Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 7 of 84
Found at i:1031260 original size:30 final size:29
Alignment explanation
Indices: 1031225--1031310 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
1031215 TTTATTTAAA
1031225 GAAAAT-AAAATAATGAAACAAAATAAAAGT
1 GAAAATAAAAATAAT-AAA-AAAATAAAAGT
* *
1031255 GAAAATAAAAAAAATAAAATAAAGAAAAGT
1 GAAAATAAAAATAATAAAA-AAATAAAAGT
*
1031285 -AAAATAAAAATAAAAAATAAAATAAA
1 GAAAATAAAAATAATAAA-AAAATAAA
1031311 GGTAAAAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 22 0.46
30 19 0.40
31 7 0.15
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (29 bp):
GAAAATAAAAATAATAAAAAAATAAAAGT
Found at i:1031316 original size:18 final size:17
Alignment explanation
Indices: 1031226--1031318 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 17
1031216 TTATTTAAAG
* *
1031226 AAAATAAAATAATGAAA
1 AAAATAAAATAAAGTAA
*
1031243 CAAAATAAAAGTGAAAATAAAA
1 -AAAATAAAA-T-AAAGT--AA
1031265 AAAATAAAATAAAG--A
1 AAAATAAAATAAAGTAA
* *
1031280 AAAGTAAAATAAAAATAA
1 AAAATAAAAT-AAAGTAA
1031298 AAAATAAAATAAAGGTAA
1 AAAATAAAATAAA-GTAA
1031316 AAA
1 AAA
1031319 GAATACTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.17
16 3 0.05
17 3 0.05
18 25 0.42
19 4 0.07
20 3 0.05
21 9 0.15
22 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAAGTAA
Found at i:1031386 original size:20 final size:20
Alignment explanation
Indices: 1031227--1031397 Score: 68
Period size: 20 Copynumber: 8.0 Consensus size: 20
1031217 TATTTAAAGA
1031227 AAATAAAATAATGAAACAAAAT
1 AAATAAAATAAT-AAA-AAAAT
1031249 AAAAGTGAAAAT-A-AAAAAAAT
1 -AAA-T-AAAATAATAAAAAAAT
* *
1031270 AAAATAAAGAAAAGTAAAATAA-
1 -AAATAAA-ATAA-TAAAAAAAT
1031292 AAATAAAA-AATAAAATAAAGGT
1 AAATAAAATAATAAAA-AAA--T
* *
1031314 AAA-AAGAATACTAAATAAACCT
1 AAATAA-AATAATAAA-AAA-AT
* *
1031336 AATCTAATAAATAATAAATAAAT
1 AA-AT-A-AAATAATAAAAAAAT
1031359 AAATAAAATAATAAAAAAATT
1 AAATAAAATAATAAAAAAA-T
1031380 AAA-AAAA-AATTAAAAAAA
1 AAATAAAATAA-TAAAAAAA
1031398 AAACCTGGAG
Statistics
Matches: 117, Mismatches: 11, Indels: 43
0.68 0.06 0.25
Matches are distributed among these distances:
18 5 0.04
19 9 0.08
20 28 0.24
21 24 0.21
22 12 0.10
23 19 0.16
24 5 0.04
25 14 0.12
26 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.19
Consensus pattern (20 bp):
AAATAAAATAATAAAAAAAT
Found at i:1031400 original size:12 final size:11
Alignment explanation
Indices: 1031371--1031399 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1031361 ATAAAATAAT
1031371 AAAAAAATTAA
1 AAAAAAATTAA
1031382 AAAAAAATTAA
1 AAAAAAATTAA
1031393 AAAAAAA
1 AAAAAAA
1031400 ACCTGGAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:1032334 original size:10 final size:9
Alignment explanation
Indices: 1032312--1032341 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1032302 AAATATTAAC
1032312 AAGAAAAAA
1 AAGAAAAAA
1032321 AAGAAAAAA
1 AAGAAAAAA
1032330 GAAGAAAAAA
1 -AAGAAAAAA
1032340 AA
1 AA
1032342 ATAATAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:1032416 original size:6 final size:6
Alignment explanation
Indices: 1032383--1032498 Score: 109
Period size: 6 Copynumber: 19.7 Consensus size: 6
1032373 CATAAATACC
*
1032383 TAAAAA -AATAAA TAAATA TAAAATAA TAAAAA T-AAAA T-AAAA T-AAAA
1 TAAAAA TAA-AAA TAAAAA T-AAA-AA TAAAAA TAAAAA TAAAAA TAAAAA
* * * *
1032430 TAAAAA TAGAAA TAGAAA T-AAAA TAAAAA TGTAAAA T-ACAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA
1032477 TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAA
1032499 GAAGAAAAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 16
0.81 0.06 0.14
Matches are distributed among these distances:
5 25 0.26
6 55 0.58
7 13 0.14
8 2 0.02
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:1032451 original size:47 final size:46
Alignment explanation
Indices: 1032383--1032498 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 46
1032373 CATAAATACC
1032383 TAAAAA-AATAAATAAATATAAAATAATAAAAATAAAATAAAAT-AAAA
1 TAAAAATAA-AAATAAA-ATAAAATAA-AAAAATAAAATAAAATAAAAA
* ** *
1032430 TAAAAATAGAAATAGAAATAAAATAAAAATGTAAAATACAATAAAAA
1 TAAAAATAAAAATA-AAATAAAATAAAAAAATAAAATAAAATAAAAA
1032477 TAAAAATAAAAATAAAAATAAA
1 TAAAAATAAAAAT-AAAATAAA
1032499 GAAGAAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
46 13 0.22
47 43 0.72
48 4 0.07
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.20
Consensus pattern (46 bp):
TAAAAATAAAAATAAAATAAAATAAAAAAATAAAATAAAATAAAAA
Found at i:1032452 original size:23 final size:22
Alignment explanation
Indices: 1032383--1032498 Score: 107
Period size: 23 Copynumber: 5.2 Consensus size: 22
1032373 CATAAATACC
*
1032383 TAAAAAAATAAATA-AATATAAAA
1 TAAAATAA-AAATAGAA-ATAAAA
1032406 T--AATAAAAATA-AAATAAAA
1 TAAAATAAAAATAGAAATAAAA
1032425 TAAAATAAAAATAGAAATAGAAA
1 TAAAATAAAAATAGAAATA-AAA
*
1032448 TAAAATAAAAAT-GTAAAATACAA
1 TAAAATAAAAATAG--AAATAAAA
*
1032471 TAAAAATAAAAATAAAAATAAAAA
1 T-AAAATAAAAATAGAAAT-AAAA
1032495 TAAA
1 TAAA
1032499 GAAGAAAAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
19 7 0.09
20 7 0.09
21 14 0.17
22 6 0.08
23 26 0.32
24 20 0.25
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.20
Consensus pattern (22 bp):
TAAAATAAAAATAGAAATAAAA
Found at i:1032851 original size:15 final size:15
Alignment explanation
Indices: 1032832--1032871 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1032822 CCTAAAATCC
*
1032832 AAAATCCTAAACCTT
1 AAAATCCAAAACCTT
* *
1032847 GAAATGCAAAACCTT
1 AAAATCCAAAACCTT
1032862 AAAATCCAAA
1 AAAATCCAAA
1032872 TTTCTGAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.20
Consensus pattern (15 bp):
AAAATCCAAAACCTT
Found at i:1032864 original size:22 final size:22
Alignment explanation
Indices: 1032811--1032864 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
1032801 CCAAAACTTC
*
1032811 AAACCTCAAACCCTAAAATCCA
1 AAACCTTAAACCCTAAAATCCA
* * *
1032833 AAATCC-TAAACCTTGAAATGCA
1 AAA-CCTTAAACCCTAAAATCCA
1032855 AAACCTTAAA
1 AAACCTTAAA
1032865 ATCCAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.19
Consensus pattern (22 bp):
AAACCTTAAACCCTAAAATCCA
Found at i:1033140 original size:17 final size:17
Alignment explanation
Indices: 1033118--1033150 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1033108 AATAATTGTT
1033118 TAATAATAAAAAGGGAA
1 TAATAATAAAAAGGGAA
*
1033135 TAATAATAAAATGGGA
1 TAATAATAAAAAGGGA
1033151 TCTTAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (17 bp):
TAATAATAAAAAGGGAA
Found at i:1034923 original size:21 final size:20
Alignment explanation
Indices: 1034910--1034949 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1034900 AAAAAGATGG
1034910 AAAAAAAGAAAAAAAAGCAAA
1 AAAAAAAGAAAAAAAAG-AAA
1034931 AAAAAAAGAGAAAAAAAGA
1 AAAAAAAGA-AAAAAAAGA
1034950 GATTTAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAAGAAA
Found at i:1034950 original size:10 final size:10
Alignment explanation
Indices: 1034898--1034951 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 10
1034888 AGGATAAATA
1034898 AAAAAAAGATGG
1 AAAAAAAGA--G
1034910 AAAAAAAGA-
1 AAAAAAAGAG
*
1034919 AAAAAAAGCAAA
1 AAAAAAAG--AG
1034931 AAAAAAAGAG
1 AAAAAAAGAG
1034941 AAAAAAAGAG
1 AAAAAAAGAG
1034951 A
1 A
1034952 TTTAGGATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
9 8 0.21
10 12 0.32
11 1 0.03
12 17 0.45
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:1036336 original size:4 final size:4
Alignment explanation
Indices: 1036327--1036380 Score: 74
Period size: 4 Copynumber: 13.5 Consensus size: 4
1036317 TACATTTACC
* *
1036327 CATT CATT CATT CATT CATT CATT CATT CATT CATC CATT TATGT -ATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CAT-T CATT
1036375 CATT CA
1 CATT CA
1036381 ATATAATACA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
3 1 0.02
4 43 0.96
5 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:1038048 original size:9 final size:10
Alignment explanation
Indices: 1038034--1038077 Score: 60
Period size: 9 Copynumber: 4.8 Consensus size: 10
1038024 AGCAATGTCT
1038034 TAAAAAATA-
1 TAAAAAATAG
1038043 TAAAAAA-AG
1 TAAAAAATAG
1038052 TAAAAAATA-
1 TAAAAAATAG
1038061 TAAAAAA-AG
1 TAAAAAATAG
1038070 TAAAAAAT
1 TAAAAAAT
1038078 GAAAAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 2 0.06
9 28 0.90
10 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
TAAAAAATAG
Found at i:1038065 original size:27 final size:27
Alignment explanation
Indices: 1038035--1038105 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
1038025 GCAATGTCTT
*
1038035 AAAAAATATAAAAAAAGTAAAAAATATA
1 AAAAAATATAAAAAAAGTAAAAAA-AGA
* * *
1038063 AAAAAA-GTAAAAAATGAAAAAAAAGA
1 AAAAAATATAAAAAAAGTAAAAAAAGA
* *
1038089 GAAAAAAAAGAAAAAAA
1 -AAAAAATATAAAAAAA
1038106 AAGTTTTGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
26 2 0.06
27 20 0.59
28 12 0.35
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (27 bp):
AAAAAATATAAAAAAAGTAAAAAAAGA
Found at i:1038094 original size:18 final size:18
Alignment explanation
Indices: 1038034--1038087 Score: 92
Period size: 18 Copynumber: 3.0 Consensus size: 18
1038024 AGCAATGTCT
1038034 TAAAAAATATAAAAAAAG
1 TAAAAAATATAAAAAAAG
1038052 TAAAAAATATAAAAAAAG
1 TAAAAAATATAAAAAAAG
1038070 TAAAAAATGA-AAAAAAAG
1 TAAAAAAT-ATAAAAAAAG
1038088 AGAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 34 0.97
19 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
TAAAAAATATAAAAAAAG
Found at i:1038106 original size:9 final size:9
Alignment explanation
Indices: 1038044--1038106 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 9
1038034 TAAAAAATAT
1038044 AAAAAAAGTA
1 AAAAAAAG-A
* *
1038054 AAAAATA-T
1 AAAAAAAGA
*
1038062 AAAAAAAGT
1 AAAAAAAGA
*
1038071 AAAAAATGAA
1 AAAAAAAG-A
1038081 AAAAAAGAGA
1 AAAAAA-AGA
1038091 AAAAAAAGA
1 AAAAAAAGA
1038100 AAAAAAA
1 AAAAAAA
1038107 AGTTTTGAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
8 6 0.14
9 18 0.41
10 19 0.43
11 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.08
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:1038823 original size:21 final size:24
Alignment explanation
Indices: 1038788--1038837 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
1038778 GGCATGCAAA
1038788 AAAAAAAAGGCCAAA-GAAAAAAG
1 AAAAAAAAGGCCAAAGGAAAAAAG
*
1038811 AAAAAAAA-G-CAAAGGAAAAAAT
1 AAAAAAAAGGCCAAAGGAAAAAAG
1038833 AAAAA
1 AAAAA
1038838 TGGTTATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 4 0.16
22 13 0.52
23 8 0.32
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (24 bp):
AAAAAAAAGGCCAAAGGAAAAAAG
Found at i:1040354 original size:33 final size:33
Alignment explanation
Indices: 1040312--1040721 Score: 125
Period size: 33 Copynumber: 12.5 Consensus size: 33
1040302 GGCTCCCAAT
*
1040312 TTTAAGCCCAGTTTA-CTTAGCCGTCAAAGAAGA
1 TTTAAGCCCAGTTTATCTT-GCCATCAAAGAAGA
* * *
1040345 TTTAAGCCCAATTTATCTTGCCATCAATGAAGT
1 TTTAAGCCCAGTTTATCTTGCCATCAAAGAAGA
* * ** * * *
1040378 TTTAAGTCCAGTTTAACGGGCCCT-TAAGAAAA
1 TTTAAGCCCAGTTTATCTTGCCATCAAAGAAGA
* * * *
1040410 TCTTAAGCCTAGTTTATCTGGCTATCAATA-AAGT
1 T-TTAAGCCCAGTTTATCTTGCCATCAA-AGAAGA
* * * *
