Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
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: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 24
Found at i:4437889 original size:20 final size:21
Alignment explanation
Indices: 4437843--4437903 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
4437833 TTCCCCTGTG
4437843 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
4437866 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
4437886 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
4437904 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:4443778 original size:76 final size:76
Alignment explanation
Indices: 4443650--4443856 Score: 285
Period size: 75 Copynumber: 2.8 Consensus size: 76
4443640 CCGTTGTACA
* * *
4443650 AGGGGGGAATCGGTACCCCCT-TGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTAGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTAGGAG
** *
4443713 CAAAACTTTTT
66 CAAAACCATTC
* *
4443724 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTAGGAG
*
4443789 CCAAACCATTC
66 CAAAACCATTC
* * *
4443800 A-GGGGGAATCGGTTCCTCCTATGGGAGGAATCGGTTCCCTCTGAGCAATCTGGAATT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
4443857 TTTGGCTTTG
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
74 19 0.16
75 59 0.50
76 40 0.34
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTAGGAG
CAAAACCATTC
Found at i:4445609 original size:60 final size:60
Alignment explanation
Indices: 4445506--4445689 Score: 239
Period size: 60 Copynumber: 3.1 Consensus size: 60
4445496 GCATCATATG
* * * * *
4445506 TCCCCAAACTATAAACCTCATTT-TAAATTAATACTTATACTTTTGAATATTTCAATTTCA
1 TCCCTAAACTATGACCCTC-TTTCTAAATTAGTACTTAAACTTTTGAATATTTCAATTTCA
* *
4445566 TCCCTAAACTATGACCCTCTTTCTAACTTAGTACTTAGACTTTTGAATATTTCAATTTCA
1 TCCCTAAACTATGACCCTCTTTCTAAATTAGTACTTAAACTTTTGAATATTTCAATTTCA
* *
4445626 TCCCTAAACTATGACCCTCTTTCTAAATTGGT-CTCCAAACTTTTGAATA-TTCTAATTTCA
1 TCCCTAAACTATGACCCTCTTTCTAAATTAGTACT-TAAACTTTTGAATATTTC-AATTTCA
4445686 TCCC
1 TCCC
4445690 CAAATTTATC
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
59 8 0.07
60 103 0.93
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (60 bp):
TCCCTAAACTATGACCCTCTTTCTAAATTAGTACTTAAACTTTTGAATATTTCAATTTCA
Found at i:4445936 original size:61 final size:61
Alignment explanation
Indices: 4445829--4445981 Score: 181
Period size: 61 Copynumber: 2.5 Consensus size: 61
4445819 GGGATGAAAC
*
4445829 TAAAATGTTCAAAAATGTTG-GAGACCAATTTAGAATGAAGTTCATAGTTTATG-GATTAAAAA
1 TAAAATGTTCAAAAAT-TTGAGAGACCAATTTAGAATAAAGTTCATAGTTTA-GAGATT-AAAA
* *
4445891 TAAAATGTTCAAAAATTTGAG-GACTAATTTAGAATAATAG-TCATAGTTTAGAGATTAAAT
1 TAAAATGTTCAAAAATTTGAGAGACCAATTTAGAATAA-AGTTCATAGTTTAGAGATTAAAA
* * *
4445951 TAAAATATTTAAAAATTT-AGTGACCAATTTA
1 TAAAATGTTCAAAAATTTGAGAGACCAATTTA
4445982 AGATGATGGT
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
59 2 0.02
60 29 0.36
61 31 0.38
62 19 0.23
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (61 bp):
TAAAATGTTCAAAAATTTGAGAGACCAATTTAGAATAAAGTTCATAGTTTAGAGATTAAAA
Found at i:4445994 original size:60 final size:61
Alignment explanation
Indices: 4445829--4445995 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 61
4445819 GGGATGAAAC
* * *
4445829 TAAAATGTTCAAAAATGTTG-GAGACCAATTTAGAATGAAGTTCATAGTTTATGGATTAAAAA
1 TAAAATATTCAAAAAT-TTGAG-GACCAATTTAGAATGATGGTCATAGTTTATGGATTAAAAA
* * * * *
4445891 TAAAATGTTCAAAAATTTGAGGACTAATTTAGAATAATAGTCATAGTTTA-GAGATT-AAAT
1 TAAAATATTCAAAAATTTGAGGACCAATTTAGAATGATGGTCATAGTTTATG-GATTAAAAA
*
4445951 TAAAATATTTAAAAATTT-AGTGACCAATTTA-AGATGATGGTCATA
1 TAAAATATTCAAAAATTTGAG-GACCAATTTAGA-ATGATGGTCATA
4445996 CTTTGAGGAC
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
59 3 0.03
60 39 0.43
61 31 0.34
62 17 0.19
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (61 bp):
TAAAATATTCAAAAATTTGAGGACCAATTTAGAATGATGGTCATAGTTTATGGATTAAAAA
Found at i:4447055 original size:2 final size:2
Alignment explanation
Indices: 4447048--4447081 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4447038 AAAATGGCAC
4447048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4447082 AAAGGGCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4449320 original size:20 final size:20
Alignment explanation
Indices: 4449276--4449502 Score: 196
Period size: 20 Copynumber: 11.2 Consensus size: 20
4449266 AATGACCAAC
*
4449276 AAAATCGCAACGCGA--AATA
1 AAAATCGCAACGCGATTAA-G
*
4449295 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* *
4449315 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
4449335 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
***
4449355 AAAATCGCAACGCGATATTCC
1 AAAATCGCAACGCGAT-TAAG
*
4449376 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
4449397 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
*
4449418 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTAAG
*
4449439 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTAAG
4449459 AAAATCGCAACGCGA-TAAG
1 AAAATCGCAACGCGATTAAG
*
4449478 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTAAG
4449498 AAAAT
1 AAAAT
4449503 GAGTAAATTT
Statistics
Matches: 172, Mismatches: 24, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
18 1 0.01
19 33 0.19
20 96 0.56
21 14 0.08
22 28 0.16
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:4449403 original size:42 final size:42
Alignment explanation
Indices: 4449352--4449493 Score: 202
Period size: 42 Copynumber: 3.5 Consensus size: 42
4449342 CAACGGTCAA
*
4449352 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
* *
4449394 AAGAGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT
1 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
* *
4449436 CAGAAAATCGCAACGCG--ATT-CAGAAAATCGCAACGCGA-T
1 AAGAAAATCGCAACGCGATATTCCA-AGAATCGCAACGCGATT
4449475 AAGAAAATCGCAACGCGAT
1 AAGAAAATCGCAACGCGAT
4449494 TCAGAAAATG
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
39 19 0.21
40 16 0.18
42 54 0.61
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.15
Consensus pattern (42 bp):
AAGAAAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
Found at i:4449406 original size:62 final size:63
Alignment explanation
Indices: 4449295--4449502 Score: 190
Period size: 62 Copynumber: 3.4 Consensus size: 63
4449285 ACGCGAAATA
* *
4449295 AAAATCGCAACGCGAT-TT-AGAAAATCGCAACGTTGA-AAAGAAAATCGCAACGGTC-AAAAG
1 AAAATCGCAACGCGATATTCAGAAAATCGCAACG-CGATTAAGAAAATCGCAACGGTCTAAAAG
* * * **
4449355 AAAATCGCAACGCGATATTCCA-AGAATCGCAATGCGATTAAGAGAATCGCAACGCGATCTTCCA
1 AAAATCGCAACGCGATATT-CAGAAAATCGCAACGCGATTAAGAAAATCGCAACG-G-TC-TAAA
4449419 AG
62 AG
* * *
4449421 --AATCGCAACGCG--ATTCAGAAAATCGCAACGCGATTCAGAAAATCGCAAC-G-CGATAAG
1 AAAATCGCAACGCGATATTCAGAAAATCGCAACGCGATTAAGAAAATCGCAACGGTCTAAAAG
4449478 AAAATCGCAACGCG--ATTCAGAAAAT
1 AAAATCGCAACGCGATATTCAGAAAAT
4449503 GAGTAAATTT
Statistics
Matches: 123, Mismatches: 14, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
57 3 0.02
58 1 0.01
59 23 0.19
60 17 0.14
61 6 0.05
62 54 0.44
63 2 0.02
64 14 0.11
66 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (63 bp):
AAAATCGCAACGCGATATTCAGAAAATCGCAACGCGATTAAGAAAATCGCAACGGTCTAAAAG
Found at i:4449609 original size:6 final size:6
Alignment explanation
Indices: 4449598--4449780 Score: 366
Period size: 6 Copynumber: 30.5 Consensus size: 6
4449588 GACACGTATT
4449598 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4449646 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4449694 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4449742 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
4449781 CGAGACGAGA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 177 1.00
ACGTcount: A:0.33, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4450411 original size:20 final size:20
Alignment explanation
Indices: 4450386--4450793 Score: 360
Period size: 20 Copynumber: 20.2 Consensus size: 20
4450376 GAATTTACTC
4450386 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
*
4450406 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
4450426 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
*
4450446 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
4450466 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
*
4450486 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
4450506 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
4450526 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
4450546 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
4450566 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
4450586 A--TTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCG
* *
4450606 ATTTTCTGAATCGCATTGCG
1 ATTTTCTTAATCGCGTTGCG
***
4450626 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTTA-ATCGCGTTGCG
* *
4450648 ATTCTCTTAATCGCATTGCG
1 ATTTTCTTAATCGCGTTGCG
***
4450668 ATTCTTGGAATATCGCGTTGCG
1 ATT-TTCTTA-ATCGCGTTGCG
*
4450690 ATTTTCTT--TTGACCGTTGCG
1 ATTTTCTTAATCG--CGTTGCG
* *
4450710 ATTTTCTT-TTCAACGTTGCG
1 ATTTTCTTAATC-GCGTTGCG
* * *
4450730 CTTTTCTAAATCACGTTGCG
1 ATTTTCTTAATCGCGTTGCG
*
4450750 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCG
*
4450770 A-TTT-TTATTTCGCGTTGCG
1 ATTTTCTTA-ATCGCGTTGCG
4450789 ATTTT
1 ATTTT
4450794 GTTGGTCATT
Statistics
Matches: 322, Mismatches: 35, Indels: 62
0.77 0.08 0.15
Matches are distributed among these distances:
18 26 0.08
19 14 0.04
20 222 0.69
21 12 0.04
22 48 0.15
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTTCTTAATCGCGTTGCG
Found at i:4450442 original size:40 final size:40
Alignment explanation
Indices: 4450394--4450696 Score: 516
Period size: 40 Copynumber: 7.5 Consensus size: 40
4450384 TCATTTTCTT
4450394 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
4450434 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
4450474 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
*
4450514 AATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
*
4450554 AATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
*
4450594 AATCGCGTTGCGATTTTCTGAATCGCATTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
* * *
4450634 AAGATCGCGTTGCGATTCTCTTAATCGCATTGCGATTCTTGG
1 -A-ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
4450676 AATATCGCGTTGCGATTTTCT
1 -A-ATCGCGTTGCGATTTTCT
4450697 TTTGACCGTT
Statistics
Matches: 254, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
40 197 0.78
41 1 0.00
42 56 0.22
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.38
