Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 160 of 425
Found at i:48706287 original size:65 final size:60
Alignment explanation
Indices: 48706190--48706364 Score: 139
Period size: 59 Copynumber: 2.9 Consensus size: 60
48706180 ATATTACTGT
48706190 TTATGTAT-TTATGTATGTATGT-CTA-TTA-GTATGTTATG-TAGTATATTATTGTTATGTATA
1 TTATGTATGTTATGTA--TAT-TACTATTTATGTATGTTATGTTAGTATATTA-TGTT-TG---A
48706250 TATA
58 -ATA
* * * *
48706254 TTATGTATGTTATGTATATTATTGTTTATGTATG-TCTGTTAGTATGTTATGTTTGAATA
1 TTATGTATGTTATGTATATTACTATTTATGTATGTTATGTTAGTATATTATGTTTGAATA
* * ** *
48706313 TTATTTATGTTATGTTTATTACTATTTATGTATG-TCCGTTAGTATGTTATGT
1 TTATGTATGTTATGTATATTACTATTTATGTATGTTATGTTAGTATATTATGT
48706365 ATGTATGTTA
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
59 50 0.52
60 1 0.01
62 1 0.01
63 6 0.06
64 18 0.19
65 21 0.22
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.56
Consensus pattern (60 bp):
TTATGTATGTTATGTATATTACTATTTATGTATGTTATGTTAGTATATTATGTTTGAATA
Found at i:48706322 original size:59 final size:59
Alignment explanation
Indices: 48706251--48706364 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
48706241 TTATGTATAT
* * *
48706251 ATATTATGTATGTTATGTATATTATTGTTTATGTATGTCTGTTAGTATGTTATGTTTGA
1 ATATTATGTATGTTATGTATATTACTATTTATGTATGTCCGTTAGTATGTTATGTTTGA
* *
48706310 ATATTATTTATGTTATGTTTATTACTATTTATGTATGTCCGTTAGTATGTTATGT
1 ATATTATGTATGTTATGTATATTACTATTTATGTATGTCCGTTAGTATGTTATGT
48706365 ATGTATGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.56
Consensus pattern (59 bp):
ATATTATGTATGTTATGTATATTACTATTTATGTATGTCCGTTAGTATGTTATGTTTGA
Found at i:48706402 original size:59 final size:59
Alignment explanation
Indices: 48706239--48706403 Score: 147
Period size: 59 Copynumber: 2.8 Consensus size: 59
48706229 AGTATATTAT
* * * * * * * *
48706239 TGTTATGTAT-ATATATTATGTATGTTATGTATATTATTGTTTATGTATGTCTGTTAGTA
1 TGTTATGTATGA-ATATTATTTATATTATGTTTATAAATATGTATGTATGTCCGTTAGTA
* * * * *
48706298 TGTTATGTTTGAATATTATTTATGTTATGTTTATTACTATTTATGTATGTCCGTTAGTA
1 TGTTATGTATGAATATTATTTATATTATGTTTATAAATATGTATGTATGTCCGTTAGTA
* *
48706357 TGTTATGTATGTATGTTATGTT-TATTACTGTTTA-AAATATGTATGTA
1 TGTTATGTATGAATATTAT-TTATATTA-TGTTTATAAATATGTATGTA
48706404 ATATGTGCAG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
59 81 0.90
60 9 0.10
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.55
Consensus pattern (59 bp):
TGTTATGTATGAATATTATTTATATTATGTTTATAAATATGTATGTATGTCCGTTAGTA
Found at i:48709275 original size:42 final size:43
Alignment explanation
Indices: 48709228--48709343 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 43
48709218 ATCTGAGATG
48709228 TCGTGTAAGACCATGTCTGGGACATCGGCATC-GTATCTG-ATT
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCGGTA-CTGAATT
* * **
48709270 TCGTGTAAAACCCTGTCTGGGACAGAGGCATCGGTACTGAATT
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCGGTACTGAATT
* * * *
48709313 ACATGTAAGACCACGTCTGGGACGTCGGCAT
1 TCGTGTAAGACCATGTCTGGGACATCGGCAT
48709344 TGTACCCGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATCGGCATCGGTACTGAATT
Found at i:48709343 original size:43 final size:42
Alignment explanation
Indices: 48709231--48709343 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
48709221 TGAGATGTCG
* * * *
48709231 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCG
1 TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTGATTACA
* *
48709273 TGTAAAACC-CTGTCTGGGACAG-AGGCATCGGTA-CTGAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTCGGCATC-GTATCTG-ATTACA
48709316 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTCGGCAT
48709344 TGTACCCGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
42 27 0.47
43 29 0.51
44 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTGATTACA
Found at i:48713092 original size:31 final size:31
Alignment explanation
Indices: 48713057--48713196 Score: 235
Period size: 31 Copynumber: 4.5 Consensus size: 31
48713047 TTTAACAGTT
48713057 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
48713088 ACTGGGTCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
48713119 ACTGGGCCAAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
* *
48713150 ACTAGGTCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
48713181 TCTGGGCCGAAGCCTT
1 ACTGGGCCGAAGCCTT
48713197 TACTGTAAAC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTATCATAAATCATATC
Found at i:48713472 original size:25 final size:25
Alignment explanation
Indices: 48713416--48713534 Score: 206
Period size: 25 Copynumber: 4.8 Consensus size: 25
48713406 CTCTATTAAT
*
48713416 AACTGGGGCAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48713440 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48713465 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48713490 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48713515 AACTGGGG-AATAGCCCTTTT
1 AACTGGGGCAA-AGCCCTTTT
48713535 AGCACTTCCT
Statistics
Matches: 92, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
24 22 0.24
25 70 0.76
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:48714434 original size:27 final size:27
Alignment explanation
Indices: 48714343--48714426 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
48714333 GGGCATATTC
* *
48714343 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCATACAAGGGCT-TTACG
* *
48714370 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAAGGGCTTTACG
*
48714397 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCATACAAGGGCTTTACG
48714424 GTC
1 GTC
48714427 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 46 0.92
28 4 0.08
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAAGGGCTTTACG
Found at i:48714518 original size:27 final size:27
Alignment explanation
Indices: 48714488--48714573 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
48714478 GTAAATCTAC
48714488 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
48714515 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
48714541 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
48714571 AAA
1 AAA
48714574 TTTACAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:48714617 original size:27 final size:27
Alignment explanation
Indices: 48714586--48714739 Score: 159
Period size: 27 Copynumber: 5.7 Consensus size: 27
48714576 TACAAATTGA
* * *
48714586 GGGTATTTCGATAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
48714613 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
48714640 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
48714667 GGGTATTTTAGCAATTTTATAGACCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
* * ** *
48714693 AGGTATTTTGGTGATTTTACTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
48714719 AGGGTATTTTGGTAATTTTAC
1 -GGGTATTTTGGTAATTTTAC
48714740 TGATTGAGGG
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 18 0.17
27 87 0.83
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:48714645 original size:54 final size:53
Alignment explanation
Indices: 48714564--48714685 Score: 147
Period size: 54 Copynumber: 2.3 Consensus size: 53
48714554 TATTTCTGTA
* * *
48714564 ATTTTGTAAATTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGT
1 ATTTTGTAATTTTACAAATAGAGGGTATTTCGATAATTTCACAAACCAGGGGT
* * *
48714617 ATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAGGGGT
1 ATTTT-GTAATTTTACAAA-TAGAGGGTATTTCGATAATTTCACAAACCAGGGGT
*
48714671 ATTTTAGCAATTTTA
1 ATTTT-GTAATTTTA
48714686 TAGACCAAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
53 5 0.08
54 52 0.88
55 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
ATTTTGTAATTTTACAAATAGAGGGTATTTCGATAATTTCACAAACCAGGGGT
Found at i:48714740 original size:27 final size:27
Alignment explanation
Indices: 48714585--48714764 Score: 136
Period size: 27 Copynumber: 6.7 Consensus size: 27
48714575 TTACAAATTG
* * * *
48714585 AGGGTATTTCGATAATTTCAC-AAACC
1 AGGGTATTTTGGTAATTTTACTGAACC
* *
48714611 AGTGGTATTTTGGTAATTTTAC-AAACT
1 AG-GGTATTTTGGTAATTTTACTGAACC
*
48714638 AGGGGTATTTTGGTAATTTTAC-AAACC
1 A-GGGTATTTTGGTAATTTTACTGAACC
* *
48714665 AGGGGTATTTTAGCAATTTTA-T-AGACC
1 A-GGGTATTTTGGTAATTTTACTGA-ACC
* * * *
48714692 AAGGTATTTTGGTGATTTTACTGATCG
1 AGGGTATTTTGGTAATTTTACTGAACC
***
48714719 AGGGTATTTTGGTAATTTTACTGATTG
1 AGGGTATTTTGGTAATTTTACTGAACC
*
48714746 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTT
48714765 GTAAATCGAG
Statistics
Matches: 131, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
26 18 0.14
27 111 0.85
28 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACTGAACC
Found at i:48714775 original size:27 final size:27
Alignment explanation
Indices: 48714755--48714886 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
48714745 GAGGGTATTT
*
48714755 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
48714782 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
48714809 TAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
48714836 CGGTAATTTTGTAAATTAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * *
48714863 CGGTAATTATGTAAATCGGGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
