Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, 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: 3674400
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 15
Found at i:1936626 original size:7 final size:6
Alignment explanation
Indices: 1936606--1936664 Score: 70
Period size: 6 Copynumber: 9.8 Consensus size: 6
1936596 TTCTCCTAAT
1936606 AAAGAA AAAGAA AATAGAA AAAG-A AAA-AA AAAGAA CAAA-AGA AAAGAA
1 AAAGAA AAAGAA AA-AGAA AAAGAA AAAGAA AAAGAA -AAAGA-A AAAGAA
1936654 AAAGAA AAAGA
1 AAAGAA AAAGA
1936665 GAGGTTCAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
5 8 0.17
6 28 0.60
7 11 0.23
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:1936630 original size:19 final size:18
Alignment explanation
Indices: 1936606--1936664 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
1936596 TTCTCCTAAT
1936606 AAAGAAAAAGAAAATAGAA
1 AAAGAAAAAGAAAA-AGAA
1936625 AAAG-AAAA-AAAAAGAA
1 AAAGAAAAAGAAAAAGAA
1936641 CAAA-AGAAAAGAAAAAGAA
1 -AAAGA-AAAAGAAAAAGAA
1936660 AAAGA
1 AAAGA
1936665 GAGGTTCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.11
17 7 0.20
18 11 0.31
19 13 0.37
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGAA
Found at i:1936638 original size:23 final size:23
Alignment explanation
Indices: 1936610--1936661 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
1936600 CCTAATAAAG
*
1936610 AAAAAGAA-AATAGAAAAAGAAAA
1 AAAAAGAACAAAAG-AAAAGAAAA
1936633 AAAAAGAACAAAAGAAAAGAAAA
1 AAAAAGAACAAAAGAAAAGAAAA
1936656 AGAAAA
1 A-AAAA
1936662 AGAGAGGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (23 bp):
AAAAAGAACAAAAGAAAAGAAAA
Found at i:1937914 original size:135 final size:134
Alignment explanation
Indices: 1937671--1938113 Score: 618
Period size: 135 Copynumber: 3.3 Consensus size: 134
1937661 GCAAAAACCA
* *
1937671 ATTAACATTTCCAATGCA-ATGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTC
1 ATTAACATTTCTAATGGAGA-GTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTC
* * *
1937735 GTAATAAGAAGAACTTGTTCAACCTTTGCTCGATTCATTGCATTTTGAATCAGCGACGCCTCACT
65 GTAATGAGAAGAACTTGTTCAACCTTTTCTCGATTCA-TGCATTTTGAATCAGCGATGCCTCACT
1937800 TGAGGG
129 TGAGGG
* *
1937806 ATTAACACTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGTAGAAGAAGTTCG
1 ATTAACATTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCG
* * * * * *
1937871 TAATGAGAAGAACTTGTTCAACCTTTTCTAGATTCACGACATTTCGAATCAACAATGCCTCATTT
66 TAATGAGAAGAACTTGTTCAACCTTTTCTCGATTCATG-CATTTTGAATCAGCGATGCCTCACTT
*
1937936 GAGGA
130 GAGGG
* * *
1937941 ATTAACATTTCCAATGGAGAGTTTATAATGAGAATAACTCATCCGATAGAGGGAGAAGAAGTTCG
1 ATTAACATTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCG
** * * *
1938006 TAATGAGAAGAACTTGTTCAAAATTTTCTCGATTCATGGTATTTTGAATCAGTGATGCCTCAGTT
66 TAATGAGAAGAACTTGTTCAACCTTTTCTCGATTCAT-GCATTTTGAATCAGCGATGCCTCACTT
1938071 GAGGG
130 GAGGG
* * *
1938076 ATTAACATTTATAGTGGAGAGCTCATAATGAGAAGAAC
1 ATTAACATTTCTAATGGAGAGTTCATAATGAGAAGAAC
1938114 CCGCAACTTG
Statistics
Matches: 269, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
134 1 0.00
135 266 0.99
136 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (134 bp):
ATTAACATTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCG
TAATGAGAAGAACTTGTTCAACCTTTTCTCGATTCATGCATTTTGAATCAGCGATGCCTCACTTG
AGGG
Found at i:1938392 original size:23 final size:24
Alignment explanation
Indices: 1938334--1938392 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1938324 AAACCCGACC
*
1938334 CGGAGCCCAAACCAAGACACAACT
1 CGGAGCCCAAACCAAGACACAACA
* *
1938358 CGGAGCCCAAACCAGGACCCAACA
1 CGGAGCCCAAACCAAGACACAACA
1938382 CGG-GCCCAAAC
1 CGGAGCCCAAAC
1938393 TAAACCGAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 8 0.25
24 24 0.75
ACGTcount: A:0.37, C:0.41, G:0.20, T:0.02
Consensus pattern (24 bp):
CGGAGCCCAAACCAAGACACAACA
Found at i:1941500 original size:957 final size:957
Alignment explanation
Indices: 1939573--1941625 Score: 3204
Period size: 957 Copynumber: 2.1 Consensus size: 957
1939563 TCGACACTTC
* * *
1939573 TTTTCCTTTTATTTTTTATATTTTAAATATTAGTTACAATGGGGACTAAAGTGAACATAAGGTGA
1 TTTTCCTTTTATTTTTTATATTTTAAATATTAGTGACGATGGGGACTAAATTGAACATAAGGTGA
*
1939638 ACTTTGAAGTTTAAACTATGAAGCCTAAGGAACTTAAGGACTAGTGGCATGATTTTACAATTTTT
66 ACTTTGAAGTTTAAACTATGAAGCCTAAGGAACTTAAGGACTAGTGGAATGATTTTACAATTTTT
* *
1939703 CTTTGACTTGCGAATAAAAGGAAAAAAAGAGAGTGCTGGTTTTCGAACATTAAATGAATGTTGAA
131 CTTTGACTTGCGAATAAAAGGAAAAAAAGAGAGTGCTAGTTTTCGAACATTAAATGAATGTTAAA
1939768 CGAACATGTCACGAATGTTAAACGAACGAACACAAACACCTTCAAAAACACATAAACGAATATGA
196 CGAACATGTCACGAATGTTAAACGAACGAACACAAACACCTTCAAAAACACATAAACGAATATGA
* *
1939833 ACATGATACTCAAGTTCACACGAACACGAACCAAATATGAACACTTTAAAAATAAACGAACAAAC
261 ACATGATACTCAAGTTCAAACGAACACGAACCAAATATGAACACTTTAAAAATAAACAAACAAAC
* * *
1939898 ACAAATATAGCTCTATTGTATTCTTTCAAGTTTGGTTGATTTACACTCATATCTATTACACTTGG
326 ACAAACATAGCTCTATTCTATTCGTTCAAGTTTGGTTGATTTACACTCATATCTATTACACTTGG
*
1939963 TAAAAAGATGTTAAGAAAAAGAAAACAGTTGTTTAATGGACTTTCAATTATAATAAGAGTATTTA
391 TAAAAAGATGTTAAGAAAAAGAAAACAGTTGTTTAATGAACTTTCAATTATAATAAGAGTATTTA
*
1940028 TGCGGTTTCGTTTTGATCAACTAACTAGTTTTTTTCTTTCAAAATCATACTTAAGATTCATTTTG
456 TGCGGTTTCGTTTTGATCAACTAACTAGTTTTTCTCTTTCAAAATCATACTTAAGATTCATTTTG
* * *
1940093 GCTTTATATTGGTCACTCATCATTAAAAAATTAACGTTGACGTTGACGTGTCACCATAAGGTAAT
521 GCTTTATATTGGTCACTCATCATTAAAAAATTAACGGTGAAGTTGACGTGTCACCATAAGCTAAT
1940158 ACCACATTATCATTGATAAAATAAAAGAAATTATCTCACAAAAGAATTTTATTTATTTATTAACG
586 ACCACATTATCATTGATAAAATAAAAGAAATTATCTCACAAAAGAATTTTATTTATTTATTAACG
* * *
1940223 GTGATGACCAAAATAGAACCAATATATAACATTATGTATAATTTTATAAAAAAAATAGTCAGATT
651 GCGATGACCAAAACAGAACCAATATATAACATTATGAATAATTTTATAAAAAAAATAGTCAGATT
* * ** *
1940288 ATCAAAATAAAACCACATTAAATGAATAGAGCATTCAATGAACTATTTGTGAACCGTTCGTATAA
716 ATAAAAATAAAACCACATTAAATGAATAGAGCATTCAACGAACTATTCATGAACCATTCGTATAA
*
1940353 CGTTAGTTTATTAAGCTAAATAAATGAGTATGAACAAAATTTTTATGATCATTTAATAAACAAAC
781 CGTCAGTTTATTAAGCTAAATAAATGAGTATGAACAAAATTTTTATGATCATTTAATAAACAAAC
* * *
1940418 AAACATGAATAAATGTGTGTTTGATTCATTCATGTTCACTAACAAGATCATTATTTGGCTACTTT
846 AAACATGAATAAATATGTGCTTGATTCATTCATGTTCACGAACAAGATCATTATTTGGCTACTTT
*
1940483 ATAAGTTCGTCTATCGACTCTTTGTAAGCTTGTTTACTAGAATATTC
911 ATAAGTTCGTCTATCGACTCTTTGTAAGCTTGTTTACTAGAATATTA
*
1940530 TTTTCCTTTTATTTTTTATATTTTAAATATTAGTGACGATGGGGACTAAATTGAATATAAGGTGA
1 TTTTCCTTTTATTTTTTATATTTTAAATATTAGTGACGATGGGGACTAAATTGAACATAAGGTGA
*
1940595 ACTTTGAAGTTTAAACTGTGAAGCCTAAGGAACTTAAGGACTAGTGGAATGATTTTACAATTTTT
66 ACTTTGAAGTTTAAACTATGAAGCCTAAGGAACTTAAGGACTAGTGGAATGATTTTACAATTTTT
* * * *
1940660 CTTTGACTTGTGAATAAAAGGATAAAAAGAGAGTGTTAGTTTTCGAACTTTAAATGAATGTTAAA
131 CTTTGACTTGCGAATAAAAGGAAAAAAAGAGAGTGCTAGTTTTCGAACATTAAATGAATGTTAAA
** *
1940725 CGAACATGTCACGAATGTTAAACGAACGAACATGAACACCTTCAAAATCACATAAACGAATATGA
196 CGAACATGTCACGAATGTTAAACGAACGAACACAAACACCTTCAAAAACACATAAACGAATATGA
* * * *
1940790 ACATGATACTCAAGTTTAAACGAACACGAACCAAATATGAACACCTTTAAAAATAAGCAAACGAG
261 ACATGATACTCAAGTTCAAACGAACACGAACCAAATATGAACA-CTTTAAAAATAAACAAACAAA
* * *
1940855 CACGAACATAG-TCTATTCTATTCGTTCAAGTTTGGTTGATTTATACTCGTATCTATTACACTTG
325 CACAAACATAGCTCTATTCTATTCGTTCAAGTTTGGTTGATTTACACTCATATCTATTACACTTG
* * *
1940919 GTGAAAAGATGTTAAGAAAAAGAAAATAGTTGTTTAATGAATTTTCAATTATAATAAGAGTATTT
390 GTAAAAAGATGTTAAGAAAAAGAAAACAGTTGTTTAATGAACTTTCAATTATAATAAGAGTA-TT
* * *
1940984 TATGTGGTTTTGTTTTGATCAACTAACTAGTTTTTCTCTTTCAAAATCATACTTAAGGTTCATTT
454 TATGCGGTTTCGTTTTGATCAACTAACTAGTTTTTCTCTTTCAAAATCATACTTAAGATTCATTT
* * * * *
1941049 TGGTTTTTATTTTGGTCACTCATCGTTAAAAAAATTAGCGGTGAATTTGACGTGTTCACCATAAG
519 TGG-CTTTATATTGGTCACTCATCATT-AAAAAATTAACGGTGAAGTTGACGTG-TCACCATAAG
** * * * *
1941114 CTAATGTCACATTATCATTGATAAAATAAAA-AAATTGTCTCGC-CATGAATTTTATTTATTTAT
581 CTAATACCACATTATCATTGATAAAATAAAAGAAATTATCTCACAAAAGAATTTTATTTATTTAT
*
1941177 TAACGGCGATGACCAAAACATAACCAATATATAACATTATGAATAATTTTATAAAAAACAATAGT
646 TAACGGCGATGACCAAAACAGAACCAATATATAACATTATGAATAATTTTATAAAAAA-AATAGT
* **
1941242 CTGATTATAAAAATAAAACCACATTAAATGAATAGAGCATTCAACGAACTATTCATGAATTATTC
