Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 183 of 185
Found at i:55856260 original size:17 final size:17
Alignment explanation
Indices: 55856238--55856271 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55856228 ATCCACTAAT
*
55856238 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
55856255 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
55856272 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:55856544 original size:18 final size:17
Alignment explanation
Indices: 55856521--55856587 Score: 98
Period size: 18 Copynumber: 3.8 Consensus size: 17
55856511 TTGCGAGGCG
*
55856521 CCGGGTCCGATGGCAGAC
1 CCGGGTCCGATGGCTG-C
55856539 CCGGGTCCGATGGCTGCC
1 CCGGGTCCGATGGCTG-C
55856557 CCGGGTCCGATGGCTGC
1 CCGGGTCCGATGGCTGC
55856574 CCTGGGTCCGATGG
1 CC-GGGTCCGATGG
55856588 AAGCCCCACC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 3 0.07
18 43 0.93
ACGTcount: A:0.09, C:0.34, G:0.40, T:0.16
Consensus pattern (17 bp):
CCGGGTCCGATGGCTGC
Found at i:55863305 original size:20 final size:21
Alignment explanation
Indices: 55863269--55863307 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55863259 TAGGCGCCAA
55863269 TGAATAAAATAATAATTTTTT
1 TGAATAAAATAATAATTTTTT
55863290 TGAATAAAAT-ATAATTTT
1 TGAATAAAATAATAATTTT
55863308 ATACTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TGAATAAAATAATAATTTTTT
Found at i:55863396 original size:27 final size:27
Alignment explanation
Indices: 55863355--55863438 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
55863345 TAGTATTGGC
*
55863355 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
55863382 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
55863409 GCCTATCTGGGAGGTGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
55863436 GCC
1 GCC
55863439 ATACTGAAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.15, C:0.21, G:0.39, T:0.24
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:55863450 original size:27 final size:27
Alignment explanation
Indices: 55863355--55863457 Score: 136
Period size: 27 Copynumber: 3.8 Consensus size: 27
55863345 TAGTATTGGC
55863355 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* *
55863382 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* *
55863409 GCCTATCTGGGAGGTGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* *
55863436 GCC-ATACTGAAAGGTGCCAATG
1 GCCTAT-CTGGAAGGCGCCAATG
55863458 TTGTGATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
26 2 0.03
27 67 0.97
ACGTcount: A:0.19, C:0.20, G:0.37, T:0.23
Consensus pattern (27 bp):
GCCTATCTGGAAGGCGCCAATGGTGGT
Found at i:55863551 original size:22 final size:22
Alignment explanation
Indices: 55863513--55863589 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
55863503 ACTACAGAAA
55863513 CAGAAGAAAGAAGAAGGAAGGAAG
1 CAGAAG-AA-AAGAAGGAAGGAAG
55863537 CAGAAGAAAAGAAGGAAGGAAG
1 CAGAAGAAAAGAAGGAAGGAAG
55863559 CAGAAGAAAAGAAGGAAGGAA-
1 CAGAAGAAAAGAAGGAAGGAAG
*
55863580 AAGAAGAAAA
1 CAGAAGAAAA
55863590 AAATTAGGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
21 9 0.17
22 35 0.67
23 2 0.04
24 6 0.12
ACGTcount: A:0.62, C:0.04, G:0.34, T:0.00
Consensus pattern (22 bp):
CAGAAGAAAAGAAGGAAGGAAG
Found at i:55867332 original size:27 final size:27
Alignment explanation
Indices: 55867302--55867384 Score: 148
Period size: 27 Copynumber: 3.1 Consensus size: 27
55867292 CCTATCAGGT
55867302 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
55867329 AGGCGCTAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
55867356 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
55867383 AG
1 AG
55867385 TAGACCTGTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.34, T:0.13
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:55867553 original size:11 final size:11
Alignment explanation
Indices: 55867537--55867564 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
55867527 AGATTTTTTT
55867537 GGCCCGGGCCC
1 GGCCCGGGCCC
55867548 GGCCCGGGCCC
1 GGCCCGGGCCC
55867559 GGCCCG
1 GGCCCG
55867565 AAAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.54, G:0.46, T:0.00
Consensus pattern (11 bp):
GGCCCGGGCCC
Found at i:55867600 original size:22 final size:24
Alignment explanation
Indices: 55867574--55867617 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
55867564 GAAAAATATT
55867574 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
55867596 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
55867618 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:55867728 original size:9 final size:9
Alignment explanation
Indices: 55867714--55867741 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
55867704 TTTTGTTACA
55867714 ACAATTAAT
1 ACAATTAAT
55867723 ACAATTAAT
1 ACAATTAAT
55867732 ACAATTAAT
1 ACAATTAAT
55867741 A
1 A
55867742 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:55867763 original size:68 final size:66
Alignment explanation
Indices: 55867684--55867825 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
55867674 TTAAGTTTGT
*
55867684 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
55867749 AAA
64 AAA
55867752 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
55867817 T
66 A
55867818 TTTACTAA
1 TTTACTAA
55867826 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:55867842 original size:59 final size:66
Alignment explanation
Indices: 55867684--55867847 Score: 225
Period size: 68 Copynumber: 2.5 Consensus size: 66
55867674 TTAAGTTTGT
*
55867684 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
55867749 AAA
64 AAA
55867752 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
55867815 AAT
64 AAA
55867818 TTTACTAA-C-AA-TTA-ATTTTA-ACAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
55867848 GTTTTAATTT
Statistics
Matches: 93, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
59 10 0.11
61 6 0.06
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.46
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:55867854 original size:16 final size:16
Alignment explanation
Indices: 55867814--55867854 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
55867804 AATAATTTGA
55867814 TAATTTT-ACTAACAAT
1 TAATTTTAAC-AACAAT
55867830 TAATTTTAACAACAAT
1 TAATTTTAACAACAAT
*
55867846 TAGTTTTAA
1 TAATTTTAA
55867855 TTTTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATTTTAACAACAAT
Found at i:55868163 original size:21 final size:21
Alignment explanation
Indices: 55868134--55868177 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
55868124 TGGATTAGTA
*
55868134 TTTTGTATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
55868155 TTTTATATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
55868176 TT
1 TT
55868178 GTGTTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTTATATGAATATTGTAATT
Found at i:55868309 original size:16 final size:16
Alignment explanation
Indices: 55868266--55868309 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
55868256 AAAATCAAAT
*
55868266 AAAATTTAATTATATA
1 AAAATTAAATTATATA
* *
55868282 AAAGTTACATTATATA
1 AAAATTAAATTATATA
55868298 AAAATTAAATTA
1 AAAATTAAATTA
55868310 GTTAACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATTAAATTATATA
Found at i:55868382 original size:36 final size:38
Alignment explanation
Indices: 55868341--55868420 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 38
55868331 AAAAAGACAG
55868341 TTATAATTAAACTTTTAATAAAATGATTTTT-A-TTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
55868377 TTATAATTAAACTTTTAATAAGATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
55868415 TTATAA
1 TTATAA
55868421 ACTTTATATG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 30 0.73
37 1 0.02
38 10 0.24
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:55868639 original size:19 final size:19
Alignment explanation
Indices: 55868636--55868754 Score: 75
Period size: 19 Copynumber: 6.1 Consensus size: 19
55868626 CATACAAAAT
*
55868636 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
55868655 TACAAAATTATAATATTCA
1 TACAAAATTACAATATTCA
* *
55868674 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
55868692 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
* *
55868715 TAAAATAATTACAATATTAA
1 TACAA-AATTACAATATTCA
55868735 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
55868754 T
1 T
55868755 TGGCGCCTCT
Statistics
Matches: 77, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
17 3 0.04
18 6 0.08
19 42 0.55
20 12 0.16
21 2 0.03
22 5 0.06
23 5 0.06
25 2 0.03
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:55868651 original size:27 final size:27
