Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 36 of 228
Found at i:10965592 original size:42 final size:42
Alignment explanation
Indices: 10965545--10965631 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
10965535 ACACTCAGTC
* *
10965545 ACAAATGTTATTCAATCAGACAGAATACAGTTAAATAATCTT
1 ACAAATGTTATTCAATCAGACAGAATACAATCAAATAATCTT
*
10965587 ACAAATGTTATTCAATTAGACAGAATACAATCAAATAATCTT
1 ACAAATGTTATTCAATCAGACAGAATACAATCAAATAATCTT
10965629 ACA
1 ACA
10965632 CCCAGTCACT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (42 bp):
ACAAATGTTATTCAATCAGACAGAATACAATCAAATAATCTT
Found at i:10970553 original size:23 final size:23
Alignment explanation
Indices: 10970518--10970562 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
10970508 TTATAATTTT
*
10970518 TTTGTAATAAATT-ATTTTTTAG
1 TTTGTAATAAATTCATTGTTTAG
*
10970540 TTTGTTATGAAATTCATTGTTTA
1 TTTGTAAT-AAATTCATTGTTTA
10970563 AATATATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 5 0.26
24 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (23 bp):
TTTGTAATAAATTCATTGTTTAG
Found at i:10982028 original size:25 final size:26
Alignment explanation
Indices: 10981993--10982052 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
10981983 CCCATAACTT
10981993 GTGTGAGCAGACCCATTTCACAGCTC
1 GTGTGAGCAGACCCATTTCACAGCTC
* *
10982019 -TGTGAGCAGACTCATTTCATAGCTC
1 GTGTGAGCAGACCCATTTCACAGCTC
10982044 GTGTGAGCA
1 GTGTGAGCA
10982053 ACGATGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 23 0.74
26 8 0.26
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (26 bp):
GTGTGAGCAGACCCATTTCACAGCTC
Found at i:10985474 original size:15 final size:14
Alignment explanation
Indices: 10985451--10985481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
10985441 ATGCAAATTA
10985451 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
10985465 AAAAGAAAAAGAAAG
1 AAAAG-AAAAGAAAG
10985480 AA
1 AA
10985482 GAAAGGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:10987233 original size:6 final size:6
Alignment explanation
Indices: 10987222--10987269 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
10987212 CAATGCTTGT
10987222 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
10987270 ATATAAGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:10988995 original size:5 final size:5
Alignment explanation
Indices: 10988985--10989010 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10988975 GAACAAATAT
10988985 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
10989011 ATTCCATCTC
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:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:10993743 original size:2 final size:2
Alignment explanation
Indices: 10993736--10993766 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10993726 CGCACGACAC
*
10993736 AG AG AG AG TG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10993767 CTTTCGCGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:10998521 original size:136 final size:136
Alignment explanation
Indices: 10998277--10998548 Score: 472
Period size: 136 Copynumber: 2.0 Consensus size: 136
10998267 ATGTGTATCT
* * *
10998277 AATGCACCACAAAAGTGAAACCTTTGATAAATTTCAAGAGTTTCGTGATGAAGTGGAAAAATAAT
1 AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGAGGAAGTGGAAAAATAAT
* * *
10998342 TAGGTTTATCCATAAATAATCTTCGGTCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
66 TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
10998407 GGATAC
131 GGATAC
*
10998413 AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGCGGAAGTGGAAAAATAAT
1 AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGAGGAAGTGGAAAAATAAT
*
10998478 TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGTTCGACAAGTTCTTA
66 TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
10998543 GGATAC
131 GGATAC
10998549 CTCAAAGAGA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 128 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (136 bp):
AATGCACCACAAAAGCGAAACCTTTGATAAATTTCAAAAGTTTCGTGAGGAAGTGGAAAAATAAT
TAGGTATATCCATAAAGAATCTTCGGCCTGACCGAGGTGGAGAATACTTGCTCGACAAGTTCTTA
GGATAC
Found at i:10999565 original size:23 final size:23
Alignment explanation
Indices: 10999539--10999589 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
10999529 CATTTCTAAT
10999539 CCATTC-AAAACATACCAATTCAA
1 CCATTCAAAAACATACCAA-TCAA
* *
10999562 CCATCCAAAAACATATCAATCAA
1 CCATTCAAAAACATACCAATCAA
10999585 CCATT
1 CCATT
10999590 TCTTTCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (23 bp):
CCATTCAAAAACATACCAATCAA
Found at i:11000484 original size:46 final size:45
Alignment explanation
Indices: 11000405--11000549 Score: 159
Period size: 46 Copynumber: 3.2 Consensus size: 45
11000395 TCCCATCCAC
* * *
11000405 GGTCTTATTTATTT-TCGGCATGA-TCCCATAGTGTCTTTCAACAAT
1 GGTCTTATTCATTTCTCGTCAT-ATTGCCATAGTGTCTTTCAAC-AT
*
11000450 GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTATTTCAATCAT
1 GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAA-CAT
** * * *
11000496 TATCTTATTCATTTCCCGTCATGTTGTCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAAC-AT
11000542 GGTCTTAT
1 GGTCTTAT
11000550 ACATCTGAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
45 15 0.18
46 68 0.81
47 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (45 bp):
GGTCTTATTCATTTCTCGTCATATTGCCATAGTGTCTTTCAACAT
Found at i:11000587 original size:45 final size:45
Alignment explanation
Indices: 11000529--11000685 Score: 185
Period size: 45 Copynumber: 3.5 Consensus size: 45
11000519 TTGTCATAGT
11000529 GTCTTTCAA-CTATGGTCTTA-TACATCTGAATCGTGATGCCATAGA-
1 GTCTTT-AAGCTATGGTCTTACT-CATCTGAATCGTGATGCCATA-AC
* * * *
11000574 GTCTTTAAGCTATGGTCTTACTCATTTAAATTGTGATGCCATAAT
1 GTCTTTAAGCTATGGTCTTACTCATCTGAATCGTGATGCCATAAC
* * * *
11000619 GTCTTTTAGCTATGGTCTTACTCGTCAGAATCATGATGCCATAAC
1 GTCTTTAAGCTATGGTCTTACTCATCTGAATCGTGATGCCATAAC
*
11000664 GTCTTTCAGCTATGGTCTTACT
1 GTCTTTAAGCTATGGTCTTACT
11000686 TGTTTCTGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
44 3 0.03
45 93 0.96
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (45 bp):
GTCTTTAAGCTATGGTCTTACTCATCTGAATCGTGATGCCATAAC
Found at i:11000706 original size:45 final size:45
Alignment explanation
Indices: 11000673--11000773 Score: 166
Period size: 45 Copynumber: 2.2 Consensus size: 45
11000663 CGTCTTTCAG
* *
11000673 CTATGGTCTTACTTGTTTCTGGTATGGTACCATAGTGCCTTACCA
1 CTATGGTCTTACTCGTTTCTGGTATGGTACCATAGTGTCTTACCA
* *
11000718 CTATGGTCTTACTCGTTTTTGGTATGGTGCCATAGTGTCTTACCA
1 CTATGGTCTTACTCGTTTCTGGTATGGTACCATAGTGTCTTACCA
11000763 CTATGGTCTTA
1 CTATGGTCTTA
11000774 TTTATTTACT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (45 bp):
CTATGGTCTTACTCGTTTCTGGTATGGTACCATAGTGTCTTACCA
Found at i:11000706 original size:90 final size:89
Alignment explanation
Indices: 11000523--11000733 Score: 210
Period size: 90 Copynumber: 2.3 Consensus size: 89
11000513 GTCATGTTGT
* * *
11000523 CATAGTGTCTTTCAACTATGGTCTTA-TACATCTGAATCGTGATGCCATAGAGTCTTTAAGCTAT
1 CATAGTGTCTTTC-ACTATGGTCTTACT-CGTCAGAATCATGATGCCATAGAGTCTTTAAGCTAT
* * *
11000587 GGTCTTACTCATTTAAATTGTGATGC
64 GGTCTTACTCATTTAAAGTATGATAC
* * *
11000613 CATAATGTCTTTTAGCTATGGTCTTACTCGTCAGAATCATGATGCCATA-ACGTCTTTCAGCTAT
1 CATAGTGTCTTTCA-CTATGGTCTTACTCGTCAGAATCATGATGCCATAGA-GTCTTTAAGCTAT
** *** *
11000677 GGTCTTACTTGTTTCTGGTATGGTAC
64 GGTCTTACTCATTTAAAGTATGATAC
* *
11000703 CATAGTGCCTTACCACTATGGTCTTACTCGT
1 CATAGTGTCTT-TCACTATGGTCTTACTCGT
11000734 TTTTGGTATG
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
89 2 0.02
90 94 0.96
91 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (89 bp):
CATAGTGTCTTTCACTATGGTCTTACTCGTCAGAATCATGATGCCATAGAGTCTTTAAGCTATGG
TCTTACTCATTTAAAGTATGATAC
Found at i:11001710 original size:24 final size:24
Alignment explanation
Indices: 11001664--11001729 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
11001654 GCGCAACACC
* *
11001664 TTTTTTATATTAAAATATTTTTTG
1 TTTTTTATAATAAAATATTTTTTA
11001688 TTTTTTA-AATAAAATATTATTTTA
1 TTTTTTATAATAAAATATT-TTTTA
*
11001712 -TTTTTATTA-AAAATATTT
1 TTTTTTATAATAAAATATTT
11001730 AAATATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 1 0.03
23 24 0.65
24 12 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTTTATAATAAAATATTTTTTA
Found at i:11001722 original size:26 final size:23
Alignment explanation
Indices: 11001664--11001716 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
11001654 GCGCAACACC
*
11001664 TTTTTTATATTAAAATATTTTTTG
1 TTTTTTA-AATAAAATATTTTTTG
*
11001688 TTTTTTAAATAAAATATTATTTTA
1 TTTTTTAAATAAAATATT-TTTTG
11001712 TTTTT
1 TTTTT
11001717 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTTTAAATAAAATATTTTTTG
Found at i:11010879 original size:24 final size:24
Alignment explanation
Indices: 11010829--11010873 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11010819 AAATTTTAAA
*
11010829 TTAGGGTATTAGGTTTTTAATTGT
1 TTAGGGTATTAGGTGTTTAATTGT
*
11010853 TTAGGGTTTTAGG-GTTTAATT
1 TTAGGGTATTAGGTGTTTAATT
11010874 TTTTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (24 bp):
TTAGGGTATTAGGTGTTTAATTGT
Found at i:11015455 original size:14 final size:16
Alignment explanation
Indices: 11015420--11015459 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
11015410 AAATTCTGAC
11015420 AAATATATAACAATTAT
1 AAATATAT-ACAATTAT
11015437 AAATATATA-AATT-T
1 AAATATATACAATTAT
11015451 AAATATATA
1 AAATATATA
11015460 TATAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 1 0.04
17 8 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATACAATTAT
Found at i:11015515 original size:8 final size:9
Alignment explanation
Indices: 11015489--11015536 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