710 CAGATTATAAAAATAAAACCACATTAAATGAATAGAGCATTCAACGAACTATTCATGAACCATTC
*
1941307 GTATAACG-CAGTTTATTAAGCTAAATAAATGAGTATGAACGAAATTTTTATGATCATTT-ATAA
775 GTATAACGTCAGTTTATTAAGCTAAATAAATGAGTATGAACAAAATTTTTATGATCATTTAATAA
* * * * *
1941370 ACGAACGAACATGAATAAATATGTGCTTGATTCGTTTATGTTCACGAACAAGCTCATT-TATTGG
840 ACAAACAAACATGAATAAATATGTGCTTGATTCATTCATGTTCACGAACAAGATCATTAT-TTGG
* * * * * *
1941434 CTAGTTTTTAAGTTCGTTTATCTACTCTTTGTAAGCTTGTTTACTCGAATCTTA
904 CTACTTTATAAGTTCGTCTATCGACTCTTTGTAAGCTTGTTTACTAGAATATTA
* *
1941488 TTTTCC-TTTATTTTTTTACATTTTAAATATTAGTGGCGATGGGGACTAAATT-AACATAAGGTG
1 TTTTCCTTTTA-TTTTTTATATTTTAAATATTAGTGACGATGGGGACTAAATTGAACATAAGGTG
* * * * *
1941551 AACTTTAAAGTTTAAACTATGAAACCTAAGGAAATTAATGACTAGTGAAATGATTTTACAATTTT
65 AACTTTGAAGTTTAAACTATGAAGCCTAAGGAACTTAAGGACTAGTGGAATGATTTTACAATTTT
*
1941616 TCTTTAACTT
130 TCTTTGACTT
1941626 AAACTAATAT
Statistics
Matches: 1000, Mismatches: 88, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
957 476 0.48
958 242 0.24
959 141 0.14
960 103 0.10
961 38 0.04
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (957 bp):
TTTTCCTTTTATTTTTTATATTTTAAATATTAGTGACGATGGGGACTAAATTGAACATAAGGTGA
ACTTTGAAGTTTAAACTATGAAGCCTAAGGAACTTAAGGACTAGTGGAATGATTTTACAATTTTT
CTTTGACTTGCGAATAAAAGGAAAAAAAGAGAGTGCTAGTTTTCGAACATTAAATGAATGTTAAA
CGAACATGTCACGAATGTTAAACGAACGAACACAAACACCTTCAAAAACACATAAACGAATATGA
ACATGATACTCAAGTTCAAACGAACACGAACCAAATATGAACACTTTAAAAATAAACAAACAAAC
ACAAACATAGCTCTATTCTATTCGTTCAAGTTTGGTTGATTTACACTCATATCTATTACACTTGG
TAAAAAGATGTTAAGAAAAAGAAAACAGTTGTTTAATGAACTTTCAATTATAATAAGAGTATTTA
TGCGGTTTCGTTTTGATCAACTAACTAGTTTTTCTCTTTCAAAATCATACTTAAGATTCATTTTG
GCTTTATATTGGTCACTCATCATTAAAAAATTAACGGTGAAGTTGACGTGTCACCATAAGCTAAT
ACCACATTATCATTGATAAAATAAAAGAAATTATCTCACAAAAGAATTTTATTTATTTATTAACG
GCGATGACCAAAACAGAACCAATATATAACATTATGAATAATTTTATAAAAAAAATAGTCAGATT
ATAAAAATAAAACCACATTAAATGAATAGAGCATTCAACGAACTATTCATGAACCATTCGTATAA
CGTCAGTTTATTAAGCTAAATAAATGAGTATGAACAAAATTTTTATGATCATTTAATAAACAAAC
AAACATGAATAAATATGTGCTTGATTCATTCATGTTCACGAACAAGATCATTATTTGGCTACTTT
ATAAGTTCGTCTATCGACTCTTTGTAAGCTTGTTTACTAGAATATTA
Found at i:1943065 original size:30 final size:29
Alignment explanation
Indices: 1942990--1943065 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
1942980 TTGTGCTATG
* * *
1942990 TTATTTATTTT-AAATTAACTACTAACTT
1 TTATTTATTTTGATATTAACCACTAACAT
*
1943018 TTATTT-TTATTGCATATTAACCACTGACAT
1 TTATTTATT-TTG-ATATTAACCACTAACAT
1943048 TTATTTATTGTTGATATT
1 TTATTTATT-TTGATATT
1943066 TGATTCGACC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 8 0.21
30 24 0.62
31 5 0.13
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (29 bp):
TTATTTATTTTGATATTAACCACTAACAT
Found at i:1943355 original size:28 final size:28
Alignment explanation
Indices: 1943323--1943377 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1943313 TTTCTGCATC
**
1943323 TTTAAATTTA-TGCCTTTTATTTTATTTA
1 TTTAAATTTAGT-CCTTACATTTTATTTA
*
1943351 TTTAATTTTAGTCCTTACATTTTATTT
1 TTTAAATTTAGTCCTTACATTTTATTT
1943378 GCTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.64
Consensus pattern (28 bp):
TTTAAATTTAGTCCTTACATTTTATTTA
Found at i:1943397 original size:15 final size:14
Alignment explanation
Indices: 1943375--1943418 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1943365 TTACATTTTA
1943375 TTTG-CTTTTATTT
1 TTTGTCTTTTATTT
1943388 TTTGATCTTTTA-TT
1 TTTG-TCTTTTATTT
*
1943402 TTTGTCCTTTATTT
1 TTTGTCTTTTATTT
1943416 TTT
1 TTT
1943419 AGCAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 10 0.37
14 11 0.41
15 6 0.22
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.75
Consensus pattern (14 bp):
TTTGTCTTTTATTT
Found at i:1943405 original size:14 final size:13
Alignment explanation
Indices: 1943375--1943417 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
1943365 TTACATTTTA
1943375 TTTG-CTTTTATTT
1 TTTGTCTTTTA-TT
1943388 TTTGATCTTTTATT
1 TTTG-TCTTTTATT
*
1943402 TTTGTCCTTTATT
1 TTTGTCTTTTATT
1943415 TTT
1 TTT
1943418 TAGCAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 6 0.22
15 6 0.22
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTGTCTTTTATT
Found at i:1946923 original size:13 final size:13
Alignment explanation
Indices: 1946895--1946952 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
1946885 AAGATTTTTT
* *
1946895 TGAACAGTACCTG
1 TGAACAGTAACAG
*
1946908 TGAATAGTAACAG
1 TGAACAGTAACAG
*
1946921 TGAACATTAACAG
1 TGAACAGTAACAG
* *
1946934 TGAACAGTACCCG
1 TGAACAGTAACAG
1946947 TGAACA
1 TGAACA
1946953 ATGGGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (13 bp):
TGAACAGTAACAG
Found at i:1967901 original size:18 final size:18
Alignment explanation
Indices: 1967878--1967912 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1967868 ACCTGTCATA
1967878 AAAAAATTAACGATCGTT
1 AAAAAATTAACGATCGTT
*
1967896 AAAAAATTAATGATCGT
1 AAAAAATTAACGATCGT
1967913 CTGAGCTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (18 bp):
AAAAAATTAACGATCGTT
Found at i:1970347 original size:28 final size:27
Alignment explanation
Indices: 1970300--1970360 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
1970290 AGGATTAGAA
* * *
1970300 TTAAGGTTTTCAAAGATTTTGAGTTTTTT
1 TTAAGATTTCCAAAGATTTTG-G-ATTTT
1970329 TTAAGATTTCCAAA-ATTTTGGATTTT
1 TTAAGATTTCCAAAGATTTTGGATTTT
1970355 TTAAGA
1 TTAAGA
1970361 AAAAAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 1 0.03
28 6 0.21
29 12 0.41
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.51
Consensus pattern (27 bp):
TTAAGATTTCCAAAGATTTTGGATTTT
Found at i:1970835 original size:69 final size:69
Alignment explanation
Indices: 1970723--1970861 Score: 181
Period size: 69 Copynumber: 2.0 Consensus size: 69
1970713 CATAGCAGAT
* * * * *
1970723 GTGTCTTGACTCTTTTTGGCTAAACAATTGAGAGAACGAAAAAGTCCTTTTTGATACGGTGGAGT
1 GTGTCTCGACTCTTTTTGGCCAAACAATAGAGAGAACGAAAAAGTCCCTTTAGATACGGTGGAGT
1970788 AGAG
66 AGAG
* * * *
1970792 GTGTCTCGACTCTTTTTGGCCAAACGATAGAGAGATA-GGAAAAGTCCCTTTAGCTAGGGTGGAG
1 GTGTCTCGACTCTTTTTGGCCAAACAATAGAGAGA-ACGAAAAAGTCCCTTTAGATACGGTGGAG
1970856 TAGAG
65 TAGAG
1970861 G
1 G
1970862 CATCTTGATG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
69 59 0.98
70 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (69 bp):
GTGTCTCGACTCTTTTTGGCCAAACAATAGAGAGAACGAAAAAGTCCCTTTAGATACGGTGGAGT
AGAG
Found at i:1972619 original size:9 final size:9
Alignment explanation
Indices: 1972605--1972634 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1972595 GAAGTACCCT
1972605 ACATTTGTA
1 ACATTTGTA
1972614 ACATTTGTA
1 ACATTTGTA
1972623 ACATTTG-A
1 ACATTTGTA
1972631 ACAT
1 ACAT
1972635 ACATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (9 bp):
ACATTTGTA
Found at i:1975696 original size:14 final size:14
Alignment explanation
Indices: 1975646--1975701 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
1975636 TTATATGGGG
1975646 TTAGTTAT-TGATTA
1 TTAGTTATAT-ATTA
*
1975660 TTA-TTACTATTAGTA
1 TTAGTTA-TA-TATTA
*
1975675 TTAATTATATATTA
1 TTAGTTATATATTA
1975689 TTAGTTATATATT
1 TTAGTTATATATT
1975702 TATGTGCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 3 0.09
14 20 0.57
15 8 0.23
16 4 0.11
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTTATATATTA
Found at i:1975861 original size:2 final size:2
Alignment explanation
Indices: 1975849--1975903 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
1975839 GCAATATTGA
1975849 AT AT AT A- AT AT 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 AT AT AT AT AT AT
1975890 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1975904 GAAGAACGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1978844 original size:14 final size:14
Alignment explanation
Indices: 1978821--1978852 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1978811 CTAAAAGCCT
*
1978821 TTGATGGGCTAGGA
1 TTGATAGGCTAGGA
1978835 TTGATAGGCTAGGA
1 TTGATAGGCTAGGA
1978849 TTGA
1 TTGA
1978853 GGGTTTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.38, T:0.31
Consensus pattern (14 bp):
TTGATAGGCTAGGA
Found at i:1981592 original size:19 final size:19
