Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 210 of 343
Found at i:69155296 original size:44 final size:44
Alignment explanation
Indices: 69155229--69155316 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
69155219 AAAAGGTGTA
69155229 AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC
1 AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC
*
69155273 AGAATCCTAACCCTCCAGTAGAGTAGGTACGATTTTTCAATGTC
1 AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC
69155317 GTTTCAAGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC
Found at i:69158368 original size:16 final size:17
Alignment explanation
Indices: 69158347--69158379 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69158337 TAATTTAGCC
69158347 ACTTTTA-TTTTATTTT
1 ACTTTTAGTTTTATTTT
*
69158363 ACTTTTAGTTTTGTTTT
1 ACTTTTAGTTTTATTTT
69158380 TAGTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (17 bp):
ACTTTTAGTTTTATTTT
Found at i:69159810 original size:43 final size:43
Alignment explanation
Indices: 69159749--69159896 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 43
69159739 CAATGTCGAC
* * * *
69159749 GTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACAAGTAATTCAATATCGATGCCTAT
* * * * *
69159792 GTCCCAAACAGGGTCTTACACG-AAATCAGATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACAAGTAATTCA-ATATCGATGCCTAT
* * *
69159834 GTCCCAGACATGGTCTTATAAGTAAATCTC-A-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACAAGT-AAT-TCAATATCGATGCCTAT
69159877 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
69159897 CGATGTCTCA
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
42 32 0.39
43 47 0.57
44 2 0.02
45 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACAAGTAATTCAATATCGATGCCTAT
Found at i:69164640 original size:19 final size:18
Alignment explanation
Indices: 69164616--69164721 Score: 128
Period size: 17 Copynumber: 5.8 Consensus size: 18
69164606 TCATATCTTT
69164616 TAAGATTGTATATCATATC
1 TAAGATTG-ATATCATATC
*
69164635 TAAGATTTCA-ATCATATC
1 TAAGA-TTGATATCATATC
69164653 TAAGATTG-TATCATATC
1 TAAGATTGATATCATATC
69164670 TAAGATTG-TATCATATC
1 TAAGATTGATATCATATC
* *
69164687 TAAGATTGCATATAACATC
1 TAAGATTG-ATATCATATC
69164706 TAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
69164722 TGAAGATTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
17 35 0.45
18 13 0.17
19 27 0.35
20 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
TAAGATTGATATCATATC
Found at i:69165585 original size:207 final size:207
Alignment explanation
Indices: 69165119--69166039 Score: 1405
Period size: 207 Copynumber: 4.5 Consensus size: 207
69165109 AAATCTGATT
* * * *
69165119 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
69165184 GCGAAAGCCAAATCAGCTATGTCTTCAATTT-TCTCCTTATAAGCACAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATGCCAAACCATCT
* * * ** * * *
69165248 TGGATC-TACTTCAGTCTAATCATCCGAAGGTTAGATCTGCTATATGTCTGTCCGCCGTCGAATA
130 TGGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
*
69165312 TGGAGATGCCAAA
195 TGGAGACGCCAAA
* *
69165325 ATTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
69165390 GTGAAAGCCAAATCAGTTATGTCTTTGATTTGTTCCATGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * *
69165455 GGATCTTGCTTCGGTATAAAAATCTGAAGGCCAGATCTACTATGTGTCTGCCTTCCGTCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
69165520 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
69165532 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAAACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
69165597 GTGAAAGCGAAATTAGCTATGTCTTCGATTTGTTCCTCGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
69165662 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGGTCTGCTATGTGTCTGCCCTCCATCAAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
69165727 GGAGACGCCAAA
196 GGAGACGCCAAA
**
69165739 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAAAATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
69165804 GTGAAAGCCAAATCAGCTATTTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
69165869 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
69165934 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * **
69165946 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
69166011 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
69166040 CTACTCTCCG
Statistics
Matches: 649, Mismatches: 64, Indels: 3
0.91 0.09 0.00
Matches are distributed among these distances:
206 120 0.18
207 529 0.82
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:69166268 original size:43 final size:43
Alignment explanation
Indices: 69166219--69166527 Score: 146
Period size: 43 Copynumber: 7.3 Consensus size: 43
69166209 ATCTACTCCA
*
69166219 CTACTGCTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC
* * * * *
69166262 CTACTGCTTAGGG-GATTAAG-GCGAGTCATCGTTGATCTATT-CC
1 CTACTGCTTAGGGAGA-TAAGATC-AGTAAT-TTTGACCTGTTACC
69166305 GCTACTGCTTAGGGAGATAAGATCTA-TAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATC-AGTAATTTTGA-CCTGTTACC
* * * * ** ** * *
69166349 CTACTGCTTAGGGGGTTAAGGTGAGTTCTTGTCAATCTGCTT-CA
1 CTACTGCTTAGGGAGATAAGATCAGTAATT-TTGACCTG-TTACC
* *
69166393 CTACTGCTTAGGGAGATAAGATCTGTGA-----ACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC
* * * * * *
69166431 CTACTGCTTAAGGGA-TTAAG-GCGAGT--CTTCGATCTGCT-CC
1 CTACTGCTT-AGGGAGATAAGATC-AGTAATTTTGACCTGTTACC
* * * * *
69166471 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTGACC
1 -CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC
69166515 CTACTGCTTAGGG
1 CTACTGCTTAGGG
69166528 GATTAAGGCG
Statistics
Matches: 195, Mismatches: 45, Indels: 52
0.67 0.15 0.18
Matches are distributed among these distances:
37 3 0.02
38 20 0.10
39 5 0.03
40 7 0.04
41 19 0.10
42 6 0.03
43 70 0.36
44 58 0.30
45 7 0.04
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC
Found at i:69166325 original size:87 final size:84
Alignment explanation
Indices: 69166168--69166537 Score: 439
Period size: 87 Copynumber: 4.4 Consensus size: 84
69166158 CTATACTTTA
* * *
69166168 ACCTGTTACCTTACTACTTAGGGGGTTAAGGCGCA-TCT-TCGATCTACTCCACTACTGCTTAGG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTCTCGATCTACTCCACTACTGCTTAGG
*
69166231 GAGATAAGATCCGTAATTTT
65 GAGATAAGATCTGTAATTTT
* * *
69166251 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGATCTATTCCGCTACTGCTTA
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-TC-TCGATCTACTCCACTACTGCTTA
*
69166316 GGGAGATAAGATCTATAATTTT
63 GGGAGATAAGATCTGTAATTTT
* * * * * *
69166338 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTGAGTTCTTGTCAATCTGCTTCACTACTGCTTA
1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAG-TC-TCTCGATCTACTCCACTACTGCTTA
*
69166403 GGGAGATAAGATCTGTGA----
63 GGGAGATAAGATCTGTAATTTT
* *
69166421 ACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCT-TCGATCTGCTCCACTACTGCTTAGGG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTCTCGATCTACTCCACTACTGCTTAGGG
* *
69166485 AGATAAGATCTGCAAATTTA
66 AGATAAGATCTG-TAATTTT
*
69166505 ACCTGTGACCCTACTGCTTAGGGGATTAAGGCG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
69166538 CTGAATTTTG
Statistics
Matches: 246, Mismatches: 29, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
79 36 0.15
80 2 0.01
81 2 0.01
82 31 0.13
83 2 0.01
84 63 0.26
85 1 0.00
86 1 0.00
87 105 0.43
88 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (84 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTCTCGATCTACTCCACTACTGCTTAGGG
AGATAAGATCTGTAATTTT
Found at i:69167500 original size:23 final size:23
Alignment explanation
Indices: 69167466--69167533 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
69167456 TGGACTCTCC
69167466 ATTTTT-TCTTTTTTCTCTTTTTT
1 ATTTTTAT-TTTTTTCTCTTTTTT
69167489 ATTTTTATTTTTTT-TCTCTTTTT
1 ATTTTTATTTTTTTCTCT-TTTTT
69167512 A-TTTTATTTTTTTGC-CTTTTTT
1 ATTTTTATTTTTTT-CTCTTTTTT
69167534 TTGAAATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
22 20 0.49
23 20 0.49
24 1 0.02
ACGTcount: A:0.07, C:0.10, G:0.01, T:0.81
Consensus pattern (23 bp):
ATTTTTATTTTTTTCTCTTTTTT
Found at i:69167534 original size:23 final size:23
Alignment explanation
Indices: 69167466--69167534 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
69167456 TGGACTCTCC
69167466 ATTTTT-TCTTTTTTCTC-TTTTTT
1 ATTTTTAT-TTTTTTC-CTTTTTTT
* *
69167489 ATTTTTATTTTTTTTCTCTTTTT
1 ATTTTTATTTTTTTCCTTTTTTT
69167512 A-TTTTATTTTTTTGCCTTTTTTT
1 ATTTTTATTTTTTT-CCTTTTTTT
69167535 TGAAATAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 13 0.33
23 25 0.64
24 1 0.03
ACGTcount: A:0.07, C:0.10, G:0.01, T:0.81
Consensus pattern (23 bp):
ATTTTTATTTTTTTCCTTTTTTT
Found at i:69172376 original size:24 final size:24
Alignment explanation
Indices: 69172344--69172391 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
69172334 TCCGAAAGTA
69172344 TACAAACATCACATCCAGCATGTG
1 TACAAACATCACATCCAGCATGTG
69172368 TACAAACATCACATCCAGCATGTG
1 TACAAACATCACATCCAGCATGTG
