Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 18 of 131
Found at i:4506180 original size:31 final size:31
Alignment explanation
Indices: 4506122--4506180 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4506112 TCTATTTTGT
* *
4506122 ATTACAAATATTATTTTACTGATAAATTATA
1 ATTACAAATATTATTTTACTCAAAAATTATA
*
4506153 ATTA-AAATATTATTTTTATTCAAAAATT
1 ATTACAAATATTA-TTTTACTCAAAAATT
4506181 TTATTTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTACAAATATTATTTTACTCAAAAATTATA
Found at i:4506184 original size:19 final size:19
Alignment explanation
Indices: 4506156--4506201 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
4506146 AATTATAATT
4506156 AAAATATTATTTT-TATTCA
1 AAAATATTATTTTCTATT-A
*
4506175 AAAATTTTATTTTCTATTA
1 AAAATATTATTTTCTATTA
4506194 AAAATATT
1 AAAATATT
4506202 GAATATTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
AAAATATTATTTTCTATTA
Found at i:4506284 original size:15 final size:15
Alignment explanation
Indices: 4506266--4506325 Score: 70
Period size: 15 Copynumber: 4.0 Consensus size: 15
4506256 TAATTAAATA
4506266 AAAATATTTTTATTT
1 AAAATATTTTTATTT
4506281 AAAAATATATTTTA--T
1 -AAAATAT-TTTTATTT
* *
4506296 AAAATATTATAATTT
1 AAAATATTTTTATTT
4506311 AAAATATTTTTATTT
1 AAAATATTTTTATTT
4506326 TTATTATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.08
14 7 0.19
15 15 0.41
16 7 0.19
17 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAATATTTTTATTT
Found at i:4506287 original size:30 final size:30
Alignment explanation
Indices: 4506251--4506314 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
4506241 AAGAAGAAAA
* *
4506251 AAAAATA-ATTAAATAAAAATATTTTTATTT
1 AAAAATATATTAAAT-AAAATATTATAATTT
**
4506281 AAAAATATATTTTATAAAATATTATAATTT
1 AAAAATATATTAAATAAAATATTATAATTT
4506311 AAAA
1 AAAA
4506315 TATTTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAAATATATTAAATAAAATATTATAATTT
Found at i:4507221 original size:7 final size:7
Alignment explanation
Indices: 4507209--4507234 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4507199 GCCGATATTT
4507209 TTTTTTA
1 TTTTTTA
4507216 TTTTTTA
1 TTTTTTA
4507223 TTTTTTA
1 TTTTTTA
4507230 TTTTT
1 TTTTT
4507235 GTCCTCTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:4511684 original size:127 final size:126
Alignment explanation
Indices: 4511432--4511685 Score: 379
Period size: 127 Copynumber: 2.0 Consensus size: 126
4511422 AAATAAATTA
* *
4511432 TACTTAAAACAAAGGTAACTTATCAAAAAATCCCAAAGCAAAAGCTGGAAAACAATTATTTTCAG
1 TACTTAAAACAAAGGTAACTTATCAAAAAATCCCAAAGCAAAAGCTGGAAAACAACTATTTACAG
* *
4511497 GAGATAGATAAAGAGTGAGATAGATCAATTCTAACACAAACATTAGGTAACATGGTAGCCG
66 GAGATAGATAAAGAGTGAGATAGATCAATTCTAACACAAACATTAGGTAACAGGGCAGCCG
4511558 TACTTAAAACAAAGGTAACTTATCAAAAGAATCCCAGAAGCAAAAAG-TGGAAAACAACTATTTA
1 TACTTAAAACAAAGGTAACTTATCAAAA-AATCCCA-AAGC-AAAAGCTGGAAAACAACTATTTA
* * * *
4511622 CAGGAGATAGATAACAG-G-GAGGTAGATCAGTTCTAACACGAATATTAGGTAACAGGGCAGCCG
63 CAGGAGATAGATAA-AGAGTGAGATAGATCAATTCTAACACAAACATTAGGTAACAGGGCAGCCG
4511685 T
1 T
4511686 CAGCCATAAC
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
126 28 0.24
127 47 0.41
128 34 0.29
129 7 0.06
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (126 bp):
TACTTAAAACAAAGGTAACTTATCAAAAAATCCCAAAGCAAAAGCTGGAAAACAACTATTTACAG
GAGATAGATAAAGAGTGAGATAGATCAATTCTAACACAAACATTAGGTAACAGGGCAGCCG
Found at i:4514505 original size:11 final size:11
Alignment explanation
Indices: 4514489--4514513 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4514479 TCCATTCCAA
4514489 AAATTTTCATG
1 AAATTTTCATG
4514500 AAATTTTCATG
1 AAATTTTCATG
4514511 AAA
1 AAA
4514514 GATTATGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTTTCATG
Found at i:4516237 original size:13 final size:13
Alignment explanation
Indices: 4516219--4516248 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
4516209 GGGGATCTCG
4516219 ATTAAAAAAAATT
1 ATTAAAAAAAATT
4516232 ATT-AAAAAAATT
1 ATTAAAAAAAATT
4516244 ATTAA
1 ATTAA
4516249 TAAATGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTAAAAAAAATT
Found at i:4516601 original size:22 final size:23
Alignment explanation
Indices: 4516562--4516605 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4516552 AATATATTTT
4516562 ATAATAAATAAATAAAGAAAAAG
1 ATAATAAATAAATAAAGAAAAAG
* *
4516585 ATAA-AAATAATTCAAGAAAAA
1 ATAATAAATAAATAAAGAAAAA
4516606 TTTAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (23 bp):
ATAATAAATAAATAAAGAAAAAG
Found at i:4516809 original size:32 final size:32
Alignment explanation
Indices: 4516765--4516877 Score: 120
Period size: 32 Copynumber: 3.6 Consensus size: 32
4516755 GTTAAAATTA
4516765 TATATCATTTTAAAAAATTAAGTAAAAATTTT
1 TATATCATTTTAAAAAATTAAGTAAAAATTTT
* * * * *
4516797 TATATCAGTTTAAGAAATTAAATAAAAA-CTC
1 TATATCATTTTAAAAAATTAAGTAAAAATTTT
* * * *
4516828 TATATCATGTTAAAATATTATGTAACAATTTT
1 TATATCATTTTAAAAAATTAAGTAAAAATTTT
* *
4516860 TAGATCATTTTCAAAAAT
1 TATATCATTTTAAAAAAT
4516878 AGATTTTATT
Statistics
Matches: 62, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
31 22 0.35
32 40 0.65
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (32 bp):
TATATCATTTTAAAAAATTAAGTAAAAATTTT
Found at i:4516912 original size:28 final size:28
Alignment explanation
Indices: 4516880--4516933 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4516870 TCAAAAATAG
*
4516880 ATTTTATTAAT-ATATTAAAAATATAAAA
1 ATTTTA-TAATCATATAAAAAATATAAAA
*
4516908 ATTTTATATTCATATAAAAAATATAA
1 ATTTTATAATCATATAAAAAATATAA
4516934 TTTAAAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTTTATAATCATATAAAAAATATAAAA
Found at i:4517126 original size:21 final size:21
Alignment explanation
Indices: 4517083--4517126 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4517073 GAGTAAAAAT
* * *
4517083 AATATTTATAATAATTTTTAA
1 AATATATATAATAAATTTAAA
*
4517104 AATATATATATTAAATTTAAA
1 AATATATATAATAAATTTAAA
4517125 AA
1 AA
4517127 AACAGGAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATATATAATAAATTTAAA
Found at i:4518006 original size:27 final size:28
Alignment explanation
Indices: 4517948--4518006 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
4517938 TTAAATTATA
4517948 ATAAAAAATTTAATATGATATTTAAATT
1 ATAAAAAATTTAATATGATATTTAAATT
*
4517976 -TAAAAATTTTTAATATGATA-TT-AATT
1 ATAAAAA-ATTTAATATGATATTTAAATT
4518002 ATAAA
1 ATAAA
4518007 TTTATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.14
27 12 0.43
28 12 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (28 bp):
ATAAAAAATTTAATATGATATTTAAATT
Found at i:4524834 original size:19 final size:19
Alignment explanation
Indices: 4524805--4524850 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4524795 TTTTATTTGA
* *
4524805 TAAAATATTACTTTCATAAT
1 TAAATTATTAC-TTAATAAT
4524825 T-AATTATTACTTAATAAT
1 TAAATTATTACTTAATAAT
4524843 TAAATTAT
1 TAAATTAT
4524851 CATAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.35
19 14 0.61
20 1 0.04
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATTATTACTTAATAAT
Found at i:4524872 original size:22 final size:21
Alignment explanation
Indices: 4524837--4524882 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4524827 ATTATTACTT
*
4524837 AATAATTAAATTATCATAATTA
1 AATAATTAAATTAT-ATAAGTA
**
4524859 AATAATTATTTTATATAAGTA
1 AATAATTAAATTATATAAGTA
4524880 AAT
1 AAT
4524883 TATAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATAATTAAATTATATAAGTA
Found at i:4526111 original size:15 final size:15
Alignment explanation
Indices: 4526091--4526125 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4526081 TTTGTATTTT
* *
4526091 TTATAATTTTTATAA
1 TTATAATCTTTACAA
4526106 TTATAATCTTTACAA
1 TTATAATCTTTACAA
4526121 TTATA
1 TTATA
4526126 GTGAGGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAATCTTTACAA
Found at i:4535824 original size:12 final size:12
Alignment explanation
Indices: 4535807--4535832 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4535797 CTCCTTGTTG
4535807 GGGTGAGGGTTA
1 GGGTGAGGGTTA
4535819 GGGTGAGGGTTA
1 GGGTGAGGGTTA
4535831 GG
1 GG
4535833 CTAGTGAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.62, T:0.23
Consensus pattern (12 bp):
GGGTGAGGGTTA
Found at i:4536262 original size:29 final size:29
Alignment explanation
Indices: 4536230--4536315 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 29
4536220 TCGTTTAAAA
4536230 ATTATTTATTTAAATTTATTTATTTATTT
1 ATTATTTATTTAAATTTATTTATTTATTT
* *
4536259 ATTA-TT-TTT-AATTT-TATAATTA--T
1 ATTATTTATTTAAATTTATTTATTTATTT
4536282 A-TATTTATTTAAATTTATTTGATTATAATTT
1 ATTATTTATTTAAATTTATTT-ATT-T-ATTT
4536313 ATT
1 ATT
4536316 TATTCGTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 17
0.67 0.06 0.27
Matches are distributed among these distances:
22 2 0.05
23 4 0.09
24 3 0.07
25 11 0.26
26 7 0.16
27 5 0.12
28 3 0.07
29 5 0.12
31 2 0.05
32 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (29 bp):
ATTATTTATTTAAATTTATTTATTTATTT
Found at i:4536337 original size:4 final size:4
Alignment explanation
Indices: 4536231--4536319 Score: 58