1040444 TTTAAGCCC-GATTTACCTAGCCTTCAAAGAATGT
1 TTTAAGCCCAG-TTTATCTTGCCATCAAAGAA-GA
*
1040478 TTTAAGCCCAGTTTAGT-TGGCC-TCTAAAGAA-A
1 TTTAAGCCCAGTTTA-TCTTGCCATC-AAAGAAGA
* * * ** *
1040510 TCTTAAGCTCAATTTATCTGGCCCCCAAGGAA-A
1 T-TTAAGCCCAGTTTATCTTGCCATCAAAGAAGA
* * * **
1040543 TCTTAAGCTCATTTTAT-TTAGCC-TC---TAATC
1 T-TTAAGCCCAGTTTATCTT-GCCATCAAAGAAGA
* * * * * *
1040573 TTTAAGCCCAATTTATCTGGCCTTTAAAAAAAA
1 TTTAAGCCCAGTTTATCTTGCCATCAAAGAAGA
* * * * *
1040606 TTTAAGCCCAATTTATCTGGCCATTAATGAAGT
1 TTTAAGCCCAGTTTATCTTGCCATCAAAGAAGA
* * * * *
1040639 TTTAAGCTCAGTTTATCTAGCC-CCAAATGAGGT
1 TTTAAGCCCAGTTTATCTTGCCATCAAA-GAAGA
* * *
1040672 TTTAAGCCTAGTTTAAC-TGACACTCAATA-AA-A
1 TTTAAGCCCAGTTTATCTTGCCA-TCAA-AGAAGA
*
1040704 TTTAAGCCTAGTTTATCT
1 TTTAAGCCCAGTTTATCT
1040722 AGTCCCAAAA
Statistics
Matches: 284, Mismatches: 68, Indels: 50
0.71 0.17 0.12
Matches are distributed among these distances:
29 18 0.06
30 3 0.01
32 31 0.11
33 193 0.68
34 36 0.13
35 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (33 bp):
TTTAAGCCCAGTTTATCTTGCCATCAAAGAAGA
Found at i:1040364 original size:86 final size:86
Alignment explanation
Indices: 1040214--1040383 Score: 261
Period size: 86 Copynumber: 2.0 Consensus size: 86
1040204 GCCAGTGTAA
* * * * *
1040214 CTGGCCCCTAATTTTAAGCCTAGTTTACTTGGCCATCAAATAAGATTTAAGCTCAATTTTTCTTG
1 CTGGCCCCTAATTTTAAGCCCAGTTTACTTAGCCATCAAAGAAGATTTAAGCCCAATTTATCTTG
1040279 CCATCAATGAAATTTTAAGCT
66 CCATCAATGAAATTTTAAGCT
*
1040300 CTGGCTCCC-AATTTTAAGCCCAGTTTACTTAGCCGTCAAAGAAGATTTAAGCCCAATTTATCTT
1 CTGGC-CCCTAATTTTAAGCCCAGTTTACTTAGCCATCAAAGAAGATTTAAGCCCAATTTATCTT
*
1040364 GCCATCAATGAAGTTTTAAG
65 GCCATCAATGAAATTTTAAG
1040384 TCCAGTTTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
86 73 0.96
87 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (86 bp):
CTGGCCCCTAATTTTAAGCCCAGTTTACTTAGCCATCAAAGAAGATTTAAGCCCAATTTATCTTG
CCATCAATGAAATTTTAAGCT
Found at i:1040517 original size:100 final size:99
Alignment explanation
Indices: 1040345--1040531 Score: 234
Period size: 100 Copynumber: 1.9 Consensus size: 99
1040335 TCAAAGAAGA
* * * * *
1040345 TTTAAGCCCAATTTATCTTGCCATCAATGAAGTTTTAAGTCCAGTTTAACGGGCCCTTAAGAAAA
1 TTTAAGCCCAATTTACCTAGCCATCAAAGAAGTTTTAAGCCCAGTTTAACGGGCCCTAAAGAAAA
*
1040410 TCTTAAGC-CTAGTTTATCTGGCTATCAATAAAGT
66 TCTTAAGCTC-AATTTATCTGGCTATCAATAAAGT
* * ***
1040444 TTTAAGCCCGATTTACCTAGCCTTCAAAGAATGTTTTAAGCCCAGTTTAGTTGGCCTCTAAAG-A
1 TTTAAGCCCAATTTACCTAGCCATCAAAGAA-GTTTTAAGCCCAGTTTAACGGGCC-CTAAAGAA
1040508 AATCTTAAGCTCAATTTATCTGGC
64 AATCTTAAGCTCAATTTATCTGGC
1040532 CCCCAAGGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
99 26 0.35
100 42 0.57
101 6 0.08
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (99 bp):
TTTAAGCCCAATTTACCTAGCCATCAAAGAAGTTTTAAGCCCAGTTTAACGGGCCCTAAAGAAAA
TCTTAAGCTCAATTTATCTGGCTATCAATAAAGT
Found at i:1040644 original size:95 final size:95
Alignment explanation
Indices: 1040478--1040660 Score: 226
Period size: 95 Copynumber: 1.9 Consensus size: 95
1040468 CAAAGAATGT
* * * *
1040478 TTTAAGCCCAGTTTAGTTGGCCTCTAAAGAAATCTTAAGCTCAATTTATCTGGCCCCCAAGGAAA
1 TTTAAGCCCAATTTAGTTGGCCTCTAAAAAAATCTTAAGCCCAATTTATCTGGCCACCAAGGAAA
* *
1040543 TCTTAAGCTCATTTTATTTAGCCTCTAATC
66 TCTTAAGCTCAGTTTATCTAGCCTCTAATC
* ** *
1040573 TTTAAGCCCAATTTA-TCTGGCCTTTAAAAAAAAT-TTAAGCCCAATTTATCTGGCCATTAATGA
1 TTTAAGCCCAATTTAGT-TGGCCTCT-AAAAAAATCTTAAGCCCAATTTATCTGGCCACCAAGGA
* *
1040636 AGTTTTAAGCTCAGTTTATCTAGCC
64 AATCTTAAGCTCAGTTTATCTAGCC
1040661 CCAAATGAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
94 1 0.01
95 66 0.89
96 7 0.09
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (95 bp):
TTTAAGCCCAATTTAGTTGGCCTCTAAAAAAATCTTAAGCCCAATTTATCTGGCCACCAAGGAAA
TCTTAAGCTCAGTTTATCTAGCCTCTAATC
Found at i:1040656 original size:66 final size:66
Alignment explanation
Indices: 1040311--1040656 Score: 169
Period size: 66 Copynumber: 5.3 Consensus size: 66
1040301 TGGCTCCCAA
* * * * * * *
1040311 TTTTAAGCCCAGTTTA-CTTAGCCGTCAAAGAAGATTTAAGCCCAATTTATCTTGCCATCAATGA
1 TTTTAAGCTCAGTTTATC-TGGCCTTCAAAAAAAATTTAAGCCCAATTTATCTGGCCATTAATGA
1040375 AG
65 AG
* * * * * * *
1040377 TTTTAAG-TCCAGTTTAACGGGCCCTT--AAGAAAATCTTAAGCCTAGTTTATCTGGCTATCAAT
1 TTTTAAGCT-CAGTTTATCTGG-CCTTCAAAAAAAAT-TTAAGCCCAATTTATCTGGCCATTAAT
*
1040439 AAAG
63 GAAG
* * * *** *
1040443 TTTTAAGC-CCGATTTACCTAGCCTTCAAAGAATGTTTTAAGCCCAGTTTAGT-TGGCC-TCTAA
1 TTTTAAGCTCAG-TTTATCTGGCCTTCAAA-AAAAATTTAAGCCCAATTTA-TCTGGCCAT-TAA
* *
1040505 AGAAA
62 TGAAG
* * * * ** * * * *
1040510 TCTTAAGCTCAATTTATCTGGCC-CCCAAGGAAATCTTAAGCTCATTTTATTTAGCC-TCTAAT-
1 TTTTAAGCTCAGTTTATCTGGCCTTCAAAAAAAAT-TTAAGCCCAATTTATCTGGCCAT-TAATG
1040572 ---
64 AAG
* * * *
1040572 CTTTAAGCCCAATTTATCTGGCCTTTAAAAAAAATTTAAGCCCAATTTATCTGGCCATTAATGAA
1 TTTTAAGCTCAGTTTATCTGGCCTTCAAAAAAAATTTAAGCCCAATTTATCTGGCCATTAATGAA
1040637 G
66 G
1040638 TTTTAAGCTCAGTTTATCT
1 TTTTAAGCTCAGTTTATCT
1040657 AGCCCCAAAT
Statistics
Matches: 205, Mismatches: 55, Indels: 40
0.68 0.18 0.13
Matches are distributed among these distances:
62 41 0.20
63 7 0.03
65 15 0.07
66 95 0.46
67 43 0.21
68 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (66 bp):
TTTTAAGCTCAGTTTATCTGGCCTTCAAAAAAAATTTAAGCCCAATTTATCTGGCCATTAATGAA
G
Found at i:1041587 original size:87 final size:87
Alignment explanation
Indices: 1041441--1041609 Score: 275
Period size: 87 Copynumber: 1.9 Consensus size: 87
1041431 AAAACCTCTA
* * **
1041441 GGCATAATTTCGATTCGTGGTGTTGTCCCAACCGATTCTTTATTTTTGACTTGTGGTGTTATCCC
1 GGCATAATTTCGATTCATAGTGTTGTCCCAACCGATTCTTTATTTTTGACTTGCAGTGTTATCCC
*
1041506 GGTCAATTCTATAAGACTTCTG
66 GATCAATTCTATAAGACTTCTG
*
1041528 GGCATAATTTCGATTCATAGTGTTGTCCCAATCGATTCTTTATTTTTGACTTGCAGTGTTATCCC
1 GGCATAATTTCGATTCATAGTGTTGTCCCAACCGATTCTTTATTTTTGACTTGCAGTGTTATCCC
*
1041593 GATCAATTCTGTAAGAC
66 GATCAATTCTATAAGAC
1041610 CTCGATTTAC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (87 bp):
GGCATAATTTCGATTCATAGTGTTGTCCCAACCGATTCTTTATTTTTGACTTGCAGTGTTATCCC
GATCAATTCTATAAGACTTCTG
Found at i:1041602 original size:36 final size:36
Alignment explanation
Indices: 1041546--1041676 Score: 109
Period size: 36 Copynumber: 3.6 Consensus size: 36
1041536 TTCGATTCAT
* *
1041546 AGTGTTGTCCCAATCGATTCTTTATTTTTGACTTGC
1 AGTGTTATCCCAATCAATTCTTTATTTTTGACTTGC
* * *** * * *
1041582 AGTGTTATCCCGATCAATTCTGTAAGACCTCGATTTAC
1 AGTGTTATCCCAATCAATTCT-TTA-TTTTTGACTTGC
* * *
1041620 GGTGTTGTCCCAATCAATTTTTTATTTTTGACTTGC
1 AGTGTTATCCCAATCAATTCTTTATTTTTGACTTGC
**
1041656 AGTGTTATCCCTGTCAATTCT
1 AGTGTTATCCCAATCAATTCT
1041677 GTAAGACTTC
Statistics
Matches: 67, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
36 40 0.60
37 4 0.06
38 23 0.34
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.44
Consensus pattern (36 bp):
AGTGTTATCCCAATCAATTCTTTATTTTTGACTTGC
Found at i:1041729 original size:161 final size:161
Alignment explanation
Indices: 1041459--1041773 Score: 447
Period size: 161 Copynumber: 2.0 Consensus size: 161
1041449 TTCGATTCGT
* **
1041459 GGTGTTGTCCCAACCGATTCTTTATTTTTGACTTGTGGTGTTATCCCGGTCAATTCTATAAGACT
1 GGTGTTGTCCCAACCAATTCTTTATTTTTGACTTGCAGTGTTATCCCGGTCAATTCTATAAGACT
* * *
1041524 TCTGGGCATAATTTCGATTCATAGTGTTGTCCCAATCGATTCTTTATTTTTGACTTGC-AGTGTT
66 TCTGGGCATAATTTCGATTCATAGTGCTATCCCAATCAATTCTTTATTTTTGACTTGCGA-TGTT
1041588 ATCCCGATCAATTCTGTAAGACCTCGATTTAC
130 ATCCCGATCAATTCTGTAAGACCTCGATTTAC
* * * *
1041620 GGTGTTGTCCCAATCAATTTTTTATTTTTGACTTGCAGTGTTATCCCTGTCAATTCTGTAAGACT
1 GGTGTTGTCCCAACCAATTCTTTATTTTTGACTTGCAGTGTTATCCCGGTCAATTCTATAAGACT
* * **
1041685 TCTGGGCATAATTTTGATTTGC-T-GTGCTATTCTGATCAATTCTTTATTTTTGACTTGCGATGT
66 TCTGGGCATAATTTCGA-TT-CATAGTGCTATCCCAATCAATTCTTTATTTTTGACTTGCGATGT
*
1041748 TATCCCGATCGATTCTGTAAGACCTC
129 TATCCCGATCAATTCTGTAAGACCTC
1041774 CAGGCATGAT
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
161 131 0.96
162 4 0.03
163 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (161 bp):
GGTGTTGTCCCAACCAATTCTTTATTTTTGACTTGCAGTGTTATCCCGGTCAATTCTATAAGACT
TCTGGGCATAATTTCGATTCATAGTGCTATCCCAATCAATTCTTTATTTTTGACTTGCGATGTTA
TCCCGATCAATTCTGTAAGACCTCGATTTAC
Found at i:1041895 original size:131 final size:131
Alignment explanation
Indices: 1041678--1041916 Score: 383
Period size: 131 Copynumber: 1.8 Consensus size: 131
1041668 GTCAATTCTG
* * * *
1041678 TAAGACTTCTGGGCATAATTTTGATTTGCTGTGCTATTCTGATCAATTCTTTATTTTTGACTTGC
1 TAAGACCTCTGGGCATAATTTCGATTTGCTGTGCTATTCTGATCAATTCTTTATTTTCGACTTAC
1041743 GATGTTATCCCGATCGATTCTGTAAGACCTCCAGGCATGATTTTTGAAATATCCGGGTATAATCT
66 GATGTTATCCCGATCGATTCTGTAAGACCTCCAGGCATGATTTTTGAAATATCCGGGTATAATCT
1041808 T
131 T
*
1041809 TAAGACCTCTGGGCATAATTTCGATTTGCTGTG-T-TGTCTCGATCGATTCTTTATTTTCGACTT
1 TAAGACCTCTGGGCATAATTTCGATTTGCTGTGCTAT-TCT-GATCAATTCTTTATTTTCGACTT
* *
1041872 ACGATGTTATCCCGATCGATTCTGTAAGACCTCCGGGTATGATTT
64 ACGATGTTATCCCGATCGATTCTGTAAGACCTCCAGGCATGATTT
1041917 CTATAGACAC
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
129 1 0.01
130 4 0.04
131 94 0.95
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (131 bp):
TAAGACCTCTGGGCATAATTTCGATTTGCTGTGCTATTCTGATCAATTCTTTATTTTCGACTTAC
GATGTTATCCCGATCGATTCTGTAAGACCTCCAGGCATGATTTTTGAAATATCCGGGTATAATCT
T
Found at i:1042018 original size:8 final size:7
Alignment explanation
Indices: 1041980--1042057 Score: 99
Period size: 7 Copynumber: 11.3 Consensus size: 7
1041970 GGTAGGCCCA
1041980 TTAT-TT
1 TTATATT
*
1041986 TTTTATT
1 TTATATT
1041993 TTAT-TT
1 TTATATT
*
1041999 TTGTATT
1 TTATATT
1042006 TTATATT
1 TTATATT
1042013 TCTATATT
1 T-TATATT
1042021 TCTATA-T
1 T-TATATT
1042028 TTATATT
1 TTATATT
1042035 TTATATT
1 TTATATT
1042042 TTATATT
1 TTATATT
1042049 TTATATT
1 TTATATT
1042056 TT
1 TT
1042058 TTTCTCTTCT
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
6 12 0.19
7 40 0.62
8 12 0.19
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (7 bp):
TTATATT
Found at i:1042136 original size:14 final size:14
Alignment explanation
Indices: 1042089--1042210 Score: 75
Period size: 14 Copynumber: 8.0 Consensus size: 14
1042079 GTATCTTATG
*
1042089 TATTATTTATATGTT
1 TATTA-TTATATATT
*
1042104 TACTTTTTATTACTATT
1 TA-TTATTA-TA-TATT
*
1042121 TATTAATATATATT
1 TATTATTATATATT
* *
1042135 TATTATTATTTTTT
1 TATTATTATATATT
* *
1042149 TATTATCTATTTATA
1 TATTAT-TATATATT
1042164 TATTATTATATATAT
1 TATTATTATATAT-T
1042179 GTATTTATTAGTAT-TT
1 -TA-TTATTA-TATATT
1042195 TATCTATTTATATATT
1 TAT-TA-TTATATATT
1042211 ATAACTTATC
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
14 28 0.33
15 26 0.31
16 16 0.19
17 12 0.14
18 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTATTATATATT
Found at i:1042144 original size:10 final size:10
Alignment explanation
Indices: 1042109--1042241 Score: 76
Period size: 11 Copynumber: 12.6 Consensus size: 10
1042099 ATGTTTACTT
*
1042109 TTTATTACTA
1 TTTATTATTA
*
1042119 TTTATTAATA
1 TTTATTATTA
*
1042129 TATATTTATTA
1 TTTA-TTATTA
1042140 -TTATT-TT-
1 TTTATTATTA
1042147 TTTATTATCTA
1 TTTATTAT-TA
1042158 TTTATATATTA
1 TTTAT-TATTA
1042169 TTATATATATGTA
1 TT-TAT-TAT-TA
*
1042182 TTTATTAGTA
1 TTTATTATTA