Consensus pattern (40 bp):
AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
Found at i:4456735 original size:35 final size:35
Alignment explanation
Indices: 4456696--4456874 Score: 205
Period size: 35 Copynumber: 5.1 Consensus size: 35
4456686 AAAGATGAAC
* *
4456696 ACTTGAATTGAAAGTGTGATGCTTCCTTCCGTTCT
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCT
* * * *
4456731 ACTTGAATCGAAAGTGTGATGTTTCCTTTCATTCT
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCT
* * *
4456766 ACTTGAATTGAAAGTGCGATACTTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCT
* * * * * *
4456801 ACTTGAATCGAAAATGCAATGCTTCTTTTCATTCA
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCT
**
4456836 ACTTGAATCGAAAGTGCGATGCTTCCTTATGTTCT
1 ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCT
4456871 ACTT
1 ACTT
4456875 TATTCACCTT
Statistics
Matches: 118, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 118 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (35 bp):
ACTTGAATCGAAAGTGCGATGCTTCCTTCCGTTCT
Found at i:4456809 original size:70 final size:70
Alignment explanation
Indices: 4456696--4456863 Score: 246
Period size: 70 Copynumber: 2.4 Consensus size: 70
4456686 AAAGATGAAC
* * * ** *
4456696 ACTTGAATTGAAAGTGTGATGCTTCCTTCCGTTCTACTTGAATCGAAAGTGTGATGTTTCCTTTC
1 ACTTGAATTGAAAGTGCGATGCTTCCTTCCGTTCGACTTGAATCGAAAATGCAATGCTTCCTTTC
*
4456761 ATTCT
66 ATTCA
* *
4456766 ACTTGAATTGAAAGTGCGATACTTCCTTCCGTTCGACTTGAATCGAAAATGCAATGCTTCTTTTC
1 ACTTGAATTGAAAGTGCGATGCTTCCTTCCGTTCGACTTGAATCGAAAATGCAATGCTTCCTTTC
4456831 ATTCA
66 ATTCA
*
4456836 ACTTGAATCGAAAGTGCGATGCTTCCTT
1 ACTTGAATTGAAAGTGCGATGCTTCCTT
4456864 ATGTTCTACT
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 87 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (70 bp):
ACTTGAATTGAAAGTGCGATGCTTCCTTCCGTTCGACTTGAATCGAAAATGCAATGCTTCCTTTC
ATTCA
Found at i:4456904 original size:12 final size:12
Alignment explanation
Indices: 4456887--4456920 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4456877 TTCACCTTCC
4456887 TTTTCTTCTTTT
1 TTTTCTTCTTTT
4456899 TTTTCTTCTTTT
1 TTTTCTTCTTTT
4456911 TTTT-TTCTTT
1 TTTTCTTCTTT
4456921 CATCCGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:4456910 original size:11 final size:11
Alignment explanation
Indices: 4456887--4456920 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4456877 TTCACCTTCC
4456887 TTTTCTTCTTTT
1 TTTTCTTC-TTT
4456899 TTTTCTTCTTT
1 TTTTCTTCTTT
*
4456910 TTTTTTTCTTT
1 TTTTCTTCTTT
4456921 CATCCGGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:4460313 original size:15 final size:15
Alignment explanation
Indices: 4460293--4460325 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4460283 GCAGATGCAC
4460293 CAATAGTAAATAGAA
1 CAATAGTAAATAGAA
*
4460308 CAATAGTCAATAGAA
1 CAATAGTAAATAGAA
4460323 CAA
1 CAA
4460326 CTGTTATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (15 bp):
CAATAGTAAATAGAA
Found at i:4467332 original size:23 final size:23
Alignment explanation
Indices: 4467306--4467374 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
4467296 CACCACAGCT
*
4467306 CGTAGAAATGCGCCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * **
4467329 CGTAGAATTGCACTGTAGTGCTG
1 CGTAGAAATGCACCGAAGTGCCA
4467352 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
4467375 TATAAGATGT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:4468328 original size:15 final size:15
Alignment explanation
Indices: 4468308--4468347 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
4468298 TTCATAAAGA
*
4468308 TTTGTAATTCTTCAC
1 TTTGTAACTCTTCAC
4468323 TTTGTAACTCTTCAC
1 TTTGTAACTCTTCAC
4468338 TTTGTAACTC
1 TTTGTAACTC
4468348 ATAAACCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.50
Consensus pattern (15 bp):
TTTGTAACTCTTCAC
Found at i:4479742 original size:137 final size:137
Alignment explanation
Indices: 4479492--4479752 Score: 371
Period size: 137 Copynumber: 1.9 Consensus size: 137
4479482 ATACAATGTA
* * * * *
4479492 TATGATGGTTATTGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATTAGTACTATGTGCA
1 TATGAAGGTTATCGATCGATTTTGTTTAATGCATAGGTTGCATTTTCGTATCAGTACTATATGCA
* * *
4479557 CTTCCGGCACTAGATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGACATAC
66 CTTCCGGCACTAGATGTGCAACCATGGAATTCATAATAAGTTTATGAATTACCATTTCGACATAC
4479622 ATTTGTG
131 ATTTGTG
* * *
4479629 TATGAAGGTTATCGATTGATTTTGTTTAATGCATAGGTTGCCTTTTCGTATCAGTACTATATGTA
1 TATGAAGGTTATCGATCGATTTTGTTTAATGCATAGGTTGCATTTTCGTATCAGTACTATATGCA
* * * *
4479694 CTTTCGGCCCTATG-TGTGCATCCATGGAATTCATAATAAGTTTATGAATTTCCATTTCG
66 CTTCCGGCACTA-GATGTGCAACCATGGAATTCATAATAAGTTTATGAATTACCATTTCG
4479753 GCGCTTAGGT
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
137 107 0.99
138 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (137 bp):
TATGAAGGTTATCGATCGATTTTGTTTAATGCATAGGTTGCATTTTCGTATCAGTACTATATGCA
CTTCCGGCACTAGATGTGCAACCATGGAATTCATAATAAGTTTATGAATTACCATTTCGACATAC
ATTTGTG
Found at i:4483500 original size:12 final size:12
Alignment explanation
Indices: 4483474--4483546 Score: 52
Period size: 12 Copynumber: 6.6 Consensus size: 12
4483464 AAGCTGAAGC
*
4483474 GAGAGAAGTAGA
1 GAGAGAAGCAGA
4483486 GAGAGAAGC--A
1 GAGAGAAGCAGA
*
4483496 TAGAG-AGCA-A
1 GAGAGAAGCAGA
4483506 CGAGAGAAGCAGA
1 -GAGAGAAGCAGA
*
4483519 GAGAGCAGC-GA
1 GAGAGAAGCAGA
*
4483530 -A-AGAAGCTGA
1 GAGAGAAGCAGA
4483540 GAGAGAA
1 GAGAGAA
4483547 ACATCATTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
9 8 0.16
10 9 0.18
11 7 0.14
12 24 0.49
13 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.38, T:0.04
Consensus pattern (12 bp):
GAGAGAAGCAGA
Found at i:4483510 original size:21 final size:21
Alignment explanation
Indices: 4483486--4483544 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
4483476 GAGAAGTAGA
4483486 GAGAGAAGCATAGAGAGCAAC
1 GAGAGAAGCATAGAGAGCAAC
* *
4483507 GAGAGAAGCAGAGAGAGCAGC
1 GAGAGAAGCATAGAGAGCAAC
*
4483528 GAAAGAAGC-TGAGAGAG
1 GAGAGAAGCAT-AGAGAG
4483545 AAACATCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.39, T:0.03
Consensus pattern (21 bp):
GAGAGAAGCATAGAGAGCAAC
Found at i:4485764 original size:25 final size:25
Alignment explanation
Indices: 4485735--4485794 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
4485725 TCTTGTATTC
4485735 GAAATTCATCTCAAATTCCAAAAAA
1 GAAATTCATCTCAAATTCCAAAAAA
4485760 GAAATTCATCTCAAATTCCAAAAAA
1 GAAATTCATCTCAAATTCCAAAAAA
4485785 GAAATTCATC
1 GAAATTCATC
4485795 ATAAGCATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (25 bp):
GAAATTCATCTCAAATTCCAAAAAA
Found at i:4487748 original size:31 final size:30
Alignment explanation
Indices: 4487680--4487748 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
4487670 AAAAAGTATA
* *
4487680 TAAGTTC-TCAAACTTTTAAAAAAACCAAT
1 TAAGTTCATCAAACTTGTAAAAAAACCAAC
* * *
4487709 TATG-TCATCAAACTTGGTGAAAAAATCAAC
1 TAAGTTCATCAAACTT-GTAAAAAAACCAAC
4487739 TAAGTTCATC
1 TAAGTTCATC
4487749 TATCACATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
28 2 0.06
29 11 0.35
30 13 0.42
31 5 0.16
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (30 bp):
TAAGTTCATCAAACTTGTAAAAAAACCAAC
Found at i:4499007 original size:28 final size:28
Alignment explanation
Indices: 4498828--4499162 Score: 305
Period size: 28 Copynumber: 11.6 Consensus size: 28
4498818 TTTACGTTAC
* *
4498828 TAATTATAATATATTTTTAAAGTTTTCATA
1 TAATTAT-A-ATATTTTTAAAATTTTCACA
* * * ***
4498858 CAATTTTAATTTTTTTAAAGAATTTTTGTA
1 TAATTATAATATTTTT-AA-AATTTTCACA
* *
4498888 TAATTACAATATTTATTTACAATTTTCACA
1 TAATTATAATA-TT-TTTAAAATTTTCACA
*
4498918 TAATTATAATATATTTTTAAATTTTTCACA
1 TAATTAT-A-ATATTTTTAAAATTTTCACA
*
4498948 TAATTATAAAATTTTTGAAAATTTTCACA
1 TAATTATAATATTTTT-AAAATTTTCACA
* * * *
4498977 TAATTGTAATATTCTTATAATTTTCATA
1 TAATTATAATATTTTTAAAATTTTCACA
* *
4499005 TAATTATAATATTTTTAGAGTTTTCACA
1 TAATTATAATATTTTTAAAATTTTCACA
* *
4499033 TAATTGTAATATTTTTAGAAAATTT-ACA
1 TAATTATAATATTTTTA-AAATTTTCACA
4499061 TAATTATAATATTTTTAAATATTTTCACA
1 TAATTATAATATTTTTAAA-ATTTTCACA
* * *
4499090 TAATTATAATGTTTTTTTAGAATGTTCACA
1 TAATTATAA--TATTTTTAAAATTTTCACA
*
4499120 TGATTATAAT-TTTTTAAAATTTTCACA
1 TAATTATAATATTTTTAAAATTTTCACA
* *
4499147 TAATTGTAACATTTTT
1 TAATTATAATATTTTT
4499163 TGAACTTTAA
Statistics
Matches: 248, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
27 24 0.10
28 92 0.37
29 44 0.18
30 68 0.27
31 14 0.06
32 6 0.02
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
TAATTATAATATTTTTAAAATTTTCACA
Found at i:4499013 original size:57 final size:56
Alignment explanation
Indices: 4498903--4499162 Score: 274
Period size: 57 Copynumber: 4.6 Consensus size: 56
4498893 ACAATATTTA
* *
4498903 TTTACAATTTTCACATAATTATAATATATTTT-TAAATTTTTCACATAATTATAAAATT
1 TTTAAAATTTTCACATAATTGTAATAT-TTTTAT-AA-TTTTCACATAATTATAAAATT
* * *
4498961 TTTGAAAATTTTCACATAATTGTAATATTCTTATAATTTTCATATAATTATAATATT
1 TTT-AAAATTTTCACATAATTGTAATATTTTTATAATTTTCACATAATTATAAAATT
* * * * *
4499018 TTTAGAGTTTTCACATAATTGTAATATTTTTAGAAAATTT-ACATAATTATAATATT
1 TTTAAAATTTTCACATAATTGTAATATTTTTA-TAATTTTCACATAATTATAAAATT
* * * * * *
4499074 TTTAAATATTTTCACATAATTATAATGTTTTTTTAGAATGTTCACATGATTAT-AATTT
1 TTTAAA-ATTTTCACATAATTGTAA--TATTTTTATAATTTTCACATAATTATAAAATT
*
4499132 TTTAAAATTTTCACATAATTGTAACATTTTT
1 TTTAAAATTTTCACATAATTGTAATATTTTT
4499163 TGAACTTTAA
Statistics
Matches: 171, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
55 5 0.03
56 46 0.27
57 60 0.35
58 21 0.12
59 39 0.23
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.50
Consensus pattern (56 bp):
TTTAAAATTTTCACATAATTGTAATATTTTTATAATTTTCACATAATTATAAAATT
Found at i:4499036 original size:85 final size:85
Alignment explanation
Indices: 4498908--4499155 Score: 299
Period size: 85 Copynumber: 2.9 Consensus size: 85
4498898 ATTTATTTAC
4498908 AATTTTCACATAATTATAATATATTTTTA-AATTTTTCACATAATTATAAAATTTTTGAAAATTT
1 AATTTTCACATAATTAT-A-ATATTTTTAGAA-TTTTCACATAATTATAAAATTTTTGAAAATTT
*
4498972 TCACATAATTGTAATATTCTTAT
63 TCACATAATTGTAATATTCTTAA
* * * *
4498995 AATTTTCATATAATTATAATATTTTTAGAGTTTTCACATAATTGTAATATTTTTAGAAAA-TTT-
1 AATTTTCACATAATTATAATATTTTTAGAATTTTCACATAATTATAAAATTTTT-GAAAATTTTC
* *
4499058 ACATAATTATAATATTTTTAA
65 ACATAATTGTAATATTCTTAA
* * * *
4499079 ATATTTTCACATAATTATAATGTTTTTTTAGAATGTTCACATGATTAT--AATTTTTTAAAATTT
1 A-ATTTTCACATAATTATAA--TATTTTTAGAATTTTCACATAATTATAAAATTTTTGAAAATTT
4499142 TCACATAATTGTAA
63 TCACATAATTGTAA
4499156 CATTTTTTGA
Statistics
Matches: 138, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
84 23 0.17
85 60 0.43
86 18 0.13