Alignment explanation
Indices: 55868615--55868671 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
55868605 ATATCCCGAC
55868615 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
55868642 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
55868669 ATT
1 ATT
55868672 CATACAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:55868788 original size:27 final size:27
Alignment explanation
Indices: 55868750--55868816 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
55868740 AATTACAATA
55868750 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
*
55868777 TTCATTGGCGCCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
55868804 TTCATTGGCGCCT
1 TTCATTGGCGCCT
55868817 ACCTGATAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.12, C:0.33, G:0.24, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:55868921 original size:16 final size:16
Alignment explanation
Indices: 55868898--55868931 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
55868888 TAAAAAAATA
*
55868898 TAAAAAAATATTTTATT
1 TAAAAAAAT-TATTATT
55868915 TAAAAAAATTATTATT
1 TAAAAAAATTATTATT
55868931 T
1 T
55868932 TTTTATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAAAAATTATTATT
Found at i:55869059 original size:83 final size:82
Alignment explanation
Indices: 55868968--55869132 Score: 240
Period size: 83 Copynumber: 2.0 Consensus size: 82
55868958 GGCTCCAATG
* ***** *
55868968 AAAAAGTAACCTATTTTGGTAAATTTTTTTTCTGACATCCTATTTCAGTATTTTTTTTTCTATAC
1 AAAAAGTAACCTATTTTGGCAAAAAAAATTTCTGACATACTATTTCAGTA-TTTTTTTTCTATAC
*
55869033 CATTTGTGTAAAAAACCC
65 CATTTCTGTAAAAAACCC
*
55869051 AAAAAGTAACCTATTTTGGCAAAAAAAATTTCTGACATACTATTTCAGTATTTTTTTTCTATACT
1 AAAAAGTAACCTATTTTGGCAAAAAAAATTTCTGACATACTATTTCAGTATTTTTTTTCTATACC
55869116 ATTTCTGTAAAAAACCC
66 ATTTCTGTAAAAAACCC
55869133 CGTTAAACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 30 0.41
83 43 0.59
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (82 bp):
AAAAAGTAACCTATTTTGGCAAAAAAAATTTCTGACATACTATTTCAGTATTTTTTTTCTATACC
ATTTCTGTAAAAAACCC
Found at i:55887687 original size:18 final size:18
Alignment explanation
Indices: 55887660--55887752 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
55887650 TACGACCGTT
55887660 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
55887678 TACGGCACTATTCATGTA
1 TACGGTACTATTCACGTA
* *
55887696 TACAGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
*
55887714 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
55887732 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
55887750 TAC
1 TAC
55887753 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:55887711 original size:36 final size:36
Alignment explanation
Indices: 55887664--55887752 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
55887654 ACCGTTTACG
* *
55887664 GTACTATTCACGTATACGGCACTATTCATGTATACA
1 GTACTGTTCACGTATACGGCACTATTCACGTATACA
*
55887700 GTACTGTTCACGTATACGGCACTATTCACGTATACG
1 GTACTGTTCACGTATACGGCACTATTCACGTATACA
55887736 GTACTGTTCACGTATAC
1 GTACTGTTCACGTATAC
55887753 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (36 bp):
GTACTGTTCACGTATACGGCACTATTCACGTATACA
Found at i:55894148 original size:28 final size:29
Alignment explanation
Indices: 55894099--55894156 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
55894089 TACTATGGTT
*
55894099 AAAAAAAAGATAAGTATTTTAATTGAAACA
1 AAAAAAAAGATAAGTA-TTTAAATGAAACA
* *
55894129 AAAAAAAAGTTTAGTA-TTAAATGAAACA
1 AAAAAAAAGATAAGTATTTAAATGAAACA
55894157 TTGAAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.44
30 14 0.56
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.26
Consensus pattern (29 bp):
AAAAAAAAGATAAGTATTTAAATGAAACA
Found at i:55902489 original size:73 final size:73
Alignment explanation
Indices: 55902370--55902527 Score: 316
Period size: 73 Copynumber: 2.2 Consensus size: 73
55902360 AAATCCGAAT
55902370 TTCATAAGGAATATCACGATTCCACAACCACTTCCAATCAAAGTTAAGTGTAGTTTCTATGCCTT
1 TTCATAAGGAATATCACGATTCCACAACCACTTCCAATCAAAGTTAAGTGTAGTTTCTATGCCTT
55902435 CATATGAA
66 CATATGAA
55902443 TTCATAAGGAATATCACGATTCCACAACCACTTCCAATCAAAGTTAAGTGTAGTTTCTATGCCTT
1 TTCATAAGGAATATCACGATTCCACAACCACTTCCAATCAAAGTTAAGTGTAGTTTCTATGCCTT
55902508 CATATGAA
66 CATATGAA
55902516 TTCATAAGGAAT
1 TTCATAAGGAAT
55902528 TTAGGGTTTA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (73 bp):
TTCATAAGGAATATCACGATTCCACAACCACTTCCAATCAAAGTTAAGTGTAGTTTCTATGCCTT
CATATGAA
Found at i:55903191 original size:37 final size:37
Alignment explanation
Indices: 55903149--55903223 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
55903139 GTTGCCGGTG
* *
55903149 TAAGAGGACGTCGGTTCGAGTGCGTTGAAGCGTATTA
1 TAAGAGGACGTCGGTTCGAGTACGTTGAAGCATATTA
*
55903186 TAAGAGGACGTGGGTTCGAGTACGTTGAAGCATATTA
1 TAAGAGGACGTCGGTTCGAGTACGTTGAAGCATATTA
55903223 T
1 T
55903224 CCTCTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (37 bp):
TAAGAGGACGTCGGTTCGAGTACGTTGAAGCATATTA
Found at i:55904751 original size:72 final size:72
Alignment explanation
Indices: 55904641--55904846 Score: 306
Period size: 72 Copynumber: 2.9 Consensus size: 72
55904631 TAATCAAAGT
* ** * * *
55904641 TCCAACAACTCGTCCTTAAAAGTAATAAATATTAATATTTTAAATAGATATAGCCAGAATAATAT
1 TCCAACAACTTGTCCTTGGAAGTAATAAATATTAATATTTTAAATAAATGTAGCCAAAATAATAT
55904706 AATGAGG
66 AATGAGG
*
55904713 TCCAACAACTTGTCGTTGGAAGTAATAAATATTAATATTTTAAATAAATGTAGCCAAAATAATAT
1 TCCAACAACTTGTCCTTGGAAGTAATAAATATTAATATTTTAAATAAATGTAGCCAAAATAATAT
* *
55904778 ATTGATG
66 AATGAGG
*
55904785 TCCAACAACTTGTCCTTGGATGTAATAAATATT-ATCATTTTAAATAAATGTAGCCAAAATAA
1 TCCAACAACTTGTCCTTGGAAGTAATAAATATTAAT-ATTTTAAATAAATGTAGCCAAAATAA
55904847 GATCCAACAA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
71 2 0.02
72 120 0.98
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (72 bp):
TCCAACAACTTGTCCTTGGAAGTAATAAATATTAATATTTTAAATAAATGTAGCCAAAATAATAT
AATGAGG
Found at i:55905662 original size:18 final size:18
Alignment explanation
Indices: 55905639--55905692 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
55905629 CGAAGCAACA
55905639 GGTCCGATGGCGGCCCCG
1 GGTCCGATGGCGGCCCCG
*
55905657 GGTCCGACGGCGGCCCCG
1 GGTCCGATGGCGGCCCCG
* *
55905675 GTTCCGATGGCAGCCCCG
1 GGTCCGATGGCGGCCCCG
55905693 CCATAAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.07, C:0.41, G:0.41, T:0.11
Consensus pattern (18 bp):
GGTCCGATGGCGGCCCCG
Found at i:55908093 original size:23 final size:23
Alignment explanation
Indices: 55908063--55908107 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
55908053 TTCCATGAAC
55908063 TATGCTGCACACTTGGGTTTCAT
1 TATGCTGCACACTTGGGTTTCAT
55908086 TATGCTGCACACTTGGGTTTCA
1 TATGCTGCACACTTGGGTTTCA
55908108 AGTCTGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
TATGCTGCACACTTGGGTTTCAT
Found at i:55920739 original size:75 final size:75
Alignment explanation
Indices: 55920611--55920764 Score: 256
Period size: 75 Copynumber: 2.1 Consensus size: 75
55920601 TGCCCGAGTC
* * *
55920611 CTTTGAATGGATCTTCGGTTCCTCAGAATGGAGTAGATATTAGTCCAACAAGTACTAATTCTCAT
1 CTTTAAATGGATCTTCGGTTCCTCAGAATGAAGTAGATATTAGTCCAACAAGTACTAACTCTCAT
*
55920676 AGTATTCCCT
66 AATATTCCCT
*
55920686 CTTTAAATGGGTCTTCGGTTCCTCAGAATGAAGTAGATATTAGTCCAACAAGTACTAACTCTCAT
1 CTTTAAATGGATCTTCGGTTCCTCAGAATGAAGTAGATATTAGTCCAACAAGTACTAACTCTCAT
55920751 AATATTCCCT
66 AATATTCCCT
55920761 -TTTA
1 CTTTA
55920765 TTCTGGTGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 4 0.05
75 70 0.95
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (75 bp):
CTTTAAATGGATCTTCGGTTCCTCAGAATGAAGTAGATATTAGTCCAACAAGTACTAACTCTCAT
AATATTCCCT
Found at i:55922280 original size:20 final size:19
Alignment explanation
Indices: 55922255--55922462 Score: 89
Period size: 19 Copynumber: 11.1 Consensus size: 19
55922245 AGAAACGGAT
*
55922255 TTAAAATTTATTTAAAAATA
1 TTAAAAATTA-TTAAAAATA
55922275 TTAAAAATTATTAAAAAT-
1 TTAAAAATTATTAAAAATA
* *
55922293 TGTAAAAATTAATAAAAACA
1 T-TAAAAATTATTAAAAATA
*
55922313 TT-AAAATTTTGTAAAAATA
1 TTAAAAATTAT-TAAAAATA
** *
55922332 TATAATAAAAAATTTAGAAAT-
1 T-TAA-AAATTA-TTAAAAATA
* *
55922353 GTAAAAATGATTAAAACAT-
1 TTAAAAATTATTAAAA-ATA
* * *
55922372 TGT-AAAATT-TTCAACATC
1 T-TAAAAATTATTAAAAATA
*
55922390 TT-AAAATT-TTAAAAATT
1 TTAAAAATTATTAAAAATA
*
55922407 TTAAAAATTA--AAATATA
1 TTAAAAATTATTAAAAATA
** *
55922424 TTAAAAATT-TGTAAATTTTG
1 TTAAAAATTAT-TAAA-AATA
55922444 TTAAAAATTA-TAAAAATA
1 TTAAAAATTATTAAAAATA
55922462 T
1 T
55922463 ACACTTCATC
Statistics
Matches: 143, Mismatches: 28, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
17 31 0.22
18 25 0.17
19 50 0.35
20 26 0.18
21 1 0.01
22 9 0.06