48714887 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:48714886 original size:54 final size:54
Alignment explanation
Indices: 48714756--48714886 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
48714746 AGGGTATTTT
* * *
48714756 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTATGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
* * * * * *
48714810 AGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
* *
48714864 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTATGTAAATCGAGGGTA
48714887 CTTTGGTAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (54 bp):
AGTAATTATGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:48719995 original size:9 final size:9
Alignment explanation
Indices: 48719981--48720005 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48719971 TAGATTATTT
48719981 TGAATGAAA
1 TGAATGAAA
48719990 TGAATGAAA
1 TGAATGAAA
48719999 TGAATGA
1 TGAATGA
48720006 TTGAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGAATGAAA
Found at i:48721118 original size:33 final size:33
Alignment explanation
Indices: 48721076--48721146 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
48721066 AAGTTTCAGC
*
48721076 ATGAGTTAGAATGTGCCATAATTGAGCTATGAA
1 ATGAGTTAGAAGGTGCCATAATTGAGCTATGAA
48721109 ATGAGTTAGAAGGTGCCATAATTGAGCTATGAA
1 ATGAGTTAGAAGGTGCCATAATTGAGCTATGAA
48721142 ATGAG
1 ATGAG
48721147 AATTTTGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (33 bp):
ATGAGTTAGAAGGTGCCATAATTGAGCTATGAA
Found at i:48723733 original size:13 final size:13
Alignment explanation
Indices: 48723715--48723748 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
48723705 CCTGGTATTA
48723715 GTTTCGGTGTCGT
1 GTTTCGGTGTCGT
48723728 GTTTCGGTGTCGT
1 GTTTCGGTGTCGT
48723741 GTTTCGGT
1 GTTTCGGT
48723749 TATTCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.38, T:0.47
Consensus pattern (13 bp):
GTTTCGGTGTCGT
Found at i:48737618 original size:24 final size:24
Alignment explanation
Indices: 48737564--48737609 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
48737554 GTATGCCTCC
48737564 ACCAGC-TCGAGCAGCTCCTGCTCT
1 ACCAGCTTC-AGCAGCTCCTGCTCT
*
48737588 ACCAGCTTCAGCAGCTCTTGCT
1 ACCAGCTTCAGCAGCTCCTGCT
48737610 ACACTAGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.17, C:0.39, G:0.20, T:0.24
Consensus pattern (24 bp):
ACCAGCTTCAGCAGCTCCTGCTCT
Found at i:48738112 original size:36 final size:36
Alignment explanation
Indices: 48738072--48738171 Score: 155
Period size: 36 Copynumber: 2.8 Consensus size: 36
48738062 AGGTTAATTG
* *
48738072 ATGGAAAATTTGATGGTTTGATTTTGTTAACATACT
1 ATGGATAATTTGATGGTTTTATTTTGTTAACATACT
*
48738108 ATGGATAATTTGATGGTTTTATTTTGTTAACATGCT
1 ATGGATAATTTGATGGTTTTATTTTGTTAACATACT
* *
48738144 ATGGATAATTTGACGGTTTTATTCTGTT
1 ATGGATAATTTGATGGTTTTATTTTGTT
48738172 GGATCATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (36 bp):
ATGGATAATTTGATGGTTTTATTTTGTTAACATACT
Found at i:48740770 original size:24 final size:23
Alignment explanation
Indices: 48740741--48740802 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
48740731 GTAAGTAAAA
48740741 TAAAATTTAAATATATAAATACAT
1 TAAAATTTAAATATATAAAT-CAT
* *
48740765 TAAAA-TAACAATAT-TAAATGAT
1 TAAAATTTA-AATATATAAATCAT
*
48740787 TACAATTTAAATATAT
1 TAAAATTTAAATATAT
48740803 TTAGTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
22 11 0.35
23 10 0.32
24 10 0.32
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAATTTAAATATATAAATCAT
Found at i:48742532 original size:17 final size:17
Alignment explanation
Indices: 48742510--48742544 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48742500 TTATAGAGAT
48742510 ATAATAAAATA-TTAAAA
1 ATAAT-AAATACTTAAAA
48742527 ATAATAAATACTTAAAA
1 ATAATAAATACTTAAAA
48742544 A
1 A
48742545 AAAGAGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATAAATACTTAAAA
Found at i:48742949 original size:22 final size:22
Alignment explanation
Indices: 48742922--48742996 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
48742912 AAGTAAGTTA
48742922 TATTTTTATGAGGGTATATTTT
1 TATTTTTATGAGGGTATATTTT
* ** * *
48742944 TATTTTTATAAAAAGTA-AGTTA
1 TATTTTTAT-GAGGGTATATTTT
*
48742966 TATTATTATGAGGGTATATTTT
1 TATTTTTATGAGGGTATATTTT
48742988 TATTTTTAT
1 TATTTTTAT
48742997 TTTATATAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
21 4 0.10
22 31 0.79
23 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTTTTATGAGGGTATATTTT
Found at i:48742975 original size:44 final size:44
Alignment explanation
Indices: 48742906--48742996 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
48742896 AAATGTCCTA
* *
48742906 TATACAAAGTAAGTTATATTTTTATGAGGGTATATTTTTATTTT
1 TATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
48742950 TATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
1 TATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
48742994 TAT
1 TAT
48742997 TTTATATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (44 bp):
TATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
Found at i:48743836 original size:2 final size:2
Alignment explanation
Indices: 48743829--48743865 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
48743819 ACCTAGTTAA
48743829 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
48743866 ATCAACAATT
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:48744415 original size:18 final size:18
Alignment explanation
Indices: 48744392--48744429 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
48744382 GTAATAAAAT
48744392 ATGTAT-AATAAAATTAAA
1 ATGTATAAAT-AAATTAAA
48744410 ATGTATAAATAAATTAAA
1 ATGTATAAATAAATTAAA
48744428 AT
1 AT
48744430 AAGGTCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATGTATAAATAAATTAAA
Found at i:48744483 original size:24 final size:24
Alignment explanation
Indices: 48744451--48744499 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48744441 ACTAATGATA
48744451 AATTTAATTTTTTTTAATGTAATG
1 AATTTAATTTTTTTTAATGTAATG
48744475 AATTTAATTTTTTTTAATGTAATG
1 AATTTAATTTTTTTTAATGTAATG
48744499 A
1 A
48744500 GTATAGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (24 bp):
AATTTAATTTTTTTTAATGTAATG
Found at i:48745691 original size:26 final size:27
Alignment explanation
Indices: 48745662--48745724 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 27
48745652 CATTATTATC
*
48745662 TTCAAATAA-CAAAATATGTAATTTTT
1 TTCAAATAACCAAAATATATAATTTTT
48745688 TTCAAATAAATCCAAAATATATAATTTTT
1 TTCAAAT-AA-CCAAAATATATAATTTTT
48745717 TTCAAATA
1 TTCAAATA
48745725 CATGTAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 7 0.21
27 2 0.06
28 1 0.03
29 23 0.70
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (27 bp):
TTCAAATAACCAAAATATATAATTTTT
Found at i:48748876 original size:20 final size:20
Alignment explanation
Indices: 48748851--48748889 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48748841 AAAATTTCAA
48748851 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
48748871 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
48748890 AACAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:48751386 original size:40 final size:40
Alignment explanation
Indices: 48751331--48751498 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
48751321 TGAATGATAC
* *
48751331 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
48751371 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
48751411 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
48751451 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
48751491 CC-GGCTAA
1 CCGGGCTAA
48751499 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:48759323 original size:40 final size:40
Alignment explanation
Indices: 48759268--48759475 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
48759258 TGAATGATAC
* *
48759268 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
48759308 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
48759348 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
48759388 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
48759428 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
48759468 CC-GGCTAA
1 CCGGGCTAA
48759476 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:48766093 original size:42 final size:42
Alignment explanation
Indices: 48766005--48766164 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
48765995 TAAGACTATG
* *
48766005 TGTAAGACCATATGTGGGATATGGCATCT--TATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCAT-TGATATGAGATTTCA
*
48766046 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
* * ** * *
48766088 TGTAAGACCATAGCTGGGCTATTGGCATCAATATGATATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATTGATATGAGATTTCA
*
48766131 TGTAAGACCATATCTGGGATATGGCATTGGTATG
1 TGTAAGACCATATCTGGGATATGGCATTGATATG
48766165 GTATCGTGTG
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 25 0.25
42 40 0.40
43 35 0.35
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
Found at i:48766146 original size:85 final size:83
Alignment explanation
Indices: 48766005--48766164 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 83
48765995 TAAGACTATG
* * *
