Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 20 of 127
Found at i:4634961 original size:5 final size:5
Alignment explanation
Indices: 4634951--4634975 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4634941 TATAATTTAA
4634951 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
4634976 CCTAATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:4644244 original size:30 final size:29
Alignment explanation
Indices: 4644202--4644306 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 29
4644192 TATATTTTTG
4644202 TTACACTTAAATAAATTCTTAAACTTTAAT
1 TTACA-TTAAATAAATTCTTAAACTTTAAT
4644232 TTACATTCAAATAAACTT-TTAATA-TTTAAT
1 TTACATT-AAATAAA-TTCTTAA-ACTTTAAT
* * *
4644262 TTATATATAAATAAA-TCAATAATCTTTAAT
1 TTACAT-TAAATAAATTC-TTAAACTTTAAT
*
4644292 TTATACTTAAATAAA
1 TTACA-TTAAATAAA
4644307 CATTTAATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
28 1 0.02
29 2 0.03
30 56 0.88
31 5 0.08
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.44
Consensus pattern (29 bp):
TTACATTAAATAAATTCTTAAACTTTAAT
Found at i:4644369 original size:21 final size:21
Alignment explanation
Indices: 4644345--4644388 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4644335 ATAAGAGTTT
4644345 ATTTAAAT-ATATATAATAAAA
1 ATTTAAATGA-ATATAATAAAA
**
4644366 ATTTATTTGAATATAATAAAA
1 ATTTAAATGAATATAATAAAA
4644387 AT
1 AT
4644389 ATAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTAAATGAATATAATAAAA
Found at i:4644690 original size:18 final size:18
Alignment explanation
Indices: 4644646--4644693 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
4644636 TGATATAATA
* * *
4644646 TTAATAATAATATTATTTT
1 TTAATTATAA-ATTATATC
4644665 TTAA-TATAAATTATATC
1 TTAATTATAAATTATATC
4644682 TTAATTATAAAT
1 TTAATTATAAAT
4644694 AAATATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 11 0.44
19 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAATTATAAATTATATC
Found at i:4644727 original size:16 final size:17
Alignment explanation
Indices: 4644689--4644777 Score: 52
Period size: 16 Copynumber: 5.6 Consensus size: 17
4644679 ATCTTAATTA
4644689 TAAA-TAAATATAATAT
1 TAAATTAAATATAATAT
**
4644705 TTTATTAAAT-TAATAT
1 TAAATTAAATATAATAT
4644721 TAAATTAAA-AT-AT-T
1 TAAATTAAATATAATAT
**
4644735 TAAA--AAATATTTTAT
1 TAAATTAAATATAATAT
*
4644750 T-AATATATAATATAAAAT
1 TAAAT-TA-AATATAATAT
4644768 TAAA-TAAATA
1 TAAATTAAATA
4644778 ATAAAAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
12 3 0.05
13 2 0.04
14 8 0.15
15 4 0.07
16 20 0.36
17 8 0.15
18 8 0.15
19 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTAAATATAATAT
Found at i:4644798 original size:42 final size:44
Alignment explanation
Indices: 4644701--4644799 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
4644691 AATAAATATA
* *
4644701 ATATTTTAT-TA-AATTAATATTAAATTAAAATATTTAAAAAAT
1 ATATTTTATATATAATTAAAATTAAATTAAAATATATAAAAAAT
*
4644743 ATTTTATTAATATATAATATAAAATTAAA-T-AAATA-ATAAAAAAT
1 ATATT-TT-ATATATAAT-TAAAATTAAATTAAAATATATAAAAAAT
4644787 ATATTTTATATAT
1 ATATTTTATATAT
4644800 CTCGATAAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
42 10 0.21
43 4 0.08
44 14 0.29
45 7 0.15
46 4 0.08
47 9 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (44 bp):
ATATTTTATATATAATTAAAATTAAATTAAAATATATAAAAAAT
Found at i:4645318 original size:27 final size:27
Alignment explanation
Indices: 4645277--4645332 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
4645267 TATAAAAAAG
* * *
4645277 TAAGTTCTCTTAAACTTGTTTTTTTTA
1 TAAGTTCTCTTAAACCTATTTTCTTTA
4645304 TAAGTTCT-TTCAAACCTATTTTCTTTA
1 TAAGTTCTCTT-AAACCTATTTTCTTTA
4645331 TA
1 TA
4645333 TTTCATAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.55
Consensus pattern (27 bp):
TAAGTTCTCTTAAACCTATTTTCTTTA
Found at i:4649308 original size:2 final size:2
Alignment explanation
Indices: 4649295--4649324 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4649285 CTAAATGTTC
*
4649295 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4649325 GCACTACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4652879 original size:15 final size:16
Alignment explanation
Indices: 4652827--4652878 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
4652817 AAACATACAA
4652827 AAAAAAAT-ATTT-TT
1 AAAAAAATAATTTCTT
4652841 AAAAAAATAATTTCTT
1 AAAAAAATAATTTCTT
4652857 AAAAAAATAATTTCTT
1 AAAAAAATAATTTCTT
4652873 AAAAAA
1 AAAAAA
4652879 TTGAACTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.22
15 4 0.11
16 24 0.67
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAAAATAATTTCTT
Found at i:4653739 original size:22 final size:22
Alignment explanation
Indices: 4653714--4653761 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
4653704 ATTTAAATAA
* *
4653714 TTAATAAATTATCATATTAATT
1 TTAATAAATTATAAAATTAATT
*
4653736 TTAATTAATTATAAAATTAATT
1 TTAATAAATTATAAAATTAATT
4653758 TTAA
1 TTAA
4653762 AAAAATTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATAAATTATAAAATTAATT
Found at i:4656958 original size:3 final size:3
Alignment explanation
Indices: 4656945--4657002 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
4656935 TATTTTTAAA
* * * *
4656945 ATT ATT AATT ATT ATT ATT ATT GTT GTT ATT ATT ATT ATT GTT ACTA
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
4656992 ATT -TT ATT ATT
1 ATT ATT ATT ATT
4657003 GTTGTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:4656976 original size:15 final size:15
Alignment explanation
Indices: 4656945--4656988 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
4656935 TATTTTTAAA
*
4656945 ATTATTAATTATTATT
1 ATTATT-ATTGTTATT
*
4656961 ATTATTGTTGTTATT
1 ATTATTATTGTTATT
4656976 ATTATTATTGTTA
1 ATTATTATTGTTA
4656989 CTAATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (15 bp):
ATTATTATTGTTATT
Found at i:4656976 original size:18 final size:18
Alignment explanation
Indices: 4656953--4657009 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
4656943 AAATTATTAA
4656953 TTATTATTATTATTGTTG
1 TTATTATTATTATTGTTG
*
4656971 TTATTATTATTATTGTTAC
1 TTATTATTATTATTGTT-G
*
4656990 TAATT-TTATTATTGTTG
1 TTATTATTATTATTGTTG
4657007 TTA
1 TTA
4657010 AATGTTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 2 0.06
18 28 0.82
19 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.65
Consensus pattern (18 bp):
TTATTATTATTATTGTTG
Found at i:4656998 original size:21 final size:21
Alignment explanation
Indices: 4656950--4657009 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
4656940 TTAAAATTAT
*
4656950 TAATTATTATTATTATTGTT-G
1 TAATT-TTATTATTATTGTTAC
*
4656971 T--TATTATTATTATTGTTAC
1 TAATTTTATTATTATTGTTAC
*
4656990 TAATTTTATTATTGTTGTTA
1 TAATTTTATTATTATTGTTA
4657010 AATGTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 16 0.50
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (21 bp):
TAATTTTATTATTATTGTTAC
Found at i:4657842 original size:3 final size:3
Alignment explanation
Indices: 4657836--4657872 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4657826 TTGTTGTTAT
4657836 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4657873 TGTTGAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4658861 original size:61 final size:63
Alignment explanation
Indices: 4658737--4658871 Score: 170
Period size: 61 Copynumber: 2.2 Consensus size: 63
4658727 ATAAAAAATA
* *
4658737 CCTTGAATAATTCTATCATAAAAATAGATAAGGGATTATTGAAGACATTTTTGGCAGACAACG
1 CCTTGAATAATCCTATCATAAAAATAGATAAGCGATTATTGAAGACATTTTTGGCAGACAACG
* * *
4658800 CTTTGAATAATCCT-TCATAAAAA-ATG-TAAGCGATTATTGAAGGCATTTTCTGTCAGA-AACG
1 CCTTGAATAATCCTATCATAAAAATA-GATAAGCGATTATTGAAGACATTTT-TGGCAGACAACG
*
4658861 CCTTCAATAAT
1 CCTTGAATAAT
4658872 TCAGCTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
61 35 0.56
62 16 0.25
63 12 0.19
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (63 bp):
CCTTGAATAATCCTATCATAAAAATAGATAAGCGATTATTGAAGACATTTTTGGCAGACAACG
Found at i:4658883 original size:61 final size:63
Alignment explanation
Indices: 4658756--4658884 Score: 149
Period size: 61 Copynumber: 2.1 Consensus size: 63
4658746 ATTCTATCAT
* * * **
4658756 AAAAATAGATAAGGGATTATTGAAGACATTTTTGGCAGACAACGCTTTGAATAATCCTTCATA
1 AAAAATAGATAAGCGATTATTGAAGACATTTTTGGCAGACAACGCCTTCAATAATCCAGCATA
* * *
4658819 AAAAAT-G-TAAGCGATTATTGAAGGCATTTTCTGTCAGA-AACGCCTTCAATAATTCAGC-TA
1 AAAAATAGATAAGCGATTATTGAAGACATTTT-TGGCAGACAACGCCTTCAATAATCCAGCATA
4658879 AAAAAT
1 AAAAAT
4658885 TAGAGAGGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
60 8 0.14
61 36 0.63
62 7 0.12
63 6 0.11
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (63 bp):
AAAAATAGATAAGCGATTATTGAAGACATTTTTGGCAGACAACGCCTTCAATAATCCAGCATA
Found at i:4659249 original size:64 final size:62
Alignment explanation
Indices: 4659163--4659391 Score: 185
Period size: 61 Copynumber: 3.6 Consensus size: 62
4659153 ATTTTGGAAC
* * *
4659163 GGATTCTTGAAGGCATTTTTGGTCGAAAATGCCTTCAATAATCCACTCAATAAATTTTTATGAG
1 GGATTATTAAAGGCAGTTTTGGTC-AAAATGCCTTCAATAAT-CACTCAATAAATTTTTATGAG
* * * * * ** *
4659227 GGATTATTAAAGGCAGTTTTGGTCAAAATGCCTTTAAGAATAAATACAAAAAATTTGGA--AT
1 GGATTATTAAAGGCAGTTTTGGTCAAAATGCCTTCAATAATCACT-CAATAAATTTTTATGAG
* * * * * *
4659288 GGATTCTTAAATG-TGTTTTTAGCCAAAACGCCTTCAATAATTCACTCAATAAATTTTTATGAG
1 GGATTATTAAAGGCAG-TTTTGGTCAAAATGCCTTCAATAA-TCACTCAATAAATTTTTATGAG
* *** *
4659351 AGATTATTAAAAATAGTTTTGGTTAAAAATGCCTTCAATAA
1 GGATTATTAAAGGCAGTTTTGG-TCAAAATGCCTTCAATAA
4659392 AATTTTGTTA
Statistics
Matches: 124, Mismatches: 34, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
60 1 0.01
61 41 0.33
62 5 0.04
63 40 0.32
64 37 0.30
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (62 bp):
GGATTATTAAAGGCAGTTTTGGTCAAAATGCCTTCAATAATCACTCAATAAATTTTTATGAG
Found at i:4659281 original size:63 final size:64
Alignment explanation
Indices: 4659163--4659282 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 64
4659153 ATTTTGGAAC
* * * * * * *
4659163 GGATTCTTGAAGGCATTTTTGGTCGAAAATGCCTTCAATAATCCACTCAATAAATTTTTATGAG
1 GGATTATTAAAGGCAGTTTTGGTCGAAAATGCCTTCAAGAATCAAATCAAAAAATTTTTATGAG
*
4659227 GGATTATTAAAGGCAGTTTTGGTC-AAAATGCCTTTAAGAAT-AAATACAAAAAATTT
1 GGATTATTAAAGGCAGTTTTGGTCGAAAATGCCTTCAAGAATCAAAT-CAAAAAATTT
4659283 GGAATGGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
62 2 0.04
63 24 0.51
64 21 0.45
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (64 bp):
GGATTATTAAAGGCAGTTTTGGTCGAAAATGCCTTCAAGAATCAAATCAAAAAATTTTTATGAG
Found at i:4665363 original size:25 final size:25
Alignment explanation
Indices: 4665335--4665404 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
4665325 ATGTCTTCAA
*
4665335 AAACACCATTCAACAAACTATTTAG
1 AAACACCATTCAACAAACCATTTAG
* *
4665360 AAACACCAATCAAGAAACCATTTAG
1 AAACACCATTCAACAAACCATTTAG
* *
4665385 AAACACCATCCAGCAAACCA
1 AAACACCATTCAACAAACCA
4665405 ATATCATACA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.50, C:0.29, G:0.06, T:0.16
Consensus pattern (25 bp):
AAACACCATTCAACAAACCATTTAG
Found at i:4665458 original size:28 final size:28
Alignment explanation
