Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 220 of 292
Found at i:64551716 original size:13 final size:12
Alignment explanation
Indices: 64551698--64551804 Score: 64
Period size: 13 Copynumber: 8.8 Consensus size: 12
64551688 TTTTTTAAAA
64551698 TTTTAAATATTAT
1 TTTTAAA-ATTAT
64551711 TTTT-AAATTAT
1 TTTTAAAATTAT
*
64551722 TTTTTAAA--A-
1 TTTTAAAATTAT
64551731 TTTTAAATATATAT
1 TTTTAAA-AT-TAT
*
64551745 TTTTGAAATTAT
1 TTTTAAAATTAT
*
64551757 TTCTTATAA--AT
1 TT-TTAAAATTAT
*
64551768 TTTAAAAATATAT
1 TTTTAAAAT-TAT
*
64551781 TTTTGAAATTAAT
1 TTTTAAAATT-AT
64551794 TTTTATAAATT
1 TTTTA-AAATT
64551805 TTAAATAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 23
0.70 0.09 0.22
Matches are distributed among these distances:
9 6 0.08
10 6 0.08
11 13 0.18
12 11 0.15
13 26 0.36
14 11 0.15
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:64551723 original size:23 final size:25
Alignment explanation
Indices: 64551669--64551724 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
64551659 TGTATATTTG
64551669 AAATATTTTATAATATATATTTTTT
1 AAATATTTTATAATATATATTTTTT
64551694 AAA-ATTTTA-AATAT-TA-TTTTT
1 AAATATTTTATAATATATATTTTTT
64551715 AAATTATTTT
1 AAA-TATTTT
64551725 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.28
22 2 0.07
23 10 0.34
24 6 0.21
25 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
AAATATTTTATAATATATATTTTTT
Found at i:64551745 original size:23 final size:23
Alignment explanation
Indices: 64551719--64551853 Score: 61
Period size: 22 Copynumber: 5.8 Consensus size: 23
64551709 ATTTTTAAAT
64551719 TATTTTTTAAAATTTTAAATATA
1 TATTTTTTAAAATTTTAAATATA
* ***
64551742 TA-TTTTTGAAATTATTTCTTATA
1 TATTTTTTAAAATT-TTAAATATA
* **
64551765 AATTTTAAAAATATATTTTTGAAAT-TA
1 TATTTT-TTAA-A-A-TTTT-AAATATA
64551792 -A-TTTTTATAAATTTTAAATA-A
1 TATTTTTTA-AAATTTTAAATATA
*
64551813 TATTTTTT-AAATATT-AA-ATA
1 TATTTTTTAAAATTTTAAATATA
64551833 TATTTTTTAATAATATTTAAA
1 TATTTTTTAA-AAT-TTTAAA
64551854 AATTAAAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 31
0.64 0.12 0.24
Matches are distributed among these distances:
19 1 0.01
20 11 0.14
21 12 0.15
22 18 0.22
23 17 0.21
24 7 0.09
25 5 0.06
26 2 0.02
27 5 0.06
28 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTTTTTAAAATTTTAAATATA
Found at i:64551753 original size:22 final size:20
Alignment explanation
Indices: 64551711--64551754 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
64551701 TAAATATTAT
64551711 TTTTAAATTATTTTTTAAAA
1 TTTTAAATTATTTTTTAAAA
*
64551731 TTTTAAATATATATTTTTGAAA
1 TTTTAAAT-TAT-TTTTTAAAA
64551753 TT
1 TT
64551755 ATTTCTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAAATTATTTTTTAAAA
Found at i:64551773 original size:36 final size:35
Alignment explanation
Indices: 64551686--64551824 Score: 203
Period size: 36 Copynumber: 4.0 Consensus size: 35
64551676 TTATAATATA
64551686 TATTTTTTAAAATTTTAAATAT-TATTTTT-AAAT
1 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
64551719 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
1 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
* *
64551754 TATTTCTTATAAATTTTAAAAATATATTTTTGAAAT
1 TATTTTTTA-AAATTTTAAATATATATTTTTGAAAT
* *
64551790 TAATTTTTATAAATTTTAAATA-ATATTTTTTAAAT
1 TATTTTTTA-AAATTTTAAATATATATTTTTGAAAT
64551825 ATTAAATATA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
33 22 0.23
34 7 0.07
35 24 0.25
36 44 0.45
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (35 bp):
TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
Found at i:64551797 original size:71 final size:68
Alignment explanation
Indices: 64551686--64551824 Score: 199
Period size: 71 Copynumber: 2.0 Consensus size: 68
64551676 TTATAATATA
* * *
64551686 TATTTTTTAAAATTTTAAATATTATTTTTAAATTATTTTTTA-AAATTTTAAATATATATTTTTG
1 TATTTCTTAAAATTTTAAAAATTATTTTTAAATTAATTTTTATAAATTTTAAATA-ATATTTTTG
64551750 AAAT
65 AAAT
64551754 TATTTCTTATAAATTTTAAAAATATATTTTTGAAATTAATTTTTATAAATTTTAAATAATATTTT
1 TATTTCTTA-AAATTTTAAAAAT-TATTTTT-AAATTAATTTTTATAAATTTTAAATAATATTTT
*
64551819 TTAAAT
63 TGAAAT
64551825 ATTAAATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
68 8 0.13
69 12 0.19
70 7 0.11
71 24 0.38
72 12 0.19
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (68 bp):
TATTTCTTAAAATTTTAAAAATTATTTTTAAATTAATTTTTATAAATTTTAAATAATATTTTTGA
AAT
Found at i:64551806 original size:22 final size:21
Alignment explanation
Indices: 64551781--64551859 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
64551771 AAAAATATAT
64551781 TTTTGAAATTAATTTTTATAAA
1 TTTT-AAATTAATTTTTATAAA
*
64551803 TTTTAAA-TAATATTTTTTAAA
1 TTTTAAATTAAT-TTTTATAAA
* *
64551824 TATTAAATATATTTTTTAATAATA
1 TTTTAAAT-TAATTTTT-ATAA-A
*
64551848 TTTAAAAATTAA
1 TTT-TAAATTAA
64551860 AATTTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 17 0.39
22 8 0.18
23 6 0.14
24 5 0.11
25 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (21 bp):
TTTTAAATTAATTTTTATAAA
Found at i:64551837 original size:20 final size:21
Alignment explanation
Indices: 64551792--64551842 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
64551782 TTTGAAATTA
*
64551792 ATTTTTATAAATTTTAAATAAT
1 ATTTTT-TAAATATTAAATAAT
64551814 ATTTTTTAAATATTAAAT-AT
1 ATTTTTTAAATATTAAATAAT
64551834 ATTTTTTAA
1 ATTTTTTAA
64551843 TAATATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 11 0.39
21 11 0.39
22 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTTAAATATTAAATAAT
Found at i:64551886 original size:12 final size:13
Alignment explanation
Indices: 64551834--64551892 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
64551824 TATTAAATAT
* *
64551834 ATTTTTTAATAAT
1 ATTTTTAAATAAA
**
64551847 ATTTAAAAATTAAA
1 ATTTTTAAA-TAAA
64551861 ATTTTTAAATAAA
1 ATTTTTAAATAAA
*
64551874 ATTTTTATAAAAAA
1 ATTTTTA-AATAAA
64551888 ATTTT
1 ATTTT
64551893 ACATATAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 17 0.46
14 20 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTTAAATAAA
Found at i:64551893 original size:13 final size:14
Alignment explanation
Indices: 64551857--64551893 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
64551847 ATTTAAAAAT
64551857 TAAAATTTT-TAAA
1 TAAAATTTTATAAA
64551870 TAAAATTTTTATAAA
1 TAAAA-TTTTATAAA
64551885 -AAAATTTTA
1 TAAAATTTTA
64551894 CATATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAATTTTATAAA
Found at i:64566542 original size:44 final size:45
Alignment explanation
Indices: 64566493--64566601 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
64566483 CATGTTCTAT
* * *
64566493 TGCAACTTCAGAGAGATAAGGA-TGGTGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGGACTGCTAGCTTCAATCTGCTCCAC
* * *
64566537 TGCAACTTCAGGGAGATGA-GATCTGCTATCTTCAGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGGA-CTGCTAGCTTCAATCTGCTCCAC
*
64566582 TACAACTTCAGGGAGATAAG
1 TGCAACTTCAGGGAGATAAG
64566602 ACTTGGTGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.04
44 17 0.31
45 35 0.65
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGGACTGCTAGCTTCAATCTGCTCCAC
Found at i:64566582 original size:45 final size:45
Alignment explanation
Indices: 64566521--64566716 Score: 159
Period size: 45 Copynumber: 4.4 Consensus size: 45
64566511 AGGATGGTGG
* * *
64566521 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATCTGCTAT
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGCTAT
*
64566566 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGA-CTTGGTGA-
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGATC-TGCT-AT
* * * * * * * * * *
64566611 CTTAAATCTGCTTCC-TTGCTACCTCAGGAAGATAATATTTGCCAT
1 CTTCAGTCTGC-TCCACTACAACTTCAGGGAGATAAGATCTGCTAT
* * *
64566656 CTTC-GATCTGCTCCACTACTACTT-AGGGAGATAAGATCTACAAT
1 CTTCAG-TCTGCTCCACTACAACTTCAGGGAGATAAGATCTGCTAT
*
64566700 CTTCAGCCTGCTCCACT
1 CTTCAGTCTGCTCCACT
64566717 CCTGCTTAGG
Statistics
Matches: 117, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
44 34 0.29
45 79 0.68
46 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGATCTGCTAT
Found at i:64566609 original size:90 final size:88
Alignment explanation
Indices: 64566495--64566692 Score: 222
Period size: 90 Copynumber: 2.2 Consensus size: 88
64566485 TGTTCTATTG
* * * * * *
64566495 CAACTTCAGAGAGATAAGGATGGTGGCTTCAATCTGC-TCCACTGCAACTTCAGGGAGATGAGAT
1 CAACTTCAGGGAGATAA-GATGGTGACTTAAATCTGCTTCC-CTGCAACCTCAGGAAGATAAGAT
*
64566559 CTGCTATCTTC-AGTCTGCTCCACTA
64 CTGCCATCTTCGA-TCTGCTCCACTA
* * *
64566584 CAACTTCAGGGAGATAAGACTTGGTGACTTAAATCTGCTTCCTTGCTACCTCAGGAAGATAATAT
1 CAACTTCAGGGAGATAAGA--TGGTGACTTAAATCTGCTTCCCTGCAACCTCAGGAAGATAAGAT
*
64566649 TTGCCATCTTCGATCTGCTCCACTA
64 CTGCCATCTTCGATCTGCTCCACTA
*
64566674 CTACTT-AGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
64566693 CTACAATCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
87 1 0.01
88 2 0.02
89 28 0.30
90 58 0.62
91 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
CAACTTCAGGGAGATAAGATGGTGACTTAAATCTGCTTCCCTGCAACCTCAGGAAGATAAGATCT
GCCATCTTCGATCTGCTCCACTA
Found at i:64582639 original size:38 final size:36
Alignment explanation
Indices: 64582597--64582728 Score: 117
Period size: 39 Copynumber: 3.5 Consensus size: 36
64582587 ATAAAGTATG
64582597 GTTTTAATTAATAATAAATAGAATAGTATGAGGAAGTA
