Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 281 of 335
Found at i:85004601 original size:22 final size:22
Alignment explanation
Indices: 85004573--85004617 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
85004563 CAAAAGAAAA
* * *
85004573 GGCAGTGGGTAGTCCCGTCGGT
1 GGCAGTGAGCAGTCCCATCGGT
85004595 GGCAGTGAGCAGTCCCATCGGT
1 GGCAGTGAGCAGTCCCATCGGT
85004617 G
1 G
85004618 CAGAGCAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.42, T:0.20
Consensus pattern (22 bp):
GGCAGTGAGCAGTCCCATCGGT
Found at i:85004667 original size:27 final size:27
Alignment explanation
Indices: 85004628--85004684 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
85004618 CAGAGCAATG
* *
85004628 ACCGGTGCTGCCTGTGGGGTACCCTCC
1 ACCGATGCCGCCTGTGGGGTACCCTCC
85004655 ACCGATGCCGCCTGTGGGGTACCCTCC
1 ACCGATGCCGCCTGTGGGGTACCCTCC
85004682 ACC
1 ACC
85004685 CTTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.40, G:0.30, T:0.19
Consensus pattern (27 bp):
ACCGATGCCGCCTGTGGGGTACCCTCC
Found at i:85005817 original size:26 final size:26
Alignment explanation
Indices: 85005791--85005848 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
85005781 AGTAATTTTT
85005791 AAAAAAGAAAAAGTAGTTTTCCCTTTA
1 AAAAAAG-AAAAGTAGTTTTCCCTTTA
** *
85005818 AAGAAAAGAAGGGTAGTTTTCTCTTTA
1 AA-AAAAGAAAAGTAGTTTTCCCTTTA
85005845 AAAA
1 AAAA
85005849 GTGGTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 20 0.74
28 5 0.19
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (26 bp):
AAAAAAGAAAAGTAGTTTTCCCTTTA
Found at i:85006231 original size:21 final size:22
Alignment explanation
Indices: 85006194--85006235 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
85006184 AAGCATTTAT
*
85006194 ATAAAATTTTTATATTTAAAAA
1 ATAAAATTTTCATATTTAAAAA
85006216 ATAAAA-TTTCATATTTAAAA
1 ATAAAATTTTCATATTTAAAA
85006236 GAAAAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAAATTTTCATATTTAAAAA
Found at i:85010304 original size:2 final size:2
Alignment explanation
Indices: 85010299--85010330 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
85010289 ATAGGGAGAG
85010299 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
85010331 GAAAGCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:85014712 original size:16 final size:18
Alignment explanation
Indices: 85014676--85014712 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
85014666 TTCAAATACT
85014676 AATTTTTATTCGAGTTTTC
1 AATTTTTATTCGAG-TTTC
85014695 AATTTTTA-TCGA-TTTC
1 AATTTTTATTCGAGTTTC
85014711 AA
1 AA
85014713 GCAGTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (18 bp):
AATTTTTATTCGAGTTTC
Found at i:85015423 original size:21 final size:21
Alignment explanation
Indices: 85015394--85015435 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85015384 GACTTAATTT
* * *
85015394 TTAACTTTTTAAATATAGGGA
1 TTAAATTTTAAAATAAAGGGA
85015415 TTAAATTTTAAAATAAAGGGA
1 TTAAATTTTAAAATAAAGGGA
85015436 CTAACAGCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (21 bp):
TTAAATTTTAAAATAAAGGGA
Found at i:85016538 original size:25 final size:26
Alignment explanation
Indices: 85016492--85016540 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
85016482 TTAAAAAAAT
***
85016492 ATTTTTATATTTTTATGGTTTTAATA
1 ATTTTTATATTTTTAAAATTTTAATA
85016518 ATTTTTA-ATTTTTAAAATTTTAA
1 ATTTTTATATTTTTAAAATTTTAA
85016541 AAAATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTTTATATTTTTAAAATTTTAATA
Found at i:85017734 original size:24 final size:24
Alignment explanation
Indices: 85017688--85017735 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
85017678 CAAACCCCAT
* **
85017688 TTTTCTCTTCTTCCACACCCCAAA
1 TTTTCTCTTCTTCCAAAAACCAAA
*
85017712 TTTTCTCTTCTTCTAAAAACCAAA
1 TTTTCTCTTCTTCCAAAAACCAAA
85017736 AGAAAAAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTTCTCTTCTTCCAAAAACCAAA
Found at i:85021532 original size:2 final size:2
Alignment explanation
Indices: 85021525--85021561 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
85021515 AATCTGAGGC
85021525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85021562 CAAATTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85021876 original size:20 final size:20
Alignment explanation
Indices: 85021831--85021882 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
85021821 CTTTTTTTTA
85021831 ATAAAAAATT-TAAAAAAAT
1 ATAAAAAATTATAAAAAAAT
* * **
85021850 TTTAAAAATTATAAAATTAT
1 ATAAAAAATTATAAAAAAAT
85021870 ATAAAAAATTATA
1 ATAAAAAATTATA
85021883 GAATAATTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAAAAATTATAAAAAAAT
Found at i:85023594 original size:17 final size:17
Alignment explanation
Indices: 85023574--85023606 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
85023564 CACTTCAATT
85023574 TAAAAAATATTTTAATA
1 TAAAAAATATTTTAATA
85023591 TAAAAAATATTTTAAT
1 TAAAAAATATTTTAAT
85023607 TTTATAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAAATATTTTAATA
Found at i:85025159 original size:30 final size:29
Alignment explanation
Indices: 85025125--85025199 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
85025115 TCTTTTATAA
*
85025125 AAATAACCTTAAAATTTTAATTAATTATGT
1 AAATAA-CTTAAAATTTTAATTAAATATGT
* *** *
85025155 AAATAATTTACTTTTTTTATTAAATATGT
1 AAATAACTTAAAATTTTAATTAAATATGT
85025184 AAATAACTTAAAATTT
1 AAATAACTTAAAATTT
85025200 ACAATAAAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
29 29 0.83
30 6 0.17
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (29 bp):
AAATAACTTAAAATTTTAATTAAATATGT
Found at i:85025796 original size:22 final size:22
Alignment explanation
Indices: 85025755--85025813 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
85025745 TTATCATATA
85025755 AAAAGATAAAAA--TAACTTTAT
1 AAAA-ATAAAAATTTAACTTTAT
*
85025776 AAAAATAAAAATTTAATTTTAT
1 AAAAATAAAAATTTAACTTTAT
*
85025798 ACAAATTAAATAATTT
1 A-AAAATAAA-AATTT
85025814 GTATAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.22
21 4 0.12
22 9 0.28
23 7 0.22
24 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAATAAAAATTTAACTTTAT
Found at i:85027409 original size:29 final size:28
Alignment explanation
Indices: 85027363--85027468 Score: 113
Period size: 29 Copynumber: 3.7 Consensus size: 28
85027353 ATAAATGCTT
* *
85027363 CATATATCAGAATTAACCACAAAGACCC
1 CATATAACAGAATCAACCACAAAGACCC
* * * *
85027391 ACATATAACAAAATCAACCCCAAAGGCTCT
1 -CATATAACAGAATCAACCACAAAGAC-CC
*
85027421 CATATAGCAGAATCAACCACAAAGACTCC
1 CATATAACAGAATCAACCACAAAGAC-CC
*
85027450 CATATAACAGAATTAACCA
1 CATATAACAGAATCAACCA
85027469 AAAATGCTCC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 0.98
30 1 0.02
ACGTcount: A:0.47, C:0.28, G:0.08, T:0.17
Consensus pattern (28 bp):
CATATAACAGAATCAACCACAAAGACCC
Found at i:85028351 original size:54 final size:54
Alignment explanation
Indices: 85028248--85028351 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
85028238 CTAAACGATA
* * * **
85028248 GATCACATAAACTCATCAAGATCTGTACATTTGACTCATTCTTCTTTCCACTTT
1 GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCACTTT
85028302 GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCA
1 GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCA
85028352 TCGAGTAGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.34
Consensus pattern (54 bp):
GATCACAGAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCACTTT
Found at i:85036353 original size:15 final size:15
Alignment explanation
Indices: 85036333--85036366 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
85036323 GTATGTGTAT
*
85036333 TTTAGTTAGTTATAC
1 TTTAGTTACTTATAC
*
85036348 TTTAGTTACTTTTAC
1 TTTAGTTACTTATAC
85036363 TTTA
1 TTTA
85036367 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (15 bp):
TTTAGTTACTTATAC
Found at i:85038678 original size:29 final size:31
Alignment explanation
Indices: 85038624--85038681 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
85038614 GTGTGTAATT
85038624 ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
1 ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
* *
85038655 ACACGAGC-A-TCTAGTTGGCTGTGTGCC
1 ACACGAGCAATTCTAGTAGGCCGTGTGCC
85038682 AGGTCGTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 1 0.04
31 8 0.32
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.22
Consensus pattern (31 bp):
ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
Found at i:85043763 original size:19 final size:20
Alignment explanation
Indices: 85043741--85043783 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
85043731 GAGAAAACCG
*
85043741 AAGAA-GAATAAAAAAAGAA
1 AAGAACGAAAAAAAAAAGAA
85043760 AAGAACGTGAAAAAAAAAAGAA
1 AAGAAC--GAAAAAAAAAAGAA
85043782 AA
1 AA
85043784 AAGCAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
22 15 0.75
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (20 bp):
AAGAACGAAAAAAAAAAGAA
Found at i:85049845 original size:2 final size:2