Alignment explanation
Indices: 1981561--1981613 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
1981551 ACACCTTGCA
1981561 TTTTGCATATGCATTTTA-C
1 TTTTGCAT-TGCATTTTATC
*
1981580 TTTTCGCATTGCATATTATC
1 TTTT-GCATTGCATTTTATC
*
1981600 TTTTGCATTACATT
1 TTTTGCATTGCATT
1981614 CTATTCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTGCATTGCATTTTATC
Found at i:1988706 original size:22 final size:22
Alignment explanation
Indices: 1988674--1988726 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
1988664 TGCCTGAAGC
* *
1988674 AAAAAAGAAGAAAAATGGAAAAG
1 AAAAAA-AAGAAAAAAGAAAAAG
1988697 AAAAAAAAGAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAAGAAAAAG
1988719 AAAAAAAA
1 AAAAAAAA
1988727 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAGAAAAAG
Found at i:1988724 original size:13 final size:14
Alignment explanation
Indices: 1988676--1988722 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
1988666 CCTGAAGCAA
1988676 AAAAGAAGAAAAATGG
1 AAAAGAAGAAAAA--G
*
1988692 AAAAGAAAAAAAAG
1 AAAAGAAGAAAAAG
1988706 AAAA-AAGAAAAAG
1 AAAAGAAGAAAAAG
1988719 AAAA
1 AAAA
1988723 AAAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 5 0.17
16 12 0.41
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAGAAGAAAAAG
Found at i:1988725 original size:16 final size:16
Alignment explanation
Indices: 1988674--1988727 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
1988664 TGCCTGAAGC
*
1988674 AAAAAAGAAGAAAAATG
1 AAAAAAGAA-AAAAAAG
*
1988691 -GAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
1988706 AAAAAAGAAAAAGAAA-
1 AAAAAAGAAAAA-AAAG
1988722 AAAAAA
1 AAAAAA
1988728 TAAATAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.19
16 23 0.72
17 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:2015493 original size:21 final size:19
Alignment explanation
Indices: 2015455--2015500 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2015445 AATTAATCCT
2015455 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
2015475 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
2015496 A-TAAT
1 ACTAAT
2015501 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:2025110 original size:10 final size:9
Alignment explanation
Indices: 2025085--2025198 Score: 84
Period size: 8 Copynumber: 13.1 Consensus size: 9
2025075 GTGGTGGGCG
2025085 TTATATATA
1 TTATATATA
*
2025094 TTATATA-C
1 TTATATATA
2025102 TTATATATA
1 TTATATATA
2025111 TTATA-A-A
1 TTATATATA
** *
2025118 CAACCA-ATA
1 TTA-TATATA
2025127 TTGA-ATATA
1 TT-ATATATA
2025136 -TATATATA
1 TTATATATA
2025144 -TATATATA
1 TTATATATA
2025152 -TATATATA
1 TTATATATA
2025160 TATATATATA
1 T-TATATATA
2025170 TATATAATATA
1 T-TAT-ATATA
2025181 TTATATATA
1 TTATATATA
2025190 -TATATATA
1 TTATATATA
2025198 T
1 T
2025199 GAAGAACGAA
Statistics
Matches: 88, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.03
8 41 0.47
9 21 0.24
10 17 0.19
11 6 0.07
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (9 bp):
TTATATATA
Found at i:2025115 original size:15 final size:17
Alignment explanation
Indices: 2025085--2025197 Score: 75
Period size: 17 Copynumber: 6.9 Consensus size: 17
2025075 GTGGTGGGCG
2025085 TTATATATATTATATAC
1 TTATATATATTATATAC
*
2025102 TTATATATATTATAAAC
1 TTATATATATTATATAC
* *
2025119 -AACCA-ATATTGA-ATA-
1 TTA-TATATATT-ATATAC
2025134 -TATATATA-TATATA-
1 TTATATATATTATATAC
2025148 -TATATATATATATATA-
1 TTATATATAT-TATATAC
*
2025164 TATATATATATAATATA-
1 T-TATATATATTATATAC
2025181 TTATATATATATATATA
1 TTATATATAT-TATATA
2025198 TGAAGAACGA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.01
14 13 0.16
15 4 0.05
16 23 0.29
17 29 0.37
18 9 0.11
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.47
Consensus pattern (17 bp):
TTATATATATTATATAC
Found at i:2025138 original size:2 final size:2
Alignment explanation
Indices: 2025131--2025198 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
2025121 CCAATATTGA
2025131 AT AT AT AT AT AT 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 AT AT AT AT AT AT
2025173 AT A- AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2025199 GAAGAACGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2026898 original size:2 final size:2
Alignment explanation
Indices: 2026893--2026970 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
2026883 TGTGTGAGTG
2026893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2026935 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2026971 AATAAGTCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2031206 original size:20 final size:20
Alignment explanation
Indices: 2031162--2031207 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2031152 CAACACCTTG
2031162 TATTTTGCATTTGCATTTTA
1 TATTTTGCATTTGCATTTTA
*
2031182 CT-TTTCGCA-TTGCATTTTA
1 -TATTTTGCATTTGCATTTTA
2031201 TATTTTG
1 TATTTTG
2031208 TATTAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 6 0.27
21 1 0.05
ACGTcount: A:0.17, C:0.13, G:0.11, T:0.59
Consensus pattern (20 bp):
TATTTTGCATTTGCATTTTA
Found at i:2032639 original size:45 final size:45
Alignment explanation
Indices: 2032582--2032880 Score: 295
Period size: 45 Copynumber: 6.7 Consensus size: 45
2032572 ACTATAACAT
* * *
2032582 CTTTTCTATTGATAATGCACCCATATGCATTTGAACTGTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
* * * * * *
2032627 CATTTATGTTGATAATGTACCCATATACATCTCAAC-CATAATATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGTATA
* *
2032672 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
* *
2032717 TTTTTCTGTTGATAATGAACCCATATGCATTTCAACTCTA-TCATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGT-ATA
* *
2032762 CTTTTCTGTTGATAATGCACCCAT-TGCATTTCAACTCTGGCAT-
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
* *** * *
2032805 CCTTTCATGCCAATAATGCACCCAT-TGCATTTCAACTCTGGCAT-
1 CTTTTC-TGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
* ***
2032849 CCTTTCATGCCAATAATGCACCCATATGCATT
1 CTTTTC-TGTTGATAATGCACCCATATGCATT
2032881 ATTCTTTTAT
Statistics
Matches: 224, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
43 5 0.02
44 76 0.34
45 142 0.63
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
Found at i:2032821 original size:44 final size:45
Alignment explanation
Indices: 2032728--2032959 Score: 213
Period size: 44 Copynumber: 5.4 Consensus size: 45
2032718 TTTTCTGTTG
* ** * ***
2032728 ATAATGAACCCATATGCATTTCAACTCTATCATACTTTTC-TGTTG
1 ATAATGCACCCATATGCATTTCAACTCTGGCAT-CCTTTCATGCCA
2032773 ATAATGCACCCAT-TGCATTTCAACTCTGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCA
2032817 ATAATGCACCCAT-TGCATTTCAACTCTGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCA
**
2032861 ATAATGCACCCATATGCA-TT--A-T-T--C-T--TTT-ATGCTG
1 ATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCA
* * * * * * *
2032895 ACAATGTACCTATATACATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCA
2032940 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
2032960 ATTCTTTTAC
Statistics
Matches: 154, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
34 18 0.12
35 5 0.03
37 1 0.01
38 2 0.01
39 1 0.01
40 1 0.01
41 2 0.01
42 2 0.01
43 5 0.03
44 81 0.53
45 36 0.23
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCA
Found at i:2039727 original size:45 final size:45
Alignment explanation
Indices: 2039678--2039851 Score: 278
Period size: 45 Copynumber: 3.9 Consensus size: 45
2039668 ACTATAACAT
* * *
2039678 CTTTTCTGTTGATAATGGACCCATATTCATTTCAACTATAGTCTA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCTA
* * *
2039723 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCTA
2039768 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAG-CATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTC-TA
2039813 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCT
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCT
2039852 GGCATCCTTT
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 121 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.41
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCTA
Found at i:2039799 original size:90 final size:89
Alignment explanation
Indices: 2039675--2039888 Score: 295
Period size: 90 Copynumber: 2.4 Consensus size: 89
2039665 TAAACTATAA
* *
2039675 CATCTTTTCTGTTGATAATGGACCCATATTCATTTCAACTATAGTC-TACTTTTCTGTTGATAAT
1 CATCTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTTCTGTTGATAAT
*
2039739 GTACCCATATACATTTCAACTCTAG
65 GCACCCATATACATTTCAACTCTAG
* *
2039764 TATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAAT
1 CAT-CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAAT
* *
2039829 GCACCCATATGCATTTCAACTCTGG
65 GCACCCATATACATTTCAACTCTAG
* ***
2039854 CATCCTTTCATGCCAATAATGCACCCATATGCATT
1 CATCTTTTC-TGTTGATAATGCACCCATATGCATT
2039889 ATTATTTTAT
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
89 8 0.07
90 102 0.93
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (89 bp):
CATCTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATG
CACCCATATACATTTCAACTCTAG
Found at i:2039873 original size:45 final size:45
Alignment explanation
Indices: 2039688--2039967 Score: 185
Period size: 45 Copynumber: 6.5 Consensus size: 45
2039678 CTTTTCTGTT
* * * * **
2039688 GATAATGGACCCATATTCATTTCAACTATAGTC-TACTTTTC-TGTT
1 GATAATGCACCCATATGCATTTCAACTCTAG-CAT-CCTTTCATGCC
* * * * **
2039733 GATAATGTACCCATATACATTTCAACTCTAGTATACTTTTC-TGTT
1 GATAATGCACCCATATGCATTTCAACTCTAGCAT-CCTTTCATGCC
* **
2039778 GATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTC-TGTT
1 GATAATGCACCCATATGCATTTCAACTCTAGCAT-CCTTTCATGCC
*
2039823 GATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTTCAACTCTAGCATCCTTTCATGCC
* * *
2039868 AATAATGCACCCATATGCA-TT--A-T-T---AT--TTT-ATACG
1 GATAATGCACCCATATGCATTTCAACTCTAGCATCCTTTCATGCC
* * * * * *
2039902 GACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTTCAACTCTAGCATCCTTTCATGCC
*
2039947 AATAATGCACCCATATGCATT
1 GATAATGCACCCATATGCATT
2039968 ATTCTTTTAC
Statistics
Matches: 197, Mismatches: 25, Indels: 26
0.79 0.10 0.10
Matches are distributed among these distances:
34 18 0.09
35 5 0.03
37 2 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 3 0.02
44 10 0.05
45 155 0.79
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (45 bp):
GATAATGCACCCATATGCATTTCAACTCTAGCATCCTTTCATGCC
Found at i:2039962 original size:79 final size:79
Alignment explanation
Indices: 2039826--2039976 Score: 257
Period size: 79 Copynumber: 1.9 Consensus size: 79
2039816 TTCTGTTGAT
* *
2039826 AATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
2039891 TATTTTATACGGAC
66 TATTTTATACGGAC
* *
2039905 AATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
*
2039970 TCTTTTA
66 TATTTTA
2039977 CATTTGTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
TATTTTATACGGAC
Found at i:2040420 original size:22 final size:20
Alignment explanation
Indices: 2040382--2040436 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
2040372 TGGCCCTTTA
*
2040382 GTATCGATACCCCTACTGTG
1 GTATCGATACCCCTACTATG
2040402 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCTACTATG
*
2040424 GTATCGATTCCCC
1 GTATCGATACCCC
2040437 CTACCAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 18 0.58
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:2043052 original size:18 final size:18
Alignment explanation
Indices: 2043029--2043064 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2043019 TTCTCCCATG
* *
2043029 TATTTATTTATTCTTTAT
1 TATTTATATATTATTTAT
2043047 TATTTATATATTATTTAT
1 TATTTATATATTATTTAT
2043065 CTTGATATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTATATATTATTTAT
Found at i:2056192 original size:21 final size:21
Alignment explanation
Indices: 2056166--2056221 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2056156 TCGATACCCA
2056166 CATCAGTATCGATACTAATTG
1 CATCAGTATCGATACTAATTG
2056187 CATCAGTATCGATACTAATTG
1 CATCAGTATCGATACTAATTG
2056208 CATCAGTATCGATA
1 CATCAGTATCGATA
2056222 TTATTCATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (21 bp):
CATCAGTATCGATACTAATTG
Found at i:2071665 original size:29 final size:28
Alignment explanation
Indices: 2071631--2071812 Score: 165
Period size: 29 Copynumber: 6.2 Consensus size: 28
2071621 ATATATAGAT
*
2071631 AAAAAAGAGAAATAAGAAAATAAAAAAGA
1 AAAAAAGAGAAA-AAGAAAAGAAAAAAGA
* *
2071660 AAAAAAGAGAAAAGAGGAAAGAGGAAAGAGA
1 AAAAAAGAGAAAA-A-GAAA-AGAAAAAAGA
*
2071691 AATAAAA-AG-AAAAGAAAAGAAAAGAG-
1 AA-AAAAGAGAAAAAGAAAAGAAAAAAGA
*
2071717 AAAAAATAGAAAAAGAAGAAGGAAAAAAGA
1 AAAAAAGAGAAAAAGAA-AA-GAAAAAAGA
*
2071747 GAAAAAAGA-AAATATAGAAAAGAACAAAGA
1 -AAAAAAGAGAAA-A-AGAAAAGAAAAAAGA
*
2071777 AAAAAAGAGAACAAGAAAAAGAAAAACAGA
1 AAAAAAGAGAAAAAG-AAAAGAAAAA-AGA
2071807 AAAAAA
1 AAAAAA
2071813 AAATGAGTGA
Statistics
Matches: 129, Mismatches: 9, Indels: 29
0.77 0.05 0.17
Matches are distributed among these distances:
25 4 0.03
26 4 0.03
27 15 0.12
28 9 0.07
29 39 0.30
30 29 0.22
31 21 0.16
32 8 0.06
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (28 bp):
AAAAAAGAGAAAAAGAAAAGAAAAAAGA
Found at i:2071672 original size:7 final size:7
Alignment explanation
Indices: 2071633--2071809 Score: 71
Period size: 7 Copynumber: 24.6 Consensus size: 7
2071623 ATATAGATAA
2071633 AAAAGAG
1 AAAAGAG
2071640 AAATA-AG
1 AAA-AGAG
* *
2071647 AAAATAA
1 AAAAGAG
*
2071654 AAAAGAAA
1 AAAAG-AG
2071662 AAAAGAG
1 AAAAGAG
2071669 AAAAGAG
1 AAAAGAG
*
2071676 GAAAGAG
1 AAAAGAG
*
2071683 GAAAGAG
1 AAAAGAG
*
2071690 AAATA-AA
1 AAA-AGAG
*
2071697 AAGAAAAG
1 AA-AAGAG
2071705 AAAAGA-
1 AAAAGAG
*
2071711 AAAGAGAA
1 AAA-AGAG
*
2071719 AAAATAG
1 AAAAGAG
2071726 AAAA-AG
1 AAAAGAG
*
2071732 AAGAAGGAA
1 AA-AA-GAG
2071741 AAAAGAG
1 AAAAGAG
*
2071748 AAAAAAG
1 AAAAGAG
*
2071755 AAAATATAG
1 -AAA-AGAG
2071764 AAAAGA-
1 AAAAGAG
*
2071770 ACAAAGAAA
1 A-AAAG-AG
2071779 AAAAGAG
1 AAAAGAG
2071786 AACAAGA-
1 AA-AAGAG
2071793 AAAAGA-
1 AAAAGAG
*
2071799 AAAACAG
1 AAAAGAG
2071806 AAAA
1 AAAA
2071810 AAAAAATGAG
Statistics
Matches: 135, Mismatches: 17, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
6 18 0.13
7 77 0.57
8 33 0.24
9 7 0.05
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.03
Consensus pattern (7 bp):
AAAAGAG
Found at i:2071731 original size:58 final size:57
Alignment explanation
Indices: 2071631--2071816 Score: 195
Period size: 58 Copynumber: 3.2 Consensus size: 57
2071621 ATATATAGAT
* * **
2071631 AAAAAAGAGAAATAAGAAAATAAAAAAGAAAAAAAGAGAAAAGAGGAAAGAGGAAAGAG
1 AAAAAAGA-AAATAAGAAAA-GAAAAAGAAAAAAAGAGAAAAGAAGAAAGAAAAAAGAG
*
2071690 AAATAAA-AAGAA-AAGAAAAGAAAAGAGAAAAAATAGA-AAAAGAAGAAGGAAAAAAGAG
1 AAA-AAAGAA-AATAAGAAAAGAAAA-AGAAAAAA-AGAGAAAAGAAGAAAGAAAAAAGAG
*
2071748 AAAAAAGAAAATATAGAAAAGAACAAAGAAAAAAAGAGAACAAGAA-AAAG-AAAAACAG
1 AAAAAAGAAAATA-AGAAAAGAA-AAAGAAAAAAAGAGAA-AAGAAGAAAGAAAAAAGAG
2071806 AAAAAA-AAAAT
1 AAAAAAGAAAAT
2071817 GAGTGACTCA
Statistics
Matches: 110, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
57 14 0.13
58 55 0.50
59 31 0.28
60 10 0.09
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.04
Consensus pattern (57 bp):
AAAAAAGAAAATAAGAAAAGAAAAAGAAAAAAAGAGAAAAGAAGAAAGAAAAAAGAG
Found at i:2071757 original size:38 final size:36
Alignment explanation
Indices: 2071696--2071796 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 36
2071686 AGAGAAATAA
* *
2071696 AAAGAAAAGAAAAGAAAAGAGAAAAAATAGAAAAAGAAG
1 AAAG-AAA-AAAAGAAAAAAGAAAAAATAG-AAAAGAAC
* *
2071735 AAGGAAAAAAGAGAAAAAAGAAAATATAGAAAAGAAC
1 AAAGAAAAAA-AGAAAAAAGAAAAAATAGAAAAGAAC
*
2071772 AAAGAAAAAAAGAGAACAAGAAAAA
1 AAAGAAAAAAAGA-AAAAAGAAAAA
2071797 GAAAAACAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
36 3 0.06
37 28 0.53
38 19 0.36
39 3 0.06
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (36 bp):
AAAGAAAAAAAGAAAAAAGAAAAAATAGAAAAGAAC
Found at i:2074192 original size:42 final size:42
Alignment explanation
Indices: 2074133--2074460 Score: 272
Period size: 42 Copynumber: 7.8 Consensus size: 42
2074123 GAAGCTTCAA
** *
2074133 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* * * * *
