Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 302 of 316
Found at i:99519205 original size:24 final size:25
Alignment explanation
Indices: 99519168--99519220 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
99519158 ATATACGATA
99519168 AATATATATATATAT-TAGAAATGAT
1 AATATATATATATATATA-AAATGAT
*
99519193 AATA-ATATATATATATAAAATGTT
1 AATATATATATATATATAAAATGAT
99519217 AATA
1 AATA
99519221 CACTACATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (25 bp):
AATATATATATATATATAAAATGAT
Found at i:99519525 original size:12 final size:12
Alignment explanation
Indices: 99519510--99519539 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99519500 TAGTAGTGAA
*
99519510 AATAATGAGTAT
1 AATAATGAATAT
99519522 AATAATGAATAT
1 AATAATGAATAT
99519534 AATAAT
1 AATAAT
99519540 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
AATAATGAATAT
Found at i:99519573 original size:14 final size:14
Alignment explanation
Indices: 99519532--99519567 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
99519522 AATAATGAAT
99519532 ATAATAATATATAA
1 ATAATAATATATAA
*
99519546 AAAATAATACTATAA
1 ATAATAATA-TATAA
99519561 ATAATAA
1 ATAATAA
99519568 AGTATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAATAATATATAA
Found at i:99519697 original size:24 final size:24
Alignment explanation
Indices: 99519647--99519710 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
99519637 ATACAATAAT
*
99519647 AATATGTATATAACGTAGCATTAA
1 AATATGTATATAACATAGCATTAA
* * * *
99519671 AATATGTGTATAATATAGTATTTA
1 AATATGTATATAACATAGCATTAA
*
99519695 AATATATATAT-ACATA
1 AATATGTATATAACATA
99519711 ATAGATATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (24 bp):
AATATGTATATAACATAGCATTAA
Found at i:99519760 original size:13 final size:13
Alignment explanation
Indices: 99519742--99519768 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99519732 CAACAACTAT
99519742 AAATATATATATA
1 AAATATATATATA
99519755 AAATATATATATA
1 AAATATATATATA
99519768 A
1 A
99519769 GTATTAAATT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATATATATATA
Found at i:99520555 original size:26 final size:26
Alignment explanation
Indices: 99520525--99520582 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
99520515 TATATATTCG
*
99520525 AAGAAAAG-AGAGAAAAAATAAAATAA
1 AAGAAAAGAAAAG-AAAAATAAAATAA
*
99520551 AAGAAAAGAAAAGAAAAATAAACTAA
1 AAGAAAAGAAAAGAAAAATAAAATAA
99520577 AGAGAA
1 A-AGAA
99520583 GATCGAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (26 bp):
AAGAAAAGAAAAGAAAAATAAAATAA
Found at i:99521915 original size:73 final size:73
Alignment explanation
Indices: 99521765--99522041 Score: 355
Period size: 75 Copynumber: 3.7 Consensus size: 73
99521755 TGTGAGCCGG
99521765 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATT-CCTCA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA-CAGAAATTG-AAATTACCTCA
99521829 GCGTGCCATGA
63 GCGTGCCATGA
* * *
99521840 GGCTCAACTCATCTCTCGCAATATGAGTTGA-GTTTTGACAAACAGAAGTTGAAATTACCTCAGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAATTACCTCAGC
*
99521904 GTGTCC-CGA
65 GTG-CCATGA
* * *
99521913 GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAA-ACAGAAATTGAAATTACCTCAG
*
99521978 CGTGCCTTGA
64 CGTGCCATGA
* * *
99521988 GGCTCAACTCACCTCTAGCAATATGAATTGA-TTTTTGAAAAACATAAATTGAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAA
99522042 AATAGAATTT
Statistics
Matches: 179, Mismatches: 15, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
72 5 0.03
73 72 0.40
74 14 0.08
75 88 0.49
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
TGCCATGA
Found at i:99522040 original size:148 final size:152
Alignment explanation
Indices: 99521765--99522196 Score: 563
Period size: 148 Copynumber: 2.8 Consensus size: 152
99521755 TGTGAGCCGG
* * *
99521765 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-AGCAGAAATTGAAAATTCCTCA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGA-TAGAAATTGAAAATACCTCA
* * * * * *
99521829 GCGTGCCATGAGGCTCAACTCATCTCTCGCAATATGAGTTGAGTTTTGACAAACAGAAGTTG-A-
65 ACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAG
99521892 AA-T-TACCTCAGCGTGTCCCGA
130 AATTATACCTCAGCGTGTCCCGA
99521913 GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAA
* * *
99521978 CGTGCCTTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAA
66 CGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG----
*
99522043 ATAGAATTTGAAAATACCTCAGCGTGTCCTGA
127 A-AGAA-TT----ATACCTCAGCGTGTCCCGA
*
99522075 GACTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAGATAGAAATTGAAAATACCTCAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAA
** *
99522139 CGTTTCTTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAAT
66 CGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
99522197 AAAAACATCA
Statistics
Matches: 249, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
148 112 0.45
149 1 0.00
154 1 0.00
155 2 0.01
157 1 0.00
160 10 0.04
161 76 0.31
162 46 0.18
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (152 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAA
CGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAGA
ATTATACCTCAGCGTGTCCCGA
Found at i:99522081 original size:87 final size:88
Alignment explanation
Indices: 99521949--99522130 Score: 260
Period size: 87 Copynumber: 2.1 Consensus size: 88
99521939 GTTGAATTTT
* *
99521949 TTGAAAGATAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCTAGCAATATGA
*
99522014 ATTGA-TTTTTGAAAAACATAAA
66 ATTGATTTTTTGAAAAACAGAAA
* * *
99522036 TTGAAAAATAGAATTTGAAAATACCTCAGCGTGTCC-TGAGACTCAACTCACCTCTCGCAATATG
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTG-CCTTGAGACTCAACTCACCTCTAGCAATATG
* * *
99522100 AGTTGATTTTTTGAAAGATAGAAA
65 AATTGATTTTTTGAAAAACAGAAA
99522124 TTGAAAA
1 TTGAAAA
99522131 TACCTCAACG
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 61 0.73
88 23 0.27
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (88 bp):
TTGAAAAATAGAAATTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCTAGCAATATGA
ATTGATTTTTTGAAAAACAGAAA
Found at i:99522157 original size:74 final size:72
Alignment explanation
Indices: 99522040--99522196 Score: 251
Period size: 74 Copynumber: 2.2 Consensus size: 72
99522030 CATAAATTGA
* *
99522040 AAAATAGAATTTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTG
1 AAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTG
99522105 ATTTTTTG
66 A-TTTTTG
* *
99522113 AAAGATAGAAATTGAAAATACCTCAACGTTTCTTGAGACTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ATAGAAATTGAAAATACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTT
99522178 GATTTTTG
65 GATTTTTG
*
99522186 AAAACAGAAAT
1 AAAATAGAAAT
99522197 AAAAACATCA
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
72 7 0.09
73 12 0.15
74 59 0.76
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (72 bp):
AAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:99522161 original size:161 final size:162
Alignment explanation
Indices: 99521874--99522189 Score: 526
Period size: 161 Copynumber: 2.0 Consensus size: 162
99521864 GAGTTGAGTT
* * *
99521874 TTGACAAACAGAAGTTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAGTTGAAAATACCTCAGCGTGTCCCGAGACTCAACTCACCTCTCGCAATATGA
*
99521939 GTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCT
66 GTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCT
99522004 AGCAATATGAATTGATTTTTGAAAAACATAAA
131 AGCAATATGAATTGATTTTTGAAAAACATAAA
* * *
99522036 TTGAAAAATAGAATTTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAGTTGAAAATACCTCAGCGTGTCCCGAGACTCAACTCACCTCTCGCAATATGA
**
99522101 GTTG-ATTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTTTCTTGAGACTCAACTCACCTCT
66 GTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCT
* *
99522165 CGCAATATGAGTTGATTTTTGAAAA
131 AGCAATATGAATTGATTTTTGAAAA
99522190 CAGAAATAAA
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
161 80 0.56
162 63 0.44
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (162 bp):
TTGAAAAACAGAAGTTGAAAATACCTCAGCGTGTCCCGAGACTCAACTCACCTCTCGCAATATGA
GTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCT
AGCAATATGAATTGATTTTTGAAAAACATAAA
Found at i:99539979 original size:21 final size:20
Alignment explanation
Indices: 99539955--99539993 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
99539945 TAATATTAAT
99539955 TTCAAAAAGAAAATAAAAAAA
1 TTCAAAAA-AAAATAAAAAAA
* *
99539976 TTCACAAAAAAGTAAAAA
1 TTCAAAAAAAAATAAAAA
99539994 GATTGGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (20 bp):
TTCAAAAAAAAATAAAAAAA
Found at i:99549104 original size:130 final size:131
Alignment explanation
Indices: 99548900--99549139 Score: 315
Period size: 130 Copynumber: 1.8 Consensus size: 131
99548890 GGTAAAATTC
* * * * * * *
99548900 CTTTGTAGCTCTTTCAAAATTTTAAAATTATAAGTTAGTATAATGGTAAATTTGTATTTTTAATC
1 CTTTGTAGCCCTTTCAAAATTTTAAAAATACAAGTTAGTATAATGGTAAATTTGCATATTAAACC
* * * *
99548965 CTTCTAAAAAATTATGATTTATCTTTGACCC-CTTTAAGCAATTTTCTGGCTTCACCTTTGATTT
66 CCTCCAAAAAATTATGATTCATCTTTGACCCTCTTAAAGCAATTTTCTGGCTTCACCTTTGATTT
99549029 A
131 A
* *
99549030 CTTTGTAGCCCTTT-AAATTTTTTAAAAAATACAAGTTAGTATAATGGTATATTTGCA-ATTAAA
1 CTTTGTAGCCCTTTCAAA-ATTTT-AAAAATACAAGTTAGTATAATGGTAAATTTGCATATTAAA
*
99549093 CCCCTCCAAAAATTTATGATTCATCTTTGACCCTCTTAAAGCAATTT
64 CCCCTCCAAAAAATTATGATTCATCTTTGACCCTCTTAAAGCAATTT
99549140 GCTTTGCAAC
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
129 3 0.03
130 49 0.53
131 41 0.44
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (131 bp):
CTTTGTAGCCCTTTCAAAATTTTAAAAATACAAGTTAGTATAATGGTAAATTTGCATATTAAACC
CCTCCAAAAAATTATGATTCATCTTTGACCCTCTTAAAGCAATTTTCTGGCTTCACCTTTGATTT
A
Found at i:99549387 original size:126 final size:123
Alignment explanation
Indices: 99548923--99549388 Score: 368
Period size: 126 Copynumber: 3.7 Consensus size: 123
99548913 TCAAAATTTT
* * * * * * *
99548923 AAAATTATAAGTTAGTATAATGGTAAATTTGT-ATTTTTAATCCTTCTAAAAAATTATGATTTAT
1 AAAATTATAAGTTAGTATAATGGTAAATTT-TCA-GTTTGACCCCTCCAAAAATTTATGATTCAT
* * * * * *
99548987 CTTTGACCCCTTTAAGCAATTTTCTGGCTT-CACCTTTGATTTACTTTGTAGCC-CTTTAAATTT
64 CTTTGATCTCTTAAAGCAATTTGCT---TTGCAAC--TGATTTGCTTTGTAGCCTCTTT-AA---
*
99549050 TTTAA
120 -TAAA
* * * * **