48766005 TGTAAGACCATATGTGGGATATGGCATCTTATGAGATTTCGTGTAAGACCATATCTGGGATATGG
1 TGTAAGACCATATGTGGGATATGGCATCATATGAGATTACATGTAAGACCATATCTGGGATATGG
*
48766070 CGTTGATATGAGATTTCA
66 CATTGATATGAGATTTCA
* *
48766088 TGTAAGACCATA-GCTGGGCTATTGGCATCAATATGATATTACATGTAAGACCATATCTGGGATA
1 TGTAAGACCATATG-TGGGATA-TGGCATC-ATATGAGATTACATGTAAGACCATATCTGGGATA
*
48766152 TGGCATTGGTATG
63 TGGCATTGATATG
48766165 GTATCGTGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 18 0.27
84 7 0.10
85 41 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (83 bp):
TGTAAGACCATATGTGGGATATGGCATCATATGAGATTACATGTAAGACCATATCTGGGATATGG
CATTGATATGAGATTTCA
Found at i:48767668 original size:37 final size:37
Alignment explanation
Indices: 48767594--48767683 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
48767584 AGTACACAAG
*
48767594 TAATCCAACCGA-AACATGCTAAACGATCATACAAGC
1 TAATCCAACCGATAACATGCTAAACGATCATAAAAGC
* *
48767630 TAATCCAACCGATAACATGAC-AAATGCTC-TAAATAGC
1 TAATCCAACCGATAACATG-CTAAACGATCATAAA-AGC
*
48767667 TAATCCAACTGATAACA
1 TAATCCAACCGATAACA
48767684 CGCCACATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 15 0.32
37 31 0.66
38 1 0.02
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (37 bp):
TAATCCAACCGATAACATGCTAAACGATCATAAAAGC
Found at i:48768438 original size:22 final size:23
Alignment explanation
Indices: 48768391--48768438 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
48768381 CCTTCAATTA
**
48768391 AAAACCAACCAAAATCACTTTAC
1 AAAACCAACCAAAATCACAATAC
48768414 AAAA-CAACCAAAAATCACAAT-C
1 AAAACCAACC-AAAATCACAATAC
48768436 AAA
1 AAA
48768439 GCTTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAACCAACCAAAATCACAATAC
Found at i:48781341 original size:40 final size:40
Alignment explanation
Indices: 48781326--48781477 Score: 191
Period size: 40 Copynumber: 3.8 Consensus size: 40
48781316 GTTATAATAG
*
48781326 CTCGCACAAATGCCTTCGGGACTTAACCTGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
48781366 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
** * * **
48781406 CTCGCACAAATGCCTTC-GGATCTTAGTCCAGATATGGTCA
1 CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGGAA
* *
48781446 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTAACCCGGA
48781478 CATCATTCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 85 0.86
41 11 0.11
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
Found at i:48783361 original size:27 final size:26
Alignment explanation
Indices: 48783330--48783394 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 26
48783320 CATAACCATT
48783330 TAATCTCATTAAGCATATAAC-ACATAA
1 TAAT-TCATTAAG-ATATAACAACATAA
48783357 TAA-TCATTTAAGATATAACTAACATAA
1 TAATTCA-TTAAGATATAAC-AACATAA
*
48783384 TTATTCATTAA
1 TAATTCATTAA
48783395 CATTTAAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 10 0.30
26 5 0.15
27 15 0.45
28 3 0.09
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (26 bp):
TAATTCATTAAGATATAACAACATAA
Found at i:48783363 original size:25 final size:26
Alignment explanation
Indices: 48783335--48783394 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
48783325 CCATTTAATC
48783335 TCATTAAGCATATAAC-ACATAA-TAA
1 TCATTAAG-ATATAACAACATAATTAA
*
48783360 TCATTTAAGATATAACTAACATAATTAT
1 TCA-TTAAGATATAAC-AACATAATTAA
48783388 TCATTAA
1 TCATTAA
48783395 CATTTAAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 10 0.33
26 5 0.17
27 10 0.33
28 5 0.17
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (26 bp):
TCATTAAGATATAACAACATAATTAA
Found at i:48786182 original size:19 final size:19
Alignment explanation
Indices: 48786149--48786193 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48786139 ACGAAATTTT
*
48786149 AATAAATATATAAATATTA
1 AATAAATATATAAATACTA
48786168 AATAAATA-ATAAAATACTA
1 AATAAATATAT-AAATACTA
*
48786187 ACTAAAT
1 AATAAAT
48786194 GATCAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAAATATATAAATACTA
Found at i:48789256 original size:20 final size:20
Alignment explanation
Indices: 48789233--48789270 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48789223 TTAAATTCCA
*
48789233 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
48789253 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
48789271 ATACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:48789322 original size:14 final size:13
Alignment explanation
Indices: 48789286--48789323 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
48789276 AAAATTGAAT
48789286 CTAAATAATTATC
1 CTAAATAATTATC
*
48789299 CTTAATAATTATC
1 CTAAATAATTATC
48789312 CTAATATAATTA
1 CTAA-ATAATTA
48789324 GAATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:48792725 original size:37 final size:37
Alignment explanation
Indices: 48792672--48792774 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
48792662 CGAATAGTCC
*
48792672 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
48792709 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
48792746 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
48792775 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:48792998 original size:48 final size:48
Alignment explanation
Indices: 48792944--48793399 Score: 768
Period size: 48 Copynumber: 9.5 Consensus size: 48
48792934 CTAGCCGAAT
48792944 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
48792992 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
48793040 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
48793088 CACTAGCCATTCGGCTTTACCCCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
48793136 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
48793184 CAGTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
48793232 CATTAGCCATTCGGCTTTACCGCATATACATATCTTAAACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
48793280 CATTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
48793328 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
48793376 CATTAGCCATTCGGTTTTACCACA
1 CACTAGCCATTCGGCTTTACCACA
48793400 CACATATATA
Statistics
Matches: 394, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 394 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:48796561 original size:15 final size:14
Alignment explanation
Indices: 48796541--48796600 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
48796531 AACATCCAAA
48796541 AATAAAATAATAAAT
1 AATAAAATAA-AAAT
48796556 AATAAAATAAAGTAA-
1 AATAAAATAAA--AAT
*
48796571 AATAAAATATAAAT
1 AATAAAATAAAAAT
48796585 AA-ATAAATAAAAAT
1 AATA-AAATAAAAAT
48796599 AA
1 AA
48796601 AAATTGGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 3 0.08
14 14 0.36
15 20 0.51
16 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAAAATAAAAAT
Found at i:48796571 original size:10 final size:9
Alignment explanation
Indices: 48796540--48796602 Score: 60
Period size: 10 Copynumber: 6.9 Consensus size: 9
48796530 CAACATCCAA
48796540 AAATAAAAT
1 AAATAAAAT
48796549 -AAT-AAAT
1 AAATAAAAT
48796556 -AATAAAAT
1 AAATAAAAT
48796564 AAAGTAAAAT
1 AAA-TAAAAT
48796574 AAAATATAAAT
1 -AAATA-AAAT
*
48796585 AAATAAATAA
1 AAATAAA-AT
48796595 AAATAAAA
1 AAATAAAA
48796603 ATTGGGTTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
7 7 0.15
8 7 0.15
9 5 0.11
10 21 0.45
11 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:48796575 original size:30 final size:29
Alignment explanation
Indices: 48796539--48796595 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 29
48796529 TCAACATCCA
48796539 AAAATAAAATAATAAAT-AATAAAATAAAGT
1 AAAATAAAAT-ATAAATAAAT-AAATAAAGT
48796569 AAAATAAAATATAAATAAATAAATAAA
1 AAAATAAAATATAAATAAATAAATAAA
48796596 AATAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (29 bp):
AAAATAAAATATAAATAAATAAATAAAGT
Found at i:48796582 original size:25 final size:23
Alignment explanation
Indices: 48796540--48796604 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
48796530 CAACATCCAA
48796540 AAATAAAATAATAAAT-AATAAAAT
1 AAATAAAATAA-AAATAAAT-AAAT
48796564 AAAGTAAAATAAAATATAAATAAAT
1 AAA-TAAAATAAAA-ATAAATAAAT
48796589 AAATAAAAATAAAAAT
1 AAAT-AAAATAAAAAT
48796605 TGGGTTGCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
24 8 0.22
25 26 0.70
26 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (23 bp):
AAATAAAATAAAAATAAATAAAT
Found at i:48796602 original size:30 final size:30
Alignment explanation
Indices: 48796539--48796602 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
48796529 TCAACATCCA
*
48796539 AAAATAAAATAATAAATAATAAAATAAAGT
1 AAAATAAAATAATAAATAATAAAATAAAAT
48796569 AAAATAAAAT-ATAAATAA-ATAAATAAAAAT
1 AAAATAAAATAATAAATAATA-AAAT-AAAAT
48796599 AAAA
1 AAAA
48796603 ATTGGGTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 1 0.03
29 12 0.39
30 18 0.58
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (30 bp):
AAAATAAAATAATAAATAATAAAATAAAAT
Found at i:48808826 original size:20 final size:20
Alignment explanation
Indices: 48808803--48808840 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48808793 TTAAATTCCA
*
48808803 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
48808823 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