Indices: 4665389--4665460 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
4665379 ATTTAGAAAC
*
4665389 ACCATCCAGCAAACCAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
* *
4665417 ACCATTCAACAAACTAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
*
4665445 ACCATTCAGTAAACCA
1 ACCATTCAGCAAACCA
4665461 CAATATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (28 bp):
ACCATTCAGCAAACCAATATCATACAAT
Found at i:4665495 original size:52 final size:52
Alignment explanation
Indices: 4665433--4665534 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
4665423 CAACAAACTA
*
4665433 ATATCATACAATACCATTCAGTAAACCACAATATTTAAACCAAACTACACCG
1 ATATCATACAATACCATTCAATAAACCACAATATTTAAACCAAACTACACCG
*
4665485 ATATCATACAATATCATTCAATAAACCACAATATTTAAACCAAACTACAC
1 ATATCATACAATACCATTCAATAAACCACAATATTTAAACCAAACTACAC
4665535 AAAAACACCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (52 bp):
ATATCATACAATACCATTCAATAAACCACAATATTTAAACCAAACTACACCG
Found at i:4671915 original size:160 final size:159
Alignment explanation
Indices: 4671530--4671915 Score: 426
Period size: 161 Copynumber: 2.4 Consensus size: 159
4671520 TTTAATAGTA
*
4671530 TCAATACATGATATTAAACTT-ATCCAAAGTATTGAACTTAGTTTTCACA-ATTGATATGTATGA
1 TCAATACATGATATTAAACTTGA-CCAAA-TATTGAACTTAG-TTTC-CAGATTGATATGTGTGA
* * **
4671593 AAAAGTTATTGTTTACGTCTATTTAAGACTTTTTATGCCGTTAATAGGTAACAATACTAAATTGT
62 AAAAGTTATCGTTTACGTCTATTTAAGACTTTTTATGCCGTTAATAGGTAAAAATACTAAATTAA
** * *
4671658 TGTTATTGTTCTATTTTAACAGTTTGGATAGCT
127 ACTTATTGATCGATTTTAACAGTTTGGATAGCT
* * *
4671691 TCAATACATGATATTAAACTTGTCCGAATGATTGAACTTAGTTTCTACAG-TTGATATATGTGAA
1 TCAATACATGATATTAAACTTGACCAAAT-ATTGAACTTAGTTTC--CAGATTGATATGTGTGAA
** *
4671755 AAAGTTATCGTTTACGTCTATTTGGGACTATTTT-TGCCTTTTAA-AGGTAAAAATAC-AAATTA
63 AAAGTTATCGTTTACGTCTATTTAAGACT-TTTTATGCC-GTTAATAGGTAAAAATACTAAATTA
* * *
4671817 AACTT-TTGGATGGCTTTTAACAGTTTGGATGGCT
126 AACTTATT-GATCGATTTTAACAGTTTGGATAGCT
* * *
4671851 TCAATACATGATATTAAACTTGACCAAATAATTGAATTTGGTTTCCATGATCGATATGTGTGAAA
1 TCAATACATGATATTAAACTTGACCAAAT-ATTGAACTTAGTTTCCA-GATTGATATGTGTGAAA
4671916 GGCCAAAATG
Statistics
Matches: 191, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
158 2 0.01
159 3 0.02
160 86 0.45
161 92 0.48
162 8 0.04
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (159 bp):
TCAATACATGATATTAAACTTGACCAAATATTGAACTTAGTTTCCAGATTGATATGTGTGAAAAA
GTTATCGTTTACGTCTATTTAAGACTTTTTATGCCGTTAATAGGTAAAAATACTAAATTAAACTT
ATTGATCGATTTTAACAGTTTGGATAGCT
Found at i:4673272 original size:34 final size:33
Alignment explanation
Indices: 4673222--4673308 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 33
4673212 AACGCCACTA
*
4673222 AAATTAGCAACATTCTTATCATTAAAATAT-CGCT
1 AAATTAGCAACATTCTTAT--TTAAAAAATACGCT
* *
4673256 AAATTAGCAGCGTTCTTATTTAAAAAATGACGCT
1 AAATTAGCAACATTCTTATTTAAAAAAT-ACGCT
* *
4673290 AAATTAGCGACATTTTTAT
1 AAATTAGCAACATTCTTAT
4673309 GATACAATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 8 0.18
34 36 0.82
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (33 bp):
AAATTAGCAACATTCTTATTTAAAAAATACGCT
Found at i:4674415 original size:21 final size:22
Alignment explanation
Indices: 4674386--4674448 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
4674376 AATATATGTT
*
4674386 TTAACAAAATCAAAACTAA-TGC
1 TTAA-AAAATCAAAAATAACTGC
*
4674408 TTAAAAAA-CAAAAAATAACTTC
1 TTAAAAAATC-AAAAATAACTGC
*
4674430 TTAAAAAATTAAAATATAA
1 TTAAAAAATCAAAA-ATAA
4674449 GAAAATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 18 0.53
23 4 0.12
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.25
Consensus pattern (22 bp):
TTAAAAAATCAAAAATAACTGC
Found at i:4676827 original size:3 final size:3
Alignment explanation
Indices: 4676821--4676857 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4676811 TAAATTGTTG
4676821 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4676858 GCTTTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4677762 original size:16 final size:16
Alignment explanation
Indices: 4677741--4677783 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
4677731 TCTAAAAAGC
4677741 ATTATGAAAGTTTTAG
1 ATTATGAAAGTTTTAG
4677757 ATTATGAAAGTTTTAG
1 ATTATGAAAGTTTTAG
4677773 ATTATGAAAGT
1 ATTATGAAAGT
4677784 AAAATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (16 bp):
ATTATGAAAGTTTTAG
Found at i:4678899 original size:18 final size:19
Alignment explanation
Indices: 4678876--4678913 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4678866 TTTTACGAAG
4678876 TGTTTT-TTGACAAA-AAAA
1 TGTTTTATTG-CAAAGAAAA
4678894 TGTTTTATTGCAAAGAAAA
1 TGTTTTATTGCAAAGAAAA
4678913 T
1 T
4678914 TGACAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (19 bp):
TGTTTTATTGCAAAGAAAA
Found at i:4681095 original size:20 final size:20
Alignment explanation
Indices: 4681016--4681096 Score: 53
Period size: 20 Copynumber: 4.1 Consensus size: 20
4681006 AAACTTTTAC
*
4681016 TTAATTTTTTAAAAT-TGTGT
1 TTAATTTTTTAAAATATAT-T
** *
4681036 AGAATTTTTTACAAA-AAATT
1 TTAATTTTTTA-AAATATATT
**
4681056 TTGAA-TTTTTAACTTA-ATT
1 TT-AATTTTTTAAAATATATT
4681075 TTAATTTTTTAAAATATATT
1 TTAATTTTTTAAAATATATT
4681095 TT
1 TT
4681097 CTCAAAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
18 2 0.04
19 15 0.33
20 22 0.49
21 6 0.13
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TTAATTTTTTAAAATATATT
Found at i:4683923 original size:16 final size:16
Alignment explanation
Indices: 4683902--4683935 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4683892 TAAAAGTTGA
*
4683902 TTTTTTTCTTTT-TTC
1 TTTTTTTTTTTTGTTC
4683917 TTTTTTTTTTTTGTTC
1 TTTTTTTTTTTTGTTC
4683933 TTT
1 TTT
4683936 CTATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTTTTGTTC
Found at i:4684691 original size:25 final size:24
Alignment explanation
Indices: 4684637--4684692 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4684627 TTTTTTATTA
*
4684637 AATTTTTTTCAATCACAGTTCAAT
1 AATTTTTTTCAATCACACTTCAAT
* * *
4684661 ATTTTTTTTCAATCATACTTACGAT
1 AATTTTTTTCAATCACACTT-CAAT
4684686 AATTTTT
1 AATTTTT
4684693 ATTATTCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (24 bp):
AATTTTTTTCAATCACACTTCAAT
Found at i:4685241 original size:2 final size:2
Alignment explanation
Indices: 4685234--4685274 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
4685224 TGGGTGCTTT
4685234 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA CT- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
4685274 T
1 T
4685275 GATTTGAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.09
2 31 0.89
3 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4688491 original size:24 final size:24
Alignment explanation
Indices: 4688447--4688501 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
4688437 TTTTTATTAA
* *
4688447 ATTTTTTTCGATCACAGTTACAAT
1 ATTTTTTTCAATCACAATTACAAT
* *
4688471 ATTTTTTTCAATCATAATTACGAT
1 ATTTTTTTCAATCACAATTACAAT
*
4688495 AATTTTT
1 ATTTTTT
4688502 ATTATTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (24 bp):
ATTTTTTTCAATCACAATTACAAT
Found at i:4692666 original size:2 final size:2
Alignment explanation
Indices: 4692659--4692684 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4692649 AAACAAGAGC
4692659 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4692685 GATACAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4695966 original size:20 final size:21
Alignment explanation
Indices: 4695943--4695989 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
4695933 TCTCCTTCCT
4695943 CTTCTCTTAT-CTTCT-TTTTC
1 CTTCTCTT-TGCTTCTCTTTTC
*
4695963 CTTCT-TTTGCTTCTCTTTTT
1 CTTCTCTTTGCTTCTCTTTTC
4695983 CTTCTCT
1 CTTCTCT
4695990 ACCAATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 7 0.30
20 14 0.61
21 1 0.04
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.66
Consensus pattern (21 bp):
CTTCTCTTTGCTTCTCTTTTC
Found at i:4697842 original size:2 final size:2
Alignment explanation
Indices: 4697830--4697871 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
4697820 AAGTGTATCT
* *
4697830 TA TA TA AA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4697872 AAAGCCAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4699569 original size:20 final size:20
Alignment explanation
Indices: 4699546--4699585 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4699536 GCATCATACC
*
4699546 ATGTATGTAAACATTTTACT
1 ATGTATGCAAACATTTTACT
* *
4699566 ATGTGTGCAGACATTTTACT
1 ATGTATGCAAACATTTTACT
4699586 GTGTGGTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATGCAAACATTTTACT
Found at i:4702999 original size:25 final size:24
Alignment explanation
Indices: 4702955--4703001 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
4702945 GTGTATTAAT
4702955 ATGTAATCCTTTATTTTAGGAATC
1 ATGTAATCCTTTATTTTAGGAATC
4702979 ATGTAAT-CTATTGATTTTAGGAA
1 ATGTAATCCT-TT-ATTTTAGGAA
4703002 GTAGCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 2 0.10
24 9 0.43
25 10 0.48
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (24 bp):
ATGTAATCCTTTATTTTAGGAATC
Found at i:4703910 original size:15 final size:15
Alignment explanation
Indices: 4703890--4703919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4703880 TATATTATTA
4703890 AATGTGACCATGATT
1 AATGTGACCATGATT
*
4703905 AATGTGATCATGATT
1 AATGTGACCATGATT
4703920 TTAATTCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (15 bp):
AATGTGACCATGATT
Found at i:4705578 original size:575 final size:568
Alignment explanation
Indices: 4704535--4706108 Score: 2357
Period size: 575 Copynumber: 2.7 Consensus size: 568
4704525 AAATGAATAA
* * *
4704535 AAAGTAATTTATGCATAGTAATTATAATGGGTTATTAGATAATACATTTTGAAATAGTAAATTAT
1 AAAGTAATTTATGTAAAGTAATTATAATGGGTTATTAGAAAATACATTTTGAAATAGTAAATTAT
* *
4704600 GTTAGTAAATATGTGTTATTGTAATTAATACTTATACATAAAGAAAGATAAAAAAATATGTTTGT
66 GTTAGTAAATATGTGTGATTGTAATTAATA-TT-TATAT-AAGAAAG--AAAAAAATATGTTTGT
* * *
4704665 GCAATTAATTAGGCTTTTTATTTTAGTTTTGAATTCTTAGCGTTATATGACTTATATATTCATTA
126 -CAATTAATTAGGCATTTTATTTTAGATTTGAATTCTTAGCATTATATGAC--ATATATTCATTA
* *
4704730 CATAAATTATTTTTTAATTAAATACTAAAATTATGGGTATTAAATAGTCAATGCTTTTAAAGTAT
188 CATAAATTATTTTTTAATTAAATACTAAAATTATGGATATCAAATAGTCAATGCTTTTAAAGTAT
* ** *
4704795 ATTTCCTAGATATAGTATTCATGTTTAGTGTTTAAAATTAAGAATTGAATTTATTTGAAAGTGAT
253 ATTTCTTATTTATAGTGTTCATGTTTAGTGTTTAAAATTAAGAATTGAATTTATTTGAAAGTGAT
* *
4704860 TTAAGATAATTGAATTGTAATGTAATTATAGAAGGTAATAATATTTGATATTTATAAGAAAATAA
318 TTAAGATAATTGAATTGTAATGTAATTATAAAAGGTAATAATATTTAATATTTATAAGAAAATAA
* *
4704925 ATATACCTAATTTTGTCAAGATAAATATCTTTTAAATTAATAAAATTTATATGAAAACAAATCAA
383 ATATACCTAATTTAGTCAAAATAAATATCTTTTAAATTAATAAAATTTATATGAAAACAAATCAA
* *
4704990 AATAATTAATGTAGGACATATAACGATTGTTCAAGACCATCCACA-TGTCAAAAGAATAGATCAT
448 AATAATTAATGTAGGACATATAACGATTGTTCAAGACCATCCA-AGTGT-AAAAAAATAGATAAT
* *
4705054 TTACATTGGATTTTTCCCTTTTTTGTTAAAAGCTTTGGCTTTTATATATTTATATAAGATTAATT
511 TCACATTAGA--TTT---TTTTTT-TT--AAGCTTTGGCTTTTATATATTTATATAAGATTAATT
4705119 G
568 G
*