Period size: 4 Copynumber: 21.2 Consensus size: 4
4536221 CGTTTAAAAA
* * *
4536231 TTAT TTAT TTAAAT TTAT TTAT TTAT TTA- TTAT TT-T TAAT TT-T ATAA
1 TTAT TTAT TT--AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
4536278 TTAT ATAT TTAT TTAAAT TTAT TTGAT TATAAT TTAT TTAT T
1 TTAT TTAT TTAT TT--AT TTAT TT-AT T-T-AT TTAT TTAT T
4536320 CGTAAACATA
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
3 7 0.10
4 44 0.66
5 4 0.06
6 12 0.18
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:4560018 original size:59 final size:59
Alignment explanation
Indices: 4559876--4560127 Score: 259
Period size: 59 Copynumber: 4.3 Consensus size: 59
4559866 GCATTTTAAG
* * * * * **
4559876 TTTTTATTTTCAAAAAAAATTAATACTTTCAATTTTTCCTT---AAATTTTTTTTTCAAA
1 TTTTTATTTTCAAGAGAAATTGATACTTTCAA-CTTTCCTTCAAAAATATTTTTTAAAAA
* * * *
4559933 -TTTGATTTTTAAG-GAAAATTGGTACTTTCAACTTTTCCTT-AAAAATATTTTTTGAAAA
1 TTTTTATTTTCAAGAG-AAATTGATACTTTCAAC-TTTCCTTCAAAAATATTTTTTAAAAA
4559991 TTTTTATTTTCAAGAGAAATTGATACTTTCAACTTT-CTATCAAAAAATATTTTTTAAAAAA
1 TTTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCCT-TC-AAAAATATTTTTT-AAAAA
* *
4560052 TTTTTATGTTCAAAAGAAATTGATACATTT-AACTTTCCTTCAAAAATATTTTTTAAAAA
1 TTTTTATTTTCAAGAGAAATTGATAC-TTTCAACTTTCCTTCAAAAATATTTTTTAAAAA
*
4560111 TTTTTATTTTAAAGAGA
1 TTTTTATTTTCAAGAGA
4560128 TCATTGAAAA
Statistics
Matches: 164, Mismatches: 19, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
56 31 0.19
57 2 0.01
58 17 0.10
59 46 0.28
60 27 0.16
61 36 0.22
62 5 0.03
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.48
Consensus pattern (59 bp):
TTTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAAA
Found at i:4560071 original size:61 final size:59
Alignment explanation
Indices: 4559948--4560117 Score: 238
Period size: 61 Copynumber: 2.8 Consensus size: 59
4559938 TTTTTAAGGA
* * * *
4559948 AAATTGGTACTTTCAACTTTTCCTT-AAAAATATTTTTTGAAAATTTTTATTTTCAAGAG
1 AAATTGATACTTTCAAC-TTTCCTTCAAAAATATTTTTTAAAAATTTTTATGTTCAAAAG
4560007 AAATTGATACTTTCAACTTT-CTATCAAAAAATATTTTTTAAAAAATTTTTATGTTCAAAAG
1 AAATTGATACTTTCAACTTTCCT-TC-AAAAATATTTTTT-AAAAATTTTTATGTTCAAAAG
4560068 AAATTGATACATTT-AACTTTCCTTCAAAAATATTTTTTAAAAATTTTTAT
1 AAATTGATAC-TTTCAACTTTCCTTCAAAAATATTTTTTAAAAATTTTTAT
4560118 TTTAAAGAGA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
57 2 0.02
58 4 0.04
59 28 0.28
60 26 0.26
61 36 0.36
62 5 0.05
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (59 bp):
AAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAAATTTTTATGTTCAAAAG
Found at i:4562831 original size:84 final size:84
Alignment explanation
Indices: 4562702--4563179 Score: 448
Period size: 84 Copynumber: 5.6 Consensus size: 84
4562692 ACAACTTAGA
* * * *
4562702 AAAATAAAAGGCTCTTCTAAATAGAGGCTCAACGACTTTTG-AAAATAAA-ATGAAGCTCCTTTA
1 AAAATAAAAGGCTCCTCTAAATAGAGGCACAACAAC-TTTGAAAAATAAACA--AAGCTCCTCTA
* *
4562765 ATCAGAGGCTCAACGACTTTTG
63 AACAGAGGCTCAACAACTTTTG
*
4562787 AAAATAAAA-GCTCCTCTAAATAAAGGCACAACAACTTTGAAAAATAAA-ATGAAGCTCCTCTAA
1 AAAATAAAAGGCTCCTCTAAATAGAGGCACAACAACTTTGAAAAATAAACA--AAGCTCCTCTAA
** * * *
4562850 TTAAAGGCTTAACGACTTTTG
64 ACAGAGGCTCAACAACTTTTG
* ** * * *
4562871 AACATAAAATACTCCTTTAAACAGAGGCACAACAACTTTGAAAAATAAACAAAGCTCCTTTAAAC
1 AAAATAAAAGGCTCCTCTAAATAGAGGCACAACAACTTTGAAAAATAAACAAAGCTCCTCTAAAC
* * **
4562936 AGAGACTCAATAACTTTAA
66 AGAGGCTCAACAACTTTTG
* * * *
4562955 AAAATAAAAGGCTCATCTAAACAGAGGCACAACGACTTTAGAAAAATAAACAAAACTCCTCTAAA
1 AAAATAAAAGGCTCCTCTAAATAGAGGCACAACAACTTT-GAAAAATAAACAAAGCTCCTCTAAA
*
4563020 CAGAAGCTCAACAAC-TTTG
65 CAGAGGCTCAACAACTTTTG
* * * * *
4563039 AAAAATAAAAAAAGCTTCTATAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTCCTCT
1 -AAAAT--AAAAGGCTCCTCTAAATAGAGGCACAACAACTTTG-AAAAATAAACAAAGCTCCTCT
*
4563104 AAACAGAGGCTCAATAAC-TTTG
62 AAACAGAGGCTCAACAACTTTTG
* *
4563126 AAAAATAAAAAAAAGCTCCTCTAAATAGAGGCA-ACAGAACTTTGAGAAAATAAA
1 -AAAAT---AAAAGGCTCCTCTAAATAGAGGCACA-ACAACTTTGA-AAAATAAA
4563180 TGGCTCCTCT
Statistics
Matches: 332, Mismatches: 50, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
83 4 0.01
84 128 0.39
85 84 0.25
86 2 0.01
87 76 0.23
88 38 0.11
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (84 bp):
AAAATAAAAGGCTCCTCTAAATAGAGGCACAACAACTTTGAAAAATAAACAAAGCTCCTCTAAAC
AGAGGCTCAACAACTTTTG
Found at i:4562951 original size:43 final size:43
Alignment explanation
Indices: 4562677--4563179 Score: 408
Period size: 44 Copynumber: 11.8 Consensus size: 43
4562667 AAAGGCTTCC
* * * * * *
4562677 CTAAGCAGAGGTTTAACAACTTAGAAAAAT-AA-AAGGCTCTT
1 CTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTCCT
* *
4562718 CTAAATAGAGGCTCAACGACTTTTG-AAAATAAA-ATGAAGCTCCT
1 CTAAACAGAGGCTCAACAAC-TTTGAAAAATAAACA--AAGCTCCT
* * *
4562762 TTAATCAGAGGCTCAACGACTTTTG-AAAAT--A-AAAGCTCCT
1 CTAAACAGAGGCTCAACAAC-TTTGAAAAATAAACAAAGCTCCT
* * *
4562802 CTAAATAAAGGCACAACAACTTTGAAAAATAAA-ATGAAGCTCCT
1 CTAAACAGAGGCTCAACAACTTTGAAAAATAAACA--AAGCTCCT
** * * * * *
4562846 CTAATTAAAGGCTTAACGACTTTTG-AACATAAA-ATA-CTCCT
1 CTAAACAGAGGCTCAACAAC-TTTGAAAAATAAACAAAGCTCCT
* *
4562887 TTAAACAGAGGCACAACAACTTTGAAAAATAAACAAAGCTCCT
1 CTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTCCT
* * * * * *
4562930 TTAAACAGAGACTCAATAACTTTAAAAAAT-AA-AAGGCTCAT
1 CTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTCCT
* * *
4562971 CTAAACAGAGGCACAACGACTTTAGAAAAATAAACAAAACTCCT
1 CTAAACAGAGGCTCAACAACTTT-GAAAAATAAACAAAGCTCCT
* * *
4563015 CTAAACAGAAGCTCAACAACTTTGAAAAATAAAAAAAGCTTCT
1 CTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTCCT
* * *
4563058 ATAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTCCT
1 CTAAACAGAGGCTCAACAACTTTG-AAAAATAAACAAAGCTCCT
* *
4563102 CTAAACAGAGGCTCAATAACTTTGAAAAATAAAAAAAAGCTCCT
1 CTAAACAGAGGCTCAACAACTTTGAAAAAT-AAACAAAGCTCCT
*
4563146 CTAAATAGAGG--CAACAGAACTTTGAGAAAATAAA
1 CTAAACAGAGGCTCAAC--AACTTTGA-AAAATAAA
4563180 TGGCTCCTCT
Statistics
Matches: 375, Mismatches: 66, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
39 4 0.01
40 31 0.08
41 70 0.19
42 24 0.06
43 76 0.20
44 161 0.43
45 9 0.02
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (43 bp):
CTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTCCT
Found at i:4562951 original size:128 final size:124
Alignment explanation
Indices: 4562691--4563135 Score: 448
Period size: 128 Copynumber: 3.5 Consensus size: 124
4562681 GCAGAGGTTT
* *
4562691 AACAACTTAGAAAAATAAAAGGCTCTTCTAAATAGAGGCTCAACGACTTTTGAAAATAAAATGAA
1 AACAACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAATAAAAT--A
* * * * *
4562756 GCTCCTTTAATCAGAGGCTCAACGACTTTTG-AAAAT--AAAAGCTCCTCTAAATAAAGGCAC
64 -CTCCTTTAAACAGAGGCTCAACAAC-TTTGAAAAATAAAAAAGCTCCTATAAATAGAGGCTC
* * * *
4562816 AACAACTTTGAAAAATAAAATGAAGCTCCTCTAATTAAAGGCTTAACGACTTTTGAACATAAAAT
1 AACAACTTTGAAAAATAAAA-G--GCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAATAAAAT
* * * *
4562881 ACTCCTTTAAACAGAGGCACAACAACTTTGAAAAATAAACAAAGCTCCTTTAAACAGAGACTC
63 ACTCCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAA-AAAGCTCCTATAAATAGAGGCTC
* * * * * * *
4562944 AATAACTTTAAAAAATAAAAGGCTCATCTAAACAGAGGCACAACGACTTTAGAAAAATAAACAAA
1 AACAACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCTCAACGACTTTTG-AAAAT-AA-AAT
* * *
4563009 ACTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAAAAAAGCTTCTATAAATAGAGGCTC
63 ACTCCTTTAAACAGAGGCTCAACAACTTTGAAAAAT-AAAAAAGCTCCTATAAATAGAGGCTC
* * * **
4563072 AACGACTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATAAC-TTTGAAAAATAAAA
1 AACAACTTTG-AAAAAT-AA-AAGGCTCCTCTAAATAGAGGCTCAACGACTTTTG-AAAATAAAA
4563136 AAAAGCTCCT
Statistics
Matches: 265, Mismatches: 41, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
124 4 0.02
125 70 0.26
126 6 0.02
127 4 0.02
128 135 0.51
129 11 0.04
130 11 0.04
131 24 0.09
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (124 bp):
AACAACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAATAAAATACT
CCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAAAAAGCTCCTATAAATAGAGGCTC
Found at i:4563189 original size:42 final size:42
Alignment explanation
Indices: 4563096--4563223 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
4563086 AATAAACAAA
* * * * **
4563096 GCTCCTCTAAACAGAGGC-TCAATAACTTTGAAAAATAAAAAAAA
1 GCTCCTCTAAATAGAGGCAAC-AGAACTTT-AAAAA-AATAAATG
* *
4563140 GCTCCTCTAAATAGAGGCAACAGAACTTTGAGAAAATAAATG
1 GCTCCTCTAAATAGAGGCAACAGAACTTTAAAAAAATAAATG
*
4563182 GCTCCTCTAAATAGAGGTAACAGAACTTTAAAAAAATAAATG
1 GCTCCTCTAAATAGAGGCAACAGAACTTTAAAAAAATAAATG
4563224 AGGCTTATTG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
42 44 0.61
43 3 0.04
44 24 0.33
45 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (42 bp):
GCTCCTCTAAATAGAGGCAACAGAACTTTAAAAAAATAAATG
Found at i:4563217 original size:131 final size:129
Alignment explanation
Indices: 4562701--4563221 Score: 365
Period size: 128 Copynumber: 4.1 Consensus size: 129
4562691 AACAACTTAG
* * * * * * * * *
4562701 AAAAAT-AAAAGGCTCTTCTAAATAGAGGCTCAACGACTTTTG-AAAATAAAATGAAGCTCCTTT