48808841 ATCCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:48812360 original size:50 final size:50
Alignment explanation
Indices: 48812306--48812629 Score: 323
Period size: 50 Copynumber: 6.4 Consensus size: 50
48812296 GTACGTATAA
* * * *
48812306 TAGCCTGCACTTAATACTACACAGGCGACCT-ACAAATATGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAAC-AATATGGTACACATAG
* * *
48812356 TAGCCTGCACTTAGTACTACAAACGTGACCTAACCAT-CGGATACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATATGG-TACACATAG
* * *
48812406 TAGCCTGCACTTAGTACTACAAACGTGACCTAACCAT-CGGATACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATATGG-TACACATAG
* * * **
48812456 TAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATATGGTACACATAG
* * * * * *
48812507 TAGCTTGCACTTAGTACTACGCATGAGACCTAACAATTTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATATGGTACACATAG
** **
48812557 TAGCCTGCACTTAGTACTACACACGCAACCTAA-AACTATTTTAAACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAA-TATGGT--ACACATAG
*
48812609 TAGCCTGCACATAGTACTACA
1 TAGCCTGCACTTAGTACTACA
48812630 AATATGTTCT
Statistics
Matches: 235, Mismatches: 32, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
49 4 0.02
50 161 0.69
51 41 0.17
52 29 0.12
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACAATATGGTACACATAG
Found at i:48812537 original size:101 final size:100
Alignment explanation
Indices: 48812306--48812631 Score: 343
Period size: 101 Copynumber: 3.2 Consensus size: 100
48812296 GTACGTATAA
* * * *
48812306 TAGCCTGCACTTAATACTACACAGGCGACCT-ACAAATAT-GGTACACGTAGTAGCCTGCACTTA
1 TAGCCTGCACTTAGTACTACAAACGAGACCTAAC-AAT-TCGGTACACGTAGTAGCCTGCACTTA
* *
48812369 GTACTACAAACGTGACCTAACCATCGGATACACATAG
64 GTACTACACACGTGACCGAACCATCGGATACACATAG
* * *
48812406 TAGCCTGCACTTAGTACTACAAACGTGACCTAACCA-TCGGATACACATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACAAACGAGACCTAACAATTCGG-TACACGTAGTAGCCTGCACTTAG
* * *
48812470 TACTACACACGTGATCGAAGCTATCGGGTACACATAG
65 TACTACACACGTGACCGAA-CCATCGGATACACATAG
* ** * *
48812507 TAGCTTGCACTTAGTACTACGCATGAGACCTAACAATTTGGTACACGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACAAACGAGACCTAACAATTCGGTACACGTAGTAGCCTGCACTTAGT
** * * *** *
48812572 ACTACACACGCAACCTAAAACTATTTTAAACACATAG
66 ACTACACACGTGACC--GAACCATCGGATACACATAG
*
48812609 TAGCCTGCACATAGTACTACAAA
1 TAGCCTGCACTTAGTACTACAAA
48812632 TATGTTCTCA
Statistics
Matches: 187, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
98 1 0.01
99 2 0.01
100 66 0.35
101 82 0.44
102 34 0.18
103 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (100 bp):
TAGCCTGCACTTAGTACTACAAACGAGACCTAACAATTCGGTACACGTAGTAGCCTGCACTTAGT
ACTACACACGTGACCGAACCATCGGATACACATAG
Found at i:48812537 original size:151 final size:152
Alignment explanation
Indices: 48812345--48812629 Score: 376
Period size: 151 Copynumber: 1.9 Consensus size: 152
48812335 CTACAAATAT
* * *
48812345 GGTACACGTAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCA-TCGGATACACATAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACAAACGAGACCTAACAATTCGG-TACACATAGTAG
** * *
48812409 CCTGCACTTAGTACTACAAACGTGACCT-AACCATCGGATACACATAGTAGCCTGCACTTAGTAC
65 CCTGCACTTAGTACTACAAACGCAACCTAAACCATCGGAAACACATAGTAGCCTGCACATAGTAC
48812473 TACACACGTGATCGAAGCTATCG
130 TACACACGTGATCGAAGCTATCG
* ** * * *
48812496 GGTACACATAGTAGCTTGCACTTAGTACTACGCATGAGACCTAACAATTTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACAAACGAGACCTAACAATTCGGTACACATAGTAGC
* * ***
48812561 CTGCACTTAGTACTACACACGCAACCTAAAACTATTTTAAACACATAGTAGCCTGCACATAGTAC
66 CTGCACTTAGTACTACAAACGCAACCT-AAACCATCGGAAACACATAGTAGCCTGCACATAGTAC
48812626 TACA
130 TACA
48812630 AATATGTTCT
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
151 76 0.67
152 3 0.03
153 34 0.30
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (152 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACAAACGAGACCTAACAATTCGGTACACATAGTAGC
CTGCACTTAGTACTACAAACGCAACCTAAACCATCGGAAACACATAGTAGCCTGCACATAGTACT
ACACACGTGATCGAAGCTATCG
Found at i:48818228 original size:484 final size:484
Alignment explanation
Indices: 48817311--48818260 Score: 1526
Period size: 484 Copynumber: 2.0 Consensus size: 484
48817301 GAACTTTCGA
*
48817311 TAAACTTTGGACAACTTAGCAAATTTCTTGCTTTGGAGAGTCACACGCCCGTGTGCGTTGAACCG
1 TAAACTTTGAACAACTTAGCAAATTTCTTGCTTTGGAGAGTCACACGCCCGTGTGCGTTGAACCG
* * * * *
48817376 TGTGGTCACTCACGCCCGCGTGGCTTGGGACACGCCCATGTAACTCTCTATTTGTGACATCATCA
66 TGTGGTCACACACGCCCGCGTGGCTTAGGACACGCACATGTAACTCTCTATTTGTGAAATCAGCA
* * * * *
48817441 AAACAATTTGAACCACCGGCCAGGCCATATACCCGTGTGTTAGGCTGTGTCCTCCACACGACTGA
131 AAACAATTTGAACCACCGGCCAGGACACACACCCGTGTGCTAGGCCGTGTCCTCCACACGACTGA
*
48817506 GACACATGGCCGTGTCTTTGCCCATGTGGCTAACACTTAGGCTATTTTCCAAGCCTTCATGTTTC
196 GACACATGGCCGTGTCTCTGCCCATGTGGCTAACACTTAGGCTATTTTCCAAGCCTTCATGTTTC
* *
48817571 CAATAAACCCTTACAACCTTATACACATCAAACTCACAACTCATGGCATCATTTTAGTGATGAAA
261 CAATAAACCCTTACAACCTTATACACATCAAAATCACAACTCATGGCATCATTTTAGTGATCAAA
48817636 CACCCTTTATAAGACACATTAAACATTAGCTCATCATTATACATATGTTCCACCTACTCATGATA
326 CACCCTTTATAAGACACATTAAACATTAGCTCATCATTATACATATGTTCCACCTACTCATGATA
48817701 AACTAGTCTAGCCACATTAGTACACATTCATTTGACCTTGTCATCTCATTAATCACTTATACCAT
391 AACTAGTCTAGCCACATTAGTACACATTCATTTGACCTTGTCATCTCATTAATCACTTATACCAT
*
48817766 TAAACTATGGTTACCAATTTCTTGCTTAG
456 TAAAATATGGTTACCAATTTCTTGCTTAG
* * *
48817795 TAAA-TTTGAACAACTTAGTAAATTTCTTGCTTTGGAGAGTCATACGCCCGTGTGTGTTGAACCG
1 TAAACTTTGAACAACTTAGCAAATTTCTTGCTTTGGAGAGTCACACGCCCGTGTGCGTTGAACCG
* * * ** *
48817859 TGTGGTCACACACGCCTGTGTGGCTTAGGACATGCATGTGTAACTCTCTATTTGTGAAATCAGGA
66 TGTGGTCACACACGCCCGCGTGGCTTAGGACACGCACATGTAACTCTCTATTTGTGAAATCAGCA
* * * *
48817924 AAACAATTTGAACCACATGGCTAGGACACACACCCGTGTGCTAGGCCGTGTCCTCTACACGGCTG
131 AAACAATTTGAACCAC-CGGCCAGGACACACACCCGTGTGCTAGGCCGTGTCCTCCACACGACTG
* * * *
48817989 AGACACATGGCCGTGTCTCTGCCCGTTTGGCTAGCACTTAGGCTATTTTCCAGGCCTTCATGTTT
195 AGACACATGGCCGTGTCTCTGCCCATGTGGCTAACACTTAGGCTATTTTCCAAGCCTTCATGTTT
*
48818054 CTC-ATAAACCCTTACAACCTTATATACATCAAAATCACAACTCATGGCATCATTTTAGTGATCA
260 C-CAATAAACCCTTACAACCTTATACACATCAAAATCACAACTCATGGCATCATTTTAGTGATCA
* * *
48818118 AACACCCTTTATAAGACACGTTCAACATTAGCTCATCATTATACATATGTTCCACCTACTTATGA
324 AACACCCTTTATAAGACACATTAAACATTAGCTCATCATTATACATATGTTCCACCTACTCATGA
* *
48818183 TAAACTAGTCTAGCCACATTATTACACATTCATTTGACCTTGTCATCTCATTAATCATTTATACC
389 TAAACTAGTCTAGCCACATTAGTACACATTCATTTGACCTTGTCATCTCATTAATCACTTATACC
48818248 ATTAAAATATGGT
454 ATTAAAATATGGT
48818261 AACTAACTTA
Statistics
Matches: 426, Mismatches: 38, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
483 126 0.30
484 299 0.70
485 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (484 bp):
TAAACTTTGAACAACTTAGCAAATTTCTTGCTTTGGAGAGTCACACGCCCGTGTGCGTTGAACCG
TGTGGTCACACACGCCCGCGTGGCTTAGGACACGCACATGTAACTCTCTATTTGTGAAATCAGCA
AAACAATTTGAACCACCGGCCAGGACACACACCCGTGTGCTAGGCCGTGTCCTCCACACGACTGA
GACACATGGCCGTGTCTCTGCCCATGTGGCTAACACTTAGGCTATTTTCCAAGCCTTCATGTTTC
CAATAAACCCTTACAACCTTATACACATCAAAATCACAACTCATGGCATCATTTTAGTGATCAAA
CACCCTTTATAAGACACATTAAACATTAGCTCATCATTATACATATGTTCCACCTACTCATGATA
AACTAGTCTAGCCACATTAGTACACATTCATTTGACCTTGTCATCTCATTAATCACTTATACCAT
TAAAATATGGTTACCAATTTCTTGCTTAG
Found at i:48819673 original size:50 final size:51
Alignment explanation
Indices: 48819591--48819814 Score: 228
Period size: 50 Copynumber: 4.5 Consensus size: 51
48819581 TAGTATGCAC
* *
48819591 AGTAGCCTGCACTTAGTACTACACA-TTCGACCTAACAATCTGG-TACACGT
1 AGTAGCCTGCACTTAGTACTACAAACGT-GACCTAACAATCTGGATACACGT
* *
48819641 AGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCAT-TGGATACATGT
1 AGTAGCCTGCACTTAGTACTACAAACGTGACCTAACAATCTGGATACACGT
* * * * ** *
48819691 AGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATC-GGATATGCAT
1 AGTAGCCTGCACTTAGTACTACAAACGTGACCTAA-CAATCTGGATACACGT
* **
48819742 AGTAGCCTGCACTTAGTACTA-AGCATC-AAACCTAACAATCTGG-TACACGT
1 AGTAGCCTGCACTTAGTACTACA--AACGTGACCTAACAATCTGGATACACGT
*
48819792 AGTAGCCTGCACTTACTACTACA
1 AGTAGCCTGCACTTAGTACTACA
48819815 CATGTGATCT
Statistics
Matches: 143, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.02
50 101 0.71
51 38 0.27
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
AGTAGCCTGCACTTAGTACTACAAACGTGACCTAACAATCTGGATACACGT
Found at i:48819775 original size:101 final size:101
Alignment explanation
Indices: 48819640--48819823 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 101
48819630 CTGGTACACG
** * *
48819640 TAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCAT-TGGATACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACAAACGAAACCTAACAATCTGG-TACACGTAGTAGCCTGCACT
*
48819704 TAGTACTACACACGTGATCAAAGCTATCGGATATGCA
65 TACTACTACACACGTGATCAAAGCTATCGGATATGCA
*
48819741 TAGTAGCCTGCACTTAGTACTA-AGCATC-AAACCTAACAATCTGGTACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACA--AACGAAACCTAACAATCTGGTACACGTAGTAGCCTGCAC
*
48819804 TTACTACTACACATGTGATC
64 TTACTACTACACACGTGATC
48819824 TAAAACCATT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 1 0.01
101 67 0.92
102 5 0.07
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACAAACGAAACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
ACTACTACACACGTGATCAAAGCTATCGGATATGCA
