Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 28 of 182
Found at i:9341312 original size:3 final size:3
Alignment explanation
Indices: 9341298--9341351 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
9341288 GACAATAAAG
* *
9341298 AAT AAT AGT AAT AAT AAT AGT -AT AGAT AAT AAT -AT ATAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT
9341342 AAT AAT AAT A
1 AAT AAT AAT A
9341352 GTTAGAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 31 0.74
4 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9341574 original size:3 final size:3
Alignment explanation
Indices: 9341566--9341613 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
9341556 TATAAATATG
* * *
9341566 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA AT- ATA GTA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9341613 A
1 A
9341614 AAGTAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9341575 original size:15 final size:16
Alignment explanation
Indices: 9341557--9341594 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
9341547 AAATATAAGT
9341557 ATAAAT-ATGATAATA
1 ATAAATAATGATAATA
9341572 AT-AATAATGATAATA
1 ATAAATAATGATAATA
9341587 AT-AATAAT
1 ATAAATAAT
9341595 AATATAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
ATAAATAATGATAATA
Found at i:9341599 original size:35 final size:33
Alignment explanation
Indices: 9341560--9341674 Score: 85
Period size: 35 Copynumber: 3.3 Consensus size: 33
9341550 TATAAGTATA
9341560 AATATGATAATAATAATAATGATAATAATAATAAT
1 AATATGATAATAATAATAA-G-TAATAATAATAAT
*
9341595 AATATAGTAGTAATAATAA-AAGTAA-AATTAATAGT
1 AATAT-G-A-TAATAATAATAAGTAATAA-TAATAAT
* *
9341630 AA-ATTGATAATAATAATGTACGTTAATAACAATAAT
1 AATA-TGATAATAATAA--TAAG-TAATAATAATAAT
9341666 AATAT-ATAA
1 AATATGATAA
9341675 AGGATAGGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
32 9 0.14
33 1 0.02
34 4 0.06
35 23 0.35
36 13 0.20
37 6 0.09
38 9 0.14
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (33 bp):
AATATGATAATAATAATAAGTAATAATAATAAT
Found at i:9342016 original size:17 final size:17
Alignment explanation
Indices: 9341958--9342020 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
9341948 AAAATAATAT
9341958 TAAAATATATATACGAGTAA
1 TAAAA-ATATATAC-A-TAA
* * * *
9341978 TAAAAAATGTATTCGTAT
1 T-AAAAATATATACATAA
9341996 TAAAAATATATACATAA
1 TAAAAATATATACATAA
9342013 TAAAAATA
1 TAAAAATA
9342021 CAATATTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 20 0.59
18 3 0.09
20 7 0.21
21 4 0.12
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (17 bp):
TAAAAATATATACATAA
Found at i:9342190 original size:22 final size:22
Alignment explanation
Indices: 9342148--9342190 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9342138 GTACATAACA
*
9342148 TAAATATCATACATATAATATC
1 TAAATATCATACATACAATATC
9342170 TAAATAT-ATACATACATATAT
1 TAAATATCATACATACA-ATAT
9342191 ATAGTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATCATACATACAATATC
Found at i:9342360 original size:15 final size:14
Alignment explanation
Indices: 9342335--9342370 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
9342325 TAATAATACT
9342335 ATATAATATATATA
1 ATATAATATATATA
9342349 ATATACATATATATA
1 ATATA-ATATATATA
9342364 AGTATAA
1 A-TATAA
9342371 CAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (14 bp):
ATATAATATATATA
Found at i:9343091 original size:18 final size:21
Alignment explanation
Indices: 9343067--9343119 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
9343057 AAACAAATTC
9343067 GAAAATAA-AATAAAAAG-AA
1 GAAAATAATAATAAAAAGAAA
*
9343086 -AAAATAATAATAAATAGAAA
1 GAAAATAATAATAAAAAGAAA
9343106 GAAAATAATAATAA
1 GAAAATAATAATAA
9343120 TGTAATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 2 0.07
21 13 0.43
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (21 bp):
GAAAATAATAATAAAAAGAAA
Found at i:9343115 original size:24 final size:23
Alignment explanation
Indices: 9343074--9343120 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
9343064 TTCGAAAATA
9343074 AAATAAAAAGAAAAAATAATAAT
1 AAATAAAAAGAAAAAATAATAAT
*
9343097 AAATAGAAAGAAAATAATAATAAT
1 AAATAAAAAGAAAA-AATAATAAT
9343121 GTAATATCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (23 bp):
AAATAAAAAGAAAAAATAATAAT
Found at i:9343406 original size:6 final size:6
Alignment explanation
Indices: 9343395--9343421 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9343385 TGATTTAGGG
9343395 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
9343422 TTTGTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:9344905 original size:41 final size:41
Alignment explanation
Indices: 9344860--9345001 Score: 110
Period size: 41 Copynumber: 3.5 Consensus size: 41
9344850 GAGCAGTAGC
*
9344860 GGCGTTTTTAGACCAAACGCAGCTAAAAACTTAGCAATTGT
1 GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
* * * * *
9344901 GGCGTTTTT-GGCCTAAACGCCGC-AAAAAGTTGGTCAATAGT
1 GGCGTTTTTAGTCC-AAACGCAGCTAAAAACTTAG-CAATTGT
* * * * * * * * *
9344942 GGTGCTTTTGGTTCAAGCGCAACTAAAAGCTGAGCAATTAT
1 GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
9344983 GGCGTTTTTA-TCCAAACGC
1 GGCGTTTTTAGTCCAAACGC
9345002 CGCAAAAGGT
Statistics
Matches: 74, Mismatches: 23, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
40 18 0.24
41 48 0.65
42 8 0.11
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
Found at i:9344930 original size:82 final size:82
Alignment explanation
Indices: 9344833--9345014 Score: 197
Period size: 82 Copynumber: 2.2 Consensus size: 82
9344823 GTTTGCAAGA
* * * * *
9344833 AAACGTCGCAAAAAGTTGAG-CAGTAGCGGCGTTTTTAGACCAAACGCAGCTAAAAACTTAGCAA
1 AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCAA
* *
9344897 TTGTGGCGTTTTTGGCC
66 TTATGGCGTTTTTAGCC
* * * ** * *
9344914 TAAACGCCGCAAAAAGTTG-GTCAATAGTGGTGCTTTTGGTTCAAGCGCAACTAAAAGCTGAGCA
1 -AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCA
*
9344978 ATTATGGCGTTTTTATCC
65 ATTATGGCGTTTTTAGCC
*
9344996 AAACGCCGCAAAAGGTTGA
1 AAACGCCGCAAAAAGTTGA
9345015 ACTATAATGC
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (82 bp):
AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCAA
TTATGGCGTTTTTAGCC
Found at i:9345601 original size:21 final size:21
Alignment explanation
Indices: 9345550--9345602 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
9345540 TAAGTTTATA
*
9345550 GTTTAAGATTTGTTAATTTGG
1 GTTTAAGGTTTGTTAATTTGG
** *
9345571 GTTTGGGGTTTGTTATTTTGG
1 GTTTAAGGTTTGTTAATTTGG
9345592 GTTTAAGGTTT
1 GTTTAAGGTTT
9345603 AGGGTATATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (21 bp):
GTTTAAGGTTTGTTAATTTGG
Found at i:9345607 original size:14 final size:14
Alignment explanation
Indices: 9345590--9345668 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
9345580 TTGTTATTTT
9345590 GGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
* * *
9345604 GGGTATATGATTTTA
1 GGGTTTAAG-GTTTA
*
9345619 GGCTTT-AGAGTTTA
1 GGGTTTAAG-GTTTA
*
9345633 GGGTTTAATGTTTA
1 GGGTTTAAGGTTTA
** *
9345647 GTATTTTAGGTTTA
1 GGGTTTAAGGTTTA
*
9345661 GGGGTTAA
1 GGGTTTAA
9345669 AATTTGTTAT
Statistics
Matches: 46, Mismatches: 17, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
14 37 0.80
15 9 0.20
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (14 bp):
GGGTTTAAGGTTTA
Found at i:9345659 original size:28 final size:28
Alignment explanation
Indices: 9345516--9345668 Score: 80
Period size: 28 Copynumber: 5.4 Consensus size: 28
9345506 TTACTTATAA
*
9345516 TTTAGGGTTTAATGTTTAGTATTTTAAG
1 TTTAGGGTTTAATGTTTAGTATTTTAGG
** * *
9345544 TTTATAGTTTAA-GATTT-GTTAATTTGGG
1 TTTAGGGTTTAATG-TTTAG-TATTTTAGG
* ** * * ** *
9345572 TTTGGGGTTTGTTATTTTGGGTTTAAGG
1 TTTAGGGTTTAATGTTTAGTATTTTAGG
* **
9345600 TTTAGGGTAT-ATGATTTTAG-GCTTTAGAG
1 TTTAGGGTTTAATG--TTTAGTATTTTAG-G
9345629 TTTAGGGTTTAATGTTTAGTATTTTAGG
1 TTTAGGGTTTAATGTTTAGTATTTTAGG
*
9345657 TTTAGGGGTTAA
1 TTTAGGGTTTAA
9345669 AATTTGTTAT
Statistics
Matches: 89, Mismatches: 27, Indels: 18
0.66 0.20 0.13
Matches are distributed among these distances:
27 3 0.03
28 63 0.71
29 20 0.22
30 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.51
Consensus pattern (28 bp):
TTTAGGGTTTAATGTTTAGTATTTTAGG
Found at i:9345679 original size:28 final size:29
Alignment explanation
Indices: 9345622--9345687 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
9345612 GATTTTAGGC
* **
9345622 TTTAGAGTTTAGGGTTTAATGTTTAGTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAGTAT
9345651 TTTAG-GTTTAGGGGTTAAAATTT-GTTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAG-TAT
9345679 TTT-GAGTTT
1 TTTAGAGTTT
9345688 GGAGTTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.06
28 25 0.78
29 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (29 bp):
TTTAGAGTTTAGGGGTTAAAATTTAGTAT
Found at i:9346220 original size:40 final size:40
Alignment explanation
Indices: 9346164--9346252 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
9346154 GCACTAGCAC
*
9346164 AAAAACGCCGCAATAGATCGAGAATAAGCAGCTCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
* * * *
9346204 AAAAACGCCGCTATAGATTGAGAATTAGCGGCGCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