1 AAAAATAAAAAAGCTCATCTAAACAGAGGCACAACAACTTTAGAAAAATAAAA-AAAACTCCTCT
* * * * * * * *
4562764 AATCAGAGGCTCAACGACTTTTG-AAAAT--AAAAGCTCCTCTAAATAAAGGCACAACAACTTT-
65 AAACAGAAGCGCAACAAC-TTTGAAAAATAAAAAAGCTCCTATAAATAGAGGCTCAACGACTTTA
*
4562825 G
129 A
* ** * ** * * * * *
4562826 AAAAATAAAATGAAGCTCCTCTAATTAAAGGCTTAACGACTTTTG-AACAT--AAAATACTCCTT
1 AAAAATAAAA--AAGCTCATCTAAACAGAGGCACAACAACTTTAGAAAAATAAAAAAAACTCCTC
* * * * * **
4562888 TAAACAGAGGCACAACAACTTTGAAAAATAAACAAAGCTCCTTTAAACAGAGACTCAATAACTTT
64 TAAACAGAAGCGCAACAACTTTGAAAAATAAA-AAAGCTCCTATAAATAGAGGCTCAACGACTTT
4562953 -A
128 AA
* * *
4562954 AAAAAT-AAAAGGCTCATCTAAACAGAGGCACAACGACTTTAGAAAAATAAACAAAACTCCTCTA
1 AAAAATAAAAAAGCTCATCTAAACAGAGGCACAACAACTTTAGAAAAATAAAAAAAACTCCTCTA
* * *
4563018 AACAGAAGCTCAACAACTTTGAAAAATAAAAAAAGCTTCTATAAATAGAGGCTCAACGACTTTGA
66 AACAGAAGCGCAACAACTTTGAAAAAT-AAAAAAGCTCCTATAAATAGAGGCTCAACGACTTTAA
* * *
4563083 AAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATAACTTT-GAAAAATAAAAAAAAGCTCCTC
1 AAAAATAAA-AAAGCTCATCTAAACAGAGGCACAACAACTTTAGAAAAATAAAAAAAA-CTCCTC
* ** *
4563147 TAAATAG-AG-GCAACAGAACTTTGAGAAAAT-AAATGGCTCCTCTAAATAGAGG-T-AACAGAA
64 TAAACAGAAGCGCAAC--AACTTTGA-AAAATAAAAAAGCTCCTATAAATAGAGGCTCAAC-G-A
4563207 CTTTAA
124 CTTTAA
4563213 AAAAATAAA
1 AAAAATAAA
4563222 TGAGGCTTAT
Statistics
Matches: 324, Mismatches: 52, Indels: 35
0.79 0.13 0.09
Matches are distributed among these distances:
124 4 0.01
125 59 0.18
126 9 0.03
127 4 0.01
128 129 0.40
129 16 0.05
130 51 0.16
131 47 0.15
132 5 0.02
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (129 bp):
AAAAATAAAAAAGCTCATCTAAACAGAGGCACAACAACTTTAGAAAAATAAAAAAAACTCCTCTA
AACAGAAGCGCAACAACTTTGAAAAATAAAAAAGCTCCTATAAATAGAGGCTCAACGACTTTAA
Found at i:4563518 original size:16 final size:16
Alignment explanation
Indices: 4563493--4563524 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4563483 GTTAAAAAAA
4563493 AAAATGCAATGCATGC
1 AAAATGCAATGCATGC
*
4563509 AAAATTCAATGCATGC
1 AAAATGCAATGCATGC
4563525 TATGCAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.22
Consensus pattern (16 bp):
AAAATGCAATGCATGC
Found at i:4564272 original size:8 final size:8
Alignment explanation
Indices: 4564259--4564315 Score: 71
Period size: 8 Copynumber: 7.0 Consensus size: 8
4564249 CCTTGAATCT
4564259 TTTTTTTA
1 TTTTTTTA
4564267 TTTTTTTA
1 TTTTTTTA
4564275 TTTTTTTTA
1 -TTTTTTTA
*
4564284 TTTTTTCA
1 TTTTTTTA
*
4564292 -TTTTTCA
1 TTTTTTTA
4564299 TTTTTTTTA
1 -TTTTTTTA
4564308 TTTTTTTA
1 TTTTTTTA
4564316 AGCATAGTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
7 7 0.16
8 23 0.52
9 14 0.32
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:4564272 original size:9 final size:9
Alignment explanation
Indices: 4564258--4564314 Score: 68
Period size: 9 Copynumber: 6.8 Consensus size: 9
4564248 GCCTTGAATC
4564258 TTTTTTTTA
1 TTTTTTTTA
4564267 -TTTTTTTA
1 TTTTTTTTA
4564275 TTTTTTTTA
1 TTTTTTTTA
*
4564284 -TTTTTTCA
1 TTTTTTTTA
*
4564292 --TTTTTCA
1 TTTTTTTTA
4564299 TTTTTTTTA
1 TTTTTTTTA
4564308 TTTTTTT
1 TTTTTTT
4564315 AAGCATAGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 7 0.16
8 15 0.35
9 21 0.49
ACGTcount: A:0.11, C:0.04, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:4564278 original size:17 final size:17
Alignment explanation
Indices: 4564258--4564314 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
4564248 GCCTTGAATC
4564258 TTTTTTTTATTTTTTTA
1 TTTTTTTTATTTTTTTA
*
4564275 TTTTTTTTATTTTTTCA
1 TTTTTTTTATTTTTTTA
**
4564292 TTTTTCAT-TTTTTTTA
1 TTTTTTTTATTTTTTTA
4564308 TTTTTTT
1 TTTTTTT
4564315 AAGCATAGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 12 0.35
17 22 0.65
ACGTcount: A:0.11, C:0.04, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTA
Found at i:4564287 original size:24 final size:24
Alignment explanation
Indices: 4564259--4564313 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
4564249 CCTTGAATCT
* *
4564259 TTTTTTTATTTTTTTATTTTTTTTA
1 TTTTTTCA-TTTTTCATTTTTTTTA
4564284 TTTTTTCATTTTTCATTTTTTTTA
1 TTTTTTCATTTTTCATTTTTTTTA
4564308 TTTTTT
1 TTTTTT
4564314 TAAGCATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.11, C:0.04, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTTTTCATTTTTCATTTTTTTTA
Found at i:4574778 original size:20 final size:19
Alignment explanation
Indices: 4574748--4574803 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
4574738 TGCTTTTTTT
4574748 GAAAA-TTTTATTTTCAAG
1 GAAAATTTTTATTTTCAAG
4574766 GAAAAATTTTTATTTTCAAG
1 G-AAAATTTTTATTTTCAAG
* *
4574786 GAAAATTTATACTTTCAA
1 GAAAATTTTTATTTTCAA
4574804 CTTTCCTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 1 0.03
19 19 0.56
20 14 0.41
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (19 bp):
GAAAATTTTTATTTTCAAG
Found at i:4579251 original size:16 final size:16
Alignment explanation
Indices: 4579230--4579260 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4579220 TATTATTTTT
4579230 TAAATAAAAAATTAAG
1 TAAATAAAAAATTAAG
*
4579246 TAAATATAAAATTAA
1 TAAATAAAAAATTAA
4579261 ATAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAATAAAAAATTAAG
Found at i:4579280 original size:28 final size:28
Alignment explanation
Indices: 4579229--4579285 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
4579219 ATATTATTTT
* *
4579229 TTAAATAAAAAATTAAGTAAATATAAAA
1 TTAAATAAAAAATAAAATAAATATAAAA
* * *
4579257 TTAAATAATAAATAAAATATATATCAAA
1 TTAAATAAAAAATAAAATAAATATAAAA
4579285 T
1 T
4579286 CGGGTCCGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
TTAAATAAAAAATAAAATAAATATAAAA
Found at i:4593061 original size:19 final size:20
Alignment explanation
Indices: 4593039--4593091 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
4593029 TATTATCTAC
4593039 ATTAAAATTTATTA-TTTTA
1 ATTAAAATTTATTATTTTTA
*
4593058 ATTATCAA-TTATTATTTTTA
1 ATTA-AAATTTATTATTTTTA
4593078 ATATAAAATATTAT
1 AT-TAAAAT-TTAT
4593092 AATAAATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 10 0.37
20 11 0.41
21 2 0.07
22 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAAAATTTATTATTTTTA
Found at i:4593090 original size:22 final size:20
Alignment explanation
Indices: 4593039--4593091 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
4593029 TATTATCTAC
4593039 ATTAAAAT-TTATTATTTTA
1 ATTAAAATATTATTATTTTA
**
4593058 ATTATCA-ATTATTATTTTTA
1 ATTAAAATATTATTA-TTTTA
4593078 ATATAAAATATTAT
1 AT-TAAAATATTAT
4593092 AATAAATAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 11 0.42
20 7 0.27
21 3 0.12
22 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAAAATATTATTATTTTA
Found at i:4597347 original size:3 final size:3
Alignment explanation
Indices: 4597339--4597380 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
4597329 CTAACTCTTG
*
4597339 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT TAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
4597381 GATGGGGTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (3 bp):
CAT
Found at i:4599941 original size:13 final size:14
Alignment explanation
Indices: 4599918--4599947 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4599908 TATCATAAAC
4599918 TTAGCTAAATTAAT
1 TTAGCTAAATTAAT
4599932 TTAG-TAAATTAAT
1 TTAGCTAAATTAAT
4599945 TTA
1 TTA
4599948 TTCAACCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (14 bp):
TTAGCTAAATTAAT
Found at i:4612213 original size:24 final size:24
Alignment explanation
Indices: 4612158--4612248 Score: 107
Period size: 24 Copynumber: 3.8 Consensus size: 24
4612148 TTGTATTTAA
** *
4612158 ATAATAATTTTAATAATATTTAA-T
1 ATAATAATTTTTTTAAT-TATAATT
4612182 ATAA-AATTTTTTTAATTATAATT
1 ATAATAATTTTTTTAATTATAATT
*
4612205 ATAATAATTTTTTTAATCATAATT
1 ATAATAATTTTTTTAATTATAATT
4612229 ATAATAATTTTTATT-ATTAT
1 ATAATAATTTTT-TTAATTAT
4612249 TTTTAATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
22 4 0.07
23 15 0.25
24 38 0.64
25 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
ATAATAATTTTTTTAATTATAATT
Found at i:4612242 original size:12 final size:12
Alignment explanation
Indices: 4612158--4612253 Score: 61
Period size: 12 Copynumber: 8.1 Consensus size: 12
4612148 TTGTATTTAA
*
4612158 ATAATAATTTTA
1 ATAATAATTTTT
*
4612170 ATAAT-ATTTAAT
1 ATAATAATTT-TT
4612182 ATAA-AATTTTT
1 ATAATAATTTTT
* * **
4612193 TTAATTATAATT
1 ATAATAATTTTT
4612205 ATAATAATTTTT
1 ATAATAATTTTT
* * **
4612217 TTAATCATAATT
1 ATAATAATTTTT
4612229 ATAATAATTTTT
1 ATAATAATTTTT
* *
4612241 ATTATTATTTTT
1 ATAATAATTTTT
4612253 A
1 A
4612254 ATTTTATTAT
Statistics
Matches: 60, Mismatches: 21, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
11 8 0.13
12 52 0.87
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAATAATTTTT
Found at i:4612448 original size:23 final size:23
Alignment explanation
Indices: 4612412--4612474 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 23
4612402 TTTTTTATTA
*
4612412 AATTATTTTCAATTATAATTATAAT
1 AATT-TTTT-AATTATAATTACAAT
*
4612437 AATTTTTTAATTACAATTACAAT
1 AATTTTTTAATTATAATTACAAT
4612460 AACTTTTATT-ATTAT