4705120 AAAGTAATTTATGTAGAGTAATTATAATGGGTTATTAGAAAATACATTTTGAAATAGTAAATTAT
1 AAAGTAATTTATGTAAAGTAATTATAATGGGTTATTAGAAAATACATTTTGAAATAGTAAATTAT
* *
4705185 GTTAGTAAATATGTGTGATTGTAATTAATATTTATATAA-AAAGAAATATATATGTTTGT-AATT
66 GTTAGTAAATATGTGTGATTGTAATTAATATTTATATAAGAAAGAAAAAAATATGTTTGTCAATT
4705248 AATTAGGCATTTTATTTTAGATTTGAATTCTTAGCATTATATGACATATATTCATTACATAAATT
131 AATTAGGCATTTTATTTTAGATTTGAATTCTTAGCATTATATGACATATATTCATTACATAAATT
* *
4705313 ATTTTTTAATTAAATACTAAAATTACGGAAATCAAATAGTCAATGCTTTTAAAGTATATTTCTTA
196 ATTTTTTAATTAAATACTAAAATTATGGATATCAAATAGTCAATGCTTTTAAAGTATATTTCTTA
* *
4705378 TTTATAGTGTTCATGTTTAATGCTTAAAATTAAGAATTGAATTTATTTGAAAGTGATTTAAGATA
261 TTTATAGTGTTCATGTTTAGTGTTTAAAATTAAGAATTGAATTTATTTGAAAGTGATTTAAGATA
* * * * *
4705443 ATTAAATTGCAACGTAATTATAAAAGGTAATAATATTTTATATTTATAAGAAAATAAATATATCT
326 ATTGAATTGTAATGTAATTATAAAAGGTAATAATATTTAATATTTATAAGAAAATAAATATACCT
4705508 AATTTAGTCAAAATAAATATCTTTTAAATTAATAAAATTTATATGAAAACAAATCAAAATAATTA
391 AATTTAGTCAAAATAAATATCTTTTAAATTAATAAAATTTATATGAAAACAAATCAAAATAATTA
** * *
4705573 ATGTAGGACATATAGGGATTGTTCAAGACCGTCTAAGTGTAAAAAAATAGATAATTCACATTAGA
456 ATGTAGGACATATAACGATTGTTCAAGACCATCCAAGTGTAAAAAAATAGATAATTCACATTAGA
*
4705638 TTTTTTTTTTTAAGTTTTGGCTTTTATATATTTATATAAGATTAATTG
521 TTTTTTTTTTTAAGCTTTGGCTTTTATATATTTATATAAGATTAATTG
* * *
4705686 AGAGTAATTTATGTAAAGTAATTATAATGGGTTATTAGAGAATATATTTTGAAATAGTAAATTAT
1 AAAGTAATTTATGTAAAGTAATTATAATGGGTTATTAGAAAATACATTTTGAAATAGTAAATTAT
* * *
4705751 ATTCA-TAAATATGTGTGATTGTAATTAATATTTAATTAGAAAGAAAGATAAAAAATATATTTGT
66 GTT-AGTAAATATGTGTGATTGTAATTAATATTT-A-TA-TAAGAAAGA-AAAAAATATGTTTGT
* * * *
4705815 GCAATCAATTAGGCCTTTTATTTTAGATTTGAATTCTTAGTATTATATGATTAATATATTCATTA
126 -CAATTAATTAGGCATTTTATTTTAGATTTGAATTCTTAGCATTATATGA--CATATATTCATTA
* *
4705880 CATAAATTATTTTTTAATTAAATACTAAAACTATGGATATCAAATAGTCAATGTTTTTTAAAGTA
188 CATAAATTATTTTTTAATTAAATACTAAAATTATGGATATCAAATAGTCAATG-CTTTTAAAGTA
* *
4705945 TATTTCTTATTTATAGTGTTCATGCTTAGTGTTTAAAATTAA-AATTTGAATTTATTTAAAAGTG
252 TATTTCTTATTTATAGTGTTCATGTTTAGTGTTTAAAATTAAGAA-TTGAATTTATTTGAAAGTG
**
4706009 ATTTAAGATAATTGAATTGTAATGTAATTATAAAAGACAATAATATTTAATATTTATAAGAAAAT
316 ATTTAAGATAATTGAATTGTAATGTAATTATAAAAGGTAATAATATTTAATATTTATAAGAAAAT
*
4706074 AAATATACCTAATTTAGTCAAAATAAATATATTTT
381 AAATATACCTAATTTAGTCAAAATAAATATCTTTT
4706109 TTATACAAAA
Statistics
Matches: 910, Mismatches: 66, Indels: 35
0.90 0.07 0.03
Matches are distributed among these distances:
566 127 0.14
567 2 0.00
568 4 0.00
569 8 0.01
570 5 0.01
571 12 0.01
572 3 0.00
573 45 0.05
574 22 0.02
575 360 0.40
576 159 0.17
577 46 0.05
579 14 0.02
581 4 0.00
582 2 0.00
583 4 0.00
584 2 0.00
585 91 0.10
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.42
Consensus pattern (568 bp):
AAAGTAATTTATGTAAAGTAATTATAATGGGTTATTAGAAAATACATTTTGAAATAGTAAATTAT
GTTAGTAAATATGTGTGATTGTAATTAATATTTATATAAGAAAGAAAAAAATATGTTTGTCAATT
AATTAGGCATTTTATTTTAGATTTGAATTCTTAGCATTATATGACATATATTCATTACATAAATT
ATTTTTTAATTAAATACTAAAATTATGGATATCAAATAGTCAATGCTTTTAAAGTATATTTCTTA
TTTATAGTGTTCATGTTTAGTGTTTAAAATTAAGAATTGAATTTATTTGAAAGTGATTTAAGATA
ATTGAATTGTAATGTAATTATAAAAGGTAATAATATTTAATATTTATAAGAAAATAAATATACCT
AATTTAGTCAAAATAAATATCTTTTAAATTAATAAAATTTATATGAAAACAAATCAAAATAATTA
ATGTAGGACATATAACGATTGTTCAAGACCATCCAAGTGTAAAAAAATAGATAATTCACATTAGA
TTTTTTTTTTTAAGCTTTGGCTTTTATATATTTATATAAGATTAATTG
Found at i:4706351 original size:16 final size:16
Alignment explanation
Indices: 4706326--4706369 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
4706316 ACTAGCAATG
* *
4706326 CAGGTAGGGTTAGCAA
1 CAGGTTGGGTCAGCAA
4706342 CAGGTTGGGTCAGCAA
1 CAGGTTGGGTCAGCAA
4706358 CAGGTTGGGTCA
1 CAGGTTGGGTCA
4706370 ATAAGGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.25, C:0.16, G:0.39, T:0.20
Consensus pattern (16 bp):
CAGGTTGGGTCAGCAA
Found at i:4706443 original size:21 final size:21
Alignment explanation
Indices: 4706419--4706469 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
4706409 CCTGAAATTA
4706419 ATAAAATATTATTTGTTAAAT
1 ATAAAATATTATTTGTTAAAT
*
4706440 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTGTTAAAT
*
4706461 A-CAAATATT
1 ATAAAATATT
4706470 TAAATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATAAAATATTATTTGTTAAAT
Found at i:4706510 original size:12 final size:12
Alignment explanation
Indices: 4706463--4706519 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
4706453 TTTTAAATAC
*
4706463 AAATATTTAAAT
1 AAATAATTAAAT
* *
4706475 ATATAATTATAT
1 AAATAATTAAAT
*
4706487 AAAT-A-TATAT
1 AAATAATTAAAT
4706497 AAATAATTAAAT
1 AAATAATTAAAT
*
4706509 AATTAATTAAA
1 AAATAATTAAA
4706520 AATAATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 9 0.24
11 2 0.05
12 26 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATTAAAT
Found at i:4707884 original size:26 final size:24
Alignment explanation
Indices: 4707842--4707895 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
4707832 CTGGGAGTGA
*
4707842 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
4707866 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
4707892 GAAA
1 GAAA
4707896 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:4707969 original size:31 final size:31
Alignment explanation
Indices: 4707904--4707971 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
4707894 AATTTCCAGA
*
4707904 TTCCGGCGAAAATTCCGACGAAATTTAAATT
1 TTCCGGCGAAAATTCCGACGAAATTTAAAGT
* *
4707935 TTCCGGC-AACAATTCCGGCGAACA-TTGAAGT
1 TTCCGGCGAA-AATTCCGACGAA-ATTTAAAGT
4707966 TTCCGG
1 TTCCGG
4707972 TGACCAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.91
32 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGACGAAATTTAAAGT
Found at i:4708575 original size:59 final size:59
Alignment explanation
Indices: 4708512--4708976 Score: 590
Period size: 57 Copynumber: 7.7 Consensus size: 59
4708502 AAAAATTCCA
4708512 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
4708571 --AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTTC
*
4708633 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGGAATAAA-TTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
4708691 -CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTTC
* *
4708754 AAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
1 -AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTTC
4708816 AAAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT-
1 AAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
4708874 TAAAAAAATGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAA-TTTC
1 AAAAAAAAT-ATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTC
* *
4708935 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4708977 CTACAAAAAA
Statistics
Matches: 364, Mismatches: 17, Indels: 50
0.84 0.04 0.12
Matches are distributed among these distances:
57 85 0.23
58 12 0.03
59 83 0.23
60 56 0.15
61 16 0.04
62 24 0.07
63 4 0.01
64 42 0.12
65 5 0.01
66 37 0.10
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:4708608 original size:27 final size:27
Alignment explanation
Indices: 4708521--4708609 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
4708511 AAAAAAAAAT
*
4708521 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGAAAAAGTTGAAAGTATCA
* * * **
4708548 ATTTTCCTTAGAAATAAATTTTCAAAAAAT--
1 A-TTT--TTAGGAA-AAA-GTTGAAAGTATCA
4708578 ATTTTTAGGAAAAAGTTGAAAGTATCA
1 ATTTTTAGGAAAAAGTTGAAAGTATCA
4708605 ATTTT
1 ATTTT
4708610 CCTTAAAAGA
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 7 0.16
26 3 0.07
27 12 0.27
28 3 0.07
29 3 0.07
30 6 0.14
31 3 0.07
32 7 0.16
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (27 bp):
ATTTTTAGGAAAAAGTTGAAAGTATCA
Found at i:4708650 original size:121 final size:123
Alignment explanation
Indices: 4708495--4708976 Score: 686
Period size: 121 Copynumber: 4.0 Consensus size: 123
4708485 TTCTTTAAAT
*
4708495 AAAGATAAA-AAA-TTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAGAAAAATAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA
*
4708558 GAAAT-AAATTTTCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA
66 GAAATCAAATTTCCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA
4708615 AAAGAAAAATAAATTTCC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAGAAAAATAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
4708679 GGAAT-AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA
66 GAAATCAAATTTCCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA
*
4708736 AAAGAAAAATAAATTTCCAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAGAAAAATAAATTTCCAAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
4708801 AAAAATCAAATTTTCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-
65 AGAAATCAAA-TTTC-CAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA
** *
4708861 --AG--AAATAAATTT--TTAAAAAAATGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCT
1 AAAGAAAAATAAATTTCCAAAAAAAAAT-ATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT
* *
4708919 T-GAAAATCGAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
64 TAG-AAATC-AAATTTCCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCC
4708977 CTACAAAAAA
Statistics
Matches: 335, Mismatches: 16, Indels: 24
0.89 0.04 0.06
Matches are distributed among these distances:
118 43 0.13
119 48 0.14
120 11 0.03
121 131 0.39
122 11 0.03
123 43 0.13
124 3 0.01
125 4 0.01
126 41 0.12
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (123 bp):
AAAGAAAAATAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA
GAAATCAAATTTCCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:4708680 original size:30 final size:30
Alignment explanation
Indices: 4708646--4708735 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
4708636 AAAAATATTT
4708646 TTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTAGGGAAAAGTTGAAAGTATCAATTTTCC
* * *
4708676 TTAGGAATAAATTTCCAAA--A--AATATTT--
1 TTAGGGA-AAAGTT-GAAAGTATCAAT-TTTCC
4708703 TTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTAGGGAAAAGTTGAAAGTATCAATTTTCC
4708733 TTA
1 TTA
4708736 AAAGAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 3 0.07
26 5 0.11
27 7 0.16
28 6 0.13
29 6 0.13
30 10 0.22
31 5 0.11
32 3 0.07
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (30 bp):
TTAGGGAAAAGTTGAAAGTATCAATTTTCC
Found at i:4708729 original size:27 final size:27
Alignment explanation
Indices: 4708642--4708730 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
4708632 CAAAAAAAAT
4708642 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * **
4708669 ATTTTCCTTAGGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
4708699 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
4708726 ATTTT
1 ATTTT
4708731 CCTTAAAAGA
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
25 5 0.11
26 5 0.11
27 12 0.27
28 3 0.07
29 3 0.07
30 7 0.16
31 5 0.11
32 5 0.11
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:4712836 original size:9 final size:9
Alignment explanation
Indices: 4712824--4712894 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