2074175 CTTTACTTTCTTGTGAAGAGAAGTCAGTCTTTCAATATCATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* *
2074217 CTTGACTTTCTCGTGAAGAGAAGTTAATCTTTTAGTATTGTCT-TT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA--A-TGT-TATT
** * * ** *
2074262 CTTGACTCCCTCGTGAAAAGGAGTCAATCTCCCAATTTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* *
2074304 CTTGACTTCCTCGTGAAGAGAAATCAATC-TT---TGTTATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
* **
2074342 CTTGAGTCCCTCGTGAAGATG-AGTCAATCTTTCAATGTTATT
1 CTTGACTTTCTCGTGAAGA-GAAGTCAATCTTTCAATGTTATT
* * * *
2074384 TTTGACATTCTCGTGAAGAGAAATCAATCTTTCAGTATTGTCATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA--A-TGTTATT
** * *
2074429 CTTGACTTTCTTTTGAAGAGGAGTTAATCTTT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTT
2074461 TAGTGTTTCC
Statistics
Matches: 224, Mismatches: 48, Indels: 25
0.75 0.16 0.08
Matches are distributed among these distances:
38 30 0.13
39 3 0.01
41 2 0.01
42 125 0.56
43 1 0.00
44 2 0.01
45 61 0.27
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (42 bp):
CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTTATT
Found at i:2074354 original size:38 final size:37
Alignment explanation
Indices: 2074299--2074415 Score: 110
Period size: 38 Copynumber: 3.0 Consensus size: 37
2074289 TCTCCCAATT
*
2074299 TTATTCTTGACTTCCTCGTGAAGAGAAATCAATCTTTG
1 TTATTCTTGA-ATCCTCGTGAAGAGAAATCAATCTTTG
* *
2074337 TTATTCTTGAGTCCCTCGTGAAGATG-AGTCAATCTTTCAATG
1 TTATTCTTGAAT-CCTCGTGAAGA-GAAATCAATC-TT---TG
* *
2074379 TTATTTTTGACATTCTCGTGAAGAGAAATCAATCTTT
1 TTATTCTTGA-ATCCTCGTGAAGAGAAATCAATCTTT
2074416 CAGTATTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
37 1 0.02
38 29 0.45
39 3 0.05
41 3 0.05
42 28 0.43
43 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (37 bp):
TTATTCTTGAATCCTCGTGAAGAGAAATCAATCTTTG
Found at i:2074397 original size:80 final size:80
Alignment explanation
Indices: 2074260--2074415 Score: 233
Period size: 80 Copynumber: 1.9 Consensus size: 80
2074250 AGTATTGTCT
*
2074260 TTCTTGACTCCCTCGTGAAAAGGAGTCAATCTCCCAATTTTATTCTTGACTTCCTCGTGAAGAGA
1 TTCTTGACTCCCTCGTGAAAAGGAGTCAATCTCCCAATGTTATTCTTGACTTCCTCGTGAAGAGA
2074325 AATCAATCTTTGTTA
66 AATCAATCTTTGTTA
* * * ** *
2074340 TTCTTGAGTCCCTCGTGAAGATGAGTCAATCTTTCAATGTTATTTTTGACATT-CTCGTGAAGAG
1 TTCTTGACTCCCTCGTGAAAAGGAGTCAATCTCCCAATGTTATTCTTGAC-TTCCTCGTGAAGAG
2074404 AAATCAATCTTT
65 AAATCAATCTTT
2074416 CAGTATTGTC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 66 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (80 bp):
TTCTTGACTCCCTCGTGAAAAGGAGTCAATCTCCCAATGTTATTCTTGACTTCCTCGTGAAGAGA
AATCAATCTTTGTTA
Found at i:2074548 original size:45 final size:44
Alignment explanation
Indices: 2074398--2074734 Score: 193
Period size: 45 Copynumber: 7.5 Consensus size: 44
2074388 ACATTCTCGT
* * * * * ***
2074398 GAAGAGAAATCAATCTTTCAGTATTGTCATTCTTGACTTTCTTTT
1 GAAGAG-AGTCAATCTTTTAGTGTTGTCTTTCTTAACTTTCTCAC
* * * * * *
2074443 GAAGAGGAGTTAATCTTTTAGTGTT-TCCTTCCTGACTTTATCGC
1 GAAGA-GAGTCAATCTTTTAGTGTTGTCTTTCTTAACTTTCTCAC
2074487 -AAGGAGGAGTCAATCTTTTAGTGTTGTCTTTCTTAACTTTCTCAC
1 GAA-GA-GAGTCAATCTTTTAGTGTTGTCTTTCTTAACTTTCTCAC
* * *
2074532 GAAGAAGAGTCGATCTTTTAGTGTTGTCTTACTTGAA-TTTCTCAT
1 GAAG-AGAGTCAATCTTTTAGTGTTGTCTTTCTT-AACTTTCTCAC
* * * * *
2074577 GAAGAGAATTCAACCTTTTAGTGGTGT-TGTTCTTAACTTTCTTAA
1 GAAGAG-AGTCAATCTTTTAGTGTTGTCT-TTCTTAACTTTCTCAC
* * * * * *
2074622 GAAGAGAATTCAACCTTTTAGTGATGT-TATTCATGACTTTCTCTC
1 GAAGAG-AGTCAATCTTTTAGTGTTGTCT-TTCTTAACTTTCTCAC
* * * * * *
2074667 GAAGAGGAGCCAATCTTTTAGCGGTGT-TATTCTTGATTTTCTCAG
1 GAAGA-GAGTCAATCTTTTAGTGTTGTCT-TTCTTAACTTTCTCAC
2074712 GAAGATGAGTCAA-CATTTTAGTG
1 GAAGA-GAGTCAATC-TTTTAGTG
2074735 ATGCCATTCT
Statistics
Matches: 236, Mismatches: 45, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.01
44 40 0.17
45 187 0.79
46 7 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (44 bp):
GAAGAGAGTCAATCTTTTAGTGTTGTCTTTCTTAACTTTCTCAC
Found at i:2074750 original size:135 final size:135
Alignment explanation
Indices: 2074496--2074750 Score: 282
Period size: 135 Copynumber: 1.9 Consensus size: 135
2074486 CAAGGAGGAG
* * * * * * *
2074496 TCAATCTTTTAGTGTTGTCTTTCTTAACTTTCTCACGAAGAAGAGTCGATCTTTTAGTGTTGTCT
1 TCAACCTTTTAGTGATGTCTTTCATAACTTTCTCACGAAGAAGAGCCAATCTTTTAGCGGTGTCT
* * * * *** *
2074561 TACTTGAATTTCTCATGAAGAGAATTCAACCTTTTAGTGGTGTTGTTCTTAACTTTCTTAAGAAG
66 TACTTGAATTTCTCAGGAAGAGAAGTCAACATTTTAGTGATGCCATTCTCAACTTTCTTAAGAAG
2074626 AGAAT
131 AGAAT
* * *
2074631 TCAACCTTTTAGTGATGT-TATTCATGACTTTCTCTCGAAGAGGAGCCAATCTTTTAGCGGTGT-
1 TCAACCTTTTAGTGATGTCT-TTCATAACTTTCTCACGAAGAAGAGCCAATCTTTTAGCGGTGTC
* *
2074694 TATTCTTGATTTTCTCAGGAAGATG-AGTCAACATTTTAGTGATGCCATTCTCAACTT
65 T-TACTTGAATTTCTCAGGAAGA-GAAGTCAACATTTTAGTGATGCCATTCTCAACTT
2074751 ACCTTTCTCG
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
134 2 0.02
135 94 0.97
136 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (135 bp):
TCAACCTTTTAGTGATGTCTTTCATAACTTTCTCACGAAGAAGAGCCAATCTTTTAGCGGTGTCT
TACTTGAATTTCTCAGGAAGAGAAGTCAACATTTTAGTGATGCCATTCTCAACTTTCTTAAGAAG
AGAAT
Found at i:2075700 original size:134 final size:134
Alignment explanation
Indices: 2075520--2076079 Score: 669
Period size: 134 Copynumber: 4.2 Consensus size: 134
2075510 TTTGGTCTTT
*
2075520 CCTAAAGAGTAATGGAGCAGATCCTCATTTTTCTTTCAGATTTGGTC-TTCTTGAAGAGAAGCGA
1 CCTAAAGAGTAGTGGAGCAGAT--TC-TTTTTCTTTCAGATTTGGTCTTTC-TGAAGAGAAGCGA
* ** *
2075584 AGCAAATCAAGTTCGATTCAGTATTCCCTGAAGAGCAGTGAAATGGATCAAAATTTTCTTGAGTC
62 AGCAAATCAAGTTCAATTCAGTATTCCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTC
2075649 TGATCTCC
127 TGATCTCC
* * * *
2075657 CCTAAAGAGTAGTGGAGCAGATTCTCTTTCTTTCTGATTTGGTCTTTCTGAAGAGCAGGGAAGCA
1 CCTAAAGAGTAGTGGAGCAGATTCTTTTTCTTTCAGATTTGGTCTTTCTGAAGAGAAGCGAAGCA
* * * * * *
2075722 AATCAAGTTTAATTCAGTCTTCCCT-AAGAGCAGCGAAGTGAATCAAAATTTTCTCGAGTCTAAT
66 AATCAAGTTCAATTCAGTATTCCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTCTGAT
*
2075786 CTCT
131 CTCC
* * * * *
2075790 CCTAAAGAGTAGTGGGGCAGATT-TTTCTTCTTTCAGATATAGTCTTCCTGAAGA-ACATCGAAG
1 CCTAAAGAGTAGTGGAGCAGATTCTTT-TTCTTTCAGATTTGGTCTTTCTGAAGAGA-AGCGAAG
* ** * * *
2075853 TAAATCATCTTCAATTCAATATTCCCTTAAGAGCAACGAAGTGGATCAAAATTTTCTCGAGTCTG
64 CAAATCAAGTTCAATTCAGTATTCCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTCTG
*
2075918 ATCTCT
129 ATCTCC
* ** * * *
2075924 CCTAAAAAGTAGTGGATTAGATTCTTTTTCTTTCAAATTTGGTCTTTCTAAAGAGCAGCGAAGCA
1 CCTAAAGAGTAGTGGAGCAGATTCTTTTTCTTTCAGATTTGGTCTTTCTGAAGAGAAGCGAAGCA
* ** * *
2075989 AATCAAGTTCGATTCAGCCTTCCCTGACGAGCAACGAAATGGATCAAAATTTTCTCGAGCCTGAT
66 AATCAAGTTCAATTCAGTATTCCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTCTGAT
2076054 CTCC
131 CTCC
**
2076058 CCTAAAGAACAGTGGAGCAGAT
1 CCTAAAGAGTAGTGGAGCAGAT
2076080 CCCTTATAAA
Statistics
Matches: 357, Mismatches: 60, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
132 2 0.01
133 108 0.30
134 218 0.61
135 8 0.02
137 21 0.06
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (134 bp):
CCTAAAGAGTAGTGGAGCAGATTCTTTTTCTTTCAGATTTGGTCTTTCTGAAGAGAAGCGAAGCA
AATCAAGTTCAATTCAGTATTCCCTGAAGAGCAACGAAATGGATCAAAATTTTCTCGAGTCTGAT
CTCC
Found at i:2076231 original size:3 final size:3
Alignment explanation
Indices: 2076218--2076272 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
2076208 GAGACCCTTT
* *
2076218 TTA TT- TTA TTA TTA TAA TCA TTA TTA TTTA TTA TTTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA -TTA TTA
2076265 TTA TTA TT
1 TTA TTA TT
2076273 TTGTTTGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
2 2 0.04
3 34 0.76
4 9 0.20
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2076250 original size:7 final size:7
Alignment explanation
Indices: 2076238--2076273 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
2076228 ATTATAATCA
2076238 TTATTAT
1 TTATTAT
2076245 TTATTAT
1 TTATTAT
2076252 TTATTAT
1 TTATTAT
2076259 TTATTA-
1 TTATTAT
2076265 TTATTAT
1 TTATTAT
2076272 TT
1 TT
2076274 TGTTTGTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTAT
Found at i:2076257 original size:14 final size:13