11015479 TTACACACGT
11015489 AAATACATA
1 AAATACATA
*
11015498 AAATAGATA
1 AAATACATA
11015507 AAATA-ATA
1 AAATACATA
11015515 AAATA-AT-
1 AAATACATA
11015522 AAATACATA
1 AAATACATA
11015531 ACAATA
1 A-AATA
11015537 AGAATTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
7 5 0.14
8 12 0.34
9 14 0.40
10 4 0.11
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATACATA
Found at i:11015515 original size:17 final size:17
Alignment explanation
Indices: 11015489--11015537 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
11015479 TTACACACGT
11015489 AAATACATAAAATAGATA
1 AAATACATAAAATA-ATA
11015507 AAATA-ATAAAATAAT-
1 AAATACATAAAATAATA
11015522 AAATACATAACAATAA
1 AAATACATAA-AATAA
11015538 GAATTTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.17
16 6 0.21
17 13 0.45
18 5 0.17
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AAATACATAAAATAATA
Found at i:11031572 original size:15 final size:16
Alignment explanation
Indices: 11031542--11031583 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
11031532 AAAATTCTAA
11031542 AAAATATATAACAA-TT
1 AAAATATAT-ACAATTT
11031558 ATAAATATATA-AATTT
1 A-AAATATATACAATTT
11031574 AAAATATATA
1 AAAATATATA
11031584 TAAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATATATACAATTT
Found at i:11031584 original size:17 final size:16
Alignment explanation
Indices: 11031541--11031587 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
11031531 GAAAATTCTA
*
11031541 AAAAATATATAACAATT
1 AAAAATATATAA-ATTT
*
11031558 ATAAATATATAAATTT
1 AAAAATATATAAATTT
11031574 AAAATATATATAAA
1 AAAA-ATATATAAA
11031588 CACATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATATAAATTT
Found at i:11044054 original size:48 final size:47
Alignment explanation
Indices: 11043998--11044090 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 47
11043988 CCTTCGGAAC
* *
11043998 CATGATTCATGTTCTTCCTGGAGCATCACTTTCCA-CTAGGTGGCTTTG
1 CATGATTCATATGCTTCCTGGAGCATCAC-TTCCAGC-AGGTGGCTTTG
11044046 CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTT
1 CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTT
11044091 GCGATTCAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
47 14 0.33
48 28 0.67
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (47 bp):
CATGATTCATATGCTTCCTGGAGCATCACTTCCAGCAGGTGGCTTTG
Found at i:11046113 original size:6 final size:6
Alignment explanation
Indices: 11046102--11046128 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11046092 CAGCACTAAG
11046102 TTGTGC TTGTGC TTGTGC TTGTGC TTG
1 TTGTGC TTGTGC TTGTGC TTGTGC TTG
11046129 CGAGAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.33, T:0.52
Consensus pattern (6 bp):
TTGTGC
Found at i:11050887 original size:30 final size:27
Alignment explanation
Indices: 11050841--11050902 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 27
11050831 GTTTTTTGGG
11050841 TTTAA-TTCTTCTATTTTAATTAAGTATTA
1 TTTAATTTCTTCTATTTT-A-TAA-TATTA
11050870 TTTAATTTCTT-TAATTTTATAATATTA
1 TTTAATTTCTTCT-ATTTTATAATATTA
11050897 -TTAATT
1 TTTAATT
11050903 AATCTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 6 0.19
27 5 0.16
28 3 0.10
29 7 0.23
30 10 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTAATTTCTTCTATTTTATAATATTA
Found at i:11051752 original size:21 final size:21
Alignment explanation
Indices: 11051728--11051775 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11051718 ATAGTTTATC
*
11051728 TTAGTTATATCGATAACTA-TT
1 TTAGTTAAAT-GATAACTAGTT
* *
11051749 TTAGATAAATGTTAACTAGTT
1 TTAGTTAAATGATAACTAGTT
11051770 TTAGTT
1 TTAGTT
11051776 CTTTTTCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
TTAGTTAAATGATAACTAGTT
Found at i:11055074 original size:29 final size:29
Alignment explanation
Indices: 11055013--11055075 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
11055003 ATCTATATTT
**
11055013 AGATAATTATACATAGAATGTATAAGTTT
1 AGATAATTATACATAGAATGTATAAGTAA
* *
11055042 AGATTATTATACATAGAATGTCCTAA-TAA
1 AGATAATTATACATAGAATGT-ATAAGTAA
11055071 AGATA
1 AGATA
11055076 TCAAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (29 bp):
AGATAATTATACATAGAATGTATAAGTAA
Found at i:11057166 original size:22 final size:22
Alignment explanation
Indices: 11057141--11057232 Score: 64
Period size: 22 Copynumber: 4.0 Consensus size: 22
11057131 AGAATATTTA
*
11057141 ATATTAAGAATTTTATTAAATT
1 ATATTAATAATTTTATTAAATT
11057163 ATATTTAATAATAATTTTTATTAAA-T
1 ATA--T--TAATAA-TTTTATTAAATT
* *
11057189 ATAATTAA-ATTATTTATT-ATTT
1 AT-ATTAATAAT-TTTATTAAATT
*
11057211 ATATTAATAATCTTATTAAATT
1 ATATTAATAATTTTATTAAATT
11057233 TTAATAACAA
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
21 12 0.22
22 18 0.33
23 3 0.06
24 1 0.02
25 1 0.02
26 8 0.15
27 11 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
ATATTAATAATTTTATTAAATT
Found at i:11067566 original size:11 final size:11
Alignment explanation
Indices: 11067543--11067585 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
11067533 AACAAATCTT
11067543 CTCTCATATTTC
1 CTCTCA-ATTTC
11067555 CTCTCAATTTC
1 CTCTCAATTTC
*
11067566 CTTTCAATTT-
1 CTCTCAATTTC
11067576 -TCTCAATTTC
1 CTCTCAATTTC
11067586 TTTCCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
11 14 0.50
12 6 0.21
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:11067598 original size:20 final size:20
Alignment explanation
Indices: 11067556--11067600 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11067546 TCATATTTCC
**
11067556 TCTCAATTTCCTTTCAATTT
1 TCTCAATTTCCTTTCAAAAT
11067576 TCTCAATTT-CTTTCCAAAAT
1 TCTCAATTTCCTTT-CAAAAT
11067596 TCTCA
1 TCTCA
11067601 TAAATCCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (20 bp):
TCTCAATTTCCTTTCAAAAT
Found at i:11067642 original size:51 final size:51
Alignment explanation
Indices: 11067567--11067687 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
11067557 CTCAATTTCC
* * *
11067567 TTTCAATTT--TCTCAATTTCTTTCCAAAATTCTCAT-AAATCCATATTTAA
1 TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTC-TCAAAGCCATATTTAA
* *
11067616 TTTCAATTTCCTTTCAATTTCATTCCAAAAATCTCTCAAAGCTATATTTAA
1 TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAA
*
11067667 TTTCAATTTGCTCTCAATTTC
1 TTTCAATTTCCTCTCAATTTC
11067688 CTTTTTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 9 0.15
50 1 0.02
51 52 0.84
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (51 bp):
TTTCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAA
Found at i:11068817 original size:7 final size:7
Alignment explanation
Indices: 11068801--11068846 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
11068791 TGCAAATAGA
*
11068801 TATTTTG
1 TATTTAG
11068808 TATTTAG
1 TATTTAG
11068815 TATTTAG
1 TATTTAG
11068822 TATTTAG
1 TATTTAG
11068829 TATTTAG
1 TATTTAG
11068836 TATTTAG
1 TATTTAG
11068843 TATT
1 TATT
11068847 ATGTATATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (7 bp):
TATTTAG
Found at i:11068826 original size:21 final size:21
Alignment explanation
Indices: 11068801--11068852 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
11068791 TGCAAATAGA
11068801 TATTTTGTATTTAGTATTTAG
1 TATTTTGTATTTAGTATTTAG
*
11068822 TATTTAGTATTTAGTATTTAG
1 TATTTTGTATTTAGTATTTAG
*
11068843 TATTATGTAT
1 TATTTTGTAT
11068853 ATAACTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (21 bp):
TATTTTGTATTTAGTATTTAG
Found at i:11069524 original size:18 final size:18
Alignment explanation
Indices: 11069497--11069536 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11069487 CAGGTGCGTT
*
11069497 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
11069515 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
11069533 TCCT
1 TCCT
11069537 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:11069989 original size:25 final size:25
Alignment explanation
Indices: 11069961--11070507 Score: 219
Period size: 25 Copynumber: 22.9 Consensus size: 25
11069951 TGAATATTTT
11069961 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
11069986 GAAGTTT-TATTGATGTAAAAAAATTA
1 GAAGTTTAT-TTGATGTAATAAAA-TA
* ** *
11070012 -AA-TTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
11070031 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
11070055 GAAGTTT-TATTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* * ** *
11070081 GAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
11070102 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
11070126 GAAGTTT-TATTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* * * * ** *
11070152 TAAATTT-TTTTAAGT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
11070173 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
11070197 GAAGTTT-TATTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* * * ** *
11070223 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
11070244 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
* *
11070268 GAGGTTT-TATTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* * * ** *
11070294 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
11070315 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
11070339 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
* *
11070364 GAAGTTTATATGAAGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
* *
11070389 GAAGTTT-TACTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* * * ** *
11070415 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
11070436 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
11070460 GAAGTGTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
11070485 GAAGTTTATTTGATGTAATAAAA
1 GAAGTTTATTTGATGTAATAAAA
11070508 ATTGAAAACC
Statistics
Matches: 393, Mismatches: 69, Indels: 120
0.68 0.12 0.21
Matches are distributed among these distances:
19 8 0.02