Alignment explanation
Indices: 85049838--85049874 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
85049828 CTATTTAGAA
85049838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85049875 ATTTAAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85050769 original size:2 final size:2
Alignment explanation
Indices: 85050762--85050797 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
85050752 AATTAATTGA
*
85050762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85050798 TTAAGACATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:85052732 original size:79 final size:77
Alignment explanation
Indices: 85052556--85052769 Score: 191
Period size: 77 Copynumber: 2.8 Consensus size: 77
85052546 AATTCATTTC
* * * * * * * * *
85052556 GAGATTAATTCCCACCGTTCAATGATTTTATTCCAAATTTATTTTATTTCCAAAACCAACTAAAC
1 GAGATTGATTCTCGCCGTTCAACGATTTTATTACAAATTTGTTTTATTGCCAAAAACGACTAAAC
85052621 AAAATCTGTTCT
66 AAAATCTGTTCT
* ** * *
85052633 GGGATTGATTCTCGTTGTTCAACGATTTTATTTCAAATTCTGTTTTATTGCCAAAAACGAGTAAC
1 GAGATTGATTCTCGCCGTTCAACGATTTTATTACAAATT-TGTTTTATTGCCAAAAACGACTAA-
* * *
85052698 ATAAAATTTGTTTT
64 ACAAAATCTGTTCT
* * *
85052712 GAGATTGATT-TCTGCCGTTCAACGGA-TTTATTAC-ACTTTGATTTGTTGCCAAAAACGA
1 GAGATTGATTCTC-GCCGTTCAAC-GATTTTATTACAAATTTGTTTTATTGCCAAAAACGA
85052770 AAAATTAAAT
Statistics
Matches: 110, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
77 49 0.45
78 24 0.22
79 35 0.32
80 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (77 bp):
GAGATTGATTCTCGCCGTTCAACGATTTTATTACAAATTTGTTTTATTGCCAAAAACGACTAAAC
AAAATCTGTTCT
Found at i:85053161 original size:75 final size:75
Alignment explanation
Indices: 85053038--85053189 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
85053028 ATTTATTCCC
85053038 ATCGTTTAATAGATTTTATTCTAATTTAATGATATAATTTTGTTTAGGATTTAATCCTGCTGTTT
1 ATCGTTTAATAGATTTTATTCTAATTTAATGATATAATTTTGTTTAGGATTTAATCCTGCTGTTT
85053103 AACAAAATTA
66 AACAAAATTA
85053113 ATCGTTTAATAGATTTTATTCTAATTTAATGATATAATTTTGTTTAGGATTTAATCCTGCTGTTT
1 ATCGTTTAATAGATTTTATTCTAATTTAATGATATAATTTTGTTTAGGATTTAATCCTGCTGTTT
85053178 AACAAAATTA
66 AACAAAATTA
85053188 AT
1 AT
85053190 TTTGATTTTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.48
Consensus pattern (75 bp):
ATCGTTTAATAGATTTTATTCTAATTTAATGATATAATTTTGTTTAGGATTTAATCCTGCTGTTT
AACAAAATTA
Found at i:85056907 original size:15 final size:16
Alignment explanation
Indices: 85056887--85056926 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
85056877 CTGTTCATAT
85056887 TTTATTTTAT-ATGT-A
1 TTTATTTTATAAT-TAA
85056902 TTTA-TTTATAATTAA
1 TTTATTTTATAATTAA
85056917 TTTATTTTAT
1 TTTATTTTAT
85056927 TCACTAACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTATTTTATAATTAA
Found at i:85068402 original size:29 final size:29
Alignment explanation
Indices: 85068267--85068401 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
85068257 GCTTGGAAGG
85068267 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
85068296 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
85068325 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
85068354 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
85068383 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
85068402 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:85076355 original size:29 final size:29
Alignment explanation
Indices: 85076220--85076354 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
85076210 GCTTGGAAGG
85076220 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
85076249 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
85076278 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
85076307 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
85076336 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
85076355 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:85078189 original size:24 final size:24
Alignment explanation
Indices: 85078157--85078205 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
85078147 GAGAGGTGTG
*
85078157 TTAGCTGGATGGGCGGGTTTTTAC
1 TTAGCTGGATAGGCGGGTTTTTAC
*
85078181 TTAGCTGGATAGGTGGGTTTTTAC
1 TTAGCTGGATAGGCGGGTTTTTAC
85078205 T
1 T
85078206 ACTTGACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.10, G:0.35, T:0.41
Consensus pattern (24 bp):
TTAGCTGGATAGGCGGGTTTTTAC
Found at i:85081075 original size:21 final size:21
Alignment explanation
Indices: 85080975--85081075 Score: 121
Period size: 21 Copynumber: 4.8 Consensus size: 21
85080965 GTCCCTGACT
* *
85080975 CACACGGGCGTGTGCCATAAC
1 CACACGGTCGTGTGCCTTAAC
*
85080996 CACACGGTCGTGTGCCATAAC
1 CACACGGTCGTGTGCCTTAAC
*
85081017 CACACGGTCGTGTGCCTTAGC
1 CACACGGTCGTGTGCCTTAAC
* * *
85081038 CACATGGTCATGTGCCTTAGC
1 CACACGGTCGTGTGCCTTAAC
**
85081059 CACATAGTCGTGTGCCT
1 CACACGGTCGTGTGCCT
85081076 CCTTTCACAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.20, C:0.32, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACGGTCGTGTGCCTTAAC
Found at i:85084944 original size:23 final size:23
Alignment explanation
Indices: 85084918--85084962 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
85084908 CGCACCCTAA
* *
85084918 ATGGCCGAGCCCGTGTGGCCCAG
1 ATGGCCGAGCCCATGTAGCCCAG
*
85084941 ATGGCCTAGCCCATGTAGCCCA
1 ATGGCCGAGCCCATGTAGCCCA
85084963 CACTGCCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (23 bp):
ATGGCCGAGCCCATGTAGCCCAG
Found at i:85087377 original size:32 final size:32
Alignment explanation
Indices: 85087341--85087405 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
85087331 TGTATGCATT
85087341 TTAGCATTTTAATAGTTAATAGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
85087373 TTAGCATTTTAATAGTTAATAGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
85087405 T
1 T
85087406 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATAGATGATGGGCA
Found at i:85088963 original size:26 final size:26
Alignment explanation
Indices: 85088934--85088986 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
85088924 TTTACAGTTT
85088934 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
85088960 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
85088986 T
1 T
85088987 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:85091193 original size:10 final size:10
Alignment explanation
Indices: 85091180--85091217 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
85091170 AATGTTTTGA
85091180 ATTCTTTTAT
1 ATTCTTTTAT
85091190 ATTCTTTTAT
1 ATTCTTTTAT
85091200 ATT-TTTAATAT
1 ATTCTTT--TAT
85091211 ATTCTTT
1 ATTCTTT
85091218 GAATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 3 0.12
10 13 0.52
11 6 0.24
12 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTCTTTTAT
Found at i:85091225 original size:20 final size:20
Alignment explanation
Indices: 85091175--85091227 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
85091165 TATATAATGT
85091175 TTTGAATTCTTT--TATATTC
1 TTTGAATT-TTTAATATATTC
*
85091194 TTTTATATTTTTAATATATTC
1 TTTGA-ATTTTTAATATATTC
85091215 TTTGAATTTTTAA
1 TTTGAATTTTTAA
85091228 AAGTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 7 0.24
20 11 0.38
21 11 0.38
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTGAATTTTTAATATATTC
Found at i:85093077 original size:26 final size:26
Alignment explanation
Indices: 85093039--85093091 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
85093029 CGTGCACTCT
*
85093039 ACGCGTTCGAACCCTTGTATTGACTA
1 ACGCGTTCAAACCCTTGTATTGACTA
85093065 ACGCGTTCAAACCCTTGTATTGACTA
1 ACGCGTTCAAACCCTTGTATTGACTA
85093091 A
1 A
85093092 GGCATGAAGT
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:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (26 bp):
ACGCGTTCAAACCCTTGTATTGACTA
Found at i:85094746 original size:2 final size:2
Alignment explanation
Indices: 85094739--85094772 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
85094729 GTACATATTA
85094739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85094773 GACATGAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85095465 original size:88 final size:86
Alignment explanation
Indices: 85095363--85095529 Score: 217
Period size: 88 Copynumber: 1.9 Consensus size: 86
85095353 ATTAATTCTT
* * * *
85095363 TTTTTTTCATTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAAAGCTCTCAAACTTCTTC
1 TTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAAA-CTCTCAAA-ATCTTC
85095428 CAAAAAAGCAATTAAACCCCCTC
64 CAAAAAAGCAATTAAACCCCCTC
* * * * * *
85095451 TTTTTTTCACTCAATTGGGTATTTAAACTTTCAAAATACATCAAAAAGACTCTCAAAATCTTTCA
1 TTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAAACTCTCAAAATCTTCCA
*
85095516 AAAAAGTAATTAAA
66 AAAAAGCAATTAAA
85095530 TACATGCTCT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 19 0.28
87 8 0.12
88 41 0.60
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (86 bp):
TTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAAACTCTCAAAATCTTCCA
AAAAAGCAATTAAACCCCCTC
Found at i:85095815 original size:20 final size:22
Alignment explanation
Indices: 85095787--85095831 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
85095777 AAAATTTATA
* *
85095787 TTTCTTTAC-ATTTTATATAAT
1 TTTCTTTACGACTTTATAAAAT
85095808 TTTC-TTACGACTTTATAAAAT
1 TTTCTTTACGACTTTATAAAAT
85095829 TTT
1 TTT
85095832 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTCTTTACGACTTTATAAAAT
Found at i:85095859 original size:18 final size:17
Alignment explanation
Indices: 85095825--85095858 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
85095815 CGACTTTATA
85095825 AAATTTTATAATTTTTT
1 AAATTTTATAATTTTTT
85095842 AAATTTCTAT-ATTTTTT
1 AAATTT-TATAATTTTTT
85095859 TTCTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
AAATTTTATAATTTTTT
Found at i:85096632 original size:11 final size:11
Alignment explanation
Indices: 85096616--85096653 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
85096606 AAGAAGTTAG
85096616 ATTCTAATTAC
1 ATTCTAATTAC
85096627 ATTCTAATTAC
1 ATTCTAATTAC
85096638 ATTCTAATTAC
1 ATTCTAATTAC
85096649 ATTCT
1 ATTCT
85096654 TAGTCTATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTCTAATTAC
Found at i:85099632 original size:60 final size:60
Alignment explanation
Indices: 85099537--85099681 Score: 227
Period size: 60 Copynumber: 2.4 Consensus size: 60
85099527 GCGTCCTAAA
* ** **
85099537 ACCAAGGATGGATTTGAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGTGATTATGATT
1 ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATGATT
* *
85099597 ACCAAGGGTGGATTCAAGTTGAAAACCCAACTAGTGGAGCTAGAATGTGCAATTATGATT
1 ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATGATT
85099657 ACCAAGGGTGGATTCAAGTTGAAAA
1 ACCAAGGGTGGATTCAAGTTGAAAA
85099682 TCCTATATGA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 78 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (60 bp):
ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATGATT
Found at i:85099980 original size:74 final size:74
Alignment explanation
Indices: 85099895--85100137 Score: 265
Period size: 76 Copynumber: 3.2 Consensus size: 74
85099885 AAATCAAATA
* * * * * *
85099895 TGTTTTCAAGAAATGGGTCCAGCCTCGAGATTGCTATTGAGGTCTTTTAATTTTTATTTTATTAA
1 TGTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTCTTTTAGTTATCATTTTATTAA
*
85099960 AAATCGAAT
66 AAATTGAAT
* * ** ** * *
85099969 TCATTTT-AAGAAATGGGTTGAGCCTTGAGATTATTGTCAAGGTCTTTTTAGTTGTCATTTTATC
1 T-GTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTC-TTTTAGTTATCATTTTATT
85100033 AAAAATTGAAT
64 AAAAATTGAAT
* *
85100044 ATGTTTTCAAGAAATAGATCGAGCCTTGAGATTGAC-GTTGAGGTCCTTTTAGTTATCATTTTAT
1 -TGTTTTCAAGAAATGGGTCGAGCCTTGAGATTG-CTGTTGAGGT-CTTTTAGTTATCATTTTAT
85100108 TAAAAATTGAATT
63 TAAAAATTGAA-T
85100121 TGTTTTCAAGAAATGGG
1 TGTTTTCAAGAAATGGG
85100138 CTGAGCTTCA
Statistics
Matches: 136, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
74 30 0.22
75 33 0.24
76 71 0.52
77 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (74 bp):
TGTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTCTTTTAGTTATCATTTTATTAA
AAATTGAAT
Found at i:85103332 original size:16 final size:16
Alignment explanation
Indices: 85103311--85103360 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
85103301 TATAACATTT
85103311 TCATCATCTAAAGTTG
1 TCATCATCTAAAGTTG
85103327 TCATCA--T----TT-
1 TCATCATCTAAAGTTG
85103336 TCATCATCTAAAGTTG
1 TCATCATCTAAAGTTG
85103352 TCATCATCT
1 TCATCATCT
85103361 TTTCTCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
11 1 0.04
14 1 0.04
15 2 0.07
16 15 0.56
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (16 bp):
TCATCATCTAAAGTTG
Found at i:85103374 original size:27 final size:25
Alignment explanation
Indices: 85103306--85103358 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
85103296 CAATTTATAA
85103306 CATTTTCATCATCTAAAGTTGTCAT
1 CATTTTCATCATCTAAAGTTGTCAT
85103331 CATTTTCATCATCTAAAGTTGTCAT
1 CATTTTCATCATCTAAAGTTGTCAT
85103356 CAT
1 CAT
85103359 CTTTTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (25 bp):
CATTTTCATCATCTAAAGTTGTCAT
Found at i:85106469 original size:16 final size:16
Alignment explanation
Indices: 85106444--85106475 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85106434 GATATGTGTT
*
85106444 TTTTTTAAATATTTTA
1 TTTTTGAAATATTTTA
85106460 TTTTTGAAATATTTTA
1 TTTTTGAAATATTTTA
85106476 CTATACTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTTGAAATATTTTA
Found at i:85109393 original size:3 final size:3
Alignment explanation
Indices: 85109387--85109415 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
85109377 ATAAAATTGC
85109387 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
85109416 AATTGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:85114750 original size:15 final size:16
Alignment explanation
Indices: 85114718--85114751 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
85114708 ATTTCATCCT
85114718 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
85114734 ATTTGCATTTA-GTTA
1 ATTTGCATTTAGGTTA
85114749 ATT
1 ATT
85114752 AATTTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:85115026 original size:15 final size:16
Alignment explanation
Indices: 85114996--85115028 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
85114986 ACAATTTGGT
*
85114996 TTTTATTTTATTTTAA
1 TTTTATTTTATATTAA
85115012 TTTTA-TTTATATTAA
1 TTTTATTTTATATTAA
85115027 TT
1 TT
85115029 GTTTTGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATTTTATATTAA
Found at i:85117317 original size:16 final size:16
Alignment explanation
Indices: 85117306--85117365 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
85117296 TCAATCATTT
85117306 TAATATTAAATCAATA
1 TAATATTAAATCAATA
* *
85117322 TAATATT-TATCAAGA
1 TAATATTAAATCAATA
* * *
85117337 TAAATATTAGATTAAATT
1 T-AATATTA-AATCAATA
85117355 TAATATTAAAT
1 TAATATTAAAT
85117366 TTTATTAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
15 7 0.21
16 15 0.45
17 7 0.21
18 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TAATATTAAATCAATA
Found at i:85119097 original size:25 final size:25
Alignment explanation
Indices: 85119063--85119113 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
85119053 ATCTTCAGTT
*
85119063 TGAACTTAAACAATCAATGAGCTAA
1 TGAACTTAAACAATCAAAGAGCTAA
*
85119088 TGAACTTAAATAATCAAAGAGCTAA
1 TGAACTTAAACAATCAAAGAGCTAA
85119113 T
1 T
85119114 ATTTGCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (25 bp):
TGAACTTAAACAATCAAAGAGCTAA
Found at i:85124389 original size:23 final size:21
Alignment explanation
Indices: 85124363--85124411 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
85124353 TATTTTTATG
85124363 TTTTAAGAAAATTGACTAATATT
1 TTTTAAGAAAATTGA--AATATT
* *
85124386 TTTTAATAAAATTTAAATATT
1 TTTTAAGAAAATTGAAATATT
85124407 TTTTA
1 TTTTA
85124412 TATTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
23 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTAAGAAAATTGAAATATT
Found at i:85124674 original size:22 final size:22
Alignment explanation
Indices: 85124628--85124674 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
85124618 CTTAATTACT
**
85124628 TTTTTTTGAAAAATTTTGATGA
1 TTTTTTTGAAAAATTTTGACAA
* *
85124650 TTTTTTTGATACATTTTGACAA
1 TTTTTTTGAAAAATTTTGACAA
85124672 TTT
1 TTT
85124675 GAGTACCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (22 bp):
TTTTTTTGAAAAATTTTGACAA
Found at i:85127027 original size:2 final size:2
Alignment explanation
Indices: 85127020--85127055 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
85127010 CAATTGTTAA
*
85127020 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85127056 CAATATAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:85127061 original size:10 final size:9
Alignment explanation
Indices: 85127019--85127070 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
85127009 TCAATTGTTA
85127019 AATATATAT
1 AATATATAT
*
85127028 -TTATATAT
1 AATATATAT
85127036 ATATATATAT
1 A-ATATATAT
85127046 ATATATATAT
1 A-ATATATAT
*
85127056 CAATATAGAT
1 -AATATATAT
85127066 AATAT
1 AATAT
85127071 TTTAGAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.19
9 5 0.14
10 24 0.65
11 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (9 bp):
AATATATAT
Found at i:85144195 original size:138 final size:138
Alignment explanation
Indices: 85143967--85144221 Score: 395
Period size: 138 Copynumber: 1.8 Consensus size: 138
85143957 TTTCCAAAAT
* * * * * *
85143967 AATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATGATTGTTTATATTAATA
1 AATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAATATAACTATTTATATTAATA
**
85144032 AATCTGGTAAAATGTATACAATTAATATTTTATATGAATCAAATTCATATATTAATTATACTCTG
66 AATCTGGTAAAACATATACAATTAATATTTTATATGAATCAAATTCATATATTAATTATACTCTG
85144097 TCCTAAAG
131 TCCTAAAG
85144105 AATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAATATAACTATTTATATTAATA
1 AATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAATATAACTATTTATATTAATA
* * *
85144170 AAT-TCGGTAAAACATATACACTTAATATTTTGTATTAATCAAATTCATATAT
66 AATCT-GGTAAAACATATACAATTAATATTTTATATGAATCAAATTCATATAT
85144222 ATATATATAT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 104 0.99
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (138 bp):
AATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAATATAACTATTTATATTAATA
AATCTGGTAAAACATATACAATTAATATTTTATATGAATCAAATTCATATATTAATTATACTCTG
TCCTAAAG
Found at i:85144255 original size:150 final size:150
Alignment explanation
Indices: 85144078--85144371 Score: 471
Period size: 150 Copynumber: 2.0 Consensus size: 150
85144068 AATCAAATTC
*
85144078 ATATATTAATTATACTCTGTCCTAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAAT
1 ATATATTAATTATACTCTGTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAAT
* * *
85144143 TAATTAATATAACTATTTATATTAATAAATTCGGTAAAACATATACACTTAATATTTTGTATTAA
66 TAATTAATATAACTATTTATATTAATAAATTAGGTAAAACATATACAATTAATATTTTGTATGAA
85144208 TCAAATTCATATATATATAT
131 TCAAATTCATATATATATAT
* * *
85144228 ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAAT
1 ATATATTAATTATACTCTGTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAAT
* * * * *
85144293 TAATTAATATAATTGTTTTTATTAATAAATTATGTAAAATATATACAATTAATATTTTGTATGAA
66 TAATTAATATAACTATTTATATTAATAAATTAGGTAAAACATATACAATTAATATTTTGTATGAA
*
85144358 TCAAATTTATATAT
131 TCAAATTCATATAT
85144372 TAATTATATC
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
150 131 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (150 bp):
ATATATTAATTATACTCTGTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAAT
TAATTAATATAACTATTTATATTAATAAATTAGGTAAAACATATACAATTAATATTTTGTATGAA
TCAAATTCATATATATATAT
Found at i:85144463 original size:16 final size:16
Alignment explanation
Indices: 85144442--85144473 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85144432 TTTAACTATC
85144442 AAATTAAATTAATTCA
1 AAATTAAATTAATTCA
*
85144458 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
85144474 TGTGACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAAATTAATTCA
Found at i:85146759 original size:28 final size:28
Alignment explanation
Indices: 85146727--85146820 Score: 143
Period size: 28 Copynumber: 3.4 Consensus size: 28
85146717 TGGGAAGTAG
85146727 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
85146755 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* * * *
85146783 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
85146811 TTGGGCCTAA
1 TTGGGCCTAA
85146821 AAGGGTCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTGA
Found at i:85147194 original size:26 final size:27
Alignment explanation
Indices: 85147136--85147632 Score: 561
Period size: 27 Copynumber: 18.6 Consensus size: 27
85147126 TAACAAAGAG
*
85147136 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
85147163 AAATTA-CTGAAATACCTTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
*
85147189 AAATTA-CTGAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
85147215 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
85147242 AAATTA-CTGAAA-ACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
85147267 AAATTATCAAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
85147294 AAATTATCGAAATATCCC-CAATTTGTG
1 AAATTATCGAAATA-CCCTCGATTTGTA
* *
85147321 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
85147348 AAATTA-CTGAAATACCC-CGATTTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
*
85147374 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
85147401 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
85147428 AAATTATCGAAATATCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
85147455 AAATTATCAAAACACCC-CTAATTTGTG
1 AAATTATCGAAATACCCTC-GATTTGTA
* * *
85147482 AAATTATCGAAACACCATTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
85147509 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
85147536 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
85147563 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * * *
85147590 AAATTACCGAAACACCCCCGACTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
85147617 AAATTATCGAAATACC
1 AAATTATCGAAATACC
85147633 TTTGTAGTGT
Statistics
Matches: 411, Mismatches: 45, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.03
26 95 0.23
27 299 0.73
28 4 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:85147643 original size:27 final size:27
Alignment explanation
Indices: 85147586--85147677 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
85147576 ACCCTCGATT
* * * *
85147586 TGTAAAATTACCGAAACACCCCCG-ACT
1 TGTAAAATGACCGAAATACCCCTGTA-G
* * **
85147613 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
85147640 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
85147667 GGTAAAATGAC
1 TGTAAAATGAC
85147678 TGTTTTACCC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTGTAG
Found at i:85156373 original size:17 final size:17
Alignment explanation
Indices: 85156351--85156385 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
85156341 TTGCATCTTC
*
85156351 GATGTCTCGCATACTAT
1 GATGTCTCGCACACTAT
85156368 GATGTCTCGCACACTAT
1 GATGTCTCGCACACTAT
85156385 G
1 G
85156386 TACCATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (17 bp):
GATGTCTCGCACACTAT
Found at i:85156465 original size:28 final size:28
Alignment explanation
Indices: 85156376--85156475 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 28
85156366 ATGATGTCTC
* * * *
85156376 GCACACTATGTACCATACTCGATACCTC
1 GCACACTAAGTGCCATACTCGATACTTT
* * * * *
85156404 GCACGCTAAGTGCTATTCTGGAT-GTTT
1 GCACACTAAGTGCCATACTCGATACTTT
* *
85156431 CGTACACTAAGTGCCATCCTCGATACTTT
1 -GCACACTAAGTGCCATACTCGATACTTT
85156460 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
85156476 TTATATATAT
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 1 0.02
28 50 0.93
29 3 0.06
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCGATACTTT
Found at i:85170062 original size:35 final size:35
Alignment explanation
Indices: 85170035--85170200 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
85170025 CATGGCAAAG
*
85170035 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
85170070 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
85170105 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
85170145 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
85170180 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
85170201 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:85170154 original size:75 final size:75
Alignment explanation
Indices: 85170035--85170205 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
85170025 CATGGCAAAG
** *
85170035 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
85170094 CCATACTGAGC
65 CCATACCGAGC
85170105 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
85170170 CATACCGAGT
66 CATACCGAGC
**
85170180 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
85170206 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:85174240 original size:28 final size:28
Alignment explanation
Indices: 85174179--85174276 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
85174169 TCACAAATTG
** * *
85174179 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
85174208 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
85174236 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
85174264 GCACTAAGTGTGC
1 GCACTAAGTGTGC
85174277 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:85181917 original size:28 final size:28
Alignment explanation
Indices: 85181856--85181953 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
85181846 TCACAAATTG
** * *
85181856 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
85181885 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
85181913 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
85181941 GCACTAAGTGTGC
1 GCACTAAGTGTGC
85181954 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:85183900 original size:40 final size:39
Alignment explanation
Indices: 85183834--85183979 Score: 147
Period size: 40 Copynumber: 3.8 Consensus size: 39
85183824 AAATTGAATG
* *
85183834 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* * * **
85183873 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* *
85183913 ATATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGAGTTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GAGATT
*
85183951 CTATCCGGGCTAAGACCCGAAGGC-ATTTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTTG
85183980 TGCACGTGGT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
37 1 0.01
38 31 0.35
39 16 0.18
40 41 0.46
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAGATT
Found at i:85191903 original size:40 final size:40
Alignment explanation