Found at i:48824547 original size:806 final size:806
Alignment explanation
Indices: 48822995--48824610 Score: 2714
Period size: 806 Copynumber: 2.0 Consensus size: 806
48822985 TGCTCACTGC
48822995 CCACGACCCAAACCATTACCACTTCTAGCTGATCCACGGCCAGTAGGTGGTTGTTGAATGCCCTC
1 CCACGACCCAAACCATTACCACTTCTAGCTGATCCACGGCCAGTAGGTGGTTGTTGAATGCCCTC
* * * * * *
48823060 TGAAGCGGTACAAAACCTGGTGTTGATGCTTTCATCTGCTCTGTCCCCTGTGGACACTCTCTAAT
66 TGAAGCGGTACAAAACATAGTGCTGACGCTTGCATCTGATCTGTCCCCTGTGGACACTCTCTAAT
* * * *
48823125 ATGATGCTCTAATTATCCACACCTCAAACAGGCCCCAATCCTCCTCTAACATTCACCCCGATGGT
131 AGGATGCTCCAAATATCCACACCTCAAACAGGCCCCAATCCTCCTCTAACACTCACCCCGATGGT
* * *
48823190 AGCTACCACTGTCACTACACGGCTAAATCCCTGTTGGGGCAATAGGAACCCCCACTCTATTCGGC
196 AGCTACCACTGTCACTACACGGCTAAATCCCTGTTGGGGCAACAGGAACCCCCACTCTAGTCAGC
* *
48823255 TCATCAGATCTAGCCTTTTTCTTAAGCGTCAAGATAGAACTAGAGGGCTTCGAATCCCACTTATT
261 TCATCAGATCTAGCCTTTTTCTTAAGCCTCAAGACAGAACTAGAGGGCTTCGAATCCCACTTATT
*
48823320 CTTACCCCTCTCTCGGTCCCTATTCTAGCACTCTACATGCTTAACATCCTTAGCAATCATTGCCT
326 CTTACCCCTCTCTCGGTCCCCATTCTAGCACTCTACATGCTTAACATCCTTAGCAATCATTGCCT
* *
48823385 TTTCGACCAATACTGCAAACTCATGCTCCCTCTGTGGAGCAATTAGTACAATCAAACTGTCCCTC
391 TTTCGACCAATACTGCAAACTCACGCTCCCTCTGTGGAGCAATTACTACAATCAAACTGTCCCTC
* *
48823450 AGACCATCCTCAAAACGGACACACCTCTTGTACTCAGATGCCACCATGCCTCGAGCATAGCAGCT
456 AGACCATCCTCAAAACGGACACACCTCTTGTACTCAGATGCCACAATGCCTCGAGCATAGCAACT
*
48823515 CAACCTCAGAAATTCAGCCTCATACTTGGCCACAGACCTATCCCCTTGCGTGAGATTCATGAGCT
521 CAACCTCAGAAATTCAGCCTCATACTTGGCCACAGACCTATCCCCTTGCGTGAGATTCATGAACT
* *
48823580 CACGCCTATGAGCATCCACATAGATCGCTCTCACATACTTGCTCTGGGAAGTGATCTGAAGAAAT
586 CACGCCTACGAGCATCCACATAGATCGCTCCCACATACTTGCTCTGGGAAGTGATCTGAAGAAAT
* *
48823645 CCTAAGTCAAACGATCTGGCTGAGTACCCTCCTCAACTGTTAACCACAACTGGTATGCCTCGTCG
651 CCCAAGTCAAACGATCTGGCTGAGTACCCTCCTCAACCGTTAACCACAACTGGTATGCCTCGTCG
48823710 CGAAGCAAAGAGACTGCACCCTTAAACTTCTGCTCGAAAGTATAGTCTAAGTCATTCATAATACT
716 CGAAGCAAAGAGACTGCACCCTTAAACTTCTGCTCGAAAGTATAGTCTAAGTCATTCATAATACT
*
48823775 CTCTGTAGCCTCCAACCAATACTCGG
781 CTCTATAGCCTCCAACCAATACTCGG
*
48823801 CCACGACCCAAACTATTACCACCTT-TAGCTGATCCACGGCCAGTAGGTGGTTGTTGAATGCCCT
1 CCACGACCCAAACCATTACCA-CTTCTAGCTGATCCACGGCCAGTAGGTGGTTGTTGAATGCCCT
*
48823865 CTGAAGCGGTACAGAACATAGTGCTGACGCTTGCATCTGATCTGTCCCCTGTGGACACTCTCTAA
65 CTGAAGCGGTACAAAACATAGTGCTGACGCTTGCATCTGATCTGTCCCCTGTGGACACTCTCTAA
** *
48823930 TAGGATTTTCCAAATATCCACACCTCAAACAGGCCCCAATCCTCCTCTAACACTCGCCCCGATGG
130 TAGGATGCTCCAAATATCCACACCTCAAACAGGCCCCAATCCTCCTCTAACACTCACCCCGATGG
* * * *
48823995 TAGCTTCCACTGTTACTACACGGCTGAATCCCTGTTGGGGCAACAGGAACCCGCACTCTAGTCAG
195 TAGCTACCACTGTCACTACACGGCTAAATCCCTGTTGGGGCAACAGGAACCCCCACTCTAGTCAG
* *
48824060 CTCATCAGATCTAGCCTTTTTCTTAAGCCTCAGGACAGAACTAGAGGGCTTCGAATCCCTCTTAT
260 CTCATCAGATCTAGCCTTTTTCTTAAGCCTCAAGACAGAACTAGAGGGCTTCGAATCCCACTTAT
* *
48824125 TCTTACCCCTCTCTCGGTCCCCATTCTGGCACTCTACATGCTTAACATCTTTAGCAATCATTGCC
325 TCTTACCCCTCTCTCGGTCCCCATTCTAGCACTCTACATGCTTAACATCCTTAGCAATCATTGCC
* **
48824190 TTTTCTACCAATACTGTGAACTCACGCTCCCTCTGTGGAGCAATTACTACAATCAAACTGTCCCT
390 TTTTCGACCAATACTGCAAACTCACGCTCCCTCTGTGGAGCAATTACTACAATCAAACTGTCCCT
*
48824255 CAGACCATCCTCAAAACGGACACACCTCTTGTACTCAGATGCCACAATGCCTCGAGCGTAGCAAC
455 CAGACCATCCTCAAAACGGACACACCTCTTGTACTCAGATGCCACAATGCCTCGAGCATAGCAAC
* * *
48824320 TCAACCTCAGAAATTCAGCCTCATACTTGGCCATAGACCTATCCCTTTGTGTGAGATTCATGAAC
520 TCAACCTCAGAAATTCAGCCTCATACTTGGCCACAGACCTATCCCCTTGCGTGAGATTCATGAAC
* *
48824385 TCACGCCTACGAGTATCCACATAGATCGCTCCCACATACTTGCTCTGGGAAGTGGTCTTGAAGAA
585 TCACGCCTACGAGCATCCACATAGATCGCTCCCACATACTTGCTCTGGGAAGTGATC-TGAAGAA
48824450 ATCCCAAGTCAAACGATC-GGCTGAGTACCCTCCTCAACCGTTAACCACAACTGGTATGCCTCGT
649 ATCCCAAGTCAAACGATCTGGCTGAGTACCCTCCTCAACCGTTAACCACAACTGGTATGCCTCGT
* ** *
48824514 CGCGAAGCAAAGAGACTGCACCCTTAAACTTCTGTTCGGGAGTATAGTCTAAGTCATTCATAATC
714 CGCGAAGCAAAGAGACTGCACCCTTAAACTTCTGCTCGAAAGTATAGTCTAAGTCATTCATAATA
* *
48824579 CTCTCTATGGCCTCCAACCAGTACTCGG
779 CTCTCTATAGCCTCCAACCAATACTCGG
48824607 CCAC
1 CCAC
48824611 ACTAAGGGCG
Statistics
Matches: 754, Mismatches: 54, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
806 727 0.96
807 27 0.04
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (806 bp):
CCACGACCCAAACCATTACCACTTCTAGCTGATCCACGGCCAGTAGGTGGTTGTTGAATGCCCTC
TGAAGCGGTACAAAACATAGTGCTGACGCTTGCATCTGATCTGTCCCCTGTGGACACTCTCTAAT
AGGATGCTCCAAATATCCACACCTCAAACAGGCCCCAATCCTCCTCTAACACTCACCCCGATGGT
AGCTACCACTGTCACTACACGGCTAAATCCCTGTTGGGGCAACAGGAACCCCCACTCTAGTCAGC
TCATCAGATCTAGCCTTTTTCTTAAGCCTCAAGACAGAACTAGAGGGCTTCGAATCCCACTTATT
CTTACCCCTCTCTCGGTCCCCATTCTAGCACTCTACATGCTTAACATCCTTAGCAATCATTGCCT
TTTCGACCAATACTGCAAACTCACGCTCCCTCTGTGGAGCAATTACTACAATCAAACTGTCCCTC
AGACCATCCTCAAAACGGACACACCTCTTGTACTCAGATGCCACAATGCCTCGAGCATAGCAACT
CAACCTCAGAAATTCAGCCTCATACTTGGCCACAGACCTATCCCCTTGCGTGAGATTCATGAACT
CACGCCTACGAGCATCCACATAGATCGCTCCCACATACTTGCTCTGGGAAGTGATCTGAAGAAAT
CCCAAGTCAAACGATCTGGCTGAGTACCCTCCTCAACCGTTAACCACAACTGGTATGCCTCGTCG
CGAAGCAAAGAGACTGCACCCTTAAACTTCTGCTCGAAAGTATAGTCTAAGTCATTCATAATACT
CTCTATAGCCTCCAACCAATACTCGG
Found at i:48835511 original size:13 final size:13
Alignment explanation
Indices: 48835493--48835521 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48835483 TTTAGTTTAA
48835493 TTAGTTAATTAGT
1 TTAGTTAATTAGT
48835506 TTAGTTAATTAGT
1 TTAGTTAATTAGT
48835519 TTA
1 TTA
48835522 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:48843312 original size:15 final size:15
Alignment explanation
Indices: 48843292--48843322 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48843282 AAATACGAAA
48843292 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
48843307 GATATGTTTTGTATT
1 GATATGTTTTGGATT
48843322 G
1 G
48843323 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:48843936 original size:45 final size:45
Alignment explanation
Indices: 48843872--48843967 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
48843862 AGGACTATGC
*
48843872 TATGTGTTTTCGTGTAAGACCACATCTGGGAGGTTGGCATCAATA
1 TATGTGTTTTCATGTAAGACCACATCTGGGAGGTTGGCATCAATA
* **
48843917 TATGTGTTTTCATGTAAGACCACATCTGGGATGTTGGCATTGATA
1 TATGTGTTTTCATGTAAGACCACATCTGGGAGGTTGGCATCAATA
48843962 TATGTG
1 TATGTG
48843968 GTTACGAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (45 bp):
TATGTGTTTTCATGTAAGACCACATCTGGGAGGTTGGCATCAATA
Found at i:48843992 original size:45 final size:45
Alignment explanation
Indices: 48843884--48843982 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
48843874 TGTGTTTTCG
* *
48843884 TGTAAGACCACATCTGGGAGGTTGGCATCAATATATGTGTTTTCA
1 TGTAAGACCACATCTGGGAGGTTGGCATCAATATATGTGGTTACA
* **
48843929 TGTAAGACCACATCTGGGATGTTGGCATTGATATATGTGGTTACGA
1 TGTAAGACCACATCTGGGAGGTTGGCATCAATATATGTGGTTAC-A
48843975 -GTAAGACC
1 TGTAAGACC
48843983 GTGTCTGGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (45 bp):
TGTAAGACCACATCTGGGAGGTTGGCATCAATATATGTGGTTACA
Found at i:48845849 original size:3 final size:3
Alignment explanation
Indices: 48845841--48845865 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48845831 ACCAAATGGA
48845841 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
48845866 CAAGTCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:48846619 original size:34 final size:34
Alignment explanation
Indices: 48846574--48846642 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
48846564 AAACCGAGAA
48846574 CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
1 CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
*
48846608 CATTTGCTAAACTTTGGCCACTTTGGAAAATTTT
1 CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
48846642 C
1 C
48846643 CTTATCTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (34 bp):
CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
Found at i:48853391 original size:15 final size:15
Alignment explanation
Indices: 48853371--48853402 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48853361 CGTATGAACT
48853371 CTCTCTCGTATTCCG
1 CTCTCTCGTATTCCG
48853386 CTCTCTCGTATTCCG
1 CTCTCTCGTATTCCG
48853401 CT
1 CT
48853403 ACAGTCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.41, G:0.12, T:0.41
Consensus pattern (15 bp):
CTCTCTCGTATTCCG
Found at i:48864415 original size:94 final size:94
Alignment explanation
Indices: 48864254--48864432 Score: 342
Period size: 94 Copynumber: 1.9 Consensus size: 94
48864244 CTTCTGGTTG
48864254 CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAGAATAACAAAATCAGTAGGGAAAATA
1 CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAGAATAACAAAATCAGTAGGGAAAATA
48864319 AATTTATCTATATGTACCAAACAGTCTTC
66 AATTTATCTATATGTACCAAACAGTCTTC
48864348 CTAAGA-ATATTGGCACTTCTTTGTCTGATTCAAAGTCTAGAATAACAAAATCAGTAGGGAAAAT
1 CTAAGATA-ATTGGCACTTCTTTGTCTGATTCAAAGTCTAGAATAACAAAATCAGTAGGGAAAAT
48864412 AAATTTATCTATATGTACCAA
65 AAATTTATCTATATGTACCAA
48864433 TACATCCTTG
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
93 1 0.01
94 83 0.99
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (94 bp):
CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAGAATAACAAAATCAGTAGGGAAAATA
AATTTATCTATATGTACCAAACAGTCTTC