87 37 0.27
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (85 bp):
AATTTTCACATAATTATAATATTTTTAGAATTTTCACATAATTATAAAATTTTTGAAAATTTTCA
CATAATTGTAATATTCTTAA
Found at i:4499163 original size:57 final size:56
Alignment explanation
Indices: 4498898--4499188 Score: 272
Period size: 57 Copynumber: 5.1 Consensus size: 56
4498888 TAATTACAAT
* *
4498898 ATTTATTTACAATTTTCACATAATTATAATATATTTTTA-AATTTTTCACATAATTATAAA
1 ATTT-TTTAAAATTTTCACATAATTGTAA-ATATTTTTAGAA-TTTTCACATAATTAT--A
* * * *
4498958 ATTTTTGAAAATTTTCACATAATTGT-AATATTCTTATAATTTTCATATAATTATA
1 ATTTTTTAAAATTTTCACATAATTGTAAATATTTTTAGAATTTTCACATAATTATA
* * *
4499013 ATATTTTTAGAGTTTTCACATAATTGT-AATATTTTTAGAAAATTT-ACATAATTATA
1 AT-TTTTTAAAATTTTCACATAATTGTAAATATTTTTAG-AATTTTCACATAATTATA
* * * * *
4499069 ATATTTTTAAATATTTTCACATAATTATAATGTTTTTTTAGAATGTTCACATGATTATA
1 AT-TTTTTAAA-ATTTTCACATAATTGTAA-ATATTTTTAGAATTTTCACATAATTATA
* * * *
4499128 ATTTTTTAAAATTTTCACATAATTGTAACAT-TTTTT-GAACTTTAACACATTTAT-
1 ATTTTTTAAAATTTTCACATAATTGTAA-ATATTTTTAGAATTTTCACATAATTATA
4499182 ATTTTTT
1 ATTTTTT
4499189 CAGAACTGTC
Statistics
Matches: 195, Mismatches: 29, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
54 7 0.04
55 15 0.08
56 55 0.28
57 59 0.30
58 16 0.08
59 39 0.20
60 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (56 bp):
ATTTTTTAAAATTTTCACATAATTGTAAATATTTTTAGAATTTTCACATAATTATA
Found at i:4499182 original size:85 final size:82
Alignment explanation
Indices: 4498908--4499217 Score: 279
Period size: 85 Copynumber: 3.6 Consensus size: 82
4498898 ATTTATTTAC
* *
4498908 AATTTTCACATAATTATAATATATTTTTA-AATTTTTCACATAATTATAAAATTTTTGAAAATTT
1 AATTTTCACATAATTAT-A-ATATTTTTAGAA-TGTTCACATAATTAT--AATTTTTTAAAATTT
*
4498972 TCACATAATTGTAATATTCTTAT
61 TCACATAATTGTAATATT-TTTT
* * * * *
4498995 AATTTTCATATAATTATAATATTTTTAGAGTTTTCACATAATTGTAATATTTTTAGAAAATTT-A
1 AATTTTCACATAATTATAATATTTTTAGAATGTTCACATAATTATAAT-TTTTTA-AAATTTTCA
* *
4499059 CATAATTATAATATTTTTAA
64 CATAATTGTAATATTTTT-T
* *
4499079 ATATTTTCACATAATTATAATGTTTTTTTAGAATGTTCACATGATTATAATTTTTTAAAATTTTC
1 A-ATTTTCACATAATTATAA--TATTTTTAGAATGTTCACATAATTATAATTTTTTAAAATTTTC
*
4499144 ACATAATTGTAACATTTTTT
63 ACATAATTGTAATATTTTTT
* * * * *
4499164 GAACTTTAACACATTTAT-AT-TTTTTCAGAACTG-TCACATAAATATAATATTTTT
1 -AATTTTCACATAATTATAATATTTTT-AGAA-TGTTCACATAATTATAAT-TTTTT
4499218 TTAAAACTCA
Statistics
Matches: 187, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
81 5 0.03
82 18 0.10
83 12 0.06
84 22 0.12
85 64 0.34
86 26 0.14
87 40 0.21
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (82 bp):
AATTTTCACATAATTATAATATTTTTAGAATGTTCACATAATTATAATTTTTTAAAATTTTCACA
TAATTGTAATATTTTTT
Found at i:4501309 original size:4 final size:4
Alignment explanation
Indices: 4501296--4501337 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
4501286 CTTTTGGGCC
*
4501296 TAAA -AAA TAAA TAAA TAAA CAAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA -TAAA TAAA TAAA TAAA TAAA TA
4501338 TAATGTAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.82
5 3 0.09
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:4501321 original size:17 final size:17
Alignment explanation
Indices: 4501299--4501331 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4501289 TTGGGCCTAA
4501299 AAAATAAATAAATAAAC
1 AAAATAAATAAATAAAC
4501316 AAAATAAATAAATAAA
1 AAAATAAATAAATAAA
4501332 TAAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAATAAATAAAC
Found at i:4501514 original size:38 final size:38
Alignment explanation
Indices: 4501412--4501653 Score: 313
Period size: 38 Copynumber: 6.6 Consensus size: 38
4501402 TTTTTTTAAA
* *
4501412 AAAATTATATATTATATACA-TTTTCAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTTCAAAAATGTTTTC
** *
4501449 AAAAC--TATATTATATA-CGTGTTCGAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTTC-AAAAATGTTTTC
*
4501485 AAAACTATATATTATATATATTTTTGAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTTCAAAAATGTTTTC
*
4501523 AAAACTATATA-T-TATATA-TTTTCAAAAATATTTTC
1 AAAACTATATATTATATATATTTTTCAAAAATGTTTTC
* *
4501558 AAAACTATATATTATATATA-TTTTCGAGAAATATTTTC
1 AAAACTATATATTATATATATTTTTC-AAAAATGTTTTC
4501596 AAAACTATATATTATATATA-TTTTCAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTTCAAAAATGTTTTC
*
4501633 AAAACTATATATTATACATAT
1 AAAACTATATATTATATATAT
4501654 AAAACCTCGG
Statistics
Matches: 183, Mismatches: 13, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
35 41 0.22
36 24 0.13
37 45 0.25
38 70 0.38
39 3 0.02
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (38 bp):
AAAACTATATATTATATATATTTTTCAAAAATGTTTTC
Found at i:4501618 original size:75 final size:75
Alignment explanation
Indices: 4501412--4501653 Score: 350
Period size: 73 Copynumber: 3.3 Consensus size: 75
4501402 TTTTTTTAAA
* * ** *
4501412 AAAATTATATATTATATACATTTTC-AAAAATGTTTTCAAAAC--TATATTATATACGTGTTCGA
1 AAAACTATATATTATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTC-A
4501474 AAAATGTTTTC
65 AAAATGTTTTC
*
4501485 AAAACTATATATTATATATATTTTTGAAAAATGTTTTCAAAACTATATA-T-TATATATTTTCAA
1 AAAACTATATATTATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCAA
*
4501548 AAATATTTTC
66 AAATGTTTTC
* *
4501558 AAAACTATATATTATATATATTTTCGAGAAATATTTTCAAAACTATATATTATATATATTTTCAA
1 AAAACTATATATTATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCAA
4501623 AAATGTTTTC
66 AAATGTTTTC
*
4501633 AAAACTATATATTATACATAT
1 AAAACTATATATTATATATAT
4501654 AAAACCTCGG
Statistics
Matches: 152, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
73 79 0.52
74 26 0.17
75 43 0.28
76 4 0.03
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (75 bp):
AAAACTATATATTATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCAA
AAATGTTTTC
Found at i:4503254 original size:17 final size:15
Alignment explanation
Indices: 4503225--4503274 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 15
4503215 TTTTGGGCCT
4503225 AAAAAAT-AAAAATA
1 AAAAAATAAAAAATA
4503239 ATAAAAATAAACAAATA
1 A-AAAAATAAA-AAATA
4503256 AACAAAATAAATAAATA
1 AA-AAAATAAA-AAATA
4503273 AA
1 AA
4503275 TATAATGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 6 0.19
16 3 0.10
17 21 0.68
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:4503254 original size:23 final size:22
Alignment explanation
Indices: 4503224--4503266 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
4503214 CTTTTGGGCC
4503224 TAAAAAATAAA-AATAATAAAAA
1 TAAAAAATAAACAA-AATAAAAA
4503246 TAAACAAATAAACAAAATAAA
1 TAAA-AAATAAACAAAATAAA
4503267 TAAATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (22 bp):
TAAAAAATAAACAAAATAAAAA
Found at i:4503448 original size:38 final size:37
Alignment explanation
Indices: 4503334--4503777 Score: 616
Period size: 38 Copynumber: 12.0 Consensus size: 37
4503324 TTCAAAAAAA
**
4503334 TTTC-AAAATGATTTTTTAAACTATATATTATATAT-T
1 TTTCAAAAATG-TTTTCAAAACTATATATTATATATAT
**
4503370 TTTCAAAAATGTTTTCAAAACTATAT-TT-TATACGT
1 TTTCAAAAATGTTTTCAAAACTATATATTATATATAT
* *
4503405 CTTCGAAAAATGTTTTCAAAATTATATATTATATATAT
1 TTTC-AAAAATGTTTTCAAAACTATATATTATATATAT
*
4503443 TTTCGAAAAATGTTTACAAAACTATATA-T-TATATAT
1 TTTC-AAAAATGTTTTCAAAACTATATATTATATATAT
4503479 TTTCAAAAATGTTTTCAAAACTATATATTATATATAT
1 TTTCAAAAATGTTTTCAAAACTATATATTATATATAT
*
4503516 TTTGAAAAATGTTTTCAAAACTATATATTATATATAT
1 TTTCAAAAATGTTTTCAAAACTATATATTATATATAT
* *
4503553 TTTCGAGAAATATTTTCAAAACTATATATTATATATAT
1 TTTC-AAAAATGTTTTCAAAACTATATATTATATATAT
*
4503591 TTTCGAGAAATGTTTTCAAAACTATATATTATATATAT
1 TTTC-AAAAATGTTTTCAAAACTATATATTATATATAT
* *
4503629 TTTCAAAAATGTTTTCAAAACTCTATA-T-GATATAT
1 TTTCAAAAATGTTTTCAAAACTATATATTATATATAT
* *
4503664 TTTCCAAAATGTTTTCAAAACTATATAGTATATATAT
1 TTTCAAAAATGTTTTCAAAACTATATATTATATATAT
*
4503701 TTTCAAAAAATGTTTTCAAAACTTTATATTATATATAT
1 TTTC-AAAAATGTTTTCAAAACTATATATTATATATAT
4503739 TTTCAAAAATGTTTTCAAAACTATATTATATATATATAT
1 TTTCAAAAATGTTTTCAAAACTATA-TAT-TATATATAT
4503778 ATATATATAT
Statistics
Matches: 369, Mismatches: 26, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.01
35 59 0.16
36 52 0.14
37 106 0.29
38 139 0.38
39 9 0.02
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (37 bp):
TTTCAAAAATGTTTTCAAAACTATATATTATATATAT
Found at i:4503466 original size:110 final size:113
Alignment explanation
Indices: 4503351--4503777 Score: 622
Period size: 110 Copynumber: 3.8 Consensus size: 113
4503341 ATGATTTTTT
** *
4503351 AAACTATATATTATATAT-TTTTC-AAAAATGTTTTCAAAACTATAT-TT-TATACGTCTTCGAA
1 AAACTATATATTATATATATTTTCAAAAAATGTTTTCAAAACTATATATTATATATATTTTC-AA
* *
4503412 AAATGTTTTCAAAATTATATATTATATATATTTTCGAAAAATGTTTACA
65 AAATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTCA
*
4503461 AAACTATATA-T-TATATATTTTC-AAAAATGTTTTCAAAACTATATATTATATATATTTTGAAA
1 AAACTATATATTATATATATTTTCAAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAA
* *
4503523 AATGTTTTCAAAACTATATATTATATATATTTTCGAGAAATATTTTCA
66 AATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTCA
* *
4503571 AAACTATATATTATATATATTTTCGAGAAATGTTTTCAAAACTATATATTATATATATTTTCAAA
1 AAACTATATATTATATATATTTTCAAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAA
* * *
4503636 AATGTTTTCAAAACTCTATA-T-GATATATTTTC-CAAAATGTTTTCA
66 AATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTCA
* *
4503681 AAACTATATAGTATATATATTTTCAAAAAATGTTTTCAAAACTTTATATTATATATATTTTCAAA
1 AAACTATATATTATATATATTTTCAAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAA
4503746 AATGTTTTCAAAACTATATTATATATATATAT
66 AATGTTTTCAAAACTATA-TAT-TATATATAT
4503778 ATATATATAT
Statistics
Matches: 286, Mismatches: 21, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
108 5 0.02
109 28 0.10
110 157 0.55
111 20 0.07
112 12 0.04
113 58 0.20
114 6 0.02
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (113 bp):
AAACTATATATTATATATATTTTCAAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAA
AATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTCA
Found at i:4503594 original size:148 final size:149
Alignment explanation
Indices: 4503334--4503775 Score: 648
Period size: 148 Copynumber: 3.0 Consensus size: 149
4503324 TTCAAAAAAA
**
4503334 TTTC-AAAATGATTTTTTAAACTATATATTATATAT-TTTTCAAAAATGTTTTCAAAACTATAT-
1 TTTCAAAAATG-TTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATA
** * * *
4503396 TT-TATACGTCTTCGAAAAATGTTTTCAAAATTATATATTATATATATTTTCGAAAAATGTTTAC
65 TTATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTC
4503460 AAAACTATATAT-TATATAT
130 AAAACTATATATATATATAT
*
4503479 TTTCAAAAATGTTTTCAAAACTATATATTATATATATTTTGAAAAATGTTTTCAAAACTATATAT