99549055 AAAA-TACAAGTTAGTATAATGGTATATTTGCAATTAAACCCCTCCAAAAATTTATGATTCATCT
1 AAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCCCTCCAAAAATTTATGATTCATCT
*
99549119 TTGACCCTCTTAAAGCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTTAATAAA
66 TTGA-TCTCTTAAAGCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTTAATAAA
* * * * *
99549178 AAAATTATAAGTTAATATAATGATAAAATTTCAAG-TTGACCCTTCAAAAAATTTATGATTCATC
1 AAAATTATAAGTTAGTATAATGGTAAATTTTC-AGTTTGACCCCTCCAAAAATTTATGATTCATC
* * * ** * ***
99549242 TCTGGTC-CTTTAATGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTGATTTTTTT
65 TTTGATCTC-TTAAAGCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTT-A--ATAAA
** *
99549304 TTAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCCCTCCAAAAATTTATGATTAATCT
1 AAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCCCTCCAAAAATTTATGATTCATCT
* *
99549369 TTTATCTCTTAAAACAATTT
66 TTGATCTCTTAAAGCAATTT
99549389 TTTTGGCTTC
Statistics
Matches: 272, Mismatches: 50, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
122 1 0.00
123 49 0.18
124 50 0.18
125 3 0.01
126 68 0.25
127 19 0.07
128 6 0.02
129 3 0.01
130 29 0.11
131 40 0.15
132 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (123 bp):
AAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCCCTCCAAAAATTTATGATTCATCT
TTGATCTCTTAAAGCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTTAATAAA
Found at i:99550604 original size:21 final size:21
Alignment explanation
Indices: 99550580--99550619 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99550570 ACATTATATA
*
99550580 TATTGATTAATTATAATAAAT
1 TATTAATTAATTATAATAAAT
* *
99550601 TATTAATTTATTATTATAA
1 TATTAATTAATTATAATAA
99550620 TTAAGTCATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTAATTAATTATAATAAAT
Found at i:99550953 original size:18 final size:18
Alignment explanation
Indices: 99550930--99550972 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
99550920 ATTTAAGGTG
99550930 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
99550948 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
99550966 TAATTAA
1 TAATTAA
99550973 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:99554592 original size:37 final size:37
Alignment explanation
Indices: 99554528--99554598 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
99554518 TTGGCCACAT
* **
99554528 CTTTTTTGTTTTATTTTAGGTTGACATGATCCACTTC
1 CTTTTTTGTTTTATTTTAGATCAACATGATCCACTTC
*
99554565 CTTTTTTGTTTTATTTTAGATCAACATGGTCCAC
1 CTTTTTTGTTTTATTTTAGATCAACATGATCCAC
99554599 ATCATTATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.18, C:0.17, G:0.13, T:0.52
Consensus pattern (37 bp):
CTTTTTTGTTTTATTTTAGATCAACATGATCCACTTC
Found at i:99567278 original size:35 final size:35
Alignment explanation
Indices: 99567238--99567320 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
99567228 TTTCAATAGC
* * *
99567238 CATACTTTACATGCAAATCAAAATCTGTGTAATGG
1 CATACTTAACATGCAAATCAAAACCAGTGTAATGG
* * *
99567273 CATACTTAACATGTAGATCACAACCAGTGTAATGG
1 CATACTTAACATGCAAATCAAAACCAGTGTAATGG
*
99567308 CATGCTTAACATG
1 CATACTTAACATG
99567321 TGAATCAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (35 bp):
CATACTTAACATGCAAATCAAAACCAGTGTAATGG
Found at i:99571908 original size:53 final size:53
Alignment explanation
Indices: 99571767--99571917 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
99571757 ATAAGTGCGC
* **
99571767 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
99571820 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
99571873 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
99571918 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:99579423 original size:53 final size:53
Alignment explanation
Indices: 99579282--99579432 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
99579272 ATAAGTGCGC
* **
99579282 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
99579335 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
99579388 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
99579433 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:99589440 original size:5 final size:5
Alignment explanation
Indices: 99589430--99589454 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
99589420 ATTATAGTAA
99589430 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
99589455 CAACCTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:99591715 original size:20 final size:20
Alignment explanation
Indices: 99591665--99591704 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
99591655 TTGCCCATCC
99591665 AACACACCAAATTATGAACA
1 AACACACCAAATTATGAACA
99591685 AACACACCAAATTATGAACA
1 AACACACCAAATTATGAACA
99591705 GTGTCACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.25, G:0.05, T:0.15
Consensus pattern (20 bp):
AACACACCAAATTATGAACA
Found at i:99593434 original size:27 final size:27
Alignment explanation
Indices: 99593404--99593463 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
99593394 CAAATAAGAT
99593404 ATATAAAAAAAATTAAAAGAATGAATA
1 ATATAAAAAAAATTAAAAGAATGAATA
* * * **
99593431 ATATAAAATAACTTACAATCATGAATA
1 ATATAAAAAAAATTAAAAGAATGAATA
99593458 ATATAA
1 ATATAA
99593464 TAATAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (27 bp):
ATATAAAAAAAATTAAAAGAATGAATA
Found at i:99593466 original size:3 final size:3
Alignment explanation
Indices: 99593454--99593630 Score: 87
Period size: 3 Copynumber: 59.3 Consensus size: 3
99593444 TACAATCATG
* *
99593454 AAT AAT -AT AAT AAT AAT AA- AAT AGT AAT AAT AAC AAT GAAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * * * * * * *
99593497 GAT AAT AGT AAA AAA AAT ATT AGT AAG AAT AAT ACT AAG GAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * *
99593543 AAT GAT AAT AA- AAT AAGGG AAT AAT AAT AAC AAC AAT -AT AAAT AAT
1 AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * *
99593589 AAT AAT AAA AAC AAT AAT AGT AAT AA- AAT AAT AAA AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
99593631 GTATTAATAG
Statistics
Matches: 130, Mismatches: 33, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
2 12 0.09
3 109 0.84
4 7 0.05
5 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:99595158 original size:15 final size:16
Alignment explanation
Indices: 99595134--99595176 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
99595124 AGAACTAATT
*
99595134 AAAAATAAATAATG-C
1 AAAAAAAAATAATGAC
*
99595149 AAAAAAAAATTATGAC
1 AAAAAAAAATAATGAC
*
99595165 TAAAAAAAATAA
1 AAAAAAAAATAA
99595177 GATAGGTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAAAAAATAATGAC
Found at i:99598000 original size:27 final size:26
Alignment explanation
Indices: 99597962--99598096 Score: 108
Period size: 27 Copynumber: 5.2 Consensus size: 26
99597952 TATATATTAC
*
99597962 AATATAAACATAATAATAGTATTAAA
1 AATATATACATAATAATAGTATTAAA
99597988 AAGTATATAC------ATAGTATTAAA
1 AA-TATATACATAATAATAGTATTAAA
99598009 AATATATACATAAT-ATAGTTATTAAA
1 AATATATACATAATAATAG-TATTAAA
*
99598035 GAATATATACATAA-AATAATATGTAAA
1 -AATATATACATAATAATAGTAT-TAAA
*
99598062 TATATATATA-AAAATAATATAGTATTAAA
1 -A-ATATATACATAAT-A-ATAGTATTAAA
99598091 AATATA
1 AATATA
99598097 CATGATATAT
Statistics
Matches: 90, Mismatches: 5, Indels: 27
0.74 0.04 0.22
Matches are distributed among these distances:
20 7 0.08
21 13 0.14
25 4 0.04
26 12 0.13
27 35 0.39
28 8 0.09
29 5 0.06
30 6 0.07
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (26 bp):
AATATATACATAATAATAGTATTAAA
Found at i:99598014 original size:20 final size:21
Alignment explanation
Indices: 99597977--99598020 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
99597967 AAACATAATA
99597977 ATAGTATTAAAAAGTATATAC
1 ATAGTATTAAAAAGTATATAC
99597998 ATAGTATTAAAAA-TATATAC
1 ATAGTATTAAAAAGTATATAC
99598018 ATA
1 ATA
99598021 ATATAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAGTATTAAAAAGTATATAC
Found at i:99598108 original size:27 final size:26
Alignment explanation
Indices: 99597992--99598193 Score: 97
Period size: 27 Copynumber: 7.3 Consensus size: 26
99597982 ATTAAAAAGT
*
99597992 ATATACATAGTATTAAAAATATATAC
1 ATATATATAGTATTAAAAATATATAC
99598018 ATA-ATATAGTTATTAAAGAATATATAC
1 ATATATATAG-TATTAAA-AATATATAC
* * *
99598045 ATA-AAATAATATGTAAATATATATATAA
1 ATATATATAGTAT-TAAA-A-ATATATAC
* * *
99598073 AAATAATATAGTATTAAAAATATACATG
1 ATAT-ATATAGTATTAAAAATATATA-C
** * * * * *
99598101 ATATATATAAAATATAATATTAAAAAG
1 ATATATATAGTAT-TAAAAATATATAC
*
99598128 ATATATATACGTAATATAAAAAAAATGTATAC
1 ATATATATA-GT-AT-T---AAAAATATATAC
*
99598160 ATA-ATATAGTATT-AAAATATTTAC
1 ATATATATAGTATTAAAAATATATAC
99598184 ATAATATATA
1 AT-ATATATA
99598194 CATATTAGAA
Statistics
Matches: 134, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
24 11 0.08
25 6 0.04
26 18 0.13
27 44 0.33
28 22 0.16
29 10 0.07
30 9 0.07
31 5 0.04
32 9 0.07
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.35
Consensus pattern (26 bp):
ATATATATAGTATTAAAAATATATAC
Found at i:99598149 original size:24 final size:22
Alignment explanation
Indices: 99598114--99598191 Score: 66
Period size: 24 Copynumber: 3.4 Consensus size: 22
99598104 TATATAAAAT
*
99598114 ATAATATTAAAAAGATATATATAC
1 ATAATA-TAAAAA-AAATATATAC
* *
99598138 GTAATATAAAAAAAATGTATAC
1 ATAATATAAAAAAAATATATAC
** *
99598160 ATAATATAGTATTAAAATATTTAC
1 ATAATATA--AAAAAAATATATAC
99598184 ATAATATA
1 ATAATATA
99598192 TACATATTAG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.34
23 6 0.14
24 23 0.52
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (22 bp):
ATAATATAAAAAAAATATATAC
Found at i:99598158 original size:22 final size:23
Alignment explanation
Indices: 99598114--99598167 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
99598104 TATATAAAAT
*
99598114 ATAATATTAAAAAGATATATATAC
1 ATAATA-TAAAAAGAAATATATAC
* *
99598138 GTAATATAAAAA-AAATGTATAC
1 ATAATATAAAAAGAAATATATAC
99598160 ATAATATA
1 ATAATATA
99598168 GTATTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 15 0.58
23 6 0.23
24 5 0.19
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (23 bp):
ATAATATAAAAAGAAATATATAC
Found at i:99598272 original size:21 final size:21
Alignment explanation
Indices: 99598243--99598283 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
