Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 203 of 208
Found at i:62624620 original size:86 final size:87
Alignment explanation
Indices: 62624512--62624700 Score: 301
Period size: 86 Copynumber: 2.2 Consensus size: 87
62624502 TAAGAGTAGG
*
62624512 GGCTTAATTGCTTTTTCGAAAAAAATTTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
1 GGCTTAATTGCTTTTTCGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
*
62624577 AATTGAGTAG-GAAAAAATAGA
66 AATTGAGTAGAAAAAAAATAGA
* *
62624598 GGCTTAATTG-TTTCTTTGAAAAAAAATTAAGGTCTTTTTGATGCATTATGAAAGTTCAAGTACC
1 GGCTTAATTGCTTT-TTCGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACC
*
62624662 CAATTGAGTAGAAAAAAAATAGG
65 CAATTGAGTAGAAAAAAAATAGA
*
62624685 GGTTTAATTGCTTTTT
1 GGCTTAATTGCTTTTT
62624701 TTTGAAGAAG
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
85 3 0.03
86 68 0.72
87 20 0.21
88 3 0.03
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (87 bp):
GGCTTAATTGCTTTTTCGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
AATTGAGTAGAAAAAAAATAGA
Found at i:62627784 original size:36 final size:36
Alignment explanation
Indices: 62627674--62627784 Score: 86
Period size: 36 Copynumber: 3.1 Consensus size: 36
62627664 TTGCAAGAGA
62627674 TTCCCCAATGATCTTGGAATTTGTCCACTCAATTGG
1 TTCCCCAATGATCTTGGAATTTGTCCACTCAATTGG
* * ** * * **
62627710 TTCCACCACAAG-TC-T-AAATGAGT-GAGTTGCAAGAGG
1 TTCC-CCA-ATGATCTTGGAATTTGTCCA-CT-CAATTGG
62627746 TTCCCCAATGATCTTGGAATTTGTCCACTCAATTGG
1 TTCCCCAATGATCTTGGAATTTGTCCACTCAATTGG
62627782 TTC
1 TTC
62627785 TCCGCCAAGT
Statistics
Matches: 51, Mismatches: 16, Indels: 16
0.61 0.19 0.19
Matches are distributed among these distances:
34 3 0.06
35 11 0.22
36 23 0.45
37 11 0.22
38 3 0.06
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (36 bp):
TTCCCCAATGATCTTGGAATTTGTCCACTCAATTGG
Found at i:62628010 original size:72 final size:71
Alignment explanation
Indices: 62627472--62627999 Score: 871
Period size: 72 Copynumber: 7.3 Consensus size: 71
62627462 GAATTGACAA
*
62627472 TGGAATTTGTCCACTCAATTGGTTC-CCTGACAAGTCTAAATGAGTGAGTTGCAAAAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTCC--ACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
62627536 AATGATCT
64 AATGATCT
* *
62627544 TGGAATTTGTCCACTCAATTGGTTC-CCTGGCAAGTCTAAATGAGTGAGTTGCAAAAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTCC--ACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
62627608 AATGATCT
64 AATGATCT
* * *
62627616 TGGAATTTGTCCCCTCAATTGGTTCTGCCACAAGTCTAATTGAGTGAGTTGCAAGAGATTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCT-CCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
62627681 ATGATCT
65 ATGATCT
*
62627688 TGGAATTTGTCCACTCAATTGGTTCCACCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTT-CTCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
62627753 ATGATCT
65 ATGATCT
*
62627760 TGGAATTTGTCCACTCAATTGGTTCTCCGCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCC-ACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
62627825 ATGATCT
65 ATGATCT
*
62627832 TGGAATTTGTCCCCTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCT-CCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
62627897 ATGATCT
65 ATGATCT
*
62627904 TGGAATTTGTCCACTCAATTGGTTCTCCGCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCC-ACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
62627969 ATGATCT
65 ATGATCT
62627976 TGGAATTTGTCCACTCAATTGGTT
1 TGGAATTTGTCCACTCAATTGGTT
62628000 GTATCTCAAG
Statistics
Matches: 434, Mismatches: 16, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
71 5 0.01
72 424 0.98
73 3 0.01
74 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (71 bp):
TGGAATTTGTCCACTCAATTGGTTCTCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAA
TGATCT
Found at i:62628965 original size:54 final size:54
Alignment explanation
Indices: 62628881--62628990 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
62628871 TTAAAATTGG
* * *
62628881 ATGCTTTTTCTTTTAGCAAAATCTTGTATTTCATAAAAACGTGTATGCTTTTAT
1 ATGCTCTTTCTTTTAACAAAATCTTATATTTCATAAAAACGTGTATGCTTTTAT
* * *
62628935 ATGCTCTTTCTTTTAACAAAATCTTATATTTCATAAAAATGTGTTTTCTTTTAT
1 ATGCTCTTTCTTTTAACAAAATCTTATATTTCATAAAAACGTGTATGCTTTTAT
62628989 AT
1 AT
62628991 ATATATATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (54 bp):
ATGCTCTTTCTTTTAACAAAATCTTATATTTCATAAAAACGTGTATGCTTTTAT
Found at i:62631557 original size:99 final size:97
Alignment explanation
Indices: 62631421--62631603 Score: 269
Period size: 99 Copynumber: 1.9 Consensus size: 97
62631411 GTTCTTTTTA
* **
62631421 TGCACTCATTTGGGTACTTGAACTTTCAAAATACATCAAAAA-AGCCCTCAAACATTTTCAAAAA
1 TGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGA-CCCTCAAAC--TTAAAAAAA
* *
62631485 AAGCAATTAAGCCCCTACTTTTTTTCTTTTTGTTT
63 AAGCAATTAACCCCCTAATTTTTTTCTTTTTGTTT
* *
62631520 TGCAGTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTAAAAAAAAAG
1 TGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAACTTAAAAAAAAAG
62631585 CAATTAACCCCCTAATTTT
66 CAATTAACCCCCTAATTTT
62631604 ATTAAAAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
97 27 0.36
99 48 0.63
100 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (97 bp):
TGCACTCAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAACTTAAAAAAAAAG
CAATTAACCCCCTAATTTTTTTCTTTTTGTTT
Found at i:62631701 original size:10 final size:10
Alignment explanation
Indices: 62631671--62631767 Score: 62
Period size: 9 Copynumber: 10.2 Consensus size: 10
62631661 ATAAAAAATC
62631671 AAATAT-TAA
1 AAATATATAA
*
62631680 AAATTTATTAA
1 AAATATA-TAA
62631691 AAATATATAA
1 AAATATATAA
*
62631701 AAAT-TGTAA
1 AAATATATAA
* *
62631710 AATTTTATAA
1 AAATATATAA
*
62631720 AAAT-TTTAA
1 AAATATATAA
* *
62631729 AAA-ATTTTA
1 AAATATATAA
62631738 AAATATAT-A
1 AAATATATAA
*
62631747 GAA-ATATAA
1 AAATATATAA
*
62631756 AAATTTATAA
1 AAATATATAA
62631766 AA
1 AA
62631768 TTTTATAAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
8 4 0.06
9 32 0.46
10 24 0.35
11 9 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
AAATATATAA
Found at i:62631712 original size:29 final size:29
Alignment explanation
Indices: 62631675--62631770 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
62631665 AAAATCAAAT
62631675 ATTA-AAAATTTATTAAAAATATATAAAA
1 ATTATAAAATTTATTAAAAATATATAAAA
* *
62631703 ATTGTAAAATTT-TATAAAAAT-TTTAAAAA
1 ATTATAAAATTTAT-TAAAAATATAT-AAAA
* * *
62631732 ATTTTAAAATATA-TAGAAATATA-AAAA
1 ATTATAAAATTTATTAAAAATATATAAAA
*
62631759 TTTATAAAATTT
1 ATTATAAAATTT
62631771 TATAAAGTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
27 13 0.24
28 12 0.22
29 29 0.54
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTATAAAATTTATTAAAAATATATAAAA
Found at i:62631732 original size:21 final size:20
Alignment explanation
Indices: 62631677--62631737 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
62631667 AATCAAATAT
*
62631677 TAAAAATTTATTAAAAA-TATA
1 TAAAAA-TT-TTAAAAATTTTA
*
62631698 TAAAAATTGT-AAAATTTTA
1 TAAAAATTTTAAAAATTTTA
62631717 TAAAAATTTTAAAAAATTTTA
1 TAAAAATTTT-AAAAATTTTA
62631738 AAATATATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.12
19 13 0.38
20 2 0.06
21 15 0.44
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAAAATTTTAAAAATTTTA
Found at i:62631739 original size:19 final size:18
Alignment explanation
Indices: 62631671--62631740 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
62631661 ATAAAAAATC
*
62631671 AAATATTAAAAATTTATTAA
1 AAATTTTAAAAA-TT-TTAA
* *
62631691 AAATATATAAAAATTGTAA
1 AAAT-TTTAAAAATTTTAA
*
62631710 AATTTTATAAAAATTTTAAA
1 AAATTT-TAAAAATTTT-AA
62631730 AAATTTTAAAA
1 AAATTTTAAAA
62631741 TATATAGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 20 0.50
20 13 0.32
21 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
AAATTTTAAAAATTTTAA
Found at i:62631751 original size:18 final size:17
Alignment explanation
Indices: 62631729--62631772 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
62631719 AAAATTTTAA
62631729 AAAATTTTAAAATATAT
1 AAAATTTTAAAATATAT
* * *
62631746 AGAAATATAAAAATTTAT
1 A-AAATTTTAAAATATAT
62631764 AAAATTTTA
1 AAAATTTTA
62631773 TAAAGTTATA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAAATATAT
Found at i:62631759 original size:47 final size:47
Alignment explanation
Indices: 62631671--62631799 Score: 122
Period size: 47 Copynumber: 2.7 Consensus size: 47
62631661 ATAAAAAATC
* * *
62631671 AAATATTAAAAATTTATTAAAAATATATAAAAATTGTAAAATTTTATAA
1 AAATTTTAAAAAATTATTAAAAATATATAAAAATTG-AAAAATTTAT-A
*
62631720 AAATTTTAAAAAATT-TT-AAAATATATAGAAATAT-AAAAATTTATA
1 AAATTTTAAAAAATTATTAAAAATATATAAAAAT-TGAAAAATTTATA
* * *
62631765 AAATTTTATAAAGTTATAAGAAAAT-TATACAAAAT
1 AAATTTTAAAAAATTATTA-AAAATATATA-AAAAT
62631800 GTAAAGAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
45 14 0.21
46 10 0.15
47 18 0.27
48 12 0.18
49 13 0.19
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (47 bp):
AAATTTTAAAAAATTATTAAAAATATATAAAAATTGAAAAATTTATA
Found at i:62631769 original size:9 final size:9
Alignment explanation
Indices: 62631679--62631776 Score: 65
Period size: 10 Copynumber: 10.3 Consensus size: 9
62631669 TCAAATATTA
62631679 AAAATTTATT
1 AAAATTTA-T
*
62631689 AAAAATATAT
1 -AAAATTTAT
* *
62631699 AAAAATTGT
1 AAAATTTAT
62631708 AAAATTTTAT
1 AAAA-TTTAT
*
62631718 AAAAATTTTAA
1 -AAAA-TTTAT
62631729 AAAATTT-T
1 AAAATTTAT
*
62631737 AAAATATAT
1 AAAATTTAT
*
62631746 AGAAATATA-
1 A-AAATTTAT
62631755 AAAATTTAT
1 AAAATTTAT
62631764 AAAATTTTAT
1 AAAA-TTTAT
62631774 AAA
1 AAA
62631777 GTTATAAGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
8 12 0.17
9 20 0.28
10 23 0.32
11 16 0.23
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
AAAATTTAT
Found at i:62631789 original size:56 final size:57
Alignment explanation
Indices: 62631695--62631814 Score: 147
Period size: 56 Copynumber: 2.1 Consensus size: 57
62631685 TATTAAAAAT
* * * *
62631695 ATATAAAAATTGTAAAATTTTATAAAAATTTTAAAAAATT-T-TAAAATATATAGAA
1 ATATAAAAATTATAAAATTTTATAAAAATTATAAAAAATTATACAAAATATAAAGAA
* *
62631750 ATATAAAAATTTATAAAATTTTAT-AAAGTTATAAGAAAATTATACAAAATGTAAAGAA
1 ATATAAAAA-TTATAAAATTTTATAAAAATTATAA-AAAATTATACAAAATATAAAGAA
62631808 ATATAAA
1 ATATAAA
62631815 TTTTGTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
55 17 0.31
56 19 0.35
57 1 0.02
58 18 0.33
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (57 bp):
ATATAAAAATTATAAAATTTTATAAAAATTATAAAAAATTATACAAAATATAAAGAA
Found at i:62631816 original size:56 final size:55
Alignment explanation
Indices: 62631695--62631842 Score: 136
Period size: 56 Copynumber: 2.6 Consensus size: 55
62631685 TATTAAAAAT
* * * * *
62631695 ATATAAAAATTGTAAAATTTTATAAAAATTTTAAAAAATTTTAAAATATATAGAA
1 ATATAAAATTTATAAAATTTTATAAAAATTATAAAAAATTTCAAAATATAAAGAA
* *
62631750 ATATAAAAATTTATAAAATTTTAT-AAAGTTATAAGAAAATTATACAAAATGTAAAGAA
1 ATAT-AAAATTTATAAAATTTTATAAAAATTATAA-AAAATT-T-CAAAATATAAAGAA