4712814 GAAAAATGAG
4712824 AAAAGAGAA
1 AAAAGAGAA
4712833 AAAAGAGAAAA
1 AAAAGAG--AA
*
4712844 AAAAAAGAAA
1 AAAAGAG-AA
4712854 AAAAGGAGAA
1 AAAA-GAGAA
*
4712864 AAATGAG--
1 AAAAGAGAA
4712871 AAAAG-GAA
1 AAAAGAGAA
*
4712879 AAAA-TGAA
1 AAAAGAGAA
4712887 AAAAGAGA
1 AAAAGAGA
4712895 TCCAAATTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
8 11 0.22
9 12 0.24
10 12 0.24
11 10 0.20
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:4712847 original size:11 final size:11
Alignment explanation
Indices: 4712831--4712866 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
4712821 GAGAAAAGAG
4712831 AAAAAAGAGAA
1 AAAAAAGAGAA
*
4712842 AAAAAAAAGAA
1 AAAAAAGAGAA
*
4712853 AAAAAGGAGAA
1 AAAAAAGAGAA
4712864 AAA
1 AAA
4712867 TGAGAAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:4712851 original size:22 final size:22
Alignment explanation
Indices: 4712824--4712866 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4712814 GAAAAATGAG
4712824 AAAAGAGAAAAAA-GAGAAAAAA
1 AAAAGA-AAAAAAGGAGAAAAAA
4712846 AAAAGAAAAAAAGGAGAAAAA
1 AAAAGAAAAAAAGGAGAAAAA
4712867 TGAGAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAAAGGAGAAAAAA
Found at i:4712866 original size:31 final size:32
Alignment explanation
Indices: 4712815--4712894 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
4712805 ACATTGGATG
*
4712815 AAAAATG-AGAAAAGAGAAAAAAGAGAAAA-A
1 AAAAATGAAAAAAAGAGAAAAAAGAGAAAAGA
*
4712845 AAAAA-GAAAAAAAGGAGAAAAATGAGAAAAGGA
1 AAAAATGAAAAAAA-GAGAAAAAAGAGAAAA-GA
4712878 AAAAATG-AAAAAAGAGA
1 AAAAATGAAAAAAAGAGA
4712895 TCCAAATTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 1 0.02
30 10 0.23
31 15 0.35
32 4 0.09
33 12 0.28
34 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (32 bp):
AAAAATGAAAAAAAGAGAAAAAAGAGAAAAGA
Found at i:4714208 original size:42 final size:41
Alignment explanation
Indices: 4714095--4714756 Score: 899
Period size: 41 Copynumber: 16.1 Consensus size: 41
4714085 ATGATTGTCA
4714095 AGGAGCAATTTACTTTTCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG--TCGTGGTGCCTCTGTTTAG
* *
4714136 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
4714177 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAT
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
4714219 AGGAGCAATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAG
4714260 AGGAGCAATTTA-----C----T--TGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
4714290 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
4714332 AGGAGCAATTTACTTTTCAAAGT--TCGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GGTGCCTCTGTTTAG
*
4714372 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
*
4714414 AGGAGCAATTTACTTTTTTCAAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTAC--TTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
4714458 AGGAACAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
4714499 AGGAGCAATTTATTTTTTCAAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-CTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
4714542 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
4714583 AGGAGCAATTTATTTTTCCAAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTT-C-AAAGTCGTGGTGCCTCTGTTTAG
* *
4714626 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTCAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
4714667 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * *
4714709 AGGAGCAATTTACTTTCTCAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
4714751 AGGAGC
1 AGGAGC
4714757 TTTGATAAAA
Statistics
Matches: 563, Mismatches: 26, Indels: 63
0.86 0.04 0.10
Matches are distributed among these distances:
28 1 0.00
30 25 0.04
31 1 0.00
36 2 0.00
39 5 0.01
40 33 0.06
41 201 0.36
42 179 0.32
43 79 0.14
44 37 0.07
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:4714281 original size:30 final size:30
Alignment explanation
Indices: 4714247--4714304 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
4714237 AAAGTTCCGT
4714247 TGCCTCTGTTTAGAGGAGCAATTTACTTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTGG
4714277 TGCCTCTGTTTAGAGGAGCAATTTACTT
1 TGCCTCTGTTTAGAGGAGCAATTTACTT
4714305 TTTCAAAGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (30 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTGG
Found at i:4714551 original size:84 final size:84
Alignment explanation
Indices: 4714274--4714756 Score: 760
Period size: 84 Copynumber: 5.8 Consensus size: 84
4714264 GCAATTTACT
*
4714274 TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 TGGTGCCTCTGTTGAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
4714339 ATTTA-CTTTTC-AAAGT--
65 ATTTATTTTTTCAAAAGTCG
* *
4714355 TCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
1 T-GGTGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
4714420 AATTTACTTTTTTCAAAAGTCG
64 AATTTA-TTTTTTCAAAAGTCG
*
4714442 TGGTGCCTCTGTTGAGAGGAACAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
4714507 TTTATTTTTTCAAAAGTCG
66 TTTATTTTTTCAAAAGTCG
4714526 TGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
*
4714591 TTTATTTTTCCAAAAGTCG
66 TTTATTTTTTCAAAAGTCG
* *
4714610 TGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTCAGAGGAGCAA
1 TGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
* *
4714675 TTTA-CTTTTCCAAAGTCG
66 TTTATTTTTTCAAAAGTCG
* * * *
4714693 TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGC
1 TGGTGCCTCTGTTGAGAGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
4714757 TTTGATAAAA
Statistics
Matches: 376, Mismatches: 18, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
81 5 0.01
82 63 0.17
83 41 0.11
84 196 0.52
85 40 0.11
86 30 0.08
87 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (84 bp):
TGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
TTTATTTTTTCAAAAGTCG
Found at i:4714769 original size:1 final size:1
Alignment explanation
Indices: 4714763--4714822 Score: 75
Period size: 1 Copynumber: 60.0 Consensus size: 1
4714753 GAGCTTTGAT
* * * * *
4714763 AAAAAAAAAAAACAAAAAAAAAACAAAAAAAACAAAAAAAAAACAAAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4714823 TGACATTGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.92, C:0.07, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:4714781 original size:11 final size:11
Alignment explanation
Indices: 4714765--4714815 Score: 88
Period size: 11 Copynumber: 4.8 Consensus size: 11
4714755 GCTTTGATAA
4714765 AAAAAAAAAAC
1 AAAAAAAAAAC
4714776 AAAAAAAAAAC
1 AAAAAAAAAAC
4714787 --AAAAAAAAC
1 AAAAAAAAAAC
4714796 AAAAAAAAAAC
1 AAAAAAAAAAC
4714807 AAAAAAAAA
1 AAAAAAAAA
4714816 TAAAAAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.24
11 29 0.76
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:4714792 original size:20 final size:20
Alignment explanation
Indices: 4714763--4714814 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
4714753 GAGCTTTGAT
4714763 AAAA-AAAAAAAACAAAAAA
1 AAAACAAAAAAAACAAAAAA
4714782 AAAACAAAAAAAACAAAAAA
1 AAAACAAAAAAAACAAAAAA
4714802 AAAACAAAAAAAA
1 AAAACAAAAAAAA
4714815 ATAAAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAACAAAAAAAACAAAAAA
Found at i:4715488 original size:26 final size:24
Alignment explanation
Indices: 4715446--4715499 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
4715436 CTGGGAGTGA
*
4715446 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
4715470 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
4715496 GAAA
1 GAAA
4715500 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:4715573 original size:31 final size:31
Alignment explanation
Indices: 4715508--4715575 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
4715498 AATTTCCAGA
*
4715508 TTCCGGCGAAAATTCCGACGAAATTTAAATT
1 TTCCGGCGAAAATTCCGACGAAATTTAAAGT
* *
4715539 TTCCGGC-AACAATTCCGGCGAACA-TTGAAGT
1 TTCCGGCGAA-AATTCCGACGAA-ATTTAAAGT
4715570 TTCCGG
1 TTCCGG
4715576 TGACCAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.91
32 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGACGAAATTTAAAGT
Found at i:4716034 original size:17 final size:17
Alignment explanation
Indices: 4716009--4716049 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4715999 TTCTCTTTGA
*
4716009 ATTTTTTTTATTTCTTT
1 ATTTATTTTATTTCTTT
* *
4716026 GTTTATTTTATTTTTTT
1 ATTTATTTTATTTCTTT
4716043 ATTTATT
1 ATTTATT
4716050 AGATTAGGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (17 bp):
ATTTATTTTATTTCTTT
Found at i:4716047 original size:12 final size:12
Alignment explanation
Indices: 4716011--4716049 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4716001 CTCTTTGAAT
*
4716011 TTTTTTTATTTC
1 TTTTTTTATTTA
*
4716023 TTTGTTTATTTTA
1 TTTTTTTA-TTTA
4716036 TTTTTTTATTTA
1 TTTTTTTATTTA
4716048 TT
1 TT
4716050 AGATTAGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:4716322 original size:60 final size:60
Alignment explanation
Indices: 4716119--4716469 Score: 447
Period size: 59 Copynumber: 5.7 Consensus size: 60
4716109 AAAATTCCAA
* *
4716119 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA-ATAAAT--ATTT-C
* *
4716183 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA-ATAAAT--ATTT-C
*
4716247 AAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAATATTTC
1 -AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATATTTC
* *
4716309 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT-TTTT
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATATTTC
*** * * *
4716368 AAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAA-ATTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATATTTC
* *
4716428 -CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
4716470 CTACAAAAAA
Statistics
Matches: 263, Mismatches: 20, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
59 84 0.32
60 51 0.19
61 7 0.03
62 1 0.00
63 4 0.02
64 64 0.24
65 11 0.04
66 41 0.16
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (60 bp):
AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATATTTC
Found at i:4719246 original size:44 final size:44
Alignment explanation
Indices: 4719198--4719288 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
4719188 GGGTATAATA
4719198 AAATCGTGCTTTCCACAAGGTGTGCTATAAAGGTAGATTCAAAG
1 AAATCGTGCTTTCCACAAGGTGTGCTATAAAGGTAGATTCAAAG
* *
4719242 AAATCGTGCTTTCCCCAAGGTGTGCTATAAAGTTAGATTCAAAG
1 AAATCGTGCTTTCCACAAGGTGTGCTATAAAGGTAGATTCAAAG
4719286 AAA
1 AAA
4719289 GCTTTTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (44 bp):
AAATCGTGCTTTCCACAAGGTGTGCTATAAAGGTAGATTCAAAG
Found at i:4722895 original size:21 final size:21
Alignment explanation
Indices: 4722871--4722921 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4722861 ATTCTATCTA
*
4722871 AATGATTTACATCCATTTCTC
1 AATGAATTACATCCATTTCTC
4722892 AATGAATTACATCCATTTCTC
1 AATGAATTACATCCATTTCTC
4722913 AATGAATTA
1 AATGAATTA
4722922 TGTTAAGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (21 bp):
AATGAATTACATCCATTTCTC
Found at i:4723175 original size:13 final size:14
Alignment explanation
