Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 171 of 427
Found at i:47645752 original size:29 final size:27
Alignment explanation
Indices: 47645718--47645820 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
47645708 TACTCAATCA
*
47645718 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
47645747 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
47645776 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
47645805 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
47645821 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:47648978 original size:27 final size:27
Alignment explanation
Indices: 47648897--47648986 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 27
47648887 TTTAGTTTAC
*
47648897 TAAAATTACCGAAATACCCTT-AGTTTG
1 TAAAATTACTGAAATACCCTTGA-TTTG
*
47648924 TAAAAATACTGAAATACCCTTGATTTG
1 TAAAATTACTGAAATACCCTTGATTTG
*
47648951 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTT-GATTTG
47648978 TAAAATTAC
1 TAAAATTAC
47648987 CAAAGTACCC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.07
27 52 0.91
28 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTTGATTTG
Found at i:47649037 original size:27 final size:27
Alignment explanation
Indices: 47648992--47649199 Score: 262
Period size: 27 Copynumber: 7.8 Consensus size: 27
47648982 ATTACCAAAG
47648992 TACCC-CGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
47649018 TACCC-CTGATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCATTT
* * * *
47649045 TACCC-CTATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
47649071 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
47649098 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
47649125 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
47649152 TACCCTTGATTTACA-AATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
47649178 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
47649200 TAAAATACCC
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
26 54 0.33
27 110 0.67
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:47649038 original size:53 final size:54
Alignment explanation
Indices: 47648992--47649199 Score: 262
Period size: 53 Copynumber: 3.9 Consensus size: 54
47648982 ATTACCAAAG
* *
47648992 TACCC-CGATTTACAGAATTACCATTTTACCC-CTGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTC-GATTTACAGAATTACCATTT
* * * * * *
47649045 TACCC-CTATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* *
47649098 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * *
47649152 TACCCTTGATTTACA-AATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTAC
47649200 TAAAATACCC
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 80 0.59
54 55 0.41
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:47649085 original size:80 final size:81
Alignment explanation
Indices: 47648992--47649199 Score: 264
Period size: 80 Copynumber: 2.6 Consensus size: 81
47648982 ATTACCAAAG
* * *
47648992 TACCC-CGATTTACAGAATTACCATTTTACCC-CTGATTTACATAATTACCGTTTTACCC-CTAT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTC-GATTTACAAAATTACCATTTTACCCTCGAT
* *
47649054 TTACATAATTA-TCGTTT
65 TTACAGAATTACT-ATTT
* * *
47649071 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
47649136 TATAGAATTACTATTT
66 TACAGAATTACTATTT
* *
47649152 TACCCTTGATTTACA-AATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC
47649200 TAAAATACCC
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 5 0.04
80 77 0.69
81 29 0.26
82 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAGAATTACTATTT
Found at i:47649208 original size:27 final size:27
Alignment explanation
Indices: 47649098--47649401 Score: 136
Period size: 27 Copynumber: 11.2 Consensus size: 27
47649088 ATTACCGTTT
* * ***
47649098 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
47649125 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* ***
47649152 TACCCTTGATTTAC-AAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
47649178 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
47649205 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
47649232 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** * *
47649259 TACCCTTGGTTTGTGAAATTATTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
47649286 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
47649313 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
47649340 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
47649369 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
47649396 TACCCT
1 TACCCT
47649402 TAGTTGTAGA
Statistics
Matches: 227, Mismatches: 37, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
26 27 0.12
27 174 0.77
28 7 0.03
29 19 0.08
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:47649225 original size:80 final size:81
Alignment explanation
Indices: 47648992--47649226 Score: 196
Period size: 80 Copynumber: 2.9 Consensus size: 81
47648982 ATTACCAAAG
* * ****
47648992 TACCC-CGATTTACAGAATTACCATTTTACCC-CTGATTTACATAATTACCGTTTTACCCCT--A
1 TACCCTCGACTTACAGAATTACCATTTTACCCTC-GATTTACAAAATTACCAAAATA-CCCTAGA
* * *
47649053 TTTACATAATTA-TCGTTT
64 TTTATAAAATTACT-ATTT
* * *** *
47649071 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTAGATT
*
47649136 TATAGAATTACTATTT
66 TATAAAATTACTATTT
* * * *
47649152 TACCCTTGATTTACA-AATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAG-T
1 TACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCC-TAGAT
*
47649215 TTGTAAAATTAC
65 TTATAAAATTAC
47649227 CAAAATACCC
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
79 9 0.07
80 91 0.69
81 30 0.23
82 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTAGATT
TATAAAATTACTATTT
Found at i:47649250 original size:54 final size:54
Alignment explanation
Indices: 47649178--47649317 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
47649168 ATTACTATTT
* ** *
47649178 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * ***
47649232 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTATTGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
47649286 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
47649318 CTGATTTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:47649279 original size:81 final size:80
Alignment explanation
Indices: 47649193--47649452 Score: 224
Period size: 81 Copynumber: 3.2 Consensus size: 80
47649183 TCGATTTACA
47649193 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAG-TTGTAAAATTACCAAA
47649258 ATACCCTTGGTTTGTG
65 ATACCCTTGGTTTGTG
* * * *
47649274 AAATTATTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAG-TTGTA-AAA-TTACCA
* * *
47649336 GAAATACCCTTGACTTTCTAA
63 -AAATACCCTTG-GTTTGT-G
* * ** ** * * *
47649357 AAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTGTAGATTTACCAAA
1 AAATTACTA-AAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTGTAAAATTACCAAA
* **
47649421 ACACCCTT-GTAGGATG
65 ATACCCTTGGTTTG-TG
*
47649437 AAATGACTAAAATACC
1 AAATTACTAAAATACC
47649453 TCTATTAAGT
Statistics
Matches: 141, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
79 2 0.01
80 21 0.15
81 59 0.42
82 17 0.12
83 39 0.28
84 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (80 bp):
AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTGTAAAATTACCAAAA
TACCCTTGGTTTGTG
Found at i:47649524 original size:27 final size:27
Alignment explanation
Indices: 47649461--47649524 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
47649451 CCTCTATTAA
* *
47649461 GTAAAAAGATCGTAAAGCCCCTGTAGG
1 GTAAAATGACCGTAAAGCCCCTGTAGG
* *
47649488 GTAAAGTGACCGTAATA-CCCCTGTATG
1 GTAAAATGACCGTAA-AGCCCCTGTAGG
47649515 GTAAAATGAC
1 GTAAAATGAC
47649525 GAATATGCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
GTAAAATGACCGTAAAGCCCCTGTAGG
Found at i:47650708 original size:25 final size:25
Alignment explanation
Indices: 47650679--47650726 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47650669 TTATAATATG
* * *
47650679 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
47650704 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
47650727 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:47650777 original size:9 final size:9
Alignment explanation
Indices: 47650765--47650841 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
47650755 TTTGATAAAC
47650765 ATGATATGT
1 ATGATATGT
*
47650774 ATGATATGCAC
1 ATGATATG--T
47650785 ATGATATGT
1 ATGATATGT
*
47650794 ATGATATGGAC
1 ATGATAT-G-T
*
47650805 ATGACATGT
1 ATGATATGT
*
47650814 ATGATATGCAC
1 ATGATATG--T
47650825 ATGATATGT
1 ATGATATGT
47650834 ATGATATG
1 ATGATATG
47650842 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 30 0.56
10 2 0.04
11 22 0.41
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:47650853 original size:20 final size:20
Alignment explanation
Indices: 47650763--47650845 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
47650753 ATTTTGATAA
47650763 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47650783 ACATGATATGTATGATATGG
1 ACATGATATGTATGATATGC
*
47650803 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
47650823 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47650843 ACA
1 ACA
47650846 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47651004 original size:23 final size:24
Alignment explanation
Indices: 47650900--47651088 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
47650890 AGGAAGTGCA
47650900 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47650924 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47650948 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
47650972 AAAAGAGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47650996 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47651019 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
47651042 AAAAGGGCTT-TGCCCTAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
47651065 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47651089 ATGATAAAGC
Statistics