23 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTAAAAATTATTAAAAATA
Found at i:55922292 original size:10 final size:10
Alignment explanation
Indices: 55922255--55922460 Score: 63
Period size: 9 Copynumber: 21.8 Consensus size: 10
55922245 AGAAACGGAT
*
55922255 TTAAAATTTA
1 TTAAAAATTA
55922265 TTTAAAAA-TA
1 -TTAAAAATTA
55922275 TTAAAAATTA
1 TTAAAAATTA
55922285 TTAAAAATT-
1 TTAAAAATTA
*
55922294 GTAAAAATTA
1 TTAAAAATTA
* *
55922304 ATAAAAA-CA
1 TTAAAAATTA
*
55922313 TT-AAAATTT
1 TTAAAAATTA
55922322 TGTAAAAATATA
1 T-TAAAAAT-TA
*
55922334 TAATAAAAAAT-
1 T--TAAAAATTA
*
55922345 TTAGAAA-T-
1 TTAAAAATTA
* *
55922353 GTAAAAATGA
1 TTAAAAATTA
55922363 TTAAAACATT-
1 TTAAAA-ATTA
*
55922373 GT-AAAATT-
1 TTAAAAATTA
* * *
55922381 TTCAACA-TC
1 TTAAAAATTA
55922390 TT-AAAATT-
1 TTAAAAATTA
55922398 TTAAAAATT-
1 TTAAAAATTA
55922407 TTAAAAATTA
1 TTAAAAATTA
*
55922417 --AAATA-TA
1 TTAAAAATTA
55922424 TTAAAAATT-
1 TTAAAAATTA
** *
55922433 TGTAAATTTTG
1 T-TAAAAATTA
55922444 TTAAAAATTA
1 TTAAAAATTA
55922454 -TAAAAAT
1 TTAAAAAT
55922461 ATACACTTCA
Statistics
Matches: 148, Mismatches: 27, Indels: 42
0.68 0.12 0.19
Matches are distributed among these distances:
7 2 0.01
8 24 0.16
9 59 0.40
10 39 0.26
11 15 0.10
12 3 0.02
13 6 0.04
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:55922308 original size:29 final size:28
Alignment explanation
Indices: 55922267--55922360 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 28
55922257 AAAATTTATT
*
55922267 TAAAAA-TATTAAAAATTATTAAAAATTG
1 TAAAAATTAATAAAAA-TATTAAAAATTG
* *
55922295 TAAAAATTAATAAAAACATTAAAATTTTG
1 TAAAAATTAATAAAAATATTAAAA-ATTG
*
55922324 TAAAAATATATAATAAAAA-ATTTAGAAA-TG
1 T-AAAA-AT-TAATAAAAATA-TTAAAAATTG
55922354 TAAAAAT
1 TAAAAAT
55922361 GATTAAAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
28 15 0.27
29 16 0.29
30 7 0.13
31 3 0.05
32 14 0.25
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (28 bp):
TAAAAATTAATAAAAATATTAAAAATTG
Found at i:55922360 original size:59 final size:57
Alignment explanation
Indices: 55922253--55922382 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 57
55922243 CTAGAAACGG
* **
55922253 ATTTAAAATTTATTTAAAAATATTAAAAATTATTAAAAATTGTAAAAATTAATAAAAAC
1 ATTTAAAATTT-TGTAAAAATATTAAAAAAAATTAAAAATTGTAAAAA-TAATAAAAAC
* * *
55922312 A-TTAAAATTTTGTAAAAATATATAATAAAAAATTTAGAAA-TGTAAAAATGATTAAAAC
1 ATTTAAAATTTTGTAAAAATAT-TAA-AAAAAA-TTAAAAATTGTAAAAATAATAAAAAC
55922370 ATTGTAAAATTTT
1 ATT-TAAAATTTT
55922383 CAACATCTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
57 10 0.17
58 21 0.35
59 14 0.23
60 15 0.25
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (57 bp):
ATTTAAAATTTTGTAAAAATATTAAAAAAAATTAAAAATTGTAAAAATAATAAAAAC
Found at i:55922406 original size:26 final size:26
Alignment explanation
Indices: 55922390--55922438 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
55922380 TTTCAACATC
55922390 TTAAAAT-T-TTAAAAATTTTAAAAA
1 TTAAAATATATTAAAAATTTTAAAAA
55922414 TTAAAATATATTAAAAATTTGTAAA
1 TTAAAATATATTAAAAATTT-TAAA
55922439 TTTTGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 1 0.05
26 10 0.45
27 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
TTAAAATATATTAAAAATTTTAAAAA
Found at i:55922410 original size:17 final size:17
Alignment explanation
Indices: 55922363--55922412 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
55922353 GTAAAAATGA
*
55922363 TTAAAACATTGTAAAATT
1 TTAAAA-ATTTTAAAATT
* * *
55922381 TTCAACATCTTAAAATT
1 TTAAAAATTTTAAAATT
55922398 TTAAAAATTTTAAAA
1 TTAAAAATTTTAAAA
55922413 ATTAAAATAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAAAATTTTAAAATT
Found at i:55922427 original size:17 final size:16
Alignment explanation
Indices: 55922398--55922432 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
55922388 TCTTAAAATT
*
55922398 TTAAAAATTTTAAAAA
1 TTAAAAATATTAAAAA
55922414 TTAAAATATATTAAAAA
1 TTAAAA-ATATTAAAAA
55922431 TT
1 TT
55922433 TGTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAAATATTAAAAA
Found at i:55922552 original size:19 final size:19
Alignment explanation
Indices: 55922528--55922566 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55922518 AGCACCAAAA
55922528 TAAAAT-TTATTAAAAATTT
1 TAAAATATT-TTAAAAATTT
*
55922547 TAAAATATTTTAAATATTT
1 TAAAATATTTTAAAAATTT
55922566 T
1 T
55922567 TCCACAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAATATTTTAAAAATTT
Found at i:55922913 original size:14 final size:14
Alignment explanation
Indices: 55922894--55922920 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55922884 GTATACTAAC
55922894 ATATTTAATCATTA
1 ATATTTAATCATTA
55922908 ATATTTAATCATT
1 ATATTTAATCATT
55922921 TTATCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTTAATCATTA
Found at i:55927683 original size:15 final size:15
Alignment explanation
Indices: 55927663--55927694 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55927653 AACATCGTAC
55927663 TGTGTTTATTATGGT
1 TGTGTTTATTATGGT
55927678 TGTGTTTATTATGGT
1 TGTGTTTATTATGGT
55927693 TG
1 TG
55927695 CAGACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.59
Consensus pattern (15 bp):
TGTGTTTATTATGGT
Found at i:55928466 original size:69 final size:67
Alignment explanation
Indices: 55928388--55928886 Score: 433
Period size: 66 Copynumber: 7.5 Consensus size: 67
55928378 CCATTATTTT
55928388 AATAATTTCATTCATGAATTTCTAAACAAATATATGAAAAAAAAAACAAGAGAAAACCCTTTTTG
1 AATAATTTCATTCATGAATTTC-AAACAAATATATGAAAAAAAAAACAAGAGAAAACCCTTTTT-
55928453 TAAA
64 TAAA
* * *
55928457 AATAATTTCATTCATGAATTTCAAAGCAAATATGTGAAAGAAAATACAAGAGAAAACCCTCTTTT
1 AATAATTTCATTCATGAATTTCAAA-CAAATATATGAAAAAAAAAACAAGAGAAAACCCT-TTTT
55928522 T---
64 TAAA
* * * *
55928523 AGTAATTTTATTCATGAATTTCAGAACAAAGATATG--AACAAAAACAAGAGAAAACCTTCTTTT
1 AATAATTTCATTCATGAATTTCA-AACAAATATATGAAAAAAAAAACAAGAGAAAACC--CTTTT
*
55928586 TT--T
63 TTAAA
55928589 AATAATTTCATTCATGAATTTCAAAACAAA-ATATG----AAAAAACAAGAGAAAA-CCTTTTCT
1 AATAATTTCATTCATGAATTTC-AAACAAATATATGAAAAAAAAAACAAGAGAAAACCCTTTT-T
55928648 TAAA
64 TAAA
*
55928652 AATAATTTCATTCATGAATCTCAAAGCAAATATATGGAGAGAGAAAAAAA-AGAGAGAAAACCC-
1 AATAATTTCATTCATGAATTTCAAA-CAAATATAT-GA-A-A-AAAAAAACA-AGAGAAAACCCT
55928715 -TTTTAAA
60 TTTTTAAA
* * * *
55928722 AA-AA--GCATTCATGAAATTCATAACAAATATATG----ATAAAACAAGAGAAATCCCTTTTTT
1 AATAATTTCATTCATGAATTTCA-AACAAATATATGAAAAAAAAAACAAGAGAAAACCCTTTTTT
55928780 GAAAAA
65 ---AAA
* * * *
55928786 AAAAAATTCATTCATGAATCTCAAAGCAAATATATGAAGAAAAAAAA-GAGAGAAAACCC--TTT
1 AATAATTTCATTCATGAATTTCAAA-CAAATATATGAA-AAAAAAAACAAGAGAAAACCCTTTTT
55928848 TAAA
64 TAAA
* *
55928852 AA-AA-ATCATTCATGAAATTCAGAACAAATATATGA
1 AATAATTTCATTCATGAATTTCA-AACAAATATATGA
55928887 TAGAACAAGA
Statistics
Matches: 362, Mismatches: 29, Indels: 83
0.76 0.06 0.18
Matches are distributed among these distances:
59 15 0.04
60 6 0.02
61 6 0.02
62 4 0.01
63 40 0.11
64 51 0.14
65 17 0.05
66 65 0.18
67 48 0.13
68 5 0.01
69 60 0.17
70 11 0.03
71 13 0.04
72 19 0.05
73 2 0.01
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (67 bp):
AATAATTTCATTCATGAATTTCAAACAAATATATGAAAAAAAAAACAAGAGAAAACCCTTTTTTA
AA
Found at i:55928558 original size:135 final size:125
Alignment explanation
Indices: 55928370--55928929 Score: 449
Period size: 131 Copynumber: 4.3 Consensus size: 125
55928360 GAGAGAGAGG
55928370 GAGAAAACCCATTATTTTAATAATTTCATTCATGAATTTCTAAACAAATATATGAAAAAAAAAAC
1 GAGAAAACCC-TT-TTTTAATAATTTCATTCATGAATTTC-AAACAAATATATGAAAAAAAAAAC
* *
55928435 AAGAGAAAACCCTTTTTGTAAAAATAATTTCATTCATGAATTTCAAAGCAAATATGTGAAAGAAA
63 AAGAGAAAACCCTTTTT-T--AAATAATTTCATTCATGAATTTCAAAACAAA-ATATG--A-AAA
55928500 ATACAA
121 A-ACAA
* * * *
55928506 GAGAAAACCCTCTTTTTAGTAATTTTATTCATGAATTTCAGAACAAAGATATG--AACAAAAACA
1 GAGAAAACCCT-TTTTTAATAATTTCATTCATGAATTTCA-AACAAATATATGAAAAAAAAAACA
*
55928569 AGAGAAAACCTTCTTTTTTTAATAATTTCATTCATGAATTTCAAAACAAAATATGAAAAAACAA
64 AGAGAAAACC--CTTTTTTAAATAATTTCATTCATGAATTTCAAAACAAAATATGAAAAAACAA
*
55928633 GAGAAAA-CCTTTTCTTAAAAATAATTTCATTCATGAATCTCAAAGCAAATATATGGAGAGAGAA
1 GAGAAAACCCTTTT-TT---AATAATTTCATTCATGAATTTCAAA-CAAATATAT-GA-A-A-AA
*** * * *
55928697 AAAAA-AGAGAGAAAACCC--TTTTAAA-AAAAGCATTCATGAAATTCATAACAAATATATGATA
57 AAAAACA-AGAGAAAACCCTTTTTTAAATAATTTCATTCATGAATTTCAAAACAAA-ATATGAAA
55928758 AAACAA
120 AAACAA
* * * *
55928764 GAGAAATCCCTTTTTTGAAAAAAAAAAATTCATTCATGAATCTCAAAGCAAATATATGAAGAAAA
1 GAGAAAACCCTTTTTT------AATAATTTCATTCATGAATTTCAAA-CAAATATATGAA-AAAA
* * ** * * * *
55928829 AAAA-GAGAGAAAACCC--TTTTAAAAAAAATCATTCATGAAATTCAGAACAAATATATGATAGA
58 AAAACAAGAGAAAACCCTTTTTTAAATAATTTCATTCATGAATTTCAAAACAAA-ATATGAAAAA
55928891 ACAA
122 ACAA
* * ** *