1 AA-TTTT-TTAATTAT
4612475 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 15 0.45
24 12 0.36
25 6 0.18
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTTTAATTATAATTACAAT
Found at i:4613598 original size:28 final size:28
Alignment explanation
Indices: 4613540--4613621 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
4613530 ATAACTTTTA
* *
4613540 AAATATCATATTAATTAATTAATTCATAATTT
1 AAATATCATATTAA-AAATT--TT-AAAATTT
4613572 AAATATCATATTAAAAATTTTAAAATTT
1 AAATATCATATTAAAAATTTTAAAATTT
* *
4613600 AGATATCATATTAAATATTTTA
1 AAATATCATATTAAAAATTTTA
4613622 TTATTGTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 26 0.57
29 2 0.04
31 4 0.09
32 14 0.30
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (28 bp):
AAATATCATATTAAAAATTTTAAAATTT
Found at i:4613747 original size:14 final size:14
Alignment explanation
Indices: 4613724--4613753 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4613714 TTAGATTTTA
4613724 AATTTATTAAATAT
1 AATTTATTAAATAT
*
4613738 AATTTCTTAAATAT
1 AATTTATTAAATAT
4613752 AA
1 AA
4613754 ACAGATTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTATTAAATAT
Found at i:4615334 original size:78 final size:80
Alignment explanation
Indices: 4615208--4615365 Score: 248
Period size: 78 Copynumber: 2.0 Consensus size: 80
4615198 AAAACACTAC
* *
4615208 AAATTTTTAAAATCGATATTTTTAAAAAAATATTAATTGATATTTTTAAAATCGATATCTATACA
1 AAATTTTTAAAATC-ATATTTTT-AAAAAATATTAATTGATATATTTAAAATCAATATCTATACA
4615273 ATAGAATAAAATTGTAA
64 ATAGAATAAAATTGTAA
* *
4615290 AAATTTTTAAAATC-TATTTTT-TAAAATATTAATTGATATATTTAAAATCAATATCTATATAAT
1 AAATTTTTAAAATCATATTTTTAAAAAATATTAATTGATATATTTAAAATCAATATCTATACAAT
4615353 AGAATAAAATTGT
66 AGAATAAAATTGT
4615366 TGTAGACGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
78 51 0.71
80 7 0.10
82 14 0.19
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (80 bp):
AAATTTTTAAAATCATATTTTTAAAAAATATTAATTGATATATTTAAAATCAATATCTATACAAT
AGAATAAAATTGTAA
Found at i:4615934 original size:144 final size:144
Alignment explanation
Indices: 4615670--4615934 Score: 340
Period size: 144 Copynumber: 1.8 Consensus size: 144
4615660 AGAAAGTGCA
* * * * *
4615670 AAATTACTAAAATATCTTTTATGGGGTATTTTCGTAATTTGATCTTCTCGAGCTCGGATTCTAGT
1 AAATTACTAAAATACCTTATATAGGGTATTTTAGTAATTTGATCTTCTCAAGCTCGGATTCTAGT
* *
4615735 GAAACTTTTCAAATCTTAATTTCATAATATTTAATGATTTTTGTGCATTTGAAATCATAACAGTA
66 GAAACTTTTCAAATCTCAATTTCATAATATTTAATGATTTTTGTGCATTTAAAATCATAACAGTA
4615800 CTACGAAAAATGTG
131 CTACGAAAAATGTG
* * *
4615814 AAATTACTAAAATACCCTTATA-AGGGTATTTTAGTAATTT-AGTTTTTTCAAGCTCGGATTTTC
1 AAATTACTAAAATA-CCTTATATAGGGTATTTTAGTAATTTGA-TCTTCTCAAGCTCGGATTCT-
* * * *
4615877 A-TGAAACTTTTTATATCTCGATTTCATAATATTTCATGATTTTTTGTGC-TTTAAAATC
63 AGTGAAACTTTTCAAATCTCAATTTCATAATATTTAATGA-TTTTTGTGCATTTAAAATC
4615935 TAAAAAATGA
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
143 1 0.01
144 87 0.84
145 15 0.15
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (144 bp):
AAATTACTAAAATACCTTATATAGGGTATTTTAGTAATTTGATCTTCTCAAGCTCGGATTCTAGT
GAAACTTTTCAAATCTCAATTTCATAATATTTAATGATTTTTGTGCATTTAAAATCATAACAGTA
CTACGAAAAATGTG
Found at i:4617258 original size:13 final size:13
Alignment explanation
Indices: 4617215--4617265 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
4617205 GAAATTATTA
4617215 AATAATAA-AAAT
1 AATAATAATAAAT
*
4617227 AA-AATAATAACT
1 AATAATAATAAAT
*
4617239 AAATAATATTAAAT
1 -AATAATAATAAAT
4617253 AATAATAATAAAT
1 AATAATAATAAAT
4617266 TTTAATGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 5 0.16
12 5 0.16
13 14 0.44
14 8 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:4620783 original size:2 final size:2
Alignment explanation
Indices: 4620776--4620800 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4620766 CAGATAAGTT
4620776 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4620801 CCATTATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4625589 original size:17 final size:17
Alignment explanation
Indices: 4625567--4625599 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4625557 AAATAAATAT
4625567 TTAAAAACTCAATTTGA
1 TTAAAAACTCAATTTGA
*
4625584 TTAAAAATTCAATTTG
1 TTAAAAACTCAATTTG
4625600 TTACAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (17 bp):
TTAAAAACTCAATTTGA
Found at i:4627946 original size:20 final size:19
Alignment explanation
Indices: 4627921--4627975 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
4627911 CGATTCGAAA
4627921 TTAATAAAATATTATTTTTT
1 TTAATAAAATATTA-TTTTT
4627941 TTAATATAAAATATTATTTTT
1 TT-A-ATAAAATATTATTTTT
*
4627962 TAAATATAAATATT
1 TTAATA-AAATATT
4627976 TAAAAATATC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 3 0.10
20 10 0.32
21 7 0.23
22 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATAAAATATTATTTTT
Found at i:4627962 original size:21 final size:22
Alignment explanation
Indices: 4627924--4627975 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
4627914 TTCGAAATTA
*
4627924 ATAAAATATTATTTTTTTTAAT
1 ATAAAATATTATTTTTTTAAAT
4627946 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
4627967 AT-AAATATT
1 ATAAAATATT
4627976 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:4628018 original size:21 final size:19
Alignment explanation
Indices: 4627992--4628031 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
4627982 TATCATTATA
4627992 TAAATAGATATAATAAAAAAT
1 TAAATA-AT-TAATAAAAAAT
*
4628013 TAAATAATTAATTAAAAAT
1 TAAATAATTAATAAAAAAT
4628032 AATTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAATAATTAATAAAAAAT
Found at i:4629616 original size:24 final size:24
Alignment explanation
Indices: 4629589--4629635 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
4629579 TAACATTTAC
*
4629589 CTGACTGATGATGTTGGGGTTTCA
1 CTGACTGAAGATGTTGGGGTTTCA
4629613 CTGACTGAAGATGTTGGGGTTTC
1 CTGACTGAAGATGTTGGGGTTTC
4629636 TCTAATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.13, G:0.34, T:0.36
Consensus pattern (24 bp):
CTGACTGAAGATGTTGGGGTTTCA
Found at i:4637100 original size:2 final size:2
Alignment explanation
Indices: 4637093--4637122 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4637083 GGTCATATTA
4637093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4637123 TTGCGTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4641554 original size:28 final size:28
Alignment explanation
Indices: 4641506--4641600 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 28
4641496 ATTGGTTGAA
4641506 ATATT-AAA-AAATTTTAATTTTATTATT
1 ATATTAAAATAAATTTTAATTTT-TTATT
*
4641533 -TTTTAAAATAAATTCTT-ATTTTTTATT
1 ATATTAAAATAAATT-TTAATTTTTTATT
* * *
4641560 ATATTCAAATAAATCTTT-ATTCTTAATTT
1 ATATTAAAATAAAT-TTTAATTTTTTA-TT
*
4641589 ATATTTAAATAA
1 ATATTAAAATAA
4641601 TTCTTTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
26 3 0.05
27 8 0.14
28 29 0.52
29 16 0.29
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (28 bp):
ATATTAAAATAAATTTTAATTTTTTATT
Found at i:4641704 original size:30 final size:30
Alignment explanation
Indices: 4641632--4641706 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
4641622 TTAATTTATA
*
4641632 TTAAAAGTTTATTTAAATATAAAATAAATG
1 TTAAAAATTTATTTAAATATAAAATAAATG
* * *
4641662 TTAAAAACTTATTTGAATATAAATTAAAAT-
1 TTAAAAATTTATTTAAATATAAAAT-AAATG
**
4641692 TTAATGATTTATTTA
1 TTAAAAATTTATTTA
4641707 GGTGTGACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (30 bp):
TTAAAAATTTATTTAAATATAAAATAAATG
Found at i:4641756 original size:29 final size:29
Alignment explanation
Indices: 4641715--4641770 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
4641705 TAGGTGTGAC
* ** *
4641715 ATAAAAATCAAATGGTTTATTTGAGTATA
1 ATAAAAATAAAATAATTTATTTAAGTATA
4641744 ATAAAAATAAAATAATTTATTTAAGTA
1 ATAAAAATAAAATAATTTATTTAAGTA
4641771 AAATGATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (29 bp):
ATAAAAATAAAATAATTTATTTAAGTATA
Found at i:4653033 original size:26 final size:26
Alignment explanation
Indices: 4653000--4653056 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
4652990 TGAAAAAAAG
4653000 AATA-ACTAGAAAACAAGATAACAGA
1 AATAGACTAGAAAACAAGATAACAGA
*
4653025 AATAGACTAGAAAACATGATAACAGA
1 AATAGACTAGAAAACAAGATAACAGA
4653051 AATAGA
1 AATAGA
4653057 GAGGCCACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (26 bp):
AATAGACTAGAAAACAAGATAACAGA
Found at i:4658111 original size:12 final size:11
Alignment explanation
Indices: 4658089--4658123 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
4658079 CATGCTTTTC
4658089 CTTTTCTTCTT
1 CTTTTCTTCTT
4658100 CTTTTCCTTCTT
1 CTTTT-CTTCTT
4658112 CTTCTTCTTCTT
1 CTT-TTCTTCTT
4658124 TAACAGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 15 0.68
13 2 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTTTCTTCTT
Found at i:4661608 original size:21 final size:21
Alignment explanation
Indices: 4661584--4661623 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4661574 TGTTAAATAT
4661584 TTTTAA-AGTGAAATTAATTTA
1 TTTTAATA-TGAAATTAATTTA
*
4661605 TTTTAATATGGAATTAATT