20 43 0.11
21 32 0.08
23 13 0.03
24 31 0.08
25 188 0.48
26 74 0.19
27 4 0.01
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (25 bp):
GAAGTTTATTTGATGTAATAAAATA
Found at i:11070119 original size:71 final size:71
Alignment explanation
Indices: 11069966--11070361 Score: 735
Period size: 71 Copynumber: 5.6 Consensus size: 71
11069956 ATTTTGAAGT
11069966 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAA-AAAAA-TTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
11070029 TTGATA
66 TTGATA
*
11070035 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTGAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
11070100 TTGATA
66 TTGATA
*
11070106 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTAAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
11070171 TTGATA
66 TTGATA
11070177 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
11070242 TTGATA
66 TTGATA
*
11070248 TTATTTGATGTAATAAAATAGAGGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
11070313 TTGATA
66 TTGATA
11070319 TTATTTGATGTAATAAAATAGAAG-TTTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAATAGAAGTTTTA-TTGATGTAATAAAA
11070362 TAGAAGTTTA
Statistics
Matches: 318, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
69 38 0.12
70 9 0.03
71 271 0.85
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (71 bp):
TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
TTGATA
Found at i:11070412 original size:121 final size:121
Alignment explanation
Indices: 11070248--11070507 Score: 475
Period size: 121 Copynumber: 2.1 Consensus size: 121
11070238 TATTTTGATA
* *
11070248 TTATTTGATGTAATAAAATAGAGGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
*
11070313 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAGT
66 TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
* *
11070369 TTATATGAAGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
11070434 TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
66 TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
11070490 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
11070508 ATTGAAAACC
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 132 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (121 bp):
TTATTTGATGTAATAAAATAGAAGTTTTACTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
TTGATATTATTTGATGTAATAAAATAGAAGTGTATTTGATGTAATAAAATAGAAGT
Found at i:11070538 original size:23 final size:23
Alignment explanation
Indices: 11070512--11070601 Score: 144
Period size: 23 Copynumber: 3.9 Consensus size: 23
11070502 ATAAAAATTG
*
11070512 AAAACCCTAACTTAATTAAGTTA
1 AAAACCCTAACCTAATTAAGTTA
*
11070535 AAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAGTTA
* *
11070558 AAAACCCTAACCTATTTAAGTTG
1 AAAACCCTAACCTAATTAAGTTA
11070581 AAAACCCTAACCTAATTAAGT
1 AAAACCCTAACCTAATTAAGT
11070602 GCAGCTAGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAACCCTAACCTAATTAAGTTA
Found at i:11072739 original size:125 final size:125
Alignment explanation
Indices: 11072551--11072791 Score: 378
Period size: 125 Copynumber: 1.9 Consensus size: 125
11072541 CCCAAACAGG
*
11072551 CTACTGTAGCAAAAGCGCGTCCCCAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
11072616 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTTAAAAAAATTTTATTTCATCCATAAC
66 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAA-ATTATTTCATCCATAAC
* * *
11072677 CTACTGTAGTAAGAGCGCGTCCACGAGGGCGCGA-TTTCA-AAATTTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAA-TTCTTCTCAAATAGCATCCT
* *
11072740 GCTAGAAGCGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAAATTATTTC
65 GCTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTC
11072792 TTCCCGGACC
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
124 10 0.09
125 66 0.62
126 30 0.28
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATAAC
Found at i:11077287 original size:29 final size:29
Alignment explanation
Indices: 11077254--11077316 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
11077244 ATTGAAACTT
*
11077254 AATTTTTAAATTTAAAAATA-GAAGGA-TAA
1 AATTTTTAAA-ATAAAAATATG-AGGACTAA
11077283 AATTTTTTAAAATAAAAATATGAGGACTAA
1 AA-TTTTTAAAATAAAAATATGAGGACTAA
11077313 AATT
1 AATT
11077317 CCTTATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (29 bp):
AATTTTTAAAATAAAAATATGAGGACTAA
Found at i:11077292 original size:30 final size:30
Alignment explanation
Indices: 11077256--11077316 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
11077246 TGAAACTTAA
*
11077256 TTTTTAAATTTAAAAATA-GAAGGA-TAAAAT
1 TTTTTAAA-ATAAAAATATG-AGGACTAAAAT
11077286 TTTTTAAAATAAAAATATGAGGACTAAAAT
1 TTTTTAAAATAAAAATATGAGGACTAAAAT
11077316 T
1 T
11077317 CCTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (30 bp):
TTTTTAAAATAAAAATATGAGGACTAAAAT
Found at i:11077814 original size:22 final size:22
Alignment explanation
Indices: 11077784--11077861 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
11077774 ATTTTCTCTC
*
11077784 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
**
11077807 AATTCTCTCAATTTCCTTAAAA
1 AATTCTCTCAATTTCCTTCCAA
*
11077829 AATTCTCTTAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
11077851 AATTCTCTCAA
1 AATTCTCTCAA
11077862 ATCCATATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 44 0.92
23 4 0.08
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:11078079 original size:14 final size:15
Alignment explanation
Indices: 11078048--11078078 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11078038 TTTTTAAATA
11078048 TTATTTAAGAATTTT
1 TTATTTAAGAATTTT
*
11078063 TTATTTATGAATTTT
1 TTATTTAAGAATTTT
11078078 T
1 T
11078079 AGATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATTTAAGAATTTT
Found at i:11080288 original size:29 final size:29
Alignment explanation
Indices: 11080220--11080922 Score: 987
Period size: 29 Copynumber: 23.9 Consensus size: 29
11080210 GTTTATTCCT
* * *
11080220 AACCTTAACCCTAACCAAACTTTATT-AA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* * *
11080248 AACACTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
11080277 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
11080306 AACCCTAACCTTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
11080335 AACCCTAGCCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
11080364 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
** *
11080393 AACCCTAACATTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
11080422 AACCCTAACCCTAACCAAACTTTATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
11080451 AACACTAACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
11080480 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
11080509 AA-CCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
11080538 AACCCTAACCCTAACCTAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
11080567 AACCCTAACCCTAACCAAACTCAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
11080596 AACACTCTAACCCTAACCAAACTCAATTAAA
1 AAC-C-CTAACCCTAACCTAACTTAATTAAA
* *
11080627 AACTCTAACCCTAAACTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
11080656 AACCCTAACACTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
11080685 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
11080715 AACCCTAACCCTAACCTAATTTAATTAAAAACCA
1 AACCCTAACCCTAACCTAACTTAATT---AA--A
*
11080749 TAACCCTAACCCTAACCAAACTTAATTAAA
1 -AACCCTAACCCTAACCTAACTTAATTAAA
11080779 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
11080808 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
* *
11080837 AACCCTAAACCCTAACCTAATTTAATTTAA
1 AACCCT-AACCCTAACCTAACTTAATTAAA
*
11080867 AACCCTAACCCTAACCAAACTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA
*
11080896 AACCCTAACCCTAACCCTAACTCAATT
1 AACCCTAACCCTAA-CCTAACTTAATT
11080923 GATAATTTCA
Statistics
Matches: 611, Mismatches: 50, Indels: 26
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.04
29 460 0.75
30 69 0.11
31 28 0.05
32 4 0.01
34 1 0.00
35 24 0.04
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAACTTAATTAAA
Found at i:11081145 original size:37 final size:37
Alignment explanation
Indices: 11080921--11081146 Score: 389
Period size: 37 Copynumber: 6.1 Consensus size: 37
11080911 CCTAACTCAA
11080921 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
* *
11080958 TTCATAATTTCACTAACCATTAATTATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
11080995 TTCATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
11081032 TTCATAATTTCACTAACCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
*
11081069 TTGATAATTTCACTAGCCATTAATAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
* *
11081106 TTGATAATTTTACTAACCATTAGTAATTTTATATAAT
1 TTGATAATTTCACTAACCATTAATAATTTTATATAAT
11081143 TTGA
1 TTGA
11081147 GTTAATACAA
Statistics
Matches: 181, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 181 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.47
Consensus pattern (37 bp):
TTGATAATTTCACTAACCATTAATAATTTTATATAAT
Found at i:11084313 original size:123 final size:124
Alignment explanation
Indices: 11084021--11084364 Score: 564
Period size: 123 Copynumber: 2.8 Consensus size: 124
11084011 CCCAAACATG
* *
11084021 CTACTGTAGCAAAAGCGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
11084086 TAGAAGCGATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGT-AAAAAAAAATTATTTCTTACATGAC
* * *
11084146 CTACTGTAGCAAAAGCGCATCCACGAGGCCGCGATTCCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** *
11084211 TAAAAGCGATTTTATACTATTTGCTTTGAAAAGT-AAAAAAAATTATTTCTTACGTGAC
66 TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTAAAAAAAAATTATTTCTTACATGAC
* *
11084269 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