55928895 GAGAAATCCTTTTTTTTTTAA-ATCATTCATGAATT
1 GAGAAAACCCTTTTTTAATAATTTCATTCATGAATT
55928930 AGCTTTAAAA
Statistics
Matches: 370, Mismatches: 32, Indels: 56
0.81 0.07 0.12
Matches are distributed among these distances:
124 12 0.03
125 5 0.01
126 5 0.01
127 11 0.03
128 6 0.02
129 29 0.08
130 41 0.11
131 92 0.25
132 38 0.10
133 22 0.06
134 40 0.11
135 58 0.16
136 11 0.03
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (125 bp):
GAGAAAACCCTTTTTTAATAATTTCATTCATGAATTTCAAACAAATATATGAAAAAAAAAACAAG
AGAAAACCCTTTTTTAAATAATTTCATTCATGAATTTCAAAACAAAATATGAAAAAACAA
Found at i:55928588 original size:66 final size:63
Alignment explanation
Indices: 55928370--55928929 Score: 403
Period size: 67 Copynumber: 8.6 Consensus size: 63
55928360 GAGAGAGAGG
*
55928370 GAGAAAACCCATTATTTTAATAATTTCATTCATGAATTTCTAAACAAATATATGAAAAAAAAAAC
1 GAGAAAACCC-TTTTTTTAATAATTTCATTCATGAATTTC-AAACAAATATATG--AAAAAAAAC
55928435 AA
62 AA
* *
55928437 GAGAAAACCCTTTTTGTAAAAATAATTTCATTCATGAATTTCAAAGCAAATATGTGAAAGAAAAT
1 GAGAAAACCCTTTTT-T--TAATAATTTCATTCATGAATTTCAAA-CAAATATATGAAA-AAAA-
55928502 ACAA
60 ACAA
* * * * *
55928506 GAGAAAACCCTCTTTTTAGTAATTTTATTCATGAATTTCAGAACAAAGATATGAACAAAAACAA
1 GAGAAAACCCTTTTTTTAATAATTTCATTCATGAATTTCA-AACAAATATATGAAAAAAAACAA
55928570 GAGAAAACCTTCTTTTTTTAATAATTTCATTCATGAATTTCAAAACAAA-ATATG--AAAAAACA
1 GAGAAAACC--CTTTTTTTAATAATTTCATTCATGAATTTC-AAACAAATATATGAAAAAAAACA
55928632 A
63 A
* *
55928633 GAGAAAA-CCTTTTCTTAAAAATAATTTCATTCATGAATCTCAAAGCAAATATATGGAGAGAGAA
1 GAGAAAACCCTTTT-TT--TAATAATTTCATTCATGAATTTCAAA-CAAATATAT---GA-A-AA
*
55928697 AAAAAAGA
57 AAAACA-A
* *** * *
55928705 GAGAAAACCC---TTTTAAAAAAAGCATTCATGAAATTCATAACAAATATATG--ATAAAACAA
1 GAGAAAACCCTTTTTTTAATAATTTCATTCATGAATTTCA-AACAAATATATGAAAAAAAACAA
* * * * *
55928764 GAGAAATCCCTTTTTTGAAAAAAAAAAATTCATTCATGAATCTCAAAGCAAATATATGAAGAAAA
1 GAGAAAACCCTTTTTT-----TAATAATTTCATTCATGAATTTCAAA-CAAATATATGAA-AAAA
*
55928829 AAAAGA
59 AACA-A
* * ** * * *
55928835 GAGAAAACCC--TTTTAAAAAAAATCATTCATGAAATTCAGAACAAATATATG--ATAGAACAA
1 GAGAAAACCCTTTTTTTAATAATTTCATTCATGAATTTCA-AACAAATATATGAAAAAAAACAA
* ** *
55928895 GAG-AAATCCTTTTTTTTTTAA-ATCATTCATGAATT
1 GAGAAAACCCTTTTTTTAATAATTTCATTCATGAATT
55928930 AGCTTTAAAA
Statistics
Matches: 405, Mismatches: 47, Indels: 89
0.75 0.09 0.16
Matches are distributed among these distances:
59 15 0.04
60 28 0.07
61 13 0.03
62 7 0.02
63 40 0.10
64 49 0.12
65 11 0.03
66 70 0.17
67 73 0.18
68 10 0.02
69 55 0.14
70 7 0.02
71 17 0.04
72 8 0.02
73 2 0.00
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (63 bp):
GAGAAAACCCTTTTTTTAATAATTTCATTCATGAATTTCAAACAAATATATGAAAAAAAACAA
Found at i:55928790 original size:67 final size:61
Alignment explanation
Indices: 55928715--55928910 Score: 193
Period size: 64 Copynumber: 3.1 Consensus size: 61
55928705 GAGAAAACCC
*
55928715 TTTT-AAAAAAAGCATTCATGAAATTCATAACAAATATATGATAAAACAAGAGAAATCCCTT
1 TTTTAAAAAAAATCATTCATGAAATTCA-AACAAATATATGATAAAACAAGAGAAATCCCTT
* *
55928776 TTTTGAAAAAAAAAAATTCATTCATG-AATCTCAAAGCAAATATATGAAGAAAAAAAAGAGAGAA
1 TTTT----AAAAAAAA-TCATTCATGAAAT-TCAAA-CAAATATAT---GATAAAACA-AGAGAA
*
55928840 AACCC--
55 ATCCCTT
* *
55928845 TTTTAAAAAAAATCATTCATGAAATTCAGAACAAATATATGATAGAACAAGAGAAATCCTTT
1 TTTTAAAAAAAATCATTCATGAAATTCA-AACAAATATATGATAAAACAAGAGAAATCCCTT
55928907 TTTT
1 TTTT
55928911 TTTAAATCAT
Statistics
Matches: 110, Mismatches: 9, Indels: 31
0.73 0.06 0.21
Matches are distributed among these distances:
60 9 0.08
61 10 0.09
62 4 0.04
64 21 0.19
65 13 0.12
66 12 0.11
67 20 0.18
69 4 0.04
70 7 0.06
71 10 0.09
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (61 bp):
TTTTAAAAAAAATCATTCATGAAATTCAAACAAATATATGATAAAACAAGAGAAATCCCTT
Found at i:55934895 original size:16 final size:18
Alignment explanation
Indices: 55934863--55934898 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
55934853 AATATATTGT
55934863 AATATTTGTATTATTTAA
1 AATATTTGTATTATTTAA
55934881 AATATTT-TA-TATTTAA
1 AATATTTGTATTATTTAA
55934897 AA
1 AA
55934899 GACATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AATATTTGTATTATTTAA
Found at i:55935285 original size:19 final size:19
Alignment explanation
Indices: 55935244--55935285 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
55935234 ATAAAACTTT
* *
55935244 AATTTTTAATAATTTTTTT
1 AATTTTTAATAATTATTTG
55935263 AATTTTTAAATAA-TATTTG
1 AATTTTT-AATAATTATTTG
55935282 AATT
1 AATT
55935286 GAACCTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTAATAATTATTTG
Found at i:55936549 original size:17 final size:17
Alignment explanation
Indices: 55936527--55936560 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55936517 TATTGGGTTC
55936527 ACCAAAAAGTCTCTTTA
1 ACCAAAAAGTCTCTTTA
* *
55936544 ACCAAATAGTTTCTTTA
1 ACCAAAAAGTCTCTTTA
55936561 CAAGCCTCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (17 bp):
ACCAAAAAGTCTCTTTA
Found at i:55943568 original size:24 final size:24
Alignment explanation
Indices: 55943540--55943587 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55943530 ATTTGGTGAG
* *
55943540 TTTAAA-TATAATTTACTCTAATTT
1 TTTAAATTA-AATTGACACTAATTT
55943564 TTTAAATTAAATTGACACTAATTT
1 TTTAAATTAAATTGACACTAATTT
55943588 AAAATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTAAATTAAATTGACACTAATTT
Found at i:55946577 original size:3 final size:3
Alignment explanation
Indices: 55946569--55946594 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
55946559 GCCTACTTTT
55946569 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
55946595 TAAGTGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:55947216 original size:23 final size:23
Alignment explanation
Indices: 55947186--55947235 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
55947176 TATTCACCAA
55947186 ATAAATAATATTTA-TTATACAAT
1 ATAAATAAT-TTTATTTATACAAT
*
55947209 ATAAATAATTTTATTTATATAAT
1 ATAAATAATTTTATTTATACAAT
55947232 ATAA
1 ATAA
55947236 GTTACGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATAATTTTATTTATACAAT
Found at i:55952520 original size:2 final size:2
Alignment explanation
Indices: 55952515--55952553 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
55952505 TATATATATA
55952515 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T- TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
55952554 GGTTTCAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:55953159 original size:18 final size:17
Alignment explanation
Indices: 55953136--55953169 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
55953126 TCTTTTTTAA
*
55953136 ATAATATTTATATCGATC
1 ATAATATGTAT-TCGATC
55953154 ATAATATGTATTCGAT
1 ATAATATGTATTCGAT
55953170 ATTCACTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (17 bp):
ATAATATGTATTCGATC
Found at i:55953239 original size:67 final size:67
Alignment explanation
Indices: 55953128--55953258 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 67
55953118 TTCTTCAATC
* * * * *
55953128 TTTTTTAAATAATATTTATATCGATCATAATATGTATTCGATATTCACTCAAATTCAAGTAACAA
1 TTTTTTAAATAATATTTATATAGAACAGAATATGTATTCAATATTCACTCAAATCCAAGTAACAA
55953193 AT
66 AT
*
55953195 TTTTTTAAATAATATTTATATAGAACAGAATATGTATTCAATATTCACTCAAATCCGAGTAACA
1 TTTTTTAAATAATATTTATATAGAACAGAATATGTATTCAATATTCACTCAAATCCAAGTAACA
55953259 GATTGGGGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (67 bp):
TTTTTTAAATAATATTTATATAGAACAGAATATGTATTCAATATTCACTCAAATCCAAGTAACAA
AT
Found at i:55954353 original size:25 final size:25
Alignment explanation
Indices: 55954319--55954367 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
55954309 AAATTTCTTT
* * *
55954319 ATATATTTTTATAATTTTTTTAAAA
1 ATATAATTTTAGAATTTTTATAAAA
*
55954344 ATATAATTTTGGAATTTTTATAAA
1 ATATAATTTTAGAATTTTTATAAA
55954368 TATTTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATATAATTTTAGAATTTTTATAAAA
Found at i:55954379 original size:18 final size:19
Alignment explanation
Indices: 55954356--55954391 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
55954346 ATAATTTTGG
*
55954356 AATTTTTATAAA-TATTTA
1 AATTTTTACAAATTATTTA
55954374 AATTTTTACAAATTATTT
1 AATTTTTACAAATTATTT
55954392 TGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTTTACAAATTATTTA
Found at i:55954882 original size:20 final size:20
Alignment explanation
Indices: 55954857--55954898 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
55954847 ATGGGTAAAA
*
55954857 TTTTTACACAAATTCATATT
1 TTTTTACACAAATTAATATT
* *
55954877 TTTTTATACAAGTTAATATT
1 TTTTTACACAAATTAATATT
55954897 TT
1 TT
55954899 GACAATACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTTACACAAATTAATATT
Found at i:55960513 original size:26 final size:26