9346244 AAAAACGCC
1 AAAAACGCC
9346253 ACAAAAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
Found at i:9349890 original size:29 final size:27
Alignment explanation
Indices: 9349822--9349891 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 27
9349812 ATATTAGATG
*
9349822 GTTATGCCAGTTGTTCAATTGTCTTCT
1 GTTATGCCAGTTGTTCTATTGTCTTCT
* *
9349849 TTTTTG---GTTGTTCTATTGTTCATTCT
1 GTTATGCCAGTTGTTCTATTG-TC-TTCT
9349875 GTTATGCCAGTTGTTCT
1 GTTATGCCAGTTGTTCT
9349892 TGCAGTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 11 0.33
25 2 0.06
26 8 0.24
27 4 0.12
29 8 0.24
ACGTcount: A:0.11, C:0.16, G:0.19, T:0.54
Consensus pattern (27 bp):
GTTATGCCAGTTGTTCTATTGTCTTCT
Found at i:9351585 original size:9 final size:9
Alignment explanation
Indices: 9351536--9351629 Score: 93
Period size: 9 Copynumber: 10.3 Consensus size: 9
9351526 CTTTGGATCT
9351536 TAACTTA-A
1 TAACTTACA
*
9351544 TAACTTATA
1 TAACTTACA
*
9351553 TATATCATATCA
1 TA-A-CTTA-CA
*
9351565 TGACTTACA
1 TAACTTACA
*
9351574 TAACTCACA
1 TAACTTACA
*
9351583 TAACATACA
1 TAACTTACA
9351592 TAACTTA-A
1 TAACTTACA
*
9351600 TAACTCACA
1 TAACTTACA
9351609 TAACTTACA
1 TAACTTACA
9351618 TAACTTACA
1 TAACTTACA
9351627 TAA
1 TAA
9351630 TAAATAAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
8 14 0.20
9 46 0.66
10 4 0.06
11 4 0.06
12 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
TAACTTACA
Found at i:9351603 original size:26 final size:27
Alignment explanation
Indices: 9351536--9351629 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 27
9351526 CTTTGGATCT
* *
9351536 TAACTTA-ATAACTTATATATATCATATCA
1 TAACTTACATAACTCACATA-A-CATA-CA
*
9351565 TGACTTACATAACTCACATAACATACA
1 TAACTTACATAACTCACATAACATACA
*
9351592 TAACTTA-ATAACTCACATAACTTACA
1 TAACTTACATAACTCACATAACATACA
9351618 TAACTTACATAA
1 TAACTTACATAA
9351630 TAAATAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 25 0.43
27 12 0.21
28 4 0.07
29 7 0.12
30 10 0.17
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (27 bp):
TAACTTACATAACTCACATAACATACA
Found at i:9356709 original size:13 final size:14
Alignment explanation
Indices: 9356693--9356721 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9356683 TTTTAAATAT
9356693 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
9356706 TTATAATGGTTTAA
1 TTATAATGGTTTAA
9356720 TT
1 TT
9356722 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:9357654 original size:43 final size:42
Alignment explanation
Indices: 9357496--9357717 Score: 159
Period size: 43 Copynumber: 5.2 Consensus size: 42
9357486 AACGGTACTT
* * *
9357496 TTAGCGGTGCTTGTGATAAAAGCGCCGCTAAAGGT-ACTGTTTT
1 TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCA-TG-TTC
* * * * *
9357539 TTAGTGGTGTTTGTGA-AAAAACACCACTAAAAGTCATGCTC
1 TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCATGTTC
* * * *
9357580 TATAGCGGAGTTTGTTTG-TAAAA-CTCTGCTAATGGTCATGTTC
1 T-TAGCGGTGTTTG--TGATAAAAGCACCGCTAAAGGTCATGTTC
*
9357623 GTTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGATCATGTTC
1 -TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCATGTTC
* ** *
9357666 TATAGCGGCGATTATG-GA-AAAAGCGTCACTAAAGGTCATGTTC
1 T-TAGCGGTG-TT-TGTGATAAAAGCACCGCTAAAGGTCATGTTC
9357709 TTTAGCGGT
1 -TTAGCGGT
9357718 ATTTTTTCAC
Statistics
Matches: 140, Mismatches: 27, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
41 4 0.03
42 32 0.23
43 90 0.64
44 12 0.09
45 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCATGTTC
Found at i:9359054 original size:7 final size:7
Alignment explanation
Indices: 9359042--9359083 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
9359032 AATTATTTAA
9359042 AAAATAT
1 AAAATAT
9359049 AAAATAT
1 AAAATAT
9359056 AAAATAT
1 AAAATAT
9359063 AAAATAAT
1 AAAAT-AT
9359071 AAAATAGT
1 AAAATA-T
9359079 AAAAT
1 AAAAT
9359084 TATATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:9362771 original size:140 final size:140
Alignment explanation
Indices: 9362527--9362882 Score: 543
Period size: 140 Copynumber: 2.5 Consensus size: 140
9362517 CTTTTTTAAA
* *
9362527 TGTTGGAATAGACTTGTCGACATACGCTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
* *
9362592 CCTAAGGCAACGCTTAAATAAAAGTCGGCTTTATCCAACACTATACT-GACACTTTCGGGCCGAC
66 CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTAT-CTCGACACTTTCGGACCGAC
*
9362656 ACTTTCCTATG
130 ACTTTCCTAAG
* *
9362667 TGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATG
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
* * * * *
9362732 CCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGACACTTTTGGACCGACA
66 CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTATCTCGACACTTTCGGACCGACA
9362797 CTTTCCTAAG
131 CTTTCCTAAG
** * *
9362807 TGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGAGTTGGGATATGCATC
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
*
9362872 CCTAAGACAAC
66 CCTAAGGCAAC
9362883 ACTTGTTCAA
Statistics
Matches: 196, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
139 1 0.01
140 195 0.99
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (140 bp):
TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTATCTCGACACTTTCGGACCGACA
CTTTCCTAAG
Found at i:9362985 original size:109 final size:109
Alignment explanation
Indices: 9362792--9362995 Score: 264
Period size: 109 Copynumber: 1.9 Consensus size: 109
9362782 ACTTTTGGAC
* **
9362792 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
*
9362857 GTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
66 GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * *** * ** *
9362901 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
* * *
9362966 GTAGGTATATGCATGCCTAAGGCAACACTT
66 GTAGGGATATGCATCCCTAAGACAACACTT
9362996 AAATAAGAGT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (109 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:9363090 original size:249 final size:249
Alignment explanation
Indices: 9362652--9363119 Score: 632
Period size: 249 Copynumber: 1.9 Consensus size: 249
9362642 ACTTTCGGGC
* *
9362652 CGACACTTTCCTATGTGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* * *
9362717 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGAC
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
* * ***
9362782 ACTTTTGGACCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCT
131 ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
* *
9362847 TTGTATAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
196 TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * * * *** * * * *
9362901 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* *
9362966 GTAGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATG-CGGA
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTC-GA
** * ** *
9363030 CACTTTTGGGGCAACACTTTCTTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTC
130 CACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCC
*
9363095 TTTGGACAAGGGTTGGGATATGCAT
195 TTTGGACAAGAGTTGGGATATGCAT
9363120 GTCTAAGGCA
Statistics
Matches: 186, Mismatches: 32, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
248 1 0.01
249 185 0.99
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (249 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:9366071 original size:40 final size:40
Alignment explanation
Indices: 9366011--9366197 Score: 275
Period size: 40 Copynumber: 4.7 Consensus size: 40
9366001 CAATTGAGGA
* *
9366011 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
9366051 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
9366091 TTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
9366131 CTATTTCTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
9366171 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
9366198 ATTGGGTTGG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:9370124 original size:30 final size:30
Alignment explanation
Indices: 9370088--9370148 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
9370078 TGTTACAAGC
*
9370088 TTGATTGGTATTAGAGCTAATTAGGTTTAG
1 TTGATTGGTATTAGAGCTAATTACGTTTAG
9370118 TTGATTGGTATTAGAGCTAATTACGTTTAG
1 TTGATTGGTATTAGAGCTAATTACGTTTAG
9370148 T
1 T
9370149 CGGTTCTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (30 bp):
TTGATTGGTATTAGAGCTAATTACGTTTAG
Found at i:9376895 original size:21 final size:21
Alignment explanation
Indices: 9376871--9376910 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9376861 TATTTTAGTT
9376871 TTTAGAGTTTAG-GGTTTTGTG
1 TTTAG-GTTTAGAGGTTTTGTG
9376892 TTTAGGTTTAGAGGTTTTG
1 TTTAGGTTTAGAGGTTTTG
9376911 ATAAAAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.53
Consensus pattern (21 bp):
TTTAGGTTTAGAGGTTTTGTG
Found at i:9377712 original size:9 final size:9
Alignment explanation
Indices: 9377701--9377758 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
9377691 GGATGAGGAT
*
9377701 GAAGAAGAT
1 GAAGAAGAA
*
9377710 GAAGAAGAC
1 GAAGAAGAA
*
9377719 GAAGACGAA
1 GAAGAAGAA
9377728 GAAGAAGAA
1 GAAGAAGAA
*
9377737 GAAGACGAA
1 GAAGAAGAA
* *
9377746 GACGAAGAT
1 GAAGAAGAA
9377755 GAAG
1 GAAG