99598233 TAATACTACA
* *
99598243 TAAATATATACATATATATAT
1 TAAAGATATACACATATATAT
*
99598264 TAAAGATATATACATATATA
1 TAAAGATATACACATATATA
99598284 ACAAAACATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAGATATACACATATATAT
Found at i:99598526 original size:3 final size:3
Alignment explanation
Indices: 99598500--99598603 Score: 58
Period size: 3 Copynumber: 36.0 Consensus size: 3
99598490 AAAATAATTC
* * * * * *
99598500 TAA TAA TAG TAA AAA T-A TAC TAA TAA TAA TGA TAA TAA TGA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
99598547 TAA -ATA TAA TAA TAAA TAA TAT TAA AAA TAA -AA -AA TGA TAA AAA
1 TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
99598591 TAA T-A TAA -AA TAA
1 TAA TAA TAA TAA TAA
99598604 ACAAATTAAA
Statistics
Matches: 74, Mismatches: 20, Indels: 14
0.69 0.19 0.13
Matches are distributed among these distances:
2 11 0.15
3 59 0.80
4 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:99598587 original size:22 final size:24
Alignment explanation
Indices: 99598531--99598587 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
99598521 AATAATAATG
*
99598531 ATAATAATGATAATAGTAAATATA
1 ATAATAATGATAATAGTAAAAATA
*
99598555 ATAATAA--ATAATATTAAAAATA
1 ATAATAATGATAATAGTAAAAATA
99598577 A-AA-AATGATAA
1 ATAATAATGATAA
99598588 AAATAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 18 0.62
24 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (24 bp):
ATAATAATGATAATAGTAAAAATA
Found at i:99598603 original size:16 final size:16
Alignment explanation
Indices: 99598547--99598604 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
99598537 ATGATAATAG
*
99598547 TAAATATAATAATAAA
1 TAAATATAAAAATAAA
99598563 T-AATATTAAAAATAAA
1 TAAATA-TAAAAATAAA
99598579 -AAATGATAAAAATAATA
1 TAAAT-ATAAAAATAA-A
99598596 TAAA-ATAAA
1 TAAATATAAA
99598605 CAAATTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 4 0.11
16 27 0.75
17 2 0.06
18 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
TAAATATAAAAATAAA
Found at i:99600647 original size:20 final size:20
Alignment explanation
Indices: 99600622--99600664 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
99600612 CAATGTGGCA
99600622 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
99600642 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
99600662 AGT
1 AGT
99600665 CCCGTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:99601449 original size:17 final size:17
Alignment explanation
Indices: 99601427--99601464 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
99601417 CTTAAAAAAT
99601427 TAAAACAA-AACCAGAAA
1 TAAAACAATAA-CAGAAA
99601444 TAAAACAATAACAGAAA
1 TAAAACAATAACAGAAA
99601461 TAAA
1 TAAA
99601465 TCTAAACAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.71, C:0.13, G:0.05, T:0.11
Consensus pattern (17 bp):
TAAAACAATAACAGAAA
Found at i:99613324 original size:18 final size:18
Alignment explanation
Indices: 99613301--99613342 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
99613291 ATAATGCTAC
*
99613301 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
99613319 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
99613337 AATAAC
1 AATAAC
99613343 AACAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:99613339 original size:3 final size:3
Alignment explanation
Indices: 99613331--99613511 Score: 74
Period size: 3 Copynumber: 60.3 Consensus size: 3
99613321 TAACGATTAA
* * *
99613331 AAT AAT AAT AAC AAC AAT AA- AAT AGA- AGAC AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
* * * * * **
99613375 ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA AAT AAA AAT -AT GTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
99613421 TCT AAT AAT AAT AAT AAAT CAAT GAT AAT AAAT ATAT ACAA AAT AAT
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT -AAT A-AT A-AT AAT AAT
* *
99613468 AAT AAC AGT AAT AA- AAT AAGT -AT AAT -AT AAT AA- ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A-AT AAT AAT
99613511 A
1 A
99613512 TTATTATTAA
Statistics
Matches: 135, Mismatches: 28, Indels: 30
0.70 0.15 0.16
Matches are distributed among these distances:
2 14 0.10
3 103 0.76
4 18 0.13
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:99613389 original size:23 final size:24
Alignment explanation
Indices: 99613361--99613416 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
99613351 AATAGAAGAC
* *
99613361 AATAATAATAAT-ATATTAATAAA
1 AATAATAATAATAAAAATAATAAA
99613384 AATAATAAT-ATAAAAATAATAAA
1 AATAATAATAATAAAAATAATAAA
*
99613407 AATAAAAATA
1 AATAATAATA
99613417 TGTTTCTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.07
23 26 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AATAATAATAATAAAAATAATAAA
Found at i:99613396 original size:14 final size:15
Alignment explanation
Indices: 99613378--99613416 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
99613368 ATAATATATT
99613378 AATAAAAATAAT-AA
1 AATAAAAATAATAAA
*
99613392 TATAAAAATAATAAA
1 AATAAAAATAATAAA
99613407 AATAAAAATA
1 AATAAAAATA
99613417 TGTTTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATAAA
Found at i:99613493 original size:14 final size:14
Alignment explanation
Indices: 99613476--99613509 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99613466 ATAATAACAG
*
99613476 TAATAAAATAAGTA
1 TAATAAAATAAATA
*
99613490 TAATATAATAAATA
1 TAATAAAATAAATA
99613504 TAATAA
1 TAATAA
99613510 TATTATTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
TAATAAAATAAATA
Found at i:99614292 original size:16 final size:17
Alignment explanation
Indices: 99614260--99614292 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99614250 TTTATAAGTA
*
99614260 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
99614277 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
99614293 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:99614638 original size:46 final size:47
Alignment explanation
Indices: 99614573--99614896 Score: 419
Period size: 46 Copynumber: 7.0 Consensus size: 47
99614563 TTATCTTTGA
* * * * *
99614573 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
99614619 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* * ***
99614665 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
99614711 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-GTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
99614757 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
99614803 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
99614849 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
99614895 CA
1 CA
99614897 AAGAGCACAC
Statistics
Matches: 258, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
45 5 0.02
46 253 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:99614735 original size:92 final size:92
Alignment explanation
Indices: 99614578--99614890 Score: 473
Period size: 92 Copynumber: 3.4 Consensus size: 92
99614568 TTTGACATGA
* * * *
99614578 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* *
99614643 CATGGTCTTATTCTTTTCATGTCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* *
99614670 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
99614735 CATGGTCTTATTCGTTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* * * *
99614762 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
** *
99614827 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCACGT
*
99614854 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
99614891 ATATCAAAGA
Statistics
Matches: 203, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 203 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGT
Found at i:99617717 original size:24 final size:24
Alignment explanation
Indices: 99617685--99617734 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
99617675 TCTTTTTGTA
* *
99617685 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTGGGGTAATAGAGTTAGT
99617709 GGCAAGTGGGGTAATAGAGTTAGT
1 GGCAAGTGGGGTAATAGAGTTAGT
99617733 GG
1 GG
99617735 GATGGTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.04, G:0.48, T:0.24
Consensus pattern (24 bp):
GGCAAGTGGGGTAATAGAGTTAGT
Found at i:99617749 original size:30 final size:30
Alignment explanation
Indices: 99617713--99617780 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
99617703 GTTAGTGGCA
*
99617713 AGTGGGGTAATAGAGTTAGTGGGATGGTTT
1 AGTGGGGTAATAGAGTTAGTGGGATGATTT
* * *
99617743 AGTGGGGTGATTGAGTTAGTGGGGTGATTT
1 AGTGGGGTAATAGAGTTAGTGGGATGATTT
*
99617773 AGTAGGGT
1 AGTGGGGT
99617781 GTGGGGGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.34
Consensus pattern (30 bp):
AGTGGGGTAATAGAGTTAGTGGGATGATTT
Found at i:99618299 original size:133 final size:133
Alignment explanation
Indices: 99618068--99618376 Score: 408
Period size: 133 Copynumber: 2.3 Consensus size: 133
99618058 GATCTGCAGT
* * *
99618068 AATTTGATCTGCTTTACTCCTGCTCAATAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGC-TTACTCCTGCTCAGTGAAGATAAGATCTAGTA-GTTTAGCCTGCTCCACTCC
* * *
99618133 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTACTCCATTGCCGATACATGGAGATAAGA-TT
64 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTACATTGCCGATACATGGAGATAAGACTT
99618197 -CATCAA
129 GC--CAA
* *
99618203 AATTTGATCTGCTCTACTCCTACTCAGCGAAGATAAGATCTAGTA-TTTAGCCTGCTCCACTCCT
1 AATTTGATCTGCT-TACTCCTGCTCAGTGAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
* * * *
99618267 GCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTACATTGCCGTTACATGGAGATAAGACTTG
65 GCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTACATTGCCGATACATGGAGATAAGACTTG
99618332 CCAA
130 CCAA
* * *
99618336 AATCTAATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCT
1 AATTTGATCTGCTT-ACTCCTGCTCAGTGAAGATAAGATCT
99618377 GTCAAAATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
132 1 0.01
133 110 0.72
134 3 0.02
135 39 0.25
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (133 bp):
AATTTGATCTGCTTACTCCTGCTCAGTGAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGATGACTGAAATCTACTACATTGCCGATACATGGAGATAAGACTTGC
CAA
Found at i:99618523 original size:85 final size:85
Alignment explanation
Indices: 99618415--99619229 Score: 1099
Period size: 85 Copynumber: 9.6 Consensus size: 85