1 GTTTTAATTAATAATAAA-A-AATAGTATGAGGAAGTA
* *
64582635 GTTTTAATTAACAATAAAACAAGATAGTATG-GGAAAATA
1 GTTTTAATTAATAAT-AAA-AA-ATAGTATGAGG-AAGTA
* * *
64582674 GTTTTAATTAAATAA-AACAAAATAGCAT-AGGGAGTG
1 GTTTTAATT-AATAATAA-AAAATAGTATGAGGAAGTA
*
64582710 GTTTTGATTAATAATAAAA
1 GTTTTAATTAATAATAAAA
64582729 CAAAGTAGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
35 7 0.09
36 12 0.15
37 8 0.10
38 21 0.27
39 26 0.33
40 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.17, T:0.32
Consensus pattern (36 bp):
GTTTTAATTAATAATAAAAAATAGTATGAGGAAGTA
Found at i:64582731 original size:38 final size:38
Alignment explanation
Indices: 64582597--64582739 Score: 132
Period size: 38 Copynumber: 3.8 Consensus size: 38
64582587 ATAAAGTATG
* * * *
64582597 GTTTTAATTAATAAT-AAATAGAATAGTATGAGGAAGTA
1 GTTTTAATTAATAATAAAACAAAATAGCAT-AGGGAGTA
* * * *
64582635 GTTTTAATTAACAATAAAACAAGATAGTAT-GGGAAAATA
1 GTTTTAATTAATAATAAAACAAAATAGCATAGGG--AGTA
*
64582674 GTTTTAATT-A-AATAAAACAAAATAGCATAGGGAGTG
1 GTTTTAATTAATAATAAAACAAAATAGCATAGGGAGTA
* *
64582710 GTTTTGATTAATAATAAAACAAAGTAGCAT
1 GTTTTAATTAATAATAAAACAAAATAGCAT
64582740 GGGGGGAGTG
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
36 10 0.11
37 19 0.22
38 35 0.40
39 23 0.26
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (38 bp):
GTTTTAATTAATAATAAAACAAAATAGCATAGGGAGTA
Found at i:64583273 original size:13 final size:13
Alignment explanation
Indices: 64583257--64583315 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
64583247 TACCATGTAA
64583257 ATATTTTAATATT
1 ATATTTTAATATT
* *
64583270 ATATTAT-GTA-T
1 ATATTTTAATATT
*
64583281 ACATTTTATATATAT
1 ATATTTTA-ATAT-T
64583296 ATATTTTAATATT
1 ATATTTTAATATT
*
64583309 GTATTTT
1 ATATTTT
64583316 TATTGTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
11 6 0.17
12 2 0.06
13 15 0.43
14 4 0.11
15 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (13 bp):
ATATTTTAATATT
Found at i:64583278 original size:24 final size:26
Alignment explanation
Indices: 64583251--64583300 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
64583241 TGTATATACC
*
64583251 ATGTAAATATTTTA-ATAT-TATATT
1 ATGTAAACATTTTATATATATATATT
*
64583275 ATGTATACATTTTATATATATATATT
1 ATGTAAACATTTTATATATATATATT
64583301 TTAATATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 4 0.18
26 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
ATGTAAACATTTTATATATATATATT
Found at i:64594114 original size:28 final size:27
Alignment explanation
Indices: 64594056--64594121 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
64594046 GGGAATGAAC
*
64594056 TATATACAT-AATAGATTTAAAAAAAA
1 TATATATATAAATAGATTTAAAAAAAA
* * *
64594082 CATATATATAAATAGATTTAGAATAAAT
1 TATATATATAAATAGATTTA-AAAAAAA
*
64594110 TATATGTATAAA
1 TATATATATAAA
64594122 ATAACATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.22
27 10 0.31
28 15 0.47
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (27 bp):
TATATATATAAATAGATTTAAAAAAAA
Found at i:64604278 original size:3 final size:3
Alignment explanation
Indices: 64604270--64604300 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
64604260 TTGCTACATA
64604270 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
64604301 GAACATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:64604507 original size:14 final size:14
Alignment explanation
Indices: 64604490--64604516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
64604480 TTTTATTTAT
64604490 TATTATTATTATTA
1 TATTATTATTATTA
64604504 TATTATTATTATT
1 TATTATTATTATT
64604517 GCTATCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:64604507 original size:17 final size:16
Alignment explanation
Indices: 64604482--64604516 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
64604472 TTATTTTCTT
64604482 TTATTTATTATTATTA
1 TTATTTATTATTATTA
64604498 TTATTATATTATTATTA
1 TTATT-TATTATTATTA
64604515 TT
1 TT
64604517 GCTATCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:64604534 original size:3 final size:3
Alignment explanation
Indices: 64604486--64604516 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
64604476 TTTCTTTTAT
64604486 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
64604517 GCTATCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64613731 original size:13 final size:12
Alignment explanation
Indices: 64613713--64613755 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
64613703 TTCTTTAATG
64613713 TTTATAGTAATAT
1 TTTATAGTAA-AT
64613726 TTTATAGTAAAT
1 TTTATAGTAAAT
*
64613738 TTTAGTAATAAAAT
1 TTTA-TAGT-AAAT
64613752 TTTA
1 TTTA
64613756 GAGATGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 6 0.22
13 13 0.48
14 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
TTTATAGTAAAT
Found at i:64613753 original size:14 final size:14
Alignment explanation
Indices: 64613734--64613784 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
64613724 ATTTTATAGT
64613734 AAATTTTAGTAATA
1 AAATTTTAGTAATA
64613748 AAATTTTAG-AGAT-
1 AAATTTTAGTA-ATA
**
64613761 GGATTTTAGTAATA
1 AAATTTTAGTAATA
*
64613775 CAATTTTAGT
1 AAATTTTAGT
64613785 TTATTTGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (14 bp):
AAATTTTAGTAATA
Found at i:64614201 original size:21 final size:22
Alignment explanation
Indices: 64614160--64614202 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
64614150 TAAATTGATT
* *
64614160 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAACATAAC
64614182 CATTAAAAAT-TAAAACATAAC
1 CATTAAAAATGTAAAACATAAC
64614203 TAAAAAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (22 bp):
CATTAAAAATGTAAAACATAAC
Found at i:64616248 original size:3 final size:3
Alignment explanation
Indices: 64616240--64616282 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
64616230 AATTTAAAGG
64616240 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
64616283 AAGGGATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64616297 original size:14 final size:15
Alignment explanation
Indices: 64616273--64616312 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
64616263 AATAATAATA
*
64616273 ATAATAATAAAAGGG
1 ATAATAATAAAAGGC
*
64616288 ATAA-AATAAAATGC
1 ATAATAATAAAAGGC
64616302 ATAATAATAAA
1 ATAATAATAAA
64616313 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (15 bp):
ATAATAATAAAAGGC
Found at i:64617791 original size:13 final size:12
Alignment explanation
Indices: 64617764--64617807 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
64617754 CTTTGAACTC
*
64617764 TTTA-TTTGATT
1 TTTATTTTGTTT
64617775 TTTATTTTGTTT
1 TTTATTTTGTTT
64617787 ATTTATTTTTGTTT
1 -TTTA-TTTTGTTT
64617801 TTTATTT
1 TTTATTT
64617808 GGGCTGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 8 0.28
14 8 0.28
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTATTTTGTTT
Found at i:64617802 original size:20 final size:20
Alignment explanation
Indices: 64617764--64617801 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
64617754 CTTTGAACTC
64617764 TTTATTTGATTTTTATTTTG
1 TTTATTTGATTTTTATTTTG
*
64617784 TTTATTT-ATTTTTGTTTT
1 TTTATTTGATTTTTATTTT
64617802 TTATTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTATTTGATTTTTATTTTG
Found at i:64620281 original size:2 final size:2
Alignment explanation
Indices: 64620269--64620300 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
64620259 AATTTCTTAC
64620269 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64620301 TTTATTCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:64620399 original size:20 final size:20
Alignment explanation
Indices: 64620349--64620420 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
64620339 ATATTCTTGC
* *
64620349 ATTATGTATATTATTCTTTTT
1 ATTATGTATATT-TTCTATAT
*
64620370 AAATAT-TATATTTTCTATAT
1 -ATTATGTATATTTTCTATAT
*
64620390 ATTATGTATACATTT-TATAT
1 ATTATGTATA-TTTTCTATAT
*
64620410 ATTACGTATAT
1 ATTATGTATAT
64620421 ATCTTTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
19 4 0.10
20 24 0.59
21 9 0.22
22 4 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTATGTATATTTTCTATAT
Found at i:64621053 original size:21 final size:22
Alignment explanation
Indices: 64621029--64621084 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
64621019 TCTCATATAT
*
64621029 TATTATATTATTTATTAT-ACC
1 TATTATTTTATTTATTATCACC
*
64621050 TATTATTTTCA-TTATTATCACT
1 TATTATTTT-ATTTATTATCACC
64621072 TATTATTTTATTT
1 TATTATTTTATTT
64621085 TAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTATTTATTATCACC
Found at i:64621078 original size:22 final size:21
Alignment explanation
Indices: 64621040--64621080 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
64621030 ATTATATTAT
64621040 TTATTATACCTATTATTTTCA
1 TTATTATACCTATTATTTTCA
*
64621061 TTATTATCACTTATTATTTT
1 TTATTAT-ACCTATTATTTT
64621081 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATACCTATTATTTTCA
Found at i:64621092 original size:38 final size:37
Alignment explanation
Indices: 64620999--64621094 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 37
64620989 CTTGTATACA
* *
64620999 TATTTTATATATAGTATTATTCTCATATATTATTATAT
1 TATTTTAT-TATAATATTATTCTCATATATTATCATAT
* *
64621037 TA-TTTATTATACCTATTATTTTCAT-TATTATCACTTAT
1 TATTTTATTATA-ATATTATTCTCATATATTATCA--TAT
*