9377759 CCGACGCCGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (9 bp):
GAAGAAGAA
Found at i:9377713 original size:6 final size:6
Alignment explanation
Indices: 9377701--9377758 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
9377691 GGATGAGGAT
* * * * *
9377701 GAAGAA GATGAA GAAGAC GAAGAC GAAGAA GAAGAA GAAGAC GAAGAC
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
*
9377749 GAAGAT GAAG
1 GAAGAA GAAG
9377759 CCGACGCCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (6 bp):
GAAGAA
Found at i:9377731 original size:18 final size:18
Alignment explanation
Indices: 9377710--9377758 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
9377700 TGAAGAAGAT
*
9377710 GAAGAAGACGAAGACGAA
1 GAAGAAGAAGAAGACGAA
9377728 GAAGAAGAAGAAGACGAA
1 GAAGAAGAAGAAGACGAA
* *
9377746 GACGAAGATGAAG
1 GAAGAAGAAGAAG
9377759 CCGACGCCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.35, T:0.02
Consensus pattern (18 bp):
GAAGAAGAAGAAGACGAA
Found at i:9377737 original size:24 final size:24
Alignment explanation
Indices: 9377701--9377758 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
9377691 GGATGAGGAT
*
9377701 GAAGAAGATGAAGAAGACGAAGAC
1 GAAGAAGAAGAAGAAGACGAAGAC
9377725 GAAGAAGAAGAAGAAGACGAAGAC
1 GAAGAAGAAGAAGAAGACGAAGAC
*
9377749 GAAGATGAAG
1 GAAGAAGAAG
9377759 CCGACGCCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (24 bp):
GAAGAAGAAGAAGAAGACGAAGAC
Found at i:9380250 original size:34 final size:35
Alignment explanation
Indices: 9380187--9380371 Score: 99
Period size: 35 Copynumber: 5.2 Consensus size: 35
9380177 AGAAAATAAA
* *
9380187 TGCCTTAGACGTGTTTAT-TCCAACCTTTTT-AAGAT
1 TGCCTTAAACGGGTTTATCT-CAA-CTTTTTAAAGAT
** * *
9380222 TGTTTTAAATGGGTTTATCTCAACTTTTTAAAGGT
1 TGCCTTAAACGGGTTTATCTCAACTTTTTAAAGAT
* *
9380257 TGCCTTAAACGGGTTTATTTTAACTTTTTTAAA-AGT
1 TGCCTTAAACGGGTTTATCTCAAC-TTTTTAAAGA-T
* * * * * *
9380293 TGTCTTAGACAAGGTATATCTTAACCTTTTT-AAGGT
1 TGCCTTAAAC-GGGTTTATCTCAA-CTTTTTAAAGAT
** * * * *
9380329 TGTATTAGACGGTTTTATCTCAGCCTTTTTAAAGGT
1 TGCCTTAAACGGGTTTATCTCA-ACTTTTTAAAGAT
9380365 TGCCTTA
1 TGCCTTA
9380372 GACAAGGTCT
Statistics
Matches: 115, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
34 6 0.05
35 53 0.46
36 40 0.35
37 15 0.13
38 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (35 bp):
TGCCTTAAACGGGTTTATCTCAACTTTTTAAAGAT
Found at i:9380323 original size:37 final size:36
Alignment explanation
Indices: 9380233--9380375 Score: 139
Period size: 36 Copynumber: 4.0 Consensus size: 36
9380223 GTTTTAAATG
* * *
9380233 GGTTTATCTCAA-CTTTTTAAAGGTTGCCTTAAACG
1 GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
* * * *
9380268 GGTTTATTTTAACTTTTTTAAAAGTTGTCTTAGACAA
1 GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGAC-A
* **
9380305 GGTATATCTTAACCTTTTT-AAGGTTGTATTAGAC-
1 GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
* *
9380339 GGTTTTATCTCAGCCTTTTTAAAGGTTGCCTTAGACA
1 GG-TTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
9380376 AGGTCTATTC
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
34 2 0.02
35 24 0.28
36 44 0.51
37 16 0.19
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (36 bp):
GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
Found at i:9380338 original size:36 final size:37
Alignment explanation
Indices: 9380237--9380396 Score: 125
Period size: 36 Copynumber: 4.4 Consensus size: 37
9380227 TAAATGGGTT
* * * * *
9380237 TATCTCAA-CTTTTTAAAGGTTGCCTTAAAC-GGGTT
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
* * *
9380272 TATTTTAACTTTTTTAAAAGTTGTCTTAGACAAGGTA
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
* *
9380309 TATCTTAACCTTTTT-AAGGTTGTATTAGAC--GGTTT
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGG-TA
* * * *
9380344 TATCTCAGCCTTTTTAAAGGTTGCCTTAGACAAGGTC
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
*
9380381 TAT-TCTAGCCTTTTTA
1 TATCT-TAACCTTTTTA
9380397 GGGTTGCTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
34 2 0.02
35 20 0.20
36 45 0.45
37 30 0.30
38 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (37 bp):
TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
Found at i:9380346 original size:72 final size:72
Alignment explanation
Indices: 9380237--9380435 Score: 195
Period size: 72 Copynumber: 2.8 Consensus size: 72
9380227 TAAATGGGTT
* * * * * *
9380237 TATCTCAA-CTTTTTAAAGGTTGCCTTAAACGGGTTTATTTTAACTTTTTTAAAAGTTGTCTTAG
1 TATCTTAACCTTTTT-AAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAGTTGCCTTAG
9380301 ACAAGGTA
65 ACAAGGTA
* * * * *
9380309 TATCTTAACCTTTTTAAGGTTGTATTAGACGGTTTTATCTCAGCCTTTTTAAAGGTTGCCTTAGA
1 TATCTTAACCTTTTTAAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAGTTGCCTTAGA
*
9380374 CAAGGTC
66 CAAGGTA
* * * * * * *
9380381 TAT-TCTAGCCTTTTTAGGGTTGCTTTAAATGGGTCTATCCCAACCTTTTTTAAAG
1 TATCT-TAACCTTTTTAAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAG
9380436 GTCAGCATTG
Statistics
Matches: 101, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
71 1 0.01
72 94 0.93
73 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (72 bp):
TATCTTAACCTTTTTAAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAGTTGCCTTAGA
CAAGGTA
Found at i:9383940 original size:19 final size:20
Alignment explanation
Indices: 9383908--9383946 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
9383898 AACATTTATC
* *
9383908 TTGTATTTTTATTAT-TTTA
1 TTGTATTGTAATTATGTTTA
9383927 TTGTATTGTAATTATGTTTA
1 TTGTATTGTAATTATGTTTA
9383947 AAGAAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTGTATTGTAATTATGTTTA
Found at i:9384312 original size:11 final size:11
Alignment explanation
Indices: 9384298--9384371 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 11
9384288 TTTTGATACA
9384298 TTTTATAATTT
1 TTTTATAATTT
*
9384309 TTTTATGA--T
1 TTTTATAATTT
*
9384318 TTTTATAA--A
1 TTTTATAATTT
* *
9384327 ATTTACAATTT
1 TTTTATAATTT
9384338 TTTATATAA--T
1 TTT-TATAATTT
9384348 TTTTATAATTT
1 TTTTATAATTT
*
9384359 TTTTATAGTTT
1 TTTTATAATTT
9384370 TT
1 TT
9384372 AATATTTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
9 19 0.39
10 4 0.08
11 22 0.45
12 4 0.08
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:9384350 original size:49 final size:48
Alignment explanation
Indices: 9384297--9384408 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 48
9384287 TTTTTGATAC
*
9384297 ATTTTATAATTTTTTTATGATTTTTATAAAATTTACA-ATTTTTTATATAA
1 ATTTTATAATTTTTTTAT-AGTTTT-TAAAATTTACATATTTTTTAT-TAA
* * **
9384347 TTTTTATAATTTTTTTATAGTTTTTAATATTTTTATATTTTTTATTAA
1 ATTTTATAATTTTTTTATAGTTTTTAAAATTTACATATTTTTTATTAA
9384395 ATTTTAATAATTTT
1 ATTTT-ATAATTTT
9384409 ATAACTTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 15 0.28
49 22 0.41
50 17 0.31
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (48 bp):
ATTTTATAATTTTTTTATAGTTTTTAAAATTTACATATTTTTTATTAA
Found at i:9384356 original size:9 final size:9
Alignment explanation
Indices: 9384298--9384443 Score: 77
Period size: 9 Copynumber: 15.4 Consensus size: 9
9384288 TTTTGATACA
9384298 TTTTATAATTT
1 TTTTATAA--T
*
9384309 TTTTATGAT
1 TTTTATAAT
*
9384318 TTTTATAAA
1 TTTTATAAT
* *
9384327 ATTTACAATTT
1 TTTTATAA--T
9384338 TTTATATAAT
1 TTT-TATAAT
9384348 TTTTATAATTT
1 TTTTATAA--T
*
9384359 TTTTATAGT
1 TTTTATAAT
9384368 TTTTA-ATAT
1 TTTTATA-AT
*
9384377 TTTTATATT
1 TTTTATAAT
9384386 TTTTATTAAAT
1 TTTTA-T-AAT
*
9384397 TTTAATAA-
1 TTTTATAAT
*
9384405 TTTTATAAC
1 TTTTATAAT
9384414 TTTTAT--T
1 TTTTATAAT
9384421 TATTTAT-AT
1 T-TTTATAAT
9384430 TATTTATAAT
1 T-TTTATAAT
9384440 TTTT
1 TTTT
9384444 TTGCCACATG
Statistics
Matches: 107, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
7 1 0.01
8 13 0.12
9 56 0.52
10 10 0.09
11 23 0.21
12 4 0.04
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:9384370 original size:20 final size:20
Alignment explanation
Indices: 9384298--9384445 Score: 90
Period size: 20 Copynumber: 7.2 Consensus size: 20
9384288 TTTTGATACA
* *
9384298 TTTTATAATTTTT-TTATGAT
1 TTTTATAATTTTTATAAT-TT
** *
9384318 TTTTATAAAATTTACAATTT
1 TTTTATAATTTTTATAATTT
9384338 TTTATATAATTTTTATAATTT
1 TTT-TATAATTTTTATAATTT
* *
9384359 TTTTAT-AGTTTT-TAATAT
1 TTTTATAATTTTTATAATTT
* *
9384377 TTTTATATTTTTTATTAA-AT
1 TTTTATAATTTTTA-TAATTT
*
9384397 TTTAATAA-TTTTATAACTTT
1 TTTTATAATTTTTATAA-TTT
9384417 TATTTATTTATATTATTTATAATTT
1 T-TTTA--TA-ATT-TTTATAATTT
9384442 TTTT
1 TTTT
9384446 GCCACATGTT
Statistics
Matches: 99, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.14
19 14 0.14
20 28 0.28
21 25 0.25
23 2 0.02
24 4 0.04
25 5 0.05
26 7 0.07
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTATAATTT
Found at i:9384379 original size:28 final size:27
Alignment explanation
Indices: 9384297--9384445 Score: 100
Period size: 28 Copynumber: 5.6 Consensus size: 27
9384287 TTTTTGATAC
*
9384297 ATTTTATAATTTTTTTATGATTTTTATAA
1 ATTTTATAATTTTTTTAT-ATTTTTA-AT
* *
9384326 AATTTACAA-TTTTTTATA----TAAT
1 ATTTTATAATTTTTTTATATTTTTAAT
9384348 -TTTTATAATTTTTTTATAGTTTTTAAT
1 ATTTTATAATTTTTTTATA-TTTTTAAT
* *
9384375 ATTTTTATATTTTTTATTA-AATTTTAAT
1 A-TTTTATAATTTTT-TTATATTTTTAAT