69172392 AGGACATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (24 bp):
TACAAACATCACATCCAGCATGTG
Found at i:69173025 original size:17 final size:18
Alignment explanation
Indices: 69172974--69173097 Score: 171
Period size: 17 Copynumber: 6.8 Consensus size: 18
69172964 TCATATCTTT
*
69172974 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
69172993 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
69173011 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
69173028 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
69173046 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
69173063 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
69173082 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
69173098 TGAAGATTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
17 32 0.34
18 32 0.34
19 31 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:69173029 original size:35 final size:35
Alignment explanation
Indices: 69172974--69173089 Score: 196
Period size: 35 Copynumber: 3.2 Consensus size: 35
69172964 TCATATCTTT
69172974 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
69173011 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
69173046 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
69173082 TAAGATTG
1 TAAGATTG
69173090 CATATCATTG
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.70
36 15 0.19
37 8 0.10
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:69177385 original size:48 final size:48
Alignment explanation
Indices: 69177310--69177452 Score: 214
Period size: 48 Copynumber: 3.0 Consensus size: 48
69177300 ACTTGGGAGT
*
69177310 CTCGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
* *
69177358 CTTGCACCCGAAGTGCCAATATTATGGCCCAAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
* * * **
69177406 CTCGCACTCGAATTGCCAATATCATAGCCTGAAGCCAAATCAATGTA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTA
69177453 TTCCCTAATG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
Found at i:69182629 original size:18 final size:18
Alignment explanation
Indices: 69182608--69182646 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
69182598 TAAATAAGAT
*
69182608 AAATAAAGATAA-AAGTAA
1 AAATAAA-ATAATAAATAA
69182626 AAATAAAATAATAAATAA
1 AAATAAAATAATAAATAA
69182644 AAA
1 AAA
69182647 GTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAAATAATAAATAA
Found at i:69182631 original size:12 final size:11
Alignment explanation
Indices: 69182550--69182645 Score: 59
Period size: 11 Copynumber: 8.4 Consensus size: 11
69182540 AAAAATTATA
*
69182550 AAAACTAAAATT
1 AAAA-TAAAAAT
*
69182562 AAAAT-AATAT
1 AAAATAAAAAT
* *
69182572 TAAAGAAAAAT
1 AAAATAAAAAT
*
69182583 GAAATAAAAAT
1 AAAATAAAAAT
* * *
69182594 TAATTAAATAAG
1 AAAATAAA-AAT
*
69182606 ATAAATAAAGAT
1 A-AAATAAAAAT
69182618 AAAAGTAAAAAT
1 AAAA-TAAAAAT
69182630 AAAATAATAAAT
1 AAAATAA-AAAT
69182642 AAAA
1 AAAA
69182646 AGTTTTTAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
10 6 0.09
11 26 0.41
12 26 0.41
13 6 0.09
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:69193947 original size:43 final size:43
Alignment explanation
Indices: 69193898--69194015 Score: 160
Period size: 36 Copynumber: 2.9 Consensus size: 43
69193888 TTTTTATAAG
*
69193898 TATATATTTATGTATTACGTAAATTATGTAAGTTATGATATGA
1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA
*
69193941 TATATATTTATG---T-C---AGTTATGTAAGTTATAATATGA
1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA
*
69193977 TATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT
1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGAT
69194016 CCAAAGTATT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
36 32 0.50
39 2 0.03
40 1 0.02
43 29 0.45
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (43 bp):
TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA
Found at i:69194098 original size:35 final size:35
Alignment explanation
Indices: 69194035--69194115 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
69194025 TTTTTTTATT
*
69194035 CTTTAAATATTTACTTAAATTATGATAATCATAAA
1 CTTTAAATATTTACTTAAATTATAATAATCATAAA
* *
69194070 CTTTAAATGTTTA-TATAAGTTATAATAATCATAAA
1 CTTTAAATATTTACT-TAAATTATAATAATCATAAA
69194105 CTTTAAATATT
1 CTTTAAATATT
69194116 ATTAAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 1 0.02
35 40 0.98
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (35 bp):
CTTTAAATATTTACTTAAATTATAATAATCATAAA
Found at i:69196281 original size:18 final size:20
Alignment explanation
Indices: 69196258--69196307 Score: 77
Period size: 18 Copynumber: 2.6 Consensus size: 20
69196248 TTATGATTTT
69196258 GATTTGGGGAAAATTT-AGG
1 GATTTGGGGAAAATTTGAGG
69196277 G-TTTGGGGAAAATTTGAGG
1 GATTTGGGGAAAATTTGAGG
*
69196296 GATTTAGGGAAA
1 GATTTGGGGAAA
69196308 TTTTTTATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.50
19 5 0.18
20 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (20 bp):
GATTTGGGGAAAATTTGAGG
Found at i:69197098 original size:7 final size:7
Alignment explanation
Indices: 69197088--69197149 Score: 67
Period size: 7 Copynumber: 8.9 Consensus size: 7
69197078 ACCCTAAATA
69197088 ATAAACC
1 ATAAACC
69197095 ATAAACC
1 ATAAACC
69197102 ATAAAACC
1 AT-AAACC
69197110 AT-AACC
1 ATAAACC
69197116 ACTAAA-C
1 A-TAAACC
*
69197123 ATGAAGCC
1 AT-AAACC
69197131 -TAAACC
1 ATAAACC
69197137 ATAAACC
1 ATAAACC
69197144 ATAAAC
1 ATAAAC
69197150 TCTAAACTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
6 10 0.21
7 27 0.57
8 10 0.21
ACGTcount: A:0.55, C:0.27, G:0.03, T:0.15
Consensus pattern (7 bp):
ATAAACC
Found at i:69197115 original size:21 final size:21
Alignment explanation
Indices: 69197089--69197156 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
69197079 CCCTAAATAA
69197089 TAAACCATAAACCATAAAACC
1 TAAACCATAAACCATAAAACC
* *
69197110 -ATAACCACTAAA-CATGAAGCC
1 TA-AACCA-TAAACCATAAAACC
69197131 TAAACCATAAACCAT-AAACTC
1 TAAACCATAAACCATAAAAC-C
69197152 TAAAC
1 TAAAC
69197157 TTTAAATCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 8 0.21
21 26 0.67
22 5 0.13
ACGTcount: A:0.53, C:0.28, G:0.03, T:0.16
Consensus pattern (21 bp):
TAAACCATAAACCATAAAACC
Found at i:69197553 original size:84 final size:83
Alignment explanation
Indices: 69197420--69197591 Score: 256
Period size: 84 Copynumber: 2.1 Consensus size: 83
69197410 AGTAAAAACA
*
69197420 CCACTAAAACTTAATTCCCTATAGTGAAACGATGCTGCCCAAGGCAAATTGGTATTGCAATTTTG
1 CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTTTG
69197485 CGGCGTTTATGAAAAATG
66 CGGCGTTTATGAAAAATG
* * * * *
69197503 CCACTAAAAATTTAATTCCCTGTAGTGAAACGACG-TCGTCTAGGGCAAATTGGTATTGCAATTT
1 CCACT-AAAACTTAATTCCCTATAGTGAAACGACGCT-GCCCAAGGCAAATTGGTATTGCAATTT
*
69197567 TGTGGCGTTTATGAAAAATG
64 TGCGGCGTTTATGAAAAATG
69197587 CCACT
1 CCACT
69197592 GATACAAAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
83 6 0.08
84 74 0.93
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (83 bp):
CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTTTG
CGGCGTTTATGAAAAATG
Found at i:69199098 original size:21 final size:21
Alignment explanation
Indices: 69199073--69199125 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
69199063 TTAGAGATTC
* *
69199073 CACACGGGCGTGTGTTTTGGA
1 CACACGGGCGTGTCTTGTGGA
* * * *
69199094 CACACAGCCATGTCTTGTGGG
1 CACACGGGCGTGTCTTGTGGA
69199115 CACACGGGCGT
1 CACACGGGCGT
69199126 ATGAGACCCT
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.34, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTCTTGTGGA
Found at i:69202093 original size:17 final size:17
Alignment explanation
Indices: 69202059--69202097 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
69202049 TTTAAGTTAA
*
69202059 TATTTTTAATTATTTTT
1 TATTTTTAATTATATTT
69202076 TATTTTTAATT-TAATTT
1 TATTTTTAATTAT-ATTT
69202093 TATTT
1 TATTT
69202098 ATTTTTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTAATTATATTT
Found at i:69202104 original size:22 final size:22
Alignment explanation
Indices: 69202063--69202103 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
69202053 AGTTAATATT
*
69202063 TTTAATTATTTTTTATTTTTAA
1 TTTAATTATTATTTATTTTTAA
69202085 TTTAATT-TTATTTATTTTT
1 TTTAATTATTATTTATTTTT
69202104 TCTCCATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTAATTATTATTTATTTTTAA
Found at i:69202495 original size:20 final size:20
Alignment explanation
Indices: 69202470--69202507 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69202460 CACTGGGGTT
*
69202470 TTCACATGGGCATGTGCTAG
1 TTCACATGAGCATGTGCTAG
*
69202490 TTCACATGATCATGTGCT
1 TTCACATGAGCATGTGCT
69202508 TTTAGGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (20 bp):
TTCACATGAGCATGTGCTAG
Found at i:69202917 original size:21 final size:21
Alignment explanation
Indices: 69202888--69202940 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
69202878 TTCACACAGG
* *
69202888 CGTGAGCCTTTATCACATGGG
1 CGTGTGCCTTTATCACATGGC
* * *
69202909 TGTGTGCCTCTGTCACATGGC
1 CGTGTGCCTTTATCACATGGC
69202930 CGTGTGCCTTT