Indices: 85191844--85191985 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
85191834 AAATTGAATG
* * *
85191844 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
85191884 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
85191924 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
85191964 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
85191986 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:85191986 original size:40 final size:39
Alignment explanation
Indices: 85191883--85191995 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
85191873 TGCTGGAAAT
* * *
85191883 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGCGAC
*
85191923 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC-AT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAG-CGAC
*
85191963 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
85191996 ACATGTTATA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
39 3 0.05
40 59 0.91
41 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGCGAC
Found at i:85195400 original size:26 final size:26
Alignment explanation
Indices: 85195371--85195420 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
85195361 AATTAATGCT
*
85195371 AATTTAACTAAAATATTGAATGTTAG
1 AATTAAACTAAAATATTGAATGTTAG
* *
85195397 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
85195421 TTCTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTAG
Found at i:85199589 original size:24 final size:24
Alignment explanation
Indices: 85199539--85199604 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
85199529 CCCCAAATTC
* * *
85199539 TTTAATTTAATTCAATTTTAATCCT
1 TTTATTTTAATT-TATTTTAATACT
85199564 TTT-TTTTAATTTATTTTAAATACT
1 TTTATTTTAATTTATTTT-AATACT
*
85199588 TTTATATT-ATTTATTTT
1 TTTATTTTAATTTATTTT
85199605 TATATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.14
24 24 0.69
25 6 0.17
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATTTTAATTTATTTTAATACT
Found at i:85199665 original size:38 final size:35
Alignment explanation
Indices: 85199589--85199667 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 35
85199579 TTAAATACTT
*
85199589 TTATATTATTTATTTTTATATATATTATCCATTATA
1 TTATATTATTTATTTTTATATAAATTAT-CATTATA
*
85199625 TTATATTATTGTATATTTTATCTATAAATTAT-ATTTTA
1 TTATATTATT-TAT-TTTTA--TATAAATTATCATTATA
85199663 TTATA
1 TTATA
85199668 AATTTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 10 0.27
37 3 0.08
38 15 0.41
40 9 0.24
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (35 bp):
TTATATTATTTATTTTTATATAAATTATCATTATA
Found at i:85199669 original size:17 final size:18
Alignment explanation
Indices: 85199636--85199676 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
85199626 TATATTATTG
85199636 TATATTTTATCTATAAAT
1 TATATTTTATCTATAAAT
85199654 TATATTTTAT-TATAAAT
1 TATATTTTATCTATAAAT
*
85199671 TTTATT
1 TATATT
85199677 ATATATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTTTATCTATAAAT
Found at i:85199785 original size:23 final size:25
Alignment explanation
Indices: 85199757--85199804 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
85199747 TTATTAATAG
*
85199757 ATAATATT-ATCTTT-ATTTATATA
1 ATAATATTCATATTTCATTTATATA
85199780 ATAATATTCATATTTCATTTATATA
1 ATAATATTCATATTTCATTTATATA
85199805 TATTTATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
24 5 0.23
25 9 0.41
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
ATAATATTCATATTTCATTTATATA
Found at i:85206085 original size:282 final size:281
Alignment explanation
Indices: 85205570--85206139 Score: 885
Period size: 282 Copynumber: 2.0 Consensus size: 281
85205560 AACTTGATTT
* * * *
85205570 CCTTATTCTTCTTCCTTTAAATTACTTGTTTTTATCAAGATCGAGAATGAAACTCCAAATATGTT
1 CCTTATTCTTCTTCCTTTAAATCACTTGTTTTTATAAAGATCAAGAATGAAACTCCAAATATGTG
* * * *
85205635 AGGGACGTACGTGCACATTCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCTATT
66 AGCGACGCACGTCCACATGCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCTATT
* *
85205700 CATTATTTGGGCAATACCTACTAGAGTTATAAAAATGTAACGTCATTTGTGGTTTCCAATTTCAC
131 CATTATTTGGGCAATACCTACAAGAGTTATAAAAATGTAACGTCACTTGTGGTTTCCAATTTCAC
**
85205765 TCTCTAAGAGAATTTTTCATTTTCCAAGAACTATTACTTATTCCACAAAAAGCTTCCGTTCATAT
196 TCTCTAAGAGAATTTTTCATTTTCCAAGAACTATTACTTATTCCACAAAAAGCTTCCACTCATAT
*
85205830 TTTAGTAAAATTAGGCCAAAA
261 TTAAGTAAAATTAGGCCAAAA
85205851 CACTTATTCTTCTTCCTTTAAATCACTTG-TTTTATAAAGATCAAGAATGAAACTCCAAATATGT
1 C-CTTATTCTTCTTCCTTTAAATCACTTGTTTTTATAAAGATCAAGAATGAAACTCCAAATATGT
* *
85205915 CGA-CGATGCACGTCCCACATGCTCCCTGTTAAAAAAGGTTCAATTTATATAAAAACCAAATCCT
65 -GAGCGACGCACGT-CCACATGCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCT
* *
85205979 ATTCATTATTTGGGCAATACCTACAAGAGTTATAAAAATGTAAGGTCACTTGTTGTTTCCAATTT
128 ATTCATTATTTGGGCAATACCTACAAGAGTTATAAAAATGTAACGTCACTTGTGGTTTCCAATTT
** *
85206044 CACTCTCTAAGAGAATTTTTCATTTTCCAAG-TTTCATTACTTATTCCACTAAAAGCTTCCACTC
193 CACTCTCTAAGAGAATTTTTCATTTTCCAAGAACT-ATTACTTATTCCACAAAAAGCTTCCACTC
* *
85206108 ATATTTAAGTAAAATTTGGCCAGAA
257 ATATTTAAGTAAAATTAGGCCAAAA
85206133 CCTTATT
1 CCTTATT
85206140 TAAGTGATAT
Statistics
Matches: 263, Mismatches: 22, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
281 48 0.18
282 215 0.82
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (281 bp):
CCTTATTCTTCTTCCTTTAAATCACTTGTTTTTATAAAGATCAAGAATGAAACTCCAAATATGTG
AGCGACGCACGTCCACATGCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCTATT
CATTATTTGGGCAATACCTACAAGAGTTATAAAAATGTAACGTCACTTGTGGTTTCCAATTTCAC
TCTCTAAGAGAATTTTTCATTTTCCAAGAACTATTACTTATTCCACAAAAAGCTTCCACTCATAT
TTAAGTAAAATTAGGCCAAAA
Found at i:85206267 original size:26 final size:26
Alignment explanation
Indices: 85206237--85206286 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
85206227 AAATTAATGT
85206237 TAATTAAACTGAAATATTCAATGTCC
1 TAATTAAACTGAAATATTCAATGTCC
* *
85206263 TAATTAAATTGAAATATTGAATGT
1 TAATTAAACTGAAATATTCAATGT
85206287 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (26 bp):
TAATTAAACTGAAATATTCAATGTCC
Found at i:85209272 original size:24 final size:24
Alignment explanation
Indices: 85209245--85209359 Score: 75
Period size: 24 Copynumber: 5.0 Consensus size: 24
85209235 TTACTGTGTG
85209245 CTATATATTTTATTATATATATTA
1 CTATATATTTTATTATATATATTA
* * *
85209269 CTATAT-TTTTA-TATAAAAAGTA
1 CTATATATTTTATTATATATATTA
* *
85209291 CT-TATTATTATTATTAT-TGTTTTA
1 CTATA-TATT-TTATTATATATATTA
*
85209315 C-ATA-ATTTTATTATATCATATTT
1 CTATATATTTTATTATAT-ATATTA
*
85209338 C-ATTATATTTTATT-TATGTATT
1 CTA-TATATTTTATTATATATATT
85209360 TTTACCACAT
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
21 9 0.13
22 15 0.21
23 16 0.23
24 19 0.27
25 11 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (24 bp):
CTATATATTTTATTATATATATTA
Found at i:85209429 original size:14 final size:14
Alignment explanation
Indices: 85209410--85209510 Score: 79
Period size: 14 Copynumber: 7.4 Consensus size: 14
85209400 TATATCTTTC
85209410 TTATATATATTATA
1 TTATATATATTATA
* *
85209424 TTATATAGATTTTA
1 TTATATATATTATA
85209438 TTATATATA-TATA
1 TTATATATATTATA
*
85209451 TT-TTTATATTAT-
1 TTATATATATTATA
85209463 TTATTATATGATTTATA
1 TTA-TATAT-A-TTATA
85209480 TTACTATAT-TT-TA
1 TTA-TATATATTATA
* *
85209493 TT-TGTAAATTATA
1 TTATATATATTATA
85209506 TTATA
1 TTATA
85209511 CACTTTATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
11 3 0.04
12 9 0.13
13 16 0.24
14 27 0.40
15 1 0.01
16 4 0.06
17 8 0.12
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (14 bp):
TTATATATATTATA
Found at i:85209494 original size:31 final size:28
Alignment explanation
Indices: 85209441--85209495 Score: 51
Period size: 31 Copynumber: 1.9 Consensus size: 28
85209431 GATTTTATTA
85209441 TATATATATAT-TTT-TATATTATTTAT
1 TATATATATATATTTATATATTATTTAT
* *
85209467 TATATGATTTATATTACTATATTTTATTT
1 TATAT-ATATATATT--TATATATTATTT
85209496 GTAAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
26 5 0.23
27 5 0.23
28 2 0.09
30 1 0.05
31 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TATATATATATATTTATATATTATTTAT
Found at i:85209495 original size:42 final size:42
Alignment explanation
Indices: 85209394--85209488 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 42
85209384 CTATTATTCC
*
85209394 TTATA-ATATATCTTTCTTATATATATTATATTATATAGATTTTA
1 TTATATATATATATTT-TTATAT-TATT-TATTATATAGATTTTA
85209438 TTATATATATATATTTTTATATTATTTATTATAT-GATTTATA
1 TTATATATATATATTTTTATATTATTTATTATATAGATTT-TA
85209480 TTACTATAT
1 TTA-TATAT
85209489 TTTATTTGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
41 5 0.11
42 13 0.28
43 9 0.19
44 11 0.23
45 9 0.19
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (42 bp):
TTATATATATATATTTTTATATTATTTATTATATAGATTTTA
Found at i:85209504 original size:42 final size:42
Alignment explanation
Indices: 85209417--85209509 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