Alignment explanation
Indices: 2076217--2076273 Score: 71
Period size: 14 Copynumber: 4.2 Consensus size: 13
2076207 GGAGACCCTT
2076217 TTTATT-TTATTA
1 TTTATTATTATTA
*
2076229 TTATAATCATTATTA
1 TT-T-ATTATTATTA
2076244 TTTATTATTTATTA
1 TTTATTA-TTATTA
2076258 TTTATTATTATTA
1 TTTATTATTATTA
2076271 TTT
1 TTT
2076274 TGTTTGTAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.05
13 13 0.33
14 16 0.41
15 8 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:2077403 original size:18 final size:17
Alignment explanation
Indices: 2077378--2077421 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
2077368 CTACCCTAAA
2077378 AGAAAAAAAATAAAATG
1 AGAAAAAAAATAAAATG
2077395 AGAAAAAAAATAAAATG
1 AGAAAAAAAATAAAATG
2077412 AGAAAAAAAA
1 AGAAAAAAAA
2077422 GGAGAAGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (17 bp):
AGAAAAAAAATAAAATG
Found at i:2079286 original size:21 final size:21
Alignment explanation
Indices: 2079257--2079300 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2079247 GGTGTCGAGG
2079257 TGATAATTCACAATATTGACA
1 TGATAATTCACAATATTGACA
* *
2079278 TGATGATTCATAATATTGACA
1 TGATAATTCACAATATTGACA
2079299 TG
1 TG
2079301 GTGGTCCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
TGATAATTCACAATATTGACA
Found at i:2079458 original size:16 final size:17
Alignment explanation
Indices: 2079437--2079473 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
2079427 TTTTGAATTT
*
2079437 AAAATTTTAAATATA-A
1 AAAATTTCAAATATATA
2079453 AAAA-TTCAAATATATA
1 AAAATTTCAAATATATA
2079469 AAAAT
1 AAAAT
2079474 AATTCTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTTCAAATATATA
Found at i:2080792 original size:2 final size:2
Alignment explanation
Indices: 2080785--2080820 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
2080775 ACATCAATTA
2080785 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2080821 TATTTAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2083540 original size:82 final size:82
Alignment explanation
Indices: 2083381--2083867 Score: 609
Period size: 82 Copynumber: 5.9 Consensus size: 82
2083371 TTTGAAAAGC
* * * *
2083381 AAAGGACGTGAATAGTATAGATTTTCTGATT-TCAATGGAAATTATTTCAGTTTATCTAAGTTGA
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTC--T--AAAATATTTCAGTTTATCTGAGTTGA
*
2083445 TGTGAAATATCAATGACAAGA
62 TGTGAAATGTCAATGACAAGA
* * * *
2083466 AAAGGACGTGAATAGTGTAGATTCCCTGATTCTCTAAAGTATTTCAATTTATCTGAGTTGATGTC
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
*
2083531 AAATGTCAATGATAAGA
66 AAATGTCAATGACAAGA
* * * * * *
2083548 AAATGACGTGCATAATGTAGATTCCCTTATTCTCTAAAATATTTCAGTTTATTTGAGTTGATGTG
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
* **
2083613 AAATGTCAATAACAATC
66 AAATGTCAATGACAAGA
* * * * *
2083630 AAATGACGTGAATAGTGTAGATTCTCTTATT-TCAATGGAAATTATTTCGGTTTATCTGAGTTAA
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTC--T--AAAATATTTCAGTTTATCTGAGTTGA
*
2083694 TGTGAAATATCAATGACAAGA
62 TGTGAAATGTCAATGACAAGA
*
2083715 AAAGGACTTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
* *
2083780 AAATGTCAATGACAGGC
66 AAATGTCAATGACAAGA
* * *
2083797 AAAGTACGTGAATAGTATAGATTCTCTGATTCTCTAAAATATTTCAATTTATCTGAGTTGATGTG
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
2083862 AAATGT
66 AAATGT
2083868 TTATTCCAAG
Statistics
Matches: 351, Mismatches: 45, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
81 2 0.01
82 247 0.70
83 1 0.00
84 2 0.01
85 95 0.27
86 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (82 bp):
AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
AAATGTCAATGACAAGA
Found at i:2083754 original size:167 final size:163
Alignment explanation
Indices: 2083381--2083865 Score: 614
Period size: 167 Copynumber: 2.9 Consensus size: 163
2083371 TTTGAAAAGC
* * * *
2083381 AAAGGACGTGAATAGTATAGATTTTCTGATT-TCAATGGAAATTATTTCAGTTTATCTAAGTTGA
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTC--T--AAAATATTTCAGTTTATCTGAGTTGA
* * * *
2083445 TGTGAAATATCAATGACAAGAAAAGGACGTGAATAGTGTAGATTCCCTGATTCTCTAAAGTATTT
62 TGTGAAATGTCAATGACAAGCAAA-GACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTT
* * *
2083510 CAATTTATCTGAGTTGATGTCAAATGTCAATGATAAGA
126 CAATTTATCTGAGTTGATGTGAAATATCAATGACAAGA
* * * * * *
2083548 AAATGACGTGCATAATGTAGATTCCCTTATTCTCTAAAATATTTCAGTTTATTTGAGTTGATGTG
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
* * * *
2083613 AAATGTCAATAACAATCAAATGACGTGAATAGTGTAGATTCTCTTATT-TCAATGGAAATTATTT
66 AAATGTCAATGACAAGCAAA-GACGTGAATAGTGTAGATTCTCTGATTCTC--T--AAAATATTT
** *
2083677 CGGTTTATCTGAGTTAATGTGAAATATCAATGACAAGA
126 CAATTTATCTGAGTTGATGTGAAATATCAATGACAAGA
*
2083715 AAAGGACTTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
1 AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
* *
2083780 AAATGTCAATGACAGGCAAAGTACGTGAATAGTATAGATTCTCTGATTCTCTAAAATATTTCAAT
66 AAATGTCAATGACAAGCAAAG-ACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAAT
2083845 TTATCTGAGTTGATGTGAAAT
130 TTATCTGAGTTGATGTGAAAT
2083866 GTTTATTCCA
Statistics
Matches: 271, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
163 2 0.01
164 98 0.36
165 1 0.00
166 3 0.01
167 163 0.60
168 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (163 bp):
AAAGGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAGTTTATCTGAGTTGATGTG
AAATGTCAATGACAAGCAAAGACGTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTTCAATT
TATCTGAGTTGATGTGAAATATCAATGACAAGA
Found at i:2083831 original size:249 final size:249
Alignment explanation
Indices: 2083380--2083867 Score: 762
Period size: 249 Copynumber: 2.0 Consensus size: 249
2083370 CTTTGAAAAG
* *
2083380 CAAAGGACGTGAATAGTATAGATTTTCTGATTTCAATGGAAATTATTTCAGTTTATCTAAGTTGA
1 CAAAGGACGTGAATAGTATAGATTCTCTGATTTCAATGGAAATTATTTCAGTTTATCTAAGTTAA
*
2083445 TGTGAAATATCAATGACAAGAAAAGGACGTGAATAGTGTAGATTCCCTGATTCTCTAAAGTATTT
66 TGTGAAATATCAATGACAAGAAAAGGACGTGAATAGTGTAGATTCCCTGATTCTCTAAAATATTT
* * *
2083510 CAATTTATCTGAGTTGATGTCAAATGTCAATGATAAGAAAATGACGTGCATAATGTAGATTCCCT
131 CAATTTATCTGAGTTGATGTCAAATGTCAATGACAAGAAAATGACGTGAATAATATAGATTCCCT
* * *
2083575 TATTCTCTAAAATATTTCAGTTTATTTGAGTTGATGTGAAATGTCAATAACAAT
196 GATTCTCTAAAATATTTCAATTTATCTGAGTTGATGTGAAATGTCAATAACAAT
* * * * *
2083629 CAAATGACGTGAATAGTGTAGATTCTCTTATTTCAATGGAAATTATTTCGGTTTATCTGAGTTAA
1 CAAAGGACGTGAATAGTATAGATTCTCTGATTTCAATGGAAATTATTTCAGTTTATCTAAGTTAA
* *
2083694 TGTGAAATATCAATGACAAGAAAAGGACTTGAATAGTGTAGATTCTCTGATTCTCTAAAATATTT
66 TGTGAAATATCAATGACAAGAAAAGGACGTGAATAGTGTAGATTCCCTGATTCTCTAAAATATTT
* * * * * *
2083759 CAGTTTATCTGAGTTGATGTGAAATGTCAATGACAGGCAAA-GTACGTGAATAGTATAGATTCTC
131 CAATTTATCTGAGTTGATGTCAAATGTCAATGACAAGAAAATG-ACGTGAATAATATAGATTCCC
2083823 TGATTCTCTAAAATATTTCAATTTATCTGAGTTGATGTGAAATGT
195 TGATTCTCTAAAATATTTCAATTTATCTGAGTTGATGTGAAATGT
2083868 TTATTCCAAG
Statistics
Matches: 216, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
248 1 0.00
249 215 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (249 bp):
CAAAGGACGTGAATAGTATAGATTCTCTGATTTCAATGGAAATTATTTCAGTTTATCTAAGTTAA
TGTGAAATATCAATGACAAGAAAAGGACGTGAATAGTGTAGATTCCCTGATTCTCTAAAATATTT
CAATTTATCTGAGTTGATGTCAAATGTCAATGACAAGAAAATGACGTGAATAATATAGATTCCCT
GATTCTCTAAAATATTTCAATTTATCTGAGTTGATGTGAAATGTCAATAACAAT
Found at i:2085638 original size:2 final size:2
Alignment explanation
Indices: 2085631--2085676 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2085621 TCTGATTAGC
2085631 AT AT AT AT AT AT 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 AT AT AT AT AT AT
2085673 AT AT
1 AT AT
2085677 GTAGAACCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2090744 original size:40 final size:40
Alignment explanation
Indices: 2090677--2090755 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
2090667 CTGATGTGGC
* * *
2090677 GCCATGTAGGGTAAGGCGAGGTTCATGGGTCGCGCCTTAT
1 GCCACGTAGGGTAAGACGAGGTGCATGGGTCGCGCCTTAT
* *
2090717 GCCACGTAGGGTAAGACGTGGTGCATGGGTCGTGCCTTA
1 GCCACGTAGGGTAAGACGAGGTGCATGGGTCGCGCCTTA
2090756 CTATCGTCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.20, G:0.38, T:0.24