Indices: 4723159--4723191 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4723149 AATATTTTGA
4723159 TATTTAAAT-ATTT
1 TATTTAAATAATTT
4723172 TA-TTAAATAATTT
1 TATTTAAATAATTT
4723185 TATTTAA
1 TATTTAA
4723192 TTTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 8 0.44
14 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTAAATAATTT
Found at i:4723364 original size:15 final size:15
Alignment explanation
Indices: 4723342--4723377 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4723332 AAAAATAAAA
*
4723342 TAAAATAATTTAATT
1 TAAAATAATTCAATT
*
4723357 TTAAATAATTCAATT
1 TAAAATAATTCAATT
4723372 TAAAAT
1 TAAAAT
4723378 TAATCGAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAATAATTCAATT
Found at i:4724115 original size:24 final size:23
Alignment explanation
Indices: 4724059--4724126 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
4724049 ATATATTTAG
4724059 TAATTAAAA-ATAAAAAAT-AAAA
1 TAATTAAAATAT-AAAAATGAAAA
*
4724081 T-TTTAAAATATAAAAATGAAAA
1 TAATTAAAATATAAAAATGAAAA
*
4724103 TGAATTAAAATATGAAAATGAAAA
1 T-AATTAAAATATAAAAATGAAAA
4724127 AAAAACTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
21 12 0.31
22 8 0.21
24 19 0.49
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (23 bp):
TAATTAAAATATAAAAATGAAAA
Found at i:4724119 original size:18 final size:17
Alignment explanation
Indices: 4724091--4724124 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4724081 TTTTAAAATA
4724091 TAAAAATGAAAATGAAT
1 TAAAAATGAAAATGAAT
4724108 TAAAATATGAAAATGAA
1 TAAAA-ATGAAAATGAA
4724125 AAAAAAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
TAAAAATGAAAATGAAT
Found at i:4724130 original size:18 final size:17
Alignment explanation
Indices: 4724092--4724131 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
4724082 TTTAAAATAT
*
4724092 AAAAATGAAAATGAATTA
1 AAAAATGAAAATGAA-AA
*
4724110 AAATATGAAAATGAAAA
1 AAAAATGAAAATGAAAA
4724127 AAAAA
1 AAAAA
4724132 CTGTTTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAATGAAAATGAAAA
Found at i:4724562 original size:13 final size:14
Alignment explanation
Indices: 4724544--4724572 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4724534 GCCCAAAGCG
4724544 AAAAT-ATAAAAAA
1 AAAATAATAAAAAA
4724557 AAAATAATAAAAAA
1 AAAATAATAAAAAA
4724571 AA
1 AA
4724573 CATTTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAATAAAAAA
Found at i:4730756 original size:2 final size:2
Alignment explanation
Indices: 4730749--4730774 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4730739 GTAAGACATG
4730749 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4730775 TTTAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4742282 original size:14 final size:16
Alignment explanation
Indices: 4742258--4742296 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4742248 TTGATAAATT
4742258 TAATTTT-TTATAAAAA
1 TAATTTTATTA-AAAAA
4742274 TAATTTTATTGAAAAAA
1 TAATTTTATT-AAAAAA
4742291 TAATTT
1 TAATTT
4742297 AGTTGTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 13 0.62
18 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TAATTTTATTAAAAAA
Found at i:4742291 original size:17 final size:17
Alignment explanation
Indices: 4742269--4742319 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
4742259 AATTTTTTAT
4742269 AAAAATAATTTTATTGA
1 AAAAATAATTTTATTGA
*
4742286 AAAAATAATTTAGTTGTTGA
1 AAAAATAA-TT--TTATTGA
4742306 AAAAATTAATTTTA
1 AAAAA-TAATTTTA
4742320 ATTTTGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 8 0.29
18 4 0.14
20 13 0.46
21 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
AAAAATAATTTTATTGA
Found at i:4742326 original size:21 final size:20
Alignment explanation
Indices: 4742282--4742327 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
4742272 AATAATTTTA
*
4742282 TTGAAAAAATAATTTAGTTG
1 TTGAAAAAATAATTTAATTG
4742302 TTGAAAAAATTAATTTTAATT-
1 TTGAAAAAA-TAA-TTTAATTG
4742323 TTGAA
1 TTGAA
4742328 GAACATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 8 0.35
22 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (20 bp):
TTGAAAAAATAATTTAATTG
Found at i:4742951 original size:2 final size:2
Alignment explanation
Indices: 4742946--4742987 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4742936 TAGCTTTTTT
4742946 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4742988 ACAGAAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4760350 original size:32 final size:32
Alignment explanation
Indices: 4760314--4760389 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
4760304 GAAGTCCTAC
4760314 TATATTTATATAGAAGAAAGTCTTTGCATATA
1 TATATTTATATAGAAGAAAGTCTTTGCATATA
4760346 TATATTTATATAGAAGAAAGTCTTTGCATATA
1 TATATTTATATAGAAGAAAGTCTTTGCATATA
*
4760378 TATATATATATA
1 TATATTTATATA
4760390 TATTGAACTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (32 bp):
TATATTTATATAGAAGAAAGTCTTTGCATATA
Found at i:4767079 original size:68 final size:69
Alignment explanation
Indices: 4766998--4767156 Score: 171
Period size: 68 Copynumber: 2.3 Consensus size: 69
4766988 TTTTATTGTA
* * * * *
4766998 CATATTTTCAATAAAAAT-CATTTTTTTATTTTAAAAACATTATTTTTGTTAAATTTT-GAAAAT
1 CATATTTTAAATAAAAATGCA-TTTTTAATATT-AAAACATCATTTTTGTTAAATTTTAAAAAAT
4767061 -TTTTT
64 ATTTTT
* *
4767066 CATATTTTAAATAAAGATTGCATTTTTAATATTAAAATATCATTTTTGTTAAATTTTAAAAAATA
1 CATATTTTAAATAAA-AATGCATTTTTAATATTAAAACATCATTTTTGTTAAATTTTAAAAAAT-
4767131 AAATTTTT
64 --ATTTTT
*
4767139 CATATTTTAAACAAAAAT
1 CATATTTTAAATAAAAAT
4767157 TTTTGTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
68 36 0.48
69 16 0.21
70 2 0.03
72 2 0.03
73 19 0.25
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (69 bp):
CATATTTTAAATAAAAATGCATTTTTAATATTAAAACATCATTTTTGTTAAATTTTAAAAAATAT
TTTT
Found at i:4767211 original size:73 final size:73
Alignment explanation
Indices: 4767057--4767218 Score: 184
Period size: 74 Copynumber: 2.2 Consensus size: 73
4767047 TAAATTTTGA
* * * *
4767057 AAATTTTTTCATATTTTAAATAAAGATTGCATTTTTAATATTAAAATATCATTTTTGTTAAATTT
1 AAATTTTTTCATATTTTAAACAAAAATTGCATTTTTAATATAAAAATATCATTTTTATTAAATTT
4767122 TAAAAAAT
66 TAAAAAAT
* *** ** * *
4767130 AAAATTTTTCATATTTTAAACAAAAATTTTTGTTTTTTTTATAAAAATGTCATTTTTATTTAATT
1 AAATTTTTTCATATTTTAAACAAAAA-TTGCATTTTTAATATAAAAATATCATTTTTATTAAATT
*
4767195 TTATAAAAT
65 TTAAAAAAT
4767204 -AATTTTTT-ATATTTT
1 AAATTTTTTCATATTTT
4767219 TAAGAATAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
72 7 0.09
73 30 0.41
74 37 0.50
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.54
Consensus pattern (73 bp):
AAATTTTTTCATATTTTAAACAAAAATTGCATTTTTAATATAAAAATATCATTTTTATTAAATTT
TAAAAAAT
Found at i:4767226 original size:22 final size:21
Alignment explanation
Indices: 4767188--4767229 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4767178 GTCATTTTTA
4767188 TTTAATTTTATAAAATAATTT
1 TTTAATTTTATAAAATAATTT
4767209 TTTATATTTT-TAAGAATAATT
1 TTTA-ATTTTATAA-AATAATT
4767230 ACGTTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAATTTTATAAAATAATTT
Found at i:4767552 original size:83 final size:83
Alignment explanation
Indices: 4767457--4767620 Score: 265
Period size: 83 Copynumber: 2.0 Consensus size: 83
4767447 ACATTCTTGG
* *
4767457 ATATTATTTATTTATTAATATTAAATGTATTTTATATTACGTATTTATAATATATAATTATCGAG
1 ATATTATTTATTTATTAATATTAAATATATTTTATATTACATATTTATAATATATAATTATCGAG
*
4767522 TTGAATCAATCGAGTTAA
66 TTAAATCAATCGAGTTAA
* *
4767540 ATATTATTTATTTATTAATATTAAGTATATTTTATATTATATATTTATAATATATAATTATCGAG
1 ATATTATTTATTTATTAATATTAAATATATTTTATATTACATATTTATAATATATAATTATCGAG
* *
4767605 TTAAATCGATTGAGTT
66 TTAAATCAATCGAGTT
4767621 GGATTAAGGC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (83 bp):
ATATTATTTATTTATTAATATTAAATATATTTTATATTACATATTTATAATATATAATTATCGAG
TTAAATCAATCGAGTTAA
Found at i:4777130 original size:2 final size:2
Alignment explanation
Indices: 4777123--4777151 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4777113 AGTCTTAGCT
4777123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4777152 TGAACTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4777492 original size:25 final size:23
Alignment explanation
Indices: 4777464--4777531 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 23
4777454 TATTCTCTAA
4777464 ACGTCCACCTAATTAATTGGAAAAG
1 ACGTCCACCTAA--AATTGGAAAAG
*
4777489 ACGTCCACC-GAAATTGGAAAAG
1 ACGTCCACCTAAAATTGGAAAAG
*
4777511 ACGTCCACCT-AAATTGAAAAA
1 ACGTCCACCTAAAATTGGAAAA
4777532 AAAATATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 30 0.75
24 1 0.03
25 9 0.22
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (23 bp):
ACGTCCACCTAAAATTGGAAAAG
Found at i:4777506 original size:22 final size:22
Alignment explanation
Indices: 4777478--4777531 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4777468 CCACCTAATT
4777478 AATTGGAAAAGACGTCCACCGA
1 AATTGGAAAAGACGTCCACCGA
*
4777500 AATTGGAAAAGACGTCCACCTA
1 AATTGGAAAAGACGTCCACCGA
*
4777522 AATTGAAAAA
1 AATTGGAAAA
4777532 AAAATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (22 bp):
AATTGGAAAAGACGTCCACCGA
Found at i:4777816 original size:163 final size:163
Alignment explanation
Indices: 4777546--4777864 Score: 611
Period size: 163 Copynumber: 2.0 Consensus size: 163
4777536 TATTTTCAAA
*
4777546 TAAATTTGTTTCAATTTTCTTCTCCCAGTTGTATGATCAATTGGTTTGGTTGTGGAGGGATTGAC
1 TAAATTTGTTTCAATTTTCTTCTCCCAGTTATATGATCAATTGGTTTGGTTGTGGAGGGATTGAC
4777611 CCACCATAGATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAG
66 CCACCATAGATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAG
*
4777676 ATGGGCAAAAGCATTTAATTAATTTAGATCCAC
131 ACGGGCAAAAGCATTTAATTAATTTAGATCCAC
4777709 TAAATTTGTTTCAATTTTCTTCTCCCAGTTATATGATCAATTGGTTTGGTTGTGGAGGGATTGAC
1 TAAATTTGTTTCAATTTTCTTCTCCCAGTTATATGATCAATTGGTTTGGTTGTGGAGGGATTGAC
4777774 CCACCATAGATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAG
66 CCACCATAGATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAG
*
4777839 ACGGGCAAACGCATTTAATTAATTTA
131 ACGGGCAAAAGCATTTAATTAATTTA
4777865 TAAATTGGTG
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 153 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (163 bp):
TAAATTTGTTTCAATTTTCTTCTCCCAGTTATATGATCAATTGGTTTGGTTGTGGAGGGATTGAC
CCACCATAGATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAG
ACGGGCAAAAGCATTTAATTAATTTAGATCCAC
Found at i:4777885 original size:47 final size:47
Alignment explanation
Indices: 4777816--4777913 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
4777806 TTCTTTTTCG
*
4777816 TATAAATTGGTGTGGAGTAAGAGACGGGCAAACGCATTTAATTAATT
1 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATT
4777863 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATT
1 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATT
4777910 TATA
1 TATA
4777914 TCCACTAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (47 bp):
TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATT
Found at i:4778086 original size:213 final size:210
Alignment explanation
Indices: 4777653--4778287 Score: 1189
Period size: 213 Copynumber: 3.0 Consensus size: 210