* * *
62631808 ATATAAATTTTGTAAAAAAAATTTATAAAAATTAT
1 ATATAAA-ATT-T-ATAAAATTTTATAAAAATTAT
62631843 TCTACCAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
55 12 0.16
56 23 0.31
57 4 0.05
58 17 0.23
59 1 0.01
60 10 0.14
61 7 0.09
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (55 bp):
ATATAAAATTTATAAAATTTTATAAAAATTATAAAAAATTTCAAAATATAAAGAA
Found at i:62632081 original size:18 final size:17
Alignment explanation
Indices: 62632058--62632104 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
62632048 TTTTCTAAAA
62632058 AAAATTCTAATTTTTAAT
1 AAAATT-TAATTTTTAAT
*
62632076 AAAATTTTAAATTTTTATT
1 AAAA-TTT-AATTTTTAAT
62632095 AAAATTTAAT
1 AAAATTTAAT
62632105 AATTTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 8 0.31
19 15 0.58
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTTAATTTTTAAT
Found at i:62632091 original size:20 final size:20
Alignment explanation
Indices: 62632065--62632131 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 20
62632055 AAAAAAATTC
*
62632065 TAATTTTTAATAAAATTTTA
1 TAATTTTTAATAAAATTTAA
*
62632085 -AATTTTTATTAAAATTTAA
1 TAATTTTTAATAAAATTTAA
**
62632104 TAATTTTTTCTAAAATTT-A
1 TAATTTTTAATAAAATTTAA
*
62632123 TTATTTTTA
1 TAATTTTTA
62632132 TGATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 25 0.62
20 15 0.38
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
TAATTTTTAATAAAATTTAA
Found at i:62633920 original size:17 final size:17
Alignment explanation
Indices: 62633898--62633931 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62633888 ATCCACTAAT
*
62633898 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62633915 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62633932 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62638559 original size:17 final size:17
Alignment explanation
Indices: 62638537--62638570 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62638527 ATCCACTAAT
*
62638537 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62638554 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62638571 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62642227 original size:11 final size:11
Alignment explanation
Indices: 62642211--62642243 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
62642201 AACATTCAAA
62642211 TATTAAAAATT
1 TATTAAAAATT
62642222 TATTAAAAAATT
1 TATT-AAAAATT
62642234 TA-TAAAAATT
1 TATTAAAAATT
62642244 GTGAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 5 0.24
12 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TATTAAAAATT
Found at i:62642251 original size:30 final size:30
Alignment explanation
Indices: 62642220--62642317 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
62642210 ATATTAAAAA
*
62642220 TTTATTAAAAAATTTATAAAAATTGTGAAAT
1 TTTA-TAAAAAATTTAAAAAAATTGTGAAAT
* *
62642251 TTTATAAAAATTTTAAAAAAATTAT-AAA-
1 TTTATAAAAAATTTAAAAAAATTGTGAAAT
** * * * *
62642279 AATATATAGAATTATAAAAAAATTATAAAAT
1 TTTATAAAAAATT-TAAAAAAATTGTGAAAT
62642310 TTTATAAA
1 TTTATAAA
62642318 GTCATAAGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
28 8 0.15
29 15 0.28
30 21 0.40
31 9 0.17
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTATAAAAAATTTAAAAAAATTGTGAAAT
Found at i:62642263 original size:11 final size:10
Alignment explanation
Indices: 62642214--62642317 Score: 72
Period size: 10 Copynumber: 10.4 Consensus size: 10
62642204 ATTCAAATAT
62642214 TAAAAATTTA
1 TAAAAATTTA
62642224 TTAAAAAATTTA
1 -T-AAAAATTTA
*
62642236 TAAAAA-TTG
1 TAAAAATTTA
* *
62642245 TGAAATTTTA
1 TAAAAATTTA
62642255 TAAAAATTT-
1 TAAAAATTTA
*
62642264 TAAAAAAATTA
1 T-AAAAATTTA
*
62642275 TAAAAATATA
1 TAAAAATTTA
*
62642285 T-AGAA-TTA
1 TAAAAATTTA
*
62642293 TAAAAAAATTA
1 T-AAAAATTTA
*
62642304 TAAAATTTTA
1 TAAAAATTTA
62642314 TAAA
1 TAAA
62642318 GTCATAAGAA
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
8 3 0.04
9 10 0.14
10 43 0.60
11 7 0.10
12 9 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:62642315 original size:29 final size:28
Alignment explanation
Indices: 62642229--62642334 Score: 97
Period size: 29 Copynumber: 3.7 Consensus size: 28
62642219 ATTTATTAAA
* * *
62642229 AAATT-TATAAAAATTGTGAAATTTTAT
1 AAATTATAAAAAAATTATAAAATTTTAT
* * *
62642256 AAAAATTTTAAAAAAATTATAAAAATATAT
1 --AAATTATAAAAAAATTATAAAATTTTAT
62642286 AGAATTATAAAAAAATTATAAAATTTTAT
1 A-AATTATAAAAAAATTATAAAATTTTAT
* *
62642315 AAAGTCATAAGAAAATTATA
1 AAA-TTATAAAAAAATTATA
62642335 CAAAATGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.05
29 44 0.69
30 17 0.27
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (28 bp):
AAATTATAAAAAAATTATAAAATTTTAT
Found at i:62642584 original size:10 final size:10
Alignment explanation
Indices: 62642565--62642659 Score: 50
Period size: 10 Copynumber: 9.2 Consensus size: 10
62642555 TTTTGATGGA
62642565 TTTTAT-ATT
1 TTTTATAATT
*
62642574 TTTTATGA-T
1 TTTTATAATT
**
62642583 TTTTATAAAA
1 TTTTATAATT
62642593 TTTTATAATTT
1 TTTTATAA-TT
* *
62642604 TTTTTTATTT
1 TTTTATAATT
*
62642614 TTTTGATGATT
1 TTTT-ATAATT
*
62642625 TTTCTAAAATTT
1 TTT-TATAA-TT
*
62642637 TTTTCTAATT
1 TTTTATAATT
*
62642647 TTTAATAAGTT
1 TTTTATAA-TT
62642658 TT
1 TT
62642660 AAATTTGTAT
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
9 14 0.22
10 23 0.36
11 21 0.33
12 6 0.09
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:62642607 original size:11 final size:11
Alignment explanation
Indices: 62642593--62642649 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
62642583 TTTTATAAAA
62642593 TTTTATAATTT
1 TTTTATAATTT
*
62642604 TTTT-TTATTT
1 TTTTATAATTT
*
62642614 TTTTGATGATTT
1 TTTT-ATAATTT
* *
62642626 TTCTAAAATTT
1 TTTTATAATTT
*
62642637 TTTTCTAATTT
1 TTTTATAATTT
62642648 TT
1 TT
62642650 AATAAGTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
10 9 0.25
11 19 0.53
12 8 0.22
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:62642911 original size:89 final size:88
Alignment explanation
Indices: 62642742--62642912 Score: 263
Period size: 89 Copynumber: 1.9 Consensus size: 88
62642732 TAAGAGAAGG
* *
62642742 GGCTTAATTGCTTTTTTGAAAAAAATTTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
1 GGCTTAATTGCTTTTTTGAAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAGTACCC
** *
62642807 AATTGAGTGGGAAAAAAAATAAA
66 AATTGAGCAGAAAAAAAAATAAA
*
62642830 GGCTTAATTG-TTTCTTTGAAAAAAAAATTAAGATCTTTTTGATGCATTATGAAAGTTCAAGTAC
1 GGCTTAATTGCTTT-TTTG-AAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAGTAC
62642894 CCAATTGAGCAGAAAAAAA
64 CCAATTGAGCAGAAAAAAA
62642913 TAGGAATTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
87 3 0.04
88 14 0.19
89 58 0.77
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.33
Consensus pattern (88 bp):
GGCTTAATTGCTTTTTTGAAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAGTACCC
AATTGAGCAGAAAAAAAAATAAA
Found at i:62644795 original size:15 final size:16
Alignment explanation
Indices: 62644772--62644811 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
62644762 AAAAAGTGAA
*
62644772 AAAATAAAATAAAATAT
1 AAAA-AAAATAAAAAAT
*
62644789 GAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
62644805 AAAAAAA
1 AAAAAAA
62644812 TATTCTATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:62644812 original size:15 final size:16
Alignment explanation
Indices: 62644777--62644813 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
62644767 GTGAAAAAAT
*
62644777 AAAATAAAATATGAAA
1 AAAATAAAAAATGAAA
62644793 AAAATAAAAAAT-AAA
1 AAAATAAAAAATGAAA
62644808 AAAATA
1 AAAATA
62644814 TTCTATGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAATAAAAAATGAAA
Found at i:62647730 original size:13 final size:14
Alignment explanation
Indices: 62647714--62647765 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
62647704 GATTTATTTT
*
62647714 TTTATTTTAGTT-A
1 TTTATTTTAATTGA
62647727 TTTATTTTAATTGA
1 TTTATTTTAATTGA
62647741 TTTA-TTTAATTTTGA
1 TTTATTTTAA--TTGA
62647756 TTTTATTTTA
1 -TTTATTTTA
62647766 TTTTAGGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 16 0.48
14 5 0.15
15 4 0.12
16 4 0.12
17 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (14 bp):
TTTATTTTAATTGA
Found at i:62647735 original size:5 final size:5
Alignment explanation
Indices: 62647713--62647770 Score: 50
Period size: 5 Copynumber: 12.0 Consensus size: 5
62647703 TGATTTATTT
* * * *
62647713 TTTTA TTTTA -GTTA -TTTA TTTTA ATTGA -TTTA TTTAA TTTTGA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA
62647761 TTTTA TTTTA
1 TTTTA TTTTA
62647771 GGTTTTGTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
4 9 0.21
5 29 0.67
6 5 0.12
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:62647757 original size:15 final size:16
Alignment explanation
Indices: 62647737--62647769 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62647727 TTTATTTTAA
62647737 TTGA-TTTATTTAATT
1 TTGATTTTATTTAATT
*
62647752 TTGATTTTATTTTATT
1 TTGATTTTATTTAATT
62647768 TT
1 TT
62647770 AGGTTTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TTGATTTTATTTAATT
Found at i:62647763 original size:11 final size:10
Alignment explanation
Indices: 62647713--62647770 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
62647703 TGATTTATTT
62647713 TTTTATTTTA
1 TTTTATTTTA
*
62647723 -GTTA-TTTA
1 TTTTATTTTA
* *
62647731 TTTTAATTGA
1 TTTTATTTTA
*
62647741 -TTTATTTAA
1 TTTTATTTTA
62647750 TTTTGATTTTA
1 TTTT-ATTTTA
62647761 TTTTATTTTA
1 TTTTATTTTA
62647771 GGTTTTGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 4 0.11
9 13 0.34
10 12 0.32
11 9 0.24
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:62656980 original size:31 final size:30
Alignment explanation
Indices: 62656945--62657030 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
62656935 TTTTGTGAGA
*
62656945 TTAATGAGAATTTTC-AAAATTTTAAAAGTG
1 TTAATGAAAATTTTCAAAAATTTTAAAAG-G
* **
62656975 CTTAATTAAAATTTTCAAAAAAATTAAAAGG
1 -TTAATGAAAATTTTCAAAAATTTTAAAAGG
62657006 TATAATGAAAATTTTCAAAAATTTT
1 T-TAATGAAAATTTTCAAAAATTTT
62657031 GGGGGCTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.02
31 34 0.74
32 11 0.24
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (30 bp):
TTAATGAAAATTTTCAAAAATTTTAAAAGG
Found at i:62657225 original size:29 final size:29
Alignment explanation
Indices: 62657191--62657298 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
62657181 GATAGTTTAG
62657191 GTACCACATTAAACATTTTCAAAGTACAT
1 GTACCACATTAAACATTTTCAAAGTACAT
* * * * * *
62657220 GTACCATAATAATAACACATATTGATAGTTCAG
1 GTACCA-CAT--TAA-ACATTTTCAAAGTACAT
* * *
62657253 GTACCACATTATATATTTTCAAAGTACTT
1 GTACCACATTAAACATTTTCAAAGTACAT
62657282 GTACCAC--TAAACATTTT
1 GTACCACATTAAACATTTT
62657299 ATGAAAGTAC
Statistics
Matches: 58, Mismatches: 17, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
27 8 0.14
29 23 0.40
30 4 0.07
32 5 0.09
33 18 0.31
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (29 bp):