1042192 TTTTATCTATTTA
1 -TTTAT-TA-TTA
* *
1042205 TATATTATAA
1 TTTATTATTA
*
1042215 CTTATCTATTA
1 TTTAT-TATTA
1042226 TTTATT-TTCA
1 TTTATTATT-A
1042236 TTTATT
1 TTTATT
1042242 TGTTATCTGA
Statistics
Matches: 98, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
8 7 0.07
9 5 0.05
10 30 0.31
11 31 0.32
12 19 0.19
13 6 0.06
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATTATTA
Found at i:1042174 original size:43 final size:44
Alignment explanation
Indices: 1042120--1042212 Score: 118
Period size: 43 Copynumber: 2.1 Consensus size: 44
1042110 TTATTACTAT
*
1042120 TTATTAATATATATTTA-TTATTATTTTTTTATTATCTATTTATATA
1 TTATT-ATATATATGTATTTATTA--TTTTTATTATCTATTTATATA
* *
1042166 TTATTATATATATGTATTTATTAGTATT-TTATCTATTTATATA
1 TTATTATATATATGTATTTATTATTTTTATTATCTATTTATATA
1042209 TTAT
1 TTAT
1042213 AACTTATCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 19 0.44
44 3 0.07
45 10 0.23
46 11 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (44 bp):
TTATTATATATATGTATTTATTATTTTTATTATCTATTTATATA
Found at i:1042240 original size:43 final size:40
Alignment explanation
Indices: 1042108--1042240 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 40
1042098 TATGTTTACT
*
1042108 TTTTA-TTA-CTATTTAT-TAATATATATTTATTATTATTT-
1 TTTTATTTATCTATTTATAT-AT-TATAATTATTATTATTTA
*
1042146 TTTTA-TTATCTATTTATATATTATTA-TATATATGTATTTA
1 TTTTATTTATCTATTTATATATTATAATTAT-TAT-TATTTA
*
1042186 TTAGTATTTTATCTATTTATATATTATAACTTATCTATTATTTA
1 TT-TTA-TTTATCTATTTATATATTATAA-TTAT-TATTATTTA
1042230 TTTTCATTTAT
1 TTTT-ATTTAT
1042241 TTGTTATCTG
Statistics
Matches: 78, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
37 3 0.04
38 14 0.18
39 15 0.19
40 3 0.04
41 2 0.03
43 26 0.33
44 9 0.12
45 6 0.08
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (40 bp):
TTTTATTTATCTATTTATATATTATAATTATTATTATTTA
Found at i:1042874 original size:14 final size:15
Alignment explanation
Indices: 1042848--1042893 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1042838 TTGAGTTTTT
*
1042848 AGAGAAAAAGGAAAG
1 AGAGAGAAAGGAAAG
*
1042863 A-AGAGGAAGG-AAG
1 AGAGAGAAAGGAAAG
1042876 AGAGAGAAAGGGAAAG
1 AGAGAGAAA-GGAAAG
1042892 AG
1 AG
1042894 GGTTCTGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 4 0.16
14 13 0.52
15 3 0.12
16 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
AGAGAGAAAGGAAAG
Found at i:1043162 original size:3 final size:3
Alignment explanation
Indices: 1043154--1043232 Score: 51
Period size: 3 Copynumber: 27.7 Consensus size: 3
1043144 TGTTATTTAT
* * * * *
1043154 TTA TTA TTA TTA TTA TTA TTA TTA -TC TTA TAA TTG TT- TAA TT- TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1043199 TTA TTT TTA TTTA TTT TTA TT- TTA TTA TT- TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
1043233 TTCTTTAAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
2 8 0.14
3 47 0.81
4 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:1043168 original size:9 final size:9
Alignment explanation
Indices: 1043154--1043232 Score: 51
Period size: 8 Copynumber: 9.2 Consensus size: 9
1043144 TGTTATTTAT
1043154 TTATTATTA
1 TTATTATTA
1043163 TTATTATTA
1 TTATTATTA
*
1043172 TTATTA-TC
1 TTATTATTA
* *
1043180 TTATAATTG
1 TTATTATTA
*
1043189 TT-TAATT-
1 TTATTATTA
* *
1043196 TTTTTATTT
1 TTATTATTA
*
1043205 TTATTTATTT
1 TTA-TTATTA
1043215 TTATT-TTA
1 TTATTATTA
1043223 TTATT-TTA
1 TTATTATTA
1043231 TT
1 TT
1043233 TTCTTTAAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
7 2 0.03
8 27 0.45
9 22 0.37
10 9 0.15
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (9 bp):
TTATTATTA
Found at i:1043389 original size:58 final size:58
Alignment explanation
Indices: 1043252--1043870 Score: 482
Period size: 58 Copynumber: 10.7 Consensus size: 58
1043242 TAAAATTAAA
* * * * * *
1043252 AAAAATATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTAAACATAAATTTTCG
1 AAAAA-ATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
** * * *
1043311 AAAAAA-GGTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
1 AAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * *
1043368 AAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * * *
1043425 AAAAAAAAGGTTTT-GAGTAAAAGTT-AAAGGTATCAATTTTCCTCAAAATTAAAATTTTC
1 AAAAAATA-TTTTTGGAG-AAAAGTTGAAA-GTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * * *
1043484 AAAAAATATTTTTGG-GAAAAAGTTGAAAGTCTCAATTTTTCTTAAAAATAAATTTTCA
1 AAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
*** * * * *
1043542 AAAAAAGGGTTTT-GAGGAAAAGTTAAAAGTATCAGTTTTCCTTAAAAATAAAAATTT-C
1 AAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAAGTTTCC
* * * * * *
1043600 AAAAACA-AGGTTTTAG-GAAAAGTTAAAAGTATCAATTTTCTTCGAAATTAAAGTTTCC
1 AAAAA-ATA-TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * *
1043658 AAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTT-T
1 AAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * * * **
1043714 AAAAAAGGT-TTTTTTGAGGAAGAGTTGAAAGTATTAATTTTCCTCGAAATTAAAGTTTTT
1 AAAAAA--TATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * *
1043774 ACAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTTTTC
1 AAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
*
1043831 -AAAAGTGGATTTTT-GAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAT--ATTTTTGGA-GAAAAGTTGAAAGTATCAATTTT
1043871 TCCTGCACAA
Statistics
Matches: 453, Mismatches: 77, Indels: 61
0.77 0.13 0.10
Matches are distributed among these distances:
56 11 0.02
57 92 0.20
58 296 0.65
59 47 0.10
60 7 0.02
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
Found at i:1043487 original size:116 final size:116
Alignment explanation
Indices: 1043252--1043870 Score: 600
Period size: 116 Copynumber: 5.3 Consensus size: 116
1043242 TAAAATTAAA
* * *
1043252 AAAAATATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTAAACATAAATTTTC-GAAAAA
1 AAAAA-ATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
* * ** * * *
1043316 AGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
65 AGGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC
*
1043368 AAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* * *
1043433 GGTTTTGAGTAAAAGTT-AAAGGTATCAATTTTCCTCAAAATTAAAATTTTC
66 GGTTTTGAGAAAAAGTTGAAA-GTATCAATTTTCCTTAAAAATAAAATTTTC
* * *
1043484 AAAAAATATTTTTGG-GAAAAAGTTGAAAGTCTCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAATATTTTTGGAG-AAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
* * * * *
1043548 GGGTTTTGAGGAAAAGTTAAAAGTATCAGTTTTCCTTAAAAATAAAAATTTC
65 AGGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC
* * * * *
1043600 AAAAACA-AGGTTTTAG-GAAAAGTTAAAAGTATCAATTTT-CTTCGAAATTAAAGTTTCCAAAA
1 AAAAA-ATA-TTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTT-AAAAATAAA-TTTTCAAAA
* * * *
1043662 AATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTT-
62 AAAAGGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC
* * * * ** * * *
1043714 AAAAAAGGT-TTTTTTGAGGAAGAGTTGAAAGTATTAATTTTCCTCGAAATTAAAGTTTTTACAA
1 AAAAAA--TATTTTTGGA-GAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAA
* * * *
1043778 AATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTTTTC
62 AAAAGGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC
* *
1043831 -AAAAGTGGATTTTT-GAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAT--ATTTTTGGA-GAAAAGTTAAAAGTATCAATTTT
1043871 TCCTGCACAA
Statistics
Matches: 436, Mismatches: 49, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
113 1 0.00
114 11 0.03
115 61 0.14
116 336 0.77
117 27 0.06
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (116 bp):
AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
GGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC
Found at i:1043509 original size:174 final size:171
Alignment explanation
Indices: 1043270--1043872 Score: 655
Period size: 174 Copynumber: 3.5 Consensus size: 171
1043260 ATTTTTGGGG
* **
1043270 AAAAGTTAAAAGTATCAATTTTCCTTAAACA-TAAATTTTCGAAAAAA-GGTTTTGAGGAAAAGT
1 AAAAGTTAAAAGTATCAATTTTCCTCAAA-ATTAAATTTTC-AAAAAATATTTTTGAGGAAAAGT
** * * *
1043333 TGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTG-GAAAAAAGTTAAAAG
64 TGAAAGTATCAATTTTTCTTAAAAATAAA-TTTCAAAAAAAT-TTTTTGAG-GAAAAGTTAAAAG
*
1043397 TATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGGTTTTGAGT
126 TATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGGTTTTGAGA
*
1043443 AAAAGTTAAAGGTATCAATTTTCCTCAAAATTAAAATTTTCAAAAAATATTTTTG-GGAAAAAGT
1 AAAAGTTAAAAGTATCAATTTTCCTCAAAATT-AAATTTTCAAAAAATATTTTTGAGG-AAAAGT
* **
1043507 TGAAAGTCTCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGGTTTTGAGGAAAAGTTAAAAGT
64 TGAAAGTATCAATTTTTCTTAAAAATAAA-TTTCAAAAAAA-TTTTTTGAGGAAAAGTTAAAAGT
* * * *
1043572 ATCAGTTTTCCTTAAAAATAAAAATTTCAAAAACAAGGTTTT-AGG
127 ATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAAAGGTTTTGAGA
* * *
1043617 AAAAGTTAAAAGTATCAATTTTCTTCGAAATTAAAGTTTCCAAAAAATATTTTTG-GGAAAAAGT
1 AAAAGTTAAAAGTATCAATTTTCCTCAAAATTAAA-TTTTCAAAAAATATTTTTGAGG-AAAAGT
* * * *
1043681 TGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAGGTTTTTTTGAGGAAGAGTTGAAAGT
64 TGAAAGTATCAATTTTTCTTAAAAATAAATTTCAAAAAA--ATTTTTTGAGGAAAAGTTAAAAGT
* ** * * * * * *
1043746 ATTAATTTTCCTCGAAATTAAAGTTTTTACAAAATA-TTTTTGGGA
127 ATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAAAGGTTTTGAGA
* * * * *
1043791 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC-AAAAGTGGATTTTTGAGGAAAAGT
1 AAAAGTTAAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAAT--ATTTTTGAGGAAAAGT
1043855 TGAAAGTATCAATTTTTC
64 TGAAAGTATCAATTTTTC
1043873 CTGCACAAAA
Statistics
Matches: 366, Mismatches: 49, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
172 6 0.02
173 59 0.16
174 278 0.76
175 23 0.06
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (171 bp):
AAAAGTTAAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAATATTTTTGAGGAAAAGTTG
AAAGTATCAATTTTTCTTAAAAATAAATTTCAAAAAAATTTTTTGAGGAAAAGTTAAAAGTATCA
ATTTTCCTTAAAAATAAATTTTCAAAAAAAAGGTTTTGAGA
Found at i:1049420 original size:17 final size:17
Alignment explanation
Indices: 1049390--1049423 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1049380 GAGAAGGCTC
1049390 GAAGAGAGAAGGTGAAA
1 GAAGAGAGAAGGTGAAA
1049407 GAAG-GAGAATGGTGAAA
1 GAAGAGAGAA-GGTGAAA
1049424 TAACCCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.41, T:0.09
Consensus pattern (17 bp):
GAAGAGAGAAGGTGAAA
Found at i:1054306 original size:14 final size:14
Alignment explanation
Indices: 1054296--1054370 Score: 91
Period size: 14 Copynumber: 5.4 Consensus size: 14
1054286 GCTTGAAATA
1054296 AAAAAAATGAAAAAAG
1 AAAAAAATG--AAAAG
*
1054312 AAGAAAATGAAAAG
1 AAAAAAATGAAAAG
*
1054326 AAGAAAATGAAAAG
1 AAAAAAATGAAAAG
*
1054340 AAGAAAATGAAAAG
1 AAAAAAATGAAAAG
1054354 AAAAAAA-GAAAA-
1 AAAAAAATGAAAAG
1054366 AAAAA
1 AAAAA
1054371 GTGGATAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
12 5 0.09
13 5 0.09
14 39 0.68
16 8 0.14
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (14 bp):
AAAAAAATGAAAAG
Found at i:1054362 original size:19 final size:20
Alignment explanation