1 TTTCAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATAT
* * *
4503544 TATATATATTTTCGAGAAATATTTTCAAAACTATATATTATATATATTTTCGAGAAATGTTTTCA
66 TATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTCA
4503609 AAACTATATATTATATATAT
131 AAACTATATA-TATATATAT
* * * *
4503629 TTTCAAAAATGTTTTCAAAACTCTATA-T-GATATATTTTCCAAAATGTTTTCAAAACTATATAG
1 TTTCAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATAT
* *
4503692 TATATATATTTTCAAAAAATGTTTTCAAAACTTTATATTATATATATTTTC-AAAAATGTTTTCA
66 TATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTCA
4503756 AAACTATATTATATATATAT
131 AAACTATA-TATATATATAT
4503776 ATATATATAT
Statistics
Matches: 269, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
145 26 0.10
146 32 0.12
147 31 0.12
148 145 0.54
149 2 0.01
150 33 0.12
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (149 bp):
TTTCAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATAT
TATATATATTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCGAAAAATGTTTTCA
AAACTATATATATATATAT
Found at i:4503772 original size:2 final size:2
Alignment explanation
Indices: 4503760--4503790 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4503750 TTTTCAAAAC
4503760 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4503791 AACCACGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4504124 original size:7 final size:7
Alignment explanation
Indices: 4504100--4504133 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
4504090 TTGTCCAGGA
4504100 TTTTTAT
1 TTTTTAT
4504107 TGTTATTAT
1 T-TT-TTAT
4504116 TTTTTAT
1 TTTTTAT
4504123 TTTTTAT
1 TTTTTAT
4504130 TTTT
1 TTTT
4504134 ATAATTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.64
8 4 0.16
9 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:4504975 original size:23 final size:23
Alignment explanation
Indices: 4504949--4504998 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
4504939 GGTTTTCACC
4504949 GGAGTAGAGAGATTCGAACGATT
1 GGAGTAGAGAGATTCGAACGATT
4504972 GGAGTAGAGAGATTCGAACGATT
1 GGAGTAGAGAGATTCGAACGATT
4504995 GGAG
1 GGAG
4504999 AGTTCTGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.38, T:0.20
Consensus pattern (23 bp):
GGAGTAGAGAGATTCGAACGATT
Found at i:4505867 original size:12 final size:13
Alignment explanation
Indices: 4505844--4505873 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
4505834 GAAACATATG
4505844 TGTATAATTTTTT
1 TGTATAATTTTTT
4505857 TGTAT-ATTTTTT
1 TGTATAATTTTTT
4505869 TGTAT
1 TGTAT
4505874 GTCACATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (13 bp):
TGTATAATTTTTT
Found at i:4514534 original size:217 final size:217
Alignment explanation
Indices: 4514153--4514844 Score: 1016
Period size: 217 Copynumber: 3.2 Consensus size: 217
4514143 GTAAACAATT
** *
4514153 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAAATCCTTCAGGTTATCTGT
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAAATCCTTTGGGTCATCTGT
*
4514218 AAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAGACCTTCGGGTAGGATGTTTTC
66 AAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTC
* * * * *
4514283 ACATGAATTTAAAAAATAAAAAAGTGAT-TTTTAAGAAGATGAAATCTTTGAAAACTAAGAAGTC
131 ACATGAATTTGAAAAATAAAAAAGTGATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGAAGGC
4514347 GATTTCCAAAATTTTGCACTTA
196 GATTTCCAAAATTTTGCACTTA
* * *
4514369 GTAAGTCCTTCGGGCTATTAGTAAGTCTTTCGAGCATGGTGATTAAAAATCCTTTGGGTCATCTG
1 -TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAAATCCTTTGGGTCATCTG
* *
4514434 TAAGCCTTTAGAGCAAGATGATAAGTCCTTCGAGCCATCCATCAGACCTTCGGGTAGGATGTTTT
65 TAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTT
*
4514499 CACATGAATTTGAAAAAT-AAAAAGTGATGTTTTAAGAAAATGAAATCTTAGAGAAGTAAGAAGG
130 CACATGAATTTGAAAAATAAAAAAGTGATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGAAGG
*
4514563 CGATTTCTAAAATTTTGCACTATA
195 CGATTTCCAAAATTTTGCACT-TA
* * *
4514587 TAAGTCCTTTGGGCCATCATTAAGTCTTTCGAGCATGATGAGT--AAATCCTTTGGGTCATCTGT
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAAATCCTTTGGGTCATCTGT
* * *
4514650 AAGTCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTGGGATGTTTTT
66 AAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATG-TTTT
* * * * * * *
4514715 GA-GTGAATTTGAAAATTGAGAAAGTAATGTTTTAAGAAAATGAAATTTTTGAGAAGTAAGAAGG
130 CACATGAATTTGAAAAATAAAAAAGTGATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGAAGG
*
4514779 CGATTTCCAAAATTTCGCACTTTA
195 CGATTTCCAAAATTTTGCAC-TTA
* * *
4514803 TAAGTCCTTCGGACCATCATTAAGTGTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAT
4514845 GAAGTCCTTC
Statistics
Matches: 430, Mismatches: 40, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
215 88 0.20
216 115 0.27
217 225 0.52
218 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (217 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAAATCCTTTGGGTCATCTGT
AAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTC
ACATGAATTTGAAAAATAAAAAAGTGATGTTTTAAGAAAATGAAATCTTTGAGAAGTAAGAAGGC
GATTTCCAAAATTTTGCACTTA
Found at i:4514653 original size:42 final size:41
Alignment explanation
Indices: 4514586--4514687 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 41
4514576 TTTGCACTAT
* * *
4514586 ATAAGTCCTTTGGGCCATCATTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTTGGGCCATCATTAAGTCTTTAGAGCAAGATG
*
4514627 AGTAAATCCTTTGGGTCATC-TGTAAGTCTTTAGAGCAAGATG
1 A-TAAATCCTTTGGGCCATCAT-TAAGTCTTTAGAGCAAGATG
* *
4514669 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTTGGGCCATC
4514688 CATAAGACCT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 17 0.33
42 35 0.67
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
ATAAATCCTTTGGGCCATCATTAAGTCTTTAGAGCAAGATG
Found at i:4514851 original size:42 final size:41
Alignment explanation
Indices: 4514804--4514894 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 41
4514794 CGCACTTTAT
* *
4514804 AAGTCCTTC-GGACCATCATTAAGTGTTTCGAGCATGATGATG
1 AAGTCCTTCAGG-CCATCAGTAAGTCTTTCGAG-ATGATGATG
*
4514846 AAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGATGATGATT
1 AAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGATGATGATG
*
4514887 AAATCCTT
1 AAGTCCTT
4514895 TGGGTAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 15 0.34
42 27 0.61
43 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (41 bp):
AAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGATGATGATG
Found at i:4515011 original size:42 final size:42
Alignment explanation
Indices: 4514947--4515031 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
4514937 ATCAATAAGT
*
4514947 GCCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTCGG
1 GCCATCAGTAAATCTTTCGAGCATGATGATAAAATCCTTCGG
* * *
4514989 GCCATTAGTAAATCTTTTGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAATCTTTCGAGCATGATGATAAAATCCTTCGG
4515031 G
1 G
4515032 TAATTTGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (42 bp):
GCCATCAGTAAATCTTTCGAGCATGATGATAAAATCCTTCGG
Found at i:4515088 original size:13 final size:13
Alignment explanation
Indices: 4515070--4515094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4515060 TGAAGCAAAT
4515070 CCATCAGTAAGTG
1 CCATCAGTAAGTG
4515083 CCATCAGTAAGT
1 CCATCAGTAAGT
4515095 CTTTCCAACA
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:4515090 original size:135 final size:132
Alignment explanation
Indices: 4514816--4515124 Score: 447
Period size: 135 Copynumber: 2.3 Consensus size: 132
4514806 GTCCTTCGGA
* * * * * *
4514816 CCATCATTAAGTGTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGATG
1 CCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGCCATCAGTAAATCTTTCGAGATG
* * *
4514881 ATGATTAAATCCTTTGGGTAATTTGTAAGTCTTCAGAAGAGTAGTGAAGCAAATCCATCAATAAG
66 ATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCAAAAGAGTAGTGAAGCAAATCCATCAATAAG
4514946 TG
131 TG
* *
4514948 CCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGCCATTAGTAAATCTTTTGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGCCATCAGTAAATCTTTCGAG-AT
*
4515013 GATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACAAAAGAGTAGTGAAGCAAATCCATCAGT
65 GATGATTAAATCCTTCGGGTAATTTGTAAGCCTT--CAAAAGAGTAGTGAAGCAAATCCATCAAT
4515078 AAGTG
128 AAGTG
* * * *
4515083 CCATCAGTAAGTCTTTCCAACATTATGATTAAATCCTTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTCGGG
4515125 TAATTTATAA
Statistics
Matches: 158, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
132 54 0.34
133 34 0.22
135 70 0.44
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (132 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTCGGGCCATCAGTAAATCTTTCGAGATG
ATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCAAAAGAGTAGTGAAGCAAATCCATCAATAAG
TG
Found at i:4515149 original size:93 final size:93
Alignment explanation
Indices: 4515010--4515213 Score: 327
Period size: 93 Copynumber: 2.2 Consensus size: 93
4515000 ATCTTTTGAG
* *
4515010 CATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACAAAAGAGTAGTGAAGCAAATCCATC
1 CATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCACAAAAGAGTAGTGAAGCAAATACATC
4515075 AGTAAGTGCCATCAGTAAGTCTTTCCAA
66 AGTAAGTGCCATCAGTAAGTCTTTCCAA
* ***
4515103 CATTATGATTAAATCCTTCGGGTAATTTATAAGCCTTCATGGAAGAGTAGTGAAGCAAATACATC
1 CATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCACAAAAGAGTAGTGAAGCAAATACATC
* *
4515168 AGTAAGTGCCATCAGTAAGTCTTTCGAG
66 AGTAAGTGCCATCAGTAAGTCTTTCCAA
*
4515196 CATGATGATGAAATCCTT
1 CATGATGATTAAATCCTT
4515214 TGGGCCATCA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 101 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCACAAAAGAGTAGTGAAGCAAATACATC
AGTAAGTGCCATCAGTAAGTCTTTCCAA
Found at i:4515234 original size:42 final size:42
Alignment explanation
Indices: 4515175--4515255 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
4515165 ATCAGTAAGT
4515175 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGG
*
4515217 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTT
4515256 CGGGTAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGG
Found at i:4515276 original size:228 final size:224
Alignment explanation
Indices: 4514857--4515301 Score: 701
Period size: 228 Copynumber: 2.0 Consensus size: 224
4514847 AGTCCTTCAG
* * * * *
4514857 GCCATCAGTAAGTCTTTCGAGATGATGATTAAATCCTTTGGGTAATTTGTAAGTCTTCAGAAGAG
1 GCCATCAGTAAGTCTTTCAACATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCAGAAGAG
*
4514922 TAGTGAAGCAAATCCATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTC
66 TAGTGAAGCAAATACATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTC
* *