99618405 CAGTGGGATA
* * * * *
99618415 AGATCTG-CAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGACGAGTCTTCGACCTACTT
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
99618479 CACCACTGCTTGGAGAG-CC
66 CACCACTGCTCGGAGAGCCC
* *
99618498 AGGATTTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-TAGATCTTCGACCTGC
1 A-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG-TCTTCGACCTGC
* *
99618562 TCCATCACTGCTCGGCGAGCCC
64 TCCACCACTGCTCGGAGAGCCC
* *
99618584 AAATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAATGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
99618649 CGCCACTGCTC-GACGAGCCC
66 CACCACTGCTCGGA-GAGCCC
* * * * *
99618669 AAATCTGTAAATTTTAGTCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTATATCTTTGATCTGC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-A-GTCTTCGACCTGC
** *
99618734 TCTGCCATTGCTC-GACGAGCCC
64 TCCACCACTGCTCGGA-GAGCCC
* * * *
99618756 AGATCTGTAAATTTTAGACTGTTGCCCTACTACTTAGGAGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* *
99618821 CACCATTGCTCGGGGAGCCC
66 CACCACTGCTCGGAGAGCCC
* *
99618841 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCGAGTCTTCGACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
99618905 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGAGAGCCC
* *
99618925 AGATCTGTAAATTTTAGCCTGTTACCCTACTGC-TAGGGGGTTAAGGCGAGTCTTCAACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
99618989 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGAGAGCCC
*
99619009 AGATCTGTAAATTTTAGCCTGTTAACCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
99619074 TACCACTGCTC-GACGAGCCC
66 CACCACTGCTCGGA-GAGCCC
* * *
99619094 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC-ATGTATCTTTGATCTG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGA-G--TCTTCGACCTG
* * *
99619158 CTCCACTATTGCTCGGCGAGCCC
63 CTCCACCACTGCTCGGAGAGCCC
*
99619181 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
99619230 TGTATCTTTG
Statistics
Matches: 657, Mismatches: 58, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
83 3 0.00
84 165 0.25
85 332 0.51
86 8 0.01
87 148 0.23
88 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
CACCACTGCTCGGAGAGCCC
Found at i:99618820 original size:172 final size:171
Alignment explanation
Indices: 99618415--99619230 Score: 1137
Period size: 172 Copynumber: 4.8 Consensus size: 171
99618405 CAGTGGGATA
* * * * *
99618415 AGATCTG-CAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGACGAGTCTTCGACCTACTT
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* * *
99618479 CACCACTGCTTGGAGAG-CCAGGATTTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTA
66 CACCACTGCTCGGCGAGCCCA-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTA
* *
99618543 A-G-GTAGATCTTCGACCTGCTCCATCACTGCTCGGCGAGCCC
130 AGGCGTA-ATCTTCGACCTGCTCCACCACTGCTCGACGAGCCC
* *
99618584 AAATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAATGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* * * *
99618649 CGCCACTGCTCGACGAGCCCAAATCTGTAAATTTTAGTCTGTTACCCTACTGCTTAGGGGGTTAA
66 CACCACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
* * ** *
99618714 GGCGTATATCTTTGATCTGCTCTGCCATTGCTCGACGAGCCC
131 GGCGTA-ATCTTCGACCTGCTCCACCACTGCTCGACGAGCCC
* * * *
99618756 AGATCTGTAAATTTTAGACTGTTGCCCTACTACTTAGGAGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* * *
99618821 CACCATTGCTCGGGGAGCCCAGATCTATAAATTTTAGCCTGTTACCCTACTGCTTA-GGGGTTAA
66 CACCACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
* * *
99618885 GGCG-AGTCTTCGACCTACTCCACCACTGCTCGGCGAGCCC
131 GGCGTAATCTTCGACCTGCTCCACCACTGCTCGACGAGCCC
* *
99618925 AGATCTGTAAATTTTAGCCTGTTACCCTACTGC-TAGGGGGTTAAGGCGAGTCTTCAACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
99618989 CACCACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTAACCTACTGCTTAGGGGGTTAA
66 CACCACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
* *
99619054 GGCG-AGTCTTCGACCTGCTCTACCACTGCTCGACGAGCCC
131 GGCGTAATCTTCGACCTGCTCCACCACTGCTCGACGAGCCC
* * *
99619094 AGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC-ATGTATCTTTGATCTG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGA-G--TCTTCGACCTG
* * *
99619158 CTCCACTATTGCTCGGCGAGCCCAGATCTATAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGT
63 CTCCACCACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGT
99619223 TAAGGCGT
128 TAAGGCGT
99619231 GTATCTTTGA
Statistics
Matches: 572, Mismatches: 65, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
168 80 0.14
169 141 0.25
170 121 0.21
171 16 0.03
172 214 0.37
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (171 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
CACCACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
GGCGTAATCTTCGACCTGCTCCACCACTGCTCGACGAGCCC
Found at i:99619383 original size:40 final size:40
Alignment explanation
Indices: 99619338--99619474 Score: 100
Period size: 40 Copynumber: 3.3 Consensus size: 40
99619328 ATCTGCTCCG
*
99619338 CTACTGTTTAGGGGAGATCTTTATTTTTTAGCCTGTTACC
1 CTACTGTTTAGGGGAGATCTTTATTTTTCAGCCTGTTACC
* * * * * **
99619378 CTACTGATTAGGGG-GTTACGGCTTGCTATCTTTGA-TCTACT-CC
1 CTACTGTTTAGGGGAG--A--TCTT--TATTTTTCAGCCTGTTACC
*
99619421 GCTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACC
1 -CTACTGTTTAGGGGAGATCTTTATTTTTCAGCCTGTTACC
*
99619462 CTACTGCTTAGGG
1 CTACTGTTTAGGG
99619475 TTTTAAGGCC
Statistics
Matches: 71, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
39 8 0.11
40 28 0.39
41 5 0.07
43 6 0.08
44 16 0.23
45 8 0.11
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (40 bp):
CTACTGTTTAGGGGAGATCTTTATTTTTCAGCCTGTTACC
Found at i:99619389 original size:84 final size:84
Alignment explanation
Indices: 99619094--99619483 Score: 351
Period size: 87 Copynumber: 4.6 Consensus size: 84
99619084 CGACGAGCCC
* * *
99619094 AGATCTATAAATTTT-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCATG-TATCTTTGATCT
1 AGATCTAT-ATTTTTCAGCCTGTTACCCTACTGATTAGGGGGTTAAGGCTTGCTATCTTTGATCT
* * * *
99619157 GCTCCACTATTG-CTCGGCGAG
65 GCTCCGCTACTGTTTAGG-G-G
* * *
99619178 CCCAGATCTATAAATTTT-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTG-TATCTTTGA
1 ---AGATCTAT-ATTTTTCAGCCTGTTACCCTACTGATTAGGGGGTTAAGGCTTGCTATCTTTGA
* * * *
99619241 TCTGTTCCACTATTGCTTAGGGAG
62 TCTGCTCCGCTACTGTTTAGGG-G
* * * * * * * **
99619265 ATAAGATCTATAATCTTCAGCTTGTTACCCTA-TTACTTAGGGAGTTAAAGCTTGCTGTCTCCGA
1 ---AGATCTATATTTTTCAGCCTGTTACCCTACTGA-TTAGGGGGTTAAGGCTTGCTATCTTTGA
99619329 TCTGCTCCGCTACTGTTTAGGGG
62 TCTGCTCCGCTACTGTTTAGGGG
* * * *
99619352 AGATCTTTATTTTTTAGCCTGTTACCCTACTGATTAGGGGGTTACGGCTTGCTATCTTTGATCTA
1 AGATCTATATTTTTCAGCCTGTTACCCTACTGATTAGGGGGTTAAGGCTTGCTATCTTTGATCTG
99619417 CTCCGCTACTGTTTAGGGG
66 CTCCGCTACTGTTTAGGGG
* * **
99619436 AGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGTTTTAAGGC
1 AGATCTATATTTTTCAGCCTGTTACCCTACTGATTAGGGGGTTAAGGC
99619484 CTGTGGATTC
Statistics
Matches: 258, Mismatches: 40, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
84 110 0.43
85 2 0.01
86 6 0.02
87 113 0.44
88 27 0.10
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (84 bp):
AGATCTATATTTTTCAGCCTGTTACCCTACTGATTAGGGGGTTAAGGCTTGCTATCTTTGATCTG
CTCCGCTACTGTTTAGGGG
Found at i:99621366 original size:9 final size:9
Alignment explanation
Indices: 99621352--99621385 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
99621342 TTTCTTCTTC
99621352 TTTTTTTAT
1 TTTTTTTAT
99621361 TTTTTTTAT
1 TTTTTTTAT
99621370 TTTTTTCT-T
1 TTTTTT-TAT
99621379 TTTTTTT
1 TTTTTTT
99621386 TTGAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 1 0.04
9 22 0.92
10 1 0.04
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:99621374 original size:17 final size:17
Alignment explanation
Indices: 99621352--99621384 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
99621342 TTTCTTCTTC
99621352 TTTTTTTATTTTTTTTA
1 TTTTTTTATTTTTTTTA
*
99621369 TTTTTTTCTTTTTTTT
1 TTTTTTTATTTTTTTT
99621385 TTTGAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTTTATTTTTTTTA
Found at i:99625846 original size:18 final size:18
Alignment explanation
Indices: 99625823--99625864 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
99625813 ATAATGCTAC
*
99625823 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
99625841 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
99625859 AATAAC
1 AATAAC
99625865 AACAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:99625861 original size:3 final size:3
Alignment explanation
Indices: 99625853--99626049 Score: 104
Period size: 3 Copynumber: 65.7 Consensus size: 3
99625843 TAACGATTAA
* * *
99625853 AAT AAT AAT AAC AAC AAT AA- AAT AGA- AGAC AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
* * * * * **
99625897 ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA AAT AAA AAT -AT GTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
99625943 TCT AAT AAT AAT AAT AAT AAAT CAAT GAT AAT AAAT ATAT ACAA AAT
1 AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT -AAT A-AT A-AT AAT
* *
99625990 AAT AAT AAC AGT AAT AA- AAT AAGT -AT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
* *
99626033 AAT AAT ATT AAA AAT AA
1 AAT AAT AAT AAT AAT AA
99626050 AACTCTCCCC
Statistics
Matches: 149, Mismatches: 32, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
2 13 0.09
3 119 0.80
4 17 0.11
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:99625918 original size:14 final size:15
Alignment explanation
Indices: 99625900--99625938 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
99625890 ATAATATATT
99625900 AATAAAAATAAT-AA
1 AATAAAAATAATAAA
*
99625914 TATAAAAATAATAAA
1 AATAAAAATAATAAA
99625929 AATAAAAATA
1 AATAAAAATA
99625939 TGTTTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATAAA
Found at i:99629448 original size:21 final size:21
Alignment explanation
Indices: 99629418--99629457 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99629408 TAATTGAGTT
99629418 TTTCTATTATTTCAATATGTG
1 TTTCTATTATTTCAATATGTG
*
99629439 TTTCTTTTATTTCAATATG
1 TTTCTATTATTTCAATATG
99629458 GTCAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTCTATTATTTCAATATGTG
Found at i:99646061 original size:37 final size:37
Alignment explanation