GTACCACATTAAACATTTTCAAAGTACAT
Found at i:62657259 original size:62 final size:61
Alignment explanation
Indices: 62657163--62657287 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 61
62657153 TACCAAGTAT
*
62657163 CATAATAAAACATCTATTGATAGTTTAGGTACCACATTAAACATTTTCAAAGTACATGTAC
1 CATAATAAAACATCTATTGATAGTTCAGGTACCACATTAAACATTTTCAAAGTACATGTAC
* * *
62657224 CATAATAATAACA-CATATTGATAGTTCAGGTACCACATTATATATTTTCAAAGTACTTGTAC
1 CATAATAA-AACATC-TATTGATAGTTCAGGTACCACATTAAACATTTTCAAAGTACATGTAC
62657286 CA
1 CA
62657288 CTAAACATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 9 0.16
62 49 0.84
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.34
Consensus pattern (61 bp):
CATAATAAAACATCTATTGATAGTTCAGGTACCACATTAAACATTTTCAAAGTACATGTAC
Found at i:62659167 original size:28 final size:29
Alignment explanation
Indices: 62659127--62659188 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
62659117 ATTTTCCTCA
*
62659127 TTTTCTCTCACTTT-ATTTATATTTGAAAT
1 TTTTATCTCACTTTCATTTA-ATTTGAAAT
**
62659156 TTTTATCT-ACTTTCATTTAATTTTTAAT
1 TTTTATCTCACTTTCATTTAATTTGAAAT
62659184 TTTTA
1 TTTTA
62659189 GAATTTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTATCTCACTTTCATTTAATTTGAAAT
Found at i:62660919 original size:11 final size:10
Alignment explanation
Indices: 62660896--62660959 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
62660886 TAAAAAATTC
62660896 AAATATTAAA
1 AAATATTAAA
*
62660906 AATTATTAAA
1 AAATATTAAA
*
62660916 AAATA-TATA
1 AAATATTAAA
**
62660925 AAA-ATTGTA
1 AAATATTAAA
*
62660934 AAATTTTATAA
1 AAATATTA-AA
62660945 AAAT-TTAAA
1 AAATATTAAA
62660954 AAATAT
1 AAATAT
62660960 ATAGAAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 1 0.02
9 18 0.42
10 19 0.44
11 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAATATTAAA
Found at i:62660955 original size:19 final size:19
Alignment explanation
Indices: 62660896--62660988 Score: 84
Period size: 19 Copynumber: 4.9 Consensus size: 19
62660886 TAAAAAATTC
62660896 AAATAT-TAAAAATTATTAAA
1 AAATATATAAAAA-T-TTAAA
62660916 AAATATATAAAAATTGT-AA
1 AAATATATAAAAATT-TAAA
* *
62660935 AATTTTATAAAAATTTAAA
1 AAATATATAAAAATTTAAA
* *
62660954 AAATATATAGAAATATAAA
1 AAATATATAAAAATTTAAA
* *
62660973 GAAT-TATAAAATTTTA
1 AAATATATAAAAATTTA
62660989 TAAAGTCATA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
18 10 0.17
19 36 0.60
20 8 0.13
21 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAATATATAAAAATTTAAA
Found at i:62660956 original size:28 final size:27
Alignment explanation
Indices: 62660877--62660957 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
62660867 TAATATTATT
* * *
62660877 AAATTTTAATAAAAAATTCAAATATTAA
1 AAATTTT-ATAAAAATTTAAAAAATTAA
* *
62660905 AAATTATTA-AAAAATATATAAAAATTGTA
1 AAATT-TTATAAAAATTTA-AAAAATT-AA
62660934 AAATTTTATAAAAATTTAAAAAAT
1 AAATTTTATAAAAATTTAAAAAAT
62660958 ATATAGAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.14
28 21 0.49
29 16 0.37
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (27 bp):
AAATTTTATAAAAATTTAAAAAATTAA
Found at i:62661335 original size:20 final size:20
Alignment explanation
Indices: 62661308--62661359 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
62661298 TTAATAAGTT
62661308 TTTA-AATTTTTAT-TAAAA
1 TTTATAATTTTTATCTAAAA
62661326 TTTAATAATTTTT-TCTAAAA
1 TTT-ATAATTTTTATCTAAAA
*
62661346 TTTATTATTTTTAT
1 TTTATAATTTTTAT
62661360 GATTCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 10 0.34
20 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATAATTTTTATCTAAAA
Found at i:62661561 original size:88 final size:88
Alignment explanation
Indices: 62661391--62661583 Score: 259
Period size: 88 Copynumber: 2.2 Consensus size: 88
62661381 TAAGAGTAGG
*
62661391 GGCTTAATTGCTTTTTTGAAAAAAATTTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
1 GGCTTAATTGCTTTTTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
**
62661456 AAATTGAGTGGGGAAAAAATAGA
66 AAATTGAGTGGAAAAAAAATAGA
* *
62661479 GGCTTAATTG-TTTCTTTGAAAAAAAAATTAAGG-TTTTTTTATGCATTATGAAAGTTCAAGTAC
1 GGCTTAATTGCTTT-TTTG-AAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTAC
*
62661542 CC-AATTGAGTGGAAAAAAAA-AGGGG
64 CCAAATTGAGTGGAAAAAAAATA--GA
*
62661567 GGTTTAATTGCTTTTTT
1 GGCTTAATTGCTTTTTT
62661584 TGAAGAAGTG
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
86 1 0.01
87 19 0.20
88 57 0.61
89 16 0.17
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (88 bp):
GGCTTAATTGCTTTTTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
AAATTGAGTGGAAAAAAAATAGA
Found at i:62661606 original size:88 final size:87
Alignment explanation
Indices: 62661391--62661651 Score: 224
Period size: 88 Copynumber: 3.0 Consensus size: 87
62661381 TAAGAGTAGG
* * ***
62661391 GGCTTAATTGCTTT-TTTG-AAAAAAATTTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTAC
1 GGCTTAATTG-TTTCTTTGAAAAAAAAATAAAGATATTTTTGATGCATTATGAAAGTTCAAGTAC
* *
62661454 CCAAATTGAGTGGGGAAAAAATAGA
65 CC-AATTGAGT-GGAAAAAAAAAGA
* * *
62661479 GGCTTAATTGTTTCTTTGAAAAAAAAATTAAGGT-TTTTTTATGCATTATGAAAGTTCAAGTACC
1 GGCTTAATTGTTTCTTTGAAAAAAAAATAAAGATATTTTTGATGCATTATGAAAGTTCAAGTACC
*
62661543 CAATTGAGTGGAAAAAAAAAGGGG
66 CAATTGAGTGGAAAAAAAAA--GA
* * * *** * * * * *
62661567 GGTTTAATTGCTTTTTTTG-AAGAAGTGTAAAGATATTTTTGATACATTTTAAAAGTTTAAGTGC
1 GGCTTAATTG-TTTCTTTGAAAAAAAAATAAAGATATTTTTGATGCATTATGAAAGTTCAAGTAC
* *
62661631 TCAATTGAGTGTAAAAAAAAA
65 CCAATTGAGTGGAAAAAAAAA
62661652 AAAAAAGAGG
Statistics
Matches: 145, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
86 9 0.06
87 11 0.08
88 63 0.43
89 62 0.43
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (87 bp):
GGCTTAATTGTTTCTTTGAAAAAAAAATAAAGATATTTTTGATGCATTATGAAAGTTCAAGTACC
CAATTGAGTGGAAAAAAAAAGA
Found at i:62665391 original size:17 final size:17
Alignment explanation
Indices: 62665369--62665402 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62665359 ATCCACTAAT
*
62665369 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62665386 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62665403 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62670030 original size:17 final size:17
Alignment explanation
Indices: 62670008--62670041 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62669998 ATCCACTAAT
*
62670008 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62670025 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62670042 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62671596 original size:29 final size:29
Alignment explanation
Indices: 62671528--62671597 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
62671518 ATTATACTCA
* *
62671528 TTTTCCCATGTTGGTACCTAAACTTATTTT
1 TTTTCCCAAG-TGGTACATAAACTTATTTT
** *
62671558 TGGTCACAAGTGGTACATAAAC-TACTTTT
1 TTTTCCCAAGTGGTACATAAACTTA-TTTT
62671587 TTTTCCCAAGT
1 TTTTCCCAAGT
62671598 TACTACTGCC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 2 0.06
29 23 0.74
30 6 0.19
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (29 bp):
TTTTCCCAAGTGGTACATAAACTTATTTT
Found at i:62674504 original size:23 final size:25
Alignment explanation
Indices: 62674467--62674515 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
62674457 TTTCTCAAAA
*
62674467 TAATTTTTTCAAATTAAAAT-TTAT
1 TAATTATTTCAAATTAAAATGTTAT
*
62674491 TAATTATTT-AAATTAAGATGTTAT
1 TAATTATTTCAAATTAAAATGTTAT
62674515 T
1 T
62674516 TTTTTATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
TAATTATTTCAAATTAAAATGTTAT
Found at i:62675955 original size:28 final size:28
Alignment explanation
Indices: 62675915--62675975 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
62675905 ATTTCCCTCA
*
62675915 TTTTCTCTCACTTT-ATTTATATTTGAAAT
1 TTTTATCTCACTTTCATTTA-ATTT-AAAT
*
62675944 TTTTATCT-ACTTTCATTTAATTTTAAT
1 TTTTATCTCACTTTCATTTAATTTAAAT
62675971 TTTTA
1 TTTTA
62675976 GAATTTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 9 0.31
29 12 0.41
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTATCTCACTTTCATTTAATTTAAAT
Found at i:62679866 original size:72 final size:72
Alignment explanation
Indices: 62679749--62679897 Score: 253
Period size: 72 Copynumber: 2.1 Consensus size: 72
62679739 GAATTGACGA
** *
62679749 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAAAGAGTGAGTTGCAAGTGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCCCCGACAAGTCTAAAAGAGTGAGTTGCAAGAGGTTCCCCA
62679814 ATGATCT
66 ATGATCT
*
62679821 TGGAATTTGTCCACTCAATTGGTTCCCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCCCCGACAAGTCTAAAAGAGTGAGTTGCAAGAGGTTCCCCA
*
62679886 GTGATCT
66 ATGATCT
62679893 TGGAA
1 TGGAA
62679898 CCGTTCCTGA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCCCCGACAAGTCTAAAAGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:62682118 original size:28 final size:29
Alignment explanation
Indices: 62682078--62682139 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
62682068 ATTTCCCTCA
*
62682078 TTTTCTCTCACTTT-ATTTATATTTGAAAT
1 TTTTATCTCACTTTCATTTA-ATTTGAAAT
**
62682107 TTTTATCT-ACTTTCATTTAATTTTTAAT
1 TTTTATCTCACTTTCATTTAATTTGAAAT
62682135 TTTTA
1 TTTTA
62682140 GAATTTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTATCTCACTTTCATTTAATTTGAAAT
Found at i:62682630 original size:20 final size:19
Alignment explanation
Indices: 62682603--62682640 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
62682593 TTCTAATTCT
*
62682603 AAATTTTTAATAAAAATAA
1 AAATTTTTAAAAAAAATAA
62682622 AAATATTTTAAAAAAAATA
1 AAAT-TTTTAAAAAAAATA
62682641 TTTTTAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTTTTAAAAAAAATAA
Found at i:62683483 original size:91 final size:90
Alignment explanation
Indices: 62683321--62683503 Score: 217
Period size: 91 Copynumber: 2.0 Consensus size: 90
62683311 ACCCCTGTTC
* * * * **
62683321 TTTTTTTTTACACTCATTTGGGGACTTGAACTTTCAAAATACATCTAAAAGGCCCTCAAAAATTT
1 TTTTTTTTTACACTCAATTGGGGACTTAAACTCTCAAAATACATCAAAAACACCCTCAAAAA-TT
** *
62683386 TCAAAAAAAGTAATTAAG-CTCCTACT
65 AAAAAAAAAGCAATTAAGTC-CCTACT
* * * *
62683412 TTTTTTTTTGCACTCAATTGGGTACTTAAACTCTCAAAATGCATCAAAAACACCCTC-AAACTTA
1 TTTTTTTTTACACTCAATTGGGGACTTAAACTCTCAAAATACATCAAAAACACCCTCAAAAATTA
62683476 AAAAAAAAGCAATTAAGTCCCTACT
66 AAAAAAAAGCAATTAAGTCCCTACT
62683501 TTT
1 TTT
62683504 ATTAAAAATG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
89 26 0.33
90 4 0.05
91 48 0.62
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (90 bp):
TTTTTTTTTACACTCAATTGGGGACTTAAACTCTCAAAATACATCAAAAACACCCTCAAAAATTA
AAAAAAAAGCAATTAAGTCCCTACT
Found at i:62683604 original size:10 final size:10
Alignment explanation
Indices: 62683572--62683656 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 10
62683562 TAAAAAATTC
62683572 AAATAT-TAA
1 AAATATATAA
*
62683581 AAATTTATTAAA
1 AAATATA-T-AA
62683593 AAATATATAA
1 AAATATATAA
*
62683603 AAAT-TGTAA
1 AAATATATAA
* *
62683612 AATTTTATAA
1 AAATATATAA
*
62683622 AAAT-TTTAA
1 AAATATATAA
62683631 AAA-AT-TATA
1 AAATATATA-A