Matches: 152, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
23 61 0.40
24 85 0.56
25 6 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:47651317 original size:31 final size:31
Alignment explanation
Indices: 47651282--47651345 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
47651272 CGTTTACAGT
*
47651282 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
47651313 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47651344 AA
1 AA
47651346 TATGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:47651344 original size:7 final size:7
Alignment explanation
Indices: 47651332--47651359 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47651322 GGCCCAGTGT
47651332 TATGAAA
1 TATGAAA
47651339 TATGAAA
1 TATGAAA
47651346 TATGAAA
1 TATGAAA
47651353 TATGAAA
1 TATGAAA
47651360 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:47657727 original size:40 final size:40
Alignment explanation
Indices: 47657530--47657717 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
47657520 TTGATATATT
* * *
47657530 GTATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAAT
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
* * *
47657570 GTATATCCAGGTTAAATCCTGCAGACTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
47657610 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
* *
47657650 GTATATCCGGGTTAAATTCTGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
47657690 GTATATCCGGGTTAAATCCCGCAGGCTT
1 GTATATCCGGGTTAAATCCCGCAGGCTT
47657718 AGTACTGGTA
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (40 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:47657750 original size:120 final size:119
Alignment explanation
Indices: 47657530--47657757 Score: 289
Period size: 120 Copynumber: 1.9 Consensus size: 119
47657520 TTGATATATT
* * *
47657530 GTATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAATGTATATCCAGGTTAAATCCTGCAGA
1 GTATATCCGGGTTAAATCCCGCAGGCATCATGCTGGTAAAGTATATCCAGGTTAAATCCCGCAGA
* * *
47657595 CTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
66 CTTCATACTGGT-AACTATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAA
* * * * *
47657650 GTATATCCGGGTTAAATTCTGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGG
1 GTATATCCGGGTTAAATCCCGCAGGCATCATGCTGGTAAAGTATATCCAGGTTAAATCCCGCAGA
* *
47657715 CTT-AGTACTGGT-ACTATATTCGGGCCTAAAGTCCCGTAGGCTT
66 CTTCA-TACTGGTAACTATATCCGGG-CTAAA-TCCCGCAGGCTT
47657758 TGTGCTAGTA
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 10 0.11
119 5 0.05
120 77 0.84
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (119 bp):
GTATATCCGGGTTAAATCCCGCAGGCATCATGCTGGTAAAGTATATCCAGGTTAAATCCCGCAGA
CTTCATACTGGTAACTATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:47659583 original size:16 final size:16
Alignment explanation
Indices: 47659558--47659591 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47659548 AATTTGGATG
*
47659558 TTATTGTTATTATTAT
1 TTATTATTATTATTAT
47659574 TTATTATTATTATTAT
1 TTATTATTATTATTAT
47659590 TT
1 TT
47659592 CGTAGGTTTA
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:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:47660621 original size:18 final size:17
Alignment explanation
Indices: 47660600--47660654 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
47660590 AAAATTCTTT
47660600 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
47660618 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
47660635 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
47660652 TCT
1 TCT
47660655 ATGGCCGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 19 0.59
19 3 0.09
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:47661819 original size:28 final size:28
Alignment explanation
Indices: 47661776--47661891 Score: 128
Period size: 28 Copynumber: 4.2 Consensus size: 28
47661766 GGAGGAAGCA
47661776 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTAT
* *
47661804 TTCTGGTGGCTTTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTAT
* * * * *
47661832 TTCTAGTGGCCCTACCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTAT
* * *
47661860 ATCTGGTGACTCTGTCAC-AATATCTA-
1 TTCTGGTGGCTCTGCCACAAATATCTAT
47661886 TTCTGG
1 TTCTGG
47661892 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 5 0.07
27 6 0.08
28 61 0.85
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTAT
Found at i:47663047 original size:10 final size:10
Alignment explanation
Indices: 47663032--47663058 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
47663022 TAAGTATTAC
47663032 TCTGAATATT
1 TCTGAATATT
47663042 TCTGAATATT
1 TCTGAATATT
47663052 TCTGAAT
1 TCTGAAT
47663059 TATCAGCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (10 bp):
TCTGAATATT
Found at i:47665277 original size:49 final size:48
Alignment explanation
Indices: 47665095--47665289 Score: 192
Period size: 50 Copynumber: 3.9 Consensus size: 48
47665085 TCTATTGTGA
* * * **
47665095 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATGTT
* * * ** *
47665144 GTGATCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 G-G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-GT-T
* *
47665196 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TGTT
* * *
47665245 GGTCGCATGTGTAGTACTAAGTGCAGGTTACTATGCGTACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT
47665290 AGCTTCAGCT
Statistics
Matches: 121, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 40 0.33
50 43 0.36
51 36 0.30
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGTT
Found at i:47666962 original size:3 final size:3
Alignment explanation
Indices: 47666948--47666980 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
47666938 ATAATTTAGA
*
47666948 TAT TAT TGT TAT TAT TAT T-T TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47666981 TCGTAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:47666972 original size:11 final size:12
Alignment explanation
Indices: 47666948--47666977 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
47666938 ATAATTTAGA
47666948 TATTATTGTTAT
1 TATTATTGTTAT
47666960 TATTATT-TTAT
1 TATTATTGTTAT
47666971 TATTATT
1 TATTATT
47666978 ATTTCGTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
TATTATTGTTAT
Found at i:47668026 original size:25 final size:25
Alignment explanation
Indices: 47667998--47668046 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
47667988 TTTTCTCTTC
47667998 TTCT-TTTCTCCTCTCTTCATCTATT
1 TTCTCTTT-TCCTCTCTTCATCTATT
* *
47668023 TTCTCTTTTCTTCTCTTCCTCTAT
1 TTCTCTTTTCCTCTCTTCATCTAT
47668047 GACCGAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (25 bp):
TTCTCTTTTCCTCTCTTCATCTATT
Found at i:47668734 original size:8 final size:8
Alignment explanation
Indices: 47668721--47668750 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47668711 CTAGATCGGC
47668721 AAAAGCTG
1 AAAAGCTG
47668729 AAAAGCTG
1 AAAAGCTG
*
47668737 AAATGCTG
1 AAAAGCTG
47668745 AAAAGC
1 AAAAGC
47668751 CGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (8 bp):
AAAAGCTG
Found at i:47669204 original size:28 final size:28
Alignment explanation
Indices: 47669164--47669307 Score: 157
Period size: 28 Copynumber: 5.2 Consensus size: 28
47669154 GGAGGAAGCG
*
47669164 TTCTGGTGGCTCTGCCACAAATATTTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
47669192 TTCTTGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
47669220 TTCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * * * *
47669248 TTCTGGCGGCCCTGCTACAATTATTTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * * *
47669276 ATCTGGTGACTCTGTCGC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
47669302 TTCTGG
1 TTCTGG
47669308 CAGCCATGCT
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 5 0.05
27 6 0.06
28 85 0.89
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:47673048 original size:10 final size:10
Alignment explanation
Indices: 47673033--47673062 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
47673023 CATTTAGTTT
47673033 ACTTACCAAA
1 ACTTACCAAA
47673043 ACTTACCAAA
1 ACTTACCAAA
*
47673053 ACTTATCAAA
1 ACTTACCAAA
47673063 GGGTATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (10 bp):
ACTTACCAAA
Found at i:47676813 original size:43 final size:43
Alignment explanation
Indices: 47676729--47676886 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
47676719 TCTGAGATAT
* * * * *
47676729 CGTGTAAGACCGTGTCTGGGACATAGGCCTCGAT-TGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATCGACATCGATAT-TGATTTA
*
47676772 CGTATAAGACCATGTCTGGGACATCGACATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACATCGACATCGATAT-TGATTTA
* * * ** * *
47676814 TGTGTAAGACCTTGTTTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCATGTCTGGGACATCGACATCGATATTGATTTA
* * **
47676857 CTTGTAAGACCACGTCTGGGATGTCGACAT
1 CGTGTAAGACCATGTCTGGGACATCGACAT
47676887 TGTACTTATT
Statistics
Matches: 87, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
42 31 0.36
43 56 0.64
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGACATCGATATTGATTTA
Found at i:47676822 original size:85 final size:84
Alignment explanation
Indices: 47676730--47676886 Score: 199
Period size: 85 Copynumber: 1.8 Consensus size: 84
47676720 CTGAGATATC
* * *
47676730 GTGTAAGACCGTGTCTGGGACATAGGCCTCG-ATTGAGATTTACGTATAAGACCATGTCTGGGAC
1 GTGTAAGACCGTGTCTGGGACAGAGGCATCGAATTGA-A-TTACGTATAAGACCACGTCTGGGAC
47676794 ATCGACATCGTATCTGATTTT
64 ATCGACATCGTATCTGATTTT
* * * * **
47676815 GTGTAAGACCTTGTTTGGGACAGAGGCATCGATATTGAATTACTTGTAAGACCACGTCTGGGATG
1 GTGTAAGACCGTGTCTGGGACAGAGGCATCGA-ATTGAATTACGTATAAGACCACGTCTGGGACA
47676880 TCGACAT
65 TCGACAT
47676887 TGTACTTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 55 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCGTGTCTGGGACAGAGGCATCGAATTGAATTACGTATAAGACCACGTCTGGGACAT
CGACATCGTATCTGATTTT
Found at i:47679494 original size:40 final size:40
Alignment explanation
Indices: 47679439--47679667 Score: 329
Period size: 40 Copynumber: 5.7 Consensus size: 40