11084334 TAAAAGCGATTTTATACTATTTGCTCAGAAA
66 TAAAAGCGATTTTATACTATTTGCTCAGAAA
11084365 CATCAACTCG
Statistics
Matches: 202, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
123 112 0.55
125 90 0.45
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAAAAGCGATTTTATACTATTTGCTCAGAAAAGTAAAAAAAAATTATTTCTTACATGAC
Found at i:11085447 original size:9 final size:9
Alignment explanation
Indices: 11085433--11085473 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
11085423 TTTGGTTAAA
11085433 AATTAACCG
1 AATTAACCG
*
11085442 AATTAACTG
1 AATTAACCG
11085451 AATTAACCG
1 AATTAACCG
**
11085460 AATTGCCCG
1 AATTAACCG
11085469 AATTA
1 AATTA
11085474 CCCAAATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:11085511 original size:17 final size:17
Alignment explanation
Indices: 11085489--11085551 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
11085479 ATTGAATCAC
11085489 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
11085506 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
*
11085526 TACATAATTAAAAAAAT
1 TACATAATTAAAAACAT
11085543 TACATAATT
1 TACATAATT
11085552 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 19 0.56
18 2 0.06
19 2 0.06
20 11 0.32
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:11085521 original size:37 final size:37
Alignment explanation
Indices: 11085480--11085554 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
11085470 ATTACCCAAA
*
11085480 TTGAATCACTACATAATTAAAAACATTACATAAATCT
1 TTGAATCACTACATAATTAAAAAAATTACATAAATCT
*
11085517 TTGAATCACTACATAATTAAAAAAATTACATAATTCT
1 TTGAATCACTACATAATTAAAAAAATTACATAAATCT
11085554 T
1 T
11085555 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.35
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAAAATTACATAAATCT
Found at i:11085568 original size:37 final size:37
Alignment explanation
Indices: 11085480--11085571 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
11085470 ATTACCCAAA
* *
11085480 TTGAATCACTACATAATTAAAAACATTACATAAATCT
1 TTGAATAACTACATAATTAAAAAAATTACATAAATCT
* *
11085517 TTGAATCACTACATAATTAAAAAAATTACATAATTC-
1 TTGAATAACTACATAATTAAAAAAATTACATAAATCT
11085553 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
11085572 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 3 0.06
37 44 0.88
38 3 0.06
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAAAATTACATAAATCT
Found at i:11085766 original size:39 final size:39
Alignment explanation
Indices: 11085680--11085786 Score: 162
Period size: 39 Copynumber: 2.8 Consensus size: 39
11085670 TACTTAGAGT
*
11085680 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAACTGAG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAACTGAG
* * *
11085718 TAGATTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAACTGAG
*
11085757 TAGACTTTAGTTTTAGATTTATTGGGTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGG
11085787 ATTGGTAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 26 0.42
39 36 0.58
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAACTGAG
Found at i:11085803 original size:12 final size:12
Alignment explanation
Indices: 11085783--11085816 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
11085773 ATTTATTGGG
*
11085783 TTGGATTGGTAA
1 TTGGGTTGGTAA
11085795 TTGGGTTGGGTAA
1 TTGGGTT-GGTAA
11085808 TTGGGTTGG
1 TTGGGTTGG
11085817 GTTAGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (12 bp):
TTGGGTTGGTAA
Found at i:11085808 original size:13 final size:13
Alignment explanation
Indices: 11085790--11085818 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11085780 GGGTTGGATT
11085790 GGTAATTGGGTTG
1 GGTAATTGGGTTG
11085803 GGTAATTGGGTTG
1 GGTAATTGGGTTG
11085816 GGT
1 GGT
11085819 TAGATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:11086895 original size:23 final size:23
Alignment explanation
Indices: 11086865--11086908 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11086855 ATTGTATATT
* *
11086865 TTTTTCTCTTCTTCTTCTTCTTC
1 TTTTTCTCATCTCCTTCTTCTTC
11086888 TTTTTCTCATCTCCTTCTTCT
1 TTTTTCTCATCTCCTTCTTCT
11086909 ACTGCCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTCTCATCTCCTTCTTCTTC
Found at i:11089934 original size:110 final size:107
Alignment explanation
Indices: 11089668--11090096 Score: 662
Period size: 108 Copynumber: 4.0 Consensus size: 107
11089658 AAGATATAAG
* * *
11089668 AGGATATTTGGCTATTTAGTCCAACGAG-AAATTGAAACCCAGCACATTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
*
11089732 AATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAA
66 AATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* *
11089774 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAATCCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * *
11089839 GAATTTCCAAACGCAGAACATTGCCTTATTTTTGAAATTTTTAAA
65 GAATTTTCAAACGCAAAACATTACCTTA-TTTTGAAA-TTTTAAA
*
11089884 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCAGGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
11089949 AAATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
65 GAATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
* ** *
11089992 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCTAGCACATTAGGAAACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
* *
11090057 AATTTTCAAACGCAACACATTACCTTATTTTAAAATTTTA
66 AATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTA
11090097 TTCCAAAAAA
Statistics
Matches: 297, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
106 25 0.08
107 69 0.23
108 94 0.32
109 16 0.05
110 93 0.31
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
AATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTAAA
Found at i:11093266 original size:21 final size:21
Alignment explanation
Indices: 11093228--11093267 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11093218 CTAAGTGGCA
* *
11093228 AGTTAATTGACCATGTCAGCT
1 AGTTAACTGACCACGTCAGCT
*
11093249 AGTTAACTGGCCACGTCAG
1 AGTTAACTGACCACGTCAG
11093268 TTGTCCCGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
AGTTAACTGACCACGTCAGCT
Found at i:11095315 original size:18 final size:20
Alignment explanation
Indices: 11095279--11095317 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11095269 TTGCACACGA
11095279 GTGTGTAGACCTCCACACAG
1 GTGTGTAGACCTCCACACAG
*
11095299 GTGTGTATACCTCCACACA
1 GTGTGTAGACCTCCACACA
11095318 ACCTAGGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.23
Consensus pattern (20 bp):
GTGTGTAGACCTCCACACAG
Found at i:11097005 original size:15 final size:15
Alignment explanation
Indices: 11096987--11097016 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11096977 TATTTAATTC
*
11096987 CAATCAATTTGATTT
1 CAATAAATTTGATTT
11097002 CAATAAATTTGATTT
1 CAATAAATTTGATTT
11097017 AATTTTTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (15 bp):
CAATAAATTTGATTT
Found at i:11097799 original size:81 final size:81
Alignment explanation
Indices: 11097638--11097799 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
11097628 TAGCTTTCTA
* * * * *
11097638 TTTGGGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTAACTAAGCGACGCTAATGGTTGGCC
1 TTTGGGCGCCGCTAATACTCTGGCCTTTAGAGGCGCTTTTAACTAAGCGACGCTAATGATTGACC
*
11097703 TTTAGTGGCGTTTTTT
66 TTTAGCGGCGTTTTTT
* * *** * *
11097719 TTTGTGCGCCGCTAATACTGTGGCCTTTAGAGGCGCTTTTGTGTAAGCGCCGCTAATGCATTTAC
1 TTTGGGCGCCGCTAATACTCTGGCCTTTAGAGGCGCTTTTAACTAAGCGACGCTAATG-ATTGAC
11097784 CTTTAGCGGCGTTTTT
65 CTTTAGCGGCGTTTTT
11097800 GCCGAAGCGC
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 49 0.73
82 18 0.27
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.38
Consensus pattern (81 bp):
TTTGGGCGCCGCTAATACTCTGGCCTTTAGAGGCGCTTTTAACTAAGCGACGCTAATGATTGACC
TTTAGCGGCGTTTTTT
Found at i:11097800 original size:41 final size:40
Alignment explanation
Indices: 11097643--11097816 Score: 152
Period size: 41 Copynumber: 4.3 Consensus size: 40
11097633 TTCTATTTGG
* ***
11097643 GCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTAACTAA
1 GCGCCGCTAATGCT-TGGCCTTTAGCGGCGTTTTTGTGTAA
* * * * * **
11097684 GCGACGCTAATGGTTGGCCTTTAGTGGCGTTTTTTTTTGT
1 GCGCCGCTAATGCTTGGCCTTTAGCGGCGTTTTTGTGTAA
* * *
11097724 GCGCCGCTAATACTGTGGCCTTTAGAGGCGCTTTTGTGTAA
1 GCGCCGCTAATGCT-TGGCCTTTAGCGGCGTTTTTGTGTAA
** *
11097765 GCGCCGCTAATGCATTTACCTTTAGCGGCGTTTTTGCCG-AA
1 GCGCCGCTAATGC-TTGGCCTTTAGCGGCGTTTTTG-TGTAA
11097806 GCGCCGCTAAT
1 GCGCCGCTAAT
11097817 AGTAAAAAAA
Statistics
Matches: 106, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
40 31 0.29
41 73 0.69
42 2 0.02
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (40 bp):
GCGCCGCTAATGCTTGGCCTTTAGCGGCGTTTTTGTGTAA
Found at i:11098321 original size:14 final size:14
Alignment explanation
Indices: 11098302--11098369 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
11098292 TACGTGGTAT
11098302 AGATTTAAGGTTTG
1 AGATTTAAGGTTTG
11098316 AGATTTAAGG-TT-
1 AGATTTAAGGTTTG
* *
11098328 A-ATTTAGGGGTTAG
1 AGATTTA-AGGTTTG
*
11098342 AGGTTTAAGGGTTTG
1 AGATTTAA-GGTTTG
*
11098357 AAATTTAAGGTTT
1 AGATTTAAGGTTT
11098370 CAACGGTCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 5 0.12
12 3 0.07
13 3 0.07
14 16 0.38
15 15 0.36
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (14 bp):
AGATTTAAGGTTTG
Found at i:11102007 original size:13 final size:13
Alignment explanation
Indices: 11101991--11102028 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
11101981 TTTTTTTTGT
11101991 TATATTTTAGTTG
1 TATATTTTAGTTG
11102004 TATATTTTAGTTG
1 TATATTTTAGTTG
11102017 TATATTTTAGTT
1 TATATTTTAGTT
11102029 TTAATTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (13 bp):
TATATTTTAGTTG
Found at i:11102536 original size:21 final size:21
Alignment explanation
Indices: 11102507--11102559 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