Alignment explanation
Indices: 55960482--55960534 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
55960472 CCCATTTTTT
* * * *
55960482 AATAAACATTAAAAAATTGTTTTAAA
1 AATAAAAAATAAAAAAATATTTTAAA
55960508 AATAAAAAATAAAAAAATATTTTAAA
1 AATAAAAAATAAAAAAATATTTTAAA
55960534 A
1 A
55960535 GTATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (26 bp):
AATAAAAAATAAAAAAATATTTTAAA
Found at i:55960564 original size:14 final size:13
Alignment explanation
Indices: 55960542--55960575 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
55960532 AAAGTATTTT
*
55960542 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
55960556 AAAAATAAAAATA
1 AAAAATAAAAATA
55960569 AAAAATA
1 AAAAATA
55960576 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:55987551 original size:69 final size:70
Alignment explanation
Indices: 55987376--55987551 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
55987366 CTTTCAAAGG
* ** *
55987376 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
55987441 TTTTT
66 GTTTT
* ** * *
55987446 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
55987511 TGTTTT
65 TGTTTT
** *
55987517 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
55987552 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:55987690 original size:74 final size:74
Alignment explanation
Indices: 55987569--55987906 Score: 441
Period size: 72 Copynumber: 4.5 Consensus size: 74
55987559 TTTGTTTTTC
*
55987569 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
55987634 GTTGTT-AAA
66 GTT-TTAAAA
**
55987643 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
55987708 GTTTT--CA
66 GTTTTAAAA
* * ** * * *
55987715 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
55987780 GTTTTCAAAAA
66 GTTTT--AAAA
* * * *
55987791 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCATC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
55987855 TCTGTTTTTAAAA
63 TCTG-TTTTAAAA
*
55987868 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
55987907 ATTACACACT
Statistics
Matches: 236, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
72 66 0.28
73 2 0.01
74 65 0.28
75 1 0.00
76 34 0.14
77 39 0.17
78 25 0.11
79 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:55988353 original size:88 final size:88
Alignment explanation
Indices: 55988127--55988374 Score: 313
Period size: 88 Copynumber: 2.8 Consensus size: 88
55988117 GTGTTTAATT
*
55988127 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TCT
*
55988191 CTTTT-AATTTATGTTTTTCAAAAAAAA
62 GTTTTCAATTTATGTTTTT-AAAAAAAA
* *
55988218 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
* *
55988283 TCATTATTATGTTTTT-GAAAAAA
66 TCAAT-TTATGTTTTTAAAAAAAA
** * ** *
55988306 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
55988371 TCAA
66 TCAA
55988375 AATTCAACTC
Statistics
Matches: 139, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
87 1 0.01
88 70 0.50
89 18 0.13
90 10 0.07
91 40 0.29
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (88 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTTT
TCAATTTATGTTTTTAAAAAAAA
Found at i:55988490 original size:73 final size:72
Alignment explanation
Indices: 55988301--55988558 Score: 410
Period size: 73 Copynumber: 3.5 Consensus size: 72
55988291 ATGTTTTTGA
*
55988301 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
55988366 TGTTTTC
66 TGTTTTC
* *
55988373 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
55988438 TGCTTTTC
66 TG-TTTTC
* * *
55988446 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
55988511 TGTTGTC
66 TGTTTTC
55988518 AAAAAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 --AAAAATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
55988559 GTTCACATGT
Statistics
Matches: 174, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
72 68 0.39
73 72 0.41
74 34 0.20
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:55999821 original size:28 final size:29
Alignment explanation
Indices: 55999756--55999823 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
55999746 AATAAACACC
*
55999756 AAAAAAT-TATTTTAAAAAATAAAATATT
1 AAAAAATATATTTTAAAAAATAAAAAATT
*** *
55999784 TTTAAA-ATATTTT-AAAATTAAAAAATT
1 AAAAAATATATTTTAAAAAATAAAAAATT
55999811 AAAAAATATATTT
1 AAAAAATATATTT
55999824 ATTATATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAAAATATATTTTAAAAAATAAAAAATT
Found at i:56000710 original size:13 final size:12
Alignment explanation
Indices: 56000674--56000710 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
56000664 TAATTATGTC
56000674 AAAATTTAAATA
1 AAAATTTAAATA
56000686 AAAATTTAAAATA
1 AAAATTT-AAATA
56000699 AAAATTATAAAT
1 AAAATT-TAAAT
56000711 TATTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 15 0.65
14 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTTAAATA
Found at i:56004604 original size:15 final size:15
Alignment explanation
Indices: 56004575--56004618 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
56004565 TGTCCAAAAA
*
56004575 TATTTAATTTTTATT
1 TATTTAATTTATATT
*
56004590 TATTTAATTGATATT
1 TATTTAATTTATATT
*
56004605 T-TTGAATTTATATT
1 TATTTAATTTATATT
56004619 CCGTCTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
TATTTAATTTATATT
Found at i:56011610 original size:46 final size:45
Alignment explanation
Indices: 56011543--56011740 Score: 229
Period size: 46 Copynumber: 4.6 Consensus size: 45
56011533 TTTGAGTACT
*
56011543 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
56011589 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
56011625 TATGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
56011671 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
56011716 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
56011741 ATCATATGTA
Statistics
Matches: 131, Mismatches: 11, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
36 27 0.21
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.03
43 15 0.11
44 3 0.02
45 20 0.15
46 56 0.43
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:56011625 original size:36 final size:36
Alignment explanation
Indices: 56011579--56011651 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
56011569 GGTAGCTTTA
*
56011579 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATATGATCAAGTGAAAAAGTGATAAGT
* *
56011615 GCTATACTTATATGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATATGATCAAGTGAAAAAGTGATAAGT
56011651 G
1 G
56011652 TTAGCCTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATATGATCAAGTGAAAAAGTGATAAGT
Found at i:56011639 original size:82 final size:82
Alignment explanation
Indices: 56011545--56011697 Score: 279
Period size: 82 Copynumber: 1.9 Consensus size: 82
56011535 TGAGTACTTC
*
56011545 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
56011610 TAAGTGCTATACTTATA
66 TAAGTGCTATACTTATA
* *
56011627 TGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
56011692 TAAGTG
66 TAAGTG
56011698 GTAGCCTAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (82 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
TAAGTGCTATACTTATA
Found at i:56013545 original size:29 final size:29
Alignment explanation
Indices: 56013511--56013605 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
56013501 ACAAAATTGA
*
56013511 ATAGTTGAATGACCATGTTATAATTTTTC
1 ATAGTTGAATGACCATATTATAATTTTTC
* ** * ** *
56013540 ATAGTTGAGTGA-CATAAAAGAAAGTTACTA
1 ATAGTTGAATGACCATATTA-TAA-TTTTTC
* *
56013570 ATAGTCGAATGACCATTTTATAATTTTTC
1 ATAGTTGAATGACCATATTATAATTTTTC
56013599 ATAGTTG
1 ATAGTTG
56013606 GGATGACAAA
Statistics
Matches: 45, Mismatches: 18, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
28 4 0.09
29 22 0.49
30 15 0.33
31 4 0.09
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (29 bp):
ATAGTTGAATGACCATATTATAATTTTTC
Found at i:56017901 original size:16 final size:16
Alignment explanation
Indices: 56017880--56017910 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56017870 GTCTAAATTT
*
56017880 TCACCAACATACAATG
1 TCACCAACACACAATG
56017896 TCACCAACACACAAT
1 TCACCAACACACAAT
56017911 TGTTGCTGCA
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:0.45, C:0.35, G:0.03, T:0.16
Consensus pattern (16 bp):
TCACCAACACACAATG
Found at i:56019878 original size:12 final size:12
Alignment explanation
Indices: 56019861--56019889 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
56019851 ATAAGATATA
56019861 TTATTATCGTAT
1 TTATTATCGTAT
56019873 TTATTATCGTAT
1 TTATTATCGTAT
56019885 TTATT
1 TTATT
56019890 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (12 bp):
TTATTATCGTAT
Found at i:56021764 original size:24 final size:24