*
62683640 AAATATATAG
1 AAATATATAA
62683650 AAATATA
1 AAATATA
62683657 AAATTTTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
8 2 0.03
9 24 0.40
10 22 0.37
11 4 0.07
12 8 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAATATATAA
Found at i:62683612 original size:9 final size:9
Alignment explanation
Indices: 62683587--62683659 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 9
62683577 TTAAAAATTT
62683587 ATTA-AAAA
1 ATTATAAAA
62683595 ATATATAAAA
1 AT-TATAAAA
*
62683605 ATTGTAAAA
1 ATTATAAAA
*
62683614 TTTTATAAAA
1 -ATTATAAAA
*
62683624 ATTTTAAAAA
1 ATTAT-AAAA
62683634 ATTAT-AAA
1 ATTATAAAA
*
62683642 ATATATAGAA
1 AT-TATAAAA
62683652 A-TATAAAA
1 ATTATAAAA
62683660 TTTTATAAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 13 0.25
9 14 0.27
10 24 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (9 bp):
ATTATAAAA
Found at i:62683620 original size:19 final size:19
Alignment explanation
Indices: 62683589--62683642 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
62683579 AAAAATTTAT
62683589 TAAAAAATATATAAAAATTG
1 TAAAAAAT-TATAAAAATTG
** *
62683609 TAAAATTTTATAAAAATTT
1 TAAAAAATTATAAAAATTG
62683628 TAAAAAATTATAAAA
1 TAAAAAATTATAAAA
62683643 TATATAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTG
Found at i:62685660 original size:20 final size:20
Alignment explanation
Indices: 62685615--62685660 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
62685605 ATAACGTTTC
*
62685615 AAATAAATAGATCAATATAT
1 AAATAAATAGATCAATAAAT
*
62685635 ATATAAATTAGA-CAATAAAT
1 AAATAAA-TAGATCAATAAAT
62685655 AAATAA
1 AAATAA
62685661 TAATGGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AAATAAATAGATCAATAAAT
Found at i:62687456 original size:40 final size:40
Alignment explanation
Indices: 62687398--62688006 Score: 394
Period size: 40 Copynumber: 14.7 Consensus size: 40
62687388 TATCTTCAAC
*
62687398 CTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
* *
62687438 CTGCTCCATTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GAT
*
62687480 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
** * *
62687520 CTGCTCTGCTACTACTTAGGGAGATAAGATCTGTG-GTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GAT
* * * *
62687562 CTGCTCTACTACTGCTTAGGGAGATAAGACTCGATGCAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
* *
62687602 CTGCTCTACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GAT
* *
62687644 CTGCTCCACTACTGCTTAGGGAGATAAGACTTTATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
* ***
62687684 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTG-GTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG--GCGAT
* ** * * *
62687727 CTGCTCCACTGCAACTTCAGGGAGATAGGA-TTG-GTTTCTTTCAT
1 CTGCTCCACTACTGCTT-AGGGAGATAAGACTTGAG--GC---GAT
* *
62687771 TTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
* * * *
62687811 TTGCTCCACTACTGCTTAGAGAGATAAGATTTGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
* * * ***
62687851 TTGCTCCACTATTGCTTAAGGAGATAAGATCTGTG-GTTTTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG--GCGAT
* * *** ** * ** *
62687894 CCGCTCCACTGCAATTTCAAAGAGATAGGA-TTGATTTCTACTGT
1 CTGCTCCACTACTGCTT-AGGGAGATAAGACTTGA-GGCGA---T
* *
62687938 CTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
*
62687978 CTGCTCAACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
62688007 TCTGTGGTTT
Statistics
Matches: 450, Mismatches: 80, Indels: 78
0.74 0.13 0.13
Matches are distributed among these distances:
39 2 0.00
40 215 0.48
41 26 0.06
42 99 0.22
43 53 0.12
44 55 0.12
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
Found at i:62687510 original size:82 final size:82
Alignment explanation
Indices: 62687398--62688006 Score: 631
Period size: 82 Copynumber: 7.4 Consensus size: 82
62687388 TATCTTCAAC
* * *
62687398 CTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGCGATCTGCTCCATTACTGCTTAGGGAGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
62687463 AAGATCTGTGGTTCTGT
66 AAGATCTGTGGTTCTGT
** *
62687480 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTGCTACTACTTAGGGAGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
62687545 AAGATCTGTGGTTCTGT
66 AAGATCTGTGGTTCTGT
* * * *
62687562 CTGCTCTACTACTGCTTAGGGAGATAAGACTCGATGCAATCTGCTCTACTACTGCTTAGGGAGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
62687627 AAGATCTGTGGTTCTGT
66 AAGATCTGTGGTTCTGT
* *
62687644 CTGCTCCACTACTGCTTAGGGAGATAAGACTTTATGCGATCTGCTCCGCTACTGCTTAGGGAGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
* *
62687709 AAGATCTGTGGTTTTAAT
66 AAGATCTGTGGTTCT-GT
* ** * * * * *
62687727 CTGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTTCATTTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTT-AGGGAGATAAGACTT-GATGC---GATCTGCTCCACTACTGCTTAGG
* *
62687791 GAGATAAGA-CT-TGATGC-GAT
61 GAGATAAGATCTGTGGTTCTG-T
* * * * * *
62687811 TTGCTCCACTACTGCTTAGAGAGATAAGATTTGATGCGATTTGCTCCACTATTGCTTAAGGAGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
* *
62687876 AAGATCTGTGGTTTTAAT
66 AAGATCTGTGGTTCT-GT
* * *** ** * * *
62687894 CCGCTCCACTGCAATTTCAAAGAGATAGGA-TTGATTTCTACTGTCTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTT-AGGGAGATAAGACTTGA-TGCGA---TCTGCTCCACTACTGCTTAGG
* *
62687958 GAGATAAGA-CTG-GATGC-GAT
61 GAGATAAGATCTGTGGTTCTG-T
*
62687978 CTGCTCAACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
62688007 TCTGTGGTTT
Statistics
Matches: 435, Mismatches: 74, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
80 29 0.07
81 2 0.00
82 229 0.53
83 55 0.13
84 54 0.12
85 5 0.01
86 5 0.01
87 56 0.13
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (82 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
AAGATCTGTGGTTCTGT
Found at i:62687876 original size:167 final size:167
Alignment explanation
Indices: 62687439--62688007 Score: 683
Period size: 167 Copynumber: 3.4 Consensus size: 167
62687429 TGAGGCGATC
* * *
62687439 TGCTCCATTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATGCTGTCTGCTCCACTACTGCTTAGGGAGA
* * * * *
62687504 TAAGACTTGATGCGATCTGCTCTGCTACTACTTAGGGAGATAAGATCTGTGGTTCT-GTCTGCTC
66 TAAGATTTGATGCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTC
* * ** * * * * * * *
62687568 TACTACTGCTT-AGGGAGATAAGACTCGATGC-AATC
131 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTCATT
* * *
62687603 TGCTCTACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATGCTGTCTGCTCCACTACTGCTTAGGGAGA
62687668 TAAGACTTT-ATGCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCT
66 TAAGA-TTTGATGCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCT
62687732 CCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCATT
130 CCACTGCAACTTCAGGGAGATAGGATTGGTTTC--TCATT
* *
62687772 TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGC-GATTTGCTCCACTACTGCTTAGAGAG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATGCTG-TCTGCTCCACTACTGCTTAGGGAG
* * * * *
62687834 ATAAGATTTGATGCGATTTGCTCCACTATTGCTTAAGGAGATAAGATCTGTGGTTTTAATCCGCT
65 ATAAGATTTGATGCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCT
* ** *
62687899 CCACTGCAATTTCAAAGAGATAGGATTGATTTCT-ACTGT
130 CCACTGCAACTTCAGGGAGATAGGATTGGTTTCTCA-T-T
*
62687938 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTG-GATGC-GATCTGCTCAACTACTGCTTAGGGA
1 -TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATGCTG-TCTGCTCCACTACTGCTTAGGGA
62688000 GATAAGAT
64 GATAAGAT
62688008 CTGTGGTTTT
Statistics
Matches: 358, Mismatches: 35, Indels: 21
0.86 0.08 0.05
Matches are distributed among these distances:
164 113 0.32
165 18 0.05
166 20 0.06
167 176 0.49
168 2 0.01
169 29 0.08
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (167 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATGCTGTCTGCTCCACTACTGCTTAGGGAGA
TAAGATTTGATGCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTC
CACTGCAACTTCAGGGAGATAGGATTGGTTTCTCATT
Found at i:62688058 original size:127 final size:126
Alignment explanation
Indices: 62687437--62688059 Score: 434
Period size: 127 Copynumber: 5.0 Consensus size: 126
62687427 CTTGAGGCGA
* * * **
62687437 TCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTG-GATGCAATCTGCTCCACTACTGCTTAGGGA
* *** * ** * * * *
62687502 GATAAGA-CT-T-GATGCGATCTGCTCTGCTACTACTTAGGGAGATAAGATCT-GTGGT-T-CTG
64 GATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAGGGAGATAAAAT-TAAT-TTCTACTG
* * *
62687561 TCTGCTCTACTACTGCTTAGGGAGATAAGACTCGATGCAATCTGCTCTACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCAATCTGCTCCACTACTGCTTAGGGAGA
* * * ** * * * *
62687626 TAAGATCTGTGGTTCT-GTCTGCTCCACTACTGCTTAGGGAGAT--AA-GACTTTATGC-G
66 TAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAGGGAGATAAAATTAATTTCTACTG
* * ** * **
62687682 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGCAATCTGCTCCACTACTGCTT-AG
* * * ** ** * * * *
62687747 GGAGATAGGAT-TG-GTTTCTTTCATTTGCTCCACTACTGCTTAGGGAGATAAGACTTGA-TGCG
61 GGAGATAAGATCTGTG-GT-TTTAATCCGCTCCACTACAACTTAGGGAGATAA-AATTAATTTCT
62687809 A-T-
123 ACTG
* * * * * * *
62687811 T-TGCTCCACTACTGCTTAGAGAGATAAGATTTGATGCGATTTGCTCCACTATTGCTTAAGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCAATCTGCTCCACTACTGCTTAGGGAGA
* * ** ** *
62687875 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAATTTCAAAGAGATAGGATTGATTTCTACTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTACAACTT-AGGGAGATAAAATTAATTTCTACTG
* *
62687937 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCAACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCAATCTGCTCCACTACTGCTTAGGGAGA
*
62688002 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAAATTAATTTCT
66 TAAGATCTGTGGTTTTAATCCGCTCCACTACAACTT-AGGGAGATAAAATTAATTTCT
62688060 GTCAAATTAA
Statistics
Matches: 388, Mismatches: 85, Indels: 49
0.74 0.16 0.09
Matches are distributed among these distances:
120 1 0.00
121 3 0.01
122 62 0.16
123 36 0.09
124 83 0.21
125 26 0.07
126 15 0.04
127 159 0.41
128 1 0.00
130 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (126 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCAATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAGGGAGATAAAATTAATTTCTACTG
Found at i:62688158 original size:50 final size:50
Alignment explanation
Indices: 62688104--62688260 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 50
62688094 GCCGTTGCGA
* * *
62688104 CTTCAATATGCTCCACTGCACCGCCAAGGAAGTAAGATTCGCTGTCGTGG
1 CTTCAATATGCTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTCGTGG
* ** ** * * * * * * *
62688154 CTTCAATCTTTTTAATTACAATC-TCTGGGAAGCAAGATTCACCGTCGTAG
1 CTTCAATATGCTCCACTGC-ACCGCCAGGGAAGTAAGATTCACCGTCGTGG
*
62688204 CTTCAATTTGCTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTCGTGG
1 CTTCAATATGCTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTCGTGG
62688254 CTTCAAT
1 CTTCAAT
62688261 CTTTTTAATT
Statistics
Matches: 78, Mismatches: 27, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
49 2 0.03
50 74 0.95