47679429 ATGATAACAA
*
47679439 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCG
* * *
47679479 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACAAATTCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCG
* *
47679519 GGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCG
*
47679559 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCG
*
47679599 GGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TCCG
*
47679639 GGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT
47679668 AGCTATATCC
Statistics
Matches: 176, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 4 0.02
40 170 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCG
Found at i:47679674 original size:40 final size:40
Alignment explanation
Indices: 47679439--47679693 Score: 326
Period size: 40 Copynumber: 6.4 Consensus size: 40
47679429 ATGATAACAA
*
47679439 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATTCCG
* * *
47679479 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATTCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATTCCG
*
47679519 GGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATTCCG
47679559 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATTCCG
*
47679599 GGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATA-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATATTCCG
*
47679639 GGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATA-TCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATTCCG
* *
47679678 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
47679694 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 10, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
39 18 0.09
40 177 0.89
41 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATTCCG
Found at i:47684243 original size:16 final size:16
Alignment explanation
Indices: 47684222--47684260 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
47684212 GGAGATCGGC
47684222 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
47684238 AAAAGCTGAAATGTCG
1 AAAAGCCGAAATGCCG
47684254 AAAAGCC
1 AAAAGCC
47684261 AAAAGTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:47684556 original size:29 final size:29
Alignment explanation
Indices: 47684475--47684626 Score: 125
Period size: 29 Copynumber: 5.3 Consensus size: 29
47684465 GTGAGCATGA
* **
47684475 ATAT-AATGT-AATTTGGGCCGGATGGGTG
1 ATATGAATGTGAA-TTGGGCCTGATGGGCC
* * *
47684503 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
47684531 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* **
47684560 ATATGAACGTGAATTGGGCCTGATTTGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * * *
47684589 GTATAAACGAG-ATTGGGCCT-AGTGGGCC
1 ATATGAATGTGAATTGGGCCTGA-TGGGCC
*
47684617 ATATGCATGT
1 ATATGAATGT
47684627 ATGTAGGGGT
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
27 1 0.01
28 43 0.43
29 55 0.56
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:47690809 original size:38 final size:38
Alignment explanation
Indices: 47690758--47691030 Score: 375
Period size: 38 Copynumber: 7.1 Consensus size: 38
47690748 ATATTCGATG
* *
47690758 TATATCTGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
47690796 TATATCCGGGTTAAATCCCGCAGGCTTCGTGTTAGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
47690834 TATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
47690872 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTGT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * * *
47690910 TATATCCGGGCTTAAAGACTCGCAAGCTTCATGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
47690950 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
47690988 TATATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
47691026 TATAT
1 TATAT
47691031 TCGAGCCTTC
Statistics
Matches: 205, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
38 169 0.82
39 10 0.05
40 26 0.13
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:47690991 original size:116 final size:114
Alignment explanation
Indices: 47690758--47691030 Score: 393
Period size: 116 Copynumber: 2.4 Consensus size: 114
47690748 ATATTCGATG
* * * *
47690758 TATATCTGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAACCCGCAAGCTT
* * *
47690823 CGTGTTAGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
66 CATGCTAGTAAAATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
47690872 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTGTTATATCCGGGCTTAAAGACTCGCAAGC
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG-TTAAA-ACCCGCAAGC
* *
47690937 TTCATGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
64 TTCATGCTAGTAAAATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
47690988 TATATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATAT
47691031 TCGAGCCTTC
Statistics
Matches: 141, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
114 45 0.32
115 5 0.04
116 91 0.65
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (114 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAACCCGCAAGCTT
CATGCTAGTAAAATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:47691152 original size:43 final size:43
Alignment explanation
Indices: 47691028--47691139 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
47691018 GCTGGTATTA
*
47691028 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
*
47691071 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
*
47691114 TATTTGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
47691140 GTAATGCCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
Found at i:47694261 original size:15 final size:15
Alignment explanation
Indices: 47694241--47694283 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
47694231 GCTGTAAATG
47694241 GGATTTTCTTATCAT
1 GGATTTTCTTATCAT
* *
47694256 GGATTTTATTTATCTT
1 GGATTTT-CTTATCAT
*
47694272 GGATTTCCTTAT
1 GGATTTTCTTAT
47694284 TTTGGGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (15 bp):
GGATTTTCTTATCAT
Found at i:47696574 original size:134 final size:134
Alignment explanation
Indices: 47696340--47696739 Score: 549
Period size: 134 Copynumber: 3.0 Consensus size: 134
47696330 AACATTACTG
* * **
47696340 AAATACCCCTGCAGGGTAGAATTATCGAAATACCCCTGTAATGTAGAATTA-TCGAAATACCCCT
1 AAATACCCCTGTAAGGTAGAATTATCGAAATA-CCCTGTAGGGTAGAATTACT-GAAATA-CCCT
47696404 GTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
63 GTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
47696469 TTAC-CA
128 TTACTCA
* *
47696475 AAATACCCCTGTAAGGTAGAATTATCGAAATACCCTATAGGGTAGAATTACTGAAATACCCTTAT
1 AAATACCCCTGTAAGGTAGAATTATCGAAATACCCTGTAGGGTAGAATTACTGAAATACCC-TGT
* *
47696540 AAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCATGTAGGATAGAA-T
65 AAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATT
*
47696604 -CTCG
130 ACTCA
* * *
47696608 AAATACCCCTGTAATGTAGAATTACCGACATACCCTTGTAGGGTAGAATTACTGAAATATCCCTG
1 AAATACCCCTGTAAGGTAGAATTATCGAAATACCC-TGTAGGGTAGAATTACTGAAATA-CCCTG
* * * * *
47696673 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCC-GATAGGGTAGAA
64 TAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG-TAGGGTAGAA
47696737 TTA
128 TTA
47696740 TCGAGATACC
Statistics
Matches: 236, Mismatches: 21, Indels: 15
0.87 0.08 0.06
Matches are distributed among these distances:
132 1 0.00
133 38 0.16
134 162 0.69
135 35 0.15
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (134 bp):
AAATACCCCTGTAAGGTAGAATTATCGAAATACCCTGTAGGGTAGAATTACTGAAATACCCTGTA
AGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA
CTCA
Found at i:47696748 original size:27 final size:27
Alignment explanation
Indices: 47696333--47696768 Score: 531
Period size: 27 Copynumber: 16.2 Consensus size: 27
47696323 ATAGGCTAAC
* *
47696333 ATTACTGAAATACCCCTGCAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* **
47696360 ATTATCGAAATACCCCTGTAATGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
47696387 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
47696414 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
47696441 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
47696468 ATTACCAAAATACCCCTGTAAGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
47696495 ATTATCGAAATA-CCCTATAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * * *
47696521 ATTACTGAAATACCCTTATAAGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
47696548 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
47696575 ATTACCGAAATACCCATGTAGGATAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
**
47696602 A-T-CTCGAAATACCCCTGTAATGTAGA
1 ATTAC-CGAAATACCCCTGTAGGGTAGA
* *
47696628 ATTACCGACATACCCTTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
47696655 ATTACTGAAATATCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
47696682 ATTACCAAAATACCCTTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
47696709 AATACTGAAATACCCC-GATAGGGTAGA
1 ATTACCGAAATACCCCTG-TAGGGTAGA
* * * *
47696736 ATTATCGAGATA-CCCTCGTTGGGTAAA
1 ATTACCGAAATACCCCT-GTAGGGTAGA
47696763 ATTACC
1 ATTACC
47696769 ATTTTGGCCC
Statistics
Matches: 351, Mismatches: 51, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
25 1 0.00
26 46 0.13
27 302 0.86
28 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGA
Found at i:47697130 original size:22 final size:22
Alignment explanation
Indices: 47697105--47697153 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
47697095 GATGGCTCTA
47697105 TGCCAACCTAAATATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
** * *
47697127 TGCC-ATTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
47697148 TGCCAA
1 TGCCAA
47697154 ACATATTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:47697341 original size:27 final size:26
Alignment explanation
Indices: 47697311--47697419 Score: 146
Period size: 27 Copynumber: 4.1 Consensus size: 26
47697301 ATTCTGTTAA
* *
47697311 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
47697338 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