Indices: 99646005--99646079 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
99645995 CTGAAAAAAG
*
99646005 TACAAACAATAGAATAGAATATAGGCATTTTTGCTGC
1 TACAAACAATAGAAAAGAATATAGGCATTTTTGCTGC
* *
99646042 TACAAACAATCGAAAAGAATATAGGCATTTTTTCTGC
1 TACAAACAATAGAAAAGAATATAGGCATTTTTGCTGC
99646079 T
1 T
99646080 CATAATCTCA
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:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (37 bp):
TACAAACAATAGAAAAGAATATAGGCATTTTTGCTGC
Found at i:99646808 original size:19 final size:19
Alignment explanation
Indices: 99646786--99646824 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
99646776 CAAAACTATT
*
99646786 TTGTGAAAAA-AAAATCGAA
1 TTGTAAAAAAGAAAAT-GAA
99646805 TTGTAAAAAAGAAAATGAA
1 TTGTAAAAAAGAAAATGAA
99646824 T
1 T
99646825 GAAAGTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.23
Consensus pattern (19 bp):
TTGTAAAAAAGAAAATGAA
Found at i:99647549 original size:18 final size:18
Alignment explanation
Indices: 99647528--99647810 Score: 117
Period size: 18 Copynumber: 15.3 Consensus size: 18
99647518 GAACAATTAT
99647528 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
99647546 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
99647564 TTATTCAATAATA-ACTAG
1 TTATTCAGTAACAGTC-AG
*
99647582 TTATTCAGTATC-GATCAATTG
1 TTATTCAGTAACAG-TC-A--G
*
99647603 ATTGATTATCCAGTAACAGTCAA
1 -TT-A-T-T-CAGTAACAGTCAG
* *
99647626 TTATTCAATAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
99647643 ATATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
99647662 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* * *
99647679 TTCATTCAGTGACAATCAA
1 TT-ATTCAGTAACAGTCAG
* * *
99647698 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAG
* * *
99647716 TTATTTAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
99647734 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * * *
99647752 ATATCCTGTAGCAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
99647770 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
99647788 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
99647806 TTATT
1 TTATT
99647811 TTATAACTTT
Statistics
Matches: 199, Mismatches: 49, Indels: 34
0.71 0.17 0.12
Matches are distributed among these distances:
17 17 0.09
18 142 0.71
19 20 0.10
20 1 0.01
21 2 0.01
22 4 0.02
23 1 0.01
24 1 0.01
25 2 0.01
26 8 0.04
27 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:99647568 original size:36 final size:36
Alignment explanation
Indices: 99647519--99647810 Score: 153
Period size: 36 Copynumber: 7.9 Consensus size: 36
99647509 TAACTCTCCG
* * *
99647519 AACAATTATTTATTCAGTAACAGTCAGTTATTCGGT
1 AACAATCAATTATTCAGTAACAGTCAGTTATTCAGT
* * *
99647555 AACAATCAATTATTCAATAATA-ACTAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAGTC-AGTTATTCAGT
* * * *
99647591 ATCGATCAATTGATTGATTATCCAGTAACAGTCAATTATTCAAT
1 A---A-CAA-TCA---ATTATTCAGTAACAGTCAGTTATTCAGT
* *
99647635 AA-AATCAGA-TATTCAGTAACAATTAAGTTATTCAGT
1 AACAATCA-ATTATTCAGTAAC-AGTCAGTTATTCAGT
* * * * *
99647671 AGCAGTC-ATTCATTCAGTGACAATCAATTATTCAGT
1 AACAATCAATT-ATTCAGTAACAGTCAGTTATTCAGT
* * * *
99647707 AATAATCAATTATTTAGTAATATTCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAGTCAGTTATTCAGT
* * * * * * *
99647743 AACAGTCTAA-TATCCTGTAGCAGTCAATTATCCGGT
1 AACAATC-AATTATTCAGTAACAGTCAGTTATTCAGT
* * *
99647779 AACAGTCAATTATTCAGTAATAATCAGTTATT
1 AACAATCAATTATTCAGTAACAGTCAGTTATT
99647811 TTATAACTTT
Statistics
Matches: 188, Mismatches: 51, Indels: 34
0.69 0.19 0.12
Matches are distributed among these distances:
35 14 0.07
36 124 0.66
37 17 0.09
38 2 0.01
39 3 0.02
40 3 0.02
41 3 0.02
44 21 0.11
45 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
AACAATCAATTATTCAGTAACAGTCAGTTATTCAGT
Found at i:99647671 original size:54 final size:55
Alignment explanation
Indices: 99647529--99647810 Score: 157
Period size: 54 Copynumber: 5.1 Consensus size: 55
99647519 AACAATTATT
* * * * * *
99647529 TATTCAGTAAC-AGTCAGTTATTCGGTAACAATCAATTATTCAATAATAA-CTAGT
1 TATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATC-AGA
* * *
99647583 TATTCAGTATCGATCAATTGATTGATTATCCAGTAACAGTCAATTATTCAATAA-AATCAGA
1 TATTCAGTA---A-CAATT-A-AG-TTATTCAGTAACAGTCAATTATTCAGTAATAATCAGA
* * *
99647644 TATTCAGTAACAATTAAGTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCA-A
1 TATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATT-ATTCAGTAATAATCAGA
* * * * * * * *
99647698 TTATTCAGTAATAATCAA-TTATTTAGTAATATTCAGTTATTCAGTAACAGTCTA-A
1 -TATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATC-AGA
* * * * * * * *
99647753 TATCCTGTAGCAGTCAA-TTATCCGGTAACAGTCAATTATTCAGTAATAATCAGT
1 TATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAGA
99647807 TATT
1 TATT
99647811 TTATAACTTT
Statistics
Matches: 177, Mismatches: 36, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
53 4 0.02
54 96 0.54
55 25 0.14
56 1 0.01
57 6 0.03
58 2 0.01
59 2 0.01
61 14 0.08
62 27 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (55 bp):
TATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAGA
Found at i:99647739 original size:72 final size:70
Alignment explanation
Indices: 99647609--99647810 Score: 201
Period size: 72 Copynumber: 2.8 Consensus size: 70
99647599 ATTGATTGAT
* * * *
99647609 TATCCAGTAACAGTCAATTATTCAATAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAG
1 TATCCAGT-ACAGTCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
99647673 CAGTC-AT
63 CAGTCTAA
* * *
99647680 TCATTCAGTGACAATCAATTATTCAGTAATAATCAATTATTTAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGT-ACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
99647745 CAGTCTAA
63 CAGTCTAA
* * * * *
99647753 TATCCTGTAGCAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTA-CAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
99647811 TTATAACTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 2 0.02
72 90 0.83
73 16 0.15
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (70 bp):
TATCCAGTACAGTCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACAG
TCTAA
Found at i:99648027 original size:47 final size:47
Alignment explanation
Indices: 99647927--99648029 Score: 143
Period size: 47 Copynumber: 2.2 Consensus size: 47
99647917 CAGTAACAGT
* * * * *
99647927 AACAGTAGCAGTACGGTACACAGAGTACCTTATTGGAACAAATCCGG
1 AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* *
99647974 AGCAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
99648021 AACAGTAAC
1 AACAGTAAC
99648030 GGTAACAGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.17
Consensus pattern (47 bp):
AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:99650822 original size:24 final size:23
Alignment explanation
Indices: 99650795--99650870 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 23
99650785 TTACTAGATA
99650795 TGCGAATTTGAGTGGCACTATGTG
1 TGCGAATTTGA-TGGCACTATGTG
*
99650819 TGCGTATTTGTATGGCACTATGTG
1 TGCGAATTTG-ATGGCACTATGTG
*
99650843 TGCGTAATTAT-TTGGCACTATGTG
1 TGCG-AATT-TGATGGCACTATGTG
99650867 TGCG
1 TGCG
99650871 GAGTTGAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 41 0.89
25 4 0.09
26 1 0.02
ACGTcount: A:0.18, C:0.13, G:0.30, T:0.38
Consensus pattern (23 bp):
TGCGAATTTGATGGCACTATGTG
Found at i:99662505 original size:91 final size:91
Alignment explanation
Indices: 99662367--99662574 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
99662357 TTGATTTTAG
* *
99662367 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
99662432 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
99662459 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
99662524 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
99662550 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
99662575 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:99662543 original size:26 final size:28
Alignment explanation
Indices: 99662489--99662549 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
99662479 TATTATCAAG
* *
99662489 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
99662517 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
99662543 AATTATA
1 AATTATA
99662550 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:99662549 original size:44 final size:43
Alignment explanation
Indices: 99662407--99662549 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
99662397 GAATTTTATG
* *
99662407 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
99662451 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
99662498 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
99662542 AAATTATA
1 AAATTATA
99662550 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:99662667 original size:59 final size:56
Alignment explanation
Indices: 99662579--99662879 Score: 152
Period size: 54 Copynumber: 5.1 Consensus size: 56
99662569 TTATTAGTTA
*
99662579 TAATTATTTTAAATT-TTATTA-A-ATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTATTTTTATAGATCATATATTTTAATTAAAATATATTTAATAT
* * **
99662633 TAATTATTTCAAATTATCTTTTATAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTAT-TTTTATAG-ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
99662698 T
56 T
* * * * *
99662699 TAATTATTAAGAATT-TTATTA-A-ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTA-AATTATTTTTATAGATCATATATTTTAATTAAAATATATTTAATAT
* * * **
99662753 TAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTAT-TTAAATTAT-TTTTATAG-ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
99662818 T
56 T
* * * * *
99662819 TGATTATTAAGAATT-TTATTA-A-ATTATATATTTTAATTAAAATATATTTAATAA
1 TAATTATTTA-AATTATTTTTATAGATCATATATTTTAATTAAAATATATTTAATAT
99662873 TAATTAT
1 TAATTAT
99662880 GTTTAAATAT
Statistics
Matches: 184, Mismatches: 35, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
53 3 0.02
54 35 0.19
55 12 0.07
56 10 0.05
57 7 0.04
59 21 0.11
60 16 0.09
61 20 0.11
63 7 0.04
64 10 0.05
65 13 0.07
66 30 0.16
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (56 bp):
TAATTATTTAAATTATTTTTATAGATCATATATTTTAATTAAAATATATTTAATAT
Found at i:99662698 original size:66 final size:63
Alignment explanation
Indices: 99662628--99662826 Score: 175
Period size: 66 Copynumber: 3.2 Consensus size: 63
99662618 AAATATATTT