51 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CTTCAATATGCTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTCGTGG
Found at i:62688284 original size:50 final size:50
Alignment explanation
Indices: 62688131--62688709 Score: 290
Period size: 50 Copynumber: 11.6 Consensus size: 50
62688121 GCACCGCCAA
* * * * * * *
62688131 GGAAGTAAGATTCGCTGTCGTGGCTTCAATCTTTTTAATTACAATCTCTG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * ** *
62688181 GGAAGCAAGATTCACCGTCGTAGCTTCAAT-TTGCTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTT-TTCAATTGCAATGTCAG
* * * * * *
62688231 GGAAGTAAGATTCACCGTCGTGGCTTCAATCTTTTTAATTGCAATATCGG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
* * ** * * * * **
62688281 GGAA-CCAGATTCACCGTTATAGCTTCAATCTGTTCCACTGCACTACCAG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
* * * ** * * *
62688330 GGAAGTAAGATTCGTCGTTGCGGCTTCAATTTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
* * ** * * * *
62688380 GGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGC-ATCGCCAA
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * * * ** * *
62688429 GGAAGTAAAATTTGTCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
* * ** * * *
62688479 GGAA-CAAGATTCGTCGTCGTAGCTTTAATCTGATCCACTGC-ATCGCCAG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * ** * * *
62688528 GGAAGTAAGATTCGGCGTTGCGGCTTCAATATTTTAAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
* * ** * * * *
62688578 GGAAGCAAGATTCACCGTCGTAGCTTTAATCTGATCCACTGC-ATCGCCAA
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * ** * *
62688628 GGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTAAATTGTAATGTCAG
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
* *
62688678 AGAAGCAAGATTCGCCGTCATAGCTTCAATCT
1 GGAAGCAAGATTCGCCGTCGTAGCTTCAATCT
62688710 GCTCTACTAT
Statistics
Matches: 370, Mismatches: 148, Indels: 22
0.69 0.27 0.04
Matches are distributed among these distances:
48 4 0.01
49 105 0.28
50 253 0.68
51 8 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGTCGTAGCTTCAATCTTTTCAATTGCAATGTCAG
Found at i:62688336 original size:99 final size:100
Alignment explanation
Indices: 62688066--62688710 Score: 784
Period size: 99 Copynumber: 6.5 Consensus size: 100
62688056 TTCTGTCAAA
* ** * * *
62688066 TTAACTGCAATGTCGGGGAA-CAAGATTTGCCGTTGCG-A-CTTCAATATGCTCCACTGCACCGC
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCG-T-CGTAGCTTCAATCTGATCCACTGCATCGC
* *
62688128 CAAGGAAGTAAGATTCG-CTGTCGTGGCTTCAATCTTT
64 CAAGGAAGTAAGATTCGTC-GTTGCGGCTTCAATCTTT
* * * * * *
62688165 TTAATTACAATCTCTGGGAAGCAAGATTCACCGTCGTAGCTTCAATTTGCTCCACTGCACCGCCA
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCATCGCCA
* ** * *
62688230 GGGAAGTAAGATTCACCGTCGTGGCTTCAATCTTT
66 AGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
* * ** * *
62688265 TTAATTGCAATATCGGGGAA-CCAGATTCACCGTTATAGCTTCAATCTGTTCCACTGCA-CTACC
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCATC-GCC
* *
62688328 AGGGAAGTAAGATTCGTCGTTGCGGCTTCAATTTTT
65 AAGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
* * *
62688364 TTAATTGCAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCA
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCATCGCCA
* *
62688428 AGGAAGTAAAATTTGTCGTTGCGGCTTCAATCTTT
66 AGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
** *
62688463 TTAATTGCAATGTCGGGGAA-CAAGATTCGTCGTCGTAGCTTTAATCTGATCCACTGCATCGCCA
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCATCGCCA
* * *
62688527 GGGAAGTAAGATTCGGCGTTGCGGCTTCAATATTT
66 AGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
* *
62688562 TAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGATCCACTGCATCGCCA
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCATCGCCA
62688627 AGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
66 AGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
* * * * * *
62688662 TAAATTGTAATGTCAGAGAAGCAAGATTCGCCGTCATAGCTTCAATCTG
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTG
62688711 CTCTACTATA
Statistics
Matches: 484, Mismatches: 55, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
98 3 0.01
99 279 0.58
100 201 0.42
101 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (100 bp):
TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCATCGCCA
AGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
Found at i:62689995 original size:17 final size:16
Alignment explanation
Indices: 62689970--62690012 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
62689960 TCACCTTGGC
*
62689970 TTCTCCTTTCTTTTTCA
1 TTCTTCTTTCTTTTT-A
62689987 TTCTTCTTTTCTTTTTA
1 TTCTTC-TTTCTTTTTA
*
62690004 TTTTTCTTT
1 TTCTTCTTT
62690013 TTTGTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 11 0.48
18 9 0.39
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTCTTTCTTTTTA
Found at i:62690008 original size:12 final size:11
Alignment explanation
Indices: 62689993--62690026 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
62689983 TTCATTCTTC
62689993 TTTTCTTTTTAT
1 TTTTCTTTTT-T
62690005 TTTTCTTTTTT
1 TTTTCTTTTTT
*
62690016 GTTTCTTTTTT
1 TTTTCTTTTTT
62690027 CAAGTGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:62690014 original size:18 final size:18
Alignment explanation
Indices: 62689976--62690013 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
62689966 TGGCTTCTCC
62689976 TTTCTTTTTCATTCTTCT
1 TTTCTTTTTCATTCTTCT
*
62689994 TTTCTTTTT-ATTTTTCT
1 TTTCTTTTTCATTCTTCT
62690011 TTT
1 TTT
62690014 TTGTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTTCATTCTTCT
Found at i:62693185 original size:19 final size:19
Alignment explanation
Indices: 62693161--62693206 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
62693151 ATGAAACTCT
*
62693161 AATGCATATG-ATGCAATAG
1 AATGCAAATGCATGCAAT-G
*
62693180 AATGCAAATGCATGGAATG
1 AATGCAAATGCATGCAATG
62693199 AATGCAAA
1 AATGCAAA
62693207 AGAAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGCAATG
Found at i:62695167 original size:20 final size:20
Alignment explanation
Indices: 62695142--62695179 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
62695132 TGTGAAGGCA
62695142 TTTCAAAATAAATA-ATTACG
1 TTTC-AAATAAATAGATTACG
62695162 TTTCAAATAAATAGATTA
1 TTTCAAATAAATAGATTA
62695180 ATATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
TTTCAAATAAATAGATTACG
Found at i:62696198 original size:18 final size:19
Alignment explanation
Indices: 62696170--62696205 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
62696160 AAAAAAAGTA
*
62696170 AAATAAAATAAGATAAAAC
1 AAATAAAATAAGAGAAAAC
62696189 AAAT-AAATAAGAGAAAA
1 AAATAAAATAAGAGAAAA
62696206 TGAAGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (19 bp):
AAATAAAATAAGAGAAAAC
Found at i:62705791 original size:87 final size:87
Alignment explanation
Indices: 62705686--62705844 Score: 275
Period size: 87 Copynumber: 1.8 Consensus size: 87
62705676 TAAGAGCAGG
*
62705686 GGCTTAATTGCTTTTTTGAAAAAAATTTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
1 GGCTTAATTGCTTTTTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
62705751 AATTGAGTGGGAAAAAACTAAA
66 AATTGAGTGGGAAAAAACTAAA
* *
62705773 GGCTTAATTG-TTTCTTTGAAAAAAAATTAAGGTCTTTTTGATGCATTATGACAGTTCAAGTACC
1 GGCTTAATTGCTTT-TTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACC
62705837 CAATTGAG
65 CAATTGAG
62705845 CAGAAAAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
86 3 0.04
87 65 0.96
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (87 bp):
GGCTTAATTGCTTTTTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
AATTGAGTGGGAAAAAACTAAA
Found at i:62705853 original size:87 final size:87
Alignment explanation
Indices: 62705686--62705875 Score: 269
Period size: 87 Copynumber: 2.2 Consensus size: 87
62705676 TAAGAGCAGG
*
62705686 GGCTTAATTGCTTTTTTGAAAAAAATTTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
1 GGCTTAATTGCTTTTTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
** *
62705751 AATTGAGTGGGAAAAAACTAAA
66 AATTGAGCAGAAAAAAACTAAA
* *
62705773 GGCTTAATTG-TTTCTTTGAAAAAAAATTAAGGTCTTTTTGATGCATTATGACAGTTCAAGTACC
1 GGCTTAATTGCTTT-TTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACC
*
62705837 CAATTGAGCAGAAAAAAA-T-AG
65 CAATTGAGCAGAAAAAAACTAAA
*
62705858 GGATTTAATTGCTTTTTT
1 GG-CTTAATTGCTTTTTT
62705876 TTAAGAAGTG
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
85 3 0.03
86 14 0.15
87 75 0.82
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (87 bp):
GGCTTAATTGCTTTTTTGAAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCC
AATTGAGCAGAAAAAAACTAAA
Found at i:62707417 original size:18 final size:20
Alignment explanation
Indices: 62707396--62707432 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
62707386 TATTTTGTTT
62707396 TATTT-ATTTCTA-AACCCA
1 TATTTCATTTCTACAACCCA
*
62707414 TATTTCTTTTCTACAACCC
1 TATTTCATTTCTACAACCC
62707433 CAATTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 6 0.38
20 5 0.31
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTTCATTTCTACAACCCA
Found at i:62711273 original size:29 final size:29
Alignment explanation
Indices: 62711240--62711337 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
62711230 AATAGTTTAG
62711240 GTACCACATTAAACATTTTCAAAGTACAT
1 GTACCACATTAAACATTTTCAAAGTACAT
* ** * * * *
62711269 GTACCATAATAATAACACATACTGATAGTTCAG
1 GTACCA-CAT--TAA-ACATTTTCAAAGTACAT
* * *
62711302 GTACCACATTATATATTTTCAAAGTACTT
1 GTACCACATTAAACATTTTCAAAGTACAT
62711331 GTACCAC
1 GTACCAC
62711338 TAGACATTTT
Statistics
Matches: 48, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
29 22 0.46
30 4 0.08
32 5 0.10
33 17 0.35
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (29 bp):
GTACCACATTAAACATTTTCAAAGTACAT
Found at i:62713690 original size:28 final size:29
Alignment explanation
Indices: 62713628--62713690 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
62713618 ATTTCCCTCA
*
62713628 TTTTCTCTCACTTTATTTATATTTGAAAT
1 TTTTATCTCACTTTATTTATATTTGAAAT
* **
62713657 TCTTATCT-ACTTTCATTTA-ATTTTTAAT
1 TTTTATCTCACTTT-ATTTATATTTGAAAT
62713685 TTTTAT
1 TTTTAT
62713691 AATTTTGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTATCTCACTTTATTTATATTTGAAAT
Found at i:62717377 original size:17 final size:17
Alignment explanation
Indices: 62717355--62717388 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62717345 ATCCACTAAT
*
62717355 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62717372 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62717389 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62731485 original size:32 final size:29
Alignment explanation
Indices: 62731419--62731485 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
62731409 GATAGTTCAC
*
62731419 GTACCACATTAGACATTTTTAAAGTACAA
1 GTACTACATTAGACATTTTTAAAGTACAA
* *
62731448 ATACTACATTAGACATTTTATAAAAAGTACAT
1 GTACTACATTAGACATTTT-T--AAAGTACAA
62731480 GTACTA
1 GTACTA