* * *
9384403 AATTTTATAACTTTTATT-TATTTATATT
1 -ATTTTATAA-TTTTTTTATATTTTTAAT
9384431 A-TTTATAATTTTTTT
1 ATTTTATAATTTTTTT
9384446 GCCACATGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 28
0.70 0.10 0.21
Matches are distributed among these distances:
21 6 0.06
22 10 0.11
23 2 0.02
25 6 0.06
26 7 0.07
27 6 0.06
28 30 0.32
29 25 0.26
30 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (27 bp):
ATTTTATAATTTTTTTATATTTTTAAT
Found at i:9386619 original size:11 final size:11
Alignment explanation
Indices: 9386603--9386631 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
9386593 TGACACAAAC
9386603 ATTGCTCAATA
1 ATTGCTCAATA
9386614 ATTGCTCAATA
1 ATTGCTCAATA
9386625 ATTGCTC
1 ATTGCTC
9386632 GCTACACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (11 bp):
ATTGCTCAATA
Found at i:9386621 original size:52 final size:52
Alignment explanation
Indices: 9386559--9386720 Score: 176
Period size: 52 Copynumber: 3.2 Consensus size: 52
9386549 AAGAGCGTGC
9386559 ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
1 ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
* * ** * **
9386611 ATAATTGCTCAATAA-TT-GCTC-GCTA-CACAT-CAACATAAAC-TT-CAAAAA
1 ATAATTGCTCAATAATTTAGTTCAGTTATCA-ATGTGACACAAACATTGC--TCA
*
9386659 ATAATTCCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
1 ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
9386711 ATAATTGCTC
1 ATAATTGCTC
9386721 GCTACACATC
Statistics
Matches: 84, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 24 0.29
49 7 0.08
50 6 0.07
51 7 0.08
52 34 0.40
53 2 0.02
54 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (52 bp):
ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
Found at i:9387099 original size:23 final size:23
Alignment explanation
Indices: 9387056--9387100 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9387046 GCTATATTTG
*
9387056 TTTAAAATTCATGTAATAAATTA
1 TTTAAAATTCATGTAAGAAATTA
9387079 TTTAAAATTCAT-TAAAGAAATT
1 TTTAAAATTCATGT-AAGAAATT
9387101 TACAGTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TTTAAAATTCATGTAAGAAATTA
Found at i:9390920 original size:14 final size:14
Alignment explanation
Indices: 9390903--9390933 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9390893 AATTACATAA
9390903 ATGATATTAGAAGT
1 ATGATATTAGAAGT
9390917 ATGATATTAGAAGT
1 ATGATATTAGAAGT
9390931 ATG
1 ATG
9390934 CTTGACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (14 bp):
ATGATATTAGAAGT
Found at i:9393891 original size:27 final size:27
Alignment explanation
Indices: 9393860--9393916 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
9393850 CCCTCTTTTC
*
9393860 AAAGCTTCAAGGATAAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
*
9393887 AAAGCTTAAAGGATCAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
9393914 AAA
1 AAA
9393917 TAGACAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.25, T:0.14
Consensus pattern (27 bp):
AAAGCTTAAAGGATAAGATGAAAAGGA
Found at i:9396533 original size:29 final size:31
Alignment explanation
Indices: 9396495--9396563 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
9396485 AAATAATATT
9396495 TCAGTCACTAA-ACTTT-C-AAAAGTGACAAA
1 TCAGTCACTAACA-TTTACGAAAAGTGACAAA
*
9396524 TCAGTTACTAACATTTACGAAAAGTGACAAA
1 TCAGTCACTAACATTTACGAAAAGTGACAAA
*
9396555 TCAATCACT
1 TCAGTCACT
9396564 CGAGCCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.38
30 2 0.06
31 19 0.56
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.26
Consensus pattern (31 bp):
TCAGTCACTAACATTTACGAAAAGTGACAAA
Found at i:9401947 original size:189 final size:189
Alignment explanation
Indices: 9401627--9402008 Score: 633
Period size: 189 Copynumber: 2.0 Consensus size: 189
9401617 TTCACAAATA
9401627 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* *
9401692 TCTGGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
66 TCTAGATTCTCCTGAAAACTTCGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
*
9401757 GGTTTTCAGACTCAGATACTGCCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
131 GGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
* * *
9401816 GCAGCATTCTCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACTGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* * *
9401881 T-TCAGATTCTCCTGAAACCTTCGTTTCACACTGAA-CTCTCTCTACAGAATCAGGCAATGATGC
66 TCT-AGATTCTCCTGAAAACTTCGTTTCACACTGAACCT-TATCTACACAATCAGGCAATGATGC
* *
9401944 TGGGTTTTCAGACTCGGATACTACCTGTCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
129 TGGGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
9402005 GCAG
1 GCAG
9402009 TCACCCTGCC
Statistics
Matches: 180, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 3 0.02
189 177 0.98
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (189 bp):
GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
TCTAGATTCTCCTGAAAACTTCGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
GGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
Found at i:9414937 original size:3 final size:3
Alignment explanation
Indices: 9414929--9414998 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
9414919 TATATATATA
* * **
9414929 TAT TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TAT TAT GGT T-T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
*
9414974 TA- TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
9414999 AATAAATTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.11
3 41 0.77
4 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9415508 original size:12 final size:12
Alignment explanation
Indices: 9415493--9415534 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
9415483 AAAACAGAGG
9415493 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
9415505 AGAAAAAGGGAA
1 AGAAAAAGAGAA
9415517 AG-AAAAGA-AA
1 AGAAAAAGAGAA
9415527 AGGAAAAA
1 A-GAAAAA
9415535 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 3 0.12
11 6 0.23
12 17 0.65
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:9416272 original size:21 final size:21
Alignment explanation
Indices: 9416246--9416313 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
9416236 TTGTTTTGAG
9416246 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
9416267 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* *
9416285 GTACTGCATTGAATTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
9416307 TACTGAA
1 TACTGAA
9416314 GTAATGAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
18 8 0.22
19 6 0.17
20 2 0.06
21 13 0.36
22 7 0.19
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:9416279 original size:40 final size:40
Alignment explanation
Indices: 9416207--9416313 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
9416197 TTGAGACTGA
* * * *
9416207 TACTGAACTGAATTATGGAA-TACTGAATATTGTTTTGAG
1 TACTGAATTGAATTGTGAAATTACTGAATATTGTTATGAG
* *
9416246 TACTGAATTGAATTGTGAAGTTACTGAATATTGTTATGTG
1 TACTGAATTGAATTGTGAAATTACTGAATATTGTTATGAG
*
9416286 TACTGCATTGAATTGTGAAATTACTGAA
1 TACTGAATTGAATTGTGAAATTACTGAA
9416314 GTAATGAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 16 0.27
40 43 0.73
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (40 bp):
TACTGAATTGAATTGTGAAATTACTGAATATTGTTATGAG
Found at i:9419668 original size:45 final size:44
Alignment explanation
Indices: 9419562--9419668 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 44
9419552 TGACTACTGT
* *
9419562 TACTGTTATCGTTACTATTACCAATTCGACAATTTGTGTCTCGAA
1 TACTGTTATCGTTACTGTTACAAATTCGAC-ATTTGTGTCTCGAA
* * *
9419607 TACTGTTACCGTTACTGTTACAAATTCAGTAC-TTTGTGTGTTGAA
1 TACTGTTATCGTTACTGTTACAAATTC-G-ACATTTGTGTCTCGAA
*
9419652 TACTGTTATTGTTACTG
1 TACTGTTATCGTTACTG
9419669 CTATCGTTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 50 0.94
46 1 0.02
47 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (44 bp):
TACTGTTATCGTTACTGTTACAAATTCGACATTTGTGTCTCGAA
Found at i:9425680 original size:127 final size:127
Alignment explanation
Indices: 9425454--9425707 Score: 490
Period size: 127 Copynumber: 2.0 Consensus size: 127
9425444 TAAAAATAAT
9425454 TGTTAGAAATATTTATAAGTTTAGTGGTGTGTCTAATTAGGTTTTAATTAGGTGAATTTAGCTTA
1 TGTTAGAAATATTTATAAGTTTAGTGGTGTGTCTAATTAGGTTTTAATTAGGTGAATTTAGCTTA
9425519 ATTTAGAGTAATTAGCAAAAATGACTAAACTGAATAAGAGGTAAAAGTTTAAATCTAAAGTA
66 ATTTAGAGTAATTAGCAAAAATGACTAAACTGAATAAGAGGTAAAAGTTTAAATCTAAAGTA
*
9425581 TGTTAGAAATATTTATGAGTTTAGTGGTGTGTCTAATTAGGTTTTAATTAGGTGAATTTAGCTTA
1 TGTTAGAAATATTTATAAGTTTAGTGGTGTGTCTAATTAGGTTTTAATTAGGTGAATTTAGCTTA
*
9425646 ATTTAGAGTAATTAGCAAAAATGACTAAATTGAATAAGAGGTAAAAGTTTAAATCTAAAGTA
66 ATTTAGAGTAATTAGCAAAAATGACTAAACTGAATAAGAGGTAAAAGTTTAAATCTAAAGTA
9425708 ATAGAAAGTA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.37
Consensus pattern (127 bp):
TGTTAGAAATATTTATAAGTTTAGTGGTGTGTCTAATTAGGTTTTAATTAGGTGAATTTAGCTTA
ATTTAGAGTAATTAGCAAAAATGACTAAACTGAATAAGAGGTAAAAGTTTAAATCTAAAGTA
Found at i:9425841 original size:3 final size:3
Alignment explanation
Indices: 9425808--9425879 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
9425798 AGATTATATA
* * **