47697365 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
47697392 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
47697418 GT
1 GT
47697420 TGCCATGCTG
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.20
27 53 0.71
28 7 0.09
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:47699494 original size:27 final size:27
Alignment explanation
Indices: 47699476--47699839 Score: 493
Period size: 27 Copynumber: 13.5 Consensus size: 27
47699466 GTAGGCTAGC
*
47699476 ATTACTGAAATACCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
47699503 ATTA-TCGAAATACCCCTGTAAGGTAGA
1 ATTACT-GAAATACCCCTGTAAGGTAGA
* *
47699530 ATCACCGAAATACCCCTGTAAGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
47699557 ATTA-TCGAAATACCCCTGTAAGGTAGA
1 ATTACT-GAAATACCCCTGTAAGGTAGA
* *
47699584 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
*
47699611 ATTACTAAAATACCCCTGTAAGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
* *
47699638 ATTA-TCGAAATACCCCTATAGGGTAGA
1 ATTACT-GAAATACCCCTGTAAGGTAGA
* *
47699665 ATTACTGAAATACCCTTATAAGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
* *
47699692 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
* * *
47699719 ATTACCGAAATACCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
*
47699746 ATTACTAAAATACCCCTGTAAGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
*
47699773 ATTA-TCGAAATACCCCTGTAGGGTAGA
1 ATTACT-GAAATACCCCTGTAAGGTAGA
* *
47699800 ATTACCGAAATACCTCTGTAAGGTAGA
1 ATTACTGAAATACCCCTGTAAGGTAGA
47699827 ATTACTGAAATAC
1 ATTACTGAAATAC
47699840 ACACTGTTTC
Statistics
Matches: 299, Mismatches: 30, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
26 3 0.01
27 295 0.99
28 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAAGGTAGA
Found at i:47706163 original size:40 final size:40
Alignment explanation
Indices: 47706118--47706285 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
47706108 CGGAATATAA
47706118 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
47706158 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47706198 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
47706238 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
47706278 CCGGATAT
1 CCGGATAT
47706286 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47706268 original size:80 final size:80
Alignment explanation
Indices: 47706134--47706283 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
47706124 ATAACCACGT
* *
47706134 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
47706199 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
47706214 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
47706277 CCCGGAT
64 CCCGGAT
47706284 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:47714146 original size:40 final size:40
Alignment explanation
Indices: 47714101--47714268 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
47714091 CGGAATATAA
47714101 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
47714141 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47714181 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
47714221 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
47714261 CCGGATAT
1 CCGGATAT
47714269 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47714251 original size:80 final size:80
Alignment explanation
Indices: 47714117--47714266 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
47714107 ATAACCACGT
* *
47714117 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
47714182 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
47714197 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
47714260 CCCGGAT
64 CCCGGAT
47714267 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:47721324 original size:66 final size:68
Alignment explanation
Indices: 47721248--47721434 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
47721238 TAGTACCACT
*
47721248 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
47721310 CACG
65 CACG
47721314 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
47721379 ATCACG
63 ATCACG
47721385 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
47721435 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:47721359 original size:71 final size:71
Alignment explanation
Indices: 47721271--47721434 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47721261 CGATTTGTCT
47721271 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47721336 CTTTCA
66 CTTTCA
47721342 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47721407 CTTTCA
66 CTTTCA
47721413 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47721435 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:47721472 original size:71 final size:70
Alignment explanation
Indices: 47721271--47721468 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
47721261 CGATTTGTCT
* * *
47721271 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
47721336 CTTTCA
65 CTTTCA
* * *
47721342 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
47721407 CTTTCA
65 CTTTCA
* *
47721413 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
47721469 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:47723809 original size:16 final size:16
Alignment explanation
Indices: 47723788--47723818 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47723778 GTGTGAGCAA
47723788 GGATTAGCACCCTCGC
1 GGATTAGCACCCTCGC
*
47723804 GGATTAGCATCCTCG
1 GGATTAGCACCCTCG
47723819 TAGTGCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.23
Consensus pattern (16 bp):
GGATTAGCACCCTCGC
Found at i:47724945 original size:30 final size:31
Alignment explanation
Indices: 47724890--47724960 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
47724880 TAATATACAC
*
47724890 AAAAAAATAATTAATATAAATAACATA-TATA
1 AAAAAAATAATTAATATAAACAACATACTA-A
*
47724921 AAAATAATAATGT-ATA-AAACAACATACTAA
1 AAAAAAATAAT-TAATATAAACAACATACTAA
*
47724951 AAAAACATAA
1 AAAAAAATAA
47724961 AAAAAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
30 18 0.53
31 15 0.44
32 1 0.03
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.24
Consensus pattern (31 bp):
AAAAAAATAATTAATATAAACAACATACTAA
Found at i:47724955 original size:31 final size:28
Alignment explanation
Indices: 47724890--47724955 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 28
47724880 TAATATACAC
*
47724890 AAAAAAATAATTAATATAAATAACATAT
1 AAAAAAATAATTAATATAAACAACATAT
*
47724918 ATAAAAATAA-TAATGTATAAAACAACATACT
1 AAAAAAATAATTAA--TAT-AAACAACATA-T
47724949 AAAAAAA
1 AAAAAAA
47724956 CATAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 9 0.29
29 3 0.10
30 9 0.29
31 7 0.23
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (28 bp):
AAAAAAATAATTAATATAAACAACATAT
Found at i:47727665 original size:27 final size:28
Alignment explanation
Indices: 47727639--47727692 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
47727629 TCATCTTTTC
*
47727639 CAAAAC-CAAATTTT-AGAAAAACATTT
1 CAAAACTCAAATTTTGAGAAAAAAATTT
*
47727665 CAAAACTCTAATTTTGAGAAAAAAATTT
1 CAAAACTCAAATTTTGAGAAAAAAATTT
47727693 AGATACCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 7 0.29
28 11 0.46
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.30
Consensus pattern (28 bp):
CAAAACTCAAATTTTGAGAAAAAAATTT
Found at i:47747382 original size:27 final size:26
Alignment explanation
Indices: 47747280--47747383 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
47747270 AATACTTTAG
*
47747280 TTTACCAAATTACAGAAATACCCTCGA
1 TTTACAAAATTAC-GAAATACCCTCGA
* ** * *
47747307 CTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACGAAA-TACCCTCGA
* *** *
47747334 TTTACAGAATTACCGTTTTACCCTCAA
1 TTTACAAAATTA-CGAAATACCCTCGA
47747361 TTTACAAAATTACTGAAATACCC
1 TTTACAAAATTAC-GAAATACCC
47747384 CTGTAGGGTA
Statistics
Matches: 54, Mismatches: 20, Indels: 6
0.68 0.25 0.08
Matches are distributed among these distances:
26 4 0.07
27 49 0.91
28 1 0.02
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (26 bp):
TTTACAAAATTACGAAATACCCTCGA
Found at i:47747398 original size:27 final size:27
Alignment explanation
Indices: 47747368--47747482 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
47747358 CAATTTACAA
* *
47747368 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
47747395 AATTATCGAAATACCGTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
47747422 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
47747449 AATTACCGAGATACCCTTTTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
47747476 AATTACC
1 AATTACC
47747483 ATTTTGCCCT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:47747750 original size:27 final size:26
Alignment explanation
Indices: 47747681--47747787 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
47747671 GGAAGCGTTT
* * *
47747681 TGGTGGCTATGCCACAAATATCTATTTC
1 TGGTGACTATACCAC-AATATCT-GTTC
* *
47747709 TGGTGACTATGCCACAAATATCTGTTA
1 TGGTGACTATACCAC-AATATCTGTTC
* *
47747736 TGGTGGCTCTACCACAATATCTGTATC
1 TGGTGACTATACCACAATATCTGT-TC
* *
47747763 TGGTGACTCTATCACAATATCTGTT
1 TGGTGACTATACCACAATATCTGTT
47747788 TTGACAGCCA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.14
27 37 0.54
28 22 0.32
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (26 bp):
TGGTGACTATACCACAATATCTGTTC
Found at i:47747767 original size:54 final size:54
Alignment explanation
Indices: 47747681--47747787 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
47747671 GGAAGCGTTT
* * *
47747681 TGGTGGCTATGCCACAAATATCTATTTCTGGTGACTATGCCACAAATATCTGTTA
1 TGGTGGCTATACCACAAATATCTATATCTGGTGACTATACCAC-AATATCTGTTA
* * * *
47747736 TGGTGGCTCTACCAC-AATATCTGTATCTGGTGACTCTATCACAATATCTGTT
1 TGGTGGCTATACCACAAATATCTATATCTGGTGACTATACCACAATATCTGTT
47747788 TTGACAGCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 10 0.22
54 22 0.49
55 13 0.29
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATACCACAAATATCTATATCTGGTGACTATACCACAATATCTGTTA
Found at i:47750569 original size:54 final size:54
Alignment explanation