Indices: 1054328--1054365 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1054318 ATGAAAAGAA
*
1054328 GAAAATGAAAAGAAGAAAAT
1 GAAAATGAAAAAAAGAAAAT
1054348 GAAAA-GAAAAAAAGAAAA
1 GAAAATGAAAAAAAGAAAA
1054366 AAAAAGTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (20 bp):
GAAAATGAAAAAAAGAAAAT
Found at i:1055438 original size:42 final size:41
Alignment explanation
Indices: 1055340--1055466 Score: 175
Period size: 42 Copynumber: 3.0 Consensus size: 41
1055330 GATTGTCAAG
*
1055340 GAGCCATTTACTTTTC-AAAGTCATTGAGCCTCTGATTAGA
1 GAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGA
** *
1055380 GAAGCCATTTATTTTTTCAAAAGTTGTTGAGCCTCTGATTATA
1 G-AGCCATTTA-TTTTTCAAAAGTCATTGAGCCTCTGATTAGA
*
1055423 TGAGCCATTTATTTTTCAAAAGTCATTAAGCCTCTGATTAGA
1 -GAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGA
1055465 GA
1 GA
1055467 AACTTTGTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
40 1 0.01
41 11 0.15
42 32 0.43
43 30 0.40
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (41 bp):
GAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGA
Found at i:1055501 original size:44 final size:44
Alignment explanation
Indices: 1055346--1055592 Score: 211
Period size: 44 Copynumber: 5.7 Consensus size: 44
1055336 CAAGGAGCCA
* * *
1055346 TTTA-CTTTTCAAAGTCATTGAGCCTCTGATTAGAGAAGCCATTT-
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGATTAAAGAAG-C-TTTG
* * * * **
1055390 ATT-T-TTTCAAAAGTTGTTGAGCCTCTGATTATATG-AGC--CA
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGATTA-AAGAAGCTTTG
* * * * * *
1055430 TTTATTTTTCAAAAGTCATTAAGCCTCTGATTAGAGAAACTTTG
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGATTAAAGAAGCTTTG
* *
1055474 TTTATCTTTCCAAAATCGTTGAGCCTCTGATTAAAGGAGCTTTG
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGATTAAAGAAGCTTTG
*
1055518 TTTATCTTTCTAAAGTCGTTGAGCCTCTGATTAAAGAAGCATTTG
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGATTAAAGAAGC-TTTG
* * *
1055563 TTTATGTTTTTCAAAGTCGTTGAGGCTCTG
1 TTTAT-CTTTCCAAAGTCGTTGAGCCTCTG
1055593 CTTAGAGGAG
Statistics
Matches: 161, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 27 0.17
43 25 0.16
44 76 0.47
45 9 0.06
46 20 0.12
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (44 bp):
TTTATCTTTCCAAAGTCGTTGAGCCTCTGATTAAAGAAGCTTTG
Found at i:1055544 original size:88 final size:87
Alignment explanation
Indices: 1055352--1055606 Score: 268
Period size: 88 Copynumber: 2.9 Consensus size: 87
1055342 GCCATTTACT
** *
1055352 TTTCAAAGTCATTGAGCCTCTGATTAGAGAAGC--CATTTATTTTTTCAAAAGTTGTTGAGCCTC
1 TTTCAAAGTCATTGAGCCTCTGATTAGAGAAGCTTTGTTTATTTTTTCAAAA-TCGTTGAGCCTC
* * ** *
1055415 TGATTATATGAGC--CATTTATT
65 TGATTAAAGGAGCTTTGTTTATC
* * * *
1055436 TTTCAAAAGTCATTAAGCCTCTGATTAGAGAAACTTTGTTTATCTTTCCAAAATCGTTGAGCCTC
1 TTTC-AAAGTCATTGAGCCTCTGATTAGAGAAGCTTTGTTTATTTTTTCAAAATCGTTGAGCCTC
1055501 TGATTAAAGGAGCTTTGTTTATC
65 TGATTAAAGGAGCTTTGTTTATC
* * * *
1055524 TTTCTAAAGTCGTTGAGCCTCTGATTAAAGAAGCATTTGTTTATGTTTTTCAAAGTCGTTGAGGC
1 TTTC-AAAGTCATTGAGCCTCTGATTAGAGAAGC-TTTGTTTAT-TTTTTCAAAATCGTTGAGCC
* *
1055589 TCTGCTTAGAGGAG-TTTG
63 TCTGATTAAAGGAGCTTTG
1055607 ATCAAATCTT
Statistics
Matches: 141, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
84 4 0.03
85 27 0.19
86 22 0.16
87 13 0.09
88 34 0.24
89 13 0.09
90 28 0.20
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (87 bp):
TTTCAAAGTCATTGAGCCTCTGATTAGAGAAGCTTTGTTTATTTTTTCAAAATCGTTGAGCCTCT
GATTAAAGGAGCTTTGTTTATC
Found at i:1055804 original size:13 final size:14
Alignment explanation
Indices: 1055783--1055840 Score: 77
Period size: 13 Copynumber: 4.3 Consensus size: 14
1055773 GCCCATTGTT
1055783 TTTTA-ATTTTAT-
1 TTTTATATTTTATA
*
1055795 TTTTGTATTTTATA
1 TTTTATATTTTATA
1055809 TTTCTATATTTT-TA
1 TTT-TATATTTTATA
1055823 TTTTATATTTTATA
1 TTTTATATTTTATA
1055837 TTTT
1 TTTT
1055841 TTCTCTTCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
12 4 0.10
13 15 0.38
14 14 0.35
15 7 0.17
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTATATTTTATA
Found at i:1055805 original size:7 final size:7
Alignment explanation
Indices: 1055783--1055840 Score: 77
Period size: 7 Copynumber: 8.6 Consensus size: 7
1055773 GCCCATTGTT
1055783 TTTTA-A
1 TTTTATA
1055789 TTTTAT-
1 TTTTATA
*
1055795 TTTTGTA
1 TTTTATA
1055802 TTTTATA
1 TTTTATA
1055809 TTTCTATA
1 TTT-TATA
1055817 TTTT-TA
1 TTTTATA
1055823 TTTTATA
1 TTTTATA
1055830 TTTTATA
1 TTTTATA
1055837 TTTT
1 TTTT
1055841 TTCTCTTCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
6 16 0.35
7 23 0.50
8 7 0.15
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:1055824 original size:21 final size:20
Alignment explanation
Indices: 1055783--1055841 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 20
1055773 GCCCATTGTT
1055783 TTTTA-ATTTTAT-TTTTGTA
1 TTTTATATTTTATATTTT-TA
1055802 TTTTATATTTCTATATTTTTA
1 TTTTATATTT-TATATTTTTA
1055823 TTTTATATTTTATATTTTT
1 TTTTATATTTTATATTTTT
1055842 TCTCTTCTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.14
20 13 0.35
21 15 0.41
22 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATATTTTATATTTTTA
Found at i:1055873 original size:4 final size:4
Alignment explanation
Indices: 1055866--1056015 Score: 71
Period size: 4 Copynumber: 36.5 Consensus size: 4
1055856 TCTGTGTATC
*
1055866 TTAT TTA- TTAT TTAT ATAT TTA- TTAT TTAT TACTAT TTAT TAATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT
* * *
1055912 ATAT TTAT AATTA- TTA- TTA- TTAT TTAT CTAT TTAT ATA- TTAT TATAT
1 TTAT TTAT --TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT
* * * * *
1055959 ATAT GTAT TTAT TAGTAT TTAT CTAT TTAT ATAT TATAAT TTAT CTA-
1 TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT T-T-AT TTAT TTAT
1056006 TTAT TTAT TT
1 TTAT TTAT TT
1056016 TCATTTATCT
Statistics
Matches: 113, Mismatches: 17, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
3 19 0.17
4 72 0.64
5 5 0.04
6 17 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (4 bp):
TTAT
Found at i:1056000 original size:14 final size:14
Alignment explanation
Indices: 1055870--1056015 Score: 100
Period size: 15 Copynumber: 10.6 Consensus size: 14
1055860 TGTATCTTAT
1055870 TTATTATTTATATA
1 TTATTATTTATATA
1055884 TTTATTATTTAT-TA
1 -TTATTATTTATATA
*
1055898 CTATT-TATTA-ATA
1 TTATTAT-TTATATA
1055911 -TA-TATTTATA-A
1 TTATTATTTATATA
1055922 TTATTA-TTAT-TA
1 TTATTATTTATATA
1055934 TTTATCTATTTATATA
1 -TTAT-TATTTATATA
1055950 TTATTA--TATATA
1 TTATTATTTATATA
1055962 TGTATT-TATTAGTAT-
1 T-TATTAT-TTA-TATA
1055977 TTATCTATTTATATA
1 TTAT-TATTTATATA
* *
1055992 TTATAATTTATCTA
1 TTATTATTTATATA
1056006 TTATTTATTT
1 TTA-TTATTT
1056016 TCATTTATCT
Statistics
Matches: 107, Mismatches: 4, Indels: 40
0.71 0.03 0.26
Matches are distributed among these distances:
11 5 0.05
12 19 0.18
13 19 0.18
14 23 0.21
15 35 0.33
16 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (14 bp):
TTATTATTTATATA
Found at i:1056822 original size:18 final size:17
Alignment explanation
Indices: 1056792--1056826 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1056782 CCCGAGTGCA
*
1056792 AGCCGCTTCCCGAGCCG
1 AGCCGCGTCCCGAGCCG
1056809 AGCCGCGTCTCCGAGCCG
1 AGCCGCGTC-CCGAGCCG
1056827 TTTTTCTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.46, G:0.31, T:0.11
Consensus pattern (17 bp):
AGCCGCGTCCCGAGCCG
Found at i:1057200 original size:59 final size:59
Alignment explanation
Indices: 1056963--1057352 Score: 421
Period size: 58 Copynumber: 6.7 Consensus size: 59
1056953 ATAAAATTCA
*
1056963 AAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
1057022 -AAAAAAAGA-TTTTGAGGAAAAGTTGAAATTATCAATTTT--TTAAAAAATAAATTTTC
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTC
** * * * * *
1057078 AAAAAAAA-GGTTTTGA-AGAAAAGTTGAAGGTACCAATTTTTCTCAAAATTAAAGTTTTC
1 AAAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
* * *
1057137 --AAAAAATATTTTTAAAAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
**
1057194 AAAAAAAA-GGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
** * * * *
1057253 AAAAAAAAGGTTTTT-AGGAAAAGTTGAAAATATCAATTTT-CTTCGAAATTAAAGTTTTC
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAA-TTTTC
1057312 --AAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTCC
1057353 CTGCACAAAA
Statistics
Matches: 279, Mismatches: 34, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
55 2 0.01
56 14 0.05
57 82 0.29
58 114 0.41
59 62 0.22
60 5 0.02
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (59 bp):
AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:1058093 original size:36 final size:36
Alignment explanation
Indices: 1058053--1058178 Score: 99
Period size: 36 Copynumber: 3.5 Consensus size: 36
1058043 CATAATTTTG
** * *
1058053 ATTCGCGGTGTTGTTTCAATCGATTCTTTAATTTCA
1 ATTCGCGGTGTTGTCCCAATCAATTATTTAATTTCA
* **
1058089 ATTCGTGGTGTTGTCCCAATCAATTATTTAATTTTG
1 ATTCGCGGTGTTGTCCCAATCAATTATTTAATTTCA
* * * * * * *
1058125 ACTCGCAGTGTTGTCCCGATCGATTTTTTATTTTTTA
1 ATTCGCGGTGTTGTCCCAATCAATTATTTA-ATTTCA
* *
1058162 ATTCACGGTATTGTCCC
1 ATTCGCGGTGTTGTCCC
1058179 GATCGATTCT
Statistics
Matches: 70, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
36 53 0.76
37 17 0.24
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (36 bp):
ATTCGCGGTGTTGTCCCAATCAATTATTTAATTTCA
Found at i:1058752 original size:36 final size:36
Alignment explanation
Indices: 1058700--1058919 Score: 219
Period size: 36 Copynumber: 6.1 Consensus size: 36
1058690 TCTCCGGGCA
*
1058700 TAATTTTGATTCACGGTGTTGT-CTCGATCGATTCTT
1 TAATTTCGATTCACGGTGTTGTCCT-GATCGATTCTT
* * *
1058736 TAATTTCGATTAACGGTCTTGTCCTGATTGATTCTT
1 TAATTTCGATTCACGGTGTTGTCCTGATCGATTCTT
* * *
1058772 TAATTTCGATTAACGGTCTTGTCCTGATTGATTCTT
1 TAATTTCGATTCACGGTGTTGTCCTGATCGATTCTT
* *
1058808 TAATTTCGATTCATGGTGTTGTCCTGATTGATTCTT
1 TAATTTCGATTCACGGTGTTGTCCTGATCGATTCTT
* * * *
1058844 TAATTTTGACTCATGGTGTTGT-CTCGATCGATTTTT
1 TAATTTCGATTCACGGTGTTGTCCT-GATCGATTCTT
* ** * * *
1058880 TATTTTTCGATTTGCGGTGTCGTCCCGATCGTTTTCTT
1 TA-ATTTCGATTCACGGTGTTGTCCTGATCG-ATTCTT
1058918 TA
1 TA
1058920 TCACTTGACT
Statistics
Matches: 158, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
35 2 0.01
36 129 0.82
37 20 0.13
38 7 0.04
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (36 bp):
TAATTTCGATTCACGGTGTTGTCCTGATCGATTCTT
Found at i:1059561 original size:13 final size:13
Alignment explanation
Indices: 1059545--1059578 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1059535 CCAAAATAAT
1059545 AACAAAAAAAAAA
1 AACAAAAAAAAAA
* *
1059558 AACAAAAGACAAA
1 AACAAAAAAAAAA
1059571 AACAAAAA
1 AACAAAAA
1059579 CACACTCCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (13 bp):
AACAAAAAAAAAA
Found at i:1060342 original size:21 final size:18
Alignment explanation
Indices: 1060309--1060353 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
1060299 TTAAAAATGC
*
1060309 TTAAAAAAATAATAATAA
1 TTAAAAAAATAATAAAAA
1060327 TCTAAAAAATAGTAATAAAAA
1 T-TAAAAAA-A-TAATAAAAA
1060348 TTAAAA
1 TTAAAA
1060354 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 7 0.30
20 6 0.26