85209407 TTCTTATATA
* *
85209417 TATTATATTATATAGATTTTATTATATATATATATTTTTATAT
1 TATT-TATTATATAGATTTTATTATATATATATATTTGTAAAT
*
85209460 TATTTATTATAT-GATTTATATTACTATAT-TTTATTTGTAAAT
1 TATTTATTATATAGATTT-TATTA-TATATATATATTTGTAAAT
85209502 TATATTAT
1 TAT-TTAT
85209510 ACACTTTATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
41 5 0.11
42 26 0.59
43 13 0.30
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (42 bp):
TATTTATTATATAGATTTTATTATATATATATATTTGTAAAT
Found at i:85211374 original size:19 final size:19
Alignment explanation
Indices: 85211350--85211389 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
85211340 CTCAATATAG
85211350 ATAGAATTATACTTAAGTT
1 ATAGAATTATACTTAAGTT
*
85211369 ATAGAATTATACTTAGGTT
1 ATAGAATTATACTTAAGTT
85211388 AT
1 AT
85211390 CTTTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (19 bp):
ATAGAATTATACTTAAGTT
Found at i:85213661 original size:15 final size:15
Alignment explanation
Indices: 85213625--85213674 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
85213615 CGATGTCCTT
85213625 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
85213639 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
85213655 TTT-CATCTCAT-CA
1 TTTGCATCTCATGCA
85213668 TTTGCAT
1 TTTGCAT
85213675 TCAAAGTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.15
14 10 0.30
15 12 0.36
16 6 0.18
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:85218996 original size:40 final size:40
Alignment explanation
Indices: 85218937--85219105 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
85218927 CGGGACTTTA
* * *
85218937 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
85218977 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
85219017 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
85219057 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
85219097 CCCGGATAT
1 CCCGGATAT
85219106 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:85225162 original size:175 final size:175
Alignment explanation
Indices: 85224868--85225463 Score: 806
Period size: 175 Copynumber: 3.4 Consensus size: 175
85224858 TACAGGTTAT
* * * * *
85224868 GTAGATCAAAGATAATTTGGCATTCTTGTGTTTACAATGAACAAA-CTGAAAACATAGCAGATCT
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATC-GAAGACATAGCAGATTT
* ** * * * * *
85224932 GACTTT-GAGATGTTTTTGCATCAAAGCAGATCCAAGATAATAGATTTGGCATCTCCATTTCGAT
65 GACTTTCG-GATGTTCTCACACCAAAGCAGATCCAAGATAACAGATATGACATCTCCATTTCGAC
* *
85224996 AGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAA
129 GGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTACTGAA
* *
85225043 GTAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAAGACATGGCAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTG
* *
85225108 ACTTTCGGATGTTCTCACACCAAAGTAGATCCAAGATAACAGATATGACATCTCCATTTTGACGG
66 ACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATATGACATCTCCATTTCGACGG
* * *
85225173 AGAGTAGATACATAGTAGATCTAACCTTCATATG-TTTATACTGAA
131 AGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT-TACTGAA
*
85225218 GCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTG
* *
85225283 ACTTTCGGATGTTCTCACACCAAAGCAGAT-CATAGATATCAGATCT-AGCATCTCCATTTCGAC
66 ACTTTCGGATGTTCTCACACCAAAGCAGATCCA-AGATAACAGATATGA-CATCTCCATTTCGAC
*
85225346 GGAGAGCAAATACATAGCAGATCTAACCTTCAGATGATTTTACTGAA
129 GGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTACTGAA
* * * * ** *
85225393 GTAGATCCGAGATGATTTGGCATCCTTGTGTTCATAAGGAGTAAATCGAAGACACAGCAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTG
*
85225458 GCTTTC
66 ACTTTC
85225464 ACGTGTTTAC
Statistics
Matches: 373, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
174 6 0.02
175 362 0.97
176 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (175 bp):
GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTG
ACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATATGACATCTCCATTTCGACGG
AGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTACTGAA
Found at i:85226840 original size:20 final size:20
Alignment explanation
Indices: 85226817--85226876 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 20
85226807 TCATTTTACT
85226817 TATTTTTAATTCAGCCCTAA
1 TATTTTTAATTCAGCCCTAA
*
85226837 TA-TTTTAATT-----TTAA
1 TATTTTTAATTCAGCCCTAA
85226851 TTATTTTTAATTCAGCCCTAA
1 -TATTTTTAATTCAGCCCTAA
85226872 TATTT
1 TATTT
85226877 AATTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 3 0.10
15 2 0.06
16 8 0.26
19 8 0.26
20 7 0.23
21 3 0.10
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTTTTAATTCAGCCCTAA
Found at i:85226883 original size:34 final size:34
Alignment explanation
Indices: 85226804--85226883 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 34
85226794 AAAGTTTATA
* *
85226804 ATTTCATTTTACTTATTTTTAATTCAGCCCTAAT
1 ATTTAATTTTAATTATTTTTAATTCAGCCCTAAT
85226838 ATTTTAATTTTAATTATTTTTAATTCAGCCCTAAT
1 A-TTTAATTTTAATTATTTTTAATTCAGCCCTAAT
85226873 ATTTAATTTTA
1 ATTTAATTTTA
85226884 TTTCAATTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 11 0.26
35 32 0.74
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (34 bp):
ATTTAATTTTAATTATTTTTAATTCAGCCCTAAT
Found at i:85227143 original size:26 final size:26
Alignment explanation
Indices: 85227114--85227266 Score: 80
Period size: 26 Copynumber: 5.7 Consensus size: 26
85227104 AAATAGTACA
*
85227114 TATTATTTTTTTATTATCTATTATAT
1 TATTATTTTTTTATTATATATTATAT
* * *
85227140 TATTATATTTTTATTTTTTATTAT-T
1 TATTATTTTTTTATTATATATTATAT
* * *
85227165 ATATCTATTCTATTATATATATTTTACTAT
1 -TAT-TATTTTTTTAT-TATATATTA-TAT
** *
85227195 GTGGTATATATTTTATTATATA-TATAT
1 -TATTAT-TTTTTTATTATATATTATAT
* * *
85227222 TACTATATTTTTATATTAT-CATTATTT
1 TA-T-TATTTTTTTATTATATATTATAT
*
85227249 TA-CATTTTTTTATTATAT
1 TATTATTTTTTTATTATAT
85227267 CATATTTCAT
Statistics
Matches: 93, Mismatches: 24, Indels: 21
0.67 0.17 0.15
Matches are distributed among these distances:
24 12 0.13
25 1 0.01
26 26 0.28
27 26 0.28
28 11 0.12
29 9 0.10
30 8 0.09
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTTTTTTATTATATATTATAT
Found at i:85227178 original size:24 final size:24
Alignment explanation
Indices: 85227137--85227272 Score: 65
Period size: 24 Copynumber: 5.7 Consensus size: 24
85227127 TTATCTATTA
85227137 TATTATTATAT-T-TT-TATTTTT
1 TATTATTATATCTATTCTATTTTT
* *
85227158 TATTATTATATCTATTCTATTATA
1 TATTATTATATCTATTCTATTTTT
* *
85227182 TA-TATTTTA-CTATGTGGTATATATTT
1 TATTATTATATCTAT-T-CTAT-T-TTT
*
85227208 TATTA-TATATATATTACTATATTTT
1 TATTATTATATCTATT-CTAT-TTTT
* *
85227233 TA-TATTATCAT-TATTTTACATTTT
1 TATTATTAT-ATCTATTCTA-TTTTT
85227257 T-TTATTATATCATATT
1 TATTATTATATC-TATT
85227273 TCATTATATT
Statistics
Matches: 88, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
21 11 0.12
22 5 0.06
23 11 0.12
24 25 0.28
25 17 0.19
26 14 0.16
27 5 0.06
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTATTATATCTATTCTATTTTT
Found at i:85227246 original size:33 final size:33
Alignment explanation
Indices: 85227158--85227246 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
85227148 TTTTATTTTT
* *
85227158 TATTATTATATCTATTCTATTATATATATTTTACTA
1 TATTTTTATAT-TA-TC-ATTATATATATATTACTA
* * * *
85227194 TGTGGTATATATT-TTATTATATATATATTACTA
1 TAT-TTTTATATTATCATTATATATATATTACTA
85227227 TATTTTTATATTATCATTAT
1 TATTTTTATATTATCATTAT
85227247 TTTACATTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
32 7 0.17
33 25 0.61
34 1 0.02
36 3 0.07
37 5 0.12
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (33 bp):
TATTTTTATATTATCATTATATATATATTACTA
Found at i:85227284 original size:24 final size:24
Alignment explanation
Indices: 85227201--85227286 Score: 61
Period size: 24 Copynumber: 3.4 Consensus size: 24
85227191 CTATGTGGTA
*
85227201 TATATTTTATTATAT-ATATATT-AC
1 TATA-TTTATTATATCATAT-TTCAT
*
85227225 TATATTTTTATATTATCATTATTTTACAT
1 TATATTTAT-TA-TATCA-TA-TTT-CAT
*
85227254 T-TTTTTATTATATCATATTTCAT
1 TATATTTATTATATCATATTTCAT
85227277 TATATTTATT
1 TATATTTATT
85227287 TATGTATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
23 8 0.16
24 16 0.33
25 5 0.10
26 6 0.12
27 6 0.12
28 6 0.12
29 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATTTATTATATCATATTTCAT
Found at i:85227390 original size:26 final size:28
Alignment explanation
Indices: 85227344--85227444 Score: 88
Period size: 28 Copynumber: 3.7 Consensus size: 28
85227334 TATATCTTTC
85227344 TTATATATATTATATTATATAGAT-TTTA
1 TTATATATATTATATTATATA-ATATTTA
* *
85227372 TTATATATA-TAT-TTTTATATTATTTA
1 TTATATATATTATATTATATAATATTTA
85227398 TTATATGAT-TTATATTACTAT-ATATTTTA
1 TTATAT-ATATTATATTA-TATAATA-TTTA
* *
85227427 TT-TGTAAATTATATTATA
1 TTATATATATTATATTATA
85227445 CACTTTATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
25 1 0.02
26 16 0.27
27 11 0.18
28 23 0.38
29 9 0.15
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (28 bp):
TTATATATATTATATTATATAATATTTA