1 CGTGTGCCTTT
69202941 TTTTACACGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.11, C:0.26, G:0.28, T:0.34
Consensus pattern (21 bp):
CGTGTGCCTTTATCACATGGC
Found at i:69209519 original size:28 final size:28
Alignment explanation
Indices: 69209486--69209544 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
69209476 GAAGTAAGGA
69209486 ATTCTCATCTTATACCCATTCAGGAAAC
1 ATTCTCATCTTATACCCATTCAGGAAAC
*
69209514 ATTCTCCTCTTATACCCATTCAGGAAAC
1 ATTCTCATCTTATACCCATTCAGGAAAC
69209542 ATT
1 ATT
69209545 TCTAGATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.34
Consensus pattern (28 bp):
ATTCTCATCTTATACCCATTCAGGAAAC
Found at i:69216622 original size:47 final size:47
Alignment explanation
Indices: 69216564--69216685 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
69216554 GCATTGGCAT
69216564 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
69216611 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
69216658 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
69216686 CCAAGGCATG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:69216793 original size:55 final size:54
Alignment explanation
Indices: 69216664--69216915 Score: 305
Period size: 55 Copynumber: 4.6 Consensus size: 54
69216654 TTGGTAAGAT
* *
69216664 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
** ** *
69216718 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* *
69216773 AAAGG-TCTCATATAAGACCATGCCAAGGCATGGCATTCATGAGTTACTATAAGGC
1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* *
69216828 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * *
69216881 AAGGATAC-CACGTAAGACCATGTCAAGACATGGCA
1 AAGGAT-CTCATGTAAGACCATGCCAAGGCATGGCA
69216916 ATGGTAAGTT
Statistics
Matches: 175, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
52 4 0.02
53 31 0.18
54 42 0.24
55 94 0.54
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:69220254 original size:16 final size:18
Alignment explanation
Indices: 69220218--69220257 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
69220208 CTATTATTCA
69220218 GAACAACCTCTACATTGG
1 GAACAACCTCTACATTGG
*
69220236 GAACAA-CTC-ACATTTG
1 GAACAACCTCTACATTGG
69220252 GAACAA
1 GAACAA
69220258 GTCAAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 3 0.14
18 6 0.29
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (18 bp):
GAACAACCTCTACATTGG
Found at i:69220308 original size:17 final size:17
Alignment explanation
Indices: 69220276--69220309 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69220266 TATCATTATT
**
69220276 CAAGAACAACTCTCATC
1 CAAGAACAACAATCATC
69220293 CAAGAACAACAATCATC
1 CAAGAACAACAATCATC
69220310 TTGTGTTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.32, G:0.06, T:0.15
Consensus pattern (17 bp):
CAAGAACAACAATCATC
Found at i:69220989 original size:24 final size:24
Alignment explanation
Indices: 69220962--69221018 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
69220952 TGTTATGGTA
*
69220962 AGTTGTTCCAGAAACACTATATC-T
1 AGTTGTTCCAGAAACAAT-TATCTT
* * *
69220986 AGTTATTCTAGAAACAATTTTCTT
1 AGTTGTTCCAGAAACAATTATCTT
69221010 AGTTGTTCC
1 AGTTGTTCC
69221019 CATTTTCTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (24 bp):
AGTTGTTCCAGAAACAATTATCTT
Found at i:69222855 original size:45 final size:45
Alignment explanation
Indices: 69222789--69222874 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
69222779 CACCGAACAC
* *
69222789 AACCAATTTACCCTCCAAACACAACCAAGTATAACCTCCAAGCAT
1 AACCAATATACCCTCCAAACACAACCAAATATAACCTCCAAGCAT
*
69222834 AACCAAATATACCCTCC-AACACAACCAAATATACCCTCCAA
1 AACC-AATATACCCTCCAAACACAACCAAATATAACCTCCAA
69222875 ACACATCCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 26 0.70
46 11 0.30
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.16
Consensus pattern (45 bp):
AACCAATATACCCTCCAAACACAACCAAATATAACCTCCAAGCAT
Found at i:69222888 original size:22 final size:23
Alignment explanation
Indices: 69222784--69222879 Score: 133
Period size: 23 Copynumber: 4.3 Consensus size: 23
69222774 TCACCCACCG
*
69222784 AACACAACC-AATTTACCCTCCA
1 AACACAACCAAATATACCCTCCA
* *
69222806 AACACAACCAAGTATAACCTCCA
1 AACACAACCAAATATACCCTCCA
* *
69222829 AGCATAACCAAATATACCCTCC-
1 AACACAACCAAATATACCCTCCA
69222851 AACACAACCAAATATACCCTCCA
1 AACACAACCAAATATACCCTCCA
69222874 AACACA
1 AACACA
69222880 TCCACTATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 29 0.46
23 34 0.54
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.15
Consensus pattern (23 bp):
AACACAACCAAATATACCCTCCA
Found at i:69223690 original size:3 final size:3
Alignment explanation
Indices: 69223682--69223717 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
69223672 TGTGTGTTCT
69223682 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
69223718 TTTCACAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:69228140 original size:3 final size:3
Alignment explanation
Indices: 69228132--69228169 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
69228122 TGTGTGTTCT
69228132 TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
69228170 TTTTCACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:69228143 original size:6 final size:5
Alignment explanation
Indices: 69228131--69228171 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
69228121 TTGTGTGTTC
69228131 TTTAT TATTAT TATTAT TATTAT TTTAT TTTAT TTTAT TTT
1 TTTAT T-TTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTT
69228172 TTCACACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:69229484 original size:16 final size:19
Alignment explanation
Indices: 69229463--69229506 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 19
69229453 AGCATCACCA
69229463 AGAACAACTCT-TAC-TT-
1 AGAACAACTCTCTACATTG
69229479 AGAACAACT-TCTACATTG
1 AGAACAACTCTCTACATTG
69229497 AGAACAACTC
1 AGAACAACTC
69229507 ATGTTTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.50
17 2 0.08
18 9 0.38
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (19 bp):
AGAACAACTCTCTACATTG
Found at i:69229570 original size:17 final size:17
Alignment explanation
Indices: 69229538--69229571 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69229528 AATCATTTTT
**
69229538 CAAGAACAACTTTCATC
1 CAAGAACAACCATCATC
69229555 CAAGAACAACCATCATC
1 CAAGAACAACCATCATC
69229572 TTGCGTTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.32, G:0.06, T:0.18
Consensus pattern (17 bp):
CAAGAACAACCATCATC
Found at i:69230485 original size:16 final size:16
Alignment explanation
Indices: 69230464--69230494 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69230454 AGATGGGATA
69230464 TATTACATTCAAATTT
1 TATTACATTCAAATTT
*
69230480 TATTACATTTAAATT
1 TATTACATTCAAATT
69230495 ACCTTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTACATTCAAATTT
Found at i:69231897 original size:16 final size:15
Alignment explanation
Indices: 69231876--69231905 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
69231866 ATTACTCACA
69231876 TATTTAAATTTAATTT
1 TATTTAAA-TTAATTT
69231892 TATTTAAATTAATT
1 TATTTAAATTAATT
69231906 ACATATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTAAATTAATTT
Found at i:69251152 original size:15 final size:14
Alignment explanation
Indices: 69251132--69251174 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
69251122 TCGGCCCAAC
*
69251132 AAAACAAACAAATCA
1 AAAACAAAAAAAT-A
69251147 AAAACAACAAAAATA
1 AAAACAA-AAAAATA
69251162 AAAACAAATAAAA
1 AAAACAAA-AAAA
69251175 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 19 0.76
16 5 0.20
ACGTcount: A:0.79, C:0.14, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAACAAAAAAATA
Found at i:69254139 original size:20 final size:20
Alignment explanation
Indices: 69254091--69254138 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
69254081 TATAAATAAC
69254091 TTGAA-TTTTAAAAATTATT
1 TTGAATTTTTAAAAATTATT
* *
69254110 TTGCATTTTTGAAAATTATT
1 TTGAATTTTTAAAAATTATT
69254130 TT-AATTTTT
1 TTGAATTTTT
69254139 TTTGGTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
TTGAATTTTTAAAAATTATT
Found at i:69257635 original size:30 final size:29
Alignment explanation
Indices: 69257579--69257639 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
69257569 ATGTAATATA
69257579 AACATATAAGAAAAATAATAGATATAAAGT
1 AACATATAAGAAAAATAATAGATAT-AAGT
*
69257609 AACATATAA-AACAATATATATG-TATAAGT
1 AACATATAAGAAAAATA-ATA-GATATAAGT
69257638 AA
1 AA
69257640 TTAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 12 0.43
30 15 0.54
31 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (29 bp):
AACATATAAGAAAAATAATAGATATAAGT
Found at i:69257694 original size:25 final size:27
Alignment explanation
Indices: 69257641--69257698 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
69257631 TATAAGTAAT
69257641 TAATAA-ATATAATAAATGTGAAAATA
1 TAATAATATATAATAAATGTGAAAATA
*
69257667 TAATAATATATAAAAAGATGT-AAAATAA
1 TAATAATATATAATAA-ATGTGAAAAT-A
69257695 TAAT
1 TAAT