4514987 GGGCCATTAGTAAATCTTTTGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACAA
131 GGGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACAA
* *
4515052 AAGAGTAGTGAAGCAAATCCATCAGTAAGT
196 AAGAATAGTAAAGCAAA-CCATCAGTAAGT
*
4515082 GCCATCAGTAAGTCTTTCCAACATTATGATTAAATCCTTCGGGTAATTTATAAGCCTTCATGGAA
1 GCCATCAGTAAGTCTTT-CAACATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCA--GAA
* *
4515147 GAGTAGTGAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCC
63 GAGTAGTGAAGCAAATACATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATAAAATCC
* *
4515212 TTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCA
128 TTCGGGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCA
**
4515277 CGGAAGAATAGTAAAGCAAACCATC
193 CAAAAGAATAGTAAAGCAAACCATC
4515302 TTAAGCCTTC
Statistics
Matches: 200, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
225 17 0.09
226 36 0.18
227 5 0.03
228 142 0.71
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (224 bp):
GCCATCAGTAAGTCTTTCAACATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCAGAAGAG
TAGTGAAGCAAATACATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATAAAATCCTTC
GGGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACAA
AAGAATAGTAAAGCAAACCATCAGTAAGT
Found at i:4515354 original size:37 final size:37
Alignment explanation
Indices: 4515268--4515446 Score: 227
Period size: 37 Copynumber: 4.9 Consensus size: 37
4515258 GGTAATTTGT
* * * *
4515268 AAGCCTTCACGGAAGAATAGTAAAGCAAA-CCATCTT
1 AAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTC
*
4515304 AAGCCTTCACGGAAGAGTAGTGAAGCAGATCAATCTC
1 AAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTC
* *
4515341 AAGCCTTCACGGAAGAGTAGTGAAGCGAATC-ATCTT
1 AAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTC
* * * *
4515377 AAGTCTTCACGGAAGAGTAATGAAACAAATCAATCCC
1 AAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTC
* *
4515414 AAGCCTTCACGGAAGAGTACTAAAGCAAATCAA
1 AAGCCTTCACGGAAGAGTAGTGAAGCAAATCAA
4515447 GATCGGGTCT
Statistics
Matches: 123, Mismatches: 18, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
36 57 0.46
37 66 0.54
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (37 bp):
AAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTC
Found at i:4515445 original size:73 final size:73
Alignment explanation
Indices: 4515268--4515445 Score: 266
Period size: 73 Copynumber: 2.4 Consensus size: 73
4515258 GGTAATTTGT
* * * * *
4515268 AAGCCTTCACGGAAGAATAGTAAAGCAAACCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAGA
1 AAGCCTTCACGGAAGAGTAGTAAAGCAAATCATCTTAAGCCTTCACGGAAGAGTAATGAAACAAA
*
4515333 TCAATCTC
66 TCAATCCC
* * *
4515341 AAGCCTTCACGGAAGAGTAGTGAAGCGAATCATCTTAAGTCTTCACGGAAGAGTAATGAAACAAA
1 AAGCCTTCACGGAAGAGTAGTAAAGCAAATCATCTTAAGCCTTCACGGAAGAGTAATGAAACAAA
4515406 TCAATCCC
66 TCAATCCC
*
4515414 AAGCCTTCACGGAAGAGTACTAAAGCAAATCA
1 AAGCCTTCACGGAAGAGTAGTAAAGCAAATCA
4515446 AGATCGGGTC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 93 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (73 bp):
AAGCCTTCACGGAAGAGTAGTAAAGCAAATCATCTTAAGCCTTCACGGAAGAGTAATGAAACAAA
TCAATCCC
Found at i:4515666 original size:7 final size:7
Alignment explanation
Indices: 4515642--4515675 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
4515632 TTGTCTAGGA
4515642 TTTTTAT
1 TTTTTAT
4515649 TGTTATTAT
1 T-TT-TTAT
4515658 TTTTTAT
1 TTTTTAT
4515665 TTTTTAT
1 TTTTTAT
4515672 TTTT
1 TTTT
4515676 ATAATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.64
8 4 0.16
9 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:4520425 original size:25 final size:23
Alignment explanation
Indices: 4520397--4520462 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 23
4520387 TATTGGGAAT
*
4520397 TAATTTGAAAAAGGTGTTATTTTTG
1 TAATTTGAAAAA--TGTTATTTTCG
*
4520422 TAATTTTTTAAAAATGTTATTTTCG
1 TAA--TTTGAAAAATGTTATTTTCG
4520447 TAATTTTTGAAAAATG
1 TAA--TTTGAAAAATG
4520463 ACATTTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 28 0.78
27 8 0.22
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.50
Consensus pattern (23 bp):
TAATTTGAAAAATGTTATTTTCG
Found at i:4520468 original size:25 final size:25
Alignment explanation
Indices: 4520415--4520486 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
4520405 AAAAGGTGTT
* * **
4520415 ATTTTTGTAATTTTTTAAAAATGTT
1 ATTTTAGTAATTTTTGAAAAATGAC
*
4520440 ATTTTCGTAATTTTTGAAAAATGAC
1 ATTTTAGTAATTTTTGAAAAATGAC
4520465 ATTTTAGTAAATATTTTGAAAA
1 ATTTTAGT-AAT-TTTTGAAAA
4520487 TACGACTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 28 0.70
26 3 0.08
27 9 0.22
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (25 bp):
ATTTTAGTAATTTTTGAAAAATGAC
Found at i:4520532 original size:29 final size:29
Alignment explanation
Indices: 4520351--4520534 Score: 109
Period size: 29 Copynumber: 6.6 Consensus size: 29
4520341 CCCGTTGACC
*
4520351 GGTGATATTTTAGTAATTATTTTGAAACT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * * * * *
4520380 GGTGACATATTGGGAATTAATTTGAAAAA
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
4520409 GGTGTTATTTTTGTAATT-TTTTAAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
*
4520437 -GT--TATTTTCGTAA-T-TTTTGAAAA-
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
4520460 -ATGACATTTTAGTAAATATTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
** * *
4520488 -ACGACTATATTGGTAATTAATTTT-AAAAT
1 GGTGA-TATTTTAGTAATT-ATTTTGAAAAT
*
4520517 GGTGATATTTTCGTAATT
1 GGTGATATTTTAGTAATT
4520535 TTGAAAAAAA
Statistics
Matches: 118, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
23 1 0.01
24 9 0.08
25 19 0.16
26 1 0.01
27 11 0.09
28 10 0.08
29 60 0.51
30 7 0.06
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.46
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTATTTTGAAAAT
Found at i:4521326 original size:15 final size:14
Alignment explanation
Indices: 4521296--4521338 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
4521286 ACATGATACA
4521296 TGATACTTGA-TTCC
1 TGATA-TTGATTTCC
4521310 TGAATATTGATTTCC
1 TG-ATATTGATTTCC
4521325 TGATATATGATTTC
1 TGATAT-TGATTTC
4521339 TGTATTTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (14 bp):
TGATATTGATTTCC
Found at i:4527760 original size:29 final size:30
Alignment explanation
Indices: 4527722--4527779 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
4527712 TTTAGTAAAT
4527722 ATTTTGAAAATGGGGCTATATTGGTAATTA
1 ATTTTGAAAATGGGGCTATATTGGTAATTA
* * *
4527752 ATTTT-AAAATGGTGCTATTTTTGTAATT
1 ATTTTGAAAATGGGGCTATATTGGTAATT
4527780 TTGAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (30 bp):
ATTTTGAAAATGGGGCTATATTGGTAATTA
Found at i:4529618 original size:21 final size:21
Alignment explanation
Indices: 4529588--4529640 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
4529578 ATTATGACTA
*
4529588 TCGCAATGCGATTTT-TCAATT
1 TCGCAATGCGATTTTCCCAA-T
* *
4529609 TCGCATTGCGGTTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
4529630 TCGCAATGCGA
1 TCGCAATGCGA
4529641 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:4529655 original size:20 final size:21
Alignment explanation
Indices: 4529630--4529681 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4529620 TTTTCCCAAT
*
4529630 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4529650 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4529671 TCGCAATGCGA
1 TCGCAATGCGA
4529682 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4529695 original size:20 final size:20
Alignment explanation
Indices: 4529670--4529784 Score: 133
Period size: 20 Copynumber: 5.7 Consensus size: 20
4529660 AATTGGGAAA
*
4529670 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4529690 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
4529711 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4529731 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
*
4529751 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4529771 TTCGCAACGAGATA
1 ATCGCAACGCGATA
4529785 ATACATAATC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.77
21 15 0.18
22 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4529767 original size:40 final size:40
Alignment explanation
Indices: 4529668--4529804 Score: 168
Period size: 41 Copynumber: 3.4 Consensus size: 40
4529658 CGAATTGGGA
* *
4529668 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
*
4529708 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATACTTAC
1 -AAATCGCAACGCGATACTGACTTTCGCAACGCGATA-ATAC
** *
4529750 -TTTCGCAACGCGATACTGACTTTCGCAACGAGATAATAC
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
4529789 ATAATCACAATGCGAT
1 A-AATCGCAACGCGAT
4529805 TTTCAAAGCG
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.04
40 32 0.39
41 44 0.54
42 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:4530009 original size:22 final size:22
Alignment explanation
Indices: 4529971--4530014 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4529961 CACTCTCTCA
* *
4529971 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACAAAATCCGTC
*
4529993 CCCATCTCCGGCAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
4530015 TATCTCCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:4530345 original size:20 final size:20
Alignment explanation
Indices: 4530291--4530349 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
4530281 GCGATTCTCT
**
4530291 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
4530311 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
4530331 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
4530350 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:4531645 original size:18 final size:18
Alignment explanation
Indices: 4531624--4531671 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
4531614 TCCACTTCGG
4531624 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
4531642 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4531660 GAGCCATCACCT
1 GAGCCATCACCT
4531672 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4532260 original size:19 final size:20
Alignment explanation
Indices: 4532206--4532272 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4532196 TAGTTTCCTT
* *
4532206 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
4532226 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
4532246 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
4532265 TCGCAACG
1 TCGCAACG
4532273 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:4532280 original size:14 final size:14
Alignment explanation