Found at i:48866673 original size:15 final size:15
Alignment explanation
Indices: 48866653--48866692 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
48866643 CACAATCGCA
48866653 ACAAGT-AATAAAGTG
1 ACAAGTAAAT-AAGTG
48866668 ACAAGTAAATAAGTG
1 ACAAGTAAATAAGTG
48866683 ACAAGTAAAT
1 ACAAGTAAAT
48866693 GTCGAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
ACAAGTAAATAAGTG
Found at i:48878461 original size:24 final size:24
Alignment explanation
Indices: 48878434--48878480 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
48878424 ATCATAGAAA
48878434 GTGTACAT-TGGCACTATGTGTGCG
1 GTGTA-ATATGGCACTATGTGTGCG
*
48878458 GTGTAGTATGGCACTATGTGTGC
1 GTGTAATATGGCACTATGTGTGC
48878481 AGAGTTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.17, C:0.15, G:0.34, T:0.34
Consensus pattern (24 bp):
GTGTAATATGGCACTATGTGTGCG
Found at i:48884575 original size:2 final size:2
Alignment explanation
Indices: 48884568--48884597 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48884558 GGCTATTTGC
48884568 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
48884598 GCATAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48884939 original size:39 final size:39
Alignment explanation
Indices: 48884890--48884966 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
48884880 AGCTTAGTAA
*
48884890 GCTCGTATGATTAATAAATATAACCTACCATTCATTCAT
1 GCTCATATGATTAATAAATATAACCTACCATTCATTCAT
*
48884929 GCTCATATGATTAATAATTATAACCTACCATTCATTCA
1 GCTCATATGATTAATAAATATAACCTACCATTCATTCA
48884967 CCAATTAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (39 bp):
GCTCATATGATTAATAAATATAACCTACCATTCATTCAT
Found at i:48891132 original size:15 final size:15
Alignment explanation
Indices: 48891112--48891142 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48891102 ATATTCTTTT
*
48891112 GTCAATATCGGCAAA
1 GTCAATATAGGCAAA
48891127 GTCAATATAGGCAAA
1 GTCAATATAGGCAAA
48891142 G
1 G
48891143 CTGCTGCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (15 bp):
GTCAATATAGGCAAA
Found at i:48899314 original size:6 final size:6
Alignment explanation
Indices: 48899303--48899346 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
48899293 GTGAGTAAGC
48899303 GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GA
1 GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GA
48899347 CGATGCTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
GAGGTT
Found at i:48900747 original size:51 final size:51
Alignment explanation
Indices: 48900684--48900809 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
48900674 CAATCAAATC
* * * *
48900684 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
48900735 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
48900786 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
48900810 TCAAGATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:48905840 original size:51 final size:51
Alignment explanation
Indices: 48905777--48905902 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
48905767 CAATCAAATC
* * * *
48905777 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * * *
48905828 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAGGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
48905879 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
48905903 TCAAGATCAT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:48906446 original size:2 final size:2
Alignment explanation
Indices: 48906439--48906465 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48906429 GCAAATTTAC
48906439 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 A
48906466 CCTTTTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48906777 original size:21 final size:21
Alignment explanation
Indices: 48906752--48906791 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48906742 TTTTCTTTTT
48906752 CAATTCAACTCTCAATTTTAA
1 CAATTCAACTCTCAATTTTAA
** *
48906773 CAATTTGATTCTCAATTTT
1 CAATTCAACTCTCAATTTT
48906792 CAATTTGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.45
Consensus pattern (21 bp):
CAATTCAACTCTCAATTTTAA
Found at i:48906804 original size:21 final size:19
Alignment explanation
Indices: 48906761--48906817 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
48906751 TCAATTCAAC
48906761 TCTCAATTTTAACAATTTGAT
1 TCTCAATTTT--CAATTTGAT
48906782 TCTCAATTTTCAATTTGTTAT
1 TCTCAATTTTCAATTTG--AT
*
48906803 TCTCAATTGTCAATT
1 TCTCAATTTTCAATT
48906818 CTCGATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 7 0.21
21 26 0.79
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (19 bp):
TCTCAATTTTCAATTTGAT
Found at i:48906844 original size:28 final size:28
Alignment explanation
Indices: 48906780--48906846 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
48906770 TAACAATTTG
* * *
48906780 ATTCTCAATTTTCAATTTGTTATTCTCA
1 ATTCTCAATTCTCAATTTATTATTCTAA
* *
48906808 ATTGTCAATTCTCGATTTATTATTCTAA
1 ATTCTCAATTCTCAATTTATTATTCTAA
*
48906836 ATTCCCAATTC
1 ATTCTCAATTC
48906847 CAGAAATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.49
Consensus pattern (28 bp):
ATTCTCAATTCTCAATTTATTATTCTAA
Found at i:48908194 original size:25 final size:25
Alignment explanation
Indices: 48908165--48908215 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
48908155 TTCGCTTGAA
**
48908165 ATTTACTAAGCAATATTGAATATTC
1 ATTTACTAAGCAATATCAAATATTC
* *
48908190 ATTTATTAGGCAATATCAAATATTC
1 ATTTACTAAGCAATATCAAATATTC
48908215 A
1 A
48908216 AATTATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (25 bp):
ATTTACTAAGCAATATCAAATATTC
Found at i:48909471 original size:11 final size:11
Alignment explanation
Indices: 48909455--48909479 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48909445 TTCAGCTGAT
48909455 GAAAATGAAGA
1 GAAAATGAAGA
48909466 GAAAATGAAGA
1 GAAAATGAAGA
48909477 GAA
1 GAA
48909480 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:48911080 original size:63 final size:63
Alignment explanation
Indices: 48910977--48911146 Score: 180
Period size: 63 Copynumber: 2.7 Consensus size: 63
48910967 ACACATATAA
* * * * *
48910977 CACTAGTTTATTTTACACAAACATAACATTATGTGCAATCATTCCCTACAACAACACAGCAAT
1 CACTAGTTTATTTTACACAAGCATCACATCACGCGCAATCATTCCCTACAACAACACAGCAAT
* * * * * *
48911040 CACTAGTTTATTTTACACAAGCATCAC-TGCACGCGTAATCATTCCCTACACCGACATATCCAT
1 CACTAGTTTATTTTACACAAGCATCACAT-CACGCGCAATCATTCCCTACAACAACACAGCAAT
* * * * *
48911103 CACCAATTTATTTTACACAAGCATCACAACATGTGCAATCATTC
1 CACTAGTTTATTTTACACAAGCATCACATCACGCGCAATCATTC
48911147 ATACACCGAC
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
62 1 0.01
63 87 0.99
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (63 bp):
CACTAGTTTATTTTACACAAGCATCACATCACGCGCAATCATTCCCTACAACAACACAGCAAT
Found at i:48917767 original size:23 final size:23
Alignment explanation
Indices: 48917737--48917787 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
48917727 CCATTTACGC
48917737 TAAAACGAATTACTTGATTATAA
1 TAAAACGAATTACTTGATTATAA
*
48917760 TAAAACGAATTACTTGATTATAC
1 TAAAACGAATTACTTGATTATAA
48917783 TAAAA
1 TAAAA
48917788 TGCCAGTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (23 bp):
TAAAACGAATTACTTGATTATAA
Found at i:48918965 original size:22 final size:22
Alignment explanation
Indices: 48918940--48918982 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
48918930 GCACTATTGA
48918940 ACAGAGAGCACTAAA-GTGCTAT
1 ACAGAGAGCAC-AAATGTGCTAT
48918962 ACAGAGAGCACAAATGTGCTA
1 ACAGAGAGCACAAATGTGCTA
48918983 AACGGAGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCACAAATGTGCTAT
Found at i:48921893 original size:36 final size:36
Alignment explanation
Indices: 48921846--48921927 Score: 146
Period size: 36 Copynumber: 2.2 Consensus size: 36
48921836 TGAAATTATG
48921846 TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
1 TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
*
48921882 TAGTAATTTATATTTTGTGATGAAAGATTGTTCTTA
1 TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
48921918 TAGTACATTT
1 TAGTA-ATTT
48921928 TGTTTCTTCG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 40 0.91
37 4 0.09
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (36 bp):
TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
Found at i:48924904 original size:21 final size:22
Alignment explanation
Indices: 48924875--48924923 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
48924865 TATTTAATTC
*
48924875 TTAATATTTACATTTT-ATTAAT
1 TTAATATTTA-ATTTTAAATAAT
48924897 TTAA-ATTTAATTTTAAATAAT
1 TTAATATTTAATTTTAAATAAT
48924918 TTAATA
1 TTAATA
48924924 AATTTTACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAATATTTAATTTTAAATAAT
Found at i:48929104 original size:15 final size:17
Alignment explanation
Indices: 48929086--48929117 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
48929076 TAGCATAATT
48929086 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
48929101 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
48929118 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:48931229 original size:40 final size:40
Alignment explanation
Indices: 48931170--48931338 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