Consensus pattern (40 bp):
GCCACGTAGGGTAAGACGAGGTGCATGGGTCGCGCCTTAT
Found at i:2090914 original size:29 final size:30
Alignment explanation
Indices: 2090862--2090953 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 30
2090852 TATAAATACA
*
2090862 CTCTCAACCCGTAAACATTC--ACAACAATC
1 CTCTCAACCCGTAAA-AATCAAACAACAATC
*
2090891 CTCTCAACCCG-AAAAATCAAACAACAAAC
1 CTCTCAACCCGTAAAAATCAAACAACAATC
* * ** *
2090920 CTTTCAACCCGTAAATATCATCCGACAATC
1 CTCTCAACCCGTAAAAATCAAACAACAATC
2090950 CTCT
1 CTCT
2090954 TATCTTTTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.06
28 3 0.06
29 29 0.57
30 16 0.31
ACGTcount: A:0.39, C:0.36, G:0.04, T:0.21
Consensus pattern (30 bp):
CTCTCAACCCGTAAAAATCAAACAACAATC
Found at i:2096971 original size:13 final size:13
Alignment explanation
Indices: 2096953--2097004 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
2096943 AACTGCAAAA
2096953 AAATAAAATAATT
1 AAATAAAATAATT
**
2096966 AAATAAAATACTAAA
1 AAATAAAATA--ATT
*
2096981 AAATTTAAATAATT
1 AAA-TAAAATAATT
2096995 AAATAAAATA
1 AAATAAAATA
2097005 CTAACAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 16 0.53
14 4 0.13
15 4 0.13
16 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:2096990 original size:29 final size:29
Alignment explanation
Indices: 2096949--2097022 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
2096939 TTATAACTGC
* *
2096949 AAAAAAATAAAATAATTAAATAAAATACT
1 AAAAAATTTAAATAATTAAATAAAATACT
2096978 AAAAAATTTAAATAATTAAATAAAATACT
1 AAAAAATTTAAATAATTAAATAAAATACT
2097007 AACAAAATATTAAATA
1 AA-AAAAT-TTAAATA
2097023 GAATAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 29 0.71
30 5 0.12
31 7 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAATTTAAATAATTAAATAAAATACT
Found at i:2097001 original size:21 final size:19
Alignment explanation
Indices: 2096951--2097004 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 19
2096941 ATAACTGCAA
2096951 AAAAATAAAATAATTAAAT
1 AAAAATAAAATAATTAAAT
2096970 AAAATACTAAAA-AATTTAAAT
1 AAAA-A-TAAAATAA-TTAAAT
2096991 AATTAAATAAAATA
1 AA--AAATAAAATA
2097005 CTAACAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.14
20 3 0.10
21 18 0.62
22 2 0.07
23 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATAAAATAATTAAAT
Found at i:2098461 original size:2 final size:2
Alignment explanation
Indices: 2098454--2098484 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2098444 GATCACAAAT
2098454 TA 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 T
2098485 GAGTTAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2098780 original size:18 final size:18
Alignment explanation
Indices: 2098759--2098797 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2098749 TACATATTAA
* *
2098759 AATATTATTTAATATATT
1 AATAATATTTAATATAAT
*
2098777 AATAATATTTTATATAAT
1 AATAATATTTAATATAAT
2098795 AAT
1 AAT
2098798 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATAATATTTAATATAAT
Found at i:2098789 original size:23 final size:20
Alignment explanation
Indices: 2098752--2098804 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2098742 GATTAATTAC
*
2098752 ATATTAAAATATTATTTAAT
1 ATATTAAAATATTATATAAT
2098772 ATATTAATAATATTTTATATAAT
1 ATATTAA-AATA--TTATATAAT
2098795 A-ATTCAAAAT
1 ATATT-AAAAT
2098805 TTTAAGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 7 0.25
21 4 0.14
22 6 0.21
23 11 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAAAATATTATATAAT
Found at i:2103997 original size:22 final size:22
Alignment explanation
Indices: 2103970--2104034 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
2103960 AACGGTCAAC
*
2103970 GGTCAACGGTCGGGTCGGGTTG
1 GGTCAACGGTCGGGTCGGGTCG
2103992 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
2104014 GGTCAACAGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
2104035 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.11, C:0.22, G:0.48, T:0.20
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:2104057 original size:19 final size:19
Alignment explanation
Indices: 2104033--2104110 Score: 113
Period size: 19 Copynumber: 4.1 Consensus size: 19
2104023 TCGGGTCGGG
2104033 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
2104052 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
2104071 TC-GAACCGGTCAAACCGGT
1 TCAG-ACCGGTCAAACCGGT
* *
2104090 TCAAAACTGGTCAAACCGGT
1 TC-AGACCGGTCAAACCGGT
2104110 T
1 T
2104111 TTCCAGCAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
18 1 0.02
19 38 0.70
20 15 0.28
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:2104093 original size:10 final size:9
Alignment explanation
Indices: 2104031--2104109 Score: 86
Period size: 9 Copynumber: 8.3 Consensus size: 9
2104021 AGTCGGGTCG
*
2104031 GGTCAGACC
1 GGTCAAACC
2104040 GGTCAAACC
1 GGTCAAACC
*
2104049 GGTTCAGACC
1 GG-TCAAACC
2104059 GGTCAAACC
1 GGTCAAACC
*
2104068 GGTTCGAACC
1 GG-TCAAACC
2104078 GGTCAAACC
1 GGTCAAACC
*
2104087 GGTTCAAAACT
1 GG-TC-AAACC
2104098 GGTCAAACC
1 GGTCAAACC
2104107 GGT
1 GGT
2104110 TTTCCAGCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 33 0.56
10 20 0.34
11 6 0.10
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:2110619 original size:10 final size:10
Alignment explanation
Indices: 2110604--2110661 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
2110594 AACGGTCAAC
2110604 GGTCGGGTCA
1 GGTCGGGTCA
2110614 GGTCGGGTCAA
1 GGTCGGGTC-A
*
2110625 CGGTCGGGTCC
1 -GGTCGGGTCA
2110636 GGTCGGGTCAA
1 GGTCGGGTC-A
*
2110647 CGGTCGGGTCG
1 -GGTCGGGTCA
2110658 GGTC
1 GGTC
2110662 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 22 0.54
11 1 0.02
12 18 0.44
ACGTcount: A:0.09, C:0.24, G:0.48, T:0.19
Consensus pattern (10 bp):
GGTCGGGTCA
Found at i:2110625 original size:22 final size:22
Alignment explanation
Indices: 2110597--2110661 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
2110587 AACGGTCAAC
2110597 GGTCAACGGTCGGGTCAGGTCG
1 GGTCAACGGTCGGGTCAGGTCG
*
2110619 GGTCAACGGTCGGGTCCGGTCG
1 GGTCAACGGTCGGGTCAGGTCG
*
2110641 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCAGGTC
2110662 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.11, C:0.25, G:0.46, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCAGGTCG
Found at i:2110629 original size:12 final size:12
Alignment explanation
Indices: 2110597--2110656 Score: 92
Period size: 12 Copynumber: 5.3 Consensus size: 12
2110587 AACGGTCAAC
2110597 GGTCAACGGTCG
1 GGTCAACGGTCG
2110609 GGTC-A-GGTCG
1 GGTCAACGGTCG
2110619 GGTCAACGGTCG
1 GGTCAACGGTCG
2110631 GGTC--CGGTCG
1 GGTCAACGGTCG
2110641 GGTCAACGGTCG
1 GGTCAACGGTCG
2110653 GGTC
1 GGTC
2110657 GGGTCAGACC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
10 19 0.43
11 2 0.05
12 23 0.52
ACGTcount: A:0.12, C:0.25, G:0.45, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:2110676 original size:9 final size:9
Alignment explanation
Indices: 2110658--2110746 Score: 61
Period size: 9 Copynumber: 9.3 Consensus size: 9
2110648 GGTCGGGTCG
*
2110658 GGTCAGACC
1 GGTCAAACC
2110667 GGTCAAACC
1 GGTCAAACC
* *
2110676 GTTTCAGACC
1 G-GTCAAACC
*
2110686 GGTTCGAACC
1 GG-TCAAACC
*
2110696 GATCAAACC
1 GGTCAAACC
**
2110705 GGTTTGAACC
1 GG-TCAAACC
2110715 GGTCAAACC
1 GGTCAAACC
*
2110724 GGTTCAAAACT
1 GG-TC-AAACC
2110735 GGTCAAACC
1 GGTCAAACC
2110744 GGT
1 GGT
2110747 TTTCCAGCAG
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
9 30 0.50
10 24 0.40
11 6 0.10
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (9 bp):
GGTCAAACC
Found at i:2110696 original size:10 final size:10
Alignment explanation
Indices: 2110664--2110747 Score: 68
Period size: 10 Copynumber: 8.7 Consensus size: 10
2110654 GTCGGGTCAG
2110664 ACCGG-TCAA
1 ACCGGTTCAA
* *
2110673 ACCGTTTCAG
1 ACCGGTTCAA
*
2110683 ACCGGTTCGA
1 ACCGGTTCAA
*
2110693 ACC-GATCAA
1 ACCGGTTCAA
**
2110702 ACCGGTTTGA
1 ACCGGTTCAA
2110712 ACCGG-TCAA
1 ACCGGTTCAA
2110721 ACCGGTTCAAA
1 ACCGGTTC-AA
*
2110732 ACTGG-TCAA
1 ACCGGTTCAA
2110741 ACCGGTT
1 ACCGGTT
2110748 TTCCAGCAGC
Statistics
Matches: 56, Mismatches: 14, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