9425808 TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TAT TAT GGT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT
*
9425853 T-T TA- TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9425880 AATAAATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:9425847 original size:16 final size:15
Alignment explanation
Indices: 9425800--9425879 Score: 51
Period size: 16 Copynumber: 5.3 Consensus size: 15
9425790 TTTTATTTAG
9425800 ATTATATATATT-A-T
1 ATTATAT-TATTAATT
* *
9425814 ATTATATAATTGATT
1 ATTATATTATTAATT
9425829 ATTATAATTATTAATT
1 ATTAT-ATTATTAATT
*
9425845 ATTATGGTT-TTATATT
1 ATTAT-ATTATTA-ATT
*
9425861 ATTATTAGTATT-ATT
1 ATTA-TATTATTAATT
9425876 ATTA
1 ATTA
9425880 AATAAATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
13 3 0.06
14 8 0.15
15 16 0.30
16 23 0.43
17 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
ATTATATTATTAATT
Found at i:9426381 original size:12 final size:12
Alignment explanation
Indices: 9426366--9426408 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
9426356 AAAACAGAGG
9426366 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
9426378 AGAAAAAGGGAA
1 AGAAAAAGAGAA
*
9426390 AG-AAAAGAAAA
1 AGAAAAAGAGAA
9426401 AGGAAAAA
1 A-GAAAAA
9426409 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 8 0.31
12 14 0.54
13 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:9426398 original size:17 final size:18
Alignment explanation
Indices: 9426370--9426403 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9426360 CAGAGGAGAA
9426370 AAAGAGAAAGAAAAAGGG
1 AAAGAGAAAGAAAAAGGG
9426388 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
9426404 AAAAACTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAGAAAGAAAAAGGG
Found at i:9427460 original size:45 final size:45
Alignment explanation
Indices: 9427396--9427508 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
9427386 TGACTACTGC
9427396 TACTGTTACCGTTACTGTTACCA-ATTCAACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTA-CAGATTCAACACTTTGTGTGTCGAA
** *
9427441 TACTGTTACCGTTACTGTTACAGATTCAGTACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
** *
9427486 TACTGTTATTGTTACTGCTACAG
1 TACTGTTACCGTTACTGTTACAG
9427509 TTACTGATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 2 0.03
45 59 0.97
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:9427499 original size:51 final size:49
Alignment explanation
Indices: 9427381--9427500 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 49
9427371 GAGACACTTA
* *
9427381 TGTGCTGACTACTGCTACTGTTACCGTTACTGTTACCAATTCAACACTTTG
1 TGTGTTGAATACTG-TA-TGTTACCGTTACTGTTACCAATTCAACACTTTG
* **
9427432 TGTGTCGAATAC----TGTTACCGTTACTGTTA-CAGATTCAGTACTTTG
1 TGTGTTGAATACTGTATGTTACCGTTACTGTTACCA-ATTCAACACTTTG
9427477 TGTGTTGAATACTGTTATTGTTAC
1 TGTGTTGAATACTG-TA-TGTTAC
9427501 TGCTACAGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
44 2 0.04
45 39 0.70
51 15 0.27
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (49 bp):
TGTGTTGAATACTGTATGTTACCGTTACTGTTACCAATTCAACACTTTG
Found at i:9441895 original size:36 final size:36
Alignment explanation
Indices: 9441855--9441935 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
9441845 TATTCCAACC
* *
9441855 GAAACACATCAGATGCTCATAATAACTAATCCATCT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
* * *
9441891 GAAACACATCAGATGCTTATACGATCCAATCCATCT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
9441927 GATAACACA
1 GA-AACACA
9441936 CCAATGTCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 33 0.85
37 6 0.15
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (36 bp):
GAAACACATCAGATGCTCATAAGAACCAATCCATCT
Found at i:9445511 original size:31 final size:29
Alignment explanation
Indices: 9445437--9445515 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
9445427 GACAAAAACC
* *
9445437 TTTTTCCTACATTTAATGTCTTAATGGCT
1 TTTTTCATACATTTAATGTCTTAACGGCT
* *
9445466 TTTTCCATACATTTAATGTCTTAACACGGTT
1 TTTTTCATACATTTAATGTCTT-A-ACGGCT
* *
9445497 TTTTTCTTAAATTTAATGT
1 TTTTTCATACATTTAATGT
9445516 ATTTTCCTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 20 0.49
30 1 0.02
31 20 0.49
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTTTCATACATTTAATGTCTTAACGGCT
Found at i:9448573 original size:25 final size:24
Alignment explanation
Indices: 9448529--9448627 Score: 65
Period size: 25 Copynumber: 4.0 Consensus size: 24
9448519 AGCTTCCCGA
9448529 TATTGGCTCGCTTGAACTTTCCTGT
1 TATTGGCTCGCTTGAACTTTCC-GT
* *
9448554 TATTGGCTCG-TATGATCTTTTCGT
1 TATTGGCTCGCT-TGAACTTTCCGT
* * * * * *
9448578 TAATGGCTCTCTAGAGCTTCCCGA
1 TATTGGCTCGCTTGAACTTTCCGT
* * *
9448602 TACATGGCTCGCATGAGCTTTCCGT
1 TA-TTGGCTCGCTTGAACTTTCCGT
9448627 T
1 T
9448628 TATATGCTCA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 20 0.35
25 37 0.65
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.39
Consensus pattern (24 bp):
TATTGGCTCGCTTGAACTTTCCGT
Found at i:9452775 original size:293 final size:294
Alignment explanation
Indices: 9452247--9452824 Score: 1034
Period size: 293 Copynumber: 2.0 Consensus size: 294
9452237 TCGTAAAAAC
** *
9452247 CAAAGAGAAATAAGGCGAAGCTTAAGATACATGGAGAACAGGCAAGAAGACGATACTCAACCCCC
1 CAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACAGGAAAGAAGACGATACTCAACCCCC
* * *
9452312 AAATTGAAGAGATGGCTGAAAACCAAGGCAATCAGCTACCTCCTGCAATTGCGGTTAATCAAAAT
66 AAACTGAAGAGATGGCTAAAAACCAAGACAATCAGCTACCTCCTGCAATTGCGGTTAATCAAAAT
9452377 CCTGCTCCACGCACTATATATGATTATGCTAAACCTTCTCTAACAGGAACTGAATCAAGCATAGC
131 CCTGCTCCACGCACTATATATGATTATGCTAAACCTTCTCTAACAGGAACTGAATCAAGCATAGC
9452442 TAGACCTGCTATAGCTACAAATACTTTTGAATTAAAACCTAACACTATTCAAATGATACAACAAT
196 TAGACCTGCTATAGCTACAAATACTTTTGAATTAAAACCTAACACTATTCAAATGATACAACAAT
9452507 TTGTTCAATTTGATGGTTTGCAGGACGCAGACAT
261 TTGTTCAATTTGATGGTTTGCAGGACGCAGACAT
* * * *
9452541 CAAAGAGAAATAAGGCGAAGCTTAAGATATACAGAGAAC-GAGAAAGAGGAGGATCCTCAACCCC
1 CAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACAG-GAAAGAAGACGATACTCAACCCC
*
9452605 C-AACTGACGAGATGGCTAAAAACCAAGACAATCAGCTACCTCCTGCAATTGCGGTTAATCAAAA
65 CAAACTGAAGAGATGGCTAAAAACCAAGACAATCAGCTACCTCCTGCAATTGCGGTTAATCAAAA
9452669 TCCTGCTCCACGCACTATATATGATTATGCTAAACCTTCTCTAACAGGAACTGAATCAAGCATAG
130 TCCTGCTCCACGCACTATATATGATTATGCTAAACCTTCTCTAACAGGAACTGAATCAAGCATAG
9452734 CTAGACCTGCTATAGCTACAAATACTTTTGAATTAAAACCTAACACTATTCAAATGATACAACAA
195 CTAGACCTGCTATAGCTACAAATACTTTTGAATTAAAACCTAACACTATTCAAATGATACAACAA
9452799 TTTGTTCAATTTGATGGTTTGCAGGA
260 TTTGTTCAATTTGATGGTTTGCAGGA
9452825 TGAGGATCCC
Statistics
Matches: 272, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
293 216 0.79
294 56 0.21
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (294 bp):
CAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACAGGAAAGAAGACGATACTCAACCCCC
AAACTGAAGAGATGGCTAAAAACCAAGACAATCAGCTACCTCCTGCAATTGCGGTTAATCAAAAT
CCTGCTCCACGCACTATATATGATTATGCTAAACCTTCTCTAACAGGAACTGAATCAAGCATAGC
TAGACCTGCTATAGCTACAAATACTTTTGAATTAAAACCTAACACTATTCAAATGATACAACAAT
TTGTTCAATTTGATGGTTTGCAGGACGCAGACAT
Found at i:9461423 original size:52 final size:52
Alignment explanation
Indices: 9461362--9461462 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
9461352 GCAGATGTAC
*
9461362 GTCTGCATATGTGTGCATGTGGATGCCCCAACTCAGAATACCAGTTCCATAT
1 GTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCATAT
*
9461414 GTCTGCATATGTGTGCATGTGGATACCCCAACTTAGAATACCAGTTCCA
1 GTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCA
9461463 AACATATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (52 bp):
GTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCATAT
Found at i:9467888 original size:42 final size:42
Alignment explanation
Indices: 9467840--9467921 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
9467830 CTTCCTCAGC
9467840 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTCGT
1 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTCGT
9467882 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTC
1 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTC
9467922 TCATCCATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.35
Consensus pattern (42 bp):
CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTCGT
Found at i:9468194 original size:9 final size:9
Alignment explanation
Indices: 9468180--9468248 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
9468170 AATAAGTATA
9468180 AAATTAACC
1 AAATTAACC
9468189 AAATTAACC
1 AAATTAACC
*
9468198 GAATTAACC
1 AAATTAACC
*
9468207 AAATTACCC
1 AAATTAACC
9468216 AAATTAACC
1 AAATTAACC
*
9468225 AAATTAATC
1 AAATTAACC
*
9468234 GAATTAACC
1 AAATTAACC
*
9468243 GAATTA
1 AAATTA
9468249 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (9 bp):
AAATTAACC
Found at i:9468227 original size:36 final size:36
Alignment explanation
Indices: 9468180--9468248 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
9468170 AATAAGTATA
9468180 AAATTAACCAAATTAACCGAATTAACCAAATTACCC
1 AAATTAACCAAATTAACCGAATTAACCAAATTACCC
* *
9468216 AAATTAACCAAATTAATCGAATTAACCGAATTA
1 AAATTAACCAAATTAACCGAATTAACCAAATTA
9468249 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (36 bp):
AAATTAACCAAATTAACCGAATTAACCAAATTACCC