11102497 ACATCTTTGA
* *
11102507 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
11102529 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
11102549 TATATATATTT
1 TATATATATTT
11102560 GAAAAGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:11102708 original size:20 final size:21
Alignment explanation
Indices: 11102676--11102714 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
11102666 ATATAAAACT
11102676 TACATACATACATAACTTACA
1 TACATACATACATAACTTACA
11102697 TACATA-ATACATAACTTA
1 TACATACATACATAACTTA
11102715 TATAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (21 bp):
TACATACATACATAACTTACA
Found at i:11102756 original size:55 final size:55
Alignment explanation
Indices: 11102590--11102757 Score: 155
Period size: 55 Copynumber: 3.0 Consensus size: 55
11102580 CATAATTTAC
** * * * *
11102590 ATACATAAAATATAT-AAATTTTTATATAAACTTACACAACACATAACTTAC---
1 ATACATAACTTATATAAAATTTTTATAAAAACTTACATAATACATTACTTACATA
* * *
11102641 ATACATAACTTAAACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
1 ATACATAACTTATA-TAAAATTTTTATA-AAAACTTACATA-ATAC---A-TTACTTACATA
*
11102703 ATACATAACTTATATAAAATTTTTATACAAACTTACATAATACATTACTTACATA
1 ATACATAACTTATATAAAATTTTTATAAAAACTTACATAATACATTACTTACATA
11102758 TTAACTTACA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
51 11 0.12
53 11 0.12
54 10 0.11
55 13 0.14
56 1 0.01
58 1 0.01
59 10 0.11
60 11 0.12
61 12 0.13
62 13 0.14
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (55 bp):
ATACATAACTTATATAAAATTTTTATAAAAACTTACATAATACATTACTTACATA
Found at i:11102770 original size:60 final size:62
Alignment explanation
Indices: 11102641--11102757 Score: 177
Period size: 59 Copynumber: 1.9 Consensus size: 62
11102631 CATAACTTAC
*
11102641 ATACATAACTTAAACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
1 ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
* * *
11102703 ATACATAACTTATA-TAAAATTTTTATA-CAAACTTACATA-ATACATTACTTACATA
1 ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATA
11102758 TTAACTTACA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 15 0.29
60 11 0.22
61 12 0.24
62 13 0.25
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (62 bp):
ATACATAACTTATACCAAAATTTTTATATAAAACTTACATACATACATAACTTACATACATA
Found at i:11102811 original size:9 final size:9
Alignment explanation
Indices: 11102793--11103119 Score: 222
Period size: 9 Copynumber: 37.8 Consensus size: 9
11102783 CTTATATTTA
*
11102793 AACTTGCAT
1 AACTTACAT
11102802 AACTTACAT
1 AACTTACAT
*
11102811 AA-TAACAT
1 AACTTACAT
11102819 AACAACTTACAT
1 ---AACTTACAT
11102831 AA--TACAT
1 AACTTACAT
* *
11102838 AGCATACAT
1 AACTTACAT
11102847 AACTTACAT
1 AACTTACAT
*
11102856 AA--TACAA
1 AACTTACAT
11102863 AACTTACAT
1 AACTTACAT
*
11102872 AACTTAAAT
1 AACTTACAT
* *
11102881 ATCTTACAC
1 AACTTACAT
11102890 AACTTACAT
1 AACTTACAT
*
11102899 AACCTACAT
1 AACTTACAT
11102908 AA--TACAT
1 AACTTACAT
11102915 AACTTACAT
1 AACTTACAT
*
11102924 AACTTACCT
1 AACTTACAT
11102933 AACTTACAT
1 AACTTACAT
*
11102942 AATACATA-AT
1 -A-ACTTACAT
11102952 AACTTAC--
1 AACTTACAT
11102959 AACTTACAT
1 AACTTACAT
*
11102968 AACATACAT
1 AACTTACAT
* **
11102977 TACTTTGAT
1 AACTTACAT
11102986 AACTTACAT
1 AACTTACAT
*
11102995 AAGTTACAT
1 AACTTACAT
**
11103004 AAAATACAT
1 AACTTACAT
11103013 AACTTAC--
1 AACTTACAT
11103020 AACTTACAT
1 AACTTACAT
*
11103029 AACATACAT
1 AACTTACAT
* **
11103038 TACTTTGAT
1 AACTTACAT
*
11103047 AAC-TA-TT
1 AACTTACAT
**
11103054 AAAATACAT
1 AACTTACAT
*
11103063 AA--TACAC
1 AACTTACAT
11103070 AACTTACAT
1 AACTTACAT
* *
11103079 AGCTTACTT
1 AACTTACAT
11103088 AA--TACAT
1 AACTTACAT
11103095 AACTTACAT
1 AACTTACAT
11103104 AACTTACAT
1 AACTTACAT
*
11103113 AATTTAC
1 AACTTAC
11103120 TTAATATATA
Statistics
Matches: 246, Mismatches: 49, Indels: 46
0.72 0.14 0.13
Matches are distributed among these distances:
7 48 0.20
8 12 0.05
9 172 0.70
10 3 0.01
11 6 0.02
12 5 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:11102853 original size:25 final size:25
Alignment explanation
Indices: 11102822--11103115 Score: 186
Period size: 25 Copynumber: 11.5 Consensus size: 25
11102812 ATAACATAAC
* *
11102822 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
11102847 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
11102872 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
11102899 AACCTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
11102924 AACTTACCTAACTTACATAATACATA-AT
1 AACTTACATAA--TACAT-A-ACTTACAT
* *
11102952 AACTTACA-ACTTACATAACATACAT
1 AACTTACATA-ATACATAACTTACAT
* ** *
11102977 TACTTTGATAACTTACATAAGTTACAT
1 AACTTACATAA--TACATAACTTACAT
**
11103004 AAAATACATAACTTAC--AACTTACAT
1 AACTTACATAA--TACATAACTTACAT
* * ** *
11103029 AACATACATTACTTTGATAAC-TA-TT
1 AACTTACA-TA-ATACATAACTTACAT
** *
11103054 AAAATACATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
11103079 AGCTTACTTAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
11103104 AACTTACATAAT
1 AACTTACATAAT
11103116 TTACTTAATA
Statistics
Matches: 207, Mismatches: 45, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
23 5 0.02
24 9 0.04
25 116 0.56
26 10 0.05
27 53 0.26
28 10 0.05
29 4 0.02
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:11102914 original size:43 final size:41
Alignment explanation
Indices: 11102842--11102952 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 41
11102832 ATACATAGCA
* * *
11102842 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCT
1 TACACAACTTACATAATACATAA--TACATAACTTAAATAACT
*
11102885 TACACAACTTACATAACCTACATAATACATAACTTACATAACT
1 TACACAACTTACATAA--TACATAATACATAACTTAAATAACT
11102928 TAC-CTAACTTACATAATACATAATA
1 TACAC-AACTTACATAATACATAATA
11102953 ACTTACAACT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
41 9 0.15
42 1 0.02
43 45 0.74
45 6 0.10
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.31
Consensus pattern (41 bp):
TACACAACTTACATAATACATAATACATAACTTAAATAACT
Found at i:11102976 original size:105 final size:105
Alignment explanation
Indices: 11102840--11103031 Score: 228
Period size: 105 Copynumber: 1.8 Consensus size: 105
11102830 TAATACATAG
* * **
11102840 CATACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACCTA
1 CATACATAACTTACATAATACAAAACATACATAACTTAAATAACTTACACAACTTACATAAAATA
11102905 CATAA-TACATAACTTACATAACTTACCTAACTTACATAATA
66 CATAACTAC--AACTTACATAACTTACCTAACTTACATAATA
* * * ** * *
11102946 CATA-ATAACTTACA-ACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAAAAT
1 CATACATAACTTACATA-ATACAAAACATACATAACTTAAATAACTTACACAACTTACATAAAAT
11103009 ACATAACTTACAACTTACATAAC
65 ACATAAC-TACAACTTACATAAC
11103032 ATACATTACT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
104 1 0.01
105 64 0.89
106 4 0.06
107 3 0.04
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (105 bp):
CATACATAACTTACATAATACAAAACATACATAACTTAAATAACTTACACAACTTACATAAAATA
CATAACTACAACTTACATAACTTACCTAACTTACATAATA
Found at i:11103033 original size:61 final size:62
Alignment explanation
Indices: 11102863--11103050 Score: 217
Period size: 61 Copynumber: 3.1 Consensus size: 62
11102853 CATAATACAA
* * * * * **
11102863 AACTTACATAACTTAAAT-AT-CTTACACAACTTACATAACCTACAT-A-ATACATAACTTACAT
1 AACTTACATAACTTACATAATACATA-ATAACTTAC--AACTTACATAACATACATTACTTTGAT
*
11102924 AACTTACCTAACTTACATAATACATAATAACTTACAACTTACATAACATACATTACTTTGAT
1 AACTTACATAACTTACATAATACATAATAACTTACAACTTACATAACATACATTACTTTGAT
*
11102986 AACTTACATAAGTTACATAA-A-ATACATAACTTACAACTTACATAACATACATTACTTTGAT
1 AACTTACATAACTTACATAATACATA-ATAACTTACAACTTACATAACATACATTACTTTGAT
11103047 AACT
1 AACT
11103051 ATTAAAATAC
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
60 11 0.10
61 58 0.52
62 40 0.36
63 3 0.03
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (62 bp):
AACTTACATAACTTACATAATACATAATAACTTACAACTTACATAACATACATTACTTTGAT
Found at i:11103095 original size:61 final size:62
Alignment explanation
Indices: 11102952--11103095 Score: 158
Period size: 61 Copynumber: 2.4 Consensus size: 62
11102942 AATACATAAT
* ** *
11102952 AACTTACAACTTACAT-A-ACATACATTACTTTGATAACTTACATAAGTTACATAAAATACAT
1 AACTTACAACTTACTTAATACATACATTACTTTGATAACTTACATAAAATACAT-AAATACAC
* *
11103013 AACTTACAACTTACAT-A-ACATACATTACTTTGATAAC-TA-TTAAAATACAT-AATACAC
1 AACTTACAACTTACTTAATACATACATTACTTTGATAACTTACATAAAATACATAAATACAC
11103070 AACTTACATAGCTTACTTAATACATA
1 AACTTACA-A-CTTACTTAATACATA
11103096 ACTTACATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
57 14 0.19
58 1 0.01
59 14 0.19
60 3 0.04
61 42 0.57
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.33
Consensus pattern (62 bp):
AACTTACAACTTACTTAATACATACATTACTTTGATAACTTACATAAAATACATAAATACAC
Found at i:11103112 original size:34 final size:32
Alignment explanation
Indices: 11103056--11103130 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 32
11103046 TAACTATTAA
*
11103056 AATACATAATACACAACTTACATAGCTTACTT
1 AATACATAATACACAACTTACATAACTTACTT
* *
11103088 AATACATAACTTACATAACTTACATAATTTACTT
1 AATACATAA--TACACAACTTACATAACTTACTT
*
11103122 AATATATAA
1 AATACATAA
11103131 ATTATGTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 9 0.24
34 28 0.76
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (32 bp):
AATACATAATACACAACTTACATAACTTACTT
Found at i:11109179 original size:85 final size:83
Alignment explanation
Indices: 11109084--11109339 Score: 304
Period size: 85 Copynumber: 3.0 Consensus size: 83
11109074 TTTTGTGAAA
* * * * * *
11109084 TAAGTGCCGCTAAAGAACACTA-CTTTTAGCGGCGTTT-TTGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAATA-TATC-TTTAGCGGCGTTTATT-TCCTAGCGCCGCTAAAGAACATG
11109147 A-CTTTTAGCGGCGTTTTATTTC
63 ATC-TTTAGCGGCGTTTT-TTTC
* *