21 9 0.39
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
TTAAAAAAATAATAAAAA
Found at i:1060776 original size:21 final size:21
Alignment explanation
Indices: 1060729--1060773 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1060719 CCCTAAACTC
*
1060729 CAAACCTCTAAACCTTGAAAT
1 CAAACCTCAAAACCTTGAAAT
1060750 CAAACCTCAAAACC-TGAAAT
1 CAAACCTCAAAACCTTGAAAT
1060770 CAAA
1 CAAA
1060774 ACCCTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (21 bp):
CAAACCTCAAAACCTTGAAAT
Found at i:1064914 original size:14 final size:14
Alignment explanation
Indices: 1064895--1064923 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1064885 AAATTAATTT
1064895 ATTAATGAAATTAA
1 ATTAATGAAATTAA
1064909 ATTAATGAAATTAA
1 ATTAATGAAATTAA
1064923 A
1 A
1064924 ATCAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
ATTAATGAAATTAA
Found at i:1070687 original size:4 final size:4
Alignment explanation
Indices: 1070673--1070739 Score: 64
Period size: 4 Copynumber: 16.5 Consensus size: 4
1070663 TTTATCATAA
* * * *
1070673 TTAT CTAT TTAT TTAT TTAT TTGT TTGT TTAT TTCAT TTAT TT-T ACTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT -TTAT
*
1070722 TTAT GTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TT
1070740 GTAAATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
3 1 0.02
4 46 0.88
5 5 0.10
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:1070850 original size:57 final size:56
Alignment explanation
Indices: 1070782--1070922 Score: 135
Period size: 57 Copynumber: 2.4 Consensus size: 56
1070772 AATTTTTTTG
* *
1070782 AAAAAAGAATCTTATCAACATATTAGATGGTTCAAATTTTTTCAAATAAA-TGTTTAAAT
1 AAAAAA-AATCTTATCAACATATTAGAAGATTCAAA-TTTTT--AATAAATTGTTTAAAT
* * *
1070841 -AAAAAAATCTTA-CTAATATATTGGAAGATTCAAATTTTTAATAAATTGTTTTAAT
1 AAAAAAAATCTTATC-AACATATTAGAAGATTCAAATTTTTAATAAATTGTTTAAAT
*
1070896 AAAACAAAAACATTTATCAACATATTA
1 AAAA-AAAATC--TTATCAACATATTA
1070923 TAAGGTAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
54 6 0.09
55 8 0.12
56 9 0.13
57 28 0.42
58 5 0.07
59 10 0.15
60 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (56 bp):
AAAAAAAATCTTATCAACATATTAGAAGATTCAAATTTTTAATAAATTGTTTAAAT
Found at i:1075343 original size:9 final size:9
Alignment explanation
Indices: 1075274--1075343 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
1075264 ATAATGGATG
1075274 AATTAAAAA
1 AATTAAAAA
1075283 AA-TAAAAA
1 AATTAAAAA
1075291 AATT--AAA
1 AATTAAAAA
*
1075298 AAGTAAAAA
1 AATTAAAAA
*
1075307 AAGTAAAAA
1 AATTAAAAA
1075316 GTAA--AAAAA
1 --AATTAAAAA
1075325 AATT--AAA
1 AATTAAAAA
1075332 AATTAAAAA
1 AATTAAAAA
1075341 AAT
1 AAT
1075344 GTGAAAAATG
Statistics
Matches: 51, Mismatches: 1, Indels: 18
0.73 0.01 0.26
Matches are distributed among these distances:
7 15 0.29
8 8 0.16
9 26 0.51
11 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (9 bp):
AATTAAAAA
Found at i:1075350 original size:9 final size:9
Alignment explanation
Indices: 1075338--1075368 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
1075328 TAAAAATTAA
1075338 AAAAATGTG
1 AAAAATGTG
1075347 AAAAATGTG
1 AAAAATGTG
1075356 AAAAATGTG
1 AAAAATGTG
1075365 AAAA
1 AAAA
1075369 GAGAGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (9 bp):
AAAAATGTG
Found at i:1075350 original size:18 final size:17
Alignment explanation
Indices: 1075279--1075369 Score: 82
Period size: 16 Copynumber: 5.4 Consensus size: 17
1075269 GGATGAATTA
*
1075279 AAAAAATAAAAAAAT-T
1 AAAAAGTAAAAAAATGT
1075295 AAAAAGTAAAAAAA-GT
1 AAAAAGTAAAAAAATGT
1075311 AAAAAGTAAAAAAAAAT-T
1 AAAAAGT--AAAAAAATGT
*
1075329 AAAAATTAAAAAAATGT
1 AAAAAGTAAAAAAATGT
*
1075346 GAAAAATGT-GAAAAATGT
1 -AAAAA-GTAAAAAAATGT
*
1075364 GAAAAG
1 AAAAAG
1075370 AGAGAAAATG
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
16 30 0.48
17 5 0.08
18 27 0.43
19 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (17 bp):
AAAAAGTAAAAAAATGT
Found at i:1075379 original size:17 final size:18
Alignment explanation
Indices: 1075338--1075377 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1075328 TAAAAATTAA
*
1075338 AAAAATGTGAAAAATGTG
1 AAAAATGTGAAAAATGAG
1075356 AAAAATGTGAAAAGA-GAG
1 AAAAATGTGAAAA-ATGAG
1075374 AAAA
1 AAAA
1075378 TGAAAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (18 bp):
AAAAATGTGAAAAATGAG
Found at i:1075396 original size:13 final size:13
Alignment explanation
Indices: 1075378--1075402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1075368 AGAGAGAAAA
1075378 TGAAAACTCAAAT
1 TGAAAACTCAAAT
1075391 TGAAAACTCAAA
1 TGAAAACTCAAA
1075403 AGGGTGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (13 bp):
TGAAAACTCAAAT
Found at i:1076260 original size:3 final size:3
Alignment explanation
Indices: 1076254--1076297 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1076244 TTTGTTGTTG
1076254 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1076298 TAATTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1077716 original size:20 final size:18
Alignment explanation
Indices: 1077673--1077719 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
1077663 TCTTTTTATT
*
1077673 AGTAATAAATAAAAATTG
1 AGTAATAAATAAAAATTA
*
1077691 ATTAATATAATAAAAATATA
1 AGTAATA-AATAAAAAT-TA
1077711 AGTAATAAA
1 AGTAATAAA
1077720 AATGAGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 11 0.46
20 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (18 bp):
AGTAATAAATAAAAATTA
Found at i:1081542 original size:15 final size:15
Alignment explanation
Indices: 1081522--1081552 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1081512 CATTTGCACC
*
1081522 ATTTTTAAAAAGTAA
1 ATTTTTAAAAAATAA
1081537 ATTTTTAAAAAATAA
1 ATTTTTAAAAAATAA
1081552 A
1 A
1081553 AATTTTGACA
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:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
ATTTTTAAAAAATAA
Found at i:1085415 original size:14 final size:14
Alignment explanation
Indices: 1085365--1085430 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 14
1085355 TGCATTTGCA
*
1085365 TTTCTTCTATT-AT
1 TTTCTTCCATTCAT
*
1085378 TTTCAT-C-TTCAT
1 TTTCTTCCATTCAT
*
1085390 TTTACTTTCCATTCTT
1 TTT-C-TTCCATTCAT
1085406 TTTCTTCCA-TCAT
1 TTTCTTCCATTCAT
1085419 TTTCTTGCCATT
1 TTTCTT-CCATT
1085431 TTATTTTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
11 2 0.05
12 5 0.12
13 15 0.37
14 9 0.22
15 3 0.07
16 7 0.17
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.61
Consensus pattern (14 bp):
TTTCTTCCATTCAT
Found at i:1089848 original size:46 final size:47
Alignment explanation
Indices: 1089650--1090249 Score: 606
Period size: 48 Copynumber: 12.6 Consensus size: 47
1089640 TGATAAAGAC
* * *
1089650 AAAGTTGTTGTGCCTCTACTGAGAGGAGCTTTTCCAA-ATGAGAATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA--AGAATTTT
* * *
1089698 AAAATTGTTGAGCTTCTGCTGAGAGGAGCTTTTCCAAGATATGAGATTTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA-A-GA-A-TTTT
* * * *
1089749 AAAGTTGTTGTGCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAGA-ATTTT
* *
1089797 AAAGTTGATGAGCCTCTGCTGAGATGAGCTTTTTCAA-AAGAATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAGAATTTT
* * * *
1089843 AAAGTTGTTAAGCCTCTGCTGAGAGAAGCTTTTCCAAGAGAGATTTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA-AGAATTTT
*
1089891 AAAGTTGTTGAGCCTCTGCTGAGAGGAG-TTTTTCTAAGATGAGATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AAGAAGA-ATTTT
* * * * *
1089939 AAAGTTGTTGAGCCTCTGTTTAAAGGAGTTTTTTGAAG-AGAATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAGAATTTT
* * * * *
1089985 AAAGTTGCTGAACCCCTACTGAGATGAGCTTTTTCAAG-AGAATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAGAATTTT
* * *
1090031 AAAGTTGTTGAGCCTCTGCTGAAATGAGCTTTTCCAGATGAA-AATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA-A-GAAGAATTTT
* * *
1090079 AAAATTGTTGAGCCTTTGCTGAGAGAAGCTTTTTCAAG-AGAATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAGAATTTT
* * * *
1090125 AAAGTTATTGAGCCTCTACTAAGATGAGCTCTTTTCAAGATATGAGATTTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCT-TTTTCAAGA-A-GA-A-TTTT
* *
1090177 AAAGTTGTTGAGCCTTTGCTGAGAGGAGTTTTTTTCAA-AA-AATTTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGAAGAATTTT
* *
1090223 AAAGTTGTTGAGCCTTTGCTAAGAGGA
1 AAAGTTGTTGAGCCTCTGCTGAGAGGA
1090250 ACCTTTTAAA
Statistics
Matches: 464, Mismatches: 68, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.00
46 168 0.36
47 24 0.05
48 177 0.38
49 14 0.03
50 4 0.01
51 41 0.09
52 34 0.07
53 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (47 bp):
AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAGAATTTT
Found at i:1089891 original size:94 final size:94
Alignment explanation
Indices: 1089650--1090249 Score: 647
Period size: 94 Copynumber: 6.3 Consensus size: 94
1089640 TGATAAAGAC
* * * *
1089650 AAAGTTGTTGTGCCTCTACTGAGAGGAGCTTTTCCAA-ATGAGAATTTTAAAATTGTTGAGCTTC
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAG-ATTTTAAAGTTGTTGAGCCTC
*
1089714 TGCTGAGAGGAGCTTTTCCAAGATATGAGATTTTT
65 TGCTGAGAGGAGCTTTTTCAA-A-A-GA-A-TTTT
* * *
1089749 AAAGTTGTTGTGCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGATTTTAAAGTTGATGAGCCTCT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCT
*
1089814 GCTGAGATGAGCTTTTTCAAAAGAATTTT
66 GCTGAGAGGAGCTTTTTCAAAAGAATTTT
* *
1089843 AAAGTTGTTAAGCCTCTGCTGAGAGAAGCTTTTCCAAGA-GAGATTTTTAAAGTTGTTGAGCCTC
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA-TTTTAAAGTTGTTGAGCCTC
*
1089907 TGCTGAGAGGAG-TTTTTCTAAGATGAGATTTT
65 TGCTGAGAGGAGCTTTTTC-AA-AAGA-ATTTT
* * * * ** * * *
1089939 AAAGTTGTTGAGCCTCTGTTTAAAGGAGTTTTTTGAAGA-GA-ATTTTAAAGTTGCTGAACCCCT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCT
* * *
1090002 ACTGAGATGAGCTTTTTCAAGAGAATTTT
66 GCTGAGAGGAGCTTTTTCAAAAGAATTTT
* * * * *
1090031 AAAGTTGTTGAGCCTCTGCTGAAATGAGCTTTTCC-AGATGAAAATTTTAAAATTGTTGAGCCTT
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATG-AGATTTTAAAGTTGTTGAGCCTC
* *
1090095 TGCTGAGAGAAGCTTTTTCAAGAGAATTTT
65 TGCTGAGAGGAGCTTTTTCAAAAGAATTTT
* * * * *
1090125 AAAGTTATTGAGCCTCTACTAAGATGAGCTCTTTTCAAGATATGAGATTTTTAAAGTTGTTGAGC
1 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCT-TTTCCAAG--ATGAGA-TTTTAAAGTTGTTGAGC
* *
1090190 CTTTGCTGAGAGGAGTTTTTTTCAAAA-AATTTT
62 CTCTGCTGAGAGGAG-CTTTTTCAAAAGAATTTT
* *
1090223 AAAGTTGTTGAGCCTTTGCTAAGAGGA
1 AAAGTTGTTGAGCCTCTGCTGAGAGGA
1090250 ACCTTTTAAA
Statistics
Matches: 429, Mismatches: 57, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
91 3 0.01
92 35 0.08
93 13 0.03
94 169 0.39
95 15 0.03
96 42 0.10
97 3 0.01
98 63 0.15
99 81 0.19
100 5 0.01
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (94 bp):
AAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCT
GCTGAGAGGAGCTTTTTCAAAAGAATTTT
Found at i:1090555 original size:32 final size:33
Alignment explanation
Indices: 1090480--1090571 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 33
1090470 ATTTATTTAA
1090480 TTTTTTTTCTTTTT-TT-TTCTCTTTTTTCCCGT
1 TTTTTTTTCTTTTTCTTCTT-TCTTTTTTCCCGT
*
1090512 TTCTGCGTTTTTCTTTTTCTTCTTTCTTTTTTTCC-T
1 TT-T---TTTTTCTTTTTCTTCTTTCTTTTTTCCCGT