48931160 CGGGACTTTA
* * *
48931170 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
48931210 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
48931250 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
48931290 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
48931330 CCCGGATAT
1 CCCGGATAT
48931339 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:48939250 original size:40 final size:40
Alignment explanation
Indices: 48939191--48939359 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
48939181 CGGGACTTTA
* * *
48939191 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
48939231 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
48939271 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
48939311 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
48939351 CCCGGATAT
1 CCCGGATAT
48939360 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:48946774 original size:39 final size:39
Alignment explanation
Indices: 48946715--48946806 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 39
48946705 TTTTTTCCAT
* *
48946715 TTATTACTTTATTCATTTCAGCTCTTTATTATTTCTCTTA
1 TTATTAC-ATATTCATTTCAGCTATTTATTATTTCTCTTA
* *
48946755 TTATTACGTATTGATTTCAGCTATTTATTATTTCTCTTA
1 TTATTACATATTCATTTCAGCTATTTATTATTTCTCTTA
48946794 TTATTACATATTC
1 TTATTACATATTC
48946807 TTATTTTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 40 0.85
40 7 0.15
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (39 bp):
TTATTACATATTCATTTCAGCTATTTATTATTTCTCTTA
Found at i:48954638 original size:6 final size:6
Alignment explanation
Indices: 48954623--48954677 Score: 71
Period size: 6 Copynumber: 9.5 Consensus size: 6
48954613 ATAAAAATAG
*
48954623 AAAC-A AAACTA AAACTA AAACTA AAACTA AAACTTA AAA-TA AAAATA
1 AAACTA AAACTA AAACTA AAACTA AAACTA AAAC-TA AAACTA AAACTA
48954670 AAA-TA AAA
1 AAACTA AAA
48954678 TGAATGGACT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
5 14 0.30
6 28 0.60
7 5 0.11
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (6 bp):
AAACTA
Found at i:48956333 original size:18 final size:17
Alignment explanation
Indices: 48956303--48956336 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
48956293 CAAAATCATA
48956303 TTAAAGAAATTAAAGAC
1 TTAAAGAAATTAAAGAC
48956320 TTAAAGATAATTAAAGA
1 TTAAAGA-AATTAAAGA
48956337 AACAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.26
Consensus pattern (17 bp):
TTAAAGAAATTAAAGAC
Found at i:48956379 original size:34 final size:34
Alignment explanation
Indices: 48956341--48956409 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 34
48956331 TAAAGAAACA
48956341 AGTAA-AAACAATGAAAATAATAA-AATAAAATAAT
1 AGTAATAAACAA--AAAATAATAACAATAAAATAAT
*
48956375 AGTAATAAAGAAAAAATAATAACAATAAAATAAT
1 AGTAATAAACAAAAAATAATAACAATAAAATAAT
48956409 A
1 A
48956410 AAAGACTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 10 0.31
34 17 0.53
35 5 0.16
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (34 bp):
AGTAATAAACAAAAAATAATAACAATAAAATAAT
Found at i:48956392 original size:20 final size:19
Alignment explanation
Indices: 48956358--48956395 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
48956348 ACAATGAAAA
*
48956358 TAATAAAATAAAATAATAG
1 TAATAAAAAAAAATAATAG
48956377 TAATAAAGAAAAAATAATA
1 TAATAAA-AAAAAATAATA
48956396 ACAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
TAATAAAAAAAAATAATAG
Found at i:48959302 original size:19 final size:20
Alignment explanation
Indices: 48959270--48959314 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
48959260 TGATTCAACG
48959270 GACAT-AAAACTCTTGACAT
1 GACATGAAAACTCTTGACAT
*
48959289 GACATGAAAA-TCTTGAGAT
1 GACATGAAAACTCTTGACAT
*
48959308 GAAATGA
1 GACATGA
48959315 TAATGACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.24
Consensus pattern (20 bp):
GACATGAAAACTCTTGACAT
Found at i:48966099 original size:20 final size:20
Alignment explanation
Indices: 48966074--48966112 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48966064 AGGGACTAAA
* *
48966074 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
48966094 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
48966113 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:48971428 original size:16 final size:16
Alignment explanation
Indices: 48971407--48971440 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48971397 TCGGCAAATC
*
48971407 CCGAAATGCTGAAAAG
1 CCGAAATGCCGAAAAG
48971423 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
48971439 CC
1 CC
48971441 AGAAGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.24, T:0.09
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:48971697 original size:28 final size:28
Alignment explanation
Indices: 48971657--48971759 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
48971647 ATTGCATGAC
* *
48971657 TATGAGTGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
48971685 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
48971713 TATGAATGTGATTGGG-CTCGATGGGCCA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
* *
48971741 CATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
48971760 AAAAGGGCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 2 0.03
28 63 0.94
29 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:48975522 original size:47 final size:47
Alignment explanation
Indices: 48975458--48975568 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
48975448 GACATTGAGT
*
48975458 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
48975505 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
48975552 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
48975569 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:48976854 original size:24 final size:24
Alignment explanation
Indices: 48976822--48976876 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
48976812 GGTATATGGC
*
48976822 ATGTATAAGCTAGAGCTATTTTGG
1 ATGTATAAGCTAAAGCTATTTTGG
48976846 ATGTATAAGCTAAAGCTATTTTGG
1 ATGTATAAGCTAAAGCTATTTTGG
48976870 ATGTATA
1 ATGTATA
48976877 CTTTGTGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (24 bp):
ATGTATAAGCTAAAGCTATTTTGG
Found at i:48976949 original size:13 final size:13
Alignment explanation
Indices: 48976931--48976962 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
48976921 TTGGTATGCA
48976931 TGGCCTTATAAGT
1 TGGCCTTATAAGT
48976944 TGGCCTTATAAGT
1 TGGCCTTATAAGT
48976957 TGGCCT
1 TGGCCT
48976963 AAATGATGAA
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:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (13 bp):
TGGCCTTATAAGT
Found at i:48982384 original size:30 final size:29
Alignment explanation
Indices: 48982348--48982404 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
48982338 CATGGGCTGG
*
48982348 TACATGGGCGTGTGGCTAGCCCATGTGGCT
1 TACATGGGCGTGTGCCTAGCCC-TGTGGCT
*
48982378 TACATGGGTGTGTGCCTAGCCCTGTGG
1 TACATGGGCGTGTGCCTAGCCCTGTGG
48982405 AAGTGCCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.12, C:0.23, G:0.37, T:0.28
Consensus pattern (29 bp):
TACATGGGCGTGTGCCTAGCCCTGTGGCT
Found at i:48985651 original size:13 final size:13
Alignment explanation
Indices: 48985619--48985665 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
48985609 TAATTTAGCC
*
48985619 ATTTTTTATTTTA
1 ATTTTTTAATTTA
* *
48985632 ATATTTTAATTTG
1 ATTTTTTAATTTA
48985645 ATTTTTTAATTTA
1 ATTTTTTAATTTA
48985658 ATCTTTTT
1 AT-TTTTT
48985666 GTTTGTTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 23 0.82
14 5 0.18
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (13 bp):
ATTTTTTAATTTA
Found at i:48986967 original size:10 final size:11
Alignment explanation
Indices: 48986944--48986968 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48986934 ACTCGATTTT
48986944 AAAACATTGAA
1 AAAACATTGAA
48986955 AAAACATTGAA
1 AAAACATTGAA
48986966 AAA
1 AAA
48986969 TTAGCAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAACATTGAA
Found at i:48989377 original size:51 final size:50
Alignment explanation
Indices: 48989314--48989456 Score: 189
Period size: 50 Copynumber: 2.8 Consensus size: 50
48989304 CCGTTGTGAG
* *
48989314 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-TTAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAA--TAGA
* * *
48989365 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAATAGA
* * *
48989415 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
48989457 GAGCTTCGGT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
50 40 0.49
51 39 0.48
52 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAATAGA
Found at i:48991273 original size:40 final size:40
Alignment explanation
Indices: 48991151--48991318 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
48991141 TCTTCGGAAT
* * *
48991151 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
48991190 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
48991230 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
** * * * *
48991270 TTAGCTTGAATAGAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
48991310 TTAGCCCGG
1 TTAGCCCGG
48991319 GTATCATTCA
Statistics