11109169 TAAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGA
1 TAAGCGCCGCTAAAGAATAT-ATCTTTAGCGGCGTTTATTTCC-TAGCGCCGCTAAAGAACATGA
11109234 TCTTTAGCGGCG-TTTTTTC
64 TCTTTAGCGGCGTTTTTTTC
* *
11109253 ATAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTCTTAGCGCCGCTAAAGAACATG
1 -TAAGCGCCGCTAAAGAATA-TATCTTTAGCGGCGTTTA-TTTCCTAGCGCCGCTAAAGAACATG
11109318 ATCTTTAGCGGCGTTTTTTTC
63 ATCTTTAGCGGCGTTTTTTTC
11109339 T
1 T
11109340 GTAAGCACCG
Statistics
Matches: 150, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
84 5 0.03
85 104 0.69
86 40 0.27
87 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (83 bp):
TAAGCGCCGCTAAAGAATATATCTTTAGCGGCGTTTATTTCCTAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTC
Found at i:11109197 original size:43 final size:41
Alignment explanation
Indices: 11109084--11109336 Score: 278
Period size: 43 Copynumber: 6.0 Consensus size: 41
11109074 TTTTGTGAAA
* *
11109084 TAAGTGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TC
* * *
11109126 CAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTT-TTTC
*
11109169 TAAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-C
* * *
11109212 TTAGCGCTGATAAAGAACATGATCTTTAGCGGCGTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
* *
11109253 ATAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTC
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TT-TTTTC
*
11109297 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
11109337 TCTGTAAGCA
Statistics
Matches: 183, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
41 6 0.03
42 70 0.38
43 99 0.54
44 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
Found at i:11109259 original size:128 final size:128
Alignment explanation
Indices: 11109108--11109338 Score: 333
Period size: 128 Copynumber: 1.8 Consensus size: 128
11109098 GAACACTACT
* * **
11109108 TTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTT-TATTTCTA
1 TTTAGCGGCGTTTTTCACCAAGCGCCGCTAAAGAACAGGATC-TTTAGCGGCGTTTAT-TTTCTA
*
11109171 AGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
64 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
* * *
11109236 TTTAGCGGCGTTTTTTCA-TAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTCTTA
1 TTTAGCGGCG-TTTTTCACCAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTATTTTCTAA
*
11109300 GCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
65 GCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
11109339 TGTAAGCACC
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
128 83 0.91
129 8 0.09
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (128 bp):
TTTAGCGGCGTTTTTCACCAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTATTTTCTAAG
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
Found at i:11110520 original size:17 final size:17
Alignment explanation
Indices: 11110488--11110520 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11110478 TTTTTCTATA
*
11110488 ATTTTTTATTAGTTTTT
1 ATTTTTTATCAGTTTTT
11110505 ATTTTTTATCA-TTTTT
1 ATTTTTTATCAGTTTTT
11110521 CGCCACATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTTTATCAGTTTTT
Found at i:11110679 original size:20 final size:19
Alignment explanation
Indices: 11110656--11110703 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
11110646 TTTCATAAAA
11110656 TTTTACAATTTTTTTATATT
1 TTTTA-AATTTTTTTATATT
11110676 TTTTAAGA--TTTTTATATT
1 TTTTAA-ATTTTTTTATATT
11110694 TTTTATAATT
1 TTTTA-AATT
11110704 GTTAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
18 16 0.67
19 2 0.08
20 6 0.25
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTAAATTTTTTTATATT
Found at i:11113837 original size:5 final size:5
Alignment explanation
Indices: 11113827--11113854 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11113817 AATGGTAAGC
11113827 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11113855 CTATTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11114336 original size:85 final size:89
Alignment explanation
Indices: 11114246--11114440 Score: 236
Period size: 85 Copynumber: 2.2 Consensus size: 89
11114236 AATTAAGTCT
* * * *
11114246 TTTTTTGTTACACTTAATTGTGTATTTGAACTTTTAAAATGCATAAAAAAGACTCTC-AAA-CTT
1 TTTTTT-TTACACTTAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAATCTT
*
11114309 T-AAAAAAAATAATTAAACCCCTG-
65 TCAAAAAAAACAATTAAACCCCTGC
* * * *
11114332 TTTTTTTTCCACTCAATTGGGTAATTGAAATGTTAAAATGCATAAAAAATACTCTCAAAATTTTT
1 TTTTTTTTACACTTAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAATCTTT
* *
11114397 CAAAAAAAGCAATTAAACCTCTGC
66 CAAAAAAAACAATTAAACCCCTGC
*
11114421 TTTTTTTTTGCACTTAATTG
1 -TTTTTTTTACACTTAATTG
11114441 CCAAAATACA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
85 43 0.47
86 9 0.10
87 3 0.03
88 19 0.21
90 17 0.19
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (89 bp):
TTTTTTTTACACTTAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAATCTTT
CAAAAAAAACAATTAAACCCCTGC
Found at i:11114500 original size:20 final size:20
Alignment explanation
Indices: 11114464--11114501 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11114454 AAAATGCTAT
*
11114464 TTGACCGTAAACTTTAACAA
1 TTGACCGTAAACGTTAACAA
11114484 TTGACCGTTAAA-GTTAAC
1 TTGACCG-TAAACGTTAAC
11114502 TGCCCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGACCGTAAACGTTAACAA
Found at i:11114615 original size:21 final size:21
Alignment explanation
Indices: 11114591--11114639 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
11114581 TTAAACTTTA
11114591 ATAAAAATTAG-AAAAAAATAT
1 ATAAAAA-TAGTAAAAAAATAT
11114612 ATAAAAATAGTAAAAAAATAT
1 ATAAAAATAGTAAAAAAATAT
*
11114633 AAAAAAA
1 ATAAAAA
11114640 ATTAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
ATAAAAATAGTAAAAAAATAT
Found at i:11114620 original size:10 final size:10
Alignment explanation
Indices: 11114564--11114674 Score: 70
Period size: 9 Copynumber: 11.2 Consensus size: 10
11114554 ACATGTGACA
11114564 AAAAAT-TAT
1 AAAAATATAT
11114573 AAAAAT-TAT
1 AAAAATATAT
* * *
11114582 TAAACTTTAAT
1 AAAAATAT-AT
* *
11114593 AAAAATTAGAA
1 AAAAA-TATAT
11114604 AAAAATATAT
1 AAAAATATAT
*
11114614 AAAAATAGTAA
1 AAAAATA-TAT
11114625 AAAAATATA-
1 AAAAATATAT
*
11114634 AAAAAAAT-T
1 AAAAATATAT
* *
11114643 AAAATTTTAT
1 AAAAATATAT
11114653 AAAAATCATA-
1 AAAAAT-ATAT
11114663 AAAAATATAT
1 AAAAATATAT
11114673 AA
1 AA
11114675 TGCATCAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
9 28 0.36
10 27 0.35
11 22 0.28
12 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:11114673 original size:20 final size:19
Alignment explanation
Indices: 11114603--11114674 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
11114593 AAAAATTAGA
11114603 AAAAAATATATAAAAATAGT
1 AAAAAATATATAAAAATA-T
*
11114623 AAAAAA-ATATAAAAAAAAT
1 AAAAAATATAT-AAAAATAT
* * *
11114642 TAAAATTTTATAAAAATCAT
1 AAAAAATATATAAAAAT-AT
11114662 AAAAAATATATAA
1 AAAAAATATATAA
11114675 TGCATCAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 14 0.34
20 27 0.66
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (19 bp):
AAAAAATATATAAAAATAT
Found at i:11114674 original size:11 final size:11
Alignment explanation
Indices: 11114603--11114674 Score: 52
Period size: 10 Copynumber: 7.2 Consensus size: 11
11114593 AAAAATTAGA
11114603 AAAAAATATAT
1 AAAAAATATAT
11114614 -AAAAATAGTA-
1 AAAAAATA-TAT
11114624 AAAAAATATA-
1 AAAAAATATAT
11114634 AAAAAA-AT-T
1 AAAAAATATAT
* *
11114643 -AAAATTTTAT
1 AAAAAATATAT
*
11114653 -AAAAAT-CAT
1 AAAAAATATAT
11114662 AAAAAATATAT
1 AAAAAATATAT
11114673 AA
1 AA
11114675 TGCATCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 4 0.08
9 5 0.10
10 27 0.55
11 13 0.27
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (11 bp):
AAAAAATATAT
Found at i:11114919 original size:21 final size:21
Alignment explanation
Indices: 11114895--11115012 Score: 71
Period size: 21 Copynumber: 5.2 Consensus size: 21
11114885 AATAAATACC
*
11114895 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
11114916 AAAAAATTATTTTAAAAATATTTAAA
1 AAAAAATTATTTT-AAAA-A-TT--A
* *
11114942 AATTTAAAAATATTTTAAAAATATTT
1 AA---AAAATTATTTT-AAAA-ATTA
*
11114968 TAAAAA-TATTTT-AAAATTAA
1 AAAAAATTATTTTAAAAATT-A
*
11114988 AAAAAAGTATTTT-AAAATTA
1 AAAAAATTATTTTAAAAATTA
11115008 AAAAA
1 AAAAA
11115013 TTTAAAAAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
19 3 0.04
20 14 0.17
21 24 0.30
22 10 0.12
23 5 0.06
24 2 0.02
26 4 0.05
28 2 0.02
29 17 0.21
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:11114937 original size:11 final size:11
Alignment explanation
Indices: 11114917--11114983 Score: 97
Period size: 11 Copynumber: 6.4 Consensus size: 11
11114907 TAAAAATTAA
11114917 AAAAATTATTTT
1 AAAAA-TATTTT
11114929 AAAAATA-TTT
1 AAAAATATTTT
11114939 -AAAA-A-TTT
1 AAAAATATTTT
11114947 AAAAATATTTT
1 AAAAATATTTT
11114958 AAAAATATTTT
1 AAAAATATTTT
11114969 AAAAATATTTT
1 AAAAATATTTT
11114980 AAAA
1 AAAA
11114984 TTAAAAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.08
9 8 0.15
10 4 0.08
11 31 0.60
12 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11114942 original size:22 final size:22
Alignment explanation
Indices: 11114895--11114986 Score: 97
Period size: 21 Copynumber: 4.4 Consensus size: 22
11114885 AATAAATACC
**
11114895 AAAAATTTATTTTAAAAAT-TAA
1 AAAAA-TTATTTTAAAAATATTT
11114917 AAAAATTATTTTAAAAATATTT
1 AAAAATTATTTTAAAAATATTT
11114939 -AAAA--A-TTTAAAAATATTTT
1 AAAAATTATTTTAAAAATA-TTT
11114958 AAAAA-TATTTTAAAAATATTT
1 AAAAATTATTTTAAAAATATTT
*
11114979 TAAAATTA
1 AAAAATTA
11114987 AAAAAAAGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
18 10 0.16
19 4 0.07
20 4 0.07
21 25 0.41
22 18 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATTATTTTAAAAATATTT
Found at i:11114970 original size:30 final size:32
Alignment explanation
Indices: 11114902--11114974 Score: 116
Period size: 30 Copynumber: 2.4 Consensus size: 32
11114892 ACCAAAAATT
11114902 TATTTTAAAAATTAAAAAAATTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAATTATTTTAAAAA
*
11114934 TA-TTTAAAAATT-TAAAAA-TATTTTAAAAA
1 TATTTTAAAAATTAAAAAAATTATTTTAAAAA
11114963 TATTTTAAAAAT
1 TATTTTAAAAAT
11114975 ATTTTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 13 0.33
30 14 0.36
31 10 0.26
32 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
TATTTTAAAAATTAAAAAAATTATTTTAAAAA
Found at i:11115010 original size:20 final size:20
Alignment explanation
Indices: 11114929--11115012 Score: 82
Period size: 21 Copynumber: 4.2 Consensus size: 20
11114919 AAATTATTTT
* *
11114929 AAAAATATTTAAAAATT--T
1 AAAAATATTTTAAAATTAAA
***
11114947 AAAAATATTTTAAAAATATTTT
1 AAAAATATTTT-AAAAT-TAAA
11114969 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
11114989 AAAAAGTATTTTAAAATTAAA
1 AAAAA-TATTTTAAAATTAAA
11115010 AAA
1 AAA
11115013 TTTAAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
18 10 0.18
19 5 0.09
20 7 0.12
21 23 0.40
22 12 0.21
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAAATATTTTAAAATTAAA
Found at i:11115247 original size:20 final size:20
Alignment explanation
Indices: 11115212--11115290 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
11115202 GTATAATAAT
11115212 TTTTATAAATTTTTTTTACAAA
1 TTTTAT-AA-TTTTTTTACAAA
**
11115234 TTTTATAATTTTTTTACATT
1 TTTTATAATTTTTTTACAAA
* * *
11115254 TTTTATCA-TTTTTTACGAC
1 TTTTATAATTTTTTTACAAA
11115273 TTTATATAATTTTATTTA
1 TTT-TATAATTTT-TTTA
11115291 TTTTTCTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.23
20 21 0.45
21 5 0.11
22 10 0.21
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAA
Found at i:11115321 original size:17 final size:17
Alignment explanation
Indices: 11115301--11115345 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
11115291 TTTTTCTATA
11115301 TTTTATAATTTTACGAT
1 TTTTATAATTTTACGAT
*
11115318 TTTTATAAAATTTTATGAT
1 TTTTAT--AATTTTACGAT
*
11115337 TTATATAAT
1 TTTTATAAT
11115346 ATTTTTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTTATAATTTTACGAT
Found at i:11115331 original size:19 final size:19
Alignment explanation
Indices: 11115307--11115350 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11115297 TATATTTTAT
*
11115307 AATTTTACGATTTTTATAA
1 AATTTTACGATTTATATAA
*
11115326 AATTTTATGATTTATATAA
1 AATTTTACGATTTATATAA
*
11115345 TATTTT
1 AATTTT
11115351 TCTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
AATTTTACGATTTATATAA
Found at i:11115348 original size:46 final size:46
Alignment explanation
Indices: 11115264--11115359 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 46
11115254 TTTTATCATT
* * * *
11115264 TTTTACGACTTTATATAATTTTATTTATTTTTCTATA-TTTTATAA
1 TTTTACGACTTTATAAAATTTTATTGATTTATATATATTTTTATAA
* *
11115309 TTTTACGATTTTTATAAAATTTTA-TGATTTATATAATATTTTTCTAA
1 TTTTACGA-CTTTATAAAATTTTATTGATTTATAT-ATATTTTTATAA
11115356 TTTT
1 TTTT
11115360 TAATAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
45 15 0.36
46 16 0.38
47 11 0.26
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (46 bp):
TTTTACGACTTTATAAAATTTTATTGATTTATATATATTTTTATAA
Found at i:11115420 original size:29 final size:28
Alignment explanation
Indices: 11115342--11115421 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
11115332 ATGATTTATA
* *
11115342 TAATATTTTTCTAATTTTTAATAAAAATT
1 TAATATTTTTATAATTTTT-ATTAAAATT
*
11115371 AAATATTTCTTAT-ATTTTTATTAAAATT
1 TAATATTT-TTATAATTTTTATTAAAATT
*
11115399 TAATAATTTTTATAACTTTTATT
1 TAAT-ATTTTTATAATTTTTATT
11115422 GATTTTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 15 0.35
29 25 0.58
30 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATATTTTTATAATTTTTATTAAAATT
Found at i:11118851 original size:22 final size:24
Alignment explanation
Indices: 11118808--11118851 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
11118798 ATTTGATATA
*
11118808 TTTTGATATAAAAAATTGAAATGT
1 TTTTGATATAAAAAATTAAAATGT
*
11118832 TTTTGA-AT-AAAAGTTAAAAT
1 TTTTGATATAAAAAATTAAAAT
11118852 TGAACAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 2 0.11
24 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAAAAAATTAAAATGT
Found at i:11119078 original size:44 final size:44
Alignment explanation
Indices: 11119025--11119109 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
11119015 CAAAATTGCT
*
11119025 CAATGCCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
1 CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
* *
11119069 CAATACCAAAATGACATTCTGTTTTTCACAAACTCTATTAA
1 CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAA
11119110 GTATCGATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (44 bp):
CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
Found at i:11121215 original size:17 final size:17
Alignment explanation
Indices: 11121193--11121226 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11121183 CGGAGCCAAT
*
11121193 CTCCTCCACGTGCGCCA
1 CTCCTCCACGCGCGCCA
11121210 CTCCTCCACGCGCGCCA
1 CTCCTCCACGCGCGCCA
11121227 TGGCTTGCGC
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:0.12, C:0.56, G:0.18, T:0.15
Consensus pattern (17 bp):
CTCCTCCACGCGCGCCA
Found at i:11122469 original size:14 final size:14
Alignment explanation
Indices: 11122446--11122484 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11122436 CTATACATAT
*
11122446 TATTTTTATATGTA
1 TATTTATATATGTA
*
11122460 TATTTATATATGTG
1 TATTTATATATGTA
11122474 T-TTTATATATG
1 TATTTATATATG
11122485 CATTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (14 bp):
TATTTATATATGTA
Found at i:11122480 original size:13 final size:13
Alignment explanation
Indices: 11122442--11122484 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
11122432 TCTGCTATAC
11122442 ATAT-TATTTT-T
1 ATATGTATTTTAT
11122453 ATATGTATATTTAT
1 ATATGTAT-TTTAT
*
11122467 ATATGTGTTTTAT
1 ATATGTATTTTAT
11122480 ATATG
1 ATATG
11122485 CATTAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 4 0.14
12 3 0.11
13 13 0.46
14 8 0.29
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (13 bp):
ATATGTATTTTAT
Found at i:11128236 original size:45 final size:45
Alignment explanation
Indices: 11128186--11128619 Score: 362
Period size: 44 Copynumber: 9.8 Consensus size: 45
11128176 TCGAATAAAT
* *
11128186 AGATCTT-TCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGC
1 AGATCTTGT-CTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*** * *
11128231 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* ** *
11128275 AAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGAAAAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* *** * * *
11128320 AGATATTGTCTTCATGTACTGG-CGTGAAGTAGATCAAATATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* *
11128364 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*** * * * *
11128409 AGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAA-ATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-AAAGAAAGC
*** * *
11128453 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* *** * * ** *
11128497 AAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATTGAAGAAAAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*** * * *
11128541 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*
11128585 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGAT
11128620 TGAAAATACA
Statistics
Matches: 319, Mismatches: 64, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.01
44 218 0.68
45 97 0.30
46 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
Found at i:11128527 original size:88 final size:89
Alignment explanation
Indices: 11128186--11128597 Score: 499
Period size: 89 Copynumber: 4.7 Consensus size: 89
11128176 TCGAATAAAT
* * * *
11128186 AGATCTT-TCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGT-CTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
11128250 TGGCGTGAAGTAGATCAAAGATAGC
65 TGGCGTGAAGTAGATCAAAGATAGC
* * * ** * *
11128275 AAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGAAAACAGATATTGTCTTCATGTACT
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
*
11128340 GGCGTGAAGTAGATCAAATATAGC
66 GGCGTGAAGTAGATCAAAGATAGC
* * * * *
11128364 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
*
11128429 AGCGTGAAGTAGATCGAAA-ATAGC
66 GGCGTGAAGTAGATC-AAAGATAGC
** * * *
11128453 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
** * *
11128517 GGCGTGAAGTAGATTGAAGAAAAC
66 GGCGTGAAGTAGATCAAAGATAGC
** * *
11128541 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTC
11128598 CCATACTGGT
Statistics
Matches: 290, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.01
88 108 0.37
89 176 0.61
90 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAGC
Found at i:11128606 original size:44 final size:44
Alignment explanation
Indices: 11128212--11128597 Score: 477
Period size: 44 Copynumber: 8.7 Consensus size: 44
11128202 TACTGGTGGC
* *
11128212 GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
* *** *
11128256 GAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGG-CGT
** * * *
11128301 GAAGTAGATTGAAGAAAACAGATATTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
* *** * *
11128345 GAAGTAGATCAAATATAGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGG-CGT
* * * *
11128390 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
11128434 GAAGTAGATCGAAA-ATAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATC-AAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
* *
11128478 GAAGTAGATCAAAGATAGCAAATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