**
1090548 TTTTTTTTCTCATTCTTCTTTCTT
1 TTTTTTTTCTTTTTCTTCTTTCTT
1090572 ATCCGATTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
32 21 0.41
33 1 0.02
35 1 0.02
36 14 0.27
37 12 0.24
38 2 0.04
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (33 bp):
TTTTTTTTCTTTTTCTTCTTTCTTTTTTCCCGT
Found at i:1091903 original size:20 final size:18
Alignment explanation
Indices: 1091860--1091906 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
1091850 TCTTTTTATT
*
1091860 AGTAATAAATAAAAATTG
1 AGTAATAAATAAAAATTA
*
1091878 ATTAATATAATAAAAATATA
1 AGTAATA-AATAAAAAT-TA
1091898 AGTAATAAA
1 AGTAATAAA
1091907 AATGAGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 11 0.46
20 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (18 bp):
AGTAATAAATAAAAATTA
Found at i:1093135 original size:21 final size:21
Alignment explanation
Indices: 1093085--1093214 Score: 127
Period size: 21 Copynumber: 5.9 Consensus size: 21
1093075 AGTTAAAAAT
*
1093085 AATGAGAATCTTTAAGGAATTTTG
1 AATGAGAATCTTT-A--AATTTTA
*
1093109 AATGAGAATCTTT-ATTTTTGA
1 AATGAGAATCTTTAAATTTT-A
*
1093130 AATGAGAATTTTTAAGAAGTTTTA
1 AATGAGAATCTTT-A-AA-TTTTA
1093154 AATGAGAATCTTTAAATTTTA
1 AATGAGAATCTTTAAATTTTA
* *
1093175 AGTGAGAATCTTTGAATTTTA
1 AATGAGAATCTTTAAATTTTA
* *
1093196 AATGAGAACCTTTGAATTT
1 AATGAGAATCTTTAAATTT
1093215 AGATGTGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.05
21 53 0.58
22 2 0.02
23 1 0.01
24 27 0.29
25 4 0.04
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.42
Consensus pattern (21 bp):
AATGAGAATCTTTAAATTTTA
Found at i:1093135 original size:45 final size:44
Alignment explanation
Indices: 1093085--1093214 Score: 158
Period size: 45 Copynumber: 3.0 Consensus size: 44
1093075 AGTTAAAAAT
* *
1093085 AATGAGAATCTTTAAGGAATTTTGAATGAGAATCTTT-ATTTTTGA
1 AATGAGAATCTTTAA-GAATTTTAAATGAGAATCTTTAAATTTT-A
*
1093130 AATGAGAATTTTTAAGAAGTTTTAAATGAGAATCTTTAAATTTTA
1 AATGAGAATCTTTAAGAA-TTTTAAATGAGAATCTTTAAATTTTA
* * *
1093175 AGTGAGAATCTTT--GAATTTTAAATGAGAACCTTTGAATTT
1 AATGAGAATCTTTAAGAATTTTAAATGAGAATCTTTAAATTT
1093215 AGATGTGAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 22 0.29
43 3 0.04
44 3 0.04
45 43 0.57
46 5 0.07
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.42
Consensus pattern (44 bp):
AATGAGAATCTTTAAGAATTTTAAATGAGAATCTTTAAATTTTA
Found at i:1093717 original size:31 final size:32
Alignment explanation
Indices: 1093681--1093810 Score: 106
Period size: 31 Copynumber: 4.0 Consensus size: 32
1093671 TAAATATGAG
*
1093681 TTTTTGCGATTCTAAAATTTTG-AGAA-TTAAA
1 TTTTTGCGAATCTAAAATTTTGCA-AATTTAAA
* *
1093712 TTTTTGTGAAACTAAAATTTTGCAAATTTAAA
1 TTTTTGCGAATCTAAAATTTTGCAAATTTAAA
* ** *
1093744 TTCTT-CGAATCTAAAATTCTTATAAATCTTTAA
1 TTTTTGCGAATCTAAAATT-TTGCAAAT-TTAAA
*
1093777 TTATTT-CGAATCTGAAAATTCTTGCAAAATTAAA
1 TT-TTTGCGAATCT-AAAATT-TTGCAAATTTAAA
1093811 AATTCTTTTG
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
31 32 0.41
32 16 0.20
33 6 0.08
34 13 0.16
35 12 0.15
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (32 bp):
TTTTTGCGAATCTAAAATTTTGCAAATTTAAA
Found at i:1094039 original size:36 final size:35
Alignment explanation
Indices: 1093992--1094098 Score: 124
Period size: 36 Copynumber: 2.9 Consensus size: 35
1093982 AATTCTTTGT
1093992 GAATCTTGAAACCTTTGCGAAACTTTTAATTTTTAC
1 GAATCTTGAAACCTTTGC-AAACTTTTAATTTTTAC
* ** *
1094028 GAATCTTGAAACCTTTACAAATCTTAGAATCTTTTGC
1 GAATCTTGAAACCTTTGCAAA-CTTTTAAT-TTTTAC
**
1094065 GAATCTTGAAAATTTTTGCAAACTTTTAATTTTT
1 GAATCTTG-AAACCTTTGCAAACTTTTAATTTTT
1094099 TGTGAATCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
35 3 0.05
36 27 0.46
37 19 0.32
38 10 0.17
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (35 bp):
GAATCTTGAAACCTTTGCAAACTTTTAATTTTTAC
Found at i:1094071 original size:19 final size:19
Alignment explanation
Indices: 1094047--1094115 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
1094037 AACCTTTACA
1094047 AATCTTAGAATCTTTTGCG
1 AATCTTAGAATCTTTTGCG
*
1094066 AATCTTGAAAAT-TTTTGC-
1 AATCTT-AGAATCTTTTGCG
* ** * *
1094084 AAACTTTTAATTTTTTGTG
1 AATCTTAGAATCTTTTGCG
1094103 AATCTT-GAATCTT
1 AATCTTAGAATCTT
1094116 ACAAATCTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 3 0.08
18 15 0.38
19 17 0.44
20 4 0.10
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (19 bp):
AATCTTAGAATCTTTTGCG
Found at i:1094080 original size:18 final size:18
Alignment explanation
Indices: 1093987--1094080 Score: 71
Period size: 18 Copynumber: 5.2 Consensus size: 18
1093977 TTTGAAATTC
* *
1093987 TTTGTGAATCTTGAAACC
1 TTTGCGAATCTTGAAACT
* ** *
1094005 TTTGCGAAACTTTTAATT
1 TTTGCGAATCTTGAAACT
* *
1094023 TTTACGAATCTTGAAACC
1 TTTGCGAATCTTGAAACT
* * *
1094041 TTTACAAATCTTAGAATCT
1 TTTGCGAATCTT-GAAACT
*
1094060 TTTGCGAATCTTGAAAAT
1 TTTGCGAATCTTGAAACT
1094078 TTT
1 TTT
1094081 TGCAAACTTT
Statistics
Matches: 56, Mismatches: 19, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
18 42 0.75
19 14 0.25
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TTTGCGAATCTTGAAACT
Found at i:1094088 original size:73 final size:72
Alignment explanation
Indices: 1093987--1094124 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 72
1093977 TTTGAAATTC
*
1093987 TTTGTGAATCTTGAAACCTTTGCGAAACTTTTAA-TTTTTACGAATCTTGAAACCTTTACAAATC
1 TTTGCGAATCTTGAAACCTTTGCGAAACTTTTAATTTTTTACGAATCTTG-AACC-TTACAAATC
1094051 TTAGAATCT
64 TTAGAATCT
** ** *
1094060 TTTGCGAATCTTGAAAATTTTTGC-AAACTTTTAATTTTTTGTGAATCTTGAATCTTACAAATCT
1 TTTGCGAATCTTG-AAACCTTTGCGAAACTTTTAATTTTTTACGAATCTTGAACCTTACAAATCT
1094124 T
65 T
1094125 TAAATCCTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
72 11 0.19
73 25 0.44
74 21 0.37
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (72 bp):
TTTGCGAATCTTGAAACCTTTGCGAAACTTTTAATTTTTTACGAATCTTGAACCTTACAAATCTT
AGAATCT
Found at i:1094100 original size:37 final size:36
Alignment explanation
Indices: 1093982--1094111 Score: 136
Period size: 37 Copynumber: 3.6 Consensus size: 36
1093972 GAATTTTTGA
* *
1093982 AATTCTTTGTGAATCTTGAAACCTTTGCGAAACTTTT
1 AATTTTTTGCGAATCTTGAAACCTTTGC-AAACTTTT
* * **
1094019 AA-TTTTTACGAATCTTGAAACCTTTACAAATCTTAG
1 AATTTTTTGCGAATCTTGAAACCTTTGCAAA-CTTTT
* **
1094055 AATCTTTTGCGAATCTTGAAAATTTTTGCAAACTTTT
1 AATTTTTTGCGAATCTTG-AAACCTTTGCAAACTTTT
*
1094092 AATTTTTTGTGAATCTTGAA
1 AATTTTTTGCGAATCTTGAA
1094112 TCTTACAAAT
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
35 3 0.04
36 28 0.37
37 34 0.45
38 10 0.13
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (36 bp):
AATTTTTTGCGAATCTTGAAACCTTTGCAAACTTTT
Found at i:1094285 original size:22 final size:21
Alignment explanation
Indices: 1094222--1094288 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
1094212 CATGTCTTTA
*
1094222 AATTCAAATTGAGAATCTTTG
1 AATTCAAATTGAGAATCCTTG
* *
1094243 AATT-TAATTGTGAA-CCTTTG
1 AATTCAAATTGAGAATCC-TTG
*
1094263 AGATTCAAATTGGGAATCCTTG
1 A-ATTCAAATTGAGAATCCTTG
1094285 AATT
1 AATT
1094289 TCAGTTGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 1 0.03
20 12 0.32
21 10 0.27
22 12 0.32
23 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (21 bp):
AATTCAAATTGAGAATCCTTG
Found at i:1094291 original size:22 final size:22
Alignment explanation
Indices: 1094224--1094291 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
1094214 TGTCTTTAAA
*
1094224 TTCAAATTGAGAATCTTTGAAT
1 TTCAAATTGAGAATCCTTGAAT
*
1094246 TT--AATTGTGAA-CCTTTGAGA-
1 TTCAAATTGAGAATCC-TTGA-AT
*
1094266 TTCAAATTGGGAATCCTTGAAT
1 TTCAAATTGAGAATCCTTGAAT
1094288 TTCA
1 TTCA
1094292 GTTGCAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
19 1 0.03
20 14 0.38
21 2 0.05
22 18 0.49
23 2 0.05
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (22 bp):
TTCAAATTGAGAATCCTTGAAT
Found at i:1095399 original size:58 final size:56
Alignment explanation
Indices: 1095334--1095490 Score: 172
Period size: 58 Copynumber: 2.8 Consensus size: 56
1095324 AAAGAGGGAA
** * * *
1095334 AAATATTTTTTTAAAAAAGAATTTTACCAACATATTGGAGGGTTCAAAATTTTTAAAT
1 AAATATTTTAATAAAAAAGAATCTTACCAACATATTGGAAGATTC-AAATTTTT-AAT
* **
1095392 AAATATTTAAAT-AAAAAGAATCTTACCATTATATTGGAAGATTCAAATTTTTAAT
1 AAATATTTTAATAAAAAAGAATCTTACCAACATATTGGAAGATTCAAATTTTTAAT
* * *
1095447 AAATTATTTTAATAAACAAAAAACCTTACCAACATATTAGAAGA
1 AAA-TATTTTAATAAA-AAAGAATCTTACCAACATATTGGAAGA
1095491 CAATTTGATT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
55 6 0.07
56 16 0.20
57 29 0.35
58 31 0.38
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.36
Consensus pattern (56 bp):
AAATATTTTAATAAAAAAGAATCTTACCAACATATTGGAAGATTCAAATTTTTAAT
Found at i:1095419 original size:57 final size:57
Alignment explanation
Indices: 1095345--1095490 Score: 170
Period size: 57 Copynumber: 2.5 Consensus size: 57
1095335 AATATTTTTT
* * *
1095345 TAAAAAAGAATTTTACCAACATATTGGAGGGTTCAAAATTTTTAAATAAA-TATTTAAA
1 TAAAAAAGAATCTTACCAACATATTGGAAGATTC-AAATTTTT-AATAAATTATTTAAA
** *
1095403 T-AAAAAGAATCTTACCATTATATTGGAAGATTCAAATTTTTAATAAATTATTTTAA
1 TAAAAAAGAATCTTACCAACATATTGGAAGATTCAAATTTTTAATAAATTATTTAAA
* * *
1095459 TAAACAAAAAACCTTACCAACATATTAGAAGA
1 TAAA-AAAGAATCTTACCAACATATTGGAAGA
1095491 CAATTTGATT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 6 0.08
56 16 0.22
57 29 0.39
58 23 0.31
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.34
Consensus pattern (57 bp):
TAAAAAAGAATCTTACCAACATATTGGAAGATTCAAATTTTTAATAAATTATTTAAA
Found at i:1095592 original size:122 final size:119
Alignment explanation
Indices: 1095466--1095731 Score: 288
Period size: 122 Copynumber: 2.2 Consensus size: 119
1095456 TAATAAACAA
* * * ** *
1095466 AAAACCTTACCAACATATTAGAAGACAATTTGATTTTTAAAATAAGTTTTTACTTATATATTGGA
1 AAAACCTTACCAACATATT-GAAG-CAATTTGACTTTCAAAATAAGGTTTTACCAATATATTGAA
* **
1095531 GAATCTTATTAATTTTTTTATACAAAAA-AAATTT-TAAGAGAAA-AAATAATTTTCAAT
64 AAATCTTA-TAATTTTTAAATACAAAAATAAATTTCT-AGA-AAAGAAATAATTTTC-AT
* *
1095588 AAAACCTTACTAACATATTGGAATGCAATTTGGCTTTCAAAATAAGGTTTTACCAATATATTGAA
1 AAAACCTTACCAACATATT-GAA-GCAATTTGACTTTCAAAATAAGGTTTTACCAATATATTGAA
* * *
1095653 AAATCTTATGATTTTTAAATATAAAAATTAATTTCTAGAAAAGAAATAATTTTCAT
64 AAATCTTATAATTTTTAAATACAAAAATAAATTTCTAGAAAAGAAATAATTTTCAT
*
1095709 AAGATCC-TACCAACATATTGAAG
1 AA-AACCTTACCAACATATTGAAG
1095732 GATAATTTCT
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
119 1 0.01
120 3 0.02
121 33 0.27
122 83 0.68
123 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (119 bp):
AAAACCTTACCAACATATTGAAGCAATTTGACTTTCAAAATAAGGTTTTACCAATATATTGAAAA
ATCTTATAATTTTTAAATACAAAAATAAATTTCTAGAAAAGAAATAATTTTCAT
Found at i:1110952 original size:2 final size:2
Alignment explanation
Indices: 1110945--1110972 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1110935 TATACTAGTT
1110945 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1110973 AACAATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1111651 original size:29 final size:29
Alignment explanation
Indices: 1111618--1111675 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1111608 TTATAATATA
* *
1111618 AATAAAAAA-TATATATAAATTAATTTATT
1 AATAAAAAATTATAAATAAA-AAATTTATT