69257699 TTAAGGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.21
27 13 0.46
28 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (27 bp):
TAATAATATATAATAAATGTGAAAATA
Found at i:69257749 original size:20 final size:20
Alignment explanation
Indices: 69257713--69257750 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69257703 GGAAAATAAT
*
69257713 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
69257733 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
69257751 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:69257832 original size:19 final size:19
Alignment explanation
Indices: 69257808--69257845 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
69257798 AAAATAAACA
*
69257808 AATAATACAATATATATAG
1 AATAATACAATAAATATAG
*
69257827 AATAATATAATAAATATAG
1 AATAATACAATAAATATAG
69257846 GACTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATACAATAAATATAG
Found at i:69258980 original size:17 final size:20
Alignment explanation
Indices: 69258958--69258994 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
69258948 TAGTTTTAAT
69258958 TGGGTC-AC-GGGT-GTTTG
1 TGGGTCTACTGGGTAGTTTG
69258975 TGGGTCTACTGGGTAGTTTG
1 TGGGTCTACTGGGTAGTTTG
69258995 GGCCTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 4 0.24
20 5 0.29
ACGTcount: A:0.08, C:0.11, G:0.43, T:0.38
Consensus pattern (20 bp):
TGGGTCTACTGGGTAGTTTG
Found at i:69260661 original size:17 final size:17
Alignment explanation
Indices: 69260639--69260671 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
69260629 CTTTTCAACA
69260639 TCAAATCAAT-ACATATT
1 TCAAAT-AATCACATATT
69260656 TCAAATAATCACATAT
1 TCAAATAATCACATAT
69260672 AATCATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAAATAATCACATATT
Found at i:69264231 original size:6 final size:5
Alignment explanation
Indices: 69264204--69264256 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
69264194 ATATATTATA
* * * *
69264204 ATAAT ATAAT ATAGT GTAAT ATTAAT ATAAT AATAAA ATAAT ATATT ATAAT
1 ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT -ATAAT ATAAT ATAAT ATAAT
69264256 A
1 A
69264257 AAAATCTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 29 0.76
6 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:69264254 original size:18 final size:18
Alignment explanation
Indices: 69264194--69264259 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 18
69264184 ATATATCTAT
*
69264194 ATATATTATAATAATATA
1 ATATATTATAATAAAATA
* * *
69264212 ATATAGTGTAAT--ATTA
1 ATATATTATAATAAAATA
69264228 ATATA--ATAATAAAATA
1 ATATATTATAATAAAATA
69264244 ATATATTATAATAAAA
1 ATATATTATAATAAAA
69264260 ATCTTAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.11
16 15 0.39
18 19 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
ATATATTATAATAAAATA
Found at i:69264256 original size:32 final size:32
Alignment explanation
Indices: 69264196--69264256 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
69264186 ATATCTATAT
* * *
69264196 ATATTATAATAATATAATATAGTGTAATATTA
1 ATATAATAATAAAATAATATAGTATAATATTA
*
69264228 ATATAATAATAAAATAATATATTATAATA
1 ATATAATAATAAAATAATATAGTATAATA
69264257 AAAATCTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (32 bp):
ATATAATAATAAAATAATATAGTATAATATTA
Found at i:69273419 original size:5 final size:5
Alignment explanation
Indices: 69273406--69273438 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
69273396 ATACACTATG
*
69273406 AATCC AATCT AATCC AATCC AATCC AATCC AAT
1 AATCC AATCC AATCC AATCC AATCC AATCC AAT
69273439 AGCAAGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (5 bp):
AATCC
Found at i:69277951 original size:20 final size:20
Alignment explanation
Indices: 69277926--69277969 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
69277916 CGGGTAGGGG
69277926 ACACGGACATGTCCCAAAGC
1 ACACGGACATGTCCCAAAGC
*
69277946 ACACGGGCATGTCCCAAAGC
1 ACACGGACATGTCCCAAAGC
69277966 ACAC
1 ACAC
69277970 AGGCGTGTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.36, G:0.20, T:0.09
Consensus pattern (20 bp):
ACACGGACATGTCCCAAAGC
Found at i:69282985 original size:45 final size:45
Alignment explanation
Indices: 69282914--69283006 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
69282904 CTATTACCGC
* *
69282914 TACTGCTACTGTTATCGATTCAGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
* * *
69282959 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGGATATTGT
1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
69283004 TAC
1 TAC
69283007 CGTACTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (45 bp):
TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
Found at i:69283086 original size:59 final size:59
Alignment explanation
Indices: 69283009--69283136 Score: 202
Period size: 59 Copynumber: 2.2 Consensus size: 59
69282999 ATTGTTACCG
* * * *
69283009 TACTATTACTGTTGCTGTTCTGGATTTATTCTGATGAGGTACTCTGTGTACCATACTGC
1 TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC
* *
69283068 TACTGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC
1 TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC
69283127 TACTGTTACT
1 TACTGTTACT
69283137 ATTCCGGCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (59 bp):
TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC
Found at i:69283416 original size:18 final size:18
Alignment explanation
Indices: 69283244--69283418 Score: 57
Period size: 18 Copynumber: 9.3 Consensus size: 18
69283234 AAAGGTATAA
* *
69283244 AATAACTGAATATTACTG
1 AATAACTGACTGTTACTG
* *
69283262 AATAATTGA-TCATTACTG
1 AATAACTGACT-GTTACTG
* * *
69283280 AATAACTCAATTGTTACTA
1 AATAACT-GACTGTTACTG
* * *
69283299 AATATCTGA-TTTTACTA
1 AATAACTGACTGTTACTG
*
69283316 AATAATTGACTGTTACTG
1 AATAACTGACTGTTACTG
* *
69283334 GATAACCGATCAATTGATCGATACTG
1 AATAACTGA-C---TG-T---TACTG
** * *
69283360 AATAACTGGTTATTATTG
1 AATAACTGACTGTTACTG
* * *
69283378 AATAATTGATTGTTACCG
1 AATAACTGACTGTTACTG
*
69283396 AATAACTGACTGTTGCTG
1 AATAACTGACTGTTACTG
69283414 AATAA
1 AATAA
69283419 ATAATTGTTC
Statistics
Matches: 115, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
17 15 0.13
18 70 0.61
19 13 0.11
20 1 0.01
21 1 0.01
22 3 0.03
23 1 0.01
26 11 0.10
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (18 bp):
AATAACTGACTGTTACTG
Found at i:69287195 original size:12 final size:12
Alignment explanation
Indices: 69287178--69287202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69287168 CAGTTGGGTA
69287178 TACGGATTGGAT
1 TACGGATTGGAT
69287190 TACGGATTGGAT
1 TACGGATTGGAT
69287202 T
1 T
69287203 GAATCCCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TACGGATTGGAT
Found at i:69293314 original size:47 final size:47
Alignment explanation
Indices: 69293193--69293314 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
69293183 GCATTGGCAC
* *
69293193 TAAGACCAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
69293240 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
69293287 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
69293315 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:69293422 original size:55 final size:54
Alignment explanation
Indices: 69293293--69293489 Score: 229
Period size: 54 Copynumber: 3.6 Consensus size: 54
69293283 TTGGTAAGAT
* * *
69293293 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
69293347 AAGGAAATCATGTACGACCATGTCAAGATATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * *
69293402 AAAGG-TCCCATGTAAGACCATGCCAAGCCATGGCATT-AGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGA-TAAGTTCTATAAGGC
* *
69293455 AAGGATACCATATAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
69293490 ATGGTAAATT
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 42 0.35
55 38 0.31
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:69297832 original size:33 final size:33
Alignment explanation
Indices: 69297785--69297850 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
69297775 GAAAGCTACA
69297785 GTAAGTTTTAACCATGAGATTGCTAAATGTTAT
1 GTAAGTTTTAACCATGAGATTGCTAAATGTTAT
*
69297818 GTAAGTTTTGACCATGAGATTGCTAAATGTTAT
1 GTAAGTTTTAACCATGAGATTGCTAAATGTTAT
69297851 TGCATGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (33 bp):
GTAAGTTTTAACCATGAGATTGCTAAATGTTAT
Found at i:69300432 original size:23 final size:23
Alignment explanation
Indices: 69300238--69300436 Score: 231
Period size: 23 Copynumber: 8.7 Consensus size: 23
69300228 GGAATCTATA
* *
69300238 GGCTACAATAGAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
*
69300261 GGCTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAAT-ACAGTGGTAGCTTC
*
69300284 GGCTACAATATAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* *
69300307 GGTTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAAT-ACAGTGGTAGCTTC
*
69300330 AGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
69300353 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* *
69300376 GGCTACAACATAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* ** *
69300399 GGTTACGTTACAGTGATAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* *
69300422 GGCTATATTACAGTG
1 GGCTACAATACAGTG
69300437 TGGCACTTTG
Statistics
Matches: 149, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.03
23 141 0.95
24 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCTACAATACAGTGGTAGCTTC
Found at i:69303365 original size:54 final size:53
Alignment explanation
Indices: 69303302--69303459 Score: 178
Period size: 55 Copynumber: 2.9 Consensus size: 53
69303292 AGATAAGGAT
* *
69303302 ATCATGTAAGACCATGCCAAGCATTGGCATTGATAAGTTCTATAAGGCAAGAA-A
1 ATCATGTAAGACCATGCCAAGCA-TGACATTGATGAGTTCTATAAGGCAA-AATA
* * *
69303356 ATCATGTAAGACCATGTCAAGACATGCCATTGATGAGTTACTATAAGG-AAAATTT
1 ATCATGTAAGACCATGCCAAG-CATGACATTGATGAGTT-CTATAAGGCAAAA-TA
* *
69303411 CTCATGTAAGACCATGCCAATGCATGACATTGGTGAGTTC-ATAAGGCAA
1 ATCATGTAAGACCATGCCAA-GCATGACATTGATGAGTTCTATAAGGCAA
69303460 TGATACCACG
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
53 8 0.09
54 38 0.42
55 43 0.48
56 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (53 bp):
ATCATGTAAGACCATGCCAAGCATGACATTGATGAGTTCTATAAGGCAAAATA
Found at i:69310823 original size:40 final size:39
Alignment explanation
Indices: 69310770--69310930 Score: 128
Period size: 40 Copynumber: 4.0 Consensus size: 39
69310760 AAAATCGAAT
* * *
69310770 AGATCGAGTATTAGCAGCGCTTTTTAAAAAACGCGGCTAA
1 AGATCAAGCATTAGC-GCGCTTTTTAAAAAACGCCGCTAA
* *
69310810 AGATCAAGCATTAGTG-GCATTTTTAAGAAACAGCCGCTAA
1 AGATCAAGCATTAGCGCGC-TTTTTAAAAAAC-GCCGCTAA
* * * * * *
69310850 ATATCGAGCATTAGCGGGGTTTTTAAGAAAGCGCCGCTAT
1 AGATCAAGCATTAGCGCGCTTTTTAA-AAAACGCCGCTAA
* * *
69310890 AGGTCAATC-TATAGCGGCGCTTTTTTAAAAACGCCGCTAA
1 AGATCAAGCAT-TAGC-GCGCTTTTTAAAAAACGCCGCTAA
69310930 A
1 A
69310931 AGATTAAAGC
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
38 2 0.02
39 13 0.14
40 67 0.71
41 12 0.13
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (39 bp):
AGATCAAGCATTAGCGCGCTTTTTAAAAAACGCCGCTAA
Found at i:69311099 original size:22 final size:22
Alignment explanation
Indices: 69311059--69311100 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
69311049 TCTAAACTAT
* *
69311059 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTAGGGATTATGGG
*
69311081 TTTAAGGGTTAGGGTTTATG
1 TTTAAGGGTTAGGGATTATG
69311101 TTTGATGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (22 bp):
TTTAAGGGTTAGGGATTATGGG
Found at i:69311565 original size:21 final size:21
Alignment explanation
Indices: 69311541--69311580 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
69311531 TCTCTAGTCG
69311541 TAAACCATAAACTA-TAAACTA
1 TAAACCATAAA-TATTAAACTA
*
69311562 TAAACCCTAAATATTAAAC
1 TAAACCATAAATATTAAAC
69311581 CTTGAATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCATAAATATTAAACTA
Found at i:69311753 original size:21 final size:21
Alignment explanation
Indices: 69311703--69311755 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
69311693 TATAAAACTT
* *
69311703 AAAATTATAAACCCTAAATCT
1 AAAATCATAAACCCTAAATCC
* *
69311724 TAAACCATAAACCCTAAATCC
1 AAAATCATAAACCCTAAATCC
69311745 AAAATCATAAA
1 AAAATCATAAA
69311756 ACCTTAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATCATAAACCCTAAATCC
Found at i:69312450 original size:75 final size:75
Alignment explanation
Indices: 69312365--69312510 Score: 181
Period size: 75 Copynumber: 1.9 Consensus size: 75
69312355 TTTTCACTAG
* * *
69312365 AAAATGCCAC-AAACATCTATTAATAGATTGCAAAACGGCGTCGTTAT-TA-CCTTGTTATTAGT
1 AAAATGCCACAAAACATCTA--AAGAGATTGCAAAACAGCATCGTTATATAGCCTT-TTATTAGT
69312427 GGCGCTTTTTGGA
63 GGCGCTTTTTGGA
* * * *
69312440 AAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAGCCTTTTATTAGTGGT
1 AAAATGCCACAAAACATCTAAAGAGATTGCAAAACAGCATCGTTATATAGCCTTTTATTAGTGGC
69312505 GCTTTT
66 GCTTTT
69312511 ATAAACGCCA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
74 20 0.33
75 28 0.46
76 13 0.21
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (75 bp):
AAAATGCCACAAAACATCTAAAGAGATTGCAAAACAGCATCGTTATATAGCCTTTTATTAGTGGC
GCTTTTTGGA
Found at i:69312597 original size:188 final size:189
Alignment explanation
Indices: 69312301--69312640 Score: 458
Period size: 188 Copynumber: 1.8 Consensus size: 189
69312291 TCATTTACAT
* * * **
69312301 CCTTGTTATTAGTGGTGCTTCTATAAACACCGCAACAGGTGTAAATTACCGGTGTTTTCACTAGA
1 CCTTGTTATTAGTGGTGCTTCTATAAACACCACAAAAGATGTAAATTACCGGCATTTTCACTAGA
* * * * *
69312366 AAATGCCACAAACATCTATTAATAGATTGCAAAACGGCGTCG-TTATTA-CCTT-GTTATTAGTG
66 AAACGCCACAAAAATCTATTAATAGATTGCAAAACGACGTCGTTTA-TAGCCTTCCTAATTAGTG
*
69312428 GCGCTTTTTGGAAAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAG
130 GCGCTTTAT--AAAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAG
* * *
69312490 CCTT-TTATTAGTGGTGCTTTTATAAACGCCACAAAAGATGTGAAA-TACCGGCATTTTCGCTAG
1 CCTTGTTATTAGTGGTGCTTCTATAAACACCACAAAAGATGT-AAATTACCGGCATTTTCACTAG
*
69312553 -AAACGCCACAAAAATCTATTAATAGATTGCAAAAACTACGTCGTTTATAGCCTTCCTAATTAGT
65 AAAACGCCACAAAAATCTATTAATAGATTGC-AAAACGACGTCGTTTATAGCCTTCCTAATTAGT
69312617 GGCGCTTTATAAAAATGCCACAAA
129 GGCGCTTTATAAAAATGCCACAAA
69312641 TATTTTTGAA
Statistics
Matches: 131, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
187 28 0.21
188 73 0.56
189 14 0.11
190 16 0.12
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (189 bp):
CCTTGTTATTAGTGGTGCTTCTATAAACACCACAAAAGATGTAAATTACCGGCATTTTCACTAGA
AAACGCCACAAAAATCTATTAATAGATTGCAAAACGACGTCGTTTATAGCCTTCCTAATTAGTGG
CGCTTTATAAAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAG
Found at i:69314477 original size:24 final size:24
Alignment explanation
Indices: 69314450--69314496 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
69314440 ATTATTATTG
* *
69314450 AAATATTCTCGTTCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
69314474 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
69314497 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:69314736 original size:19 final size:19
Alignment explanation
Indices: 69314712--69314827 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 19
69314702 CAATCTTATT
69314712 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTTGGA
* *
69314731 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
69314750 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTTGGA
69314770 TTAATTAATAATATAATTTGGA
1 TTAA-T--TAATATAATTTGGA
* *
69314792 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
69314811 TTAAATTAATATAATTT
1 TT-AATTAATATAATTT
69314828 TTATAAATAC
Statistics
Matches: 78, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
18 4 0.05
19 27 0.35
20 24 0.31
21 5 0.06
22 18 0.23
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
TTAATTAATATAATTTGGA
Found at i:69314784 original size:22 final size:23
Alignment explanation
Indices: 69314746--69314797 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
69314736 TTATTTAAAT
*
69314746 ATTATTTAATTAATATAATTTGG
1 ATTAATTAATTAATATAATTTGG
69314769 ATTAATTAA-TAATATAATTTGG
1 ATTAATTAATTAATATAATTTGG
69314791 ATTAATT
1 ATTAATT
69314798 TATTTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (23 bp):
ATTAATTAATTAATATAATTTGG
Found at i:69314793 original size:61 final size:62
Alignment explanation
Indices: 69314712--69314827 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 62
69314702 CAATCTTATT
*
69314712 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAATATAATTTGGATTAA
1 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
69314774 TTAA-TAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT
1 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT
69314828 TTATAAATAC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
61 49 0.92
62 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (62 bp):
TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
Found at i:69314827 original size:29 final size:29
Alignment explanation
Indices: 69314732--69314856 Score: 103
Period size: 29 Copynumber: 4.2 Consensus size: 29
69314722 TAATTTGGAT
*
69314732 TAATTTATTTAAATATTATTTAATTAATA
1 TAATTTATTTAAATATTATTAAATTAATA
* * * *
69314761 TAATTTGGA-TTAATTAATAATATAATTTGGAT-
1 TAATTT--ATTTAAAT-ATTAT-TAAATT-AATA
69314793 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTTATTTAAATATTATTAAATTAATA
* * *
69314822 TAATTT-TTATAAATACTATTTAATTAAAA
1 TAATTTATT-TAAATATTATTAAATTAATA
69314851 TAATTT
1 TAATTT
69314857 TTTTTCCATG
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
28 4 0.05
29 40 0.53
30 10 0.13
31 10 0.13
32 10 0.13
33 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTAAATTAATA
Found at i:69315148 original size:9 final size:9
Alignment explanation
Indices: 69315131--69315242 Score: 104
Period size: 9 Copynumber: 12.7 Consensus size: 9
69315121 TATATACTTG
69315131 AACTTACAT
1 AACTTACAT
*
69315140 AACTCACAT
1 AACTTACAT
*
69315149 AACTCACAT
1 AACTTACAT
*
69315158 AACTCACAT
1 AACTTACAT
*
69315167 AACTTACAG
1 AACTTACAT
*
69315176 AAGTTACAT
1 AACTTACAT
*
69315185 AATTTACAT
1 AACTTACAT
69315194 AACTTACAT
1 AACTTACAT
69315203 AA--TACAT