4777643 TTCTTTTTCG
*
4777653 TATAAATTGGTGTGGAGTAAGAGATGGGCAAAAGCATTTAATTAATTTAGATCCACTAAATTTGT
1 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTAGATCCACTAAATTTGT
*
4777718 TTCAATTTTCTTCTCCCAGTTATATGATCAATTGGTTTGGTTGTGGAGGGATTGACCCACCATAG
66 TTCAATTTTCTTCTCCCAGTTATATGATCAAATGGTTTGGTTGTGGAGGGATTGACCCACCATAG
4777783 ATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAGACGGGCAAA
131 ATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAGACGGGCAAA
4777848 CGCATTTAATTAATT
196 CGCATTTAATTAATT
*
4777863 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTATATCCACTAAATTTGT
1 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTAGATCCACTAAATTTGT
4777928 TTCAATTTTCTTCTCCCAGTTATATGATCAAATGGTTTGGTTGTGGAGGAGGGATTGACCCACCA
66 TTCAATTTTCTTCTCCCAGTTATATGATCAAATGGTTTGGTTGT---GGAGGGATTGACCCACCA
*
4777993 TAGATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTGTAAATTGGTGTGGAGTAAGAGACGGGC
128 TAGATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAGACGGGC
4778058 AAACGCATTTAATTAATT
193 AAACGCATTTAATTAATT
4778076 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTAGATCCACTAAATTTGT
1 TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTAGATCCACTAAATTTGT
4778141 TTCAATTTTCTTCTCCCAGTTATATGATCAAATGGTTTGGTTGTGGAGGGATTGACCCACCATAG
66 TTCAATTTTCTTCTCCCAGTTATATGATCAAATGGTTTGGTTGTGGAGGGATTGACCCACCATAG
*
4778206 ATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAGACGGGTAAA
131 ATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAGACGGGCAAA
*
4778271 AGCATTTAATTAATT
196 CGCATTTAATTAATT
4778286 TA
1 TA
4778288 GATCCACTCA
Statistics
Matches: 414, Mismatches: 8, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
210 206 0.50
213 208 0.50
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (210 bp):
TATAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTAGATCCACTAAATTTGT
TTCAATTTTCTTCTCCCAGTTATATGATCAAATGGTTTGGTTGTGGAGGGATTGACCCACCATAG
ATTGGAAATGTATTTGCTTGATTTTCTTTTTCGTATAAATTGGTGTGGAGTAAGAGACGGGCAAA
CGCATTTAATTAATT
Found at i:4778100 original size:47 final size:47
Alignment explanation
Indices: 4778031--4778124 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
4778021 CTTTTTCGTG
*
4778031 TAAATTGGTGTGGAGTAAGAGACGGGCAAACGCATTTAATTAATTTA
1 TAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTA
4778078 TAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTA
1 TAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTA
4778125 GATCCACTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (47 bp):
TAAATTGGTGTGGAGTAAGAGACGGGCAAAAGCATTTAATTAATTTA
Found at i:4779213 original size:13 final size:13
Alignment explanation
Indices: 4779195--4779219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4779185 TCAACTGGTG
4779195 CAAGAAGACACAA
1 CAAGAAGACACAA
4779208 CAAGAAGACACA
1 CAAGAAGACACA
4779220 TCCACAAAAA
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:0.60, C:0.24, G:0.16, T:0.00
Consensus pattern (13 bp):
CAAGAAGACACAA
Found at i:4781177 original size:21 final size:20
Alignment explanation
Indices: 4781143--4781192 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
4781133 TATTTTTAGA
*
4781143 AATTTTATTAATTTTTTTATTT
1 AATTTT-TTAA-TTTTTAATTT
*
4781165 AATTTTTTTATTTTTAATTT
1 AATTTTTTAATTTTTAATTT
4781185 AAATTTTT
1 -AATTTTT
4781193 GAAGGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.36
21 10 0.40
22 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
AATTTTTTAATTTTTAATTT
Found at i:4781184 original size:15 final size:13
Alignment explanation
Indices: 4781145--4781177 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4781135 TTTTTAGAAA
4781145 TTTTA-TTAATTT
1 TTTTATTTAATTT
4781157 TTTTATTTAATTT
1 TTTTATTTAATTT
4781170 TTTTATTT
1 TTTTATTT
4781178 TTAATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTAATTT
Found at i:4781576 original size:11 final size:10
Alignment explanation
Indices: 4781555--4781613 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
4781545 TTTTTTTTTG
4781555 TATTTTTTAT
1 TATTTTTTAT
4781565 TATTTTTGTAT
1 TATTTTT-TAT
* *
4781576 TATTTTATAA
1 TATTTTTTAT
*
4781586 GATTTATTT-T
1 TATTT-TTTAT
*
4781596 TA-TTATTAT
1 TATTTTTTAT
4781605 TATTTTTTA
1 TATTTTTTA
4781614 AGTTTATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
8 2 0.05
9 5 0.14
10 19 0.51
11 11 0.30
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:4783300 original size:48 final size:48
Alignment explanation
Indices: 4783248--4784529 Score: 1076
Period size: 48 Copynumber: 26.6 Consensus size: 48
4783238 ATCTCACTTA
* * * * **
4783248 AGGCTCAACAACTTTAAAAATCTTATCTGGAAATGTTTTTCTAAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * *
4783296 AGGCTCAACAACTTT-AAAAT-TCATCTTGAAAAAATGCTCATCTTAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATC-TG-AAAAA-GCTCCTCTAAGCAG
* *
4783345 AGGCTCATCAACTTT-AAAATC-CATCTTG-AAAAGCTCCTCTAAGCTG
1 AGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTAAGCAG
* *
4783391 AGGCTCAACAACTTCAAAAATCTCATCT-ACAAAAGCTCTTCTAAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGA-AAAAGCTCCTCTAAGCAG
*
4783439 AGGCTCAACAACTTTAAAAATCTCGTCT-ACAAAAGCTCCTCTAAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGA-AAAAGCTCCTCTAAGCAG
* * * *
4783487 ATGCTCAACAA-TTTAAAAAATTTCATCT-AGAAAAGCTCTTCTAAGTAG
1 AGGCTCAACAACTTT-AAAAATCTCATCTGA-AAAAGCTCCTCTAAGCAG
***
4783535 AGGCTCAACAACTTT-AAAATC-CATCTTGAAAAA-AAGCTC--AGCAG
1 AGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTAAGCAG
*
4783579 AGGCTCAATAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAA-CAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCT-AAGCAG
* * * *
4783627 AGGCTCAACAACTTTAAAAATTTCATCTGGAAAAGCTCTTCTAAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* *
4783675 AGGCTCACCAACTTT-AAAATC-CATCTTGAAAAAAAGCTCCTCTCAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATC-TG--AAAAAGCTCCTCTAAGCAG
* * * * *
4783724 AGGCTCAATAACTTTAAAAATCTCATCTGAAAAAGCTCTTATCAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
** * * *
4783772 AGGCTCAACAACTTTAAAAAAAAATCAATCTTGAAAAAGCTTCTCTTAGCAA
1 AGGCTCAACAACTTT--AAAAATCTC-ATC-TGAAAAAGCTCCTCTAAGCAG
* * *
4783824 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCATCTTAGCAA
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * * * *
4783872 AGGCTTAATAACTTTTAAAAAATTTCATCTTGAAAAAACTCCTCTCAA-TAG
1 AGGCTCAACAAC-TTT-AAAAATCTCATC-TGAAAAAGCTCCTCT-AAGCAG
* * * * * *
4783923 AGGCTCAACAACTTTAAAAATCTCATTTGAAAAGGCTCCTTTCAGTAA
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * * *
4783971 AAGCTCAACAACTTTAAAAATTTCATCTGGAAAAGCTCCTCTCAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * * *
4784019 AGGCTCAACAACTTTAAAAGTTTTTATCTTG-AAAAGCTCCTCTCAGCAG
1 AGGCTCAACAACTTTAAAA-ATCTCATC-TGAAAAAGCTCCTCTAAGCAG
* * * * *
4784068 AGGCTTAACAACTTTAAAAATTTCATCTGAAAAAGCTCTTCTCAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * * *
4784116 AGGCTCAATAATTTTAAAAATTCTCATCTTG-AAAAGCTCTTTCTAAGTAG
1 AGGCTCAACAACTTTAAAAA-TCTCATC-TGAAAAAGCTC-CTCTAAGCAG
* * * * *
4784166 AGGCTCAACAACTTT-AAAATC-CATCTTAAAAAAAAGCTCTTTTCAGTA-
1 AGGCTCAACAACTTTAAAAATCTCATC-T--GAAAAAGCTCCTCTAAGCAG
* * *
4784214 ATGGCTCAATAACTTTAAAAATCT-ATCTTG-AAAAGCTCCTCTTAGCAT
1 A-GGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTAAGCAG
* * ** *
4784262 AGGCTCAATAATTTTAAAAAAAT-TCATCTTGAAAAAGCTTTTCTCAA-TAG
1 AGGCTCAACAACTTT--AAAAATCTCATC-TGAAAAAGCTCCTCT-AAGCAG
* * * *
4784312 AGGCTCAATAACTTTAAAAATCTCATCTGAAAAAACTCTTCTTAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * * *
4784360 AGTCTCAATAACTTTAAAAATCTCATCTGAAAAAGCTCATCTCAGCAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * * * * * *
4784408 AGACTCAATAACTTT-AAAATTTTATCTGAAAAAGCTCCTTTCAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
* * ** * * * *
4784455 AGACTCAACAACTTT-AAAATTTTGTCTTGAAAAAGCTCTTTTCAGTAG
1 AGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTAAGCAG
*
4784503 AGGCTTAACAACTTTAAAAAT-TCATCT
1 AGGCTCAACAACTTTAAAAATCTCATCT
4784530 TTTCTTAAAA
Statistics
Matches: 1036, Mismatches: 143, Indels: 111
0.80 0.11 0.09
Matches are distributed among these distances:
44 18 0.02
45 13 0.01
46 44 0.04
47 128 0.12
48 479 0.46
49 185 0.18
50 106 0.10
51 32 0.03
52 31 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (48 bp):
AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTAAGCAG
Found at i:4783357 original size:97 final size:96
Alignment explanation
Indices: 4783248--4784529 Score: 1147
Period size: 97 Copynumber: 13.3 Consensus size: 96
4783238 ATCTCACTTA
* * * *
4783248 AGGCTCAACAACTTTAAAAATCTTATCTGGAAATGTTTTTCTAAGCAGAGGCTCAACAACTTT-A
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAA
* *
4783312 AAATTCATCTTGAAAAAATGCTCATCTTAGTAG
66 AAATTCATCTTG-AAAAA-GCTCCTCTCAGTAG
* * * * *
4783345 AGGCTCATCAACTTT-AAAATC-CATCTTGAAAAGCTCCTCTAAGCTGAGGCTCAACAACTTCAA
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAA
* * *
4783408 AAATCTCATC-T-ACAAAAGCTCTTCTAAGCAG
66 AAAT-TCATCTTGA-AAAAGCTCCTCTCAGTAG
* ** * *
4783439 AGGCTCAACAACTTTAAAAATCTCGTCTACAAAAGCTCCTCTAAGCAGATGCTCAACAA-TTTAA
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTT-A
* * *
4783503 AAAATTTCATCTAG-AAAAGCTCTTCTAAGTAG
65 AAAA-TTCATCTTGAAAAAGCTCCTCTCAGTAG
* *** *
4783535 AGGCTCAACAACTTT-AAAATC-CATCTTGAAAAAAAGC-TC--AGCAGAGGCTCAATAACTTTA
1 AGGCTCAACAACTTTAAAAATCTCATC-TGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTA
**
4783595 AAAATCTCATC-TGAAAAAGCTCCTCTCAACAG
65 AAAAT-TCATCTTGAAAAAGCTCCTCTCAGTAG
* * *
4783627 AGGCTCAACAACTTTAAAAATTTCATCTGGAAAAGCTCTTCTAAGTAGAGGCTCACCAACTTT-A
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAA
* *
4783691 AAATCCATCTTGAAAAAAAGCTCCTCTCAGCAG
66 AAATTCATCTTG--AAAAAGCTCCTCTCAGTAG
* * * * *
4783724 AGGCTCAATAACTTTAAAAATCTCATCTGAAAAAGCTCTTATCAGTAGAGGCTCAACAACTTTAA
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTT--
* * * * *
4783789 AAAAAAATCAATCTTGAAAAAGCTTCTCTTAGCAA
64 -AAAAATTC-ATCTTGAAAAAGCTCCTCTCAGTAG
* * * * * *
4783824 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCATCTTAGCAAAGGCTTAATAACTTTTA
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAAC-TTT-
* *
4783889 AAAAATTTCATCTTGAAAAAACTCCTCTCAATAG
64 AAAAA-TTCATCTTGAAAAAGCTCCTCTCAGTAG
* * * * *
4783923 AGGCTCAACAACTTTAAAAATCTCAT-TTGAAAAGGCTCCTT-TCAGTAAAAGCTCAACAACTTT
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAA-GCT-CTTCTAAGCAGAGGCTCAACAACTTT
* *
4783986 AAAAATTTCATC-TGGAAAAGCTCCTCTCAGCAG
64 AAAAA-TTCATCTTGAAAAAGCTCCTCTCAGTAG
* * * * * * *
4784019 AGGCTCAACAACTTTAAAAGTTTTTATCTTGAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTA
1 AGGCTCAACAACTTTAAAA-ATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTA
*
4784084 AAAATTTCATC-TGAAAAAGCTCTTCTCAGTAG
65 AAAA-TTCATCTTGAAAAAGCTCCTCTCAGTAG
* * * *
4784116 AGGCTCAATAATTTTAAAAATTCTCATCTTGAAAAGCTCTTTCTAAGTAGAGGCTCAACAACTTT
1 AGGCTCAACAACTTTAAAAA-TCTCATCTGGAAAAGCTC-TTCTAAGCAGAGGCTCAACAACTTT
* * * *
4784181 -AAAATCCATCTTAAAAAAAAGCTCTTTTCAGTA-
64 AAAAATTCATCTT--GAAAAAGCTCCTCTCAGTAG