99662628 AATATTAATTATTTCAAATTATCTTTTATAGCATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAG-ATCATATATTATGATTTGAGTAAATTCATATAA
99662693 G
63 G
* * * * * **
99662694 AATATTAATTATTAAGAATT-TTATTA-A-ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGATCATATATTATGATTTGAGTAAATTCATATAAG
* *
99662748 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAG-ATCATATATTATGATTTGAGTAAATTCATATAA
99662813 G
63 G
*
99662814 AATATTGATTATT
1 AATATTAATTATT
99662827 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTATTTTTATAGATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:99662714 original size:120 final size:120
Alignment explanation
Indices: 99662590--99662887 Score: 508
Period size: 120 Copynumber: 2.5 Consensus size: 120
99662580 AATTATTTTA
* * *
99662590 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
99662654 TATAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
99662710 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
99662775 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
99662830 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
99662888 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 160 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:99662730 original size:61 final size:61
Alignment explanation
Indices: 99662663--99662850 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
99662653 TTATAGCATC
99662663 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
99662724 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
99662782 C
61 T
*
99662783 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
99662844 ATATATT
1 ATATATT
99662851 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:99662750 original size:15 final size:15
Alignment explanation
Indices: 99662715--99662766 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
99662705 TTAAGAATTT
*
99662715 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99662729 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99662743 TATTTAATAATAAT-
1 TATTTAATTATAATA
99662757 TATGTTAATT
1 TAT-TTAATT
99662767 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:99662859 original size:18 final size:17
Alignment explanation
Indices: 99662831--99662865 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99662821 ATTATTAAGA
*
99662831 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
99662848 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
99662866 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:99663095 original size:44 final size:45
Alignment explanation
Indices: 99663030--99663120 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
99663020 ACCTCTATTC
* * *
99663030 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
99663074 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
99663119 CA
1 CA
99663121 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:99663122 original size:16 final size:16
Alignment explanation
Indices: 99663101--99663136 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
99663091 GATTAGCTAT
99663101 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
99663117 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
99663133 TACA
1 TACA
99663137 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:99665111 original size:24 final size:24
Alignment explanation
Indices: 99665084--99665144 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
99665074 ATTTTGGTGC
*
99665084 TTAATTAAAAATATGTTAAAATAA
1 TTAATTAAAAATATGTAAAAATAA
*
99665108 TTAATTAAAAATA--AAAAAATAA
1 TTAATTAAAAATATGTAAAAATAA
*
99665130 TT-TTTAAAAATATGT
1 TTAATTAAAAATATGT
99665145 GTTAATATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
24 13 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (24 bp):
TTAATTAAAAATATGTAAAAATAA
Found at i:99665136 original size:21 final size:22
Alignment explanation
Indices: 99665101--99665141 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
99665091 AAAATATGTT
99665101 AAAATAATTAATTAAAAATAAA
1 AAAATAATTAATTAAAAATAAA
*
99665123 AAAATAATT-TTTAAAAATA
1 AAAATAATTAATTAAAAATA
99665142 TGTGTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAATTAATTAAAAATAAA
Found at i:99666370 original size:13 final size:13
Alignment explanation
Indices: 99666352--99666381 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
99666342 ACCTGACCTC
99666352 AAAGCTCCCCTAA
1 AAAGCTCCCCTAA
99666365 AAAGCTCCCCTAA
1 AAAGCTCCCCTAA
99666378 AAAG
1 AAAG
99666382 TGAGAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.33, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAGCTCCCCTAA
Found at i:99674367 original size:24 final size:25
Alignment explanation
Indices: 99674321--99674367 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
99674311 AATTTTAATC
*
99674321 TTATATTTAATCAAATAATATTTTA
1 TTATATTTAATCAAATAAAATTTTA
* *
99674346 TTATA-TTAATTAATTAAAATTT
1 TTATATTTAATCAAATAAAATTT
99674368 CATAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATATTTAATCAAATAAAATTTTA
Found at i:99676502 original size:11 final size:10
Alignment explanation
Indices: 99676471--99676515 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
99676461 ATACATTTTG
99676471 AAATTATAAA
1 AAATTATAAA
99676481 AAA-TA-AAA
1 AAATTATAAA
99676489 AAATTATTAAA
1 AAATTA-TAAA
*
99676500 AAATTATTAA
1 AAATTATAAA
99676510 AAATTA
1 AAATTA
99676516 ATTCAAAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 6 0.19
9 4 0.13
10 12 0.39
11 9 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATTATAAA
Found at i:99676518 original size:14 final size:11
Alignment explanation
Indices: 99676471--99676512 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
99676461 ATACATTTTG
99676471 AAATTA-TAAA
1 AAATTATTAAA
99676481 AAA-TA--AAA
1 AAATTATTAAA
99676489 AAATTATTAAA
1 AAATTATTAAA
99676500 AAATTATTAAA
1 AAATTATTAAA
99676511 AA
1 AA
99676513 TTAATTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 4 0.14
10 3 0.10
11 16 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:99688822 original size:7 final size:7
Alignment explanation
Indices: 99688810--99688841 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
99688800 TATATGTGTG
99688810 AAAATAA
1 AAAATAA
99688817 AAAATAA
1 AAAATAA
99688824 AAAATAA
1 AAAATAA
99688831 AAAATAA
1 AAAATAA
99688838 AAAA
1 AAAA
99688842 ATGGATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:99692544 original size:31 final size:32
Alignment explanation
Indices: 99692509--99692574 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
99692499 TAAAACCTTA
* * *
99692509 AATATAATAATAAATGACATTTAAA-TAATTT
1 AATATAATAATAAATAAAATATAAATTAATTT
* *
99692540 AATATAATGATACATAAAATATAAATTAATTT
1 AATATAATAATAAATAAAATATAAATTAATTT
99692572 AAT
1 AAT
99692575 TTTTATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (32 bp):
AATATAATAATAAATAAAATATAAATTAATTT
Found at i:99697445 original size:21 final size:20
Alignment explanation
Indices: 99697408--99697449 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
99697398 GAGAACTACG
99697408 AAAAATTAAAATAAAATGTT
1 AAAAATTAAAATAAAATGTT
*
99697428 AAAAATTAAAGATTAAATGTT
1 AAAAATTAAA-ATAAAATGTT
99697449 A
1 A
99697450 TTTTATTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAAATTAAAATAAAATGTT
Found at i:99701135 original size:2 final size:2
Alignment explanation
Indices: 99701128--99701161 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
99701118 ACGTAGTGTT
*
99701128 GA GA GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
99701162 CTGTGTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:99706911 original size:102 final size:102
Alignment explanation
Indices: 99706735--99706932 Score: 351
Period size: 102 Copynumber: 1.9 Consensus size: 102
99706725 TCTCCTCTAA
* * *
99706735 GGGCTTTAGACAATATAATAGCTCTTATATGAGTTTTTTGCTCATTGTAATTCCATAAATTATAG
1 GGGCTTTAGACAATATAATAGCTCTCATATGAGTTTCTTGCTCATTGTAATTCCATAAACTATAG
99706800 GAATGTTTAGATTACCAACCACAGAAAGTTGTCTACG
66 GAATGTTTAGATTACCAACCACAGAAAGTTGTCTACG
99706837 GGGCTTTAGACAATATAATAGCTCTCATATGAGTTTCTTGCTCATTGTAATTCCATAAACTATAG
1 GGGCTTTAGACAATATAATAGCTCTCATATGAGTTTCTTGCTCATTGTAATTCCATAAACTATAG
**
99706902 GAATGTTTAGATTACCAACCATGGAAAGTTG
66 GAATGTTTAGATTACCAACCACAGAAAGTTG
99706933 CCTTTCGCAT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 91 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (102 bp):
GGGCTTTAGACAATATAATAGCTCTCATATGAGTTTCTTGCTCATTGTAATTCCATAAACTATAG
GAATGTTTAGATTACCAACCACAGAAAGTTGTCTACG
Found at i:99712230 original size:47 final size:47
Alignment explanation
Indices: 99711923--99712210 Score: 513
Period size: 47 Copynumber: 6.1 Consensus size: 47
99711913 GATTTTATGA
99711923 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
99711970 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATTT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
99712017 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
99712064 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGACCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
99712111 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
99712158 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
99712205 GATGAA
1 GATGAA
99712211 CGTGGAAGTG
Statistics
Matches: 229, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:99712243 original size:47 final size:47
Alignment explanation
Indices: 99711923--99712250 Score: 301
Period size: 47 Copynumber: 7.0 Consensus size: 47
99711913 GATTTTATGA
* * *
99711923 GATGAATGTGAACATGCATATATGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * *
99711970 GATGAATGTGAACATGCATATATGTGATAAGGC-CGAATGGCCAATTT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * *
99712017 GATGAATGTGAACATGCATATACGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * * * *
99712064 GATGAATGTGAACTTGCATATGTGTGATAAGGC-CGAATGACCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * *
99712111 GATGAATGTGAACATGCATATATGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * *
99712158 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGCTAGAATGGCCAATGT
* * * *
99712205 GATGAACGTGGAA-GTGTATATATGTGGCGAAGCT-GAATGGCTAATG
1 GATGAACGT-GAACATGCATATATGT-GAGAAGCTAGAATGGCCAATG