1 AACTTACAT
* *
69315210 AA-ATATAT
1 AACTTACAT
* *
69315218 ATCATATCAT
1 AACTTA-CAT
69315228 AACTTACAT
1 AACTTACAT
69315237 AACTTA
1 AACTTA
69315243 ATTAGAGTTA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
7 7 0.08
8 5 0.06
9 70 0.80
10 6 0.07
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:69315149 original size:32 final size:31
Alignment explanation
Indices: 69315088--69315150 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
69315078 TTCTAAAAAT
* *
69315088 ATATATACTTGAATACATCACTAGTACATAAA
1 ATATATACTTGAATACATAACTA-CACATAAA
69315120 ATATATACTTGAACTTACATAACT-CACATAA
1 ATATATACTTGAA--TACATAACTACACATAA
69315151 CTCACATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 19 0.70
34 8 0.30
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (31 bp):
ATATATACTTGAATACATAACTACACATAAA
Found at i:69320762 original size:15 final size:15
Alignment explanation
Indices: 69320739--69320775 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
69320729 TAGAGCAGAA
* *
69320739 GCAGTAGAGAGGGAG
1 GCAGCAGAGAGGAAG
69320754 GCAGCAGAGAGGAAG
1 GCAGCAGAGAGGAAG
69320769 GCAGCAG
1 GCAGCAG
69320776 CAGCAGCGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.49, T:0.03
Consensus pattern (15 bp):
GCAGCAGAGAGGAAG
Found at i:69320803 original size:21 final size:21
Alignment explanation
Indices: 69320751--69320805 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
69320741 AGTAGAGAGG
* *
69320751 GAGGCAGCAGAGAGGAAGGCA
1 GAGGCAGCAGCGAGAAAGGCA
69320772 GCA-GCAGCAGCGAGAAAGGCA
1 G-AGGCAGCAGCGAGAAAGGCA
69320793 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
69320806 TGACAGCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.44, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAAAGGCA
Found at i:69321081 original size:31 final size:31
Alignment explanation
Indices: 69321046--69321111 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
69321036 TTATATTTTT
* * *
69321046 ATGCTACATTTGTTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTATTTTTGGTTGGATTTA
*
69321077 ATGCTATATTTGCTATTTTTGGTTGGATTTA
1 ATGCTACATTTGCTATTTTTGGTTGGATTTA
69321108 ATGC
1 ATGC
69321112 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTATTTTTGGTTGGATTTA
Found at i:69324179 original size:16 final size:17
Alignment explanation
Indices: 69324160--69324202 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
69324150 TTTTTAGATT
69324160 TTTTTAAA-ATAT-TATA
1 TTTTTAAATATATATA-A
69324176 TTTTTAAATATATATAA
1 TTTTTAAATATATATAA
69324193 TTTTTGAAAT
1 TTTTT-AAAT
69324203 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.33
17 10 0.42
18 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTTAAATATATATAA
Found at i:69324179 original size:17 final size:16
Alignment explanation
Indices: 69324160--69324202 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
69324150 TTTTTAGATT
69324160 TTTTTAAA-ATATTATA
1 TTTTTAAATATA-TATA
69324176 TTTTTAAATATATATAA
1 TTTTTAAATATATAT-A
69324193 TTTTTGAAAT
1 TTTTT-AAAT
69324203 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTTTAAATATATATA
Found at i:69324209 original size:18 final size:18
Alignment explanation
Indices: 69324171--69324256 Score: 50
Period size: 19 Copynumber: 4.7 Consensus size: 18
69324161 TTTTAAAATA
*
69324171 TTAT-ATTTTT-AAATAT
1 TTATAATTTTTGAAATTT
*
69324187 ATATAATTTTTGAAATTT
1 TTATAATTTTTGAAATTT
* *
69324205 TTATAAATATTTGGAATTT
1 TTAT-AATTTTTGAAATTT
* * **
69324224 TGAAAATTATTTTGATTTTTT
1 TTATAA-T-TTTTGA-AATTT
69324245 TTATAATTTTTG
1 TTATAATTTTTG
69324257 TTGAGAGAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
16 3 0.06
17 6 0.12
18 10 0.20
19 20 0.39
20 5 0.10
21 7 0.14
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TTATAATTTTTGAAATTT
Found at i:69324234 original size:19 final size:20
Alignment explanation
Indices: 69324191--69324235 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
69324181 AAATATATAT
*
69324191 AATT-TTTGAAATTTTTATA
1 AATTATTTGAAATTTTGATA
*
69324210 AA-TATTTGGAATTTTGA-A
1 AATTATTTGAAATTTTGATA
69324228 AATTATTT
1 AATTATTT
69324236 TGATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (20 bp):
AATTATTTGAAATTTTGATA
Found at i:69325053 original size:14 final size:14
Alignment explanation
Indices: 69325034--69325070 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
69325024 AAAATTAAAA
69325034 TTTATTTTTTTTCT
1 TTTATTTTTTTTCT
69325048 TTTATTTTTTTTCT
1 TTTATTTTTTTTCT
69325062 TTTATTTTT
1 TTTATTTTT
69325071 CTTCATCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTATTTTTTTTCT
Found at i:69327254 original size:23 final size:23
Alignment explanation
Indices: 69327202--69327252 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
69327192 GAATTTTTCT
69327202 TTTA-TTATTATTTACTTACTTA
1 TTTATTTATTATTTACTTACTTA
*
69327224 TTTATTTATTATTGT-CTTGCTT-
1 TTTATTTATTATT-TACTTACTTA
69327246 TTTATTT
1 TTTATTT
69327253 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 11 0.42
23 14 0.54
24 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTATTTATTATTTACTTACTTA
Found at i:69333616 original size:27 final size:27
Alignment explanation
Indices: 69333586--69333899 Score: 344
Period size: 27 Copynumber: 11.7 Consensus size: 27
69333576 TAATAAAGAG
* * *
69333586 AAATTACTGAAATACCCCCAATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
69333613 AAATTATCGAAATACCCTCAA-TTGTG
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
69333639 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * * * *
69333666 AAATTACCAAAATACCCCCGATTTGTG
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
69333693 AAATTACCAAAACACCTTCGATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
*
69333720 AAATTACCGAAACACCCTTAATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
*
69333747 AAATTACCAAAACACCCTCAATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* *
69333774 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
69333801 AAATTACCGAAACATCTTCGATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* *
69333828 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
*
69333855 AAATTACCGAAACACTCCT-ACTTTGTA
1 AAATTACCGAAACAC-CCTCAATTTGTA
* *
69333882 AAATTATCGAAATACCCT
1 AAATTACCGAAACACCCT
69333900 TGTAGTATAA
Statistics
Matches: 247, Mismatches: 38, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 25 0.10
27 219 0.89
28 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAACACCCTCAATTTGTA
Found at i:69333910 original size:27 final size:27
Alignment explanation
Indices: 69333880--69333939 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
69333870 TCCTACTTTG
69333880 TAAAATTATCGAAATACCCTTGTAGTA
1 TAAAATTATCGAAATACCCTTGTAGTA
*
69333907 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTATCGAAATACCCTTGTAGTA
69333934 TAAAAT
1 TAAAAT
69333940 GACCGACATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTTGTAGTA
Found at i:69333950 original size:27 final size:27
Alignment explanation
Indices: 69333824--69333969 Score: 100
Period size: 27 Copynumber: 5.4 Consensus size: 27
69333814 ATCTTCGATT
* * *
69333824 TGTAAAATTACCGAAATACCCTCG-ATT
1 TGTAAAATGACCGAAATACCCTTGTA-G
* * ** *
69333851 TGTAAAATTACCGAAACACTCCTACT-T
1 TGTAAAATGACCGAAATAC-CCTTGTAG
* *
69333878 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* * *
69333905 TATAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
69333932 TGTAAAATGACCGACATA-CCTCTATAG
1 TGTAAAATGACCGAAATACCCT-TGTAG
*
69333959 GGTAAAATGAC
1 TGTAAAATGAC
69333970 TATTTTTCCC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 7 0.07
27 90 0.90
28 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:69338304 original size:19 final size:19
Alignment explanation
Indices: 69338280--69338324 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
69338270 CGACGTCTTT
* *
69338280 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
69338299 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
69338318 TGCATTA
1 TGCATTA
69338325 AAGTCCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:69339212 original size:25 final size:25
Alignment explanation
Indices: 69339167--69339214 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
69339157 ACAACTTCTA
* *
69339167 AAGAAAACTCAAGAGAGAATTCTTG
1 AAGAAAACCCAAGAGAAAATTCTTG
69339192 AAGAAAACCCCAA-AGAAAATTCT
1 AAGAAAA-CCCAAGAGAAAATTCT
69339215 GCACTCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (25 bp):
AAGAAAACCCAAGAGAAAATTCTTG
Found at i:69340880 original size:23 final size:23
Alignment explanation
Indices: 69340854--69340897 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
69340844 TTTCTTTTGT
69340854 TTCTTT-TTCTAACTCATTTTCTC
1 TTCTTTCTTC-AACTCATTTTCTC
*
69340877 TTCTTTCTTCAACTCTTTTTC
1 TTCTTTCTTCAACTCATTTTC
69340898 AATTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.61
Consensus pattern (23 bp):
TTCTTTCTTCAACTCATTTTCTC
Found at i:69343121 original size:25 final size:25
Alignment explanation