Alignment explanation
Indices: 56021737--56021798 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
56021727 ATTCCTTTGT
56021737 TTTTTTTTCTCTTGA-TTTTAATGA
1 TTTTTTTTCT-TTGATTTTTAATGA
** *
56021761 TTTTTTAGCTTTGATTTTTGATGA
1 TTTTTTTTCTTTGATTTTTAATGA
*
56021785 TTTCTTTTGCTTTG
1 TTT-TTTTTCTTTG
56021799 GGGTTTAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 19 0.59
25 9 0.28
ACGTcount: A:0.13, C:0.08, G:0.13, T:0.66
Consensus pattern (24 bp):
TTTTTTTTCTTTGATTTTTAATGA
Found at i:56034163 original size:29 final size:29
Alignment explanation
Indices: 56034131--56034186 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
56034121 AATGATTTTT
* *
56034131 TTTAATAATACATGTACTAAATTGATCCA
1 TTTAATAATACAAGGACTAAATTGATCCA
*
56034160 TTTAATAATACAAGGACTAATTTGATC
1 TTTAATAATACAAGGACTAAATTGATC
56034187 AGGTCCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTAATAATACAAGGACTAAATTGATCCA
Found at i:56036158 original size:171 final size:170
Alignment explanation
Indices: 56035812--56036206 Score: 458
Period size: 171 Copynumber: 2.3 Consensus size: 170
56035802 TTTCTGCTGG
* * *
56035812 TACTTTTTACAAACACATTGACTACATTCCATTTTTGTATCTAATTCAAAATAACAACCTAAACA
1 TACTTTTTACAAACACATTGACTACATTGCATATTTGCA-CTAATTCAAAATAACAACCTAAACA
* * *
56035877 AAAGACTGACGGGTTCTTCACATACATCCAAGAGATAAAATTCATGAAACGGGCATGACAAAAAT
65 AAAGACTGAAGGGTTCTTAACATACATCCAAGAGATAAAATTCATAAAACGGGCATGACAAAAAT
* * *
56035942 TGAGATTTTACACGTAAAATAATAGAACCACTGTCTGTTAA
130 TGACATTTTACACGTAAAATAATAGAACCACTGTCCGTCAA
* * * *
56035983 TACTTTTAACAAACACATTGACTACATTGCATATCTGCACATAATTCAAAATAACGAGCTAAACA
1 TACTTTTTACAAACACATTGACTACATTGCATATTTGCAC-TAATTCAAAATAACAACCTAAACA
* * * * * *
56036048 AATA-ACT-AAGGGCTTCTTAACATACATTCAAGAGATCAAATTCATAAAATGGGTATTAGAGAA
65 AA-AGACTGAAGGG-TTCTTAACATACATCCAAGAGATAAAATTCATAAAACGGGCATGACA-AA
** * *
56036111 AA-TGACATTTTATGCGT-AAATGCATAGCAA-CACTTTCCGTCAA
127 AATTGACATTTTACACGTAAAAT-AATAG-AACCACTGTCCGTCAA
56036154 TACTTTTTTACAAACACATTGACTACATTGCATATTTGCACCTAATTCTAAAA
1 TAC-TTTTTACAAACACATTGACTACATTGCATATTTGCA-CTAATTC-AAAA
56036207 CAAATAACTA
Statistics
Matches: 190, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
170 9 0.05
171 129 0.68
172 47 0.25
173 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (170 bp):
TACTTTTTACAAACACATTGACTACATTGCATATTTGCACTAATTCAAAATAACAACCTAAACAA
AAGACTGAAGGGTTCTTAACATACATCCAAGAGATAAAATTCATAAAACGGGCATGACAAAAATT
GACATTTTACACGTAAAATAATAGAACCACTGTCCGTCAA
Found at i:56042250 original size:2 final size:2
Alignment explanation
Indices: 56042243--56042271 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56042233 CTTTAACATT
56042243 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
56042272 AATCAATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:56046246 original size:29 final size:30
Alignment explanation
Indices: 56046180--56046246 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 30
56046170 TTTATGTGTT
* *
56046180 ATTTA-ATTTAAATTTTTTGTATTTTTATA
1 ATTTATATTTTAATTTTTTGTAGTTTTATA
*
56046209 A-TAAT-TTTTAATTTTTTGTAGTTTTA-A
1 ATTTATATTTTAATTTTTTGTAGTTTTATA
56046236 ATTTATATTTT
1 ATTTATATTTT
56046247 TTTTATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
27 2 0.06
28 24 0.77
29 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (30 bp):
ATTTATATTTTAATTTTTTGTAGTTTTATA
Found at i:56048083 original size:31 final size:31
Alignment explanation
Indices: 56048048--56048119 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
56048038 TTTGATGAAT
56048048 TTTGACTTAAGCAACTAATTATCTGATTTAA
1 TTTGACTTAAGCAACTAATTATCTGATTTAA
* *
56048079 TTTGACTTAAGTAACTAATTATTTGATTTAA
1 TTTGACTTAAGCAACTAATTATCTGATTTAA
56048110 TTTGACTTAA
1 TTTGACTTAA
56048120 TTATTCACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (31 bp):
TTTGACTTAAGCAACTAATTATCTGATTTAA
Found at i:56056247 original size:33 final size:33
Alignment explanation
Indices: 56056208--56056275 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
56056198 TCAAAGAATA
*
56056208 ATCAATCTTTTATATGGTTGATGGTATAATCAG
1 ATCAATCTTTTATATGGTTGATGGTATAATAAG
56056241 ATCAATCTTTTATATGGTTGATGGTATAATAAG
1 ATCAATCTTTTATATGGTTGATGGTATAATAAG
56056274 AT
1 AT
56056276 TGTGACACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (33 bp):
ATCAATCTTTTATATGGTTGATGGTATAATAAG
Found at i:56057707 original size:22 final size:22
Alignment explanation
Indices: 56057681--56057782 Score: 75
Period size: 22 Copynumber: 4.5 Consensus size: 22
56057671 CAGATTAATT
56057681 GTTTAATTTAAAATATTTTAAA
1 GTTTAATTTAAAATATTTTAAA
* * *
56057703 GTTTAATATAAAATTTGGTATTTAA
1 GTTTAATTTAAAATAT--T-TTAAA
*
56057728 --TTAATATAATAATGAATTTTAAAA
1 GTTTAATTTAA-AAT--ATTTT-AAA
*
56057752 ATTTAA-TTAAAATATTTTAAA
1 GTTTAATTTAAAATATTTTAAA
56057773 GTTTAATTTA
1 GTTTAATTTA
56057783 GACCAAGGGC
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
21 8 0.13
22 22 0.35
23 11 0.17
24 10 0.16
25 7 0.11
26 5 0.08
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
GTTTAATTTAAAATATTTTAAA
Found at i:56060822 original size:30 final size:30
Alignment explanation
Indices: 56060788--56060851 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
56060778 TTTGGACTTG
** *
56060788 TTGATTCTTTTTAATAGTACAGGGACTAAA
1 TTGATTCCATTTAATAATACAGGGACTAAA
* *
56060818 TTGA-TCCATTTAATAATAGAGGGACTAAT
1 TTGATTCCATTTAATAATACAGGGACTAAA
56060847 TTGAT
1 TTGAT
56060852 CCAGTCACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (30 bp):
TTGATTCCATTTAATAATACAGGGACTAAA
Found at i:56060829 original size:29 final size:29
Alignment explanation
Indices: 56060797--56060872 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
56060787 GTTGATTCTT
*
56060797 TTTAATAGTACAGGGACTAAATTGATCCA
1 TTTAATAATACAGGGACTAAATTGATCCA
* *
56060826 TTTAATAATAGAGGGACTAATTTGATCCA
1 TTTAATAATACAGGGACTAAATTGATCCA
* *
56060855 GTCACTATAATACAGGGA
1 TTTA--ATAATACAGGGA
56060873 TTTCCCAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 28 0.72
31 11 0.28
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (29 bp):
TTTAATAATACAGGGACTAAATTGATCCA
Found at i:56064617 original size:31 final size:28
Alignment explanation
Indices: 56064573--56064632 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 28
56064563 TTACAAAATT
56064573 ATCACTAAACTATTCAAAAGTTTTTATTTAA
1 ATCACTAAACTATT---AAGTTTTTATTTAA
* * *
56064604 ATCACTGAGCTATTAAGTTTTTTTTTAA
1 ATCACTAAACTATTAAGTTTTTATTTAA
56064632 A
1 A
56064633 AAGGAAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 14 0.54
31 12 0.46
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (28 bp):
ATCACTAAACTATTAAGTTTTTATTTAA
Found at i:56070160 original size:9 final size:10
Alignment explanation
Indices: 56070146--56070216 Score: 78
Period size: 9 Copynumber: 7.5 Consensus size: 10
56070136 ACCAAAGGTT
56070146 TAAATAA-AA
1 TAAATAATAA
*
56070155 TAAATAAAAA
1 TAAATAATAA
**
56070165 TAAATAGGAA
1 TAAATAATAA
*
56070175 GAAATAATAA
1 TAAATAATAA
56070185 T-AATAATAA
1 TAAATAATAA
56070194 T-AATAATAA
1 TAAATAATAA
56070203 T-AATAATAA
1 TAAATAATAA
56070212 TAAAT
1 TAAAT
56070217 TTATTAAGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
9 34 0.63
10 20 0.37
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (10 bp):
TAAATAATAA
Found at i:56070185 original size:3 final size:3
Alignment explanation
Indices: 56070177--56070214 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
56070167 AATAGGAAGA
56070177 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56070215 ATTTATTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56085811 original size:3 final size:3
Alignment explanation
Indices: 56085803--56085851 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
56085793 TTATAAACAA
56085803 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
56085851 A
1 A
56085852 GTGAATGATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:56089525 original size:39 final size:40
Alignment explanation
Indices: 56089482--56089566 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
56089472 TAGGTATATG
56089482 CTAGAAATATGTCCT-ATGTGTAAAGGCAAAATCTGCATA
1 CTAGAAATATGTCCTAATGTGTAAAGGCAAAATCTGCATA
56089521 CTAGAAATATGTCCTAATGTGTAAAGGCAAAATCTGCATA
1 CTAGAAATATGTCCTAATGTGTAAAGGCAAAATCTGCATA
*
56089561 CCAGAA
1 CTAGAA
56089567 TGTAAACTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 15 0.34
40 29 0.66
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (40 bp):
CTAGAAATATGTCCTAATGTGTAAAGGCAAAATCTGCATA
Found at i:56092452 original size:132 final size:131
Alignment explanation
Indices: 56092269--56092536 Score: 425
Period size: 132 Copynumber: 2.0 Consensus size: 131