64621075 TATTTTATTTTAATATTATT
1 TATTTTATTATAATATTATT
64621095 ATGTATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 11 0.22
37 16 0.33
38 14 0.29
39 8 0.16
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (37 bp):
TATTTTATTATAATATTATTCTCATATATTATCATAT
Found at i:64625098 original size:9 final size:9
Alignment explanation
Indices: 64625084--64625117 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
64625074 CCAAATTCAA
64625084 TGAAAGGAT
1 TGAAAGGAT
64625093 TGAAAGGAT
1 TGAAAGGAT
*
64625102 AGAAAGGAT
1 TGAAAGGAT
*
64625111 TCAAAGG
1 TGAAAGG
64625118 GAATTACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.32, T:0.18
Consensus pattern (9 bp):
TGAAAGGAT
Found at i:64633736 original size:87 final size:86
Alignment explanation
Indices: 64633596--64634188 Score: 509
Period size: 87 Copynumber: 6.8 Consensus size: 86
64633586 TTGTTGTTCA
* * * * *
64633596 AATTA-TGTTTTTAATTTCTACTTTTCCAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTC
1 AATTATTGTTTCTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
64633660 AGGACACGCTGAGGTAATTTC
66 AGGACACGCTGAGGTATTTTC
* *
64633681 AATTATTGTCTCTAATTTCGA-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
1 AATTATTGTTTCTAATTT--ATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
64633745 TCAGGATACGCTGAGGTATTTTC
64 TCAGGACACGCTGAGGTATTTTC
* *
64633768 AATTTTTGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AATTATTGTTTCT-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
64633833 C-GGCTCGCATGCTGAGGTATTTTC
65 CAGG---ACACGCTGAGGTATTTTC
* * * * *
64633857 AGTTTCTATT-TTTCAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 A--AT-TATTGTTTCTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64633921 CTCAGGACACGCTGAGGTATTTTC
63 CTCAGGACACGCTGAGGTATTTTC
*
64633945 AATT-TCTGGTTTTTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 AATTAT-T-G----TTTCTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
64634009 AGCCTCGGGTCACATG-TCGAGGTATTTTC
60 AGCCTCAGG--ACACGCT-GAGGTATTTTC
* * * * *
64634038 AA--AAT-TTACT--CTTA-A-GTTTCAAAAAAACTAACTCATATTGCGAGAGGTGAGTTGAGCC
1 AATTATTGTTTCTAATTTATATTTTTC-AAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCC
* * * *
64634096 T-TGGCTCACGTGTTGAGCTATTTTC
64 TCAGG-ACAC--GCTGAGGTATTTTC
* * * * * **
64634121 AATT-TCTGTTTTTAATGTCTATTTTT-AAAGATTCAATTCATATTGCGAGAAATGAGTTGAG-C
1 AATTAT-TGTTTCTAATTTATATTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCC
64634183 TCAGGA
64 TCAGGA
64634189 TCACATGCCG
Statistics
Matches: 413, Mismatches: 57, Indels: 74
0.76 0.10 0.14
Matches are distributed among these distances:
81 7 0.02
82 9 0.02
83 46 0.11
84 2 0.00
85 11 0.03
86 17 0.04
87 116 0.28
88 52 0.13
89 19 0.05
90 52 0.13
91 61 0.15
92 4 0.01
93 17 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (86 bp):
AATTATTGTTTCTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGGTATTTTC
Found at i:64633782 original size:14 final size:14
Alignment explanation
Indices: 64633763--64633797 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
64633753 CGCTGAGGTA
* *
64633763 TTTTCAATTTTTGT
1 TTTTCAATTTATAT
64633777 TTTTCAATTTATAT
1 TTTTCAATTTATAT
64633791 TTTTCAA
1 TTTTCAA
64633798 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:64635514 original size:19 final size:18
Alignment explanation
Indices: 64635490--64635526 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
64635480 TCTCCTTTCC
64635490 CCTCTCCCTCCTCTCTCTT
1 CCTCTCCCTCCT-TCTCTT
*
64635509 CCTCTCCCTTCTTCTCTT
1 CCTCTCCCTCCTTCTCTT
64635527 TTTTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (18 bp):
CCTCTCCCTCCTTCTCTT
Found at i:64635999 original size:22 final size:22
Alignment explanation
Indices: 64635972--64636017 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
64635962 TTTTGTTTCT
64635972 TTATTAAATATTGTTATTATTA
1 TTATTAAATATTGTTATTATTA
64635994 TTATTAAATATTGTTATTATTA
1 TTATTAAATATTGTTATTATTA
64636016 TT
1 TT
64636018 CTAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTATTAAATATTGTTATTATTA
Found at i:64637131 original size:21 final size:22
Alignment explanation
Indices: 64637107--64637162 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
64637097 TCTCATATAT
*
64637107 TATTATATTATTTATTAT-ACC
1 TATTATTTTATTTATTATCACC
*
64637128 TATTATTTTCA-TTATTATCACT
1 TATTATTTT-ATTTATTATCACC
64637150 TATTATTTTATTT
1 TATTATTTTATTT
64637163 TAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTATTTATTATCACC
Found at i:64637156 original size:22 final size:21
Alignment explanation
Indices: 64637118--64637158 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
64637108 ATTATATTAT
64637118 TTATTATACCTATTATTTTCA
1 TTATTATACCTATTATTTTCA
*
64637139 TTATTATCACTTATTATTTT
1 TTATTAT-ACCTATTATTTT
64637159 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATACCTATTATTTTCA
Found at i:64637170 original size:38 final size:37
Alignment explanation
Indices: 64637077--64637172 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 37
64637067 CTTGTATACA
* *
64637077 TATTTTATATATAGTATTATTCTCATATATTATTATAT
1 TATTTTAT-TATAATATTATTCTCATATATTATCATAT
* *
64637115 TA-TTTATTATACCTATTATTTTCAT-TATTATCACTTAT
1 TATTTTATTATA-ATATTATTCTCATATATTATCA--TAT
*
64637153 TATTTTATTTTAATATTATT
1 TATTTTATTATAATATTATT
64637173 ATGTATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 11 0.22
37 16 0.33
38 14 0.29
39 8 0.16
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (37 bp):
TATTTTATTATAATATTATTCTCATATATTATCATAT
Found at i:64640131 original size:17 final size:17
Alignment explanation
Indices: 64640098--64640131 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64640088 AAACTAACAT
* *
64640098 TTTTCTCTCTTATTTTC
1 TTTTCTCTCATAATTTC
64640115 TTTTCTCTCATAATTTC
1 TTTTCTCTCATAATTTC
64640132 AATTTGGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTCTCTCATAATTTC
Found at i:64645483 original size:3 final size:3
Alignment explanation
Indices: 64645475--64645527 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
64645465 CCCATTTTCC
64645475 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64645523 TTA TT
1 TTA TT
64645528 CCTTTATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64646548 original size:3 final size:3
Alignment explanation
Indices: 64646534--64646580 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
64646524 TTTCCTACAC
64646534 ATA ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64646580 A
1 A
64646581 ATAGTAGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:64648264 original size:1 final size:1
Alignment explanation
Indices: 64648260--64648288 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
64648250 AAATAATTCC
64648260 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
64648289 ACTTTCATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:64650448 original size:24 final size:24
Alignment explanation
Indices: 64650421--64650468 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
64650411 CGTTTTGTCC
* *
64650421 TATTTTTTTAAGGTTAGGATTTTT
1 TATTATTTTAAGGTTAGAATTTTT
*
64650445 TATTATTTTAGGGTTAGAATTTTT
1 TATTATTTTAAGGTTAGAATTTTT
64650469 AAGATTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (24 bp):
TATTATTTTAAGGTTAGAATTTTT
Found at i:64650475 original size:23 final size:24
Alignment explanation
Indices: 64650426--64650481 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
64650416 TGTCCTATTT
* * **
64650426 TTTTAAGGTTAGGATTTTTTATTA
1 TTTTAGGGTTAGGAATTTTTAAGA
64650450 TTTTAGGGTTA-GAATTTTTAAGA
1 TTTTAGGGTTAGGAATTTTTAAGA
64650473 -TTTAGGGTT
1 TTTTAGGGTT
64650482 TTAGTGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 9 0.32
24 10 0.36
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (24 bp):
TTTTAGGGTTAGGAATTTTTAAGA
Found at i:64650596 original size:16 final size:17
Alignment explanation
Indices: 64650568--64650601 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
64650558 ATTAATTAAA
64650568 TTAGGGTTTAGGGTTTT
1 TTAGGGTTTAGGGTTTT
64650585 TTAGGG-TTAGGGTTTT
1 TTAGGGTTTAGGGTTTT
64650601 T
1 T
64650602 GATTGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (17 bp):
TTAGGGTTTAGGGTTTT
Found at i:64650601 original size:157 final size:156
Alignment explanation
Indices: 64650424--64651223 Score: 1049
Period size: 156 Copynumber: 5.1 Consensus size: 156
64650414 TTTGTCCTAT
* * * * *
64650424 TTTTTTAAGGTTAGGATTTTTTATTATTTTAGGGTTAGAATTTTTAAGATTTAGGGTTTTAGTGT
1 TTTTTTAAGGTTAGGGTTTTTTATTGTTTTAGGATTAG-AGTTTTAAGGTTTAGGGTTTTAGTGT
* * * * *
64650489 TTTTTAAGAGAAAATTAATTTAATAAGAGTTAATGGTCAATTAATTAAATTAACTATGAAATTAA
65 TTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAA
* *
64650554 AAAAATTAATTAAATTAGGGTTTAGGG
130 AAAAATCAATTAAATTAGGGTTTAGGA
* * * *
64650581 TTTTTTAGGGTTAGGGTTTTTGATTGTTTTATGATTAGAGTTTTAGTGGTTTAGGGTTTTAGTG-
1 TTTTTTAAGGTTAGGGTTTTTTATTGTTTTAGGATTAGAGTTTTA-AGGTTTAGGGTTTTAGTGT
*
64650645 TTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAG
65 TTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAA
*
64650710 AAAAATCAATTTAATTAGGGTTTAGGA
130 AAAAATCAATTAAATTAGGGTTTAGGA
* * *
64650737 TTTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGA-TCGAGGTTTTAGTGGTTTAGGGTTTTAGTG