Indices: 69343076--69343123 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
69343066 ACAACTTCTA
* *
69343076 AAGAAAACTCAAGAGAGAATTCTTG
1 AAGAAAACCCAAGAGAAAATTCTTG
69343101 AAGAAAACCCCAA-AGAAAATTCT
1 AAGAAAA-CCCAAGAGAAAATTCT
69343124 GCACTCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (25 bp):
AAGAAAACCCAAGAGAAAATTCTTG
Found at i:69350536 original size:28 final size:27
Alignment explanation
Indices: 69350500--69350564 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
69350490 TTTTGTTTAT
*
69350500 TACTAATTTTAA-ATTTCCTTTCATATAA
1 TACTTATTTTAAGA-TTCCTTT-ATATAA
* *
69350528 TACTTATTTTAAGATTCGTTTATATAT
1 TACTTATTTTAAGATTCCTTTATATAA
69350555 TA-TTATTTTA
1 TACTTATTTTA
69350565 TATATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.24
27 7 0.21
28 17 0.52
29 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.55
Consensus pattern (27 bp):
TACTTATTTTAAGATTCCTTTATATAA
Found at i:69350687 original size:22 final size:22
Alignment explanation
Indices: 69350632--69350687 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
69350622 TATATTACAT
*
69350632 ATTTTAAAATTTTTATACGTATA
1 ATTTT-AAATTTGTATACGTATA
*
69350655 A-TTTATTATTTGTATATCG-ATA
1 ATTTTA-AATTTGTATA-CGTATA
69350677 ATTTTAAATTT
1 ATTTTAAATTT
69350688 CATTTCTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.04
22 19 0.70
23 7 0.26
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTTGTATACGTATA
Found at i:69353021 original size:5 final size:5
Alignment explanation
Indices: 69353001--69353033 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
69352991 CCAGCTTATT
*
69353001 AATAA AA-AA TATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA
69353034 CATATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:69356502 original size:24 final size:24
Alignment explanation
Indices: 69356474--69356524 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
69356464 TTAGCAAGTC
* *
69356474 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
69356498 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
69356522 AAA
1 AAA
69356525 CCTTCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:69358473 original size:24 final size:24
Alignment explanation
Indices: 69358445--69358493 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
69358435 TTAGCAAGTC
* *
69358445 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACAAATAAATGCT
* *
69358469 AAATATATTATACAAATAAATGCT
1 AAATAAACTATACAAATAAATGCT
69358493 A
1 A
69358494 CTTCTAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACAAATAAATGCT
Found at i:69359437 original size:50 final size:50
Alignment explanation
Indices: 69359378--69359489 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 50
69359368 GATAATTTGG
* * *
69359378 CACAAAGGCTTTCTAGAAAATTCACCATAAAGGCTTTCCAAATGATACGC
1 CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
* ** * ** *
69359428 CACAGAGGCTTTCCAGGGAATTCATCACAAAAGCTTTCCAAATTCTACGG
1 CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
69359478 CACAAAGGCTTT
1 CACAAAGGCTTT
69359490 TGAGAGTTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (50 bp):
CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
Found at i:69360286 original size:24 final size:24
Alignment explanation
Indices: 69360259--69360309 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
69360249 TTTATATTAG
*
69360259 AATCCTCATTATAGGCATTTTACT
1 AATCCTCATTATAGACATTTTACT
69360283 AATCCTCATTATAGACATTTTACT
1 AATCCTCATTATAGACATTTTACT
69360307 AAT
1 AAT
69360310 ATTTCAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (24 bp):
AATCCTCATTATAGACATTTTACT
Found at i:69362956 original size:22 final size:22
Alignment explanation
Indices: 69362918--69362975 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
69362908 ATATTTTTAC
* * *
69362918 TATTATCTATTATTATCATATT
1 TATTATATATTTTTATCATATA
*
69362940 TATTAT-TATTTTCTATCCTATA
1 TATTATATATTTT-TATCATATA
69362962 TATTTATATATTTT
1 TA-TTATATATTTT
69362976 ATTTTTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 15 0.50
23 4 0.13
24 6 0.20
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATATATTTTTATCATATA
Found at i:69363282 original size:57 final size:56
Alignment explanation
Indices: 69363172--69363319 Score: 134
Period size: 57 Copynumber: 2.7 Consensus size: 56
69363162 TTTTTTCGTA
* *
69363172 TTTTATTATTATTAGTATTACT-AT-TAT-TATTATTGTTA--A-TATTAATGTATAT
1 TTTTACTATTATTACTATTACTAATATATATATTA-TG-TAGCATTATTAATGTATAT
*
69363224 TTTTA-TATGTATATACTATTACT-ATATATCTATTTATGTAGCATTATTAATGGT-TAT
1 TTTTACTAT-TAT-TACTATTACTAATATATATA-TTATGTAGCATTATTAAT-GTATAT
* *
69363281 TTTTACTATTATTATTATTCCTAATATATATATTATGTA
1 TTTTACTATTATTACTATTACTAATATATATATTATGTA
69363320 TACATTTTTT
Statistics
Matches: 81, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
51 3 0.04
52 8 0.10
53 11 0.14
54 5 0.06
55 4 0.05
56 19 0.23
57 26 0.32
58 5 0.06
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.56
Consensus pattern (56 bp):
TTTTACTATTATTACTATTACTAATATATATATTATGTAGCATTATTAATGTATAT
Found at i:69363342 original size:27 final size:26
Alignment explanation
Indices: 69363309--69363372 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
69363299 TCCTAATATA
*
69363309 TATATTATGTATACATTTTTTAAATAC
1 TATATTATGTATACAATTTTT-AATAC
* *
69363336 TATATTATATATATAATTTTTAATAC
1 TATATTATGTATACAATTTTTAATAC
*
69363362 CATATTATGTA
1 TATATTATGTA
69363373 CATATTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (26 bp):
TATATTATGTATACAATTTTTAATAC
Found at i:69363417 original size:12 final size:12
Alignment explanation
Indices: 69363402--69363513 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
69363392 TTTTTGTCCC
69363402 TATTATATTTAT
1 TATTATATTTAT
69363414 TATTA-A--TAT
1 TATTATATTTAT
*
69363423 TAGTATATATT-T
1 TATTATAT-TTAT
*
69363435 TATTATACGTGTA-
1 TATTATA--TTTAT
69363448 TATATATACTTT-T
1 TAT-TATA-TTTAT
69363461 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
69363476 T-TT-TATATAT
1 TATTATATTTAT
*
69363486 CATTATATTTAT
1 TATTATATTTAT
*
69363498 TATTATACTTAT
1 TATTATATTTAT
69363510 TATT
1 TATT
69363514 TTCACTATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 7 0.09
10 4 0.05
11 4 0.05
12 34 0.45
13 17 0.22
14 8 0.11
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:69363480 original size:18 final size:18
Alignment explanation
Indices: 69363457--69363515 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
69363447 ATATATATAC
*
69363457 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
69363475 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
69363493 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
69363512 TTTT
1 TTTT
69363516 CACTATTGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:69367322 original size:22 final size:22
Alignment explanation
Indices: 69367296--69367340 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
69367286 ATTCATGTCT
69367296 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
69367318 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
69367340 A
1 A
69367341 TTCATCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:69375630 original size:73 final size:73
Alignment explanation
Indices: 69375464--69375631 Score: 187
Period size: 75 Copynumber: 2.3 Consensus size: 73
69375454 TACTCTGATG
* ** * *
69375464 TTTT-AATTTCTGTTTTTTAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTTCAATTTCTGTTTTTTAAAATCAACTCATATTGCGAGAGACGAGTTAAGCCTCAGGTCACA-
*
69375528 GCCGAGGTA
65 GCCAAGGTA
* * * *
69375537 TTTTCAATTCCTGTTTTTTAAAAGTCAAGTCGTATTGCGAGAGACGAGTTAAGCCTCAGGTTACA
1 TTTTCAATTTCTGTTTTTTAAAA-TCAACTCATATTGCGAGAGACGAGTTAAGCCTCAGGTCACA
* *
69375602 -CTAAGTTA
65 GCCAAGGTA
*
69375610 TTTTCAATTTCTGTTGTTTAAA
1 TTTTCAATTTCTGTTTTTTAAA
69375632 TTTCTATTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
73 29 0.37
74 17 0.22
75 33 0.42
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTTAAAATCAACTCATATTGCGAGAGACGAGTTAAGCCTCAGGTCACAG
CCAAGGTA
Found at i:69375758 original size:90 final size:88
Alignment explanation
Indices: 69375644--69375892 Score: 331
Period size: 88 Copynumber: 2.8 Consensus size: 88
69375634 TCTATTTTTC
* *
69375644 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTTCACATGCCGAGGTATTTCCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACATGCCGAGGTATTTTCAAAT
69375709 TCTGTTTTCAAACTATGTTTTCCA
65 TCTGTTTTCAAACTATGTTTTCCA
* * *
69375733 AAAAACTCAACTCATATTGCCAGAGGTGAGTTGAACTTTGG--ACATGCCGAGGTATTTTCAAAT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAAT
***
69375796 TCTGTTTTTCAGTTTATGTTTTCCAA
65 TCTG-TTTTCAAACTATGTTTTCC-A
* * * *
69375822 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG-GTCACATGCCGAGGTATTTTCAAAT
69375887 TCTGTT
65 TCTGTT
69375893 CGTCAAAAAT
Statistics
Matches: 139, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
87 25 0.18
88 47 0.34
89 11 0.08
90 33 0.24
91 23 0.17
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAATT
CTGTTTTCAAACTATGTTTTCCA