1111647 AATAAAAAATTATAAATAAAAAATTTATT
1 AATAAAAAATTATAAATAAAAAATTTATT
1111676 GATTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
AATAAAAAATTATAAATAAAAAATTTATT
Found at i:1111664 original size:14 final size:14
Alignment explanation
Indices: 1111614--1111671 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
1111604 TTACTTATAA
1111614 TATAAATAAAAAA-
1 TATAAATAAAAAAT
* *
1111627 TATATATAAATTAATT
1 TATAAATAAA--AAAT
*
1111643 TATTAATAAAAAAT
1 TATAAATAAAAAAT
1111657 TATAAATAAAAAAT
1 TATAAATAAAAAAT
1111671 T
1 T
1111672 TATTGATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
13 9 0.25
14 17 0.47
15 2 0.06
16 8 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAAATAAAAAAT
Found at i:1112429 original size:27 final size:27
Alignment explanation
Indices: 1112386--1112438 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1112376 ATTATATTTG
1112386 ATAATTTAAAATAAATTATT-ATAAATT
1 ATAATTTAAAATAAATT-TTAATAAATT
1112413 ATAATTTTAAAAT-AATTTTAATAAAT
1 ATAA-TTTAAAATAAATTTTAATAAAT
1112439 AATTATTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.08
27 14 0.58
28 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATAATTTAAAATAAATTTTAATAAATT
Found at i:1113117 original size:30 final size:30
Alignment explanation
Indices: 1113083--1113139 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1113073 AATATGTCAT
*
1113083 ATTTCACATTTTAA-AGGAATATTCTTACAC
1 ATTTCACATTTTAATA-AAATATTCTTACAC
1113113 ATTTCACATTTTAATAAAATATTCTTA
1 ATTTCACATTTTAATAAAATATTCTTA
1113140 TTAGTCGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.44
Consensus pattern (30 bp):
ATTTCACATTTTAATAAAATATTCTTACAC
Found at i:1115257 original size:14 final size:15
Alignment explanation
Indices: 1115238--1115270 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1115228 TTGAACATTT
*
1115238 CCAACCC-AATCCAA
1 CCAACCCAAATCAAA
1115252 CCAACCCAAATCAAA
1 CCAACCCAAATCAAA
1115267 CCAA
1 CCAA
1115271 AGCCTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.06
Consensus pattern (15 bp):
CCAACCCAAATCAAA
Found at i:1117054 original size:16 final size:17
Alignment explanation
Indices: 1117033--1117099 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 17
1117023 GGTTTGGATA
1117033 TTTTGAA-TTTAAATTT
1 TTTTGAATTTTAAATTT
* *
1117049 TTTTG-AGTTTGAA-TT
1 TTTTGAATTTTAAATTT
* * * *
1117064 ATTTCAATTTTGAATAT
1 TTTTGAATTTTAAATTT
*
1117081 TTTTAAATTTTAAATTT
1 TTTTGAATTTTAAATTT
1117098 TT
1 TT
1117100 ATTTTTTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
15 6 0.15
16 17 0.44
17 16 0.41
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTTGAATTTTAAATTT
Found at i:1122782 original size:11 final size:11
Alignment explanation
Indices: 1122766--1122836 Score: 51
Period size: 11 Copynumber: 6.7 Consensus size: 11
1122756 GATGTCAATG
*
1122766 ATATTCTAGTA
1 ATATTCTAATA
1122777 ATATTCTAATA
1 ATATTCTAATA
1122788 ATA-T-T-ATA
1 ATATTCTAATA
** *
1122796 GAT-TGATGATA
1 -ATATTCTAATA
*
1122807 TTATTCTAATA
1 ATATTCTAATA
*
1122818 ATATTTTAATA
1 ATATTCTAATA
1122829 ATATTCTA
1 ATATTCTA
1122837 GATTGATTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
8 3 0.07
9 3 0.07
10 3 0.07
11 37 0.80
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (11 bp):
ATATTCTAATA
Found at i:1122821 original size:41 final size:42
Alignment explanation
Indices: 1122767--1122852 Score: 129
Period size: 41 Copynumber: 2.0 Consensus size: 42
1122757 ATGTCAATGA
*
1122767 TATTCTAGTAATATTCTAATAATATTATAGATTGA-TGATAT
1 TATTCTAATAATATTCTAATAATATTATAGATTGATTGATAT
* *
1122808 TATTCTAATAATATTTTAATAATATTCTAGATTGATTTGATAT
1 TATTCTAATAATATTCTAATAATATTATAGATTGA-TTGATAT
1122851 TA
1 TA
1122853 ATTTAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 32 0.80
43 8 0.20
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (42 bp):
TATTCTAATAATATTCTAATAATATTATAGATTGATTGATAT
Found at i:1127087 original size:18 final size:19
Alignment explanation
Indices: 1127064--1127099 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1127054 TAAAATTTGA
1127064 TAAAATTAAT-AATTAAAT
1 TAAAATTAATAAATTAAAT
*
1127082 TAAAATTATTAAATTAAA
1 TAAAATTAATAAATTAAA
1127100 ATAGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTAATAAATTAAAT
Found at i:1127094 original size:14 final size:14
Alignment explanation
Indices: 1127075--1127101 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1127065 AAAATTAATA
1127075 ATTAAATTAAAATT
1 ATTAAATTAAAATT
1127089 ATTAAATTAAAAT
1 ATTAAATTAAAAT
1127102 AGTATAAAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAATTAAAATT
Found at i:1137035 original size:12 final size:13
Alignment explanation
Indices: 1137018--1137064 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 13
1137008 TTTTATTATT
1137018 TATTTAAT-TTTA
1 TATTTAATATTTA
1137030 TATTTATATATTAATA
1 TATTTA-ATATT--TA
1137046 TATTT-ATATTTA
1 TATTTAATATTTA
1137058 TATTTAA
1 TATTTAA
1137065 AAAATTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 13 0.43
13 3 0.10
14 7 0.23
16 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTAATATTTA
Found at i:1137041 original size:8 final size:8
Alignment explanation
Indices: 1137009--1137054 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
1136999 AAAATTTTTT
1137009 TTTAT-TA
1 TTTATATA
*
1137016 TTTATTTAA
1 TTTATAT-A
1137025 TTT-TATA
1 TTTATATA
1137032 TTTATATA
1 TTTATATA
*
1137040 TTAATATA
1 TTTATATA
1137048 TTTATAT
1 TTTATAT
1137055 TTATATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
7 9 0.27
8 20 0.61
9 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTATATA
Found at i:1137074 original size:28 final size:28
Alignment explanation
Indices: 1137012--1137079 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
1137002 ATTTTTTTTT
* * *
1137012 ATTATTTATTTA-ATTTTATATTTATAT
1 ATTATATATTTATATTTTATATTTAAAA
1137039 ATTAATATATTTATA-TTTATATTTAAAAA
1 ATT-ATATATTTATATTTTATATTT-AAAA
1137068 ATTATAT-TTTAT
1 ATTATATATTTAT
1137080 TAATTTCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 8 0.23
28 21 0.60
29 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTATATATTTATATTTTATATTTAAAA
Found at i:1138720 original size:15 final size:17
Alignment explanation
Indices: 1138691--1138723 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
1138681 TGTTTGATTC
1138691 TATTTATGTTGAATTAT
1 TATTTATGTTGAATTAT
1138708 TATTTAT-TT-AATTAT
1 TATTTATGTTGAATTAT
1138723 T
1 T
1138724 TAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TATTTATGTTGAATTAT
Found at i:1139827 original size:16 final size:15
Alignment explanation
Indices: 1139808--1139837 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
1139798 TATATATTAT
1139808 AATATATAAAAATAAA
1 AATATA-AAAAATAAA
1139824 AATATAAAAAATAA
1 AATATAAAAAATAA
1139838 TTTTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATATAAAAAATAAA
Found at i:1144685 original size:15 final size:15
Alignment explanation
Indices: 1144660--1144688 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1144650 ATTAAAAAAT
1144660 TATTTATTAATAAGG
1 TATTTATTAATAAGG
1144675 TATTTATTAATAAG
1 TATTTATTAATAAG
1144689 TAAATATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TATTTATTAATAAGG
Found at i:1148680 original size:29 final size:30
Alignment explanation
Indices: 1148638--1148697 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
1148628 GTTAATTTTT
1148638 AAAATAAACTTTAAAAATAAATA-AAAAATA
1 AAAATAAACTTTAAAAAT-AATACAAAAATA
*
1148668 AAAATAAAC-TTAATAATAATACAAAAATA
1 AAAATAAACTTTAAAAATAATACAAAAATA
1148697 A
1 A
1148698 CAAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 4 0.14
29 15 0.54
30 9 0.32
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (30 bp):
AAAATAAACTTTAAAAATAATACAAAAATA
Found at i:1148903 original size:18 final size:18
Alignment explanation
Indices: 1148864--1148906 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1148854 TGTTATAAAA
*
1148864 TAATAAATAAAAATTAAT
1 TAATAAATAAAAATTAAG
*
1148882 TAATAAATTAAGAA-TAAG
1 TAATAAA-TAAAAATTAAG
1148900 TAATAAA
1 TAATAAA
1148907 AAATGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATTAAG
Found at i:1160993 original size:49 final size:49
Alignment explanation
Indices: 1160903--1161251 Score: 380
Period size: 49 Copynumber: 7.1 Consensus size: 49
1160893 TATTGAATTT
* * * * * *
1160903 TTTTAAAGTTGTTGAGTCTCTGCTTAGAAGAAC-TTTTTCAAGATGAAT
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTTCAAGATAAAA
*
1160951 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTCAAGATAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTTCAAGATAAAA
* *
1161000 TTTTAAAATTGTTGAGCCTCTGCTAAGAGGAGCTTTTTTCAAGATAAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTTCAAGATAAAA
* * * * * *
1161049 TTTTAATGTTGTTGAGCCTCTGTTGAGATGAGCCTTTTTCTAGATAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTTCAAGATAAAA
* * *
1161098 TTTTAAAGTTATTGAGCCTCTACTAAGAGGAGTCTTTTTTCAAAATAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAG-CTTTTTTCAAGATAAAA
* * * * * * * * *
1161148 TTTTAAACTTGATGAGCCTATGTTAAGATGAACCTTTTTCAAGATGAAT
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTTCAAGATAAAA
* * * *
1161197 TTTTAAAATTGTTGA-CCTTATGCTAAGAGAAAC-TTTTTCAAGATAAAA
1 TTTTAAAGTTGTTGAGCC-TCTGCTAAGAGGAGCTTTTTTCAAGATAAAA
1161245 TTTTAAA
1 TTTTAAA
1161252 TTTTAATAAC
Statistics
Matches: 253, Mismatches: 45, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
48 51 0.20
49 164 0.65
50 38 0.15
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (49 bp):
TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTTCAAGATAAAA
Found at i:1164035 original size:28 final size:28
Alignment explanation
Indices: 1164003--1164093 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
1163993 GACCGAACCG
1164003 GAACCGCCAGACAAAACTGAACGGTACT
1 GAACCGCCAGACAAAACTGAACGGTACT
** * * *
1164031 GAACCGCC-GAACCAAGCCAGACCGG-ACC
1 GAACCGCCAG-A-CAAAACTGAACGGTACT
1164059 GAACCGCCAGACAAAA-TCGAACGGGTACT
1 GAACCGCCAGACAAAACT-GAAC-GGTACT
1164088 GAACCG
1 GAACCG
1164094 TCAACCAACC
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
27 7 0.15
28 22 0.47
29 18 0.38
ACGTcount: A:0.36, C:0.33, G:0.24, T:0.07
Consensus pattern (28 bp):
GAACCGCCAGACAAAACTGAACGGTACT
Found at i:1164081 original size:56 final size:55
Alignment explanation
Indices: 1163993--1164115 Score: 178
Period size: 56 Copynumber: 2.2 Consensus size: 55
1163983 GGTCTGACTG
1163993 GACCGAACCGGAACCGCCAGACAAAACTGAAC-GGTACTGAACCGCCGAACCAAGCCA
1 GACCGAACC-GAACCGCCAGACAAAACTGAACGGGTACTGAACCGCC-AACCAA-CCA
* *
1164050 GACCGGACCGAACCGCCAGACAAAA-TCGAACGGGTACTGAACCGTCAACCAACCA
1 GACCGAACCGAACCGCCAGACAAAACT-GAACGGGTACTGAACCGCCAACCAACCA
1164105 GACCGAACCGA
1 GACCGAACCGA
1164116 GAACCGTCGA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
55 14 0.23
56 26 0.43
57 21 0.34
ACGTcount: A:0.37, C:0.35, G:0.23, T:0.06
Consensus pattern (55 bp):
GACCGAACCGAACCGCCAGACAAAACTGAACGGGTACTGAACCGCCAACCAACCA
Found at i:1164121 original size:57 final size:57
Alignment explanation
Indices: 1163993--1164121 Score: 185
Period size: 57 Copynumber: 2.3 Consensus size: 57