* * * * * * *
4784214 ATGGCTCAATAACTTTAAAAATCT-ATCTTGAAAAGCTCCTCTTAGCATAGGCTCAATAATTTTA
1 A-GGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTT-
** *
4784278 AAAAAATTCATCTTGAAAAAGCTTTTCTCAATAG
64 -AAAAATTCATCTTGAAAAAGCTCCTCTCAGTAG
* * * * * *
4784312 AGGCTCAATAACTTTAAAAATCTCATCTGAAAAAACTCTTCTTAGCAGAGTCTCAATAACTTTAA
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAA
* *
4784377 AAATCTCATC-TGAAAAAGCTCATCTCAGCAG
66 AAAT-TCATCTTGAAAAAGCTCCTCTCAGTAG
* * * * * * * *
4784408 AGACTCAATAACTTT-AAAATTTTATCTGAAAAAGCTCCTT-TCAGTAGAGACTCAACAACTTTA
1 AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCT-CTTCTAAGCAGAGGCTCAACAACTTTA
* ** * *
4784471 AAATTTTGTCTTGAAAAAGCTCTTTTCAGTAG
65 AAAATTCATCTTGAAAAAGCTCCTCTCAGTAG
*
4784503 AGGCTTAACAACTTTAAAAAT-TCATCT
1 AGGCTCAACAACTTTAAAAATCTCATCT
4784530 TTTCTTAAAA
Statistics
Matches: 991, Mismatches: 146, Indels: 98
0.80 0.12 0.08
Matches are distributed among these distances:
91 2 0.00
92 53 0.05
93 15 0.02
94 44 0.04
95 139 0.14
96 209 0.21
97 256 0.26
98 73 0.07
99 114 0.12
100 72 0.07
101 8 0.01
102 6 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (96 bp):
AGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAA
AAATTCATCTTGAAAAAGCTCCTCTCAGTAG
Found at i:4792344 original size:32 final size:32
Alignment explanation
Indices: 4792308--4792375 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
4792298 CGAAACAGCC
4792308 ATTGAAAAAAGTCCTAAAGAGAATCAAGATTA
1 ATTGAAAAAAGTCCTAAAGAGAATCAAGATTA
4792340 ATTGAAAAAAGTCCTAAAGAGAATCAAGATTA
1 ATTGAAAAAAGTCCTAAAGAGAATCAAGATTA
4792372 ATTG
1 ATTG
4792376 GCGTGTGAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (32 bp):
ATTGAAAAAAGTCCTAAAGAGAATCAAGATTA
Found at i:4799848 original size:26 final size:24
Alignment explanation
Indices: 4799809--4799867 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
4799799 TACCTCTCTC
* **
4799809 TTTTGTTTTGTTTTTATCATGTTTT
1 TTTTTTTTTGTTTTTAAAAT-TTTT
4799834 TTTTTTTTTGCTTTTTAAAATTTTT
1 TTTTTTTTTG-TTTTTAAAATTTTT
*
4799859 TCTTTTTTT
1 TTTTTTTTT
4799868 AAAATTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTTTTTTGTTTTTAAAATTTTT
Found at i:4799857 original size:18 final size:17
Alignment explanation
Indices: 4799836--4799879 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
4799826 CATGTTTTTT
4799836 TTTTTTTGCTTTTTAAAA
1 TTTTTTT-CTTTTTAAAA
*
4799854 TTTTTTCTTTTTTTAAAA
1 TTTTTT-TCTTTTTAAAA
4799872 TTTCTTTT
1 TTT-TTTT
4799880 TTCTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTTTCTTTTTAAAA
Found at i:4800684 original size:25 final size:25
Alignment explanation
Indices: 4800636--4800683 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4800626 ATTAAGTGAA
*
4800636 ACAAAAATATACAAAAATACAAAAT
1 ACAAAAAAATACAAAAATACAAAAT
*
4800661 ACAAAAAAATAGAAAAA-ACAAAA
1 ACAAAAAAATACAAAAATACAAAA
4800684 AAGAAGGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.10
Consensus pattern (25 bp):
ACAAAAAAATACAAAAATACAAAAT
Found at i:4800685 original size:17 final size:17
Alignment explanation
Indices: 4800648--4800685 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4800638 AAAAATATAC
*
4800648 AAAAATACAAAATACAA
1 AAAAATACAAAAAACAA
*
4800665 AAAAATAGAAAAAACAA
1 AAAAATACAAAAAACAA
4800682 AAAA
1 AAAA
4800686 GAAGGGGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (17 bp):
AAAAATACAAAAAACAA
Found at i:4801663 original size:37 final size:37
Alignment explanation
Indices: 4801622--4801705 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
4801612 TAAATCGAAA
* * *
4801622 CAGACCGAATTAGACCGTGCTGAATAA-TCAAATCACT
1 CAGACCGAACTAGACCGTGCTGAACAACT-AAATCACC
* *
4801659 CAGACCGAACTATACCGTGCTGAACCACTAAATCACC
1 CAGACCGAACTAGACCGTGCTGAACAACTAAATCACC
4801696 CAGACCGAAC
1 CAGACCGAAC
4801706 CAAACCACCG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 40 0.98
38 1 0.02
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (37 bp):
CAGACCGAACTAGACCGTGCTGAACAACTAAATCACC
Found at i:4811272 original size:42 final size:40
Alignment explanation
Indices: 4811208--4811655 Score: 570
Period size: 42 Copynumber: 11.0 Consensus size: 40
4811198 GTCAAGGAGT
*
4811208 ATTTACATTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4811249 ATTTACATTCCCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TT-TCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4811291 ATTTACATTCCCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TT-TCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
4811334 ATTTACTTT-CAAAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
4811373 ATTTACATTCCCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TT-TCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
4811415 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
4811456 ATTTACTTTTC-AAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
4811495 ATTTACATTTTC-AAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
4811535 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTAC-TTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
4811577 ATTTACTTT-CAAAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
4811616 ATTTACTTTCAAAAG-TCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTCCAAAGTTCGTT--GCCTCTGTTTAGAGGAGC
4811656 TTCGGCAAAA
Statistics
Matches: 369, Mismatches: 20, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
39 87 0.24
40 70 0.19
41 78 0.21
42 108 0.29
43 26 0.07
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (40 bp):
ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:4811623 original size:201 final size:204
Alignment explanation
Indices: 4811208--4811655 Score: 628
Period size: 201 Copynumber: 2.2 Consensus size: 204
4811198 GTCAAGGAGT
4811208 ATTTACATTTCCAAAGTCCGT-TGCCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTTCGTT
1 ATTTAC-TTTCCAAAGT-CGTGTGCCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTTCGTT
4811272 GCCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
64 GCCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATT
* * *
4811337 TACTTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTTCGTTGCCTCT
128 TACTTTCAAAGTCCGTTACCTCTGTTGAGAGGAGCAATTTACATT-CCCAAAGTCCGTTGCCTCT
4811402 GTTTAGAGGAGCA
192 GTTTAGAGGAGCA
**
4811415 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TT-TTC-AAGTTCGTTG
1 ATTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTTCGTTG
**
4811477 CCTCTGTTTAGAGGAGCAATTTACATT-TTC-AAGTCCGT-TGCCTCTGTTTAGAGGAGCAATTT
65 CCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGT-CGTGTGCCTCTGTTTAGAGGAGCAATTT
*
4811539 ACTTTTCCAAAGT-CGTGGTACCTCTGTTGAGAGGAGCAATTTAC-TT-TCAAAGTCCGTTGCCT
129 AC-TTT-CAAAGTCCGT--TACCTCTGTTGAGAGGAGCAATTTACATTCCCAAAGTCCGTTGCCT
4811601 CTGTTTAGAGGAGCA
190 CTGTTTAGAGGAGCA
* * *
4811616 ATTTACTTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTCCAAAGTCG-TGTGCCTCTGTTTAGAGGAGC
4811656 TTCGGCAAAA
Statistics
Matches: 222, Mismatches: 11, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
201 90 0.41
202 11 0.05
203 12 0.05
204 61 0.27
205 4 0.02
206 12 0.05
207 32 0.14
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (204 bp):
ATTTACTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTTCGTTGC
CTCTGTTTAGAGGAGCAATTTACATTCCCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTAC
TTTCAAAGTCCGTTACCTCTGTTGAGAGGAGCAATTTACATTCCCAAAGTCCGTTGCCTCTGTTT
AGAGGAGCA
Found at i:4811668 original size:1 final size:1
Alignment explanation
Indices: 4811662--4811810 Score: 118
Period size: 1 Copynumber: 149.0 Consensus size: 1
4811652 GAGCTTCGGC
* * * * * * *
4811662 AAAAAAAAAAAAAAAAAAAAAAAAAAGACAAAAAACAAAAAAGACAAAACAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** ** * * *
4811727 AAACAAAAAAACAAAAAAAATAAAAAAAAATCAAAAAAATCAAAAAATAAAAACAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** *
4811792 AAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAA
4811811 TGTTGAGTTG
Statistics
Matches: 111, Mismatches: 37, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 111 1.00
ACGTcount: A:0.87, C:0.07, G:0.01, T:0.05
Consensus pattern (1 bp):
A
Found at i:4811735 original size:50 final size:48
Alignment explanation
Indices: 4811661--4811811 Score: 164
Period size: 50 Copynumber: 3.0 Consensus size: 48
4811651 GGAGCTTCGG
* *
4811661 CAAAAAAAAAAAAAAAAAAAAAAAAAAGACAAAAAACAAAAAAGACAAAA-
1 CAAAAAAATAAAAAAAAAACAAAAAAA-ACAAAAAACAAAAAA-A-AAAAT
4811711 CAAAAAAATAAAAAAAAAAC-AAAAAAACAAAAAA-AATAAAAAAAAAT
1 CAAAAAAATAAAAAAAAAACAAAAAAAACAAAAAACAA-AAAAAAAAAT
*
4811758 CAAAAAAATCAAAAAATAAAAACAAAAATAAAAAAAAAATCAAAAAATAAAAAT
1 CAAAAAAAT--AAAAA-AAAAACAAAAA-AAACAAAAAA-CAAAAAA-AAAAAT
4811812 GTTGAGTTGA
Statistics
Matches: 88, Mismatches: 3, Indels: 16
0.82 0.03 0.15
Matches are distributed among these distances:
46 4 0.05
47 12 0.14
48 12 0.14
49 11 0.12
50 24 0.27
51 4 0.05
52 9 0.10
53 4 0.05
54 8 0.09
ACGTcount: A:0.85, C:0.07, G:0.01, T:0.06
Consensus pattern (48 bp):
CAAAAAAATAAAAAAAAAACAAAAAAAACAAAAAACAAAAAAAAAAAT
Found at i:4812835 original size:10 final size:9
Alignment explanation
Indices: 4812820--4812862 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
4812810 TCAGCCCCCC
4812820 TTTTTTGTA
1 TTTTTTGTA
4812829 TTTTTT-TA
1 TTTTTTGTA
*
4812837 TATTTTGTA
1 TTTTTTGTA
4812846 TTTTTT-TA
1 TTTTTTGTA
4812854 TATTTTTGT
1 T-TTTTTGT
4812863 TTAACTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 10 0.34
9 18 0.62
10 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (9 bp):
TTTTTTGTA
Found at i:4812844 original size:17 final size:17
Alignment explanation
Indices: 4812822--4812859 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
4812812 AGCCCCCCTT
4812822 TTTTGTATTTTTTTATA
1 TTTTGTATTTTTTTATA
4812839 TTTTGTATTTTTTTATA
1 TTTTGTATTTTTTTATA
4812856 TTTT
1 TTTT
4812860 TGTTTAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTGTATTTTTTTATA
Found at i:4812989 original size:28 final size:28
Alignment explanation
Indices: 4812958--4813023 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
4812948 AGGTGCAATC
4812958 GAATTGAAATTGGGCTTGAAGCCCAGTT
1 GAATTGAAATTGGGCTTGAAGCCCAGTT
4812986 GAATTGAAATTGGGCTTGAAGCCCAGTT
1 GAATTGAAATTGGGCTTGAAGCCCAGTT
4813014 GAATTGAAAT
1 GAATTGAAAT
4813024 CGGATCTCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (28 bp):
GAATTGAAATTGGGCTTGAAGCCCAGTT
Found at i:4813352 original size:97 final size:98
Alignment explanation
Indices: 4813242--4814393 Score: 838
Period size: 97 Copynumber: 11.8 Consensus size: 98
4813232 AATCTCACTT
* * * * *
4813242 GAGGCTCAACAACTTTAAAAATCTCATCTGGAAAAGCT-TTTTTAAGTAAAGGCTTAACAACTTT
1 GAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAACTTT
4813306 -AAAAT-TCATCTTGAAAAAATGCTCCTCTCAGCA
66 AAAAATCTCATCTTG-AAAAA-GCTCCTCTCAGCA
* * * *
4813339 GAGGCTCATCAACTTT-AAAATC-CATCTTG-CAAAGCTCCTC-TAAGTAAAAGCTCAACAACTT
1 GAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAACTT
* * *
4813400 TAAACATCTCATCTTGAAAAAGC-CCACCTCAACA
65 TAAAAATCTCATCTTGAAAAAGCTCC-TCTCAGCA
* * *