Found at i:69376093 original size:149 final size:147
Alignment explanation
Indices: 69375823--69376380 Score: 624
Period size: 149 Copynumber: 3.7 Consensus size: 147
69375813 GTTTTCCAAA
* **
69375823 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGCTGAGGTATTTTCAATTT
* * *
69375888 CTGTTCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT
64 CTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGT
69375952 ATTTTCAATTCCTGTTTTTT
128 ATTTTCAATTCCTGTTTTTT
* *
69375972 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTC
* *
69376036 TGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGT
65 TGTTCTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGT
* **
69376101 ATTTTCAATTTCTGTTTTCA
128 ATTTTCAATTCCTGTTTTTT
* * *
69376121 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
* *
69376186 G-TCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA
66 GTTC-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGT-
*
69376248 ATTTT-AATTTTTGTTCCTCAATTTATGTTT
128 ATTTTCAA------TTCCT---GTT-T-TTT
* * * *
69376278 CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTATTTTTAAT
1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT
* *
69376343 TTCTGTTTTTCATCAAAATCAACTCATATTGCGAGAGG
62 TTCTGTTCTTCA-AAAAATCAACTCATATTGCGAGAGG
69376381 GTCACGGGCC
Statistics
Matches: 351, Mismatches: 33, Indels: 37
0.83 0.08 0.09
Matches are distributed among these distances:
146 12 0.03
147 28 0.08
148 54 0.15
149 162 0.46
152 4 0.01
155 2 0.01
156 1 0.00
157 1 0.00
161 63 0.18
162 24 0.07
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (147 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
GTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATT
TTCAATTCCTGTTTTTT
Found at i:69376232 original size:74 final size:73
Alignment explanation
Indices: 69375801--69376262 Score: 522
Period size: 74 Copynumber: 6.2 Consensus size: 73
69375791 CAAATTCTGT
* * * **
69375801 TTTTCAGTTTATGTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTCTGTTTT-C-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA
69375866 CACGCTGAGGTA
62 CACGCTGAGGTA
* * *
69375878 TTTTCAATTTCTGTTCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
* *
69375942 ATGCCGAGGTA
63 ACGCTGAGGTA
* ** * *
69375953 TTTTCAATTCCTGTTTT-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
69376017 TTGAGGTAA
66 CTGAGGT-A
*
69376026 TTTT-AATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC
1 TTTTCAATTTCTGTT-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* *
69376089 ACATGTTGAGGTA
61 ACACGCTGAGGTA
* *
69376102 TTTTCAATTTCTGTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
69376166 TTGAGGTA
66 CTGAGGTA
* *
69376174 TTTTCAAATTCTGTCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
69376239 GCTGAGGTAA
65 GCTGAGGT-A
*
69376249 TTTT-AATTTTTGTT
1 TTTTCAATTTCTGTT
69376263 CCTCAATTTA
Statistics
Matches: 335, Mismatches: 34, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
72 44 0.13
73 11 0.03
74 133 0.40
75 103 0.31
76 7 0.02
77 36 0.11
78 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:69376340 original size:87 final size:86
Alignment explanation
Indices: 69376189--69376349 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 86
69376179 AAATTCTGTC
*
69376189 TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
*
69376254 ATTTTTGTTCCTCAATTTATG
66 ATTTCTGTTCCTCAATTTATG
* * *
69376275 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTATTTTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
69376340 AATTTCTGTT
65 AATTTCTGTT
69376350 TTTCATCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 4 0.06
87 65 0.94
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (86 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
ATTTCTGTTCCTCAATTTATG
Found at i:69376687 original size:42 final size:42
Alignment explanation
Indices: 69376605--69376687 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
69376595 CCACAAATCT
* ** *
69376605 CATATCCTTGAAGTTACGTTGGAGTAGATTGAAGCTACAAGG
1 CATATCCTTGAAGTTACGGTGGAGTAGATCAAAGCAACAAGG
* *
69376647 CATAT-CTCTGAAGTTGCGGTGGAGTGGATCAAAGCAACAAG
1 CATATCCT-TGAAGTTACGGTGGAGTAGATCAAAGCAACAAG
69376688 ATACAGTGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (42 bp):
CATATCCTTGAAGTTACGGTGGAGTAGATCAAAGCAACAAGG
Found at i:69377418 original size:10 final size:10
Alignment explanation
Indices: 69377403--69377444 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
69377393 ACATATTTTT
69377403 TAAAAAATAA
1 TAAAAAATAA
69377413 TAAAAAAT--
1 TAAAAAATAA
*
69377421 CAAAAAATAA
1 TAAAAAATAA
69377431 TAAAAAATAA
1 TAAAAAATAA
69377441 -AAAA
1 TAAAA
69377445 TACCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 4 0.14
10 17 0.61
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:69377427 original size:18 final size:17
Alignment explanation
Indices: 69377403--69377446 Score: 79
Period size: 18 Copynumber: 2.5 Consensus size: 17
69377393 ACATATTTTT
69377403 TAAAAAATAATAAAAAA
1 TAAAAAATAATAAAAAA
69377420 TCAAAAAATAATAAAAAA
1 T-AAAAAATAATAAAAAA
69377438 TAAAAAATA
1 TAAAAAATA
69377447 CCTTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAATAATAAAAAA
Found at i:69378087 original size:22 final size:23
Alignment explanation
Indices: 69378049--69378108 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
69378039 ATATTTTTGC
* * *
69378049 TATTATCTATTAT-TATCATATT
1 TATTATATATTTTCTATCATATA
*
69378071 TATTAT-TATTTTCTATCCTATA
1 TATTATATATTTTCTATCATATA
69378093 TATTTATATATTTTCT
1 TA-TTATATATTTTCT
69378109 TTTTAGTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.16
22 15 0.47
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTATATATTTTCTATCATATA
Found at i:69378320 original size:3 final size:3
Alignment explanation
Indices: 69378308--69378359 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
69378298 TTTGTTTTTG
* * * *
69378308 TAT T-T TAT TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT TAT TGT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
69378355 TAT TA
1 TAT TA
69378360 ATGTATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:69378521 original size:27 final size:28
Alignment explanation
Indices: 69378452--69378521 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 28
69378442 GTCCTAATAT
* *
69378452 ATATTATGTATACATT-TTTTAAATACT
1 ATATTATGTATATATTATTTTAAATACC
69378479 ATATTA--TATATA-TATTTT-AATACC
1 ATATTATGTATATATTATTTTAAATACC
*
69378503 ATATTATGTACATATTATT
1 ATATTATGTATATATTATT
69378522 ATTATATCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 12 0.33
25 9 0.25
26 5 0.14
27 10 0.28
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (28 bp):
ATATTATGTATATATTATTTTAAATACC
Found at i:69378620 original size:18 final size:18
Alignment explanation
Indices: 69378597--69378655 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
69378587 ATATATATAC
*
69378597 TTTTTATATACAGTATTA
1 TTTTTATATACATTATTA
69378615 TTTTTATATATCATTA-TA
1 TTTTTATATA-CATTATTA
69378633 TTTATTATTATAC-TTATTA
1 TTT-TTA-TATACATTATTA
69378652 TTTT
1 TTTT
69378656 CACTATTGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 19 0.53
19 13 0.36
20 4 0.11
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTATATACATTATTA
Found at i:69382491 original size:49 final size:49
Alignment explanation
Indices: 69382435--69382680 Score: 303
Period size: 49 Copynumber: 5.0 Consensus size: 49
69382425 GTAGACAAGG
* * *
69382435 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* **
69382484 TTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTTACCTAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * *
69382534 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
69382584 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAA
1 -TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
69382634 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
69382681 TCACTATAGA
Statistics
Matches: 166, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:69382957 original size:27 final size:27
Alignment explanation
Indices: 69382927--69382980 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
69382917 TCATACAACC
* *
69382927 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
69382954 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
69382981 TCACATTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:69388308 original size:49 final size:49
Alignment explanation
Indices: 69388236--69388409 Score: 231
Period size: 49 Copynumber: 3.5 Consensus size: 49
69388226 TGAGGTCACG
* *
69388236 TGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
* * ** * *
69388285 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA
* * * *
69388335 TGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
69388384 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
69388410 TGTGTACCAA
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
49 64 0.62
50 40 0.38
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
Done.