1 TTTTTTAAGGTTAGGGTTTTTTATTGTTTTAGGATTAGA-GTTTTA-AGGTTTAGGGTTTTAGTG
* *
64650801 CTTTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAA
64 -TTTTTTAAGG-GAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTAT-GAAA
* *
64650865 TAAAAAAAAAATCAATTAAATTAGAGTTTAGGA
126 T--TAAAAAAATCAATTAAATTAGGGTTTAGGA
** * * * * *
64650898 TTTTTTTAAGGTTACAGTTTTTTATTGTTTTAAGATCAG-G-GTT-AGGTTTAGGATTTTAGTTT
1 -TTTTTTAAGGTTAGGGTTTTTTATTGTTTTAGGATTAGAGTTTTAAGGTTTAGGGTTTTAGTGT
64650960 TTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGATAA-T
65 TTTTTAAGGG-AAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGA-AATT
*
64651024 -AAAAAATCAATTAAATTAGGGTTTAGAA
128 AAAAAAATCAATTAAATTAGGGTTTAGGA
* * *
64651052 TTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATTAGGGTTTTAATGGTTTAGGGTTTTAGTAT
1 TTTTTTAAGGTTAGGGTTTTTTATTGTTTTAGGATTAGAGTTTTAA-GGTTTAGGGTTTTAGTGT
**
64651117 TTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAAAGTTAATTAATTAAATTAACTATGAAATTA
65 TTTTTAAGGG-AAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTA
*
64651182 AAAATAATCAATTAAATTAGGGTTTAGGGT
129 AAAA-AATCAATTAAATTAGGGTTTA-GGA
64651212 TTTTTTAAGGTT
1 TTTTTTAAGGTT
64651224 TATTAATTAA
Statistics
Matches: 566, Mismatches: 56, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
153 33 0.06
154 27 0.05
155 5 0.01
156 147 0.26
157 133 0.23
158 123 0.22
159 25 0.04
160 15 0.03
161 27 0.05
162 30 0.05
163 1 0.00
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.45
Consensus pattern (156 bp):
TTTTTTAAGGTTAGGGTTTTTTATTGTTTTAGGATTAGAGTTTTAAGGTTTAGGGTTTTAGTGTT
TTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAAA
AAAATCAATTAAATTAGGGTTTAGGA
Found at i:64650946 original size:158 final size:156
Alignment explanation
Indices: 64650422--64651223 Score: 972
Period size: 157 Copynumber: 5.1 Consensus size: 156
64650412 GTTTTGTCCT
* * * * * * * * *
64650422 ATTTTTTTAAGGTTAGGATTTTTTATTATTTTAGGGTTAGAATTTTTAAGATTTAGGGTTTTAGT
1 ATTTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATCAG--GTGTTATGGTTTAGGGTTTTAGT
* * * * * * *
64650487 GTTTTTTAAGAGAAAATTAATTTAATAAGAGTTAATGGTCAATTAATTAAATTAACTATGAAATT
64 GTTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATA
*
64650552 AAAAAAATTAATTAAATTAGGGTTTAGG
129 AAAAAAATCAATTAAATTAGGGTTTAGG
* * * * *
64650580 -GTTTTTTAGGGTTAGGGTTTTTGATTGTTTTATGATTAGAGTTTTAGTGGTTTAGGGTTTTAGT
1 ATTTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATCAG-GTGTTA-TGGTTTAGGGTTTTAGT
* * *
64650644 GTTTTTAAGG-GAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATT
64 GTTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATA
* *
64650708 AGAAAAATCAATTTAATTAGGGTTTAGG
129 AAAAAAATCAATTAAATTAGGGTTTAGG
* * *
64650736 A-TTTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGT
1 ATTTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATC-AGGTGTTA-TGGTTTAGGGTTTTAGT
*
64650800 GCTTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAA
64 G-TTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTAT-GAAA
*
64650865 TAAAAAAAAAATCAATTAAATTAGAGTTTAGG
127 T--AAAAAAAATCAATTAAATTAGGGTTTAGG
** * * * *
64650897 ATTTTTTTAAGGTTACAGTTTTTTATTGTTTTAAGATCAGG-GTTA-GGTTTAGGATTTTAGTTT
1 ATTTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATCAGGTGTTATGGTTTAGGGTTTTAGTGT
*
64650960 TTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATG--ATAA
66 TTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATAA
64651023 TAAAAAATCAATTAAATTAGGGTTTA-G
130 -AAAAAATCAATTAAATTAGGGTTTAGG
* * *
64651050 AATTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATTAGGGTTTTAATGGTTTAGGGTTTTAGT
1 ATTTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATCA-GGTGTT-ATGGTTTAGGGTTTTAGT
* * **
64651115 ATTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAAAGTTAATTAATTAAATTAACTATGAAAT
64 GTTTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAA-
*
64651180 TAAAAATAATCAATTAAATTAGGGTTTAGG
127 TAAAAAAAATCAATTAAATTAGGGTTTAGG
*
64651210 GTTTTTTTAAGGTT
1 ATTTTTTTAAGGTT
64651224 TATTAATTAA
Statistics
Matches: 570, Mismatches: 55, Indels: 36
0.86 0.08 0.05
Matches are distributed among these distances:
153 36 0.06
154 26 0.05
155 4 0.01
156 138 0.24
157 144 0.25
158 113 0.20
159 29 0.05
160 19 0.03
161 29 0.05
162 32 0.06
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.45
Consensus pattern (156 bp):
ATTTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATCAGGTGTTATGGTTTAGGGTTTTAGTGT
TTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATAAA
AAAAATCAATTAAATTAGGGTTTAGG
Found at i:64651080 original size:315 final size:310
Alignment explanation
Indices: 64650424--64651223 Score: 1072
Period size: 315 Copynumber: 2.5 Consensus size: 310
64650414 TTTGTCCTAT
* * ** * *
64650424 TTTTTTAAGGTTAGGATTTTTTATTATTTTAGGGTTAGAATTTTTAAGATTTAGGGTTTTAGTGT
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTA-GGAT-GAGGTTTTATGGTTTAGGGTTTTAGTGT
* * * * *
64650489 TTTTTAAGAGAAAATTAATTTAATAAGAGTT-AATGGTCAATTAATTAAATTAACTATGAAATTA
64 TTTTTAGGAAAAAATTAATTTAATTAGAGTTGAA-GGTTAATTAATTAAATTAACTATGAAATAA
* * * ** * *
64650553 AAAAAATTAATTAAATTAGGGTTTAGGGTTTTTTAGGGTTAGGGTTTTTGATTGTTTTATGATTA
128 AAAAAATCAATTAAATTAGGGTTTAGGTTTTTTTAAGGTTACAGTTTTTGATTGTTTTAAGATCA
* *
64650618 GAGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTT
193 GAGTGTTAG-GGTTTAGGATTTTAGTGTTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTT
* *
64650683 AATTAATTAAATTAACTATGAAATTAGAAAAATCAATTTAATTAGGGTTTAGGA
257 AATTAATTAAATTAACTATGAAATTAGAAAAATCAATTAAATTAGGGTTTAGAA
*
64650737 TTTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGATCGAGGTTTTAGTGGTTTAGGGTTTTAGTGC
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAGGAT-GAGGTTTTA-TGGTTTAGGGTTTTAGTG-
* *
64650802 TTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAATA
63 TTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAAGGTTAATTAATTAAATTAACTAT-GAAAT-
* *
64650867 AAAAAAAAATCAATTAAATTAGAGTTTAGGATTTTTTTAAGGTTACAGTTTTTTATTGTTTTAAG
126 -AAAAAAAATCAATTAAATTAGGGTTTAGG-TTTTTTTAAGGTTACAGTTTTTGATTGTTTTAAG
*
64650932 ATCAG-G-GTTA-GGTTTAGGATTTTAGTTTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGA
189 ATCAGAGTGTTAGGGTTTAGGATTTTAG-TGTTTTTAAGGG-AAAATTAATTTAATTAGAGTTGA
64650994 GGGTTAATTAATTAAATTAACTATGATAA-TA-AAAAATCAATTAAATTAGGGTTTAGAA
252 GGGTTAATTAATTAAATTAACTATGA-AATTAGAAAAATCAATTAAATTAGGGTTTAGAA
* * * *
64651052 TTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATTAGGGTTTTAATGGTTTAGGGTTTTAGTAT
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAGGATGA-GGTTTT-ATGGTTTAGGGTTTTAGTGT
* *
64651117 TTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAAAGTTAATTAATTAAATTAACTATGAAATTA
64 TTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAAGGTTAATTAATTAAATTAACTATGAAA-TA
*
64651182 AAAATAATCAATTAAATTAGGGTTTAGGGTTTTTTTAAGGTT
127 AAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTTAAGGTT
64651224 TATTAATTAA
Statistics
Matches: 433, Mismatches: 39, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
312 10 0.02
313 83 0.19
314 77 0.18
315 147 0.34
316 55 0.13
317 29 0.07
318 32 0.07
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.45
Consensus pattern (310 bp):
TTTTTTAAGGTTAGGATTTTTTATTGTTTTAGGATGAGGTTTTATGGTTTAGGGTTTTAGTGTTT
TTTAGGAAAAAATTAATTTAATTAGAGTTGAAGGTTAATTAATTAAATTAACTATGAAATAAAAA
AAATCAATTAAATTAGGGTTTAGGTTTTTTTAAGGTTACAGTTTTTGATTGTTTTAAGATCAGAG
TGTTAGGGTTTAGGATTTTAGTGTTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATT
AATTAAATTAACTATGAAATTAGAAAAATCAATTAAATTAGGGTTTAGAA
Found at i:64651089 original size:24 final size:25
Alignment explanation
Indices: 64651038--64651096 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
64651028 AATCAATTAA
64651038 ATTAGGG-TTTAGAATTTTTTAAGG
1 ATTAGGGTTTTAGAATTTTTTAAGG
*
64651062 -TTAGGGTTTTTG-ATTGTTTT-AGG
1 ATTAGGGTTTTAGAATT-TTTTAAGG
64651085 ATTAGGGTTTTA
1 ATTAGGGTTTTA
64651097 ATGGTTTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (25 bp):
ATTAGGGTTTTAGAATTTTTTAAGG
Found at i:64651103 original size:23 final size:24
Alignment explanation
Indices: 64651054--64651103 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
64651044 GTTTAGAATT
* *
64651054 TTTTAAGGTTAGGGTTTTTGATTG
1 TTTTAAGGTTAGGGTTTTTAATGG
64651078 TTTT-AGGATTAGGG-TTTTAATGG
1 TTTTAAGG-TTAGGGTTTTTAATGG
64651101 TTT
1 TTT
64651104 AGGGTTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (24 bp):
TTTTAAGGTTAGGGTTTTTAATGG
Found at i:64651177 original size:26 final size:25
Alignment explanation
Indices: 64651130--64651182 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
64651120 TTAAGGGAAA
* *
64651130 AATTAATTTAATTAGAGTTGAAAGTT
1 AATTAATTAAATTAGACTTGAAA-TT
64651156 AATTAATTAAATTA-ACTATGAAATT
1 AATTAATTAAATTAGACT-TGAAATT
64651181 AA
1 AA
64651183 AAATAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (25 bp):
AATTAATTAAATTAGACTTGAAATT
Found at i:64651469 original size:126 final size:126
Alignment explanation
Indices: 64651244--64651678 Score: 665
Period size: 126 Copynumber: 3.5 Consensus size: 126
64651234 ATTAACTATT
* * * *
64651244 AATTACGGAAAAAAGCTCTCACGTGGACGCTCTTTTGCTATAGTAGTATCTGAAAAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * *
64651309 GAGAAGATGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTTAGGAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * * *
64651370 AATTACGGAAAAAAGTTCTCACGTGGACGCTCTTTTGCTACAGTAATATCAGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* *
64651435 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAATGATCCACTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* *
64651496 AATTACGGGAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * *
64651561 GAGAAGGTGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCATTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * * *
64651622 AATTATGGAAAAGAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTATTTGA-AAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAA
64651679 GCCTTAGACT
Statistics
Matches: 281, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
125 4 0.01
126 277 0.99
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
Found at i:64655951 original size:7 final size:7
Alignment explanation
Indices: 64655936--64655968 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
64655926 TTATATAGGT
64655936 AATACTA
1 AATACTA
*
64655943 AATAATA
1 AATACTA
64655950 AATACTA
1 AATACTA
64655957 AATACTA
1 AATACTA
64655964 AATAC
1 AATAC
64655969 GAAACGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:64657141 original size:22 final size:21
Alignment explanation
Indices: 64657109--64657155 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
64657099 ACACAGCTTT
64657109 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
64657129 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
64657151 TTTGA
1 TTTGA
64657156 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:64662946 original size:128 final size:127
Alignment explanation
Indices: 64662702--64663011 Score: 368
Period size: 128 Copynumber: 2.4 Consensus size: 127
64662692 CGAAACTCAG
* * * * ** *
64662702 CACGGTAGGGCACGATTCCTCGAACTTCCTAACATTGAACATTGCCTTGTTTTAGAATTTAAAGA
1 CACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTGTTTTAGAATTTAAAAA
* * * * * *
64662767 ATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAATAAACGAGAAATTAAAACCCAA
66 ACACGAATGAAATTCTAAAGGAAGATTCGATTATTTGGAACAAACGAGAAATCAAAACCCAA
* * * *
64662829 CACGATAGGGCACGGTTCCCCGAATTTTCAAGCATCAAATATTGCCTTGTTTTAGAATTTAGAAA
1 CACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTGTTTTAGAATTTA-AAA
* * * * *
64662894 AACACGAGTGAAATTCTAAAGGAAGGTTCGATTATTTGGAACAAACGGGAAATCGAAACCCAG
65 AACACGAATGAAATTCTAAAGGAAGATTCGATTATTTGGAACAAACGAGAAATCAAAACCCAA
****
64662957 CACGATAGGGCACGATTTTTTGAATTTCCAAACATCAAACATTGCCTTCGTTTTA
1 CACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTT-GTTTTA
64663012 AGGTTTAAAC
Statistics
Matches: 151, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
127 51 0.34
128 94 0.62
129 6 0.04
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (127 bp):
CACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTGTTTTAGAATTTAAAAA
ACACGAATGAAATTCTAAAGGAAGATTCGATTATTTGGAACAAACGAGAAATCAAAACCCAA
Found at i:64663309 original size:12 final size:12
Alignment explanation
Indices: 64663294--64663318 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64663284 CAATATAATA
64663294 GTAATACAAGAT
1 GTAATACAAGAT
64663306 GTAATACAAGAT
1 GTAATACAAGAT
64663318 G
1 G
64663319 AAAATAATAT
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:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (12 bp):
GTAATACAAGAT
Found at i:64663689 original size:2 final size:2
Alignment explanation
Indices: 64663682--64663708 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
64663672 TTCACAAAAC
64663682 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
64663709 AATAGATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64664159 original size:28 final size:29
Alignment explanation
Indices: 64664106--64664167 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
64664096 CACTTATATG
* * *
64664106 TATATATATATATAATAGATTTAAAAACA
1 TATATATACATATAATAAATTTAAAAAAA
64664135 TATATATACATA-AATAAATTTAAAAAAA
1 TATATATACATATAATAAATTTAAAAAAA
64664163 TATAT
1 TATAT
64664168 GCGAGAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (29 bp):
TATATATACATATAATAAATTTAAAAAAA
Found at i:64668008 original size:28 final size:27
Alignment explanation
Indices: 64667956--64668008 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
64667946 CTATTCAGAA
* *
64667956 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
64667983 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
64668009 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:64668093 original size:60 final size:59
Alignment explanation
Indices: 64667970--64668104 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
64667960 GTGTTAACTA
* *
64667970 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
64668031 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
64668091 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
64668105 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:64668122 original size:20 final size:20
Alignment explanation
Indices: 64668097--64668142 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
64668087 ATTGGGCCTT
64668097 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
64668117 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
64668136 GCCCATA
1 GCCCATA
64668143 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:64673483 original size:28 final size:27
Alignment explanation
Indices: 64673431--64673483 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
64673421 CTATTCAGAA
* *
64673431 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
64673458 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
64673484 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:64673568 original size:60 final size:59
Alignment explanation
Indices: 64673445--64673579 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
64673435 GTGTTAACTA
* *
64673445 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
64673506 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
64673566 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
64673580 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:64673597 original size:20 final size:20
Alignment explanation
Indices: 64673572--64673617 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
64673562 ATTGGGCCTT
64673572 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
64673592 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
64673611 GCCCATA
1 GCCCATA
64673618 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:64676528 original size:18 final size:19
Alignment explanation
Indices: 64676507--64676542 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64676497 TTAAATAGTA
64676507 TTAAAA-ATAATTTTATAT
1 TTAAAAGATAATTTTATAT
*
64676525 TTAAAAGATATTTTTATA
1 TTAAAAGATAATTTTATA
64676543 AGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAAAAGATAATTTTATAT
Found at i:64678064 original size:28 final size:29
Alignment explanation
Indices: 64678032--64678094 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 29
64678022 AAAAACAAAC
*
64678032 TTAAAAACCTGGG-TTTTGAAATCTATTT
1 TTAAAAACCTGGGTTTTTGAAACCTATTT
64678060 TT-AAAACCTGGGTTTTTGAAACCTATTT
1 TTAAAAACCTGGGTTTTTGAAACCTATTT
64678088 TTAAAAA
1 TTAAAAA
64678095 TCAACTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 10 0.31
28 18 0.56
29 4 0.12
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (29 bp):
TTAAAAACCTGGGTTTTTGAAACCTATTT
Found at i:64679238 original size:41 final size:41
Alignment explanation
Indices: 64679193--64679283 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
64679183 ACGGTCATAT
64679193 CACACGCCTGTAGGTTTACCGTGTGTCATACACGGCCTAGA
1 CACACGCCTGTAGGTTTACCGTGTGTCATACACGGCCTAGA
*
64679234 CACACGTCTGTAGGTTTACCGTGTGTCATACACGGCCTAGA
1 CACACGCCTGTAGGTTTACCGTGTGTCATACACGGCCTAGA
64679275 CACACGCCT
1 CACACGCCT
64679284 ATGTGTCTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (41 bp):
CACACGCCTGTAGGTTTACCGTGTGTCATACACGGCCTAGA
Found at i:64680003 original size:46 final size:50
Alignment explanation
Indices: 64679943--64680105 Score: 149
Period size: 52 Copynumber: 3.2 Consensus size: 50
64679933 TAGCCTCGCC
* *
64679943 ATGGTCTTACACGGATCACA-TATC-AT-ACA-GATGCCATATCCCAGAT
1 ATGGTCTTATACGGATCACATTATCAATCACACGATGCCATAGCCCAGAT
* *
64679989 ATGGTCTTATACGGAATCATATTATCATATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGG-ATCACATTATCA-ATCACA-CGATGCCATAGCCCAGAT
* * * *
64680042 ATGGTCTTATACGGA-AACACGTATCACATTGCAC-CAATGCCATAGCCCAGCT
1 ATGGTCTTATACGGATCACA-TTATCA-A-T-CACACGATGCCATAGCCCAGAT
64680094 ATGGTCTTATAC
1 ATGGTCTTATAC
64680106 AGAAGCACAT
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
46 13 0.13
47 5 0.05
48 4 0.04
50 2 0.02
51 5 0.05
52 36 0.37
53 30 0.31
54 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
ATGGTCTTATACGGATCACATTATCAATCACACGATGCCATAGCCCAGAT
Found at i:64680039 original size:53 final size:52
Alignment explanation
Indices: 64679961--64680105 Score: 182
Period size: 53 Copynumber: 2.8 Consensus size: 52
64679951 ACACGGATCA
* * * * * *
64679961 CATATCATACAGATGCCATATCCCAGATATGGTCTTATACGGAATCATATTAT
1 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACA-AGTAT
*