** * *
11128522 GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
*
11128566 GAAGTAGATCAAAGATACCAGATCTTGTCTTC
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTC
11128598 CCATACTGGT
Statistics
Matches: 284, Mismatches: 54, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
43 3 0.01
44 211 0.74
45 70 0.25
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
Found at i:11128615 original size:133 final size:132
Alignment explanation
Indices: 11128186--11128619 Score: 467
Period size: 133 Copynumber: 3.3 Consensus size: 132
11128176 TCGAATAAAT
* * * *
11128186 AGATCTT-TCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGT-CTTCACATACTGG-CGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTAC
* * * *** * **
11128250 TGGCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAG
64 TGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
*
11128315 AAAAC
128 ATAAC
* ** * * ***
11128320 AGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTG
* * * *
11128385 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAA-A
66 G-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAAGA
*
11128449 TAGC
129 TAAC
** * * *
11128453 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTG
* *
11128518 GCGTGAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
66 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
*
11128583 CC
131 AC
* *
11128585 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
1 AGATCTTGTCTTCACATACTGG-CGCGAAGTAGAT
11128620 TGAAAATACA
Statistics
Matches: 249, Mismatches: 46, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
131 3 0.01
132 74 0.30
133 119 0.48
134 52 0.21
135 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (132 bp):
AGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTG
GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
AC
Found at i:11129227 original size:17 final size:17
Alignment explanation
Indices: 11129205--11129238 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11129195 CGGAGCCAAT
*
11129205 CTCCTCCACGTGCGCCA
1 CTCCTCCACGCGCGCCA
11129222 CTCCTCCACGCGCGCCA
1 CTCCTCCACGCGCGCCA
11129239 TGGCTTGCGC
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:0.12, C:0.56, G:0.18, T:0.15
Consensus pattern (17 bp):
CTCCTCCACGCGCGCCA
Found at i:11133589 original size:14 final size:14
Alignment explanation
Indices: 11133566--11133618 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
11133556 ATTATTTTAT
*
11133566 TTTAGGATTTAGGG
1 TTTAGAATTTAGGG
*
11133580 TTTAGAATTTTAGTG
1 TTTAGAA-TTTAGGG
11133595 TTTAG-ATTTAGGG
1 TTTAGAATTTAGGG
*
11133608 TTTAAAATTTA
1 TTTAGAATTTA
11133619 ACGTTTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 10 0.30
14 12 0.36
15 11 0.33
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
TTTAGAATTTAGGG
Found at i:11133597 original size:15 final size:15
Alignment explanation
Indices: 11133573--11133617 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11133563 TATTTTAGGA
11133573 TTTAGGGTTTAGAAT
1 TTTAGGGTTTAGAAT
*
11133588 TTTAGTGTTTAG-A-
1 TTTAGGGTTTAGAAT
*
11133601 TTTAGGGTTTAAAAT
1 TTTAGGGTTTAGAAT
11133616 TT
1 TT
11133618 AACGTTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 13 0.52
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTAGAAT
Found at i:11133604 original size:28 final size:27
Alignment explanation
Indices: 11133559--11133617 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
11133549 CAAAAAAATT
*
11133559 ATTTTATTTTAGGATTTAGGGTTTAGA
1 ATTTTATTTTAGGATTTAGGGTTTAAA
11133586 ATTTTAGTGTTTA-GATTTAGGGTTTAAA
1 ATTTTA-T-TTTAGGATTTAGGGTTTAAA
11133614 ATTT
1 ATTT
11133618 AACGTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 19 0.66
29 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (27 bp):
ATTTTATTTTAGGATTTAGGGTTTAAA
Found at i:11133626 original size:28 final size:27
Alignment explanation
Indices: 11133565--11133627 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
11133555 AATTATTTTA
* *
11133565 TTTTAGGATTTAGGGTTTAGAATTTTAG
1 TTTTA-GATTTAGGGTTTAAAATTTAAG
11133593 TGTTTAGATTTAGGGTTTAAAATTTAACG
1 T-TTTAGATTTAGGGTTTAAAATTTAA-G
11133622 TTTTAG
1 TTTTAG
11133628 TGTTTATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (27 bp):
TTTTAGATTTAGGGTTTAAAATTTAAG
Found at i:11133931 original size:28 final size:29
Alignment explanation
Indices: 11133900--11133955 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
11133890 AAAATTTCTG
*
11133900 TAATTTTTTTTTACATTT-GAAATTTAGT
1 TAATTTATTTTTACATTTAGAAATTTAGT
**
11133928 TAATTTATTTTTATTTTTAGAAATTTAG
1 TAATTTATTTTTACATTTAGAAATTTAG
11133956 GATTTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (29 bp):
TAATTTATTTTTACATTTAGAAATTTAGT
Found at i:11144576 original size:26 final size:26
Alignment explanation
Indices: 11144540--11144591 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11144530 CTAATTGAGA
11144540 AAGTGAGAATTCATAATGGTCTCATC
1 AAGTGAGAATTCATAATGGTCTCATC
11144566 AAGTGAGAATTCATAATGGTCTCATC
1 AAGTGAGAATTCATAATGGTCTCATC
11144592 CTCATTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (26 bp):
AAGTGAGAATTCATAATGGTCTCATC
Found at i:11146781 original size:23 final size:23
Alignment explanation
Indices: 11146729--11146781 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
11146719 TTAAGTTAAT
* **
11146729 CAAATTAAGTTATTCGAGTCGACT
1 CAAA-TAAGTTATTCGAGTCAAAG
11146753 CAAATAAGTTATTCGAGTCAAAG
1 CAAATAAGTTATTCGAGTCAAAG
*
11146776 CTAATA
1 CAAATA
11146782 TATGGACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (23 bp):
CAAATAAGTTATTCGAGTCAAAG
Found at i:11148930 original size:5 final size:5
Alignment explanation
Indices: 11148914--11148948 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
11148904 AAATTCCTAA
11148914 GCCCG AGCCCG GCCCG GCCCG GCCCG GCCCG GCCC
1 GCCCG -GCCCG GCCCG GCCCG GCCCG GCCCG GCCC
11148949 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.03, C:0.60, G:0.37, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:11152428 original size:3 final size:3
Alignment explanation
Indices: 11152420--11152475 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
11152410 ATCAATTAAA
* *
11152420 TAT TAT TA- TAT TAT TAT AAT AAT GTAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
11152465 TAT TAT TAT TA
1 TAT TAT TAT TA
11152476 CTACGTAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:11153316 original size:36 final size:38
Alignment explanation
Indices: 11153248--11153339 Score: 93
Period size: 36 Copynumber: 2.5 Consensus size: 38
11153238 ATATGTGTGG
*
11153248 AATTGAAATGAATAT-TGACTTGAAAATGG-AAAAGTGAA
1 AATTGAATTGAAT-TGTGACTTGAAAATGGAAAAAGT-AA
** *
11153286 TTTTGAATTGAATTGTGA-TTGAAAGT-GAAAAAGTAA
1 AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTAA
*
11153322 AATTGAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
11153340 ATTTGGAGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
36 18 0.40
37 14 0.31
38 13 0.29
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.32
Consensus pattern (38 bp):
AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTAA
Found at i:11157066 original size:41 final size:41
Alignment explanation
Indices: 11157007--11157102 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
11156997 ATTGAAATTT
* *
11157007 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
11157048 GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
1 GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
11157089 GTGATCTGAATCAA
1 GTGATCTGAATCAA
11157103 AGGAACGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (41 bp):
GTGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCG
Found at i:11157329 original size:41 final size:41
Alignment explanation
Indices: 11157272--11157406 Score: 225
Period size: 41 Copynumber: 3.3 Consensus size: 41
11157262 GTTTGGAATT
11157272 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
11157313 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
11157354 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
11157395 GGTGATCTGAAT
1 GGTGATCTGAAT
11157407 ATGTTAAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:11158600 original size:32 final size:32
Alignment explanation
Indices: 11158559--11158623 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
11158549 ACCTAACATT
11158559 GAGGTATCAATATCTGAATTCCTCAAATACTG
1 GAGGTATCAATATCTGAATTCCTCAAATACTG
11158591 GAGGTATCAATATCTGAATTCCTCAAATACTG
1 GAGGTATCAATATCTGAATTCCTCAAATACTG
11158623 G
1 G
11158624 TACATTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (32 bp):
GAGGTATCAATATCTGAATTCCTCAAATACTG
Found at i:11169799 original size:12 final size:12
Alignment explanation
Indices: 11169782--11169806 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11169772 TTTGCCCCTA
11169782 ATAATACATATT
1 ATAATACATATT
11169794 ATAATACATATT
1 ATAATACATATT
11169806 A
1 A
11169807 ATGTATTACT
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):
ATAATACATATT
Found at i:11171100 original size:16 final size:16
Alignment explanation
Indices: 11171079--11171113 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11171069 AATAAATATG
11171079 ATAATATTCA-TTATTA
1 ATAATATT-ATTTATTA
11171095 ATAATATTATTTATTA
1 ATAATATTATTTATTA
11171111 ATA
1 ATA
11171114 GTACCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAATATTATTTATTA
Found at i:11175183 original size:14 final size:15
Alignment explanation
Indices: 11175154--11175191 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
11175144 ATATCTCAAT
*
11175154 TTAATTTCATACCAA
1 TTAATTACATACCAA
*
11175169 TT-ATTACATATCAA
1 TTAATTACATACCAA
11175183 TTAATTACA
1 TTAATTACA
11175192 CCACTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAATTACATACCAA
Done.