56092259 AAGAGTATTA
56092269 AAACAGTAAATTATACTGGTCAGCTTCCATTAATAAACATTTGTAGAATCATG-AA-ATAGAAAT
1 AAACAGTAAATTATACTGGTCAGCTTCCATTAATAAACATTTGTAGAATCATGAAATATAGAAAT
* *
56092332 ATAATACTACACGATAAAATAAACCA-CTGAAAGCTTTATTTAACATATAGTTATTAAAATCAAA
66 ATAAAACT--ACGATAAAATAAACCATC-GAAAGCTTCATTTAACATATAGTTA-TAAAATCAAA
56092396 AGCAG
127 AGCAG
**
56092401 AAACAGTAAATTATACTGGTTGGCTTCCATTAATAAACATTTGTAGAATCATGAAAATATAGAAA
1 AAACAGTAAATTATACTGGTCAGCTTCCATTAATAAACATTTGTAGAATCATG-AAATATAGAAA
*
56092466 TATAAAACTACGATAAAATAAACCATCGAAAGCTTCATTTAACTTATAGTTATAAAATCAAAAGC
65 TATAAAACTACGATAAAATAAACCATCGAAAGCTTCATTTAACATATAGTTATAAAATCAAAAGC
56092531 AG
130 AG
56092533 AAAC
1 AAAC
56092537 TATGATCTGA
Statistics
Matches: 127, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
132 70 0.55
133 39 0.31
134 3 0.02
135 15 0.12
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (131 bp):
AAACAGTAAATTATACTGGTCAGCTTCCATTAATAAACATTTGTAGAATCATGAAATATAGAAAT
ATAAAACTACGATAAAATAAACCATCGAAAGCTTCATTTAACATATAGTTATAAAATCAAAAGCA
G
Found at i:56099538 original size:31 final size:31
Alignment explanation
Indices: 56099503--56099569 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
56099493 CAAAATGGTT
56099503 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
* * * * * *
56099534 ATTGAATTGTTCCATAGTTTTTATTTATGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
56099565 ATTGA
1 ATTGA
56099570 GTTGTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTC
Found at i:56101099 original size:28 final size:29
Alignment explanation
Indices: 56101068--56101122 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
56101058 AGTATTATCA
* * *
56101068 TAAAATTATTTAACATAATT-AATAATTT
1 TAAAATTATATAAAAAAATTAAATAATTT
*
56101096 TAAATTTATATAAAAAAATTAAATAAT
1 TAAAATTATATAAAAAAATTAAATAAT
56101123 AAAAAAACGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 16 0.73
29 6 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAAATTATATAAAAAAATTAAATAATTT
Found at i:56101424 original size:9 final size:9
Alignment explanation
Indices: 56101412--56101442 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56101402 TTTTATACGT
56101412 TTTTAATAA
1 TTTTAATAA
56101421 TTTTAATAA
1 TTTTAATAA
*
56101430 TTTTAATGA
1 TTTTAATAA
56101439 TTTT
1 TTTT
56101443 TCTTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:56101858 original size:17 final size:17
Alignment explanation
Indices: 56101812--56101860 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
56101802 ATTAATCATA
*
56101812 TATATTTATATTTATAT
1 TATATTTATAATTATAT
* *
56101829 TAAATTTAAAATTATAT
1 TATATTTATAATTATAT
56101846 TATA-TTATTAATTAT
1 TATATTTA-TAATTAT
56101861 TTTTGTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 3 0.12
17 23 0.88
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTATAATTATAT
Found at i:56102085 original size:16 final size:16
Alignment explanation
Indices: 56102064--56102099 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
56102054 AATGGAAAGC
*
56102064 AAATTATTTTTTCTTT
1 AAATTATTTGTTCTTT
56102080 AAATTATTTGTTCTTT
1 AAATTATTTGTTCTTT
56102096 AAAT
1 AAAT
56102100 GTGTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (16 bp):
AAATTATTTGTTCTTT
Found at i:56104704 original size:30 final size:30
Alignment explanation
Indices: 56104670--56104729 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56104660 ACTTAACAAG
56104670 CAAATGCCTCTAAAAAAATAACAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
* * *
56104700 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
56104730 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAAAAATAACAAAATTAA
Found at i:56104732 original size:12 final size:12
Alignment explanation
Indices: 56104710--56104738 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56104700 CAAATGCCTT
56104710 TAAAA-TAATAA
1 TAAAATTAATAA
56104721 TAAAATTAATAA
1 TAAAATTAATAA
56104733 TAAAAT
1 TAAAAT
56104739 AAATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:56106167 original size:13 final size:13
Alignment explanation
Indices: 56106149--56106173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56106139 TTTCTGCAAA
56106149 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
56106162 AAAAAAGAAAAA
1 AAAAAAGAAAAA
56106174 TAGGGTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:56107713 original size:31 final size:31
Alignment explanation
Indices: 56107678--56107752 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
56107668 CAACCCAATA
*
56107678 ACTTAAATAAAAACTTTCGAATAGTTC-AGT
1 ACTTAAATAAAAACTTTCGAATAGTTCAAAT
* *
56107708 GACTTAGATAAAAACTTTTGAATAGTTCAAAT
1 -ACTTAAATAAAAACTTTCGAATAGTTCAAAT
56107740 ACTTAAATAAAAA
1 ACTTAAATAAAAA
56107753 GGCCCCATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCGAATAGTTCAAAT
Found at i:56110547 original size:16 final size:17
Alignment explanation
Indices: 56110519--56110550 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56110509 TTTGACTATT
56110519 TTAAAAAATTAATTTAG
1 TTAAAAAATTAATTTAG
56110536 TTAAAAAA-TAATTTA
1 TTAAAAAATTAATTTA
56110551 ATAGGAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TTAAAAAATTAATTTAG
Found at i:56111585 original size:10 final size:9
Alignment explanation
Indices: 56111572--56111629 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
56111562 TTGAAAAAAC
56111572 TAAATTGATA
1 TAAATT-ATA
56111582 TAAAGTTAT-
1 TAAA-TTATA
56111591 TAAAATTAATA
1 T-AAATT-ATA
56111602 TAAATT-TA
1 TAAATTATA
56111610 TAAATTATA
1 TAAATTATA
*
56111619 AAAATT-TA
1 TAAATTATA
56111627 TAA
1 TAA
56111630 GAGTAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 12 0.29
9 10 0.24
10 16 0.39
11 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (9 bp):
TAAATTATA
Found at i:56111596 original size:20 final size:20
Alignment explanation
Indices: 56111573--56111610 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56111563 TGAAAAAACT
*
56111573 AAATTGATATAAAGTTATTA
1 AAATTAATATAAAGTTATTA
*
56111593 AAATTAATATAAATTTAT
1 AAATTAATATAAAGTTAT
56111611 AAATTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AAATTAATATAAAGTTATTA
Found at i:56111616 original size:18 final size:18
Alignment explanation
Indices: 56111572--56111645 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
56111562 TTGAAAAAAC
* *
56111572 TAAATTGATATAAAGTTA
1 TAAATTAATATAAATTTA
56111590 TTAAAATTAATATAAATTTA
1 -T-AAATTAATATAAATTTA
*
56111610 TAAATT-ATAAAAATTTA
1 TAAATTAATATAAATTTA
*
56111627 TAAGAGTAATA-AAATTTA
1 TAA-ATTAATATAAATTTA
56111645 T
1 T
56111646 TGAAGATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 13 0.27
18 15 0.31
19 5 0.10
20 15 0.31
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TAAATTAATATAAATTTA
Found at i:56114564 original size:211 final size:210
Alignment explanation
Indices: 56114192--56114612 Score: 815
Period size: 211 Copynumber: 2.0 Consensus size: 210
56114182 GATGTGCAAG
56114192 CTAAGCAGCACTTAGTGTGTATTTTCTTTTGAATAATGGTAACGTGATAGATTTGGGAGATGAAC
1 CTAAGCAGCACTTAGTGTGTATTTTCTTTTGAATAATGGTAACGTGATAGATTTGGGAGATGAAC
56114257 TGTTTATGCTTTGACATTTGCTTTTTTAACTGTTGGGAGCTTAAATTTCATTTCATTCAATGAAC
66 TGTTTATGCTTTGACATTTGCTTTTTTAACTGTTGGGAGCTTAAATTTCATTTCATTCAATGAAC
56114322 TTGAGAATCTTTTTCTTTCTTTTTCGCTTTTGTTTGTTGCTTTCGCATGTGATCCGTGGAGGTTT
131 TTGAGAATCTTTTTCTTTCTTTTTCGCTTTTGTTTGTTGCTTTCGCATGTGATCCGTGGAGGTTT
56114387 TGGTATTATTGTGTA
196 TGGTATTATTGTGTA
*
56114402 CTAAGCGGCACTTAGTGTGTATTTTCTTTTGAATAATGGTAACGTGATAGATTTGGGAGATGGAA
1 CTAAGCAGCACTTAGTGTGTATTTTCTTTTGAATAATGGTAACGTGATAGATTTGGGAGAT-GAA
56114467 CTGTTTATGCTTTGACATTTGCTTTTTTAACTGTTGGGAGCTTAAATTTCATTTCATTCAATGAA
65 CTGTTTATGCTTTGACATTTGCTTTTTTAACTGTTGGGAGCTTAAATTTCATTTCATTCAATGAA
*
56114532 CTTGAGAATCTTTTTCTTTCTTTTTTGCTTTTGTTTGTTGCTTTCGCATGTGATCCGTGGAGGTT
130 CTTGAGAATCTTTTTCTTTCTTTTTCGCTTTTGTTTGTTGCTTTCGCATGTGATCCGTGGAGGTT
56114597 TTGGTATTATTGTGTA
195 TTGGTATTATTGTGTA
56114613 TAGCTTTGTG
Statistics
Matches: 208, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
210 60 0.29
211 148 0.71
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.46
Consensus pattern (210 bp):
CTAAGCAGCACTTAGTGTGTATTTTCTTTTGAATAATGGTAACGTGATAGATTTGGGAGATGAAC
TGTTTATGCTTTGACATTTGCTTTTTTAACTGTTGGGAGCTTAAATTTCATTTCATTCAATGAAC
TTGAGAATCTTTTTCTTTCTTTTTCGCTTTTGTTTGTTGCTTTCGCATGTGATCCGTGGAGGTTT
TGGTATTATTGTGTA
Found at i:56116942 original size:36 final size:36
Alignment explanation
Indices: 56116894--56116979 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
56116884 CGACCCCTCG
**
56116894 GACT-GGAGCAAACTATCCGAAGCTATTGGCACCGCC
1 GACTGGGA-CAAACTATCCGAAGCTATCAGCACCGCC
* *