Indices: 4532261--4532319 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
4532251 ATGCGAAATG
4532261 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4532275 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
4532291 ATGAAAACTGCAACGAC
1 A--AAATC-GCAACGAC
4532308 AAAATCGCAACG
1 AAAATCGCAACG
4532320 CGAATTGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 16 0.44
15 4 0.11
16 4 0.11
17 4 0.11
18 4 0.11
19 4 0.11
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4532287 original size:33 final size:33
Alignment explanation
Indices: 4532245--4532336 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4532235 GGAAATGGCT
4532245 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
4532278 ATCGCAATGCGAAATGAAAA-CTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATC-GCAACGACAAA
* *
4532311 ATCGCAACGCGAATTGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
4532337 TGCGATTTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 1 0.02
33 53 0.96
34 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:4532399 original size:33 final size:33
Alignment explanation
Indices: 4532357--4532430 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
4532347 GTTTTGCGTT
*
4532357 GCGATTTTGTCGTTGCGGTTTTCATTTCGCATA
1 GCGATTTTGTCGTTGCGATTTTCATTTCGCATA
*
4532390 GCGATTTTGTCGTTGCGATTTTCATTTCGCATT
1 GCGATTTTGTCGTTGCGATTTTCATTTCGCATA
4532423 GCGATTTT
1 GCGATTTT
4532431 CATTTCGCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (33 bp):
GCGATTTTGTCGTTGCGATTTTCATTTCGCATA
Found at i:4532426 original size:19 final size:19
Alignment explanation
Indices: 4532369--4532446 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 19
4532359 GATTTTGTCG
*
4532369 TTGCGGTTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
4532388 TAGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
4532402 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4532421 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
4532440 TTGCGAT
1 TTGCGAT
4532447 AGCCATTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
14 5 0.10
15 3 0.06
16 4 0.08
17 4 0.08
18 3 0.06
19 29 0.60
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4532453 original size:19 final size:19
Alignment explanation
Indices: 4532400--4532474 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
4532390 GCGATTTTGT
**
4532400 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* **
4532419 CATTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
4532438 CGTTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
4532458 CGTTGCGATAGTCATTT
1 CGTTGCGATAGTCATTT
4532475 TCGCATTGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
19 31 0.63
20 18 0.37
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:4532886 original size:21 final size:20
Alignment explanation
Indices: 4532860--4532928 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
4532850 CTGTCATCCC
4532860 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
4532881 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
4532902 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
4532922 TCAAGAG
1 TCAAGAG
4532929 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:4532940 original size:41 final size:42
Alignment explanation
Indices: 4532850--4532940 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
4532840 CCCGACTCAC
* *
4532850 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
4532892 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
4532933 CTGTCATC
1 CTGTCATC
4532941 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 23 0.52
42 21 0.48
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:4534522 original size:14 final size:14
Alignment explanation
Indices: 4534503--4534556 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
4534493 GAAACAGACT
*
4534503 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
4534517 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
4534536 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
4534550 ATCGCAA
1 ATCGCAA
4534557 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:4534540 original size:19 final size:17
Alignment explanation
Indices: 4534516--4534561 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
4534506 GCAACGAGAG
4534516 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AA-GAA
4534535 AATCGCAA--CG-AGAA
1 AATCGCAATGCGAAGAA
4534549 AATCGCAATGCGA
1 AATCGCAATGCGA
4534562 TTTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 2 0.08
17 2 0.08
19 8 0.33
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (17 bp):
AATCGCAATGCGAAGAA
Found at i:4534660 original size:20 final size:20
Alignment explanation
Indices: 4534580--4534657 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
4534570 TCGCATTGTG
*
4534580 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4534600 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
** *
4534620 ATTTTCGCGTTAAGATAGTC
1 ATTTTCGCGTTGCGATAGCC
4534640 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
4534658 TCAAATGAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:4536940 original size:12 final size:12
Alignment explanation
Indices: 4536923--4536947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4536913 TCTTCGGGGA
4536923 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4536935 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4536947 C
1 C
4536948 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:4537189 original size:24 final size:24
Alignment explanation
Indices: 4537122--4537181 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
4537112 TTGAAACATC
*
4537122 ATCAAAATTCGAGTATTGACCAAT
1 ATCAAAATTCGAGTATTGACCAAG
* *
4537146 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
4537170 ATCAAATTTCGA
1 ATCAAAATTCGA
4537182 ATACTGACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:4538068 original size:20 final size:20
Alignment explanation
Indices: 4537914--4538067 Score: 175
Period size: 20 Copynumber: 7.7 Consensus size: 20
4537904 GATTCTGTAT
* *
4537914 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4537934 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
4537954 AATCACGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4537974 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4537994 TATCGCGTTGAGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
4538014 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
4538035 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4538055 TATCGCATTGCGA
1 TATCGCGTTGCGA
4538068 TTTTTCCAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.03
20 98 0.84
21 14 0.12
22 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:4538086 original size:41 final size:41
Alignment explanation
Indices: 4537894--4538071 Score: 132
Period size: 40 Copynumber: 4.4 Consensus size: 41
4537884 AACTTTGAAA
* * * * *
4537894 ATCGCATTGCGATTCTGTATTATCTCGTTGCGATAGTCAGA
1 ATCGCATTGCGATTTTGTAATATCGCGTTGCGAAAGTCAGT
* ** * *
4537935 ATCGCGTTGCGA--AAGTCAGA-ATCACGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTGT-A-ATATCGCGTTGCGAAAGTCAGT
* ** * *
4537975 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGAGAAAGTCAGT
1 ATCGCATTGCGATTTTGT-AATATCGCGTTGCGAAAGTCAGT
* * *
4538015 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTAATATCGCGTTGCGAAAGTCAGT
4538056 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
4538072 TCCAATTCGC
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 66 0.57
41 46 0.40
42 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTAATATCGCGTTGCGAAAGTCAGT
Found at i:4538122 original size:21 final size:20
Alignment explanation
Indices: 4538098--4538159 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
4538088 ATTTACTTAT
4538098 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
** *
4538119 TCGCAACGTGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
4538140 TCGCATTGCGAATCTGGAAA
1 TCGCATTGCGAAT-TGGAAA
4538160 CTGATTTGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.09
21 26 0.79
22 4 0.12
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:4542145 original size:14 final size:14
Alignment explanation
Indices: 4542126--4542162 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4542116 AAGATAAAAT
4542126 GGGAGGGTTTGCCC
1 GGGAGGGTTTGCCC
*
4542140 GGGAGGGTTTGCTC
1 GGGAGGGTTTGCCC
*
4542154 TGGAGGGTT
1 GGGAGGGTT
4542163 CGTGGAGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.08, C:0.14, G:0.51, T:0.27
Consensus pattern (14 bp):
GGGAGGGTTTGCCC
Found at i:4542496 original size:22 final size:22
Alignment explanation
Indices: 4542439--4542497 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
4542429 ACGCGATTCT
4542439 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
4542461 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
4542482 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
4542498 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:4542538 original size:40 final size:40
Alignment explanation
Indices: 4542482--4542577 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
4542472 GCGATTTTCC
4542482 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
* *
4542522 GACTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
*
4542562 GACTATTGCAATGCGA
1 GACTATCGCAATGCGA
4542578 TTCTGACTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (40 bp):
GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
Found at i:4542572 original size:20 final size:20
Alignment explanation
Indices: 4542482--4542615 Score: 128
Period size: 20 Copynumber: 6.7 Consensus size: 20
4542472 GCGATTTTCC
*
4542482 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTAT
* *
4542502 GTA-AATCGCAATGCGAGTAT
1 G-ACTATCGCAATGCGATTAT
* *
4542522 GACTATCGCAACGCGAATAT
1 GACTATCGCAATGCGATTAT
*
4542542 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTAT
* *
4542562 GACTATTGCAATGCGATTCT
1 GACTATCGCAATGCGATTAT
* *
4542582 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
* *
4542602 GGCTGTCGCAATGC
1 GACTATCGCAATGC
4542616 TGAATTTCAA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
19 2 0.02
20 90 0.96
21 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (20 bp):
GACTATCGCAATGCGATTAT
Found at i:4543466 original size:24 final size:24
Alignment explanation
Indices: 4543434--4543487 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
4543424 GTATTCGAAA
4543434 TTTGATCTTGGTCAATA-TCCGGAC
1 TTTGATCTTGGTCAATACT-CGGAC