Indices: 47750469--47750575 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
47750459 AGCGTCTTGG
* *
47750469 TGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTCTGC
1 TGGCTATGCCACAATTACCTGATCTAGTGACTCTGCCACATATATCTGTTCTGC
* * *
47750523 TGGCTCTGCCACGATTACCTGTATCTAGTGACTCTGTCACAT-TATCTGTTCTG
1 TGGCTATGCCACAATTACCTG-ATCTAGTGACTCTGCCACATATATCTGTTCTG
47750576 GTAGCCATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (54 bp):
TGGCTATGCCACAATTACCTGATCTAGTGACTCTGCCACATATATCTGTTCTGC
Found at i:47750571 original size:27 final size:27
Alignment explanation
Indices: 47750468--47750571 Score: 115
Period size: 27 Copynumber: 3.8 Consensus size: 27
47750458 AAGCGTCTTG
*
47750468 GTGGCTATGCCACAATTATCTG-ATCTA
1 GTGGCTCTGCCAC-ATTATCTGTATCTA
47750495 GTGGCTCTGCCACATATATCTGT-TCT-
1 GTGGCTCTGCCACAT-TATCTGTATCTA
*
47750521 GCTGGCTCTGCCACGATTACCTGTATCTA
1 G-TGGCTCTGCCAC-ATTATCTGTATCTA
* *
47750550 GTGACTCTGTCACATTATCTGT
1 GTGGCTCTGCCACATTATCTGT
47750572 TCTGGTAGCC
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.05
27 47 0.71
28 15 0.23
29 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACATTATCTGTATCTA
Found at i:47753415 original size:27 final size:27
Alignment explanation
Indices: 47753382--47753436 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
47753372 TATTTACTGC
*
47753382 ATACCATGTTTTTATCTAATGCATGGG
1 ATACCATGTTGTTATCTAATGCATGGG
47753409 ATACCATGTTGTTATCTAATGCATGGG
1 ATACCATGTTGTTATCTAATGCATGGG
47753436 A
1 A
47753437 CTGGGATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (27 bp):
ATACCATGTTGTTATCTAATGCATGGG
Found at i:47753766 original size:33 final size:34
Alignment explanation
Indices: 47753693--47753768 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
47753683 GGCCATACTA
*
47753693 TTATCTGAATAAGGGGCTAAGGCCCAGTTTAATG
1 TTATCTGAATAAGGGGCTAAGGCCCAGTTCAATG
* ** *
47753727 TAATCTGAA-AA-GGGCTCTGGCCCAGTATCACTG
1 TTATCTGAATAAGGGGCTAAGGCCCAGT-TCAATG
47753760 TTATCTGAA
1 TTATCTGAA
47753769 CGAGTTTAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 13 0.37
33 14 0.40
34 8 0.23
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
TTATCTGAATAAGGGGCTAAGGCCCAGTTCAATG
Found at i:47761116 original size:27 final size:26
Alignment explanation
Indices: 47761074--47761185 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
47761064 AGGAAGCGTC
* *
47761074 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTACCAC-ATTATCTGAT
*
47761101 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGAT
* *
47761128 CTGGTAGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTG-AT
* * *
47761156 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTACCACATTATCTGAT
47761182 CTGG
1 CTGG
47761186 AAACCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.69
28 15 0.21
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGAT
Found at i:47761178 original size:54 final size:54
Alignment explanation
Indices: 47761074--47761185 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
47761064 AGGAAGCGTC
* *
47761074 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTAGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * *
47761128 CTGGTAGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTAGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
47761182 CTGG
1 CTGG
47761186 AAACCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTAGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:47761373 original size:22 final size:22
Alignment explanation
Indices: 47761346--47761391 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
47761336 CTATGGGCTT
47761346 TATTCTGAATTCTGTTCTGGGC
1 TATTCTGAATTCTGTTCTGGGC
47761368 TATTCTGAATTCTGTTCTGGGC
1 TATTCTGAATTCTGTTCTGGGC
47761390 TA
1 TA
47761392 AGGCCAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (22 bp):
TATTCTGAATTCTGTTCTGGGC
Found at i:47764562 original size:23 final size:21
Alignment explanation
Indices: 47764523--47764564 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
47764513 GTACTTAAGT
47764523 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
47764544 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
47764565 ATATTCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:47766450 original size:31 final size:31
Alignment explanation
Indices: 47766409--47766472 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
47766399 CCTTTTCATA
*
47766409 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
47766440 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
47766471 TT
1 TT
47766473 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:47766730 original size:24 final size:24
Alignment explanation
Indices: 47766666--47766783 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
47766656 GCTTTATCAT
*
47766666 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
47766691 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47766714 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47766738 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47766761 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47766784 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 40 0.46
24 40 0.46
25 7 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47766744 original size:47 final size:47
Alignment explanation
Indices: 47766666--47766783 Score: 177
Period size: 47 Copynumber: 2.5 Consensus size: 47
47766656 GCTTTATCAT
*
47766666 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAACAACTGGGGCATAAGCCC-TTTA
*
47766714 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCATAAGCCCTTTA
47766761 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47766784 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
47 48 0.73
48 18 0.27
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCATAAGCCCTTTA
Found at i:47766856 original size:9 final size:9
Alignment explanation
Indices: 47766842--47766918 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
47766832 ATCTCGTGTG
47766842 CATATCATA
1 CATATCATA
*
47766851 CATATCATGTG
1 CATATCA--TA
47766862 CATATCATA
1 CATATCATA
* *
47766871 CATGTCATGTG
1 CATATCA--TA
47766882 CATATCATA
1 CATATCATA
*
47766891 CATATCATGTG
1 CATATCA--TA
47766902 CATATCATA
1 CATATCATA
47766911 CATATCAT
1 CATATCAT
47766919 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:47766861 original size:20 final size:20
Alignment explanation
Indices: 47766838--47766920 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
47766828 GAACATCTCG
47766838 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
47766858 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
47766878 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
47766898 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
47766918 TGT
1 TGT
47766921 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:47766867 original size:11 final size:11
Alignment explanation
Indices: 47766838--47766909 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
47766828 GAACATCTCG
47766838 TGTGCATATCA
1 TGTGCATATCA
*
47766849 --TACATATCA
1 TGTGCATATCA
47766858 TGTGCATATCA
1 TGTGCATATCA
* *
47766869 --TACATGTCA
1 TGTGCATATCA
47766878 TGTGCATATCA
1 TGTGCATATCA
*
47766889 --TACATATCA
1 TGTGCATATCA
47766898 TGTGCATATCA
1 TGTGCATATCA
47766909 T
1 T
47766910 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:47767003 original size:25 final size:25
Alignment explanation
Indices: 47766957--47767004 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
47766947 ATATATAAAC
* * * *
47766957 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
47766982 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
47767005 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:47768181 original size:26 final size:27
Alignment explanation
Indices: 47768148--47768242 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
47768138 TCATACGGAA
*
47768148 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCACTTTAC
*
47768173 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
47768200 CTTACAGGGCT-TTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
47768226 CCTACAGGGGCT-TTACG
1 CATACA-GGGCTATTACG
47768243 ATCTTTTTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 8 0.13
26 25 0.41
27 28 0.46
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCACTTTAC
Found at i:47768255 original size:26 final size:27
Alignment explanation
Indices: 47768163--47768242 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
47768153 GGGCATATTC
*
47768163 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
47768190 GTCACTTTACCTTACA-GGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
47768216 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
47768243 ATCTTTTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
26 23 0.48
27 25 0.52
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:47768420 original size:27 final size:27
Alignment explanation
Indices: 47768390--47768522 Score: 132
Period size: 27 Copynumber: 4.9 Consensus size: 27
47768380 GTAACTTTGT
*
47768390 AAATCAGGGGTATTTTGGTAATTTTAA
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
47768417 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
*
47768444 AAA-CTAGTGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
47768471 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
*
47768498 AAAT-TGAGGGTATTTCT-GTAATTTT
1 AAATCAG-GGGTATTT-TGGTAATTTT
47768523 GTAAATCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.02
27 86 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:47768456 original size:54 final size:54
Alignment explanation
Indices: 47768397--47768536 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 54
47768387 TGTAAATCAG
47768397 GGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACT-A
1 GGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACTGA
* * * * *
47768450 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTAAAAATTGA-GGGTATTTCGGTAATTTCACAAACTGA