62731486 TGATAGAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 17 0.55
30 1 0.03
32 13 0.42
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (29 bp):
GTACTACATTAGACATTTTTAAAGTACAA
Found at i:62734019 original size:51 final size:51
Alignment explanation
Indices: 62733914--62734012 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
62733904 AACCCACCCT
*
62733914 TAGTTTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAATGAA
1 TAGTCTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAATGAA
* *
62733965 TAGTCTTAGTCTTTTTTTGTGGAGTTAAAAGTATAGTCAATAGACAAT
1 TAGTCTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAAT
62734013 TGATAGTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (51 bp):
TAGTCTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAATGAA
Found at i:62735693 original size:22 final size:22
Alignment explanation
Indices: 62735634--62735693 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
62735624 TTTGTACTTG
* *
62735634 ATTTGGTTTTGGTTATTTGGACC
1 ATTTGGGTTT-GTAATTTGGACC
*
62735657 ATATTGGG--TGTAATTTGGGCC
1 AT-TTGGGTTTGTAATTTGGACC
62735678 ATTTGGGTTTGTAATT
1 ATTTGGGTTTGTAATT
62735694 GATTTGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 5 0.16
21 12 0.39
22 8 0.26
23 2 0.06
24 4 0.13
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (22 bp):
ATTTGGGTTTGTAATTTGGACC
Found at i:62737721 original size:62 final size:61
Alignment explanation
Indices: 62737646--62737770 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 61
62737636 AAATGTCTAG
* * * *
62737646 TGGTACAAGTACTTCGAAAATATATAATGTGGTACTTGAACTATCAATATGTGTTATTATTA
1 TGGTACAAGTACTTCGAAAATATATAATGTGGTACCTAAACTATCAATATATGGT-TTATTA
* * * *
62737708 TGGTACATGTACTTTGAAAATATTTAATGTGGTACCTAAACTATTAATATATGGTTTATTA
1 TGGTACAAGTACTTCGAAAATATATAATGTGGTACCTAAACTATCAATATATGGTTTATTA
62737769 TG
1 TG
62737771 ATACTTGGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 8 0.15
62 47 0.85
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (61 bp):
TGGTACAAGTACTTCGAAAATATATAATGTGGTACCTAAACTATCAATATATGGTTTATTA
Found at i:62737741 original size:29 final size:29
Alignment explanation
Indices: 62737645--62737742 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
62737635 AAAATGTCTA
* * *
62737645 GTGGTACAAGTACTTCGAAAATATATAAT
1 GTGGTACATGTACTTTGAAAATATTTAAT
* * * * * *
62737674 GTGGTACTTGAACTATCAATATGTGTTATTATT
1 GTGGTACATGTACTTTGAAAATAT-TTA--A-T
*
62737707 ATGGTACATGTACTTTGAAAATATTTAAT
1 GTGGTACATGTACTTTGAAAATATTTAAT
62737736 GTGGTAC
1 GTGGTAC
62737743 CTAAACTATT
Statistics
Matches: 48, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
29 23 0.48
30 3 0.06
32 4 0.08
33 18 0.38
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (29 bp):
GTGGTACATGTACTTTGAAAATATTTAAT
Found at i:62743172 original size:42 final size:42
Alignment explanation
Indices: 62743113--62743199 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
62743103 TTTCAAATCA
62743113 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
1 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
62743155 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
1 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
62743197 TTC
1 TTC
62743200 AAGATGACGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (42 bp):
TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
Found at i:62755738 original size:67 final size:67
Alignment explanation
Indices: 62755630--62755760 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
62755620 CAATTCAGAG
62755630 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAAG
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAAG
62755695 AT
66 AT
* * *
62755697 AGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCTTGCAA
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAA
62755761 CGACAATTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (67 bp):
AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAAG
AT
Found at i:62755922 original size:57 final size:58
Alignment explanation
Indices: 62755834--62755972 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 58
62755824 CGGATTACTC
* * * *
62755834 GTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGCCTATATC-AAGATCACCT
1 GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGAAGGCATATATCAAAGATCACCT
* *
62755891 GTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGAAGGGATATATCAGGATAATATCACCT
1 GTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGAAGGCATATATC---A-AAGATCACCT
62755953 GTCCGGGCTAGATCCTTTTT
1 GTCCGGGCTAGATCCTTTTT
62755973 ACCGTCAATT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
56 6 0.09
57 35 0.51
62 22 0.32
63 6 0.09
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (58 bp):
GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGAAGGCATATATCAAAGATCACCT
Found at i:62759623 original size:12 final size:12
Alignment explanation
Indices: 62759602--62759636 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
62759592 TTTCTTTTAC
*
62759602 TATATTTATTAT
1 TATATCTATTAT
62759614 TATATCTATTAT
1 TATATCTATTAT
62759626 TATTATCTATT
1 TA-TATCTATT
62759637 TATGCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATCTATTAT
Found at i:62759849 original size:19 final size:19
Alignment explanation
Indices: 62759825--62759866 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
62759815 TAGAACTATC
*
62759825 ATTTATTTTATT-ATTGATT
1 ATTTATTTAATTAATT-ATT
62759844 ATTTATTTAATTAATTATT
1 ATTTATTTAATTAATTATT
62759863 ATTT
1 ATTT
62759867 TTGAACGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTAATTAATTATT
Found at i:62760254 original size:131 final size:131
Alignment explanation
Indices: 62760020--62760286 Score: 446
Period size: 131 Copynumber: 2.0 Consensus size: 131
62760010 GAAAATTTCG
* * *
62760020 AAAAATAAAGGTAATATTTCATATTTAGAAATTCGAAAAGTTGTGCCCTAACTTACTGGTTTTCG
1 AAAAATAAAGGCAATATTCCATATTTAAAAATTCGAAAAGTTGTGCCCTAACTTACTGGTTTTCG
62760085 ATTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAA
66 ATTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAA
62760150 T
131 T
* * *
62760151 AAAAATAAAGGCAATATTCCGTATTTAAAAATTCGAGAAGTTGTGCCTTAACTTACTGGGTTTT-
1 AAAAATAAAGGCAATATTCCATATTTAAAAATTCGAAAAGTTGTGCCCTAACTTACT-GGTTTTC
* *
62760215 GATTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAA
65 GATTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAA
62760280 AT
130 AT
62760282 AAAAA
1 AAAAA
62760287 CAAATGCGAG
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 121 0.95
132 6 0.05
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (131 bp):
AAAAATAAAGGCAATATTCCATATTTAAAAATTCGAAAAGTTGTGCCCTAACTTACTGGTTTTCG
ATTTTTCTCGCGTTAAACCTAAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAA
T
Found at i:62766202 original size:18 final size:18
Alignment explanation
Indices: 62766175--62766264 Score: 90
Period size: 18 Copynumber: 5.0 Consensus size: 18
62766165 CCCAACTACT
*
62766175 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* **
62766193 GTATATGTGAATAGTGTC
1 GTATACGTGAATAGTACC
** *
62766211 GTATATATGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
62766229 ATATACATGAATAGTATC
1 GTATACGTGAATAGTACC
62766247 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
62766265 ATAAACGGTC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:62768531 original size:14 final size:14
Alignment explanation
Indices: 62768512--62768538 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62768502 TATAATTATC
62768512 AAATATTAAATAAT
1 AAATATTAAATAAT
62768526 AAATATTAAATAA
1 AAATATTAAATAA
62768539 AATAATTATA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATATTAAATAAT
Found at i:62774359 original size:29 final size:29
Alignment explanation
Indices: 62774300--62774360 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
62774290 TTATATACAC
* * * * *
62774300 TTTATACTATATATATATACGTGCATTTT
1 TTTATAATATATATACACACGTACATATT
*
62774329 TTTATAATATATATACACATGTACATATT
1 TTTATAATATATATACACACGTACATATT
62774358 TTT
1 TTT
62774361 TTAAACTTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (29 bp):
TTTATAATATATATACACACGTACATATT
Found at i:62775459 original size:18 final size:17
Alignment explanation
Indices: 62775436--62775469 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
62775426 GGTGCTAATC
62775436 CTTTTATATTTACATAAA
1 CTTTTATATTTA-ATAAA
62775454 CTTTTATATTTAATAA
1 CTTTTATATTTAATAA
62775470 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
CTTTTATATTTAATAAA
Found at i:62776092 original size:108 final size:106
Alignment explanation
Indices: 62775864--62776182 Score: 412
Period size: 108 Copynumber: 3.0 Consensus size: 106
62775854 TTCAAAAAGG
* *
62775864 AAAAATTTTCTAAATGAGGCAATATTTAGCGTTTGGAAATTCGAGGAAACGTGCTCTAATGTGCT
1 AAAAA-TTTC-AAATAAGGCAATATTTTGCGTTTGGAAATTCGA-GAAACGTGC-CTAATGTGCT
*
62775929 GGGTTTCGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTC
62 GGGTTTCGA-TTTTTCTCGTTCAACCAAATAGCTAAATAT-CTTTCC
* *
62775976 -AAAATTTCAAAATAAGGCAAT-TTTTGCGTTTGGAAATTCGAGAAAATGTGCCATAATGTGTTG
1 AAAAATTTC-AAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-AAACGTGCC-TAATGTGCTG
*
62776039 GGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCTTTCC
63 GGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCTTTCC
* * * * *
62776083 AAAAATTTCAAATAAGGAAATGTTTTGCTTTTGGAAATTTGAGGAACGTGCCCTAATGTGCTGGG
1 AAAAATTTCAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTG-CCTAATGTGCTGGG
*
62776148 TTTCGA--TTTCTCGTTTAACCAAATAGCTAAATATC
65 TTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATC
62776183 CTCTTGAATT
Statistics
Matches: 187, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
105 27 0.14
107 38 0.20
108 60 0.32
109 43 0.23
110 15 0.08
111 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (106 bp):
AAAAATTTCAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCTAATGTGCTGGGT
TTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCTTTCC
Found at i:62778772 original size:24 final size:24
Alignment explanation
Indices: 62778745--62778792 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
62778735 AGACATAGTG
62778745 ATGTCTGGAGAAATGATAGAGAAT
1 ATGTCTGGAGAAATGATAGAGAAT
62778769 ATGTCTGGAGAAATGATAGAGAAT
1 ATGTCTGGAGAAATGATAGAGAAT
62778793 GCCATAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (24 bp):
ATGTCTGGAGAAATGATAGAGAAT
Found at i:62780539 original size:10 final size:10
Alignment explanation
Indices: 62780524--62780577 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
62780514 TAAGATTCAA
62780524 AAAAAAAAAG
1 AAAAAAAAAG
62780534 AAAAAAGAAA-
1 AAAAAA-AAAG
62780544 AAAAAAGAAGAG
1 AAAAAA-AA-AG
62780556 AAAAGAAAAAG
1 AAAA-AAAAAG
*
62780567 AAAAAAGAAG
1 AAAAAAAAAG
62780577 A
1 A
62780578 GGCCAAGGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 21 0.54
11 10 0.26
12 6 0.15
13 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:62780547 original size:20 final size:20