64680014 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACACGTAT
1 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACAAGTAT
* ** *
64680066 CACATTGCACCAATGCCATAGCCCAGCTATGGTCTTATAC
1 CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATAC
64680106 AGAAGCACAT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
52 39 0.48
53 42 0.52
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (52 bp):
CATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACAAGTAT
Found at i:64680089 original size:52 final size:53
Alignment explanation
Indices: 64679973--64680105 Score: 178
Period size: 52 Copynumber: 2.5 Consensus size: 53
64679963 TATCATACAG
* * * * * *
64679973 ATGCCATATCCCAGATATGGTCTTATACGGAATCATATTATCATATCACACCG
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAACATAGTATCACATCACACCA
* **
64680026 ATGCCATAGCCCAGCTATGGTCTTATACGGAAACA-CGTATCACATTGCACCA
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAAACATAGTATCACATCACACCA
64680078 ATGCCATAGCCCAGCTATGGTCTTATAC
1 ATGCCATAGCCCAGCTATGGTCTTATAC
64680106 AGAAGCACAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 39 0.55
53 32 0.45
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAAACATAGTATCACATCACACCA
Found at i:64683183 original size:11 final size:11
Alignment explanation
Indices: 64683169--64683218 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
64683159 AGATAAATAT
64683169 TATTTTATTAA
1 TATTTTATTAA
* *
64683180 TATTTTAATGA
1 TATTTTATTAA
64683191 TATATTTATTAA
1 TAT-TTTATTAA
*
64683203 TATTTTATTAT
1 TATTTTATTAA
64683214 TATTT
1 TATTT
64683219 ATTTAGTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 24 0.73
12 9 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:64683198 original size:23 final size:21
Alignment explanation
Indices: 64683167--64683221 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 21
64683157 TTAGATAAAT
64683167 ATTATTTTATTAATATTTTAATG
1 ATTA-TTTATTAATATTTT-ATG
*
64683190 ATATATTTATTAATATTTTATT
1 AT-TATTTATTAATATTTTATG
64683212 ATTATTTATT
1 ATTATTTATT
64683222 TAGTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 8 0.27
22 4 0.13
23 16 0.53
24 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTATTTATTAATATTTTATG
Found at i:64683725 original size:46 final size:46
Alignment explanation
Indices: 64683658--64683836 Score: 186
Period size: 46 Copynumber: 4.2 Consensus size: 46
64683648 GCGTAATAAA
64683658 CATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATAC
1 CATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATAC
64683704 CATGGCAACGTGACATGAAATGAATAAGACCATGGTT----G----
1 CATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATAC
* * *
64683742 -A---CAACGTGACATGAAATGAACAAAACCATGGTTGAAAGGTAC
1 CATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATAC
* * * *
64683784 CATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
1 CATGGCAACGTGACATG-AAATGAATAAGACCATGGTTGAAAGATAC
*
64683830 TATGGCA
1 CATGGCA
64683837 TCATGTTGAA
Statistics
Matches: 110, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
34 30 0.27
37 1 0.01
38 1 0.01
42 1 0.01
43 1 0.01
45 1 0.01
46 75 0.68
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.18
Consensus pattern (46 bp):
CATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATAC
Found at i:64683749 original size:34 final size:34
Alignment explanation
Indices: 64683709--64683776 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
64683699 GATACCATGG
* *
64683709 CAACGTGACATGAAATGAATAAGACCATGGTTGA
1 CAACGTGACATGAAATGAACAAAACCATGGTTGA
64683743 CAACGTGACATGAAATGAACAAAACCATGGTTGA
1 CAACGTGACATGAAATGAACAAAACCATGGTTGA
64683777 AAGGTACCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (34 bp):
CAACGTGACATGAAATGAACAAAACCATGGTTGA
Found at i:64683779 original size:80 final size:80
Alignment explanation
Indices: 64683663--64683822 Score: 250
Period size: 80 Copynumber: 2.0 Consensus size: 80
64683653 ATAAACATGG
* * *
64683663 CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG-AAATGA
1 CAACGTGACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
*
64683727 ATAAGACCATGGTTGA
65 ATAAGACCATAGTTGA
* *
64683743 CAACGTGACATGAAATGAACAAAACCATGGTTGAAAGGTACCATGGCAACATGACAGAAAATGAG
1 CAACGTGACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
64683808 TAAGACCATAGTTGA
66 TAAGACCATAGTTGA
64683823 AAGACACTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 72 0.99
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (80 bp):
CAACGTGACATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
TAAGACCATAGTTGA
Found at i:64689819 original size:27 final size:26
Alignment explanation
Indices: 64689782--64689896 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
64689772 AGCATGGTTG
* *
64689782 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
64689808 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
64689836 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
64689863 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
64689890 CTAGAAC
1 CCAGAAC
64689897 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:64689841 original size:54 final size:54
Alignment explanation
Indices: 64689782--64689896 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
64689772 AGCATGGTTG
*
64689782 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
64689836 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
*
64689890 CTAGAAC
1 CCAGAAC
64689897 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:64691546 original size:26 final size:26
Alignment explanation
Indices: 64691517--64691626 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
64691507 CATGAAATTC
64691517 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
64691543 TTATCATTAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
64691569 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
64691595 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
64691621 TTATCA
1 TTATCA
64691627 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:64694260 original size:18 final size:18
Alignment explanation
Indices: 64694239--64694282 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
64694229 ATTTAATACT
64694239 AAAAAAATATAGCAAATG
1 AAAAAAATATAGCAAATG
* ** *
64694257 AAAATAATATTTCAGATG
1 AAAAAAATATAGCAAATG
64694275 AAAAAAAT
1 AAAAAAAT
64694283 CATTTTTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.23
Consensus pattern (18 bp):
AAAAAAATATAGCAAATG
Found at i:64697317 original size:15 final size:15
Alignment explanation
Indices: 64697297--64697326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64697287 AGCAATTTGT
64697297 TGAAGAGAACGTCTA
1 TGAAGAGAACGTCTA
*
64697312 TGAAGAGAATGTCTA
1 TGAAGAGAACGTCTA
64697327 CAACCATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (15 bp):
TGAAGAGAACGTCTA
Found at i:64697629 original size:22 final size:22
Alignment explanation
Indices: 64697579--64697622 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
64697569 TATCCGAACC
64697579 CAACTCATTTTCGAGTTTGTCT
1 CAACTCATTTTCGAGTTTGTCT
64697601 CAACTCATTTTCGAGTTTGTCT
1 CAACTCATTTTCGAGTTTGTCT
64697623 TTACTCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (22 bp):
CAACTCATTTTCGAGTTTGTCT
Found at i:64698901 original size:591 final size:590
Alignment explanation
Indices: 64697827--64699008 Score: 2215
Period size: 591 Copynumber: 2.0 Consensus size: 590
64697817 CGTTCACTTT
64697827 CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCAGTTAGCCAGAAACTTTTTTGCG
1 CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCAGTTAGCCAGAAACTTTTTTGCG
64697892 TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
66 TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
*
64697957 ACTATTCGTAAGGCACAATTGAATTACTGACAGGGCCTTCTCATCAAGCTCTCCCTTTCTGACTG
131 ACTATTCGTAAGGCACAATTGAATTACTGACAGGGCCTTCTCATCAAGCTCTCCCCTTCTGACTG
64698022 ATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTATT
196 ATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTATT
64698087 GTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTTAT
261 GTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTTAT
* *
64698152 TATTGGCCTCTCAAAACAGGTTGAATACGAAAATTGAATCAAGCTCTGATGTTAGTTAGTTGGGG
326 TATTGGCCTCTCAAAACAGGTTGAATACGAAAATCGAATCAAGCTCTAATGTTAGTTAGTTGGGG
*
64698217 ATAAACTTGTATAAGCAACAAACAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAAAT
391 ATAAACTTGTATAAGCAACAAAAAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAAAT
* *
64698282 TTTACATGGAAAAACCCTTTCGAAAAGGATAAAAAACCTA-GGGCGAAAATAATTTCACTAAATT
456 TTTACATGGAAAAACCCTTCCGAAAAGGATAAAAAACC-ACGGGCGAAAATAATTTCACTAAATC
64698346 GGCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACCC
520 GGCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACCC
64698411 TCAAAA
585 TCAAAA
* *
64698417 CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCGGTTAGCCATAAACTTTTTTGCG
1 CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCAGTTAGCCAGAAACTTTTTTGCG
64698482 TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
66 TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
64698547 ACTATTCGTAAGGCACAATTGAATTA-TAGACAGGGCCTTCTCATCAAGCTCTCCCCTTCTGACT
131 ACTATTCGTAAGGCACAATTGAATTACT-GACAGGGCCTTCTCATCAAGCTCTCCCCTTCTGACT