1 TTTTAATATGAAATTAATT
4661624 GAGATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTTAATATGAAATTAATTTA
Found at i:4664380 original size:13 final size:13
Alignment explanation
Indices: 4664362--4664386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4664352 ATAAAAAATC
4664362 TTATATTATATAA
1 TTATATTATATAA
4664375 TTATATTATATA
1 TTATATTATATA
4664387 TATAAACAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATTATATAA
Found at i:4665736 original size:32 final size:32
Alignment explanation
Indices: 4665699--4665766 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
4665689 TATATTACTT
* *
4665699 AATTTTTATATAAAATATGATATAAATATATA
1 AATTTTAATATAAAATATGATAAAAATATATA
*** *
4665731 AATTTTAATATTTTATATGATAAAAATATATG
1 AATTTTAATATAAAATATGATAAAAATATATA
4665763 AATT
1 AATT
4665767 ATCAAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (32 bp):
AATTTTAATATAAAATATGATAAAAATATATA
Found at i:4667065 original size:22 final size:23
Alignment explanation
Indices: 4667023--4667070 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
4667013 TTTTTTTTAT
*
4667023 TTTTTATATATTATTTGAATATAA
1 TTTTTATATATTATTTAAATA-AA
4667047 TTTTTA-ATA-TATTTAAATAAA
1 TTTTTATATATTATTTAAATAAA
4667068 TTT
1 TTT
4667071 ATGTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 3 0.13
24 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTTATATATTATTTAAATAAA
Found at i:4668043 original size:23 final size:23
Alignment explanation
Indices: 4667991--4668037 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4667981 ACCTACTAGA
* *
4667991 CATAGAAGTAAGTTAAAACTAAG
1 CATAAAAGCAAGTTAAAACTAAG
4668014 CATAAAAGCAAGTTAAAAGCTAAG
1 CATAAAAGCAAGTTAAAA-CTAAG
4668038 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (23 bp):
CATAAAAGCAAGTTAAAACTAAG
Found at i:4680162 original size:35 final size:35
Alignment explanation
Indices: 4680088--4680169 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
4680078 AATAATTTTG
*
4680088 ATAATTTAAT-ATAAAAATATTATTTGATGTAATA
1 ATAATTTAATAATAAAAATATTATTTAATGTAATA
* * * *
4680122 TTAATTTATTAATAAAATTATTATTTAACTTTAA-A
1 ATAATTTAATAATAAAAATATTATTTAA-TGTAATA
4680157 ATAATTTAATAAT
1 ATAATTTAATAAT
4680170 TTTTAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 8 0.21
35 27 0.69
36 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (35 bp):
ATAATTTAATAATAAAAATATTATTTAATGTAATA
Found at i:4680177 original size:19 final size:19
Alignment explanation
Indices: 4680155--4680191 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4680145 TTTAACTTTA
4680155 AAATAATTTAATAATTTTT
1 AAATAATTTAATAATTTTT
* *
4680174 AAATTATTTATTAATTTT
1 AAATAATTTAATAATTTT
4680192 ATAAGTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATAATTTAATAATTTTT
Found at i:4682017 original size:12 final size:12
Alignment explanation
Indices: 4681997--4682046 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
4681987 TTTGCTGTCC
4681997 AAAGCAAAAAAA-
1 AAAG-AAAAAAAG
4682009 AAAGAAAAAGAAG
1 AAAGAAAAA-AAG
*
4682022 AAAGAAAGAAAG
1 AAAGAAAAAAAG
*
4682034 AAAGAAAGAAAG
1 AAAGAAAAAAAG
4682046 A
1 A
4682047 TGGCTGATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
11 5 0.14
12 22 0.63
13 8 0.23
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:4682026 original size:4 final size:4
Alignment explanation
Indices: 4682009--4682046 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
4681999 AGCAAAAAAA
*
4682009 AAAG AAAA AGAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG A
4682047 TGGCTGATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 28 0.90
5 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4689286 original size:27 final size:27
Alignment explanation
Indices: 4689251--4689317 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
4689241 AAATAAATAT
* *
4689251 TATATATTTTTTATTTTTATTAATTTA
1 TATATATTTTTTATTTTAAATAATTTA
* ** *
4689278 TATATATTTTTAATTTTAAATCTTTTT
1 TATATATTTTTTATTTTAAATAATTTA
4689305 TATATATTTTTTA
1 TATATATTTTTTA
4689318 ATTGTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (27 bp):
TATATATTTTTTATTTTAAATAATTTA
Found at i:4690025 original size:11 final size:12
Alignment explanation
Indices: 4690009--4690042 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4689999 ATCATCCCTT
4690009 TCTCTTTCTC-C
1 TCTCTTTCTCTC
4690020 TCTCTTTCTCTC
1 TCTCTTTCTCTC
*
4690032 TCTCTTCCTCT
1 TCTCTTTCTCT
4690043 TCCTCTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (12 bp):
TCTCTTTCTCTC
Found at i:4692033 original size:5 final size:5
Alignment explanation
Indices: 4692019--4692047 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4692009 CCATTGTTCA
4692019 GCCA- GCCAT GCCAT GCCAT GCCAT GCCAT
1 GCCAT GCCAT GCCAT GCCAT GCCAT GCCAT
4692048 CTTTTGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.41, G:0.21, T:0.17
Consensus pattern (5 bp):
GCCAT
Found at i:4693277 original size:3 final size:3
Alignment explanation
Indices: 4693269--4693299 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4693259 TTCAAACCTC
4693269 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4693300 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4704239 original size:2 final size:2
Alignment explanation
Indices: 4704232--4704257 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4704222 ATTTGAATTG
4704232 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
4704258 GTGTGTGTGT
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:4707509 original size:22 final size:23
Alignment explanation
Indices: 4707484--4707540 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
4707474 AATTGATTTA
*
4707484 ATATTAATTTAG-AGAATATTAG
1 ATATTAATTTAGTAGAATATAAG
* * *
4707506 ATATTGATTTAGTTGATTATAAG
1 ATATTAATTTAGTAGAATATAAG
4707529 A-ATTAATTTAGT
1 ATATTAATTTAGT
4707541 CATTATTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (23 bp):
ATATTAATTTAGTAGAATATAAG
Found at i:4712452 original size:11 final size:11
Alignment explanation
Indices: 4712436--4712460 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4712426 TTGATGATAT
4712436 TATTCTAGTAA
1 TATTCTAGTAA
4712447 TATTCTAGTAA
1 TATTCTAGTAA
4712458 TAT
1 TAT
4712461 CGTAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
TATTCTAGTAA
Found at i:4712951 original size:26 final size:25
Alignment explanation
Indices: 4712896--4712953 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
4712886 ATACTATTAG
* **
4712896 GATACTATAATAAAAAATATTTTTA
1 GATATTATAATAAAAAATATTGGTA
* *
4712921 TATATTATAATTAAAAATATATGGTA
1 GATATTATAATAAAAAATAT-TGGTA
4712947 GATATTA
1 GATATTA
4712954 GATTGATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (25 bp):
GATATTATAATAAAAAATATTGGTA
Found at i:4713975 original size:14 final size:15
Alignment explanation
Indices: 4713942--4713991 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
4713932 ATTTTATTAA
4713942 AATTAATAAAAATAATAT
1 AATTAAT-AAAA-AA-AT
*
4713960 AATT-ATTAAAAAAT
1 AATTAATAAAAAAAT
4713974 AATTAATAAAAAAAT
1 AATTAATAAAAAAAT
4713989 AAT
1 AAT
4713992 GGAGCAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 6 0.21
15 14 0.48
16 3 0.10
17 2 0.07
18 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTAATAAAAAAAT
Found at i:4715017 original size:3 final size:3
Alignment explanation
Indices: 4715009--4715033 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4714999 CATTTTAAGT
4715009 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4715034 ACATGTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4715090 original size:3 final size:3
Alignment explanation
Indices: 4715082--4715113 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4715072 TTGCTTTTTT
4715082 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
4715114 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:4715118 original size:3 final size:3
Alignment explanation
Indices: 4715112--4715155 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4715102 CAACAACAAC
4715112 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4715156 GAAAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4729640 original size:34 final size:34
Alignment explanation
Indices: 4729557--4729644 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
4729547 AAAATGCCGA
*
4729557 TATATTAGAGACGTTTGTATATGGAAAACGCCGC
1 TATATTAGAGACGTTTGTATATGGAAAACGCCAC
* * *
4729591 TATATTA-ACGGCGTTTGTATAT-GACAAATGCTAC
1 TATATTAGA-GACGTTTGTATATGGA-AAACGCCAC
*
4729625 TATATTAGTGACGTTTGTAT
1 TATATTAGAGACGTTTGTAT
4729645 CTAAAAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
33 3 0.07
34 42 0.93
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (34 bp):
TATATTAGAGACGTTTGTATATGGAAAACGCCAC
Found at i:4729654 original size:34 final size:33
Alignment explanation
Indices: 4729557--4729678 Score: 95
Period size: 34 Copynumber: 3.6 Consensus size: 33
4729547 AAAATGCCGA
* * **
4729557 TATATTAGAGACGTTTGTATATGGAAAACGCCGC
1 TATATTAG-GACGTTTGTATATGAAAAATGCTAC
*
4729591 TATATTAACGG-CGTTTGTATATGACAAATGCTAC
