size:37
Alignment explanation
Indices: 27444009--27444132 Score: 122
Period size: 37 Copynumber: 3.2 Consensus size: 37
27443999 TTCTGTTACT
* *
27444009 TGATACTGATTCTGATTTTGTCACCTAATTCTGATTCTATTACC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTG-----ATT--C
* * *
27444053 TGATACTGATTCTGATTCTGTCACCTAATTTTGATTT
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
* *
27444090 TGATTCTGATTCTTATTCTGTCACCTGATTCTGATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
27444127 TGATTC
1 TGATTC
27444133 CCATTTTGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
37 38 0.53
39 3 0.04
44 31 0.43
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
Found at i:27444145 original size:37 final size:38
Alignment explanation
Indices: 27444061--27444145 Score: 104
Period size: 37 Copynumber: 2.3 Consensus size: 38
27444051 CCTGATACTG
* * **
27444061 ATTC-TGATTCTGTCACCTAATTTTGATTTTGATTCTG
1 ATTCTTGATTCTGTCACCTAATTCTGATTCTGATTCCC
*
27444098 ATTCTT-ATTCTGTCACCTGATTCTGATTCTGATTCCC
1 ATTCTTGATTCTGTCACCTAATTCTGATTCTGATTCCC
27444135 ATT-TTGATTCT
1 ATTCTTGATTCT
27444146 AGTTCTAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 2 0.05
37 38 0.93
38 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.51
Consensus pattern (38 bp):
ATTCTTGATTCTGTCACCTAATTCTGATTCTGATTCCC
Found at i:27447096 original size:35 final size:36
Alignment explanation
Indices: 27447021--27447120 Score: 100
Period size: 35 Copynumber: 2.9 Consensus size: 36
27447011 GCTAAATTGG
* *
27447021 GCACACCACCACCACCAGCAACATTCCTTTTGGGGC
1 GCACACCACCACCACCAGCAACATTCCTTTCGAGGC
* * *
27447057 GCACA-CACCACCGCTAGCAACATTCCTTTCGAGGT
1 GCACACCACCACCACCAGCAACATTCCTTTCGAGGC
* * *
27447092 GCACAGCACGATCA--A-CAACATTCCTTTCG
1 GCACACCACCACCACCAGCAACATTCCTTTCG
27447121 GGACTTCGAG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 14 0.25
34 1 0.02
35 30 0.55
36 10 0.18
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.19
Consensus pattern (36 bp):
GCACACCACCACCACCAGCAACATTCCTTTCGAGGC
Found at i:27450396 original size:27 final size:28
Alignment explanation
Indices: 27450312--27450409 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
27450302 CATGAGATTG
* * * *
27450312 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
27450341 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
27450369 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27450396 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
27450410 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27450420 original size:27 final size:27
Alignment explanation
Indices: 27450340--27450422 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
27450330 TAAATTGTAC
* *
27450340 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
27450368 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
27450395 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
27450422 A
1 A
27450423 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:27450423 original size:29 final size:27
Alignment explanation
Indices: 27450312--27450423 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
27450302 CATGAGATTG
** * *
27450312 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
27450341 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
27450369 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
27450396 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
27450424 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:27452165 original size:40 final size:40
Alignment explanation
Indices: 27452120--27452218 Score: 141
Period size: 38 Copynumber: 2.5 Consensus size: 40
27452110 GACAAACATC
*
27452120 AATGATG-TCAAAATTAAGACACATAATAAAAACACATATT
1 AATGATGTTC-AAACTAAGACACATAATAAAAACACATATT
* *
27452160 CATGATGTTCAAACTAAG--ACATAATTAAAACACATATT
1 AATGATGTTCAAACTAAGACACATAATAAAAACACATATT
27452198 AATGATGTTCAAACTAAGACA
1 AATGATGTTCAAACTAAGACA
27452219 TAATTAAAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
38 36 0.69
40 14 0.27
41 2 0.04
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (40 bp):
AATGATGTTCAAACTAAGACACATAATAAAAACACATATT
Done.