1163983 GGTCTGACTG
1163993 GACCGAACCGGAACCGCCAGACAAAACTGAACGGTACTGAACCGCCGAACCAAGCCA
1 GACCGAACCGGAACCGCCAGACAAAACTGAACGGTACTGAACCGCCGAACCAAGCCA
* *
1164050 GACCGGACC-GAACCGCCAGACAAAA-TCGAACGGGTACTGAACCGTC-AACCAA-CCA
1 GACCGAACCGGAACCGCCAGACAAAACT-GAAC-GGTACTGAACCGCCGAACCAAGCCA
1164105 GACCGAACCGAGAACCG
1 GACCGAACCG-GAACCG
1164122 TCGATCCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
55 12 0.18
56 26 0.40
57 27 0.42
ACGTcount: A:0.36, C:0.35, G:0.23, T:0.05
Consensus pattern (57 bp):
GACCGAACCGGAACCGCCAGACAAAACTGAACGGTACTGAACCGCCGAACCAAGCCA
Found at i:1176775 original size:48 final size:48
Alignment explanation
Indices: 1176718--1177458 Score: 1128
Period size: 47 Copynumber: 15.7 Consensus size: 48
1176708 CAAATGAGAT
1176718 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1176766 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1176813 TTTTAAAGTTGTTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1 TTTTAAAGTTGTT-GAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
* *
1176862 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC-A-AATGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
*
1176908 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG-AAGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
*
1176955 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG-AAGAAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AA
1177003 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1177051 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGC-TTTTCAAGATGAAG-A
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA--AAGAA
1177098 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGC-TTTTCAA-AAAGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1177143 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
*
1177190 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGC-TTTTC-AGAGA-AA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
* *
1177234 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA-ATGAGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGAA
*
1177282 TTTTAAAGTTGTAGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AA
* *
1177331 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCGAA-ATAA-AA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTC-AAGA-AAGAA
* *
1177379 TTTTAAAGTT-TGGAACCTCTGTTGAGAGGAGCTTTTTCAAG-AAGAAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AA
* *
1177426 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGC
1177459 CCTTTTCTGT
Statistics
Matches: 650, Mismatches: 19, Indels: 48
0.91 0.03 0.07
Matches are distributed among these distances:
44 16 0.02
45 59 0.09
46 74 0.11
47 236 0.36
48 171 0.26
49 90 0.14
50 4 0.01
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
Found at i:1177067 original size:95 final size:95
Alignment explanation
Indices: 1176718--1177458 Score: 1122
Period size: 95 Copynumber: 7.8 Consensus size: 95
1176708 CAAATGAGAT
1176718 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGAGCC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGAGCC
1176783 TCTGTTGAGAGGAGCTTTTTCAAGAA-AGAA
66 TCTGTTGAGAGGAGCTTTTTCAAGAAGA-AA
1176813 TTTTAAAGTTGTTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGGAG
1 TTTTAAAGTTGTT-GAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGT-GAG
*
1176878 CCTCTGTTGAGAGGAGCTTTTTCAA-ATG-AA
64 CCTCTGTTGAGAGGAGCTTTTTCAAGAAGAAA
*
1176908 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG-AAGAATTTTAAAGTTGTGGAGC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGT-GAGC
1176972 CTCTGTTGAGAGGAGCTTTTTCAAGAAGAAA
65 CTCTGTTGAGAGGAGCTTTTTCAAGAAGAAA
1177003 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGAGCC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGAGCC
*
1177068 TCTGTTGAGAGGAGC-TTTTCAAGATGAAGA
66 TCTGTTGAGAGGAGCTTTTTCAAGAAGAA-A
1177098 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGC-TTTTCAA-AAAGAATTTTAAAGTTGTGAGCC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGAGCC
1177160 TCTGTTGAGAGGAGCTTTTTCAAGAA-AGAA
66 TCTGTTGAGAGGAGCTTTTTCAAGAAGA-AA
*
1177190 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGC-TTTTC-AGAGA-AATTTTAAAGTTGTGGAGC
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGT-GAGC
*
1177251 CTCTGTTGAGAGGAGCTTTTTCAA-ATGAGAA
65 CTCTGTTGAGAGGAGCTTTTTCAAGAAGA-AA
*
1177282 TTTTAAAGTTGTAGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAATTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AATTTTAAAGTTG-TGAG
* *
1177347 CCTCTGCTGAGAGGAGCTTTTCCGAA-ATA-AAA
64 CCTCTGTTGAGAGGAGCTTTTTC-AAGA-AGAAA
* *
1177379 TTTTAAAGTT-TGGAACCTCTGTTGAGAGGAGCTTTTTCAAG-AAGAAATTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AATTTTAAAGTTG-TGAG
* *
1177442 CCTCTGCTAAGAGGAGC
64 CCTCTGTTGAGAGGAGC
1177459 CCTTTTCTGT
Statistics
Matches: 610, Mismatches: 16, Indels: 40
0.92 0.02 0.06
Matches are distributed among these distances:
91 16 0.03
92 122 0.20
93 83 0.14
94 69 0.11
95 144 0.24
96 94 0.15
97 77 0.13
98 5 0.01
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (95 bp):
TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGAGCC
TCTGTTGAGAGGAGCTTTTTCAAGAAGAAA
Found at i:1177657 original size:6 final size:5
Alignment explanation
Indices: 1177626--1177674 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
1177616 AATAATATTT
* *
1177626 AACAA AACAA AACAA AA-AA GAAAAA AACAA AACAG AA-AA AACAA AACAA
1 AACAA AACAA AACAA AACAA -AACAA AACAA AACAA AACAA AACAA AACAA
1177675 GTAAACAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
4 5 0.13
5 31 0.82
6 2 0.05
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:1177680 original size:27 final size:24
Alignment explanation
Indices: 1177630--1177700 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
1177620 ATATTTAACA
* * **
1177630 AAACAAAACAAAAAAGAAAAAAAC
1 AAACAAAAAAAAAAACAAGTAAAC
1177654 AAAACAGAAAAAACAAAACAAGTAAAC
1 -AAACA-AAAAAA-AAAACAAGTAAAC
*
1177681 AAACAAAAAAAAAAAGAAGT
1 AAACAAAAAAAAAAACAAGT
1177701 CAAGGAGTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 8 0.21
25 11 0.28
26 10 0.26
27 10 0.26
ACGTcount: A:0.79, C:0.11, G:0.07, T:0.03
Consensus pattern (24 bp):
AAACAAAAAAAAAAACAAGTAAAC
Found at i:1177969 original size:34 final size:32
Alignment explanation
Indices: 1177895--1177969 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 32
1177885 AAAAAGGAGA
*
1177895 AAACG-AAAAAATTTTTCAGGTGAGAGTTCTG
1 AAACGAAAAAAATTTTTCAGGTGAGAGTTCAG
* *
1177926 AAACAAAAAAAATTTTTCCAGCTTGAGAGTTCAG
1 AAACGAAAAAAATTTTT-CAG-GTGAGAGTTCAG
*
1177960 GAACGAAAAA
1 AAACGAAAAA
1177970 TTTCGATCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 4 0.11
32 11 0.31
33 3 0.08
34 18 0.50
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (32 bp):
AAACGAAAAAAATTTTTCAGGTGAGAGTTCAG
Found at i:1178705 original size:12 final size:12
Alignment explanation
Indices: 1178661--1178708 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1178651 ACCGGTACTG
*
1178661 AACCGCCGAACC
1 AACCGCCGATCC
*
1178673 AACCAGACCGAATCG
1 AACC-G-CCG-ATCC
1178688 AACCGCCGATCC
1 AACCGCCGATCC
1178700 AACCGCCGA
1 AACCGCCGA
1178709 ACCGGTCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 16 0.53
13 4 0.13
14 4 0.13
15 6 0.20
ACGTcount: A:0.33, C:0.44, G:0.19, T:0.04
Consensus pattern (12 bp):
AACCGCCGATCC
Found at i:1179265 original size:16 final size:16
Alignment explanation
Indices: 1179208--1179265 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
1179198 AAACCCTTAA
1179208 AAATCCAAAATCCATT-
1 AAATCCAAAATCC-TTG
* *
1179224 AAATCCAAAACCGCTCG
1 AAATCCAAAATC-CTTG
1179241 AAATCCAAAATCCTTG
1 AAATCCAAAATCCTTG
*
1179257 AAGTCCAAA
1 AAATCCAAA
1179266 GTCCGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 23 0.66
17 12 0.34
ACGTcount: A:0.47, C:0.28, G:0.07, T:0.19
Consensus pattern (16 bp):
AAATCCAAAATCCTTG
Found at i:1179648 original size:141 final size:141
Alignment explanation
Indices: 1179394--1179675 Score: 555
Period size: 141 Copynumber: 2.0 Consensus size: 141
1179384 TCATAATTCA
*
1179394 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGGGATTTTAAATATAAACAGTCGC
1 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCGC
1179459 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
66 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
1179524 AAATTGCATTT
131 AAATTGCATTT
1179535 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCGC
1 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCGC
1179600 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
66 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
1179665 AAATTGCATTT
131 AAATTGCATTT
1179676 CATTTTACAT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (141 bp):
TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCGC
ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
AAATTGCATTT
Found at i:1182643 original size:13 final size:13
Alignment explanation
Indices: 1182625--1182650 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1182615 TTTAATCATA
1182625 TTATTTTTATATT
1 TTATTTTTATATT
1182638 TTATTTTTATATT
1 TTATTTTTATATT
1182651 ATGTTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTATATT
Found at i:1182652 original size:11 final size:11
Alignment explanation
Indices: 1182622--1182660 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
1182612 ATTTTTAATC
1182622 ATATTATTTTT
1 ATATTATTTTT
1182633 ATATTTTATTTTT
1 ATA--TTATTTTT
*
1182646 ATATTATGTTT
1 ATATTATTTTT
1182657 ATAT
1 ATAT
1182661 CATATCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 14 0.56
13 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:1194114 original size:58 final size:56
Alignment explanation
Indices: 1194050--1194440 Score: 435
Period size: 59 Copynumber: 6.7 Consensus size: 56
1194040 TTGTGCAGGA
1194050 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAACTTTGA-TTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATT-TTTTGAAACTTT-ATTTTTGAGG
* * ** *
1194108 AAAATTGACACTTTCAATTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTT-GAAAC-TTTATTTTTGAGG
1194167 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTATTTTTGAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTT-GAAAC-TTTATTTTTGAGG
** * * *
1194226 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGAAACTTTATTTTTGAGG
* *
1194283 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTG-AAACTTTATTTTTGAGG
* * * * *
1194341 GAAATTGATACTTTCAAC-TTTCCCTTAAAAACTTTTTTTTTTTGAAAATTTATTTTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCC--AAAAA----TATTTTTTGAAACTTTA-TTTTTGAGG
*
1194403 AAAATTGATACTTTTAACTTTTCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTT
1194441 TTTATTTTAT
Statistics
Matches: 285, Mismatches: 32, Indels: 33
0.81 0.09 0.09
Matches are distributed among these distances:
56 2 0.01
57 62 0.22
58 80 0.28
59 90 0.32
60 4 0.01
61 12 0.04
62 29 0.10
63 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.45
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAACTTTATTTTTGAGG
Done.