1 TATATT-A-GGACGTTTGTATATGAAAAATGCTAC
* *
4729625 TATATTAGTGACGTTTGTATCTAAAAAATG-TCAC
1 TATATTAG-GACGTTTGTATATGAAAAATGCT-AC
* *
4729659 TATTTTAGCAGCGTTTGTAT
1 TATATTAGGA-CGTTTGTAT
4729679 CTTTGAGACA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
32 1 0.01
33 4 0.06
34 64 0.89
35 2 0.03
36 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (33 bp):
TATATTAGGACGTTTGTATATGAAAAATGCTAC
Found at i:4737724 original size:126 final size:126
Alignment explanation
Indices: 4737462--4737734 Score: 298
Period size: 126 Copynumber: 2.2 Consensus size: 126
4737452 TAAAGACGTT
* **
4737462 TTTTTAAAAGAAACGCCTTCAATAATTTCATTTTAAAATTTTTTTGGATTATTAAAGGTATCTTC
1 TTTTTAAAA-AAATGCCTTCAATAATTTCATTTTAAAATAATTTTGGATTATTAAAGGTATCTTC
* * * * *
4737527 TAGTGAAAAACACATTTAATATACTAGTACTCAAATTTTAATATGATTAGTGAAGGCATTTA
65 TAATGAAAAACACATTTAATATACTACTACTCAAATTTTAAGACGATTAGTGAAAGCATTTA
*** * * *
4737589 TTCCAAAAAAAATGCTTTCAATAATTTCTTTTTAAAA-AATTTTGAGATTATTAAAGGTGTCTTC
1 TTTTTAAAAAAATGCCTTCAATAATTTCATTTTAAAATAATTTTG-GATTATTAAAGGTATCTTC
* * * * * * **
4737653 TAATGAAAAACGCCTTTAATAT-TTCACTACTTATATTTTAAGACGGTTAGTGAAAGTGTTTA
65 TAATGAAAAACACATTTAATATACT-ACTACTCAAATTTTAAGACGATTAGTGAAAGCATTTA
*
4737715 TTTTTAAAAAAATACCTTCA
1 TTTTTAAAAAAATGCCTTCA
4737735 CCAATTCGTC
Statistics
Matches: 117, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
125 6 0.05
126 105 0.90
127 6 0.05
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (126 bp):
TTTTTAAAAAAATGCCTTCAATAATTTCATTTTAAAATAATTTTGGATTATTAAAGGTATCTTCT
AATGAAAAACACATTTAATATACTACTACTCAAATTTTAAGACGATTAGTGAAAGCATTTA
Found at i:4745177 original size:18 final size:18
Alignment explanation
Indices: 4745154--4745208 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
4745144 TATTTTGTGA
4745154 TATTGTTTTGCTGAATGG
1 TATTGTTTTGCTGAATGG
* *
4745172 TATTGTATTG-TG--TGA
1 TATTGTTTTGCTGAATGG
* *
4745187 TATTATTTTGCTAAATGG
1 TATTGTTTTGCTGAATGG
4745205 TATT
1 TATT
4745209 CTGTGTAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 10 0.36
16 1 0.04
17 2 0.07
18 15 0.54
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.53
Consensus pattern (18 bp):
TATTGTTTTGCTGAATGG
Found at i:4745186 original size:33 final size:33
Alignment explanation
Indices: 4745144--4745208 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
4745134 TGCTTAATGA
* * *
4745144 TATTTTGTGATATTGTTTTGCTGAATGGTATTG
1 TATTGTGTGATATTATTTTGCTAAATGGTATTG
4745177 TATTGTGTGATATTATTTTGCTAAATGGTATT
1 TATTGTGTGATATTATTTTGCTAAATGGTATT
4745209 CTGTGTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.54
Consensus pattern (33 bp):
TATTGTGTGATATTATTTTGCTAAATGGTATTG
Found at i:4749336 original size:306 final size:303
Alignment explanation
Indices: 4748551--4749387 Score: 920
Period size: 306 Copynumber: 2.7 Consensus size: 303
4748541 GCTTTTTTAG
* ** * **
4748551 CAAGAAAATACCTTGAATAATCTTTAACAAAATGTTATTGAAGGCGTTTTTAACTAAAATTACCT
1 CAAGAAAATACCTTGAATAATCCTTAACAAAATGTTATTGAAGATGTTTTTAACCAAAATCGCCT
* * * * * ** *
4748616 TTAATAATCCCACCTAAAAATTTATTATATAGAATATTAAAG-GATTTCAAACCAAAAATGCCTT
66 TTAATAATCTCACCTAAAAATTTATTATGTGGAATATTAAAGACATTTTAGGCC-AAAACGCCTT
* * * **
4748680 CAAGAATTCGTTCC-ATTTTTTTGTATGGATTATTGAAGGCATTTTTGACAAAAATCACCTTCAA
130 CAAGAATCCATTCCAACTTTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCACCTTCAA
* *
4748744 TAATCCCAACTAAAAATTTGTTGA-TTGAATTATTGAAGGAGCTTTTCGCTAAAAACACCTTAAA
195 TAAT-CCAACTAAAAATTTATTGATTTG-ATTATTGAAGGAGCTTTTCGCAAAAAACACCTTAAA
* * * *
4748808 AAATTCATTCCATATTTTTCTTATGAATTATTAAGGGCGTTTTTAG
258 AAATTCATCCCATATTTTTCTTATGAATTATTAAGGGCATTTTCAC
* * * * * * * * *
4748854 TAAGAAAATACTTTGAATAATCCCTAATAAAATATTATTAAAGATATTTTTTATCAAAATCGCCT
1 CAAGAAAATACCTTGAATAATCCTTAACAAAATGTTATTGAAGATGTTTTTAACCAAAATCGCCT
* *
4748919 TTAATAATTTCACCTGAAAAA-TTATTATGTGGAATATTAAA-AGCGTTTTAGGCCAAAATCGCC
66 TTAATAATCTCACCT-AAAAATTTATTATGTGGAATATTAAAGA-CATTTTAGGCCAAAA-CGCC
* * * *
4748982 TTCAAAAATCCATTCCAACTTCTTTGTATGGATTATTAAAGGTGTTTTTGACAAAAACCACCTTC
128 TTCAAGAATCCATTCCAACTTTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCACCTTC
* * ** * *
4749047 AATAATCTCAACTAAAAATTTATTTATTTGATTATTGAAGGCGC-TTTCAGCAAAAAATGCTTTC
193 AATAATC-CAACTAAAAATTTATTGATTTGATTATTGAAGGAGCTTTTC-GCAAAAAACACCTTA
* *
4749111 AAGAA-TCTATCCCATATATTTTTTTAT-AGATTATTAAGGGCATTTTCAC
256 AAAAATTC-ATCCCATAT-TTTTCTTATGA-ATTATTAAGGGCATTTTCAC
* * * * *
4749160 CAAGAGAAA-GCCTTGAATAATCCTTAACAAAATGTTATTGAATATGTTTTTGACCAAAACCGCA
1 CAAGA-AAATACCTTGAATAATCCTTAACAAAATGTTATTGAAGATGTTTTTAACCAAAATCGCC
* * * *
4749224 TTCAATAATCTCACCTAAAAATTTATTGTGTGGAATATTAAAGACATTTTGGGCTAAGAACGCCT
65 TTTAATAATCTCACCTAAAAATTTATTATGTGGAATATTAAAGACATTTTAGGCCAA-AACGCCT
* * * * *
4749289 TCAAGAATCCATTCCAACTTTTTTGTATGAATTATTGAAGATGTTTTTAAC-AAAATCGCTTTCA
129 TCAAGAATCCATTCCAACTTTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCACCTTCA
4749353 ATAATCCAAACTAAAAATTTATTGATTTGATTATT
194 ATAATCC-AACTAAAAATTTATTGATTTGATTATT
4749388 AAAAACGCTT
Statistics
Matches: 441, Mismatches: 77, Indels: 30
0.80 0.14 0.05
Matches are distributed among these distances:
303 85 0.19
304 35 0.08
305 147 0.33
306 168 0.38
307 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (303 bp):
CAAGAAAATACCTTGAATAATCCTTAACAAAATGTTATTGAAGATGTTTTTAACCAAAATCGCCT
TTAATAATCTCACCTAAAAATTTATTATGTGGAATATTAAAGACATTTTAGGCCAAAACGCCTTC
AAGAATCCATTCCAACTTTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCACCTTCAAT
AATCCAACTAAAAATTTATTGATTTGATTATTGAAGGAGCTTTTCGCAAAAAACACCTTAAAAAA
TTCATCCCATATTTTTCTTATGAATTATTAAGGGCATTTTCAC
Found at i:4752627 original size:24 final size:22
Alignment explanation
Indices: 4752599--4752652 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
4752589 TTTTTTTCTC
4752599 AATTTAATGAAAATAAAATATTAA
1 AATTTAAT-AAAATAAAA-ATTAA
*
4752623 AATTTTAATTAAATAAAAATTAA
1 AA-TTTAATAAAATAAAAATTAA
*
4752646 TATTTAA
1 AATTTAA
4752653 AAACTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 6 0.22
24 10 0.37
25 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AATTTAATAAAATAAAAATTAA
Found at i:4752921 original size:20 final size:19
Alignment explanation
Indices: 4752865--4752922 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
4752855 GCAAGAAAAA
4752865 ATAACAAAGAAGAAGAGAG
1 ATAACAAAGAAGAAGAGAG
* * *
4752884 A-AGACAGAGGA-AATAGAG
1 ATA-ACAAAGAAGAAGAGAG
4752902 ATAACAAAGAAAGAAGAGAG
1 ATAACAAAG-AAGAAGAGAG
4752922 A
1 A
4752923 GAGTCAGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
18 13 0.45
19 9 0.31
20 7 0.24
ACGTcount: A:0.62, C:0.05, G:0.28, T:0.05
Consensus pattern (19 bp):
ATAACAAAGAAGAAGAGAG
Found at i:4753561 original size:17 final size:18
Alignment explanation
Indices: 4753541--4753577 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4753531 TATTAGATTT
4753541 AATTAAATT-AAAATTAA
1 AATTAAATTAAAAATTAA
4753558 AATTAAATTAAAAATTAA
1 AATTAAATTAAAAATTAA
4753576 AA
1 AA
4753578 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAAATTAAAAATTAA
Found at i:4753586 original size:7 final size:6
Alignment explanation
Indices: 4753541--4753577 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
4753531 TATTAGATTT
4753541 AATT-A AATTAA AATTAA AATT-A AATTAAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AATT-AA AATTAA AA
4753578 AATTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.31
6 15 0.52
7 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:4753644 original size:12 final size:11
Alignment explanation
Indices: 4753618--4753648 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4753608 TATAAAATTT
4753618 AAAAAATTTTG
1 AAAAAATTTTG
*
4753629 AAAAAGTTTTG
1 AAAAAATTTTG
4753640 AAAAAATTT
1 AAAAAATTT
4753649 ATATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (11 bp):
AAAAAATTTTG
Found at i:4753787 original size:21 final size:22
Alignment explanation
Indices: 4753763--4753803 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4753753 ATTTTACATA
*
4753763 TTATTAATAT-TAAATTTAACT
1 TTATCAATATATAAATTTAACT
4753784 TTATCAATATATAAATTTAA
1 TTATCAATATATAAATTTAA
4753804 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATCAATATATAAATTTAACT
Found at i:4753816 original size:22 final size:23
Alignment explanation
Indices: 4753761--4753816 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
4753751 ATATTTTACA
*
4753761 TATTATTAATATTAAATTTAACTT
1 TATTATT-ATATTAAATTTAAATT
* *
4753785 TATCAATATA-TAAATTTAAATT
1 TATTATTATATTAAATTTAAATT
*
4753807 TTTTATTATA
1 TATTATTATA
4753817 ACTTTTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 18 0.69
23 3 0.12
24 5 0.19
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTATTATATTAAATTTAAATT
Found at i:4753846 original size:24 final size:24
Alignment explanation
Indices: 4753800--4753846 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4753790 ATATATAAAT
*
4753800 TTAAATTTTTTATTATAACTTTTA
1 TTAAATTTTTTATTATAAATTTTA
*
4753824 TTAAATTATTTT-TTTTAAATTTT
1 TTAAATT-TTTTATTATAAATTTT
4753847 GTCAACTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TTAAATTTTTTATTATAAATTTTA