Alignment explanation
Indices: 62780522--62780575 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
62780512 GTTAAGATTC
62780522 AAAAAAAAAAAGAAAAAAGA
1 AAAAAAAAAAAGAAAAAAGA
* *
62780542 AAAAAAAAGAAGAGAAAAGA
1 AAAAAAAAAAAGAAAAAAGA
*
62780562 AAAAGAAAAAAGAA
1 AAAAAAAAAAAGAA
62780576 GAGGCCAAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAAAAGA
Found at i:62780573 original size:7 final size:7
Alignment explanation
Indices: 62780522--62780575 Score: 69
Period size: 7 Copynumber: 8.1 Consensus size: 7
62780512 GTTAAGATTC
62780522 AAAAA-A
1 AAAAAGA
62780528 AAAAAGA
1 AAAAAGA
62780535 AAAAAGA
1 AAAAAGA
62780542 AAAAA-A
1 AAAAAGA
*
62780548 AAGAAGA
1 AAAAAGA
*
62780555 GAAAAG-
1 AAAAAGA
62780561 AAAAAGA
1 AAAAAGA
62780568 AAAAAGA
1 AAAAAGA
62780575 A
1 A
62780576 GAGGCCAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 15 0.37
7 26 0.63
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:62782270 original size:99 final size:99
Alignment explanation
Indices: 62781860--62783097 Score: 1602
Period size: 99 Copynumber: 12.5 Consensus size: 99
62781850 GAAACCATAG
* * * * *
62781860 ATTGCAATTTAAAAGATTAAAGCCACAATGACGAATCTTACTTCTCAGGCGATGCAACGGAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTC-CAGGCGATGCAGCGGAACAG
* * * * *
62781925 ATTGAAGCAACGACGGTGAATCTCGCTTCCCTGAC
65 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * *
62781960 ATTGTAATTTAAAAGATTGAAGCCACAACTGTGAATCTTACTTCCCAGGCGATGCAGCGAAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGCAGCGGAACAG
* * * *
62782025 ATTGAAGCTACGACGGCGAATCTCGTTTCCCCAAC
65 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * *
62782060 ATTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCAGACGATGTAGCGAAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* * *
62782125 TT-TAGCTACAACGACGAATCTTGCTTCCCCAAC
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * *
62782158 ATTGTAATTTAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCAGGCAATGCAGCGGAACAAA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
62782223 TTGAAGCTACAACGGCGAATTTTGCTTCCCCGAC
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * * *
62782257 ATTGCAATTTAAAAGATTGAAGCTATAACTGTGAATCTTACTTTCAGGCGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
62782322 TTGAAGCTACAACGGCGAATCTTGCTTCCCCAAC
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* *
62782356 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAATAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* * * * *
62782421 TTGAAGCTACGATGGCGAATTTTCCTTCCCTGAC
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * *
62782455 ATTGCAATTTAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCAAGCGATGCAGCAGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* *
62782520 TTGAAGCTACAATGGCGAAT-TTTCATTCCCCGAC
66 TTGAAGCTACAACGGCGAATCTTGC-TTCCCCGAC
* *
62782554 ATTGCAATTTAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCAGGCGATGCAGCAGAACAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* *
62782619 TTGAAGCTACAATGGCGAATTTTGCTTCCCCGAC
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * * * *
62782653 ATTACAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCCAAGCGGTGAAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TT-CCAGGCGATGCAGCGGAACA
* ** * * * *
62782718 AATTGAAGCTATGACGACAAATCTTCCTTCCTCGAC
64 GATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * *
62782754 ATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCAGGCGATGCAGCGAAACAA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCAGGCGATGCAGCGGAACAG
62782819 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
65 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * *
62782854 ATTGCAATTTAAAAGATTGAGGCCACAACGGCGAATC-TACTTCCAGGCGATGCAGCAGAATAGA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* *
62782918 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGAC
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * * *
62782952 ATTGCAATTTAAAATATTGAAGCCACAACGGCGAACCTTACTTTCCCAAGCGGTGCAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TT-CCAGGCGATGCAGCGGAACA
* *
62783017 GATTGAAGCTACGACGGCGAATCTTACTTCCCCGAC
64 GATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
** * *
62783053 ATTGC-GGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCC
1 ATTGCAATTTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTCC
62783098 CTGACGGTGA
Statistics
Matches: 1004, Mismatches: 124, Indels: 21
0.87 0.11 0.02
Matches are distributed among these distances:
98 174 0.17
99 449 0.45
100 218 0.22
101 163 0.16
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (99 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
TTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC
Found at i:62783075 original size:50 final size:49
Alignment explanation
Indices: 62781923--62783098 Score: 676
Period size: 50 Copynumber: 23.7 Consensus size: 49
62781913 GCAACGGAAT
* * * ** * * *
62781923 AGATTGAAGCAACGACGGTGAATCTCGCTTCCCTGACATTGTAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTG-CAGTTAAA
* * * * * **
62781973 AGATTGAAGCCACAACTGTGAATCTTACTTCCCAGGCGA-TGCAGCGAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAAA
* *** * *
62782022 CAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACATTGCAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTTAAA
* * * * **
62782073 AGATTGAAGCCACAACGGTGAATCTTACTT-CCAGACGA-TGTAGCGAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAAA
* * * * * *
62782121 CAGATT-TAGCTACAACGACGAATCTTGCTTCCCCAACATTGTAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTG-CAGTTAAA
* * * **
62782171 AGATTGAAG-TCACAACGGCGAATCTTACTT-CCAGGCAATGCAGCGGAACA
1 AGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGACATTGCAG-TTAA-A
* * *
62782221 A-ATTGAAGCTACAACGGCGAATTTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTTAAA
* * * * * * ** *
62782270 AGATTGAAGCTATAACTGTGAATCTTACTT-TCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAG-TTAAA
* * *
62782319 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTTAAA
* * * * *
62782369 AGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGA-TGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGT-TAAA
* * * * * *
62782418 AGATTGAAGCTACGATGGCGAATTTTCCTTCCCTGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTTAAA
** *
62782468 AGATTGAAG-TCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAG-CAGAA
1 AGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AA
* * *
62782516 CAGATTGAAGCTACAATGGCGAAT-TTTCATTCCCCGACATTGCAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCCGACATTGC-AGTTAAA
* * *
62782567 AGATTGAAG-TCACAACGGCGAATCTTACTT-CCAGGCGA-TGCAG-CAGAA
1 AGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AA
* * * * *
62782615 CAGATTGAAGCTACAATGGCGAATTTTGCTTCCCCGACATTACAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTTAAA
* * * * ** * *
62782666 AGATTGAAGCCACAACGGTGAATCTTACTTTCCCAAGCGGTGAAGTGGAACA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAGT-TAA-A
** * * * * *
62782718 A-ATTGAAGCTATGACGACAAATCTTCCTTCCTCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTT-AAA
* * * * * **
62782767 AGATTGAAGCCACAACGGTGAATCTTACTTTCCAGGCGA-TGCAGCGAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAAA
* * *
62782816 CAAATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTTAAA
* * * * *
62782867 AGATTGAGGCCACAACGGCGAATC-TACTT-CCAGGCGA-TGCAG-CAGAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AA
* * * *
62782914 TAGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTTAAA
* * * * * ** * *
62782965 ATATTGAAGCCACAACGGCGAACCTTACTTTCCCAAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAGT-TAAA
* *
62783016 AGATTGAAGCTACGACGGCGAATCTTACTTCCCCGACATTGCGGTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAA
*
62783065 TAGATTGAAGCTACAACAGCGAATCTTACTTCCC
1 -AGATTGAAGCTACAACGGCGAATCTTACTTCCC
62783099 TGACGGTGAA
Statistics
Matches: 828, Mismatches: 231, Indels: 134
0.69 0.19 0.11
Matches are distributed among these distances:
46 1 0.00
47 5 0.01
48 64 0.08
49 214 0.26
50 449 0.54
51 90 0.11
52 5 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAA
Found at i:62785025 original size:37 final size:35
Alignment explanation
Indices: 62784955--62785033 Score: 86
Period size: 37 Copynumber: 2.2 Consensus size: 35
62784945 ATGCGTGCAT
* * *
62784955 TTTTATATTATACATACATATTTCTATAATTTATT
1 TTTTATATTATACATACATATATATATAATTTATA
* * *
62784990 TATTTATATATATACATGCTTATATATATATTTTATA
1 T-TTTATAT-TATACATACATATATATATAATTTATA
62785027 TTTTATA
1 TTTTATA
62785034 ATTTTTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 1 0.03
36 13 0.36
37 22 0.61
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.57
Consensus pattern (35 bp):
TTTTATATTATACATACATATATATATAATTTATA
Found at i:62785214 original size:12 final size:12
Alignment explanation
Indices: 62785197--62785221 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62785187 TATCCTTAAA
62785197 ACATATATATAT
1 ACATATATATAT
62785209 ACATATATATAT
1 ACATATATATAT
62785221 A
1 A
62785222 TTTTTTTTTT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:62785725 original size:110 final size:107
Alignment explanation
Indices: 62785500--62785821 Score: 436
Period size: 110 Copynumber: 3.0 Consensus size: 107
62785490 TTCAAAAAGG
* * *
62785500 AAAAATTTTCTAAATGAGGCAATATTTAGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTG-T
1 AAAAATTTTC-AAATAAGGCAATGTTTTGCGTTTGGAAATTCGA-GAAACGTGCCCTAATGTGCT
* * *
62785564 CGGGTTTCGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTT
64 -GGGTTTC-AATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTC
* * *
62785610 TAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAATGTGCT
1 AAAAATTTTC-AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAATGTGCT
62785675 GGGTTTCAATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCC
64 GGGTTTCAATTTTTCTCGTTCAACCAAATAGCCAAATATCCTT-C
* *
62785720 AAAAA-TTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAATGTGCTGG
1 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAATGTGCTGG
* *
62785784 GTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GTTTCAATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
62785822 CTTGAATTTC
Statistics
Matches: 192, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
105 30 0.16
107 25 0.13
108 32 0.17
109 39 0.20
110 65 0.34
111 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (107 bp):
AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAATGTGCTGG
GTTTCAATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTC
Found at i:62796056 original size:15 final size:15
Alignment explanation
Indices: 62796036--62796080 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
62796026 ACTATCTTTG
*
62796036 ATTAATAGTTAATTA
1 ATTAATACTTAATTA
62796051 ATTAAT-CTTAAATTA
1 ATTAATACTT-AATTA