Found at i:9468284 original size:5 final size:6
Alignment explanation
Indices: 9468269--9468307 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
9468259 ATTATATGTT
*
9468269 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTGTTA T
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA T
9468308 ATATTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 24 0.80
8 6 0.20
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:9470843 original size:42 final size:42
Alignment explanation
Indices: 9470796--9470882 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
9470786 GTCTAGAATA
9470796 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
9470838 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
9470880 AAC
1 AAC
9470883 GAGAGAGTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (42 bp):
AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
Found at i:9483455 original size:22 final size:21
Alignment explanation
Indices: 9483427--9483468 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
9483417 TTTAATTTAC
*
9483427 TTTTTAATTATTTTACAATAAT
1 TTTTTAAATATTTTA-AATAAT
9483449 TTTTTAAATATTTTAAATAA
1 TTTTTAAATATTTTAAATAA
9483469 AAAATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTAAATATTTTAAATAAT
Found at i:9484383 original size:18 final size:20
Alignment explanation
Indices: 9484335--9484385 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
9484325 ATTTAAGGCT
*
9484335 TTTTAAAATTTTTTAAATAG
1 TTTTAATATTTTTTAAATAG
* *
9484355 TTTGAAT-TTTTTT-TATA-
1 TTTTAATATTTTTTAAATAG
9484372 TTTTAATATTTTTT
1 TTTTAATATTTTTT
9484386 GAGTTTGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 6 0.23
20 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTAATATTTTTTAAATAG
Found at i:9484810 original size:27 final size:27
Alignment explanation
Indices: 9484772--9484827 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
9484762 GGGATTTATC
*
9484772 TATTTTTATAATTTAATGAATTTTTAA
1 TATTTTTATAATTTAATGAATTTTAAA
* **
9484799 TATTTTTCTAATTTTTTGAATTTTAAA
1 TATTTTTATAATTTAATGAATTTTAAA
9484826 TA
1 TA
9484828 AATTTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
TATTTTTATAATTTAATGAATTTTAAA
Found at i:9486448 original size:31 final size:31
Alignment explanation
Indices: 9486390--9486448 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9486380 ATGACCAAAT
* * *
9486390 TAAAGTACAATGACTAAAATCATAACTTTTG
1 TAAACTACAATGACTAAAAGCAGAACTTTTG
*
9486421 TAAACTACAATGACTAATAGCAGAACTT
1 TAAACTACAATGACTAAAAGCAGAACTT
9486449 AACCTAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (31 bp):
TAAACTACAATGACTAAAAGCAGAACTTTTG
Found at i:9488979 original size:29 final size:29
Alignment explanation
Indices: 9488946--9489004 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9488936 GGTATGATAG
9488946 ATCAATATCCATCGATCAGTCAAAAACAT
1 ATCAATATCCATCGATCAGTCAAAAACAT
9488975 ATCAATATCCATCGATCAGTCAAAAACAT
1 ATCAATATCCATCGATCAGTCAAAAACAT
9489004 A
1 A
9489005 CTTTAGATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.24
Consensus pattern (29 bp):
ATCAATATCCATCGATCAGTCAAAAACAT
Found at i:9489235 original size:22 final size:22
Alignment explanation
Indices: 9489209--9489259 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
9489199 CGATAACTTA
*
9489209 AATAATT-TTTTTTAAATATTTT
1 AATAATTATTTTATAAA-ATTTT
9489231 AATAATTATTTTATAAAATTTT
1 AATAATTATTTTATAAAATTTT
9489253 AA-AATTA
1 AATAATTA
9489260 AACAATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATAATTATTTTATAAAATTTT
Found at i:9492001 original size:22 final size:22
Alignment explanation
Indices: 9491968--9492009 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
9491958 TAAATACGTT
9491968 ATTTAGGAGCCTTTGTGGCTGA
1 ATTTAGGAGCCTTTGTGGCTGA
9491990 ATTT-GGATGCCTTTGTGGCT
1 ATTTAGGA-GCCTTTGTGGCT
9492010 ATCTTGCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.40
Consensus pattern (22 bp):
ATTTAGGAGCCTTTGTGGCTGA
Found at i:9497250 original size:36 final size:36
Alignment explanation
Indices: 9497170--9497260 Score: 85
Period size: 36 Copynumber: 2.5 Consensus size: 36
9497160 TCGGAGCCAT
* * * *
9497170 TGGTGTGTTATCGGGTGGACTGGCTCGTATGAGCATC
1 TGGTGTG-TATCAGTTGGACTAGCTCGTATAAGCATC
**
9497207 TAATGTGTATCAGTTGGACTAGCTC-TCATAAGCATC
1 TGGTGTGTATCAGTTGGACTAGCTCGT-ATAAGCATC
* *
9497243 TGGTGTGTTTTAGTTGGA
1 TGGTGTGTATCAGTTGGA
9497261 ATATCGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
35 1 0.02
36 37 0.86
37 5 0.12
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.36
Consensus pattern (36 bp):
TGGTGTGTATCAGTTGGACTAGCTCGTATAAGCATC
Found at i:9502804 original size:24 final size:24
Alignment explanation
Indices: 9502772--9502843 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
9502762 TTGGATGGGA
9502772 AATGATTAGAAGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
*
9502796 AATGATTAGAGGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
9502820 AATGATTAGAAGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
9502844 TTATTAGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.29
Consensus pattern (24 bp):
AATGATTAGAAGATGAATTCTAAC
Found at i:9506226 original size:20 final size:20
Alignment explanation
Indices: 9506155--9506226 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
9506145 AAATTCATGG
* *
9506155 TTATGATTAGGATATGAGTA
1 TTATGATTTGGATTTGAGTA
* *
9506175 TTATGATTTTAGATGATTGAGTT
1 TTATGA-TTTGGAT--TTGAGTA
9506198 TTATGATTTGGATTTGAGTA
1 TTATGATTTGGATTTGAGTA
9506218 TTATGATTT
1 TTATGATTT
9506227 TAGATTCGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 21 0.49
21 5 0.12
22 6 0.14
23 11 0.26
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (20 bp):
TTATGATTTGGATTTGAGTA
Found at i:9508043 original size:13 final size:13
Alignment explanation
Indices: 9508018--9508049 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9508008 ATAGCACATT
9508018 TCAAAAC-ATGCA
1 TCAAAACTATGCA
9508030 TCAAAACTATGCA
1 TCAAAACTATGCA
9508043 T-AAAACT
1 TCAAAACT
9508050 TAATATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:9518484 original size:16 final size:17
Alignment explanation
Indices: 9518463--9518498 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
9518453 TTATTTTAAA
9518463 AAATTTATAAAAAT-AT
1 AAATTTATAAAAATAAT
9518479 AAATTTATAAAAATAAT
1 AAATTTATAAAAATAAT
9518496 AAA
1 AAA
9518499 AAGCATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTTATAAAAATAAT
Found at i:9518574 original size:8 final size:8
Alignment explanation
Indices: 9518538--9518590 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
9518528 AAAAGTTGCA
9518538 ATATAATAT
1 ATATAA-AT
9518547 ATATAAAT
1 ATATAAAT
*
9518555 TTA-AAAT
1 ATATAAAT
*
9518562 TTATAAAT
1 ATATAAAT
9518570 ATATAGAAAT
1 ATAT--AAAT
9518580 ATATAAAT
1 ATATAAAT
9518588 ATA
1 ATA
9518591 AATTTATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
7 7 0.18
8 18 0.46
9 6 0.15
10 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:9518607 original size:33 final size:33
Alignment explanation
Indices: 9518537--9518612 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
9518527 AAAAAGTTGC
* *
9518537 AATATA-ATATATATAAATTTAAAATTTATAAA
1 AATATAGAAATATATAAATATAAAATTTATAAA
*
9518569 TATATAGAAATATATAAATAT-AAATTTATAAAA
1 AATATAGAAATATATAAATATAAAATTTAT-AAA
9518602 AATATATGAAA
1 AATATA-GAAA
9518613 GAATTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 13 0.35
33 20 0.54
34 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (33 bp):
AATATAGAAATATATAAATATAAAATTTATAAA
Found at i:9518675 original size:31 final size:32
Alignment explanation
Indices: 9518633--9518696 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
9518623 CACATCTATA
* * *
9518633 TTGAATATGAACACTGA-TTGTCTAGATGCAT
1 TTGAATATGAACAATCATTTGTCTAGATCCAT
*
9518664 TTGAATTTGAACAATCATTTGTCTAGATCCAT
1 TTGAATATGAACAATCATTTGTCTAGATCCAT
9518696 T
1 T
9518697 ATTTGATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (32 bp):
TTGAATATGAACAATCATTTGTCTAGATCCAT
Found at i:9520694 original size:21 final size:21
Alignment explanation
Indices: 9520669--9520708 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9520659 GTTTATATTT
*
9520669 ATTAATCATATTTACTTAATG
1 ATTAATCATATTTAATTAATG
*
9520690 ATTAATCTTATTTAATTAA
1 ATTAATCATATTTAATTAA
9520709 AGGTAAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTAATCATATTTAATTAATG
Found at i:9523699 original size:26 final size:26
Alignment explanation
Indices: 9523650--9523702 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
9523640 GTAAACCAAC
*
9523650 TAATTATCTAAAAAAAGACTAAAAAA
1 TAATTATCTAAAAAAAGACAAAAAAA
* *
9523676 TAATTATCTAAGAAAAGGAAAAAAAAA
1 TAATTATCTAA-AAAAAGACAAAAAAA
9523703 CACTAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.21
Consensus pattern (26 bp):
TAATTATCTAAAAAAAGACAAAAAAA
Found at i:9527719 original size:17 final size:16
Alignment explanation
Indices: 9527678--9527719 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
9527668 CTCTCCCACT
9527678 ACTAAAATAAAAATAA
1 ACTAAAATAAAAATAA
9527694 ACTAGAAATAAAATAATAA
1 ACTA-AAAT-AAA-AATAA
9527713 AC-AAAAT