Found at i:4755873 original size:19 final size:19
Alignment explanation
Indices: 4755835--4755873 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4755825 ACTTCCAGGG
* *
4755835 AGGATGCACATGTACTAGT
1 AGGATGCACATATACAAGT
*
4755854 AGGATGCATATATACAAGT
1 AGGATGCACATATACAAGT
4755873 A
1 A
4755874 AGGTGTCCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (19 bp):
AGGATGCACATATACAAGT
Found at i:4756951 original size:38 final size:37
Alignment explanation
Indices: 4756902--4756977 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 37
4756892 TATAAATATG
4756902 TATATATATATACAAATTAATTTCTTTTCAAAATTATA
1 TATATATATATACAAATTAATTTCTTTTC-AAATTATA
*
4756940 TATATATATATACAAATTAATTTTTTTTCAAATTATA
1 TATATATATATACAAATTAATTTCTTTTCAAATTATA
4756977 T
1 T
4756978 TCAAATCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 9 0.24
38 28 0.76
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (37 bp):
TATATATATATACAAATTAATTTCTTTTCAAATTATA
Found at i:4758112 original size:2 final size:2
Alignment explanation
Indices: 4758103--4758136 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4758093 TATATGCTAT
4758103 TA TA -A 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 TA TA TA T
4758137 TAGATTACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4763631 original size:21 final size:20
Alignment explanation
Indices: 4763590--4763632 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4763580 ATCCAAACAT
*
4763590 ATATTTTATTATTAATTTTA
1 ATATTTTATTATTAATCTTA
4763610 ATATTTTCATTA-TAATACTTA
1 ATATTTT-ATTATTAAT-CTTA
4763631 AT
1 AT
4763633 TTTACTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTTATTATTAATCTTA
Found at i:4765316 original size:27 final size:26
Alignment explanation
Indices: 4765257--4765318 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
4765247 TTTTTATCTT
* *
4765257 ATATATTTAA-ATAATTTTTTATAAAT
1 ATATA-TTAATATAATTTTTAATAAAA
4765283 A-ATATTAATATATATTTTTAATAAAA
1 ATATATTAATATA-ATTTTTAATAAAA
4765309 ATATATTAAT
1 ATATATTAAT
4765319 TTTAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 4 0.13
25 6 0.19
26 13 0.42
27 8 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATATTAATATAATTTTTAATAAAA
Found at i:4765338 original size:20 final size:21
Alignment explanation
Indices: 4765315--4765366 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
4765305 AAAAATATAT
4765315 TAATTTTA-ATTAATTTAA-AA
1 TAATTTTATATT-ATTTAATAA
4765335 TAATAATTTATATTATTTAATAA
1 TAAT--TTTATATTATTTAATAA
*
4765358 AAATTTTAT
1 TAATTTTAT
4765367 CTATTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 10 0.37
23 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATTTTATATTATTTAATAA
Found at i:4765371 original size:20 final size:20
Alignment explanation
Indices: 4765332--4765376 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4765322 AATTAATTTA
*
4765332 AAATAATAATTTATATTATT
1 AAATAAAAATTTATATTATT
*
4765352 TAATAAAAATTT-TATCTATT
1 AAATAAAAATTTATAT-TATT
4765372 AAATA
1 AAATA
4765377 TATACAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAAAAATTTATATTATT
Found at i:4766144 original size:21 final size:21
Alignment explanation
Indices: 4766119--4766161 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4766109 CTTCGAAGGT
*
4766119 GGAGATAAAGAAGGAAGAGAA
1 GGAGATAAAGAAAGAAGAGAA
* *
4766140 GGAGATCAAGAAAGAAGTGAA
1 GGAGATAAAGAAAGAAGAGAA
4766161 G
1 G
4766162 AGGGAGCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.37, T:0.07
Consensus pattern (21 bp):
GGAGATAAAGAAAGAAGAGAA
Found at i:4770187 original size:4 final size:4
Alignment explanation
Indices: 4770178--4770202 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4770168 ATCAAAGACT
4770178 CCAA CCAA CCAA CCAA CCAA CCAA C
1 CCAA CCAA CCAA CCAA CCAA CCAA C
4770203 AGGTATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (4 bp):
CCAA
Found at i:4771246 original size:16 final size:16
Alignment explanation
Indices: 4771225--4771274 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
4771215 AGAGCGGTAA
4771225 ATAATATATAA-AAAAG
1 ATAATA-ATAAGAAAAG
4771241 ATAATAATAAGAAAA-
1 ATAATAATAAGAAAAG
* *
4771256 ATACTAA-AACAAAAG
1 ATAATAATAAGAAAAG
4771271 ATAA
1 ATAA
4771275 AAAACACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 6 0.21
15 13 0.45
16 10 0.34
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (16 bp):
ATAATAATAAGAAAAG
Found at i:4772400 original size:2 final size:2
Alignment explanation
Indices: 4772395--4772419 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4772385 TATAAGTGAT
4772395 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4772420 TGTAGACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4772571 original size:17 final size:17
Alignment explanation
Indices: 4772551--4772684 Score: 54
Period size: 17 Copynumber: 8.1 Consensus size: 17
4772541 ATTTTTTATT
4772551 TTTTTTATCTATTAATA
1 TTTTTTATCTATTAATA
*
4772568 -TTTTTAT-TATTTAT-
1 TTTTTTATCTATTAATA
*
4772582 TTACTTTTAT-TATTTATTA
1 TT--TTTTATCTA-TTAATA
* **
4772601 TTATTTATCTATTTCT-
1 TTTTTTATCTATTAATA
* *
4772617 TTTATTTATCTAATTATTT
1 TTT-TTTATCT-ATTAATA
4772636 TTTTTGTCATCTATTAATA
1 TTTTT-T-ATCTATTAATA
*
4772655 -TATTTATCT-TT--T-
1 TTTTTTATCTATTAATA
*
4772667 TTTGTTATCTATTAATA
1 TTTTTTATCTATTAATA
4772684 T
1 T
4772685 ATTTATCTCT
Statistics
Matches: 87, Mismatches: 14, Indels: 32
0.65 0.11 0.24
Matches are distributed among these distances:
13 8 0.09
14 2 0.02
15 9 0.10
16 14 0.16
17 25 0.29
18 14 0.16
19 11 0.13
20 4 0.05
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (17 bp):
TTTTTTATCTATTAATA
Found at i:4772574 original size:32 final size:31
Alignment explanation
Indices: 4772533--4772637 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 31
4772523 CAATGGGCTT
*
4772533 ATATTTTTATTTTTTATTTTTTTTATCTATTA
1 ATATTTTTATTTTTTATTTCTTTTAT-TATTA
*
4772565 ATATTTTTATTATTTATTTACTTTTATTATT-
1 ATATTTTTATTTTTTATTT-CTTTTATTATTA
* *
4772596 -TATTATTATTTATCTATTTCTTTTATTTATCTA
1 ATATTTTTATTT-TTTATTTCTTTTA-TTAT-TA
4772629 ATTATTTTT
1 A-TATTTTT
4772638 TTTGTCATCT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
30 15 0.25
31 10 0.17
32 23 0.38
33 6 0.10
35 6 0.10
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (31 bp):
ATATTTTTATTTTTTATTTCTTTTATTATTA
Found at i:4772604 original size:13 final size:13
Alignment explanation
Indices: 4772534--4772605 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
4772524 AATGGGCTTA
* *
4772534 TATTTTTATTTTT
1 TATTATTATTTAT
*
4772547 TATT-TTTTTTAT
1 TATTATTATTTAT
*
4772559 CTATTAATATTT-T
1 -TATTATTATTTAT
4772572 TATTATTTATTTACT
1 TATTA-TTATTTA-T
4772587 T-TTATTATTTAT
1 TATTATTATTTAT
4772599 TATTATT
1 TATTATT
4772606 TATCTATTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
12 13 0.27
13 26 0.54
14 7 0.15
15 2 0.04
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:4772621 original size:27 final size:27
Alignment explanation
Indices: 4772537--4772635 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 27
4772527 GGGCTTATAT
* *
4772537 TTTTATTTTTTATT-TTTTTTATCTA-
1 TTTTATTATTTATTATTATTTATCTAC
* *
4772562 --TTAATATTT-TTATTATTTATTTAC
1 TTTTATTATTTATTATTATTTATCTAC
4772586 TTTTATTATTTATTATTATTTATCTA-
1 TTTTATTATTTATTATTATTTATCTAC
*
4772612 TTTCTTTTATTTATCTAATTATTT
1 TTT-TATTATTTAT-T-ATTATTT
4772636 TTTTTGTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.03
23 16 0.27
26 11 0.19
27 22 0.37
28 1 0.02
29 7 0.12
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTATTATTTATTATTATTTATCTAC
Found at i:4772622 original size:30 final size:30
Alignment explanation
Indices: 4772566--4772622 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4772556 TATCTATTAA
* *
4772566 TATTTTTATTATTTATTTACTTTTATTATT
1 TATTATTATTATCTATTTACTTTTATTATT
4772596 TATTATTATTTATCTATTT-CTTTTATT
1 TATTATTA-TTATCTATTTACTTTTATT
4772623 TATCTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (30 bp):
TATTATTATTATCTATTTACTTTTATTATT
Found at i:4772696 original size:31 final size:29
Alignment explanation
Indices: 4772630--4772692 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
4772620 ATTTATCTAA
4772630 TTAT-TTTTTTTGTCATCTATTAATATAT
1 TTATCTTTTTTTGTCATCTATTAATATAT
*
4772658 TTATCTTTTTTTGTTATCTATTAATATAT
1 TTATCTTTTTTTGTCATCTATTAATATAT
4772687 TTATCT
1 TTATCT
4772693 CTTTGTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (29 bp):
TTATCTTTTTTTGTCATCTATTAATATAT
Found at i:4773031 original size:15 final size:13
Alignment explanation
Indices: 4772988--4773031 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
4772978 TCGGTGGAAA
4772988 TTTTTTAGAATTT
1 TTTTTTAGAATTT
*
4773001 TTTTTTGGCGAATTT
1 TTTTTT--AGAATTT
4773016 TTTTTTAGAAATTT
1 TTTTTTAG-AATTT
4773030 TT
1 TT
4773032 GAAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 7 0.27
14 7 0.27
15 12 0.46
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.66
Consensus pattern (13 bp):
TTTTTTAGAATTT
Found at i:4773612 original size:23 final size:23