62796066 ATTAA-ACTTAATTA
1 ATTAATACTTAATTA
62796080 A
1 A
62796081 CTCATCCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTAATACTTAATTA
Found at i:62799307 original size:2 final size:2
Alignment explanation
Indices: 62799300--62799326 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62799290 CATGTCTTGT
62799300 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 T
62799327 GGGTAAACTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62799399 original size:24 final size:24
Alignment explanation
Indices: 62799372--62799422 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
62799362 AAATTTTTTT
*
62799372 TAATTACACAATTATGAAAAGTTA
1 TAATCACACAATTATGAAAAGTTA
62799396 TAATCACACAATTATGAAAAGTTA
1 TAATCACACAATTATGAAAAGTTA
62799420 TAA
1 TAA
62799423 ATTAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (24 bp):
TAATCACACAATTATGAAAAGTTA
Found at i:62801302 original size:31 final size:29
Alignment explanation
Indices: 62801241--62801302 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
62801231 AAAATTAAAG
62801241 GATTAAATTTCTAAAAGTAAAAATACAAA
1 GATTAAATTTCTAAAAGTAAAAATACAAA
*
62801270 GATTAAATTT-TAAATGTACGAAAACTACAAA
1 GATTAAATTTCTAAAAGTA--AAAA-TACAAA
62801301 GA
1 GA
62801303 ATAGGGTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 7 0.24
29 10 0.34
30 4 0.14
31 8 0.28
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (29 bp):
GATTAAATTTCTAAAAGTAAAAATACAAA
Found at i:62805792 original size:2 final size:2
Alignment explanation
Indices: 62805785--62805809 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62805775 CATGTCTTGT
62805785 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 T
62805810 GCATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62806982 original size:21 final size:21
Alignment explanation
Indices: 62806956--62806995 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
62806946 AAAACAATTA
*
62806956 AATTAAATTCGAATCGGATCG
1 AATTAAATTAGAATCGGATCG
62806977 AATTAAATTAGAATCGGAT
1 AATTAAATTAGAATCGGAT
62806996 GTCTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (21 bp):
AATTAAATTAGAATCGGATCG
Found at i:62811096 original size:31 final size:30
Alignment explanation
Indices: 62811026--62811098 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 30
62811016 TATGATATGA
*
62811026 TAATTAAATTAAATTAAATATTATTTAATG
1 TAATTAAATTAAATTAAATATTATATAATG
* * *
62811056 TGATTAAATTAAATTAAAATGTTATATATTG
1 TAATTAAATTAAATT-AAATATTATATAATG
62811087 TAATTAAATTAA
1 TAATTAAATTAA
62811099 GGTAATAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 14 0.38
31 23 0.62
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (30 bp):
TAATTAAATTAAATTAAATATTATATAATG
Found at i:62811197 original size:31 final size:31
Alignment explanation
Indices: 62811155--62811233 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
62811145 TTTTTAGTAG
*
62811155 TTAATAAGGATATTTTAGGTAACATAAAAAA
1 TTAATAGGGATATTTTAGGTAACATAAAAAA
** *
62811186 TTAATAGGGATATTTTAGGTAGTATTAAAAA
1 TTAATAGGGATATTTTAGGTAACATAAAAAA
* * *
62811217 TCAATAGAGATAATTTA
1 TTAATAGGGATATTTTA
62811234 TTCCTTAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (31 bp):
TTAATAGGGATATTTTAGGTAACATAAAAAA
Found at i:62812035 original size:10 final size:10
Alignment explanation
Indices: 62812020--62812045 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
62812010 TTCAAAGCTT
62812020 TTTAGAAAGA
1 TTTAGAAAGA
62812030 TTTAGAAAGA
1 TTTAGAAAGA
62812040 TTTAGA
1 TTTAGA
62812046 TAAAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (10 bp):
TTTAGAAAGA
Found at i:62813394 original size:29 final size:29
Alignment explanation
Indices: 62813362--62813421 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
62813352 AAAATATATA
* *
62813362 TTTTATAT-ACTTTTTAATAATTTTTAATT
1 TTTTAAATAACTTTATAAT-ATTTTTAATT
*
62813391 TTTTAAATAACTTTATAATTTTTTTAATT
1 TTTTAAATAACTTTATAATATTTTTAATT
62813420 TT
1 TT
62813422 CCAAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTAAATAACTTTATAATATTTTTAATT
Found at i:62813399 original size:19 final size:19
Alignment explanation
Indices: 62813372--62813414 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
62813362 TTTTATATAC
*
62813372 TTTTTAATAA-TTTTTAAT
1 TTTTTAATAACTTTATAAT
62813390 TTTTTAAATAACTTTATAAT
1 TTTTT-AATAACTTTATAAT
62813410 TTTTT
1 TTTTT
62813415 TAATTTTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 12 0.55
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTAATAACTTTATAAT
Found at i:62814447 original size:2 final size:2
Alignment explanation
Indices: 62814440--62814468 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
62814430 ATTCAAAGCA
62814440 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62814469 GGAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62817465 original size:182 final size:184
Alignment explanation
Indices: 62817140--62817483 Score: 469
Period size: 182 Copynumber: 1.9 Consensus size: 184
62817130 TTGAAGAATC
* * ** *
62817140 AAATTATGTCAAAATTAAAATATAGATATTTAAAGCTCACATTTGAGCGAAATATAGGGATCAAA
1 AAATTATATCAAAATTAAAATATAGAAAAATAAAGCTCAAATTTGAGCGAAATATAGGGATCAAA
* * * * *
62817205 ATTGAAATTTAACCACTTTTATATAATCTTAAAGAAAGTAGATGGATTAGACTTGAAATTGGCCA
66 ATTGAAATTTAACCACTTTTACATAATCTTAAAGAAAGTAGAGGGATTAAAATTGAAATTAGCCA
*
62817270 TTATTTTCTCATGTCAAAAGAAAAAAAAAGAACAAAAAGTACGAATAGGTGTCT
131 CTATTTTCTCATGTCAAAAGAAAAAAAAAGAACAAAAAGTACGAATAGGTGTCT
* * * *
62817324 AAATTATATCAAAATTAAAGTATA-AAAAATAAATCTCAAATTTGAGTGTAATATA-GGATCAAA
1 AAATTATATCAAAATTAAAATATAGAAAAATAAAGCTCAAATTTGAGCGAAATATAGGGATCAAA
** * * *
62817387 ATTGAAATTTAATTATTTTTACATAATCTTAAA-AAGGTATAGGGATTAAAATTGAAATTAGCCA
66 ATTGAAATTTAACCACTTTTACATAATCTTAAAGAAAGTAGAGGGATTAAAATTGAAATTAGCCA
*
62817451 CTATTTTCCTCATGTCAAAAGAAAAGAAAAGAA
131 CTATTTT-CTCATGTCAAAAGAAAAAAAAAGAA
62817484 TGGACAGGTA
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
181 31 0.22
182 61 0.44
183 24 0.17
184 22 0.16
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (184 bp):
AAATTATATCAAAATTAAAATATAGAAAAATAAAGCTCAAATTTGAGCGAAATATAGGGATCAAA
ATTGAAATTTAACCACTTTTACATAATCTTAAAGAAAGTAGAGGGATTAAAATTGAAATTAGCCA
CTATTTTCTCATGTCAAAAGAAAAAAAAAGAACAAAAAGTACGAATAGGTGTCT
Found at i:62820052 original size:44 final size:44
Alignment explanation
Indices: 62819961--62820140 Score: 154
Period size: 44 Copynumber: 4.1 Consensus size: 44
62819951 CATCCCTACA
* * *
62819961 CACTGCGTTGTGGATA-A-ACCATAAATTTGCAGAT-AAA-CTGC
1 CACTGGGTTGTGGATACACAGCA-AAATTTGCAAATAAAATCTGC
** * *
62820002 TGCTGGGCTATGGATACACAGCAAAATTTGCAAATGAAAA-CTGC
1 CACTGGGTTGTGGATACACAGCAAAATTTGCAAAT-AAAATCTGC
* ** * *
62820046 CACTGGGTTGTGGATGCACAGCAAAATTCACAGATAAAATCTAC
1 CACTGGGTTGTGGATACACAGCAAAATTTGCAAATAAAATCTGC
* * * *
62820090 TAGTGGGTTGTGGATACACAACAAAATTTCGCAATTAAAATCTGC
1 CACTGGGTTGTGGATACACAGCAAAATTT-GCAAATAAAATCTGC
62820135 CACTGG
1 CACTGG
62820141 TAGGGGTGAG
Statistics
Matches: 106, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
41 11 0.10
42 12 0.11
43 7 0.07
44 61 0.58
45 15 0.14
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (44 bp):
CACTGGGTTGTGGATACACAGCAAAATTTGCAAATAAAATCTGC
Found at i:62820280 original size:5 final size:5
Alignment explanation
Indices: 62820272--62820297 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
62820262 GAGATGGAAT
62820272 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
62820298 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:62820297 original size:26 final size:26
Alignment explanation
Indices: 62820246--62820297 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
62820236 TGAAGTTTTC
* * *
62820246 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
62820272 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
62820298 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:62821531 original size:38 final size:38
Alignment explanation
Indices: 62821489--62821628 Score: 199
Period size: 38 Copynumber: 3.7 Consensus size: 38
62821479 TCAAAACTAG
*
62821489 CAATAGACATGTTTAACATGTACTCAATTCATCATTAA
1 CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
*
62821527 CAATAGACATGTTTAACTTGTACTCAATTCATTATTAA
1 CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
* * *
62821565 CAGTAGACATGTTTAATACGTACTCAATTCATTATTAA
1 CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
* * * *
62821603 CAGTAGACATGCTTATCATGTTCTCA
1 CAATAGACATGTTTAACATGTACTCA
62821629 GTAGGGCGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (38 bp):
CAATAGACATGTTTAACATGTACTCAATTCATTATTAA
Found at i:62842223 original size:17 final size:16
Alignment explanation
Indices: 62842203--62842238 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
62842193 AAAATCTTAG
62842203 AAATCTTAAAATCATCA
1 AAATCTTAAAATCA-CA
*
62842220 AAATTTTAAAATCACA
1 AAATCTTAAAATCACA
62842236 AAA
1 AAA
62842239 CCTAAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATCTTAAAATCACA
Found at i:62842223 original size:26 final size:25
Alignment explanation
Indices: 62842183--62842232 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
62842173 CATCAAAACC
62842183 TAAAATCTCAAAAATCTTAGAAATCT
1 TAAAATCTCAAAAATCTTA-AAATCT
*
62842209 TAAAATCATC-AAAATTTTAAAATC
1 TAAAATC-TCAAAAATCTTAAAATC
62842233 ACAAAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 15 0.68
27 2 0.09
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (25 bp):
TAAAATCTCAAAAATCTTAAAATCT
Found at i:62845964 original size:15 final size:14
Alignment explanation
Indices: 62845933--62845976 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
62845923 GATTGATTAG
62845933 ATTAAAAAATTATTAA
1 ATTAAAAAATTA--AA
62845949 ATTTTAAAAAATTAAA
1 A--TTAAAAAATTAAA
62845965 ATTAAAAAATTA
1 ATTAAAAAATTA
62845977 GTTTAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.42
16 4 0.15
18 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAAAAATTAAA
Found at i:62848749 original size:15 final size:16
Alignment explanation
Indices: 62848714--62848753 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
62848704 AAATTTCGTA
62848714 AAATATCAAATACATCC
1 AAATATCAAATACA-CC
*
62848731 AAATATTAAATAC-CC
1 AAATATCAAATACACC
62848746 AAATATCA
1 AAATATCA
62848754 TGCACGCGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATATCAAATACACC
Found at i:62849022 original size:51 final size:52
Alignment explanation
Indices: 62848942--62849056 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 52
62848932 ATTGGCCTGA
* ** * * *
62848942 TAACAAATTTAG-TCTTCAAAGTTTCCATATTTTATCAGTTTGGTCTTGATT
1 TAACAAATTTAGTTCTGCAAAGTTTCCATATGCTATCAATCTGATCTTGATT
*
62848993 TAACAAATTTAGTTC-GCAACA-TTTTCATATGCTATCAATCTGATCTTGATT
1 TAACAAATTTAGTTCTGCAA-AGTTTCCATATGCTATCAATCTGATCTTGATT
62849044 TAACAAATTTAGT
1 TAACAAATTTAGT
62849057 CCGTAATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (52 bp):
TAACAAATTTAGTTCTGCAAAGTTTCCATATGCTATCAATCTGATCTTGATT
Done.