** *
47768505 GGGTATTTCT-GTAATTTTGTAAATCGAGGGTA
1 GGGTATTT-TGGTAATTTTAAAAATTGAGGGTA
47768537 AAATAGTAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
53 2 0.03
54 67 0.92
55 4 0.05
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACTGA
Found at i:47768528 original size:27 final size:27
Alignment explanation
Indices: 47768313--47768536 Score: 127
Period size: 27 Copynumber: 8.2 Consensus size: 27
47768303 CTACAAACCA
* * ***
47768313 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTCTGTAATTTTATAAATTG
* * * **
47768340 ATGGTATTTCTATAATTTTTAGAAAGTCA
1 AGGGTATTTCTGTAA-TTTTATAAA-TTG
* * *
47768369 AGGGTATTTCTGTAACTTTGTAAA-TC
1 AGGGTATTTCTGTAATTTTATAAATTG
*
47768395 AGGGGTATTT-TGGTAATTTTAAAAATTG
1 A-GGGTATTTCT-GTAATTTTATAAATTG
* * * *
47768423 AGGGTATTTCGGTAATTTCACAAACT-
1 AGGGTATTTCTGTAATTTTATAAATTG
* *
47768449 AGTGGTATTT-TGGTAATTTTACAAACT-
1 AG-GGTATTTCT-GTAATTTTATAAATTG
*
47768476 AGGGGTATTT-TGGTAATTTTACAAATTG
1 A-GGGTATTTCT-GTAATTTTATAAATTG
* *
47768504 AGGGTATTTCTGTAATTTTGTAAATCG
1 AGGGTATTTCTGTAATTTTATAAATTG
47768531 AGGGTA
1 AGGGTA
47768537 AAATAGTAAT
Statistics
Matches: 159, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
26 4 0.03
27 122 0.77
28 18 0.11
29 15 0.09
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCTGTAATTTTATAAATTG
Found at i:47768545 original size:27 final size:27
Alignment explanation
Indices: 47768515--47768789 Score: 219
Period size: 27 Copynumber: 9.8 Consensus size: 27
47768505 GGGTATTTCT
*
47768515 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
47768542 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
47768569 GTAATTCTATAAATCGACGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
47768596 ATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
47768623 GTAATTCTGTAAGTCGTGGGTAAAACGGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAA------T---A
* * *
47768659 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAATA
* *
47768688 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
47768715 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
47768742 GTACTTC-ATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
47768768 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
47768790 CTTTGGTAAT
Statistics
Matches: 202, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
26 23 0.11
27 156 0.77
32 1 0.00
38 22 0.11
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:47768563 original size:81 final size:81
Alignment explanation
Indices: 47768387--47768634 Score: 207
Period size: 81 Copynumber: 3.1 Consensus size: 81
47768377 TCTGTAACTT
* *** *
47768387 TGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-CTAG
1 TGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAG
***
47768451 TGGTATTTTGGTAATT-
66 -GGTAAAATGGTAATTC
* * *
47768467 T-TACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCG
1 TGTA-AATC-AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCAGTAATTTTGTAAATCG
*
47768531 AGGGTAAAATAGTAATTC
64 AGGGTAAAATGGTAATTC
* *** * * * * * ** *
47768549 TGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGACGGTAAAAT-AATAATTTTGTAAATCGA
1 TGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAGGGT-ATTTCAGTAATTTTGTAAATCGA
*
47768613 GGGTAAAACGGTAATTC
65 GGGTAAAATGGTAATTC
47768630 TGTAA
1 TGTAA
47768635 GTCGTGGGTA
Statistics
Matches: 135, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
79 2 0.01
80 4 0.03
81 118 0.87
82 9 0.07
83 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (81 bp):
TGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCAGTAATTTTGTAAATCGAG
GGTAAAATGGTAATTC
Found at i:47768655 original size:38 final size:38
Alignment explanation
Indices: 47768604--47768685 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
47768594 TAATAATTTT
* * * *
47768604 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGTGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGGGG
* *
47768642 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGGGG
47768680 GTAAAA
1 GTAAAA
47768686 TGGTAATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.24
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGGGG
Found at i:47768666 original size:65 final size:65
Alignment explanation
Indices: 47768587--47768713 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 65
47768577 ATAAATCGAC
* * **
47768587 GGTAAAATAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGTGGGTAAAACGGG
1 GGTAAAATAATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGG
** * *
47768652 GGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
1 GGTAAAATAATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
47768714 AGTAATTCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.28
Consensus pattern (65 bp):
GGTAAAATAATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGG
Found at i:47768674 original size:92 final size:92
Alignment explanation
Indices: 47768559--47768742 Score: 242
Period size: 92 Copynumber: 2.0 Consensus size: 92
47768549 TGTAAATCAA
* * * *
47768559 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAATAATAATTCTGTAAATCAAGGGTAAAACAG
* * **
47768624 TAATTCTGTAAGTCGTGGGTAAAACGG
66 TAATTCTATAAATCAAGGGTAAAACGG
* * ** **
47768651 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAATAATAATTCTGTAAATCAAGGGTAAAACAG
47768716 TAATTCTATAAATCAAGGGTAAAACGG
66 TAATTCTATAAATCAAGGGTAAAACGG
47768743 TACTTCATAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.27
Consensus pattern (92 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAATAATAATTCTGTAAATCAAGGGTAAAACAG
TAATTCTATAAATCAAGGGTAAAACGG
Found at i:47768735 original size:119 final size:118
Alignment explanation
Indices: 47768523--47768768 Score: 312
Period size: 119 Copynumber: 2.1 Consensus size: 118
47768513 CTGTAATTTT
* * * *
47768523 GTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGACG
1 GTAAAACGGGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * * * * * *
47768588 GTAAAATAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGTGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACGGTAATTC-ATAAATCGAGG
* ** * * *
47768642 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGG
1 GTAAAACGGGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* *
47768707 GTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCATAAATCGAGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACGGTAATTCATAAATCGAGG
47768760 GTAAAACGG
1 GTAAAACGG
47768769 TAATTATGTA
Statistics
Matches: 108, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
118 17 0.16
119 91 0.84
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.27
Consensus pattern (118 bp):
GTAAAACGGGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
GTAAAACAATAATTCTATAAATCAAGGGTAAAACGGTAATTCATAAATCGAGG
Found at i:47770437 original size:27 final size:27
Alignment explanation
Indices: 47770396--47770449 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
47770386 TGTCATGTGA
* *
47770396 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTAATATTACATG
**
47770423 AATTGAATGTTAAATTAATATTACATG
1 AATTGAATGGCAAATTAATATTACATG
47770450 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTAATATTACATG
Found at i:47775821 original size:29 final size:29
Alignment explanation
Indices: 47775670--47775800 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
47775660 GTGACGAGAT
47775670 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47775699 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47775728 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47775757 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47775786 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47775801 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47775847 original size:87 final size:87
Alignment explanation
Indices: 47775670--47775858 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
47775660 GTGACGAGAT
* *
47775670 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
47775735 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * *
47775757 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
47775821 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
47775844 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47775859 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 3 0.03
87 82 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:47782053 original size:29 final size:29
Alignment explanation
Indices: 47781902--47782032 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
47781892 GTGACGAGAT
47781902 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47781931 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47781960 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47781989 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47782018 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47782033 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47782079 original size:87 final size:87
Alignment explanation
Indices: 47781902--47782090 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
47781892 GTGACGAGAT
* *
47781902 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
47781967 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * *
47781989 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
47782053 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
47782076 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47782091 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 3 0.03
87 82 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:47784877 original size:40 final size:40
Alignment explanation
Indices: 47784750--47784879 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
47784740 ATGCTGGAAA
* *
47784750 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
47784790 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
47784830 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
47784870 TTATATCCGG