1 ACTAAAAT
9527720 CTTTAATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 4 0.17
19 7 0.30
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (16 bp):
ACTAAAATAAAAATAA
Found at i:9532962 original size:49 final size:49
Alignment explanation
Indices: 9532880--9533038 Score: 221
Period size: 49 Copynumber: 3.3 Consensus size: 49
9532870 ATAAATTATG
* * ** *
9532880 TTATGCATTTCTAAACTGGGTCTTCCATTGTCTACACTCTCATCACTAT
1 TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
* *
9532929 TTATACATTGCTAAACTTCGTCTTCCATTGTCTATACTCTTATCACTAT
1 TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
* *
9532978 TTATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTAT
1 TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
*
9533027 TTATCCA-TGCTA
1 TTATACATTGCTA
9533039 GAATGTCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 5 0.05
49 94 0.95
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (49 bp):
TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
Found at i:9538430 original size:3 final size:3
Alignment explanation
Indices: 9538399--9538495 Score: 108
Period size: 3 Copynumber: 32.3 Consensus size: 3
9538389 ATACACGTAC
* *
9538399 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
9538446 ATA ATA ATA ATA ATA ATA GTA ATA CTA ATA ACA CTA ATA AT- ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9538492 ATA A
1 ATA A
9538496 CAAGGATATT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.05
3 68 0.87
4 6 0.08
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9540426 original size:55 final size:55
Alignment explanation
Indices: 9540343--9540516 Score: 287
Period size: 57 Copynumber: 3.1 Consensus size: 55
9540333 TAAAAGCAGA
*
9540343 TTTTGAAAAACA-GAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
9540397 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
* *
9540454 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
9540509 TTTTGAAA
1 TTTTGAAA
9540517 GGTAGAAATT
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
54 12 0.11
55 48 0.43
57 52 0.46
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (55 bp):
TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:9540762 original size:168 final size:170
Alignment explanation
Indices: 9540454--9540776 Score: 479
Period size: 168 Copynumber: 1.9 Consensus size: 170
9540444 GAGTTGATTT
* * * **
9540454 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGG
1 TTTTGAAAAACAGAAATTGAAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * * * * *
9540519 TAGAAATTGAAAAAAAATAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTC
66 CAGAAACTG---AAAAATAAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTC
9540584 GCAATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGG
128 GCAATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGG
9540627 TTTTGAAAAACAGAAATT-AAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 TTTTGAAAAACAGAAATTGAAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
9540691 CAGAAACTG-AAAATAGAAATTGAAAATACCTCTGCATGCCCCGAGGCTCAACTCACCTCTCGCA
66 CAGAAACTGAAAAATAAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCA
9540755 ATATGAGTTGATTTTTTTGAAA
131 ATATGAGTTGATTTTTTTGAAA
9540777 ACATGAATTG
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
168 70 0.51
172 49 0.36
173 17 0.12
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (170 bp):
TTTTGAAAAACAGAAATTGAAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
CAGAAACTGAAAAATAAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGG
Found at i:9540838 original size:89 final size:86
Alignment explanation
Indices: 9540477--9540946 Score: 402
Period size: 89 Copynumber: 5.4 Consensus size: 86
9540467 AAATTGAAAG
** *
9540477 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGGTAGAAATTGAAAAAAAATAAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAT-G-AATTG---AAAAATAGAA
*
9540541 ATTGAAATTACCTCAGCGTGTCCTGA
61 ATTGAAATTACCTCAGCGTGTCATGA
* * * * ***
9540567 GGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGGTTTTG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAACATGAATTGAAAAATAGAAATTG
* ** **
9540632 AAA--A--ACAGAAAT-T-AAAA
65 AAATTACCTCAG-CGTGTCATGA
* *
9540649 GACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACA-GAAACTG-AAAATAGAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAACATG-AATTGAAAAATAGAAAT
* * * * **
9540711 TGAAAATACCTCTGCATGCCCCGA
63 TGAAATTACCTCAGCGTGTCATGA
9540735 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATGAATTGAGAAAATAGAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAACATGAATTGA-AAAATAGAAAT
* * *
9540800 TGCAATTACCTCAACGGGTCATGA
63 TGAAATTACCTCAGCGTGTCATGA
* * * ** * *
9540824 GGCTCAACTTACCTCTCGCATTATGAGTTGACTTTTTGAAAGGTAGAATTTTGAAAAACAAAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAT-GAA--TTGAAAAATAGAAAT
*
9540889 TGAAATTACCTCAGCGTGTCGTGA
63 TGAAATTACCTCAGCGTGTCATGA
*
9540913 GGCTCAACTCAACTCTCGCAATATGAGTTGATTT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTT
9540947 CTGAGAACAG
Statistics
Matches: 303, Mismatches: 57, Indels: 41
0.76 0.14 0.10
Matches are distributed among these distances:
80 6 0.02
81 13 0.04
82 37 0.12
83 5 0.02
84 3 0.01
85 3 0.01
86 31 0.10
87 26 0.09
88 16 0.05
89 114 0.38
90 38 0.13
91 1 0.00
92 10 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (86 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATGAATTGAAAAATAGAAATTGA
AATTACCTCAGCGTGTCATGA
Found at i:9540971 original size:89 final size:87
Alignment explanation
Indices: 9540733--9540971 Score: 219
Period size: 89 Copynumber: 2.7 Consensus size: 87
9540723 TGCATGCCCC
* ** * *
9540733 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATGAATTGA-GAAAATAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGAAAAAAT-ACGAAAACAGA
* * *
9540797 AATTGCAATTACCTCAACGGGTCAT
63 AATTGAAATTACCTCAGCGTGTCAT
* * * * * * ** *
9540822 GAGGCTCAACTTACCTCTCGCATTATGAGTTGACTTTTTGAAAGGTAGAATTTTGAAAAACAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGAAAAAATACG-AAAACAGAA
*
9540887 ATTGAAATTACCTCAGCGTGTCGT
64 ATTGAAATTACCTCAGCGTGTCAT
* * *
9540911 GAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTCTGAGAACAGAAAAAATACCAAAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AA-AGAAAAAATACGAAAAC
9540972 CTGTCATTTG
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
88 21 0.17
89 95 0.79
90 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (87 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGAAAAAATACGAAAACAGAAAT
TGAAATTACCTCAGCGTGTCAT
Found at i:9543307 original size:9 final size:9
Alignment explanation
Indices: 9543293--9543331 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
9543283 TTAATCTCTC
9543293 TTTTTGTTT
1 TTTTTGTTT
9543302 TTTTTGTTTTT
1 TTTTTG--TTT
9543313 TTTTTGTTT
1 TTTTTGTTT
*
9543322 TTTTTCTTT
1 TTTTTGTTT
9543331 T
1 T
9543332 CATGACTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.90
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:9543315 original size:11 final size:11
Alignment explanation
Indices: 9543299--9543326 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9543289 TCTCTTTTTG
9543299 TTTTTTTTGTT
1 TTTTTTTTGTT
9543310 TTTTTTTTGTT
1 TTTTTTTTGTT
9543321 TTTTTT
1 TTTTTT
9543327 CTTTTCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:9543316 original size:20 final size:20
Alignment explanation
Indices: 9543293--9543331 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9543283 TTAATCTCTC
*
9543293 TTTTTGTTTTTTTTGTTTTT
1 TTTTTGTTTTTTTTCTTTTT
9543313 TTTTTGTTTTTTTTCTTTT
1 TTTTTGTTTTTTTTCTTTT
9543332 CATGACTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.90
Consensus pattern (20 bp):
TTTTTGTTTTTTTTCTTTTT
Found at i:9545513 original size:93 final size:93
Alignment explanation
Indices: 9545354--9545540 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
9545344 CAAGACCTTA
9545354 CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
1 CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
9545419 TTCATTCTTTCAATTCTCTCATTGAATT
66 TTCATTCTTTCAATTCTCTCATTGAATT
*
9545447 CCATCAGATCTCTCGTTTCTTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
1 CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
9545512 TTCATTCTTTCAATTCTCTCATTGAATT
66 TTCATTCTTTCAATTCTCTCATTGAATT
9545540 C
1 C
9545541 GGCCTCCATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (93 bp):
CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
TTCATTCTTTCAATTCTCTCATTGAATT
Found at i:9547857 original size:21 final size:22
Alignment explanation
Indices: 9547814--9547857 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9547804 AGATATATGT
* * *
9547814 ATATATATAATATAATATTAAA
1 ATATATATAATACAACATAAAA
9547836 ATATA-ATAATACAACATAAAA
1 ATATATATAATACAACATAAAA
9547857 A
1 A
9547858 AAATACATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATATATAATACAACATAAAA
Found at i:9548204 original size:3 final size:3
Alignment explanation
Indices: 9548173--9548246 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
9548163 ATACACGTAC
* * *