Found at i:85227769 original size:20 final size:21
Alignment explanation
Indices: 85227719--85227769 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
85227709 GCCTTTTTTT
*
85227719 CATATTTCGTTATTGTTTAGTA
1 CATATTT-GTTATTGTTGAGTA
*
85227741 AATTATTTGTTATTGTTGA-TA
1 CA-TATTTGTTATTGTTGAGTA
85227762 CATATTTG
1 CATATTTG
85227770 CATGGAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 6 0.24
21 3 0.12
22 11 0.44
23 5 0.20
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (21 bp):
CATATTTGTTATTGTTGAGTA
Found at i:85234150 original size:26 final size:26
Alignment explanation
Indices: 85234114--85234249 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
85234104 ACATGAATTC
85234114 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
85234140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
85234166 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85234192 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
85234218 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85234244 TTATCA
1 TTATCA
85234250 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85238097 original size:134 final size:136
Alignment explanation
Indices: 85237915--85238197 Score: 516
Period size: 134 Copynumber: 2.1 Consensus size: 136
85237905 TATTGGGCCT
**
85237915 AAGCCCATTCAGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
85237980 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
85238045 ATATGC
131 ATATGC
*
85238051 AAG-CCATTTGGGTAACAGTGGTACTGGG-CAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
85238114 AGCCCCTTATTCAGATAACAGTGTGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
85238179 ATATGC
131 ATATGC
85238185 AAGCCCATTTGGG
1 AAGCCCATTTGGG
85238198 GAGACTACTC
Statistics
Matches: 142, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 108 0.76
135 31 0.22
136 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:85238482 original size:25 final size:27
Alignment explanation
Indices: 85238445--85238498 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
85238435 TCAAACATGC
85238445 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
85238471 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
85238497 AT
1 AT
85238499 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:85240018 original size:26 final size:26
Alignment explanation
Indices: 85239982--85240117 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
85239972 CATGATATTC
*
85239982 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
85240008 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
85240034 TTATCATGGATCATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
85240060 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
85240086 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
85240112 TTATCA
1 TTATCA
85240118 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:85240596 original size:15 final size:15
Alignment explanation
Indices: 85240560--85240609 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
85240550 CGATGTCCTT
85240560 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
85240574 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
85240590 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
85240603 TTTGCAT
1 TTTGCAT
85240610 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:85247974 original size:26 final size:26
Alignment explanation
Indices: 85247944--85247995 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
85247934 AAAATTAATG
*
85247944 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATACTGAATGTT
*
85247970 CTAATTAAATTGAAATACTGAATGTT
1 CTAATTAAACTGAAATACTGAATGTT
85247996 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATACTGAATGTT
Found at i:85250542 original size:26 final size:26
Alignment explanation
Indices: 85250492--85250561 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
85250482 GCCAACACAC
*
85250492 CAATATAGCAGCATAGCTATCAGTAA
1 CAATATAGCAGCAAAGCTATCAGTAA
* *
85250518 TAATATGGCAGCAAAGCTA-CTAGTAA
1 CAATATAGCAGCAAAGCTATC-AGTAA
*
85250544 CAATGA-CGCAGCAAAGCT
1 CAAT-ATAGCAGCAAAGCT
85250562 GCCAGCATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.03
26 35 0.95
27 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (26 bp):
CAATATAGCAGCAAAGCTATCAGTAA
Found at i:85250608 original size:20 final size:20
Alignment explanation
Indices: 85250585--85250632 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
85250575 TATGGCATAG
* * *
85250585 AGCCATGAGTAGCGGCACGA
1 AGCCATCAGTAGCAGCACAA
85250605 AGCCATCAGTAGCAGCACAA
1 AGCCATCAGTAGCAGCACAA
85250625 AGCCATCA
1 AGCCATCA
85250633 ATAGTGCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.29, G:0.25, T:0.10
Consensus pattern (20 bp):
AGCCATCAGTAGCAGCACAA
Found at i:85251331 original size:16 final size:16
Alignment explanation
Indices: 85251310--85251346 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
85251300 AAGGCCATTC
*
85251310 TTTCAACTTTTCGGCT
1 TTTCAACATTTCGGCT
85251326 TTTCAACATTTCGGCT
1 TTTCAACATTTCGGCT
85251342 TTTCA
1 TTTCA
85251347 GTTTTTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.49
Consensus pattern (16 bp):
TTTCAACATTTCGGCT
Found at i:85254549 original size:79 final size:79
Alignment explanation
Indices: 85254418--85254619 Score: 316
Period size: 79 Copynumber: 2.5 Consensus size: 79
85254408 ACCCAAGTAT
* * * *
85254418 CTTCGGGATTTAGCCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
85254482 CACTAGCATAAATGC
65 CACTAGCATAAATGC
*
85254497 CTTCGGGACTTAGCCCGATATAGTCGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCCGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
85254562 ACTAGCATAAATGC
66 ACTAGCATAAATGC
* *
85254576 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAACGCCTTC
1 CTTCGGGACTTAGCCC-GATATAGTCACTAGCACAAATGCCTTC
85254620 AGATCTTAGT
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
79 88 0.78
80 25 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCATAAATGC
Found at i:85254628 original size:40 final size:40
Alignment explanation
Indices: 85254418--85254619 Score: 311
Period size: 40 Copynumber: 5.1 Consensus size: 40
85254408 ACCCAAGTAT
* * *
85254418 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCATAAATGC
*
85254457 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* *
85254497 CTTCGGGACTTAGCCC-GATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
85254536 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
*
85254576 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAACGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
85254616 CTTC
1 CTTC
85254620 AGATCTTAGT
Statistics
Matches: 150, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 48 0.32
40 101 0.67
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
Found at i:85260220 original size:40 final size:40
Alignment explanation
Indices: 85260009--85260213 Score: 315
Period size: 40 Copynumber: 5.2 Consensus size: 40
85259999 ACCCAAGTAT
* * *
85260009 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCATAAATGC
**
85260048 CTTCGGGTTTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* * *
85260088 CTTCGGGACATAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
85260128 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
85260168 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
85260208 CTTCGG
1 CTTCGG
85260214 ATCTTAGTTC
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.08
40 140 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
Found at i:85265675 original size:40 final size:40
Alignment explanation
Indices: 85265602--85265778 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
85265592 ACCCAAGTAT
*
85265602 CTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
85265641 CTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
85265681 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
85265721 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
85265761 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
85265779 TTATCATCCG
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 11 0.09
40 114 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:85275219 original size:18 final size:18
Alignment explanation
Indices: 85275168--85275220 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
85275158 CCGGCACTCT
*
85275168 ATAACAGTCAATTATGCA
1 ATAACAGTCAATTATTCA
*
85275186 GTAACAGT-AATTTATTCA
1 ATAACAGTCAA-TTATTCA
85275204 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
85275221 CGTCGGAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 2 0.07
18 26 0.87
19 2 0.07
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:85282501 original size:27 final size:27
Alignment explanation
Indices: 85282453--85282611 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
85282443 GTGAGGCTGC
* *