1 TTATATCCGG
47784880 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:47789844 original size:71 final size:71
Alignment explanation
Indices: 47789758--47789921 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47789748 CGATTTGTCT
47789758 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47789823 CTTTCA
66 CTTTCA
47789829 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47789894 CTTTCA
66 CTTTCA
47789900 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47789922 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:47789959 original size:71 final size:70
Alignment explanation
Indices: 47789758--47789955 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
47789748 CGATTTGTCT
* * * *
47789758 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47789823 CTTTCA
65 CTTTCA
* * * *
47789829 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47789894 CTTTCA
65 CTTTCA
* *
47789900 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
47789956 TACAGGTGTC
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:47800208 original size:40 final size:40
Alignment explanation
Indices: 47800058--47800209 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
47800048 CATTTGAATG
* * * * *
47800058 ATACCCGGTCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
** * * *
47800098 ATATTCAGGCTAAGACCTGAAGGCATTTGTGCGAGTTGTT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
*
47800138 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* *
47800178 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGC
47800210 TTGTGATTGT
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 94 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:47803336 original size:40 final size:40
Alignment explanation
Indices: 47803289--47803421 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 40
47803279 GCTACTCGTT
* *
47803289 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTAGCA
1 CAAATGCCTTCGGGACATAACCCAGATT-TAGTAACTAGCA
* * *
47803329 CAGATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTAGCA
* ** ** *
47803369 CAAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCAGATTTAGTAACTAGCA
*
47803409 CGAATGCCTTCGG
1 CAAATGCCTTCGG
47803422 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.04
40 72 0.91
41 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTAGCA
Found at i:47803422 original size:40 final size:40
Alignment explanation
Indices: 47803317--47803430 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
47803307 AGCCCGGTTA
* * ** **
47803317 TAGTAACTAGCACAGATGCCTTCGGGA-CTTAACCCAGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCTGGATT
47803357 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCTGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCTGGATT
*
47803397 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTC
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTC
47803431 CGAATATAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.05
40 63 0.95
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCTGGATT
Found at i:47803458 original size:40 final size:39
Alignment explanation
Indices: 47803315--47803468 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 39
47803305 ATAGCCCGGT
* * *
47803315 TATAGTAACTAGCACAGATGCCTTCGGGA-CTTA-ACCCAGA
1 TATAGTAACTAGCACA-AAGCCTTC-GGATCTTAGTCCGA-A
* * * *
47803355 TTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCTGGA
1 TATAGTAACTAGCACAAA-GCCTTCGGATCTTAGTCCGAA
* * *
47803395 TTTAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGAA
1 TATAGTAACTAGCAC-AAAGCCTTCGGATCTTAGTCCGAA
*
47803435 TATAGTCACTTAGCACAAAGCCTTCGAGA-CTTAG
1 TATAGTAAC-TAGCACAAAGCCTTCG-GATCTTAG
47803469 CCCGGACATC
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 80 0.85
41 10 0.11
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (39 bp):
TATAGTAACTAGCACAAAGCCTTCGGATCTTAGTCCGAA
Found at i:47813301 original size:49 final size:49
Alignment explanation
Indices: 47813232--47813775 Score: 1000
Period size: 49 Copynumber: 11.1 Consensus size: 49
47813222 GTACATAATA
*
47813232 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
47813281 ATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
47813330 ATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
**
47813379 ATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47813428 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47813477 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47813526 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47813575 ATATATGTGAT-AGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47813623 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
47813672 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47813721 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47813770 ATATAT
1 ATATAT
47813776 ATGTGGTAAA
Statistics
Matches: 484, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 0.10
49 436 0.90
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
Found at i:47813899 original size:37 final size:37
Alignment explanation
Indices: 47813844--47813930 Score: 140
Period size: 37 Copynumber: 2.3 Consensus size: 37
47813834 AACTTGGAAA
47813844 TATGTTCCGGGTGA-GACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-ACGACCCGATGACTACGTGTGGAGAT
*
47813882 TATGTCTGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
47813919 TATGTCCGGGTA
1 TATGTCCGGGTA
47813931 AGACTTCGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (37 bp):
TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
Found at i:47815857 original size:40 final size:40
Alignment explanation
Indices: 47815813--47816203 Score: 570
Period size: 40 Copynumber: 9.8 Consensus size: 40
47815803 GAGAATTGAG
* * *
47815813 AATGATGTATCCAGACTAAGTTCCGAAGAGCATTCTTCCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
47815853 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47815893 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
47815933 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47815973 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
47816013 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
47816053 AATGATATATCCGGGCTAAATT-CGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
47816092 AGTGATGTAGCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
47816132 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
47816172 AGTGATGTATCCAGG-CTAGGTCCCGAAGAGCA
1 AATGATGTATCC-GGACTAAGTTCCGAAGAGCA
47816204 ATCATGCTGG
Statistics
Matches: 323, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 34 0.11
40 287 0.89
41 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:47819886 original size:49 final size:49
Alignment explanation
Indices: 47819817--47820214 Score: 751
Period size: 49 Copynumber: 8.1 Consensus size: 49
47819807 GTACATAATA
*
47819817 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47819866 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
*
47819915 ATATATGTTATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47819964 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47820013 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
*
47820062 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAACTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
47820111 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47820160 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
47820209 ATATAT
1 ATATAT
47820215 ATGTGGTAAA
Statistics
Matches: 341, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 341 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
Found at i:47820343 original size:37 final size:36
Alignment explanation
Indices: 47820283--47820369 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
47820273 AACTTGGAAA
47820283 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
*
47820321 TATGTCCGGGTACGACCTGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
47820358 TATGTCCGGGTA
1 TATGTCCGGGTA
47820370 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:47831374 original size:27 final size:27
Alignment explanation
Indices: 47831200--47831380 Score: 184
Period size: 27 Copynumber: 6.7 Consensus size: 27
47831190 TTGGGTCGTT
* * *
47831200 AATACCCCCGATTTGTAAAATTACCAA
1 AATACCCCCAATTTGTAAAATTATCGA
* * * * * *
47831227 AATACCCTCAGTTTGTGAGATTAGCGG
1 AATACCCCCAATTTGTAAAATTATCGA
* ** *
47831254 AATACCCTCGGTTTGTAAAATTATCGG
1 AATACCCCCAATTTGTAAAATTATCGA
*
47831281 AATA-CCCCAAGTTTGTAAAATTATCAA
1 AATACCCCCAA-TTTGTAAAATTATCGA
*
47831308 AATACCCCCAATTTGTAAGATTATCGA
1 AATACCCCCAATTTGTAAAATTATCGA
* *
47831335 AATACCCCTAATTTGTAAAATTACCGA
1 AATACCCCCAATTTGTAAAATTATCGA
*
47831362 AATACCCCCAATTGGTAAA
1 AATACCCCCAATTTGTAAA
47831381 TGACTGTAAT
Statistics
Matches: 128, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.02
27 119 0.93
28 6 0.05
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (27 bp):
AATACCCCCAATTTGTAAAATTATCGA
Found at i:47831380 original size:81 final size:81
Alignment explanation
Indices: 47831200--47831380 Score: 222
Period size: 81 Copynumber: 2.2 Consensus size: 81
47831190 TTGGGTCGTT
* * * * * **
47831200 AATACCCCCGATTTGTAAAATTACCAAAATACCCTCAGTTTGTGAGATTAGCGGAATACCCTCGG
1 AATACCCCCAATTTGTAAAATTACCAAAATACCCCCAATTTGTAAGATTAGCGAAATACCCTCAA
* *
47831265 TTTGTAAAATTATCGG
66 TTTGTAAAATTACCGA
* *
47831281 AATA-CCCCAAGTTTGTAAAATTATCAAAATACCCCCAATTTGTAAGATTATCGAAATACCC-CT
1 AATACCCCCAA-TTTGTAAAATTACCAAAATACCCCCAATTTGTAAGATTAGCGAAATACCCTC-
47831344 AATTTGTAAAATTACCGA
64 AATTTGTAAAATTACCGA
*
47831362 AATACCCCCAATTGGTAAA
1 AATACCCCCAATTTGTAAA
47831381 TGACTGTAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
80 6 0.07
81 73 0.86
82 6 0.07
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (81 bp):
AATACCCCCAATTTGTAAAATTACCAAAATACCCCCAATTTGTAAGATTAGCGAAATACCCTCAA
TTTGTAAAATTACCGA
Found at i:47831416 original size:27 final size:27
Alignment explanation