99712251 CGAAACGTGT
Statistics
Matches: 259, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 250 0.97
48 8 0.03
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAACGTGAACATGCATATATGTGAGAAGCTAGAATGGCCAATGT
Found at i:99712289 original size:46 final size:46
Alignment explanation
Indices: 99712234--99712406 Score: 283
Period size: 46 Copynumber: 3.8 Consensus size: 46
99712224 ATATGTGGCG
*
99712234 AAGCTGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
99712280 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* *
99712326 ATGCCAAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * **
99712372 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
99712407 TGTGTATATA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:99719765 original size:26 final size:25
Alignment explanation
Indices: 99719725--99719776 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
99719715 TTTAGGAAAT
99719725 AAATTATATACAT-AATAGATTTAAA
1 AAATTATATACATAAATA-ATTTAAA
*
99719750 AAATATATATATATAAATAATTTAAA
1 AAAT-TATATACATAAATAATTTAAA
99719776 A
1 A
99719777 GCAACTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 16 0.67
27 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTATATACATAAATAATTTAAA
Found at i:99724322 original size:19 final size:19
Alignment explanation
Indices: 99724298--99724339 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
99724288 CCACATTTAC
*
99724298 ACTGCTAATGTGGCTGTTG
1 ACTGCTAATGTGGCCGTTG
*
99724317 ACTGCTGATGTGGCCGTTG
1 ACTGCTAATGTGGCCGTTG
99724336 ACTG
1 ACTG
99724340 TGCGTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.33, T:0.33
Consensus pattern (19 bp):
ACTGCTAATGTGGCCGTTG
Found at i:99724524 original size:28 final size:29
Alignment explanation
Indices: 99724478--99724538 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
99724468 AAAAGTACAG
* *
99724478 AAAAAATTGTAAAATTTATTAAACATTAT
1 AAAAAATTGTAAAATTTATTAAAAATCAT
99724507 AAAAAATTG-AACAA-TTATTAAAAATCAT
1 AAAAAATTGTAA-AATTTATTAAAAATCAT
99724535 AAAA
1 AAAA
99724539 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAATTGTAAAATTTATTAAAAATCAT
Found at i:99724548 original size:18 final size:16
Alignment explanation
Indices: 99724495--99724629 Score: 73
Period size: 18 Copynumber: 8.0 Consensus size: 16
99724485 TGTAAAATTT
99724495 ATTAAACATTATAAAAA
1 ATTAAA-ATTATAAAAA
*
99724512 ATTGAACAATTATTAAAA
1 ATT-AA-AATTATAAAAA
99724530 ATCATAAAATTAT-AAAA
1 AT--TAAAATTATAAAAA
* *
99724547 A--AAACTGTA-AAAAT
1 ATTAAAAT-TATAAAAA
*
99724561 ATTAAACATTATGAAAA
1 ATTAAA-ATTATAAAAA
99724578 ATTGAACAATTATAAAAAA
1 ATT-AA-AATTAT-AAAAA
*
99724597 ATTAAAAAGTAGTAAAAA
1 ATT-AAAATTA-TAAAAA
*
99724615 TTTAAAATT-TAAAAA
1 ATTAAAATTATAAAAA
99724630 CTAAAAACTA
Statistics
Matches: 93, Mismatches: 11, Indels: 30
0.69 0.08 0.22
Matches are distributed among these distances:
13 4 0.04
14 6 0.06
15 6 0.06
16 5 0.05
17 20 0.22
18 37 0.40
19 14 0.15
20 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (16 bp):
ATTAAAATTATAAAAA
Found at i:99724572 original size:48 final size:48
Alignment explanation
Indices: 99724506--99724597 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 48
99724496 TTAAACATTA
* *
99724506 TAAAAAATTGAACAATTATTAAAAATCAT-AA-AATTATAAAAAAAACTG
1 TAAAAAATTAAACAATTATGAAAAAT--TGAACAATTATAAAAAAAACTG
99724554 TAAAAATATTAAAC-ATTATGAAAAATTGAACAATTATAAAAAAA
1 TAAAAA-ATTAAACAATTATGAAAAATTGAACAATTATAAAAAAA
99724598 TTAAAAAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
46 1 0.03
47 2 0.05
48 30 0.77
49 6 0.15
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.27
Consensus pattern (48 bp):
TAAAAAATTAAACAATTATGAAAAATTGAACAATTATAAAAAAAACTG
Found at i:99724614 original size:66 final size:67
Alignment explanation
Indices: 99724468--99724614 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 67
99724458 AAGAGAGAGC
* * * * *
99724468 AAAAGTACAGAAAAAATTGTAAAATTTATTAAACATTATAAAAAATTGAACAATTATTAAAAATC
1 AAAAGTATAAAAAAAACTGTAAAATATATTAAACATTATAAAAAATTGAACAATTATAAAAAATC
99724533 AT
66 AT
* *
99724535 AAAATTATAAAAAAAACTGTAAAA-ATATTAAACATTATGAAAAATTGAACAATTATAAAAAAAT
1 AAAAGTATAAAAAAAACTGTAAAATATATTAAACATTATAAAAAATTGAACAATTAT-AAAAAAT
*
99724599 TA-
65 CAT
99724601 AAAAGTAGTAAAAA
1 AAAAGTA-TAAAAA
99724615 TTTAAAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 36 0.52
67 33 0.48
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.27
Consensus pattern (67 bp):
AAAAGTATAAAAAAAACTGTAAAATATATTAAACATTATAAAAAATTGAACAATTATAAAAAATC
AT
Found at i:99726276 original size:13 final size:13
Alignment explanation
Indices: 99726258--99726288 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
99726248 TCCCTAACGA
99726258 TAATCTTATGCAG
1 TAATCTTATGCAG
99726271 TAATCTTATGCAG
1 TAATCTTATGCAG
99726284 TAATC
1 TAATC
99726289 CAAATGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TAATCTTATGCAG
Found at i:99733503 original size:245 final size:245
Alignment explanation
Indices: 99733073--99733562 Score: 813
Period size: 245 Copynumber: 2.0 Consensus size: 245
99733063 TAAAACAAGA
99733073 AAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCACAAGCATGGCAATGTAGCATCATA
1 AAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCACAAGCATGGCAATGTAGCATCATA
** * *
99733138 AAGGTGGTTTAAGGATCAATATTAAAGATGCAATAACAATTTCTTTGTTTTTATTTCTTGCATAG
66 AAGGTAATTTAAGGACCAATATTAAAGATGCAATAACAATTTCTCTGTTTTTATTTCTTGCATAG
* * *
99733203 CTTCGATTTGGCCTCCATCAGTTTCACCAAAGACATTTAATTATCAAGTAGTTGCCTTGACGTTC
131 CTTCGATTCGGCCTCCATCAGTTTCACCAAAGACATTTAATTATCAACTAGTTGCCTCGACGTTC
* *
99733268 TATGATAAGTTCTCAAGCACAACACCAAAAACAGAAGTCAGTGACAAGTC
196 TATGATAAGTTCTCAAGCACAACACCAAAAACAAAAATCAGTGACAAGTC
*
99733318 AAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCAGAAGCATGGCAATGTAGCATCATA
1 AAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCACAAGCATGGCAATGTAGCATCATA
* *
99733383 AAGGTAATTTAAGGACCCATATTAAAGATGCAATAACAGTTTCTCTGTTTTTATTTCTTGCATAG
66 AAGGTAATTTAAGGACCAATATTAAAGATGCAATAACAATTTCTCTGTTTTTATTTCTTGCATAG
**
99733448 C-TCTGATTCGGCCTCCATCAGTTTTC-GTAAAGACATTTAATTATCAACTAGTTGCCTCGACGT
131 CTTC-GATTCGGCCTCCATCAG-TTTCACCAAAGACATTTAATTATCAACTAGTTGCCTCGACGT
*
99733511 TCTATGATAAGTTCTCAAGCACAATACCAAAAACAAAAATCAGTGACAAGTC
194 TCTATGATAAGTTCTCAAGCACAACACCAAAAACAAAAATCAGTGACAAGTC
99733563 TGTTTCAGCT
Statistics
Matches: 228, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
244 2 0.01
245 222 0.97
246 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (245 bp):
AAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCACAAGCATGGCAATGTAGCATCATA
AAGGTAATTTAAGGACCAATATTAAAGATGCAATAACAATTTCTCTGTTTTTATTTCTTGCATAG
CTTCGATTCGGCCTCCATCAGTTTCACCAAAGACATTTAATTATCAACTAGTTGCCTCGACGTTC
TATGATAAGTTCTCAAGCACAACACCAAAAACAAAAATCAGTGACAAGTC
Found at i:99742762 original size:27 final size:27
Alignment explanation
Indices: 99742732--99742796 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
99742722 ATTATAAAAA
*
99742732 TAAAAATTATTTAAATA-TTTAAGAATT
1 TAAAAAATATTTAAATATTTTAAG-ATT
99742759 TAAAAAATATTTAAATATTTTAAGATT
1 TAAAAAATATTTAAATATTTTAAGATT
99742786 TAATAAAATAT
1 TAA-AAAATAT
99742797 AAATATCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
TAAAAAATATTTAAATATTTTAAGATT
Found at i:99743278 original size:24 final size:24
Alignment explanation
Indices: 99743235--99743300 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
99743225 TAAAAGTTTA
*
99743235 ACTAAAATCTTAAGAGTAATTTTATT-
1 ACTAAAATCTT-A-ACTAATTTT-TTC
* *
99743261 TCTAAAATTTTAACTAATTTTTTC
1 ACTAAAATCTTAACTAATTTTTTC
99743285 ACTAAAATCTTAACTA
1 ACTAAAATCTTAACTA
99743301 CTAAGTCGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 1 0.03
26 9 0.26
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (24 bp):
ACTAAAATCTTAACTAATTTTTTC
Found at i:99750400 original size:24 final size:25
Alignment explanation
Indices: 99750373--99750426 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
99750363 GATGAGTGAT
*
99750373 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
99750397 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
99750421 AAAAAA
1 AAAAAA
99750427 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:99754851 original size:13 final size:13
Alignment explanation
Indices: 99754833--99754857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99754823 AATTTACTCC
99754833 TTATTTTATTTAT
1 TTATTTTATTTAT
99754846 TTATTTTATTTA
1 TTATTTTATTTA
99754858 AAAATCTCAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:99755137 original size:19 final size:20
Alignment explanation
Indices: 99755115--99755155 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
99755105 ATTTTGAAAG
99755115 TTTTT-ATATTTTTAT-ATT
1 TTTTTAATATTTTTATAATT
*
99755133 TTTTTAATTTTTTTATAATT
1 TTTTTAATATTTTTATAATT
99755153 TTT
1 TTT
99755156 GGAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTAATATTTTTATAATT
Found at i:99755161 original size:20 final size:19
Alignment explanation
Indices: 99755123--99755162 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
99755113 AGTTTTTATA
**
99755123 TTTTTATATTTTTTTAATT
1 TTTTTATATTTTTGGAATT
99755142 TTTTTATAATTTTTGGAATT
1 TTTTTAT-ATTTTTGGAATT
99755162 T
1 T
99755163 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTTATATTTTTGGAATT
Found at i:99756630 original size:17 final size:18
Alignment explanation
Indices: 99756597--99756630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99756587 TTTTCCTCAT
*
99756597 TTTAATTTCTGCAATTTA
1 TTTAATTTCTACAATTTA
99756615 TTTAATTTC-ACAATTT
1 TTTAATTTCTACAATTT
99756631 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:99759765 original size:7 final size:7
Alignment explanation
Indices: 99759755--99759788 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
99759745 CCACTTATCA
99759755 CTTGTCG
1 CTTGTCG
99759762 CTTGTCG
1 CTTGTCG
99759769 CTTGTCG
1 CTTGTCG
99759776 CTTGTCG
1 CTTGTCG
99759783 CTTGTC
1 CTTGTC
99759789 ACTGATCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.29, G:0.26, T:0.44
Consensus pattern (7 bp):
CTTGTCG
Found at i:99764626 original size:14 final size:14
Alignment explanation
Indices: 99764576--99764638 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