*
4543458 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
4543482 TTTGAT
1 TTTGAT
4543488 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:4543706 original size:14 final size:14
Alignment explanation
Indices: 4543677--4543713 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4543667 AGAAAAAGAA
4543677 GAAGAATAAATCCCC
1 GAAGAA-AAATCCCC
*
4543692 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
4543706 GAAGAAAA
1 GAAGAAAA
4543714 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.19, T:0.08
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:4545747 original size:18 final size:18
Alignment explanation
Indices: 4545724--4545758 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4545714 AGCAAAAGGC
4545724 AATCAAAATCGCAATCAA
1 AATCAAAATCGCAATCAA
*
4545742 AATCAAAATCTCAATCA
1 AATCAAAATCGCAATCA
4545759 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCGCAATCAA
Found at i:4546117 original size:94 final size:92
Alignment explanation
Indices: 4545936--4546188 Score: 271
Period size: 94 Copynumber: 2.7 Consensus size: 92
4545926 CACATTCATT
*
4545936 TGACTATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAA-TATCACAACGGGATAATCGC
1 TGACTATCGCAACGCGAATATGACTATCGCAACG-AAATTT-AACTATCACAACGGGATAATCGC
* *
4546000 AATGCGAAAATGACTATCACAACGCGAAAA
64 AATGCGAAAACGAATATCACAACGCG-AAA
* * *
4546030 TGACTATCGCAACGCGAATATGACTATCGCAACGCAAATTTAACTATCACAACGTGA-ATTTGAC
1 TGACTATCGCAACGCGAATATGACTATCGCAACG-AAATTTAACTATCACAACGGGATAATCG-C
* * *
4546094 TAT-C-ACAACGAGATAATCGCAACGCGAAA
64 AATGCGAAAACGA-AT-ATCACAACGCGAAA
* * * * * *
4546123 TGACTATCGCAACGCGAATTTGATTATCGCAACGAGAATTTGACTATCGCAACGAGAAAATCGCA
1 TGACTATCGCAACGCGAATATGACTATCGCAACGA-AATTTAACTATCACAACGGGATAATCGCA
4546188 A
65 A
4546189 AGTGTATTAG
Statistics
Matches: 135, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
92 6 0.04
93 62 0.46
94 67 0.50
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (92 bp):
TGACTATCGCAACGCGAATATGACTATCGCAACGAAATTTAACTATCACAACGGGATAATCGCAA
TGCGAAAACGAATATCACAACGCGAAA
Found at i:4546156 original size:73 final size:73
Alignment explanation
Indices: 4546035--4546220 Score: 246
Period size: 73 Copynumber: 2.5 Consensus size: 73
4546025 GAAAATGACT
* * * *
4546035 ATCGCAACGCGAATATGACTATCGCAACGCAAATTTAACTATCACAACGTGAATTTGACTATCAC
1 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATTATCACAACGAGAATTTGACTATCAC
*
4546100 AACGAGATA
65 AACGAGAAA
* *
4546109 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGAGAATTTGACTATCGCA
1 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCACAACGAGAATTTGACTATCACA
4546174 ACGAGAAA
66 ACGAGAAA
* * * * *
4546182 ATCGCAAAGTGTATTAGACTATCGCAACGCGAATATGAT
1 ATCGCAACGCGAAAT-GACTATCGCAACGCGAATTTGAT
4546221 GCAGATTGAA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
73 64 0.65
74 35 0.35
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (73 bp):
ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCACAACGAGAATTTGACTATCACA
ACGAGAAA
Found at i:4546180 original size:20 final size:20
Alignment explanation
Indices: 4545933--4546176 Score: 208
Period size: 20 Copynumber: 12.8 Consensus size: 20
4545923 TTACACATTC
4545933 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
4545953 ATATGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
4545973 ATTTGAATATCACAACG-GG
1 ATTTGACTATCGCAACGCGA
*
4545992 A--T-A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
** *
4546007 AAATGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
**
4546027 AAATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
4546047 ATATGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
* * *
4546067 ATTTAACTATCACAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
4546087 ATTTGACTATCACAACGAG-
1 ATTTGACTATCGCAACGCGA
4546106 A--T-A--ATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
4546121 A-ATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
4546140 ATTTGATTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
4546160 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
4546177 AGAAAATCGC
Statistics
Matches: 185, Mismatches: 27, Indels: 24
0.78 0.11 0.10
Matches are distributed among these distances:
14 16 0.09
15 3 0.02
16 3 0.02
17 4 0.02
18 1 0.01
19 16 0.09
20 142 0.77
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:4546333 original size:61 final size:61
Alignment explanation
Indices: 4546238--4546359 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
4546228 GAAATAAACA
4546238 AATCAACTTTTACATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
1 AATCAACTTTTACATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
4546299 AATCAACTTTTACATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
1 AATCAACTTTTACATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
4546360 TAAACAAATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (61 bp):
AATCAACTTTTACATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
Found at i:4546365 original size:36 final size:34
Alignment explanation
Indices: 4546318--4546397 Score: 114
Period size: 30 Copynumber: 2.4 Consensus size: 34
4546308 TTACATTTCA
4546318 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
4546354 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
4546384 ATCAATTAAACAAA
1 ATCAATTAAACAAA
4546398 TCAACTCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
30 28 0.70
32 2 0.05
34 3 0.08
36 7 0.17
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:4546369 original size:30 final size:30
Alignment explanation
Indices: 4546333--4546398 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
4546323 TTAAACAAGC
4546333 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
4546363 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
4546393 ACAAAT
1 ACAAAT
4546399 CAACTCTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:4547884 original size:42 final size:42
Alignment explanation
Indices: 4547781--4547887 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
4547771 GAATGTTGGG
* * **
4547781 AGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTGGGA
1 AGGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGCAGGGA
* ** * *
4547824 AGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGACAGGGG
1 AGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACG-CAGGGA
4547867 A-GGCCTCTTGAACGATGACAG
1 AGGGCCTCTTGAACGATGACAG
4547888 ATGAGTCGGG
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
42 42 0.84
43 8 0.16
ACGTcount: A:0.24, C:0.21, G:0.36, T:0.20
Consensus pattern (42 bp):
AGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGCAGGGA
Found at i:4548404 original size:18 final size:18
Alignment explanation
Indices: 4548377--4548440 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 18
4548367 ACTTAAAATA
*
4548377 GCAACACGAATGACTATC
1 GCAACGCGAATGACTATC
4548395 GCAACGCGAAAATGACTATC
1 GCAACGCG--AATGACTATC
4548415 GCAACGCGAATTTGACTATC
1 GCAACGCGAA--TGACTATC
4548435 GCAACG
1 GCAACG
4548441 AGAGAATCGC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
18 9 0.22
20 32 0.78
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (18 bp):
GCAACGCGAATGACTATC
Found at i:4548410 original size:20 final size:20
Alignment explanation
Indices: 4548385--4548440 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
4548375 TAGCAACACG
4548385 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
4548405 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
**
4548425 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
4548441 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:4548508 original size:20 final size:20
Alignment explanation
Indices: 4548483--4548550 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
4548473 GCGATTCTTT
*
4548483 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
* *
4548503 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
4548523 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
4548543 CGTTGCGA
1 CGTTGCGA
4548551 AAGTAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:4548721 original size:18 final size:18
Alignment explanation
Indices: 4548698--4548747 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
4548688 TTTACTAAGC
4548698 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
4548716 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
4548734 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
4548748 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:4550502 original size:19 final size:19
Alignment explanation
Indices: 4550478--4550582 Score: 95
Period size: 19 Copynumber: 5.4 Consensus size: 19
4550468 CTGAAACTTA
4550478 AAATCGCAACACGAAAATG
1 AAATCGCAACACGAAAATG
4550497 AAATCGCAACACGAAAATG
1 AAATCGCAACACGAAAATG
* * **
4550516 ACTATCGCAACGCGAATTTG
1 A-AATCGCAACACGAAAATG
* *
4550536 ACTATCGCAACGCG-AAATG
1 A-AATCGCAACACGAAAATG
* * *
4550555 AAAATCGTAACACGAAACTA
1 -AAATCGCAACACGAAAATG
4550575 AAATCGCA
1 AAATCGCA
4550583 TTGCGATTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 39 0.55
20 32 0.45
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.15
Consensus pattern (19 bp):
AAATCGCAACACGAAAATG
Found at i:4550524 original size:20 final size:20
Alignment explanation
Indices: 4550479--4550571 Score: 100
Period size: 19 Copynumber: 4.8 Consensus size: 20
4550469 TGAAACTTAA
4550479 AATCGCAACACGAAAATGA-
1 AATCGCAACACGAAAATGAC
4550498 AATCGCAACACGAAAATGAC
1 AATCGCAACACGAAAATGAC
* * **
4550518 TATCGCAACGCGAATTTGAC
1 AATCGCAACACGAAAATGAC
* * *
4550538 TATCGCAACGCG-AAATGAA
1 AATCGCAACACGAAAATGAC
*
4550557 AATCGTAACACGAAA
1 AATCGCAACACGAAA
4550572 CTAAAATCGC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 32 0.52
20 30 0.48
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (20 bp):
AATCGCAACACGAAAATGAC
Found at i:4550981 original size:22 final size:22
Alignment explanation
Indices: 4550950--4551005 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
4550940 GATGGAGATA
4550950 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
4550972 GACTGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
4550994 GACGGATGTCGC
1 GACGGATTTCGC
4551006 ATTAGAGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:4551223 original size:20 final size:20
Alignment explanation
Indices: 4551170--4551259 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
4551160 GCACTTTGAA
*
4551170 AATCGCATTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAG
4551190 AATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