Indices: 47831378--47831597 Score: 233
Period size: 27 Copynumber: 8.1 Consensus size: 27
47831368 CCCAATTGGT
*
47831378 AAATGACTGTAATACCCCTGTAGGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
* * * * *
47831405 AAATTACTGTAATGCGCTTGTAGGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
* ****
47831432 AAAAGACTGTAATATTGTTATAGGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
** *
47831459 AAATGACTGTAATACCGTTGTAGGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
* *
47831486 AAATGACCGTAATACCCCTTTAGGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
* *
47831513 AAATGACCGTAATACCCCTTTAGGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
* * * *
47831540 AAATGACCGTAATGCCCCAATAGGATA
1 AAATGACTGTAATACCCCTATAGGGTA
*
47831567 AAATGACTGTAATACCCCTATATGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
47831594 AAAT
1 AAAT
47831598 AACGATTATG
Statistics
Matches: 165, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 165 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AAATGACTGTAATACCCCTATAGGGTA
Found at i:47836355 original size:20 final size:20
Alignment explanation
Indices: 47836330--47836382 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
47836320 GTCAAAACGA
47836330 ACACGGGCGTGGACCTATGT
1 ACACGGGCGTGGACCTATGT
47836350 ACACGGGCGTGGACCTATGT
1 ACACGGGCGTGGACCTATGT
47836370 ACACGGGCGTGGA
1 ACACGGGCGTGGA
47836383 AGAAGCGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.25, G:0.38, T:0.17
Consensus pattern (20 bp):
ACACGGGCGTGGACCTATGT
Found at i:47836764 original size:45 final size:45
Alignment explanation
Indices: 47836708--47836804 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
47836698 TACTCTTTTC
47836708 TCTCTATTTTTCTTTAAATATGTTGCTTATTTCATGATTTCTCTA
1 TCTCTATTTTTCTTTAAATATGTTGCTTATTTCATGATTTCTCTA
47836753 TCTCTATTTTTCTTTAAATATGTTGCTTATTTCATGATTTCTCTA
1 TCTCTATTTTTCTTTAAATATGTTGCTTATTTCATGATTTCTCTA
47836798 -CTCTATT
1 TCTCTATT
47836805 GAACTATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 7 0.13
45 45 0.87
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.58
Consensus pattern (45 bp):
TCTCTATTTTTCTTTAAATATGTTGCTTATTTCATGATTTCTCTA
Found at i:47840346 original size:40 final size:40
Alignment explanation
Indices: 47840269--47840486 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
47840259 AAACCAAGTA
* * *
47840269 CCTTCGGGATTTAG-CCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
47840308 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47840348 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47840388 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47840428 CCTTCGAGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47840468 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47840487 TTATCATCCG
Statistics
Matches: 165, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.10
40 146 0.88
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47843227 original size:16 final size:16
Alignment explanation
Indices: 47843206--47843242 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
47843196 TAAAATGCTC
47843206 AACTTGGAATGTTTCA
1 AACTTGGAATGTTTCA
47843222 AACTTGGAATGTTTCA
1 AACTTGGAATGTTTCA
47843238 AACTT
1 AACTT
47843243 TGATGTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (16 bp):
AACTTGGAATGTTTCA
Found at i:47845127 original size:50 final size:50
Alignment explanation
Indices: 47844997--47845194 Score: 220
Period size: 50 Copynumber: 4.0 Consensus size: 50
47844987 AGCCGAAGCT
* * * *
47844997 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCG-GC-CAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTCATC
*
47845045 ATTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCATC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTCATC
** * * * * *
47845096 ATCTATTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTCA-TC
* * * *
47845147 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
47845195 CAATAGATCA
Statistics
Matches: 125, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 38 0.30
50 43 0.34
51 43 0.34
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTCATC
Found at i:47845182 original size:101 final size:99
Alignment explanation
Indices: 47845009--47845194 Score: 266
Period size: 101 Copynumber: 1.9 Consensus size: 99
47844999 CTGGTACGCA
* * * *
47845009 TAGTAGCCTGCACTTAGTACTACACATGCGGCCAACATTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACATTCGGGTACACATAGTAGCCTGCACTTA
*
47845074 GTACTACACATGTGACCTCATCATCTATTACACG
66 GTACTACACATGCGACCTCATCATCTATTACACG
* * *
47845108 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACA---TTCGGGTACACATAGTAGCCTGCAC
47845172 TTAGTACTACACATGCGACCTCA
63 TTAGTACTACACATGCGACCTCA
47845195 CAATAGATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
98 3 0.04
99 29 0.38
101 44 0.58
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACATTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTCATCATCTATTACACG
Found at i:47846840 original size:13 final size:13
Alignment explanation
Indices: 47846822--47846848 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47846812 TAAGTAATCG
47846822 CACACGGGCGTGT
1 CACACGGGCGTGT
47846835 CACACGGGCGTGT
1 CACACGGGCGTGT
47846848 C
1 C
47846849 CCTGCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:47847085 original size:15 final size:17
Alignment explanation
Indices: 47847065--47847097 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
47847055 GGAGTTTTGG
47847065 GTTTTC-TTATG-TTTT
1 GTTTTCTTTATGCTTTT
47847080 GTTTTCTTTATGCTTTT
1 GTTTTCTTTATGCTTTT
47847097 G
1 G
47847098 AGATGTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.06, C:0.09, G:0.15, T:0.70
Consensus pattern (17 bp):
GTTTTCTTTATGCTTTT
Found at i:47847209 original size:13 final size:13
Alignment explanation
Indices: 47847178--47847214 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
47847168 AAATATTTGA
47847178 CTTGTTCTTAATT
1 CTTGTTCTTAATT
47847191 -TGTGTTCTTAATT
1 CT-TGTTCTTAATT
47847204 CTTGTT-TTAAT
1 CTTGTTCTTAAT
47847215 ATTTCGGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.27
13 15 0.68
14 1 0.05
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:47849207 original size:24 final size:25
Alignment explanation
Indices: 47849143--47849245 Score: 99
Period size: 24 Copynumber: 4.3 Consensus size: 25
47849133 AGCTCCTCCT
* **
47849143 GAGCTGATGAATAGTAAGCTC-TATT
1 GAGCTGA-GAACAGTAAGCTCATACG
* *
47849168 GAGCAGA-AACAATAAGCTCATA-G
1 GAGCTGAGAACAGTAAGCTCATACG
47849191 GAGCTGAGAACAGTAAGCTCATA-G
1 GAGCTGAGAACAGTAAGCTCATACG
* *
47849215 GACCTCAGAACAGTAAGCTCATACG
1 GAGCTGAGAACAGTAAGCTCATACG
47849240 G-GCTGA
1 GAGCTGA
47849246 TATATCGATA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
23 16 0.25
24 41 0.63
25 8 0.12
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.19
Consensus pattern (25 bp):
GAGCTGAGAACAGTAAGCTCATACG
Found at i:47854848 original size:24 final size:24
Alignment explanation
Indices: 47854821--47854908 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
47854811 AGAAATTTTA
*
47854821 GCACTATGTGTGCGAGGTTATGTG
1 GCACTATGTGTGCGAGGATATGTG
* ** **
47854845 GCACTATGTGTGCAAAAACTACATG
1 GCACTATGTGTGCGAGGA-TATGTG
* * *
47854870 GCACTATGTGTGGGAGGAAATGCG
1 GCACTATGTGTGCGAGGATATGTG
47854894 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
47854909 ATGAGTAAGA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
24 30 0.62
25 18 0.38
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGGATATGTG
Found at i:47854923 original size:49 final size:50
Alignment explanation
Indices: 47854820--47854932 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 50
47854810 AAGAAATTTT
** *
47854820 AGCACTATGTGTGCGAGGTTATGTGGCACTATGTGTGCAAAAACTACATG
1 AGCACTATGTGTGCGAGGAAATGCGGCACTATGTGTGCAAAAACTACATG
* ** *
47854870 -GCACTATGTGTGGGAGGAAATGCGGCACTATGTGTGCGAATGAGTA-A-G
1 AGCACTATGTGTGCGAGGAAATGCGGCACTATGTGTGC-AAAAACTACATG
47854918 AGCACTATGTGTGCG
1 AGCACTATGTGTGCG
47854933 GACCTTTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.02
49 47 0.89
50 5 0.09
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (50 bp):
AGCACTATGTGTGCGAGGAAATGCGGCACTATGTGTGCAAAAACTACATG
Found at i:47865147 original size:25 final size:25
Alignment explanation
Indices: 47865119--47865174 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
47865109 ACTCGTTAAT
* *
47865119 GCATACCGATTTATAGCTCGTGGGA
1 GCATACCGATTTACAGCTCATGGGA
* * *
47865144 GCATGCCGATTTACAGGTCATGTGA
1 GCATACCGATTTACAGCTCATGGGA
47865169 GCATAC
1 GCATAC
47865175 ATGTACAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (25 bp):
GCATACCGATTTACAGCTCATGGGA
Found at i:47878666 original size:39 final size:40
Alignment explanation
Indices: 47878584--47878691 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 40
47878574 AGTGATTATG
* * *** *
47878584 TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATA
1 TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
*
47878624 TCCGGGCTAAGA-CCGAAGGCAATGGTGCAAGTTACCAAA
1 TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
* *
47878663 TCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TCCGGGCTAAGACCCGAAGGCAATCGTGC
47878692 TTGTGGTTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.53
40 27 0.47
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
Found at i:47878706 original size:40 final size:40
Alignment explanation
Indices: 47878541--47878707 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
47878531 CATTTGAATG
* * *
47878541 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
47878581 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
47878621 ATATCCGGGCTAAGA-CCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
47878660 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
47878700 GTATCCGG
1 ATATCCGG
47878708 TTAAATCCCG
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
38 1 0.01
39 29 0.29
40 68 0.68
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Done.