99764566 AATTAGATAA
99764576 ATATTATT-TTATT
1 ATATTATTATTATT
* * *
99764589 AATATTTTTATGA-G
1 -ATATTATTATTATT
99764603 ATATTTATTATTATT
1 ATA-TTATTATTATT
99764618 ATATTATTATTTATT
1 ATATTATTA-TTATT
99764633 -TATTAT
1 ATATTAT
99764639 AAAAGGAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 3 0.08
14 26 0.67
15 10 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:99766442 original size:46 final size:46
Alignment explanation
Indices: 99766389--99766790 Score: 545
Period size: 46 Copynumber: 8.7 Consensus size: 46
99766379 AGTGTGCTCT
* *
99766389 CTGATATGAAATGTGTAAAATCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
*
99766435 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
99766481 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
*
99766527 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* *
99766573 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* ** * *
99766619 GTGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* *** **
99766665 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* * * ** *
99766711 GTAACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* * * *
99766757 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
99766791 CACTATGGCA
Statistics
Matches: 327, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 326 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
Found at i:99766994 original size:25 final size:25
Alignment explanation
Indices: 99766966--99767026 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
99766956 ATAGTTGTAT
**
99766966 GAAATAATTATGAAGATAGATAAAC
1 GAAATAAGAATGAAGATAGATAAAC
*
99766991 GAAATAAGAATTAAGATAGATAAAC
1 GAAATAAGAATGAAGATAGATAAAC
99767016 GAAATAAGAAT
1 GAAATAAGAAT
99767027 TAAGTACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.59, C:0.03, G:0.16, T:0.21
Consensus pattern (25 bp):
GAAATAAGAATGAAGATAGATAAAC
Found at i:99767027 original size:25 final size:25
Alignment explanation
Indices: 99766978--99767030 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
99766968 AATAATTATG
99766978 AAGATAGATAAACGAAATAAGAATT
1 AAGATAGATAAACGAAATAAGAATT
99767003 AAGATAGATAAACGAAATAAGAATT
1 AAGATAGATAAACGAAATAAGAATT
99767028 AAG
1 AAG
99767031 TACATGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.17, T:0.19
Consensus pattern (25 bp):
AAGATAGATAAACGAAATAAGAATT
Found at i:99767133 original size:16 final size:17
Alignment explanation
Indices: 99767112--99767144 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99767102 ATGATGGAGC
99767112 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
99767128 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
99767145 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:99773762 original size:13 final size:13
Alignment explanation
Indices: 99773728--99773762 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
99773718 TATCCTTTCA
*
99773728 TTTCACATTTTAT
1 TTTCACATTTAAT
99773741 TTTCA-ATTTAAT
1 TTTCACATTTAAT
99773753 TTTCACATTT
1 TTTCACATTT
99773763 GCCTCTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTCACATTTAAT
Found at i:99774763 original size:47 final size:47
Alignment explanation
Indices: 99774687--99774955 Score: 375
Period size: 47 Copynumber: 5.7 Consensus size: 47
99774677 CACTAATGAA
*
99774687 CAGAGAGCACTGAAGTGCT--ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
* ***
99774731 CAGAAAGCACTGACGTGCTAAATATCAGAGAGCACTGGTGTGCTAGTAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGC---TAAT
*
99774781 CAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
*
99774828 CAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
* * * *
99774875 CAGAGGGCATTGGCGTGCTAAATATCAGAGAACACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
99774922 CAGAGAGCACTGACGTGCT-AATATTCAGAGAGCA
1 CAGAGAGCACTGACGTGCTAAATA-TCAGAGAGCA
99774956 TGCTGAAGTC
Statistics
Matches: 201, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
44 17 0.08
46 7 0.03
47 135 0.67
50 42 0.21
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (47 bp):
CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
Found at i:99774764 original size:25 final size:24
Alignment explanation
Indices: 99774687--99774955 Score: 207
Period size: 25 Copynumber: 11.4 Consensus size: 24
99774677 CACTAATGAA
*
99774687 CAGAGAGCACTGAAGTGCT-ATA-
1 CAGAGAGCACTGACGTGCTAATAT
** *
99774709 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
*
99774731 CAGAAAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
** *
99774756 CAGAGAGCACTGGTGTGCTAGTAAT
1 CAGAGAGCACTGACGTGCTAAT-AT
*
99774781 CAGAGAGCACTGGCGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
** *
99774806 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
*
99774828 CAGAGAGCACTGGCGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
** *
99774853 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
* * *
99774875 CAGAGGGCATTGGCGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
* ** *
99774900 CAGAGAACACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
99774922 CAGAGAGCACTGACGTGCTAATATT
1 CAGAGAGCACTGACGTGCTAATA-T
99774947 CAGAGAGCA
1 CAGAGAGCA
99774956 TGCTGAAGTC
Statistics
Matches: 190, Mismatches: 42, Indels: 27
0.73 0.16 0.10
Matches are distributed among these distances:
21 1 0.01
22 81 0.43
23 4 0.02
24 6 0.03
25 96 0.51
26 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTAATAT
Found at i:99774902 original size:72 final size:71
Alignment explanation
Indices: 99774687--99774905 Score: 223
Period size: 72 Copynumber: 3.1 Consensus size: 71
99774677 CACTAATGAA
* *
99774687 CAGAGAGCACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAATCAGAAAGCACTGACGTGCT
1 CAGAGAGCACTGGAGTGCTAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCT
99774750 AAATAT
66 AAATAT
* * **** ** *
99774756 CAGAGAGCACTGGTGTGCTAGTAATCAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATG
1 CAGAGAGCACTGGAGTGCTAAT-ATCAGAGAGCACAAATGTGCT--A-ATCAGAGAGCACTGACG
99774821 TGCT--A-AT
62 TGCTAAATAT
* * * *
99774828 CAGAGAGCACTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGGGCATTGGCGTGC
1 CAGAGAGCACTGGAGTGCT-AATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGC
99774893 TAAATAT
65 TAAATAT
99774900 CAGAGA
1 CAGAGA
99774906 ACACAAATGT
Statistics
Matches: 117, Mismatches: 23, Indels: 17
0.75 0.15 0.11
Matches are distributed among these distances:
69 32 0.27
70 2 0.02
71 2 0.02
72 60 0.51
73 3 0.03
74 1 0.01
75 17 0.15
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (71 bp):
CAGAGAGCACTGGAGTGCTAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCT
AAATAT
Found at i:99779858 original size:10 final size:10
Alignment explanation
Indices: 99779843--99779902 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
99779833 TAATTTTAGG
99779843 ATTTAT-TTT
1 ATTTATCTTT
99779852 CATTTATCTTT
1 -ATTTATCTTT
99779863 ATTTATCTTT
1 ATTTATCTTT
*
99779873 AATTATCTTT
1 ATTTATCTTT
*
99779883 ATTTAT-TAGT
1 ATTTATCT-TT
99779893 ATTTATCTTT
1 ATTTATCTTT
99779903 TAGAATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 1 0.02
10 38 0.88
11 4 0.09
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:99780651 original size:17 final size:18
Alignment explanation
Indices: 99780619--99780652 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99780609 TTTTCCTCAT
99780619 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
99780637 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
99780653 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:99781960 original size:18 final size:18
Alignment explanation
Indices: 99781933--99781968 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
99781923 GCTTGGAAGC
99781933 CTCCTCCGCTAGGTTGTT
1 CTCCTCCGCTAGGTTGTT
*
99781951 CTCCTTCGCTAGGTTGTT
1 CTCCTCCGCTAGGTTGTT
99781969 TTTTGTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.22, T:0.42
Consensus pattern (18 bp):
CTCCTCCGCTAGGTTGTT
Found at i:99790438 original size:183 final size:183
Alignment explanation
Indices: 99790099--99790624 Score: 745
Period size: 183 Copynumber: 2.9 Consensus size: 183
99790089 CTGTCATACC
* * * *
99790099 CTCAGTTGTAGCTGGTTTCAGAGTCAATTCTAAACTCGGATTTAGTCTAGGCCCTTT-TGTCTTG
1 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCCTTTCT-TCTTG
* * *
99790163 TGTCTTGCTATATCTTGGGAAGTGCTGTGGTTGGTTGGTATATGCTCCTTGTTGATGCTGGGGGT
65 TATCTTGCTATATCTTGGGAAGTGCTGTGGTTGGTTGGTATGTGCTCCTTGGTGATGCTGGGGGT
* **
99790228 TGTAGTTGCAGTGATTTGATTTAGTTCATGGTTCAGGACATCTGCCAAAAGATA
130 TGTAGTTGCAGTGGTTTGACCTAGTTCATGGTTCAGGACATCTGCCAAAAGATA
* * * * *
99790282 CTCAGCTGTAGTTGGTTTTAGAGTCAATTCTAAACTTGTACTCAATCTAGGCCCTTTCTTCTTGT
1 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCCTTTCTTCTTGT
*
99790347 ATCTTGCTATATCTTGGGAAGTGCTGCGGTTGGTTGGTATGTGCTCCTTGGTGATGCTGGGGGTT
66 ATCTTGCTATATCTTGGGAAGTGCTGTGGTTGGTTGGTATGTGCTCCTTGGTGATGCTGGGGGTT
* * * * *
99790412 CTAGCTGCAGTGGTTCGACCTAGTTCATGTTTCAGGACATCTGCCAAATGATA
131 GTAGTTGCAGTGGTTTGACCTAGTTCATGGTTCAGGACATCTGCCAAAAGATA
* *
99790465 CTCAGTTGTGGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGG-CCTCTTCATCTTG
1 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCCT-TTCTTCTTG
* **
99790529 TATCTTGCTATATCTTGGGAAGTGCTGTTGG-TGGTTGGTATGCGCTCCTT-GTAGATGCCAGGG
65 TATCTTGCTATATCTTGGGAAGTGCTG-TGGTTGGTTGGTATGTGCTCCTTGGT-GATGCTGGGG
*
99790592 GTTGTAGTTGCAGTGGTTTGGCCTAGTTCATGG
128 GTTGTAGTTGCAGTGGTTTGACCTAGTTCATGG
99790625 CTTAAGACCT
Statistics
Matches: 303, Mismatches: 36, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
182 5 0.02
183 295 0.97
184 3 0.01
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (183 bp):
CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCCTTTCTTCTTGT
ATCTTGCTATATCTTGGGAAGTGCTGTGGTTGGTTGGTATGTGCTCCTTGGTGATGCTGGGGGTT
GTAGTTGCAGTGGTTTGACCTAGTTCATGGTTCAGGACATCTGCCAAAAGATA
Found at i:99792472 original size:17 final size:17
Alignment explanation
Indices: 99792450--99792483 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
99792440 ATGATCTCGT
99792450 GTCTCTCTACCAATTCC
1 GTCTCTCTACCAATTCC
99792467 GTCTCTCTACCAATTCC
1 GTCTCTCTACCAATTCC
99792484 ACCTCTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (17 bp):
GTCTCTCTACCAATTCC
Done.