85282453 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
85282480 CAGATATTATGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
85282506 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
85282533 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
85282560 CAGATATATGTGGCAGACCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
85282587 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
85282612 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:85282547 original size:54 final size:54
Alignment explanation
Indices: 85282471--85282611 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
85282461 GTGACGAAGT
* * *
85282471 CACCAGATACAGAT-ATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGACC
*
85282525 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGACC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGACC
85282579 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
85282612 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGACC
Found at i:85287852 original size:12 final size:12
Alignment explanation
Indices: 85287828--85287866 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
85287818 AGTACTACCT
*
85287828 CGGCCTTGACCA
1 CGGCCTCGACCA
*
85287840 CGTCCTCGACCA
1 CGGCCTCGACCA
85287852 CGGCCTCGACCA
1 CGGCCTCGACCA
85287864 CGG
1 CGG
85287867 TCTCTTCCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.46, G:0.26, T:0.13
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:85289364 original size:27 final size:28
Alignment explanation
Indices: 85289334--85289471 Score: 128
Period size: 27 Copynumber: 5.1 Consensus size: 28
85289324 GTGACGAAGT
* *
85289334 CACCAGATACAGATAT-TATGGTAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
*
85289361 CACCAGA-ATAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
* * *
85289388 CACCAGAT-TAGATA-ATCGTGGTATAGC
1 CACCAGATACAGATATAT-GTGGCAGAGC
*
85289415 CACCA-AAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
* *
85289442 TACCAGAT-CAGATA-ATTGTGGCATAGC
1 CACCAGATACAGATATA-TGTGGCAGAGC
85289469 CAC
1 CAC
85289472 TAGGATGCTT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
26 11 0.12
27 77 0.85
28 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAGAGC
Found at i:85289410 original size:54 final size:54
Alignment explanation
Indices: 85289334--85289471 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 54
85289324 GTGACGAAGT
** * * *
85289334 CACCAGATACAGAT-ATTATGGTAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGTATAGCCACCAAAACAGATATATGTGGCAGAGC
*
85289388 CACCAGATTAGATAATCGTGGTATAGCCACCAAAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGTATAGCCACCAAAACAGATATATGTGGCAGAGC
* * *
85289442 TACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATCGTGGTATAGCCAC
85289472 TAGGATGCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 4 0.05
54 69 0.95
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGTATAGCCACCAAAACAGATATATGTGGCAGAGC
Found at i:85291109 original size:26 final size:26
Alignment explanation
Indices: 85291075--85291179 Score: 174
Period size: 26 Copynumber: 4.0 Consensus size: 26
85291065 AATGCCCATT
*
85291075 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAACCCATTATC
*
85291101 ATGGTACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
* *
85291127 ATGGAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
85291153 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
85291179 A
1 A
85291180 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:85291225 original size:26 final size:26
Alignment explanation
Indices: 85291196--85291245 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
85291186 ACCATGAATT
* *
85291196 ATGGAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
85291222 ATGGAACATTTACCTAACCCATTA
1 ATGGAACATTTACCTAACCCATTA
85291246 CCACTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:85294532 original size:40 final size:40
Alignment explanation
Indices: 85294476--85294679 Score: 259
Period size: 40 Copynumber: 5.1 Consensus size: 40
85294466 CGGATGATAA
* * ** *
85294476 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGAC-AAATT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
85294516 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
*
85294556 CCGGGCTAAGCCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
85294596 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
85294636 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTA-CTATAT
85294676 CCGG
1 CCGG
85294680 TTAAATTCTG
Statistics
Matches: 147, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 143 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:85294611 original size:80 final size:79
Alignment explanation
Indices: 85294472--85294679 Score: 285
Period size: 80 Copynumber: 2.6 Consensus size: 79
85294462 TATTCGGATG
* * *
85294472 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAG-AC-AAATTTCGGGCTAAGCCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGC--GAGTACTATA-TCCGGGCTAAGCCCCGAAGG
85294535 CATTTGTGCGAGTTACT
63 CATTTGTGCGAGTTACT
* * *
85294552 ATATCCGGGCTAAGCCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATATCCGGGCTAAGCCCCGAAGGCA
85294617 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* *
85294632 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCCGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTA-CTATATCCGG
85294680 TTAAATTCTG
Statistics
Matches: 114, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
78 3 0.03
79 2 0.02
80 107 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTACTATATCCGGGCTAAGCCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:85301282 original size:27 final size:26
Alignment explanation
Indices: 85301235--85301388 Score: 129
Period size: 27 Copynumber: 5.9 Consensus size: 26
85301225 CGAGGCTGAC
* *
85301235 AGATATTGTGAC-GAAGTCACCAGATTT
1 AGATATTGTGGCAG-AGCCACCAGA-TT
*
85301262 AGATATTGTGGCAGAGCCACCAGAAT
1 AGATATTGTGGCAGAGCCACCAGATT
* *
85301288 AGATATATGTGGCAGAGCCACCTGATC
1 AGATAT-TGTGGCAGAGCCACCAGATT
* *
85301315 AGATAATCGTGGCATAGCCACACAGA-T
1 AGAT-ATTGTGGCAGAGCCAC-CAGATT
* *
85301342 --ATA-TGTGGCAGACCCACCAGATC
1 AGATATTGTGGCAGAGCCACCAGATT
*
85301365 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
85301389 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
22 4 0.04
23 11 0.11
24 1 0.01
25 4 0.04
26 8 0.08
27 68 0.67
28 6 0.06
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGATT
Found at i:85301349 original size:50 final size:50
Alignment explanation
Indices: 85301288--85301385 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 50
85301278 CCACCAGAAT
* *
85301288 AGATATATGTGGCAGAGCCACCTGATCAGATAATCGTGGCATAGCCACAC
1 AGATATATGTGGCAGACCCACCAGATCAGATAATCGTGGCATAGCCACAC
*
85301338 AGATATATGTGGCAGACCCACCAGATCAGATAATTGTGGCATAGCCAC
1 AGATATATGTGGCAGACCCACCAGATCAGATAATCGTGGCATAGCCAC
85301386 CAGGACGCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (50 bp):
AGATATATGTGGCAGACCCACCAGATCAGATAATCGTGGCATAGCCACAC
Found at i:85303015 original size:26 final size:26
Alignment explanation
Indices: 85302984--85303091 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
85302974 TGAAATGCCC
*
85302984 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85303010 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
85303036 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
85303062 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85303088 ATCA
1 ATCA
85303092 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85307069 original size:25 final size:25
Alignment explanation
Indices: 85307039--85307116 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
85307029 TAGGATTTTA
85307039 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
85307064 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
85307086 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
85307111 TGTGAT
1 TGTGAT
85307117 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:85307089 original size:47 final size:47
Alignment explanation
Indices: 85307038--85307373 Score: 528
Period size: 47 Copynumber: 7.1 Consensus size: 47
85307028 TTAGGATTTT
85307038 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
85307085 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
85307132 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
85307183 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
85307230 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
85307277 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
85307324 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
85307371 ATG
1 ATG
85307374 CGAAATGTGT
Statistics
Matches: 270, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 226 0.84
48 1 0.00
50 1 0.00
51 42 0.16
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Done.