9548173 ATA ATA AAA AT- ATA A-A CTA ATA CATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * *
9548217 ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9548247 CAAGGATATT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 5 0.09
3 47 0.85
4 3 0.05
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9548836 original size:21 final size:21
Alignment explanation
Indices: 9548812--9548854 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9548802 GGTAAGTTTT
* *
9548812 TTTTCTCTTTTTTTTTTTATA
1 TTTTCTCTTATTTTTTATATA
* *
9548833 TTTTTTGTTATTTTTTATATA
1 TTTTCTCTTATTTTTTATATA
9548854 T
1 T
9548855 ATGTATATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTCTTATTTTTTATATA
Found at i:9554231 original size:5 final size:5
Alignment explanation
Indices: 9554216--9554263 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
9554206 ATGTTGGTTA
*
9554216 ATATT AAATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
9554264 ATGAAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:9554603 original size:9 final size:9
Alignment explanation
Indices: 9554589--9554622 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9554579 AAATAGATAT
9554589 TTATTATAA
1 TTATTATAA
9554598 TTATTATAA
1 TTATTATAA
*
9554607 TGTATTATTA
1 T-TATTATAA
9554617 TTATTA
1 TTATTA
9554623 ACAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATTATAA
Found at i:9554713 original size:4 final size:4
Alignment explanation
Indices: 9554704--9554738 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
9554694 AAAACAGGGG
9554704 AGAA AGAA AGAA AGGAAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA A-G-AA AGAA AGAA AGAA AGAA A
9554739 AGGGAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.83
5 2 0.07
6 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:9554725 original size:18 final size:17
Alignment explanation
Indices: 9554646--9554740 Score: 66
Period size: 18 Copynumber: 5.2 Consensus size: 17
9554636 TATAAGATAT
9554646 AAAGTAAAGAAAGAAATGAA
1 AAAG-AAAGAAAGAAA-G-A
* *
9554666 AAAGAAGGAAAAAACAGA
1 AAAGAAAGAAAGAA-AGA
* *
9554684 ATAGAAACGAAA-AACAGG
1 AAAGAAA-GAAAGAA-AGA
**
9554702 GGAGAAAGAAAGAAAGGA
1 AAAGAAAGAAAGAAA-GA
9554720 AAAGAAAGAAAGAAAGA
1 AAAGAAAGAAAGAAAGA
9554737 AAAG
1 AAAG
9554741 GGAGAAATAG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
17 11 0.18
18 32 0.52
19 13 0.21
20 5 0.08
ACGTcount: A:0.68, C:0.03, G:0.25, T:0.03
Consensus pattern (17 bp):
AAAGAAAGAAAGAAAGA
Found at i:9555146 original size:12 final size:11
Alignment explanation
Indices: 9555126--9555177 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
9555116 GTTAAGATTA
*
9555126 AAATTGAAATT
1 AAATAGAAATT
9555137 AAAGTAGAAATT
1 AAA-TAGAAATT
*
9555149 GAATAGAAATT
1 AAATAGAAATT
*
9555160 GAATAAGAAATTT
1 AAAT-AGAAA-TT
9555173 AAATA
1 AAATA
9555178 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:9555157 original size:11 final size:11
Alignment explanation
Indices: 9555131--9555171 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
9555121 GATTAAAATT
*
9555131 GAAATTAAAGTA
1 GAAATTGAA-TA
9555143 GAAATTGAATA
1 GAAATTGAATA
9555154 GAAATTGAATAA
1 GAAATTGAAT-A
9555166 GAAATT
1 GAAATT
9555172 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:9555936 original size:44 final size:44
Alignment explanation
Indices: 9555851--9555942 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
9555841 TGTTCAGGGA
* *
9555851 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTTGTACTGT
1 TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
* **
9555895 TACTTCGACTTTAAGTCGATGAGGCACCT-TGTGTGTCGTACTGT
1 TACTTCGACCTTAAGTCGATGAGGCA-CTATAAGTGTCGTACTGT
9555939 TACT
1 TACT
9555943 ATTACTTCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (44 bp):
TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
Found at i:9556010 original size:47 final size:46
Alignment explanation
Indices: 9555931--9556031 Score: 114
Period size: 47 Copynumber: 2.2 Consensus size: 46
9555921 CCTTGTGTGT
* *
9555931 CGTACTGTTACTATTACTTCGGATTTATCCGATGAGATACTGAGTAC
1 CGTACTGTTACTATTACTTCGGA-TTAGCCGATGAGACACTGAGTAC
* * **
9555978 CGTACTGTTACTGTTTACTTCGGCA-TAGCCGATGAGGCACTGAGTGT
1 CGTACTGTTACT-ATTACTTCGG-ATTAGCCGATGAGACACTGAGTAC
9556025 CGTACTG
1 CGTACTG
9556032 GTGTGTTCGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 36 0.78
48 9 0.20
49 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (46 bp):
CGTACTGTTACTATTACTTCGGATTAGCCGATGAGACACTGAGTAC
Found at i:9556175 original size:48 final size:48
Alignment explanation
Indices: 9556121--9556223 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
9556111 TCTCTAATGG
* **
9556121 TTGACTGTTACTAAATAATAAAGATCAATTGATCGCTATTGAAAAATA
1 TTGACTGTTACTAAATAATAAAGATAAATTGATCAATATTGAAAAATA
* ** ** *
9556169 TTGACTGTTACTGAATGGTATTGATAAATTGATTAATATTGAAAAATA
1 TTGACTGTTACTAAATAATAAAGATAAATTGATCAATATTGAAAAATA
9556217 TTGACTG
1 TTGACTG
9556224 ATATTGAGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.37
Consensus pattern (48 bp):
TTGACTGTTACTAAATAATAAAGATAAATTGATCAATATTGAAAAATA
Found at i:9558277 original size:24 final size:25
Alignment explanation
Indices: 9558250--9558296 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
9558240 AAACATTAAT
*
9558250 TATAATATTAAA-ATAAATATAAGG
1 TATAAGATTAAATATAAATATAAGG
*
9558274 TATAAGATTAAATATAGATATAA
1 TATAAGATTAAATATAAATATAA
9558297 TTTCTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (25 bp):
TATAAGATTAAATATAAATATAAGG
Found at i:9558774 original size:30 final size:30
Alignment explanation
Indices: 9558738--9558800 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
9558728 TTTGTGACTA
*
9558738 GCCCTTCTAAATGGCCTCACACGCCCGTGT
1 GCCCTTCGAAATGGCCTCACACGCCCGTGT
9558768 GCCCTTCGAAATGGCCTCACACGCCCGTGT
1 GCCCTTCGAAATGGCCTCACACGCCCGTGT
9558798 GCC
1 GCC
9558801 AGGTCGTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.21
Consensus pattern (30 bp):
GCCCTTCGAAATGGCCTCACACGCCCGTGT
Found at i:9563487 original size:22 final size:22
Alignment explanation
Indices: 9563459--9563502 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9563449 TTTTGAACCA
9563459 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
9563481 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
9563503 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:9568104 original size:21 final size:22
Alignment explanation
Indices: 9568053--9568106 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
9568043 TGCAGGGCTC
*
9568053 ACACACCCGTGTGGTCCAAGGG
1 ACACACCCGTGTGGACCAAGGG
** **
9568075 ACATGCCCGTGT-GACCCTGGG
1 ACACACCCGTGTGGACCAAGGG
9568096 ACACACCCGTG
1 ACACACCCGTG
9568107 CTAGAGGCCG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (22 bp):
ACACACCCGTGTGGACCAAGGG
Found at i:9583183 original size:14 final size:14
Alignment explanation
Indices: 9583155--9583196 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
9583145 TTTTTCTATC
*
9583155 TTAAATATT-TATT
1 TTAATTATTATATT
*
9583168 TTAATTGTTATATT
1 TTAATTATTATATT
9583182 TTAATTATTATATT
1 TTAATTATTATATT
9583196 T
1 T
9583197 GACTTAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTAATTATTATATT
Found at i:9586400 original size:33 final size:33
Alignment explanation
Indices: 9586363--9586427 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
9586353 TATATCAATG
*
9586363 TGCGAGTCGTAATGATGTCTGAGCTGTGTAATT
1 TGCGAGTCATAATGATGTCTGAGCTGTGTAATT
* *
9586396 TGCGAGTCATAGTGATGTGTGAGCTGTGTAAT
1 TGCGAGTCATAATGATGTCTGAGCTGTGTAAT
9586428 GTGTGAGCTA
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:0.11, G:0.32, T:0.35
Consensus pattern (33 bp):
TGCGAGTCATAATGATGTCTGAGCTGTGTAATT
Found at i:9586431 original size:16 final size:16
Alignment explanation
Indices: 9586410--9586505 Score: 72
Period size: 16 Copynumber: 5.9 Consensus size: 16
9586400 AGTCATAGTG
9586410 ATGTGTGAGCTGTGTA
1 ATGTGTGAGCTGTGTA
**
9586426 ATGTGTGAGC--TACA
1 ATGTGTGAGCTGTGTA
9586440 ATGATGT-ACGACTTGTGTA
1 ATG-TGTGA-G-C-TGTGTA
** *
9586459 ATGTGCAAGCTATGTA
1 ATGTGTGAGCTGTGTA
9586475 ATGTGTGAGCTGTAGTA
1 ATGTGTGAGCTGT-GTA
*
9586492 GTGTGTGAGCTGTG
1 ATGTGTGAGCTGTG
9586506 AAAATATGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
14 6 0.10
15 4 0.06
16 27 0.44
17 16 0.26
18 3 0.05
19 6 0.10
ACGTcount: A:0.23, C:0.09, G:0.33, T:0.34
Consensus pattern (16 bp):
ATGTGTGAGCTGTGTA
Found at i:9586445 original size:33 final size:33
Alignment explanation
Indices: 9586373--9586502 Score: 97
Period size: 33 Copynumber: 3.9 Consensus size: 33
9586363 TGCGAGTCGT
* *
9586373 AATGATGTCTGAGCTGTGTAATTTGCGAG-T-C
1 AATGATGTGTGAGCTGTGTAATGTGCGAGCTAC
*
9586404 ATAGTGATGTGTGAGCTGTGTAATGTGTGAGCTAC
1 A-A-TGATGTGTGAGCTGTGTAATGTGCGAGCTAC
** *
9586439 AATGATGTACGA-CTTGTGTAATGTGCAAGCTA-
1 AATGATGTGTGAGC-TGTGTAATGTGCGAGCTAC
** * * *
9586471 TGTAATGTGTGAGCTGTAGTAGTGTGTGAGCT
1 AATGATGTGTGAGCTGT-GTAATGTGCGAGCT
9586503 GTGAAAATAT
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.01
32 12 0.16
33 60 0.78
34 2 0.03
35 2 0.03
ACGTcount: A:0.24, C:0.10, G:0.32, T:0.35
Consensus pattern (33 bp):
AATGATGTGTGAGCTGTGTAATGTGCGAGCTAC
Done.