64698611 GATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTTCAGACCGTTCTAAACTAGAATTA
195 GATGTAGATTATCGAGTTTTTTTTCCCGTAATGACC-TTTTTCAGACCGTTCTAAACTAGAATTA
*
64698676 TTGTCATCCAAACTTGACATTGATTGAAATTTGTGATGTCATCAAACTTCTCAATGTTGAACCTT
259 TTGTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTT
* *
64698741 ATTGTTGGCCTCTCAAAATAGGTTGAATACGAAAATCGAATCAAGCTCTAATGTTAGTTAGTTGG
324 ATTATTGGCCTCTCAAAACAGGTTGAATACGAAAATCGAATCAAGCTCTAATGTTAGTTAGTTGG
64698806 GGATAAACTTGTATAAGCAACAAAAAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAA
389 GGATAAACTTGTATAAGCAACAAAAAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAA
64698871 ATTTTACATGGAAAAACCCTTCCGAAAAGGATAAAAAACCACGGGCGAAAATAATTTCACTAAAT
454 ATTTTACATGGAAAAACCCTTCCGAAAAGGATAAAAAACCACGGGCGAAAATAATTTCACTAAAT
*
64698936 CGGCAAAAACGAATACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACC
519 CGGCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACC
64699001 CTCAAAA
584 CTCAAAA
64699008 C
1 C
64699009 TTAAACACAA
Statistics
Matches: 577, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
589 1 0.00
590 226 0.39
591 350 0.61
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (590 bp):
CGTCCATATAGAATGTGTATAGCCACTATTTCAACACCAATCAGTTAGCCAGAAACTTTTTTGCG
TAAAGGGTTTCTAACATTTTCCATAAGGCGGATGTCATTTTCTCCATTAACACCTCTTACAATAC
ACTATTCGTAAGGCACAATTGAATTACTGACAGGGCCTTCTCATCAAGCTCTCCCCTTCTGACTG
ATGTAGATTATCGAGTTTTTTTTCCCGTAATGACCTTTTTCAGACCGTTCTAAACTAGAATTATT
GTCATCCAAACTTGACATTGATTGAAATTTGTGAAGTCATCAAACTTCTCAATGTTGAACCTTAT
TATTGGCCTCTCAAAACAGGTTGAATACGAAAATCGAATCAAGCTCTAATGTTAGTTAGTTGGGG
ATAAACTTGTATAAGCAACAAAAAAGAAAAATAAAGAATAAATTGAAAAGATCGAACACACAAAT
TTTACATGGAAAAACCCTTCCGAAAAGGATAAAAAACCACGGGCGAAAATAATTTCACTAAATCG
GCAAAAACGAAGACTACAAAAATGAAAATAAAAACTAAACCATGAAACCCAAAAATAAGAACCCT
CAAAA
Found at i:64699380 original size:2 final size:2
Alignment explanation
Indices: 64699375--64699402 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64699365 TATAAAAAAG
64699375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64699403 TGAAGGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64701095 original size:2 final size:2
Alignment explanation
Indices: 64701090--64701144 Score: 51
Period size: 2 Copynumber: 28.0 Consensus size: 2
64701080 AACTAATGGC
* * *
64701090 AT AT AT A- AA AT AT AT AT AT A- AT AC AC AT GAT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
*
64701131 AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT
64701145 TAGAAATGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
1 2 0.04
2 41 0.91
3 2 0.04
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:64701677 original size:11 final size:12
Alignment explanation
Indices: 64701661--64701697 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
64701651 AAGAAAAAAA
64701661 GGAAGAGAG-AG
1 GGAAGAGAGAAG
64701672 GGAAGAGAGAAG
1 GGAAGAGAGAAG
64701684 GG-AGAGAGAAG
1 GGAAGAGAGAAG
64701695 GGA
1 GGA
64701698 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:64701698 original size:11 final size:11
Alignment explanation
Indices: 64701659--64701708 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
64701649 GAAAGAAAAA
*
64701659 AAGGAAGAGAG
1 AAGGGAGAGAG
64701670 -AGGGAAGAGAG
1 AAGGG-AGAGAG
64701681 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
64701692 AAGGGAGGGGG
1 AAGGGAGAGAG
64701703 AAGGGA
1 AAGGGA
64701709 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:64701983 original size:18 final size:18
Alignment explanation
Indices: 64701960--64702015 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
64701950 TTTTTTGGTT
64701960 TTTTTTTTTTGCTGGAAA
1 TTTTTTTTTTGCTGGAAA
64701978 ---TTTTTTT-CT-GAAA
1 TTTTTTTTTTGCTGGAAA
*
64701991 TTTTTTTTGGTGCTGG-AA
1 TTTTTTTT-TTGCTGGAAA
64702009 TTTTTTT
1 TTTTTTT
64702016 ACTGGATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
13 4 0.13
14 2 0.06
15 7 0.23
16 5 0.16
17 1 0.03
18 11 0.35
19 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.16, T:0.64
Consensus pattern (18 bp):
TTTTTTTTTTGCTGGAAA
Found at i:64701997 original size:13 final size:15
Alignment explanation
Indices: 64701963--64701997 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
64701953 TTTGGTTTTT
64701963 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
64701978 TTTTTTT-CT-GAAA
1 TTTTTTTGCTGGAAA
64701991 TTTTTTT
1 TTTTTTT
64701998 TGGTGCTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
14 2 0.10
15 7 0.35
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:64701997 original size:14 final size:16
Alignment explanation
Indices: 64701962--64702034 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 16
64701952 TTTTGGTTTT
64701962 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
64701978 -TTTTTTT-CT-GAAA
1 TTTTTTTTGCTGGAAA
64701991 TTTTTTTTGGTGCTGG-AA
1 -TTTTTTT--TGCTGGAAA
* **
64702009 -TTTTTTTACTGGATT
1 TTTTTTTTGCTGGAAA
64702024 TTTTTTTTGCT
1 TTTTTTTTGCT
64702035 TCCCCTCTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 13 0.29
16 15 0.33
17 1 0.02
18 4 0.09
19 1 0.02
ACGTcount: A:0.14, C:0.07, G:0.16, T:0.63
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:64702005 original size:32 final size:32
Alignment explanation
Indices: 64701959--64702030 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
64701949 TTTTTTTGGT
**
64701959 TTTTTTTTTTTGCTGGAAATTTTTTT-CTGAAA
1 TTTTTTTTGGTGCTGG-AATTTTTTTACTGAAA
* *
64701991 TTTTTTTTGGTGCTGGAATTTTTTTACTGGAT
1 TTTTTTTTGGTGCTGGAATTTTTTTACTGAAA
64702023 TTTTTTTT
1 TTTTTTTT
64702031 TGCTTCCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 9 0.26
32 26 0.74
ACGTcount: A:0.14, C:0.06, G:0.15, T:0.65
Consensus pattern (32 bp):
TTTTTTTTGGTGCTGGAATTTTTTTACTGAAA
Found at i:64702478 original size:35 final size:35
Alignment explanation
Indices: 64702439--64702541 Score: 179
Period size: 35 Copynumber: 2.9 Consensus size: 35
64702429 GTGTGTGATA
* *
64702439 GTGCTGGCGGCAGACAGCATGGGAGAGTGGGAGTG
1 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAATG
*
64702474 GTGCTGGTAGCAGACAGCATGGGAGAGTGGGAATG
1 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAATG
64702509 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAA
1 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAA
64702542 GAGGCAAGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.23, C:0.13, G:0.49, T:0.16
Consensus pattern (35 bp):
GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAATG
Found at i:64705282 original size:32 final size:32
Alignment explanation
Indices: 64705261--64705331 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
64705251 GTTTGGTTCA
*
64705261 CTGTAATGGAATAAGGCTATAATTGAATAGAG
1 CTGTAATGGAATAAGGCTATAATTGAATACAG
*
64705293 CTGTAATGGAATAAGGCTATAATGGAATAGC-G
1 CTGTAATGGAATAAGGCTATAATTGAATA-CAG
64705325 CTGTAAT
1 CTGTAAT
64705332 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (32 bp):
CTGTAATGGAATAAGGCTATAATTGAATACAG
Found at i:64705331 original size:16 final size:16
Alignment explanation
Indices: 64705261--64705331 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
64705251 GTTTGGTTCA
64705261 CTGTAATGGAATAAGG
1 CTGTAATGGAATAAGG
* *
64705277 CTATAATTGAAT-AGAG
1 CTGTAATGGAATAAG-G
64705293 CTGTAATGGAATAAGG
1 CTGTAATGGAATAAGG
*
64705309 CTATAATGGAAT-AGCG
1 CTGTAATGGAATAAG-G
64705325 CTGTAAT
1 CTGTAAT
64705332 CAGTAATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.09
16 40 0.87
17 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAAGG
Found at i:64706764 original size:32 final size:34
Alignment explanation
Indices: 64706728--64706792 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
64706718 TAATAGTGGT
*
64706728 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
64706760 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
64706793 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:64707137 original size:25 final size:27
Alignment explanation
Indices: 64707100--64707152 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
64707090 TTAAACATGC
64707100 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
64707126 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
64707152 A
1 A
64707153 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:64708668 original size:26 final size:26
Alignment explanation
Indices: 64708637--64708744 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
64708627 TGAAATGCCC
*
64708637 ATCATGGAACATTTACCTAAGCCATT
1 ATCATGGAACATTTACCTAACCCATT
64708663 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
64708689 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
64708715 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64708741 ATCA
1 ATCA
64708745 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:64715684 original size:2 final size:2
Alignment explanation
Indices: 64715677--64715710 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
64715667 ACACTGTTAC
64715677 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
64715711 ATTTATACTA
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:64717239 original size:22 final size:20
Alignment explanation
Indices: 64717206--64717251 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