4551210 AATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* * *
4551230 ATTCGCGTTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
*
4551250 ACTCGCATTG
1 AATCGCATTG
4551260 TTATTTACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.02
20 58 0.97
21 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:4551241 original size:40 final size:40
Alignment explanation
Indices: 4551192--4551345 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
4551182 ACAGTCAGAA
4551192 TCGCATTGCGATAGTCAGAATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCAGAATCGCATTGCGATTTACATAT
* * * **
4551232 TCGCGTTGCGATAGTCATACTCGCATTGTTATTTACATAT
1 TCGCATTGCGATAGTCAGAATCGCATTGCGATTTACATAT
* ** ** * *
4551272 TCGCATTGCGATAGTCGAAAAATCGCAACGCGAATTTGGAAAA
1 TCGCATTGCGATAGTC--AGAATCGCATTGCG-ATTTACATAT
* *
4551315 TCGCAATGCGATAGTCAGAATCGCGTTGCGA
1 TCGCATTGCGATAGTCAGAATCGCATTGCGA
4551346 ATCTGGAAAC
Statistics
Matches: 90, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
40 51 0.57
41 10 0.11
42 8 0.09
43 21 0.23
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (40 bp):
TCGCATTGCGATAGTCAGAATCGCATTGCGATTTACATAT
Found at i:4551304 original size:22 final size:22
Alignment explanation
Indices: 4551279--4551330 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4551269 TATTCGCATT
4551279 GCGATAGTCGAAAAATCGCAAC
1 GCGATAGTCGAAAAATCGCAAC
* * * *
4551301 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCGCAAC
4551322 GCGATAGTC
1 GCGATAGTC
4551331 AGAATCGCGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
GCGATAGTCGAAAAATCGCAAC
Found at i:4551772 original size:10 final size:10
Alignment explanation
Indices: 4551757--4551781 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4551747 TATAAGATAT
4551757 ATATTTTTTC
1 ATATTTTTTC
4551767 ATATTTTTTC
1 ATATTTTTTC
4551777 ATATT
1 ATATT
4551782 ATAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATATTTTTTC
Found at i:4552341 original size:144 final size:144
Alignment explanation
Indices: 4552130--4552436 Score: 483
Period size: 144 Copynumber: 2.1 Consensus size: 144
4552120 AAAAGTTGAG
*
4552130 GGACTAAATTAAAAAATTAAAAAATGTTATAAAAAGAGGAATTGAAAGAACATAGGTATTCTAAG
1 GGACTAAATTGAAAAATTAAAAAATGTTATAAAAAGAGGAATTGAAAGAACATAGGTATTCTAAG
*
4552195 ATGCTTTAGGAGTATGTGGTTTAAATTCGGTAAAAAATAGACTTAAATGAAGGAGGAATTAAAAG
66 ATGCTTTAGGAGTATGTGGTTCAAATTCGGTAAAAAATAGACTTAAATGAAGGAGGAATTAAAAG
*
4552260 AATAA-TAAATCA-
131 AATAAGAAAATCAT
* *
4552272 GAGACTAAATTGAAAAATTGAAAAATGTTATCAAAAAGAGGAATTGAAAGCACATAGGTATTCTA
1 G-GACTAAATTGAAAAATTAAAAAATGTTAT-AAAAAGAGGAATTGAAAGAACATAGGTATTCTA
* * *
4552337 AGATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAAATAGACTTAAATGAAGGAGGAATTGAA
64 AGATGCTTTAGGAGTATGTGGTTCAAATTCGGTAAAAAATAGACTTAAATGAAGGAGGAATTAAA
* *
4552402 ATAATAAGAAAATTAT
129 AGAATAAGAAAATCAT
*
4552418 GGACTAAATTGCAAAATTA
1 GGACTAAATTGAAAAATTA
4552437 TCAAAATAGT
Statistics
Matches: 149, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
142 1 0.01
143 27 0.18
144 99 0.66
145 21 0.14
146 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (144 bp):
GGACTAAATTGAAAAATTAAAAAATGTTATAAAAAGAGGAATTGAAAGAACATAGGTATTCTAAG
ATGCTTTAGGAGTATGTGGTTCAAATTCGGTAAAAAATAGACTTAAATGAAGGAGGAATTAAAAG
AATAAGAAAATCAT
Found at i:4554893 original size:37 final size:36
Alignment explanation
Indices: 4554829--4554906 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
4554819 TAAAACATAA
* * * *
4554829 GATATATGATATGATATAAGTTATTATATGCATATAT
1 GATATATGATAGGACATAAGTGATTATATG-ATAAAT
* *
4554866 GATATATGATAGGACATATGTGGTTATATGATAAAT
1 GATATATGATAGGACATAAGTGATTATATGATAAAT
4554902 GATAT
1 GATAT
4554907 GAGATATAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.40
Consensus pattern (36 bp):
GATATATGATAGGACATAAGTGATTATATGATAAAT
Found at i:4565553 original size:25 final size:25
Alignment explanation
Indices: 4565519--4565580 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
4565509 TTTTAAAAAG
4565519 GTTTTTAAAATATATATAATATATA
1 GTTTTTAAAATATATATAATATATA
* * *
4565544 GTTTTGAAAACATTTATATATTATATA
1 GTTTT-TAAA-ATATATATAATATATA
*
4565571 ATTTTTAAAA
1 GTTTTTAAAA
4565581 AAACTTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 6 0.20
26 6 0.20
27 18 0.60
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (25 bp):
GTTTTTAAAATATATATAATATATA
Found at i:4565590 original size:65 final size:66
Alignment explanation
Indices: 4565491--4565617 Score: 179
Period size: 65 Copynumber: 1.9 Consensus size: 66
4565481 TTTTCAAAAA
* **
4565491 TATATATTATATAATTCTTTTTAAAAAGGTTTTT-AAAATATATATAATATATAGTTTTGAAAAC
1 TATATATTATATAATTCTTTTAAAAAAACTTTTTAAAAATATATAT-AT-TATAGTTTTGAAAAC
4565555 ATT
64 ATT
*
4565558 TATATATTATATAA-T-TTTTAAAAAAACTTTTTAAAAATATATATATTATAGTTTTTAAAA
1 TATATATTATATAATTCTTTTAAAAAAACTTTTTAAAAATATATATATTATAGTTTTGAAAA
4565618 TTAATTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
64 13 0.24
65 16 0.29
66 12 0.22
67 14 0.25
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (66 bp):
TATATATTATATAATTCTTTTAAAAAAACTTTTTAAAAATATATATATTATAGTTTTGAAAACAT
T
Found at i:4565608 original size:64 final size:67
Alignment explanation
Indices: 4565491--4565617 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 67
4565481 TTTTCAAAAA
* **
4565491 TATATATTATATAATTCTTTTTAAAAAGGTTTTTAAAATATATATAATATATAGTTTTGAAAACA
1 TATATATTATATAATTCTTTTAAAAAAACTTTTTAAAATATATATAATATATAGTTTTGAAAACA
4565556 TT
66 TT
*
4565558 TATATATTATATAA-T-TTTTAAAAAAACTTTTTAAAA-ATATAT-ATATTATAGTTTTTAAAA
1 TATATATTATATAATTCTTTTAAAAAAACTTTTTAAAATATATATAATA-TATAGTTTTGAAAA
4565618 TTAATTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
63 3 0.05
64 19 0.35
65 18 0.33
66 1 0.02
67 14 0.25
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (67 bp):
TATATATTATATAATTCTTTTAAAAAAACTTTTTAAAATATATATAATATATAGTTTTGAAAACA
TT
Found at i:4565668 original size:38 final size:38
Alignment explanation
Indices: 4565558--4565833 Score: 321
Period size: 38 Copynumber: 7.6 Consensus size: 38
4565548 TGAAAACATT
* ** *
4565558 TATATATTATATAATTTTTAAAAAAACTTTTTAAAAATA
1 TATATATTATATAATTTTGAAAATTAGTTTTTAAAAA-A
* *
4565597 TATATATTATAGT--TTTT-AAAATTA-ATTTAAAAAAA
1 TATATATTATA-TAATTTTGAAAATTAGTTTTTAAAAAA
*
4565632 AATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
1 TATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
4565670 TATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
1 TATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
4565708 TATATATTATATAATTTTGAAAATTAGTTTTT--AAAA
1 TATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
*
4565744 TATATATCATAT-A-----AAAATTAGTTTTT-AAAAA
1 TATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
* * *
4565775 TATATATTATATAGTTTTGAAAATTA-TTTTTTAAACA
1 TATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
*
4565812 TATATATTATCTAATTTT-AAAA
1 TATATATTATATAATTTTGAAAA
4565834 CGTTTTTTAT
Statistics
Matches: 210, Mismatches: 14, Indels: 29
0.83 0.06 0.11
Matches are distributed among these distances:
30 13 0.06
31 15 0.07
34 1 0.00
35 12 0.06
36 36 0.17
37 39 0.19
38 82 0.39
39 11 0.05
40 1 0.00
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (38 bp):
TATATATTATATAATTTTGAAAATTAGTTTTTAAAAAA
Found at i:4565747 original size:29 final size:31
Alignment explanation
Indices: 4565727--4565787 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
4565717 TATAATTTTG
4565727 AAAATTAGTTTTT-AAAATATAT-ATCATATA
1 AAAATTAGTTTTTAAAAATATATAAT-ATATA
*
4565757 AAAATTAGTTTTTAAAAATATATATTATATA
1 AAAATTAGTTTTTAAAAATATATAATATATA
4565788 GTTTTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 13 0.46
31 14 0.50
32 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (31 bp):
AAAATTAGTTTTTAAAAATATATAATATATA
Found at i:4565748 original size:67 final size:68
Alignment explanation
Indices: 4565689--4565817 Score: 208
Period size: 67 Copynumber: 1.9 Consensus size: 68
4565679 TATAATTTTG
4565689 AAAATTAGTTTTTAAAAAATATATATTATATAATTTTGAAAATTAGTTTTTAAA-ATATAT-ATC
1 AAAATTAGTTTTT-AAAAATATATATTATATAATTTTGAAAATTAGTTTTTAAACATATATAAT-
4565752 ATATA
64 ATATA
* *
4565757 AAAATTAGTTTTTAAAAATATATATTATATAGTTTTGAAAATTATTTTTTAAACATATATA
1 AAAATTAGTTTTTAAAAATATATATTATATAATTTTGAAAATTAGTTTTTAAACATATATA
4565818 TTATCTAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
67 38 0.67
68 19 0.33
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (68 bp):
AAAATTAGTTTTTAAAAATATATATTATATAATTTTGAAAATTAGTTTTTAAACATATATAATAT
ATA
Found at i:4565856 original size:4 final size:4
Alignment explanation
Indices: 4565847--4565884 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
4565837 TTTTTATATC
4565847 TATT TATT TATTT TATT TA-T TA-T TATT TATT TATT TAT
1 TATT TATT TA-TT TATT TATT TATT TATT TATT TATT TAT
4565885 CACTTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.19
4 22 0.69
5 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:4565865 original size:23 final size:23
Alignment explanation
Indices: 4565839--4565882 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
4565829 TAAAACGTTT
4565839 TTTA-TATCTATTTATTTATTTTA
1 TTTATTAT-TATTTATTTATTTTA
4565862 TTTATTATTATTTATTTATTT
1 TTTATTATTATTTATTTATTT
4565883 ATCACTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATTATTATTTATTTATTTTA
Found at i:4565872 original size:10 final size:9
Alignment explanation
Indices: 4565849--4565884 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
4565839 TTTATATCTA
4565849 TTTATTTAT
1 TTTATTTAT
4565858 TTTATTTAT
1 TTTATTTAT
4565867 TATTATTTA-
1 T-TTATTTAT
4565876 TTTATTTAT
1 TTTATTTAT
4565885 CACTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.28
9 11 0.44
10 7 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTAT
Found at i:4565872 original size:19 final size:20
Alignment explanation
Indices: 4565850--4565897 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
4565840 TTATATCTAT
*
4565850 TTATTTATTTTATTTATTA-
1 TTATTTATTTTATTTATCAC
4565869 TTATTTA-TTTATTTATCAC
1 TTATTTATTTTATTTATCAC
4565888 TTATTT-TTTT
1 TTATTTATTTT
4565898 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTTATTTTATTTATCAC
Found at i:4567137 original size:10 final size:10
Alignment explanation
Indices: 4567122--4567154 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4567112 TTTCCACAAG
4567122 TTTTTTCAAT
1 TTTTTTCAAT
*
4567132 TTTTTTCAAC
1 TTTTTTCAAT
4567142 TTTTTT-AAT
1 TTTTTTCAAT
4567151 TTTT
1 TTTT
4567155 ATTCCAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTTCAAT
Done.