Matches: 100, Mismatches: 27, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
39 3 0.03
40 96 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:48995611 original size:12 final size:12
Alignment explanation
Indices: 48995594--48995623 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48995584 CATTTTTTTT
48995594 AAAAAAATAGAA
1 AAAAAAATAGAA
*
48995606 AAAAAAATTGAA
1 AAAAAAATAGAA
48995618 AAAAAA
1 AAAAAA
48995624 GTGGTCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAAATAGAA
Found at i:48996035 original size:6 final size:6
Alignment explanation
Indices: 48996024--48996056 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
48996014 TATTTTATTT
48996024 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT- ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
48996057 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (6 bp):
ATTTTG
Found at i:48996059 original size:4 final size:4
Alignment explanation
Indices: 48996050--48996080 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
48996040 TGATTTTGAT
48996050 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
48996081 TATTATGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:48996086 original size:12 final size:14
Alignment explanation
Indices: 48996017--48996080 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 14
48996007 CGTTTTATAT
48996017 TTTATTTATTTTGA
1 TTTATTTATTTTGA
48996031 TTTTGATTTTGATTTTGA
1 -TTT-A-TTT-ATTTTGA
48996049 TTTTATTTA-TTT-A
1 -TTTATTTATTTTGA
48996062 TTTATTTA-TTT-A
1 TTTATTTATTTTGA
48996074 TTTATTT
1 TTTATTT
48996081 TATTATGCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
12 19 0.41
13 1 0.02
14 3 0.07
15 4 0.09
16 4 0.09
17 4 0.09
18 11 0.24
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTTGA
Found at i:48996128 original size:24 final size:24
Alignment explanation
Indices: 48996096--48996153 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
48996086 TGCACTGTAC
*
48996096 TTTTATTATTTTCTTTTCTTTTTA
1 TTTTATTATTTTCTTATCTTTTTA
* *
48996120 TTTTTTTATTTTGTTATCTTTTTA
1 TTTTATTATTTTCTTATCTTTTTA
* *
48996144 TCTTCTTATT
1 TTTTATTATT
48996154 AATTTTTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTATTATTTTCTTATCTTTTTA
Found at i:48996136 original size:16 final size:15
Alignment explanation
Indices: 48996049--48996144 Score: 50
Period size: 16 Copynumber: 5.9 Consensus size: 15
48996039 TTGATTTTGA
*
48996049 TTTTATTTATTTATT
1 TTTTATTTTTTTATT
*
48996064 TATTTATTTATTTATT
1 T-TTTATTTTTTTATT
*** *
48996080 TTATTATGCACTGTACTT
1 TT-TTAT-TTTTTTA-TT
48996098 TTATTATTTTCTTT-TCT
1 TT-TTATTTT-TTTAT-T
48996115 TTTTATTTTTTTATT
1 TTTTATTTTTTTATT
*
48996130 TTGTTATCTTTTTAT
1 TT-TTATTTTTTTAT
48996145 CTTCTTATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
15 8 0.12
16 39 0.61
17 6 0.09
18 11 0.17
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTATTTTTTTATT
Found at i:49004721 original size:43 final size:43
Alignment explanation
Indices: 49004660--49004746 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
49004650 GTTGAAGAGG
**
49004660 CTACGTGCGAGCCTGAAGATTCTATAAGATAGCAATATCCGAA
1 CTACGTGCGAGCCTGAAGACGCTATAAGATAGCAATATCCGAA
* *
49004703 CTACGTGGGAGCCTGAAGACGCTATGAGATAGCAATATCCGAA
1 CTACGTGCGAGCCTGAAGACGCTATAAGATAGCAATATCCGAA
49004746 C
1 C
49004747 CTATTCGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (43 bp):
CTACGTGCGAGCCTGAAGACGCTATAAGATAGCAATATCCGAA
Found at i:49006149 original size:36 final size:36
Alignment explanation
Indices: 49006109--49006201 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
49006099 TATCAATATC
* * * *
49006109 ATTCAGTAACGATCAATTGTTCAGTAACAGTCAGTT
1 ATTCAGTAACAATCAATTATTCAATAACAGTCAATT
*
49006145 ATTCAGTAACAATCATTTATTCAATAACAGTCAATT
1 ATTCAGTAACAATCAATTATTCAATAACAGTCAATT
* *
49006181 ATTCAGTAATAATCAGTTATT
1 ATTCAGTAACAATCAATTATT
49006202 TAGTATGTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
ATTCAGTAACAATCAATTATTCAATAACAGTCAATT
Found at i:49006200 original size:18 final size:18
Alignment explanation
Indices: 49006109--49006206 Score: 106
Period size: 18 Copynumber: 5.4 Consensus size: 18
49006099 TATCAATATC
*
49006109 ATTCAGTAACGATCAATT
1 ATTCAGTAACAATCAATT
* * *
49006127 GTTCAGTAACAGTCAGTT
1 ATTCAGTAACAATCAATT
*
49006145 ATTCAGTAACAATCATTT
1 ATTCAGTAACAATCAATT
* *
49006163 ATTCAATAACAGTCAATT
1 ATTCAGTAACAATCAATT
* *
49006181 ATTCAGTAATAATCAGTT
1 ATTCAGTAACAATCAATT
*
49006199 ATTTAGTA
1 ATTCAGTA
49006207 TGTAACACCC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:49007598 original size:29 final size:28
Alignment explanation
Indices: 49007510--49007611 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
49007500 TACTCAATCA
* *
49007510 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * * *
49007539 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCGTACA-TTCAAGCT
49007568 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
49007597 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
49007612 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.03
28 3 0.05
29 53 0.91
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:49015453 original size:29 final size:28
Alignment explanation
Indices: 49015365--49015466 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
49015355 TACTCAATCA
* *
49015365 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * * *
49015394 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCGTACA-TTCAAGCT
49015423 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
49015452 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
49015467 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.03
28 3 0.05
29 53 0.91
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:49017146 original size:18 final size:19
Alignment explanation
Indices: 49017125--49017170 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
49017115 TAACAGTCAT
*
49017125 TTATTCAGTAAG-AGTTAA
1 TTATTCAGTAAGCAATTAA
*
49017143 TTATTCAGT-AGCAATTAG
1 TTATTCAGTAAGCAATTAA
49017161 TTATTCAGTA
1 TTATTCAGTA
49017171 CCTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (19 bp):
TTATTCAGTAAGCAATTAA
Found at i:49017415 original size:44 final size:44
Alignment explanation
Indices: 49017324--49017415 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
49017314 CCGAAGTAAC
* *
49017324 AGTAATAGTATGACACATGAAGTGCCTCATCGACACAAAGTCGA
1 AGTAACAGTATGACACATGAAGTGCCTCATCGACACAAAGTCAA
* * **
49017368 AGTAACAGTATGACACTAT-TAGTGCCTCATCGACCCATGGTCAA
1 AGTAACAGTATGACAC-ATGAAGTGCCTCATCGACACAAAGTCAA
49017412 AGTA
1 AGTA
49017416 TCCTCGTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTAACAGTATGACACATGAAGTGCCTCATCGACACAAAGTCAA
Found at i:49017536 original size:19 final size:20
Alignment explanation
Indices: 49017512--49017549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49017502 TTTCATGAGT
49017512 ATATATT-TCAATTAAATAG
1 ATATATTCTCAATTAAATAG
*
49017531 ATATATTCTCAATTCAATA
1 ATATATTCTCAATTAAATA
49017550 TATTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (20 bp):
ATATATTCTCAATTAAATAG
Found at i:49017967 original size:11 final size:11
Alignment explanation
Indices: 49017951--49017985 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
49017941 CTCCCTTTTT
49017951 CTTTCTTTCCC
1 CTTTCTTTCCC
49017962 CTTTCTTTCCC
1 CTTTCTTTCCC
49017973 CTTTCTTTGCCC
1 CTTTCTTT-CCC
49017985 C
1 C
49017986 ATTTTCGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.00, C:0.46, G:0.03, T:0.51
Consensus pattern (11 bp):
CTTTCTTTCCC
Found at i:49018191 original size:16 final size:16
Alignment explanation
Indices: 49018167--49018234 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
49018157 TTAAATTTAT
*
49018167 TTATTATATAAATATC
1 TTATAATATAAATATC
*
49018183 TTATAATATAATTA-C
1 TTATAATATAAATATC
*
49018198 TTA-ATTAATAAATATC
1 TTATAAT-ATAAATATC
49018214 TTTTATAAATAGTAAATATC
1 --TTAT-AATA-TAAATATC
49018234 T
1 T
49018235 ATTAGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
14 2 0.05
15 10 0.25
16 13 0.32
18 4 0.10
19 1 0.03
20 10 0.25
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (16 bp):
TTATAATATAAATATC
Found at i:49018334 original size:13 final size:13
Alignment explanation
Indices: 49018316--49018343 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49018306 CACATTTGTC
49018316 TTTATTTATTTTA
1 TTTATTTATTTTA
49018329 TTTATTTATTTTA
1 TTTATTTATTTTA
49018342 TT
1 TT
49018344 AAATTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:49019953 original size:43 final size:42
Alignment explanation
Indices: 49019855--49019972 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 42
49019845 GACTTATGAT
* * * *
49019855 TTACGTGTAAGACCATGTATGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGA
* *
49019897 -T-CTTGTCTGAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATG--TAAGACCCTGTCTGGGACAGTGGCATCG-TATTTGA
49019940 TTACATGTAAGACCAC-GTCTGGGAC-GTTGGCAT
1 TTACATGTAAGACC-CTGTCTGGGACAG-TGGCAT
49019973 TGTACGAGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
40 3 0.05
41 1 0.02
42 25 0.40
43 28 0.45
44 2 0.03
45 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGA
Done.