64717196 TTTCCCCTTA
64717206 AATTCTGTTTTGATTTCAATTT
1 AATTCTGTTTTGA-TT-AATTT
64717228 AATTCCTG-TTTGATTAATTT
1 AATT-CTGTTTTGATTAATTT
64717248 AATT
1 AATT
64717252 ATTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 9 0.39
23 3 0.13
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (20 bp):
AATTCTGTTTTGATTAATTT
Found at i:64717436 original size:19 final size:18
Alignment explanation
Indices: 64717409--64717446 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
64717399 ATCTATTTCG
64717409 TTTTTTTATCT-TCTATTA
1 TTTTTTTAT-TATCTATTA
64717427 TTTTTATTATTATCTATTA
1 TTTTT-TTATTATCTATTA
64717446 T
1 T
64717447 GTATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTATTATCTATTA
Found at i:64717688 original size:3 final size:3
Alignment explanation
Indices: 64717680--64717740 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
64717670 AAAATTTAGA
* * * * *
64717680 TAT TAT TAT TAT TAG TAT TAG TAT TAT TAT TAT CAC AAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
64717727 TCAT TGT TAT TAT T
1 T-AT TAT TAT TAT T
64717741 GTCCTATTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:64723029 original size:27 final size:27
Alignment explanation
Indices: 64722961--64723110 Score: 88
Period size: 27 Copynumber: 5.6 Consensus size: 27
64722951 CGACTTGTAA
*
64722961 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCGATTTACAG
**** *
64722988 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCGATTTACAG
* * * *
64723015 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTACAG
* * * ** *
64723042 AATCACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTCGATTTACAG
* * * *
64723069 AATTACTAAAATACCCTTTG-TTTATAA
1 AATTACCAAAATACCC-TCGATTTACAG
64723096 AATTACCAAAATACC
1 AATTACCAAAATACC
64723111 AATGGTTTGA
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 96 0.95
28 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTACAG
Found at i:64723057 original size:54 final size:54
Alignment explanation
Indices: 64722999--64723110 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
64722989 ATTACCGTTT
*
64722999 TACCCTCAATTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** ** * * *
64723053 TACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
64723107 TACC
1 TACC
64723111 AATGGTTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:64723117 original size:54 final size:54
Alignment explanation
Indices: 64723015--64723138 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
64723005 CAATTTACAG
* ** *
64723015 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCTTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* *
64723069 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
64723123 AATTACTAAAATACCC
1 AATTACTAAAATACCC
64723139 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:64723118 original size:27 final size:27
Alignment explanation
Indices: 64723015--64723138 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
64723005 CAATTTACAG
64723015 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
64723042 AATCACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
64723069 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
64723096 AATTACCAAAATACCAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
64723123 AATTACTAAAATACCC
1 AATTACCAAAATACCC
64723139 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:64723151 original size:27 final size:27
Alignment explanation
Indices: 64723121--64723182 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
64723111 AATGGTTTGA
64723121 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
64723148 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
64723175 AAAATTAC
1 AAAATTAC
64723183 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:64723151 original size:54 final size:54
Alignment explanation
Indices: 64723015--64723164 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
64723005 CAATTTACAG
* ** * ** *
64723015 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCTTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
64723069 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
64723123 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
64723165 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
Found at i:64723167 original size:81 final size:81
Alignment explanation
Indices: 64723015--64723167 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
64723005 CAATTTACAG
** * **
64723015 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCTTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
64723080 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
64723096 AATTACCAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
64723159 AATACCCTT
64 AATACCCTT
64723168 GTGGGGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:64723836 original size:28 final size:28
Alignment explanation
Indices: 64723803--64723899 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
64723793 GCGTAGATCA
64723803 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
64723831 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
64723859 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
64723887 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
64723900 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:64730531 original size:9 final size:9
Alignment explanation
Indices: 64730517--64730556 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
64730507 AAAGAGGAAC
64730517 AATAAAAAT
1 AATAAAAAT
64730526 AATAAAAAT
1 AATAAAAAT
*
64730535 AAT-AAAGT
1 AATAAAAAT
64730543 AATTAAAAAT
1 AA-TAAAAAT
64730553 AATA
1 AATA
64730557 CTATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 15 0.56
10 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (9 bp):
AATAAAAAT
Found at i:64730827 original size:3 final size:3
Alignment explanation
Indices: 64730807--64730849 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
64730797 TATACTAACG
* *
64730807 ATA ATG ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
64730850 CAAAAAGATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:64732506 original size:12 final size:12
Alignment explanation
Indices: 64732489--64732514 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64732479 GCTGATACAA
64732489 TTGGGTTTTGGG
1 TTGGGTTTTGGG
64732501 TTGGGTTTTGGG
1 TTGGGTTTTGGG
64732513 TT
1 TT
64732515 TAATGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (12 bp):
TTGGGTTTTGGG
Found at i:64732532 original size:22 final size:22
Alignment explanation
Indices: 64732502--64732573 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
64732492 GGTTTTGGGT
*
64732502 TGGGTTTTGGGTTTAATGTAAA
1 TGGGTTTTGGGTTTAGTGTAAA
* *
64732524 TTGGTTTTGGGTTTGGTGTAAA
1 TGGGTTTTGGGTTTAGTGTAAA
* *
64732546 TGGGTCATGGGGTTTAGTGTAAA
1 TGGGT-TTTGGGTTTAGTGTAAA
64732569 TGGGT
1 TGGGT
64732574 CATGGGGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 23 0.55
23 19 0.45
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.43
Consensus pattern (22 bp):
TGGGTTTTGGGTTTAGTGTAAA
Found at i:64732565 original size:23 final size:23
Alignment explanation
Indices: 64732510--64732580 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
64732500 GTTGGGTTTT
* * * *
64732510 GGGTTTAATGTAAATTGGT-TTT
1 GGGTTTAGTGTAAATGGGTCATG
*
64732532 GGGTTTGGTGTAAATGGGTCATG
1 GGGTTTAGTGTAAATGGGTCATG
64732555 GGGTTTAGTGTAAATGGGTCATG
1 GGGTTTAGTGTAAATGGGTCATG
64732578 GGG
1 GGG
64732581 CAAAATTGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 16 0.38
23 26 0.62
ACGTcount: A:0.20, C:0.03, G:0.39, T:0.38
Consensus pattern (23 bp):
GGGTTTAGTGTAAATGGGTCATG
Found at i:64737487 original size:26 final size:27
Alignment explanation
Indices: 64737454--64737513 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
64737444 GTGAATGTTG
*
64737454 TATA-TATT-TATGTATAATATTATTTT
1 TATATTATTGTAT-TATAATATTATTAT
*
64737480 TA-ATTATTGTATTTTAATATTATTAT
1 TATATTATTGTATTATAATATTATTAT
64737506 TATATTAT
1 TATATTAT
64737514 ATATACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 20 0.69
27 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATATTATTGTATTATAATATTATTAT
Found at i:64737523 original size:29 final size:26
Alignment explanation
Indices: 64737468--64737523 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
64737458 TATTTATGTA
* *
64737468 TAATATTATTTTTAATTATTGTATTT
1 TAATATTATTATTAATTATTATATTT
64737494 TAATATTATTATTATATTATATATACTTT
1 TAATATTATTATTA-ATTAT-TATA-TTT
64737523 T
1 T
64737524 TCGTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 5 0.20
28 3 0.12
29 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TAATATTATTATTAATTATTATATTT
Found at i:64737647 original size:23 final size:24
Alignment explanation
Indices: 64737603--64737648 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
64737593 TATACACATT
*
64737603 TCATATAGTATTATCTTTTTACTA
1 TCATATAGTATTATCTTCTTACTA
64737627 TCATAT-GTATTAT-TATCTTACT
1 TCATATAGTATTATCT-TCTTACT
64737649 TATTTTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 13 0.65
24 6 0.30
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (24 bp):
TCATATAGTATTATCTTCTTACTA
Done.