56116930 GACTGGGACAAACTATCCGAAGCTCTCAGCACCGCT
1 GACTGGGACAAACTATCCGAAGCTATCAGCACCGCC
*
56116966 GACTGGAACAAACT
1 GACTGGGACAAACT
56116980 GTCCAAAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 41 0.93
37 3 0.07
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.16
Consensus pattern (36 bp):
GACTGGGACAAACTATCCGAAGCTATCAGCACCGCC
Found at i:56118119 original size:10 final size:10
Alignment explanation
Indices: 56118106--56118153 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
56118096 AATTTACAGA
56118106 AATATTAAAT
1 AATATTAAAT
56118116 AATATT--AT
1 AATATTAAAT
*
56118124 AAT-TTACAT
1 AATATTAAAT
56118133 AAATATTAAAT
1 -AATATTAAAT
56118144 AATATTAAAT
1 AATATTAAAT
56118154 TTTGACAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 2 0.06
8 5 0.15
9 2 0.06
10 19 0.58
11 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATTAAAT
Found at i:56118131 original size:28 final size:27
Alignment explanation
Indices: 56118092--56118155 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 27
56118082 CTCCTAGTAA
56118092 ATTAAATTTACAGAAATATTAAATAAT
1 ATTAAATTTACAGAAATATTAAATAAT
*
56118119 ATTATAATTTACATAAATATTAAATAAT
1 ATTA-AATTTACAGAAATATTAAATAAT
56118147 ATTAAATTT
1 ATTAAATTT
56118156 TGACAGTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 9 0.26
28 26 0.74
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTAAATTTACAGAAATATTAAATAAT
Found at i:56125767 original size:19 final size:20
Alignment explanation
Indices: 56125731--56125769 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
56125721 ATTAATATAC
*
56125731 GTTAAATATTTGATATTTAT
1 GTTAAATATTTGAGATTTAT
*
56125751 GTTAAA-ATTTTAGATTTAT
1 GTTAAATATTTGAGATTTAT
56125770 CGTAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
GTTAAATATTTGAGATTTAT
Found at i:56126245 original size:17 final size:20
Alignment explanation
Indices: 56126209--56126247 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
56126199 AGAATATTAT
56126209 AATAAAATAAATTGGGAAAA
1 AATAAAATAAATTGGGAAAA
56126229 AATAAAA-AAA-T-GGAAAA
1 AATAAAATAAATTGGGAAAA
56126246 AA
1 AA
56126248 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
19 3 0.16
20 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (20 bp):
AATAAAATAAATTGGGAAAA
Found at i:56126248 original size:18 final size:20
Alignment explanation
Indices: 56126209--56126248 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
56126199 AGAATATTAT
*
56126209 AATAAAATAAATTGGGAAAA
1 AATAAAATAAATTGGAAAAA
56126229 AATAAAA-AAA-TGGAAAAA
1 AATAAAATAAATTGGAAAAA
56126247 AA
1 AA
56126249 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (20 bp):
AATAAAATAAATTGGAAAAA
Found at i:56126266 original size:21 final size:20
Alignment explanation
Indices: 56126225--56126266 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
56126215 ATAAATTGGG
56126225 AAAAAATAAAAAAATGGAAAA
1 AAAAAATAAAAAAAT-GAAAA
* *
56126246 AAAAATTAAAAAAATTAAAA
1 AAAAAATAAAAAAATGAAAA
56126266 A
1 A
56126267 TATCAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (20 bp):
AAAAAATAAAAAAATGAAAA
Found at i:56134435 original size:15 final size:15
Alignment explanation
Indices: 56134408--56134437 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56134398 ATTTAATAAT
56134408 TTTATAAATTTTTTA
1 TTTATAAATTTTTTA
56134423 TTTATTAAATTTTTT
1 TTTA-TAAATTTTTT
56134438 TCTATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATAAATTTTTTA
Found at i:56134520 original size:16 final size:17
Alignment explanation
Indices: 56134485--56134546 Score: 69
Period size: 16 Copynumber: 3.8 Consensus size: 17
56134475 AGAGTGTTAT
56134485 TATAAAAA-AATATAATA
1 TATAAAAATAATAT-ATA
56134502 TATAAAAATAATATA-A
1 TATAAAAATAATATATA
*
56134518 TAT-AAAGTACATA-ATA
1 TATAAAAATA-ATATATA
56134534 TATAAAAATAATA
1 TATAAAAATAATA
56134547 GTATTATTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 6 0.15
16 14 0.36
17 14 0.36
18 5 0.13
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
TATAAAAATAATATATA
Found at i:56135048 original size:20 final size:20
Alignment explanation
Indices: 56135010--56135048 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
56135000 GAATATTCTA
*
56135010 TGGATAATATAATTTAAATT
1 TGGATAATATAATTCAAATT
56135030 TGGATAATA-ATATTCAAAT
1 TGGATAATATA-ATTCAAAT
56135049 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (20 bp):
TGGATAATATAATTCAAATT
Found at i:56152058 original size:32 final size:31
Alignment explanation
Indices: 56152002--56152062 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
56151992 AACCAACTTG
*
56152002 AAAATTTTAAAACCTCCAATGACTCAGACCCA
1 AAAATTTTAAAACCTCCAAGGACTC-GACCCA
* **
56152034 AAAATTTTAGAACCTTGAAGGACTCGACC
1 AAAATTTTAAAACCTCCAAGGACTCGACC
56152063 TGAAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (31 bp):
AAAATTTTAAAACCTCCAAGGACTCGACCCA
Found at i:56154597 original size:23 final size:23
Alignment explanation
Indices: 56154571--56154616 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
56154561 TTTGCTTCTC
*
56154571 CTTGCCAGAAGTGTTTTTCAAAA
1 CTTGCCAGAAGTATTTTTCAAAA
56154594 CTTGCCAGAAGTATTTTTCAAAA
1 CTTGCCAGAAGTATTTTTCAAAA
56154617 GTATTTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (23 bp):
CTTGCCAGAAGTATTTTTCAAAA
Found at i:56155372 original size:13 final size:15
Alignment explanation
Indices: 56155342--56155373 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56155332 ATATTTCATG
56155342 CATTTCATCAATAAT
1 CATTTCATCAATAAT
56155357 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
56155370 CATT
1 CATT
56155374 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Found at i:56155897 original size:6 final size:6
Alignment explanation
Indices: 56155860--56155902 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
56155850 CCAAACACAC
* *
56155860 CAGTATA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
56155903 TTCAACACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (6 bp):
CAGTAA
Found at i:56155932 original size:39 final size:39
Alignment explanation
Indices: 56155886--56155981 Score: 147
Period size: 39 Copynumber: 2.4 Consensus size: 39
56155876 GTAACGGTAG
*
56155886 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
* *
56155925 CTGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
*
56155964 CAGTAATTAGTAACAGTA
1 CAGTAA-CAGTAACAGTA
56155982 ACAGTAGTCG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 41 0.80
40 10 0.20
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
Found at i:56156014 original size:45 final size:46
Alignment explanation
Indices: 56155927--56156014 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
56155917 TGCTGAATCT
*
56155927 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAATTA
1 GTAACAGTAACAGTAGTCGACACACAAAGTGCCGAATCAGTAATTA
* * **
56155973 GTAACAGTAACAGTAGTCGGCACA-TAAGTGCTTAATCAGTAA
1 GTAACAGTAACAGTAGTCGACACACAAAGTGCCGAATCAGTAA
56156015 GCCGACAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 15 0.41
46 22 0.59
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (46 bp):
GTAACAGTAACAGTAGTCGACACACAAAGTGCCGAATCAGTAATTA
Found at i:56169723 original size:17 final size:19
Alignment explanation
Indices: 56169701--56169745 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
56169691 TAAAAATATA
*
56169701 TAAATTATTTTA-ATTA-T
1 TAAATTATTTTATACTATT
56169718 TAAATT-TTTTATACTATT
1 TAAATTATTTTATACTATT
56169736 TAAATTATTT
1 TAAATTATTT
56169746 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 7 0.29
19 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAATTATTTTATACTATT
Found at i:56169752 original size:17 final size:17
Alignment explanation
Indices: 56169701--56169753 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
56169691 TAAAAATATA
*
56169701 TAAATTATTTTAATTA-T
1 TAAATTA-TTTATTTATT
* *
56169718 TAAATTTTTTATACTATT
1 TAAATTATTTAT-TTATT
56169736 TAAATTATTTATTTATT
1 TAAATTATTTATTTATT
56169753 T
1 T
56169754 TATACTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 4 0.14
17 13 0.45
18 12 0.41
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TAAATTATTTATTTATT
Found at i:56169770 original size:25 final size:26
Alignment explanation
Indices: 56169724--56169782 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
56169714 TTATTAAATT
*
56169724 TTTTATACTATTTAAATTATTTATTTA
1 TTTTATACTA-TTAAATTATTTATATA
56169751 TTTTATACTA-T-AATTAATTTATATA
1 TTTTATACTATTAAATT-ATTTATATA
56169776 TTTTATA
1 TTTTATA
56169783 TAATTAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 16 0.53
27 10 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTATACTATTAAATTATTTATATA
Done.