Alignment explanation
Indices: 4773590--4773655 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 23
4773580 GAATTGTTTA
4773590 ATATT-TTTATTTTTATTTATTT
1 ATATTATTTATTTTTATTTATTT
* *
4773612 ATTTTATTTATTTTTA-TT-TTC
1 ATATTATTTATTTTTATTTATTT
* *
4773633 ATTTTATTTA-TTTTATTTTTTT
1 ATATTATTTATTTTTATTTATTT
4773655 A
1 A
4773656 AAATAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.13
21 14 0.37
22 9 0.24
23 10 0.26
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (23 bp):
ATATTATTTATTTTTATTTATTT
Found at i:4773617 original size:5 final size:5
Alignment explanation
Indices: 4773594--4773651 Score: 61
Period size: 5 Copynumber: 11.8 Consensus size: 5
4773584 TGTTTAATAT
4773594 TTTTA TTTT- TATTTA -TTTA TTTTA -TTTA TTTTTA TTTTCA TTTTA
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA -TTTTA TTTT-A TTTTA
4773639 -TTTA TTTTA TTTT
1 TTTTA TTTTA TTTT
4773652 TTTAAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
4 13 0.28
5 24 0.52
6 9 0.20
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:4773624 original size:29 final size:30
Alignment explanation
Indices: 4773591--4773654 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
4773581 AATTGTTTAA
*
4773591 TATTTTTATTTTTA-TTTATTTATTTTATT
1 TATTTTTATTTTCATTTTATTTATTTTATT
4773620 TATTTTTATTTTCATTTTATTTATTTTATT
1 TATTTTTATTTTCATTTTATTTATTTTATT
4773650 T-TTTT
1 TATTTT
4773655 AAAATAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (30 bp):
TATTTTTATTTTCATTTTATTTATTTTATT
Found at i:4773733 original size:60 final size:58
Alignment explanation
Indices: 4773670--4773885 Score: 296
Period size: 60 Copynumber: 3.7 Consensus size: 58
4773660 AAAATTCAAA
4773670 AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAA-TTTTCTTCGAAATTAAAAGTTTCC
1 AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAATTTTTC-TCGAAATTAAAAGTTT-C
* *
4773729 AAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTTTC
1 AAAAAATATTTTTGA-AGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAAG--TTTC
* *
4773789 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAGTTTC
1 AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTC
*
4773846 AAAAGAATATTTTTGGAGAAAAGA-TGAAAGTATCAATTTT
1 AAAA-AATATTTTTGAAGAAAA-ATTGAAAGTATCAATTTT
4773886 CTCTACACAA
Statistics
Matches: 145, Mismatches: 5, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
57 8 0.06
58 32 0.22
59 48 0.33
60 53 0.37
61 4 0.03
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTC
Found at i:4773797 original size:119 final size:118
Alignment explanation
Indices: 4773670--4773885 Score: 348
Period size: 119 Copynumber: 1.8 Consensus size: 118
4773660 AAAATTCAAA
4773670 AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAA-TTTTCTTCGAAATTAAAAGTTTCCAAAA-
1 AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAATTTTTC-TCGAAATT-AAAGTTT-CAAAAG
*
4773733 AATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTTTC
63 AATATTTTT-GGAGAAAAGATGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTTTC
* *
4773789 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAGAAT
1 AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAGAAT
4773854 ATTTTTGGAGAAAAGATGAAAGTATCAATTTT
66 ATTTTTGGAGAAAAGATGAAAGTATCAATTTT
4773886 CTCTACACAA
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
117 7 0.08
118 38 0.42
119 41 0.45
120 5 0.05
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (118 bp):
AAAAAATATTTTTGAAGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAGAAT
ATTTTTGGAGAAAAGATGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTTTC
Found at i:4777811 original size:27 final size:30
Alignment explanation
Indices: 4777781--4777836 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
4777771 ATCAACAATG
4777781 GATG-AAAAAT-GA-AAAAAAAAAAAAGAT
1 GATGAAAAAATAGAGAAAAAAAAAAAAGAT
*
4777808 GATGAAAAAATAGAGAAAAAAAAGAAAGA
1 GATGAAAAAATAGAGAAAAAAAAAAAAGA
4777837 AAAACGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 6 0.24
29 2 0.08
30 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (30 bp):
GATGAAAAAATAGAGAAAAAAAAAAAAGAT
Found at i:4779341 original size:43 final size:43
Alignment explanation
Indices: 4779248--4779329 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
4779238 GCCTTTGAAC
* *
4779248 TCAAATGATAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTGAATTTTTGGATATGAATCTCCAAAAT
4779291 TCAAATGAAAAGCTTT-AGATTTTTGGATATGAAT-TCCAA
1 TCAAATGAAAAGCTTTGA-ATTTTTGGATATGAATCTCCAA
4779330 GTTTGCCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 6 0.17
43 30 0.83
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (43 bp):
TCAAATGAAAAGCTTTGAATTTTTGGATATGAATCTCCAAAAT
Found at i:4779928 original size:83 final size:83
Alignment explanation
Indices: 4779613--4780254 Score: 587
Period size: 83 Copynumber: 7.6 Consensus size: 83
4779603 ATGATTGTCA
* ** * *
4779613 AGGAGCCATTTAT-TTTCCAAAAGTTGAGGTGCCTCT-ATTTAGAGGAGCAATTTATTTTTCAAA
1 AGGAGCCATTTATCTTTTC-AAAGTTGTTGAGCCTCTGA-TTAGAGGAGCCATTTATTTTTCAAA
* * *
4779676 GTTGTGGTGCCTCT-ATTTAG
64 GTCGTTGAGCCTCTGA-TTAG
* ** * * * * **
4779696 AGGAGCAATTTA-CTTTTCAAAAGTTGAGGTGCCTCTGTTTATAGGAGCAATTTGCTTTTCAAAG
1 AGGAGCCATTTATCTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAG
* * *
4779760 TTGTGGTGCCTCT-ATTTAG
65 TCGTTGAGCCTCTGA-TTAG
*
4779779 AGGAGCAATTTA-CTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCCAAAG
1 AGGAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTT-CAAAG
4779843 TCGTTGAGCCTCTGATTAG
65 TCGTTGAGCCTCTGATTAG
* *
4779862 AGGAGCCATTTA-CTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTTCAGAG
1 AGGAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA-TTTTTCAAAG
4779926 TCGTTGAGCCTCTGATTAG
65 TCGTTGAGCCTCTGATTAG
* * * * * *
4779945 AAGTGTCATTTATTTTTTCAAAGTTGTTGAGCCTCTTATTAGAGAAGCCATTTATTTTTCCAAAG
1 AGGAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTT-C--A-
*
4780010 TCGTTAAGTCGTTGAGCCTCTAATTAG
62 -----AAGTCGTTGAGCCTCTGATTAG
* * * * *
4780037 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCATCTGATTAGATGAGCCATTTACTTTTCAAAGT
1 AGGAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGT
* *
4780102 TGTTGAGTCTCTGATTAG
66 CGTTGAGCCTCTGATTAG
* * * * * * * *
4780120 AGAAGTCGTTTATTTTTTCAGAGTCGTTGAGCCTCTGATTAGAGGAGTCGTTTATTTTTCAAAAG
1 AGGAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTC-AAAG
*
4780185 TCATTGAGCCTCTGATTAG
65 TCGTTGAGCCTCTGATTAG
* * * * * *
4780204 AGGAGCTTTATTTATGTTTCTCAAAGTCGTTAAGCCTTTGCTTAGAGGAGC
1 AGGAGC--CATTTATCTTT-TCAAAGTTGTTGAGCCTCTGATTAGAGGAGC
4780255 TTTGATCAAA
Statistics
Matches: 477, Mismatches: 63, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
82 32 0.07
83 270 0.57
84 68 0.14
86 9 0.02
87 26 0.05
89 1 0.00
91 1 0.00
92 70 0.15
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (83 bp):
AGGAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGT
CGTTGAGCCTCTGATTAG
Found at i:4779934 original size:42 final size:42
Alignment explanation
Indices: 4779643--4780254 Score: 551
Period size: 42 Copynumber: 14.4 Consensus size: 42
4779633 AAGTTGAGGT
* * * *
4779643 GCCTCT-ATTTAGAGGAGCAATTTA-TTTTTCAAAGTTGTGGT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * * ** *
4779684 GCCTCT-ATTTAGAGGAGCAATTTA-CTTTTCAAAAGTTGAGGT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTTC-AAAGTCGTTGA
* * * ** * * *
4779726 GCCTCTGTTTATAGGAGCAATTT-GCTTTTCAAAGTTGTGGT
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * *
4779767 GCCTCT-ATTTAGAGGAGCAATTTA-CTTTTCAAAGTTGTTGA
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
*
4779808 GCCTCTGATTAGAGGAGCCATTTATTTTTCCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* *
4779850 GCCTCTGATTAGAGGAGCCATTTA-CTTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* *
4779891 GCCTCTGATTAGAGGAGCCGTTTATTTTTTCAGAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * * *
4779933 GCCTCTGATTAGAAGTGTCATTTATTTTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * *
4779975 GCCTCTTATTAGAGAAGCCATTTATTTTTCCAAAGTCGTTAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTT------TC--AAAGTCGTTGA
*
4780025 GCCTCTAATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * * *
4780067 GCATCTGATTAGATGAGCCATTTA-CTTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * * * *
4780108 GTCTCTGATTAGAGAAGTCGTTTATTTTTTCAGAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * *
4780150 GCCTCTGATTAGAGGAGTCGTTTA-TTTTTCAAAAGTCATTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTC-AAAGTCGTTGA
* * *
4780192 GCCTCTGATTAGAGGAGCTTTATTTATGTTTCTCAAAGTCGTTAA
1 GCCTCTGATTAGAGGAGC--CATTTAT-TTTTTCAAAGTCGTTGA
* *
4780237 GCCTTTGCTTAGAGGAGC
1 GCCTCTGATTAGAGGAGC
4780255 TTTGATCAAA
Statistics
Matches: 487, Mismatches: 62, Indels: 40
0.83 0.11 0.07
Matches are distributed among these distances:
41 171 0.35
42 242 0.50
44 6 0.01
45 25 0.05
46 5 0.01
48 2 0.00
50 36 0.07
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (42 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
Done.