4813434 GAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAA-CAGAGGCTCAACAACTT
1 GAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAACTT
* * * *
4813498 TAAAAATCTCATC-TAAAAAAGCTCTTCTAAGTA
65 TAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
* *
4813531 GAGGCTCAACAACTTT-AAAATC-CATCTTGAAAAAAAGCTCCTCTT-CGCAGAGGCTCAACAAC
1 GAGGCTCAACAACTTTAAAAATCTCATC-TG--AAAAAGCTCCTCTTAAGCAAAGGCTCAACAAC
* *
4813593 TTTAAAAATCTCATC-TGAAAAAGCTCCTATCAACA
63 TTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
*
4813628 GAGGCTCAACAACTTTAAAAAAAAATC-CATCCTGAAAAAGCTCATCTT-AGCAAAGGCTCAACA
1 GAGGCTCAACAACTTT----AAAAATCTCAT-CTGAAAAAGCTCCTCTTAAGCAAAGGCTCAACA
* *
4813691 ACTTTAAAAATCTCATC-TGAAAAAGCTCATTTCAGCA
61 ACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * *
4813728 AAGGCTCAACAACTTTAAAAAAATTTCATCTTGAAAAAACTCCTCTCAA-CAGAGGCTCAACAAC
1 GAGGCTCAACAACTTT--AAAAATCTCATC-TGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAAC
* * *
4813792 TTTAAAAATCTCAT-TTGAAAAGGGCTCCTTTTCAGTAA
63 TTTAAAAATCTCATCTTGAAAA-AGCTCC-TCTCAG-CA
* * * * *
4813830 TAAGGCTCAACAACTTTAAAAATTTCATCTGGAAAAGCTCC-CTCTCAGCATAGGCTCAACAGAC
1 -GAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCT-TAAGCAAAGGCTCAACA-AC
* * *
4813894 TTTAAAAGTTTTATCTTG--AAAGCTCCTCTCAGCA
63 TTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * * * *
4813928 GGAGGCTTAACAACTTTAAAAATTTCATCTGAAAAAGCT-CTC-TCAGTAGAGG-TCAATAATTT
1 -GAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAACTT
* * * *
4813990 TAAAAAATTTCTTCATCTTG--AAAGCTCTTTTAAGTA
65 T-AAAAA--TC-TCATCTTGAAAAAGCTCCTCTCAGCA
* * * * * *
4814026 GAGGCTCAACAACTTT-AAAATC-CATCTAAAAAAAAGCT-CTTTGTCAG-TATGGCCTCCAATA
1 GAGGCTCAACAACTTTAAAAATCTCATCT--GAAAAAGCTCCTCT-TAAGCAAAGG-CT-CAACA
*
4814087 ACTTTAAAAATCT-ATCTTG-AAAAGCTCCTCTTAGCA
61 ACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
* * * ** * * * *
4814123 TAGGCTCAATAATTTTAAAAAAAT-TCATCTTGAAAAAGCTTTTC-TCAGTAGAGGCTCAATAAC
1 GAGGCTCAACAACTTT--AAAAATCTCATC-TGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAAC
* ** *
4814186 TTTAAAAATCTAATC-TGAAAAAATTCTTCTCAGCA
63 TTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * * * *
4814221 GAGGCTCAATAACTTTAAAAATCTCATTTGAAAAAGCTCCTC-TCAGTAGAGACTCAATAACTTT
1 GAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAACTTT
* * ** * *
4814285 AAAAATTTTATC-TGAAAAAGCTTATTTCAGTA
66 AAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * * * * * *
4814317 GAGACTTAATAACTTT-AAAATTTTATCTTGAAAAAGCT-CTTTTTAGTAGAGGCTCAACAACTT
1 GAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAACTT
4814380 TAAAAATC-CATCTT
65 TAAAAATCTCATCTT
4814394 TTCTTAAAAT
Statistics
Matches: 875, Mismatches: 123, Indels: 115
0.79 0.11 0.10
Matches are distributed among these distances:
94 6 0.01
95 87 0.10
96 162 0.19
97 207 0.24
98 141 0.16
99 73 0.08
100 112 0.13
101 42 0.05
102 25 0.03
103 20 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (98 bp):
GAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTTAAGCAAAGGCTCAACAACTTT
AAAAATCTCATCTTGAAAAAGCTCCTCTCAGCA
Found at i:4813355 original size:49 final size:48
Alignment explanation
Indices: 4813242--4814393 Score: 889
Period size: 48 Copynumber: 23.6 Consensus size: 48
4813232 AATCTCACTT
* ** * * *
4813242 GAGGCTCAACAACTTTAAAAATCTCATC-TGGAAAAGCTTTTTTAAGTA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCA
* *
4813290 AAGGCTTAACAACTTT-AAAATTCATCTTGAAAAAATGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTCATCTTG-AAAAA-GCTCCTCTCAGCA
* * * * *
4813339 GAGGCTCATCAACTTT-AAAATCCATCTTG-CAAAGCTCCTCTAAGTA
1 GAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * *
4813385 AAAGCTCAACAACTTTAAACATCTCATCTTGAAAAAGC-CCACCTCAACA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCC-TCTCAGCA
* *
4813434 GAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAACA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCA
* * * *
4813483 GAGGCTCAACAACTTTAAAAATCTCATC-TAAAAAAGCTCTTCTAAGTA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCA
*
4813531 GAGGCTCAACAACTTT-AAAATCCATCTTGAAAAAAAGCTCCTCTTC-GCA
1 GAGGCTCAACAACTTTAAAAATTCATCTTG--AAAAAGCTCCTC-TCAGCA
* *
4813580 GAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTATCAACA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCA
* * * *
4813628 GAGGCTCAACAACTTTAAAAAAAAATCCATCCTGAAAAAGCTCATCTTAGCA
1 GAGGCTCAACAACTTT----AAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
* * *
4813680 AAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCATTTCAGCA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCA
* * *
4813728 AAGGCTCAACAACTTTAAAAAAATTTCATCTTGAAAAAACTCCTCTCAACA
1 GAGGCTCAACAACTTT--AAAAA-TTCATCTTGAAAAAGCTCCTCTCAGCA
* * *
4813779 GAGGCTCAACAACTTTAAAAATCTCAT-TTGAAAAGGGCTCCTTTTCAGTAA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAA-AGCTCC-TCTCAG-CA
* *
4813830 TAAGGCTCAACAACTTTAAAAATTTCATC-TGGAAAAGCTCCCTCTCAGCA
1 -GAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAAAGCT-CCTCTCAGCA
* * *
4813880 TAGGCTCAACAGACTTTAAAAGTTTTATCTTG--AAAGCTCCTCTCAGCA
1 GAGGCTCAACA-ACTTTAAAA-ATTCATCTTGAAAAAGCTCCTCTCAGCA
* *
4813928 GGAGGCTTAACAACTTTAAAAATTTCATC-TGAAAAAGCT-CTCTCAGTA
1 -GAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * * *
4813976 GAGG-TCAATAATTTTAAAAAATTTCTTCATCTTG--AAAGCTCTTTTAAGTA
1 GAGGCTCAACAACTTT-AAAAA----TTCATCTTGAAAAAGCTCCTCTCAGCA
* ** * * *
4814026 GAGGCTCAACAACTTT-AAAATCCATCTAAAAAAAAGCTCTTTGTCAGTA
1 GAGGCTCAACAACTTTAAAAATTCATCT-TGAAAAAGCTC-CTCTCAGCA
* * *
4814075 TG-GCCTCCAATAACTTTAAAAA-TCTATCTTG-AAAAGCTCCTCTTAGCA
1 -GAGGCT-CAACAACTTTAAAAATTC-ATCTTGAAAAAGCTCCTCTCAGCA
* * * ** *
4814123 TAGGCTCAATAATTTTAAAAAAATTCATCTTGAAAAAGCTTTTCTCAGTA
1 GAGGCTCAACAACTTT--AAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
* * ** *
4814173 GAGGCTCAATAACTTTAAAAATCTAATC-TGAAAAAATTCTTCTCAGCA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCA
* *
4814221 GAGGCTCAATAACTTTAAAAATCTCAT-TTGAAAAAGCTCCTCTCAGTA
1 GAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCA
* * * ** * *
4814269 GAGACTCAATAACTTTAAAAATTTTATC-TGAAAAAGCTTATTTCAGTA
1 GAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * * * * * *
4814317 GAGACTTAATAACTTTAAAATTTTATCTTGAAAAAGCTCTTTTTAGTA
1 GAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
*
4814365 GAGGCTCAACAACTTTAAAAATCCATCTT
1 GAGGCTCAACAACTTTAAAAATTCATCTT
4814394 TTCTTAAAAT
Statistics
Matches: 906, Mismatches: 133, Indels: 130
0.78 0.11 0.11
Matches are distributed among these distances:
45 6 0.01
46 41 0.05
47 48 0.05
48 345 0.38
49 233 0.26
50 94 0.10
51 70 0.08
52 68 0.08
53 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (48 bp):
GAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
Found at i:4814793 original size:23 final size:24
Alignment explanation
Indices: 4814749--4814796 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
4814739 CAACAATGTC
*
4814749 TCATCATGCCTTTCTCATCTTTTT
1 TCATCATGCCTTTCTCAACTTTTT
* *
4814773 TCATC-TGTCTTTGTCAACTTTTT
1 TCATCATGCCTTTCTCAACTTTTT
4814796 T
1 T
4814797 TTTTTAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.12, C:0.25, G:0.06, T:0.56
Consensus pattern (24 bp):
TCATCATGCCTTTCTCAACTTTTT
Found at i:4826237 original size:13 final size:13
Alignment explanation
Indices: 4826215--4826248 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
4826205 TTTTTTAGAA
4826215 ATTTTA-TTAATT
1 ATTTTATTTAATT
4826227 ATTTTATTTAATT
1 ATTTTATTTAATT
4826240 ATTTTATTT
1 ATTTTATTT
4826249 TTAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTATTTAATT
Found at i:4826950 original size:37 final size:37
Alignment explanation
Indices: 4826909--4826992 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
4826899 TGGTGGTTCG
* * * * *
4826909 GTTCGGTCTGGGTGATTTAGTGGTTTAGCACA-GTCTA
1 GTTCGGTCTGAGTGATTCAGCGATTCAGCA-AGGTCTA
4826946 GTTCGGTCTGAGTGATTCAGCGATTCAGCAAGGTCTA
1 GTTCGGTCTGAGTGATTCAGCGATTCAGCAAGGTCTA
4826983 GTTCGGTCTG
1 GTTCGGTCTG
4826993 TTTCGGTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 1 0.02
37 40 0.98
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.35
Consensus pattern (37 bp):
GTTCGGTCTGAGTGATTCAGCGATTCAGCAAGGTCTA
Found at i:4827571 original size:16 final size:16
Alignment explanation
Indices: 4827550--4827591 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
4827540 GGGACTGAGT
4827550 TTTTGTGTTTTCTTTA
1 TTTTGTGTTTTCTTTA
4827566 TTTTGTGTTTTCTTTA
1 TTTTGTGTTTTCTTTA
4827582 TTTTGTGTTT
1 TTTTGTGTTT
4827592 ATTTCTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.05, C:0.05, G:0.14, T:0.76
Consensus pattern (16 bp):
TTTTGTGTTTTCTTTA
Found at i:4827897 original size:16 final size:16
Alignment explanation
Indices: 4827878--4827918 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
4827868 GGTAGGGCAT
4827878 GGTGGCCAGAGGGATG
1 GGTGGCCAGAGGGATG
** *
4827894 GGTGATCAGAGGGGTG
1 GGTGGCCAGAGGGATG
4827910 GGTGGCCAG
1 GGTGGCCAG
4827919 TGGTACTGTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.12, G:0.56, T:0.15
Consensus pattern (16 bp):
GGTGGCCAGAGGGATG
Found at i:4827970 original size:9 final size:9
Alignment explanation
Indices: 4827956--4828019 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
4827946 AAACCCCTTC
4827956 TTTTTTGTT
1 TTTTTTGTT
*
4827965 TTTTTTTTT
1 TTTTTTGTT
4827974 TTATTTTG-T
1 TT-TTTTGTT
* *
4827983 ATTTTTGTA
1 TTTTTTGTT
4827992 TTTTTTG-T
1 TTTTTTGTT
*
4828000 ATTTTTGTAT
1 TTTTTTGT-T
*
4828010 ATTTTTGTT
1 TTTTTTGTT
4828019 T
1 T
4828020 AACTTAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
8 11 0.26
9 19 0.44
10 13 0.30
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:4827997 original size:17 final size:18
Alignment explanation
Indices: 4827977--4828017 Score: 75
Period size: 17 Copynumber: 2.3 Consensus size: 18
4827967 TTTTTTTTTA
4827977 TTTTGTATTTTTGTAT-T
1 TTTTGTATTTTTGTATAT
4827994 TTTTGTATTTTTGTATAT
1 TTTTGTATTTTTGTATAT
4828012 TTTTGT
1 TTTTGT
4828018 TTAACTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (18 bp):
TTTTGTATTTTTGTATAT
Found at i:4828148 original size:28 final size:28
Alignment explanation
Indices: 4828117--4828184 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
4828107 TAGTCGAATT
*
4828117 GAAATCAGGTCTGAAGCCCATTTAAATA
1 GAAATCAGGTCTGAAGCCCAGTTAAATA
* * * * *
4828145 GAAATTAGGCCTGAAGCTCAGTTGAATT
1 GAAATCAGGTCTGAAGCCCAGTTAAATA
*
4828173 GAAATCGGGTCT
1 GAAATCAGGTCT
4828185 CGGCCCGATA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (28 bp):
GAAATCAGGTCTGAAGCCCAGTTAAATA
Found at i:4828797 original size:18 final size:20
Alignment explanation
Indices: 4828760--4828816 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 20
4828750 TGAATAAAAG
4828760 TAAAAAGAAAAAAGAAATTT
1 TAAAAAGAAAAAAGAAATTT
*
4828780 TAAAAA-AAGAAA-AAATTT
1 TAAAAAGAAAAAAGAAATTT
*
4828798 TAAAAAGCAAAAAAAAAAT
1 TAAAAAG-AAAAAAGAAAT
4828817 GATAAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 12 0.38
19 5 0.16
20 11 0.34
21 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
TAAAAAGAAAAAAGAAATTT
Done.