9 24 0.43
10 26 0.46
11 6 0.11
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:2110705 original size:19 final size:19
Alignment explanation
Indices: 2110683--2110747 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
2110673 ACCGTTTCAG
*
2110683 ACCGGTTCGAACCGATCAA
1 ACCGGTTCGAACCGGTCAA
*
2110702 ACCGGTTTGAACCGGTCAA
1 ACCGGTTCGAACCGGTCAA
* *
2110721 ACCGGTTCAAAACTGGTCAA
1 ACCGGTTC-GAACCGGTCAA
2110741 ACCGGTT
1 ACCGGTT
2110748 TTCCAGCAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 24 0.60
20 16 0.40
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (19 bp):
ACCGGTTCGAACCGGTCAA
Found at i:2110730 original size:29 final size:29
Alignment explanation
Indices: 2110664--2110747 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 29
2110654 GTCGGGTCAG
* * *
2110664 ACCGGTCAAACCGTTTCAGACCGGTTCGA
1 ACCGGTCAAACCGGTTCAAACCGGTTCAA
* **
2110693 ACCGATCAAACCGGTTTGAACCGG-TCAA
1 ACCGGTCAAACCGGTTCAAACCGGTTCAA
*
2110721 ACCGGTTCAAAACTGG-TCAAACCGGTT
1 ACCGG-TC-AAACCGGTTCAAACCGGTT
2110748 TTCCAGCAGC
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
28 7 0.17
29 28 0.67
30 7 0.17
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (29 bp):
ACCGGTCAAACCGGTTCAAACCGGTTCAA
Found at i:2112549 original size:65 final size:65
Alignment explanation
Indices: 2112416--2112575 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
2112406 TGCACTAAGA
* * *
2112416 GTGCATCGATGCATCAAGTGCATTCAATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * *
2112480 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
2112543 AT
65 -G
*
2112545 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
2112576 CAATTTAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 28 0.33
65 54 0.64
66 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:2112614 original size:65 final size:63
Alignment explanation
Indices: 2112416--2112616 Score: 187
Period size: 65 Copynumber: 3.1 Consensus size: 63
2112406 TGCACTAAGA
* * * * *
2112416 GTGCATCGATGCATCAAGTGCATTCAATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTACATCGATGCATGGTT
2112479 G
63 G
* *
2112480 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTACATCGATGCATGGT-T
2112545 -
63 G
* **
2112545 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTACATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTACATCGATGCATGG-T
2112608 TG
62 TG
2112610 GTGCATC
1 GTGCATC
2112617 ACTCTGAAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 47 0.40
65 58 0.50
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTACATCGATGCATGGTTG
Found at i:2113082 original size:2 final size:2
Alignment explanation
Indices: 2113075--2113113 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2113065 AATTGATTAA
2113075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2113114 GCTTAAGCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2115385 original size:90 final size:91
Alignment explanation
Indices: 2115228--2115406 Score: 288
Period size: 90 Copynumber: 2.0 Consensus size: 91
2115218 CCTAACACAC
* * *
2115228 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTTATTATTTCAAATTAATTAAATATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATATA
* *
2115293 TATTTAATTAATTGGAATTTAATAAT
66 TATTTAATTAATTGAAATTAAATAAT
* *
2115319 CCTTTTATATCCAAGTTACCCTAATCATATCAGGG-ATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATATA
2115383 TATTTAATTAATTGAAATTAAATA
66 TATTTAATTAATTGAAATTAAATA
2115407 TTCTGGATTA
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 49 0.60
91 32 0.40
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (91 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATATA
TATTTAATTAATTGAAATTAAATAAT
Found at i:2121955 original size:21 final size:21
Alignment explanation
Indices: 2121929--2121984 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
2121919 ATGAGCGTCA
2121929 GTGCATCGATGCATACCCATG
1 GTGCATCGATGCATACCCATG
2121950 GTGCATCGATGCATACCCATG
1 GTGCATCGATGCATACCCATG
*
2121971 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
2121985 CAGTGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCATACCCATG
Found at i:2122160 original size:65 final size:59
Alignment explanation
Indices: 2122042--2122194 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 59
2122032 TGCACTAAGA
*
2122042 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAACCATAGTGCATCGATGCATGGCT-G
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAACCATAGTGCATCGATGCATGG-TAG
*
2122101 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC-TCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTC----AA-CCAT-AGTGCATCGATGCATGGTA
*
2122165 T
59 G
*
2122166 GTGCATCGATGCATGAAATGCATTCGATG
1 GTGCATCGATGCATCAAATGCATTCGATG
2122195 ATCAGTTTAA
Statistics
Matches: 82, Mismatches: 4, Indels: 10
0.85 0.04 0.10
Matches are distributed among these distances:
59 28 0.34
60 4 0.05
64 4 0.05
65 46 0.56
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (59 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAACCATAGTGCATCGATGCATGGTAG
Found at i:2122235 original size:65 final size:61
Alignment explanation
Indices: 2122042--2122246 Score: 179
Period size: 65 Copynumber: 3.3 Consensus size: 61
2122032 TGCACTAAGA
* * * *
2122042 GTGCATCGATGCATCAAGTGCATTCGATGT--TTCAA-CCATAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTCATTAAATTCAT-GTGCATCGATGCATGGTTG
* *
2122101 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCA-GTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG---TCATTAAAT--TCATGTGCATCGATGCATGGT-
2122165 T-
60 TG
* * *
2122166 GTGCATCGATGCATGAAATGCATTCGATGATCAGTTTAATTCATGGTGCATCGATGCATGAATTG
1 GTGCATCGATGCATCAAATGCATTCGATG-TCA-TTAAATTCAT-GTGCATCGATGCATG-GTTG
2122231 GTGCATC-AGTGCATCA
1 GTGCATCGA-TGCATCA
2122247 CTCTGAAAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 24
0.76 0.08 0.15
Matches are distributed among these distances:
59 28 0.24
62 4 0.03
63 3 0.03
64 23 0.19
65 57 0.48
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (61 bp):
GTGCATCGATGCATCAAATGCATTCGATGTCATTAAATTCATGTGCATCGATGCATGGTTG
Found at i:2124041 original size:25 final size:26
Alignment explanation
Indices: 2124011--2124062 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
2124001 TTTATCTTCA
* *
2124011 ATCTTCCA-TAAACTTCATTACCATC
1 ATCTTCCATTAAACTTAATGACCATC
2124036 ATCTTCCATTAAACTTAATGACCATC
1 ATCTTCCATTAAACTTAATGACCATC
2124062 A
1 A
2124063 ACCTCGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.35
Consensus pattern (26 bp):
ATCTTCCATTAAACTTAATGACCATC
Found at i:2127740 original size:29 final size:30
Alignment explanation
Indices: 2127675--2127747 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
2127665 CTTTACAAAA
2127675 TAAAACCAAAAACAAACTGGCCTCAAGCTC
1 TAAAACCAAAAACAAACTGGCCTCAAGCTC
2127705 TAAAACCAAAAACAAACTGGCCTCAAGCTC
1 TAAAACCAAAAACAAACTGGCCTCAAGCTC
*
2127735 TAAACCCAAAAAC
1 TAAAACCAAAAAC
2127748 CCAATCAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.49, C:0.30, G:0.08, T:0.12
Consensus pattern (30 bp):
TAAAACCAAAAACAAACTGGCCTCAAGCTC
Found at i:2131485 original size:16 final size:17
Alignment explanation
Indices: 2131451--2131531 Score: 51
Period size: 17 Copynumber: 4.8 Consensus size: 17
2131441 TGTTAGAGGG
*
2131451 AAAAATGAATAAATGAA
1 AAAAATGAATAAATAAA
*
2131468 AAAAATGAA-GAATAAA
1 AAAAATGAATAAATAAA
* * *
2131484 AATAAGTAAAAAAATAAA
1 AA-AAATGAATAAATAAA
*
2131502 ATAAAAGGAA-AAAT-AA
1 A-AAAATGAATAAATAAA
* *
2131518 ATAAATAAATAAAT
1 AAAAATGAATAAAT
2131532 GAAATATTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
15 5 0.10
16 14 0.29
17 18 0.37
18 11 0.22
19 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (17 bp):
AAAAATGAATAAATAAA
Found at i:2131916 original size:17 final size:19
Alignment explanation
Indices: 2131883--2131930 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2131873 ATGAATATAA
2131883 ATAAATAAATAAAACATAG
1 ATAAATAAATAAAACATAG
*
2131902 -TAAATAAGT-AAACATAG
1 ATAAATAAATAAAACATAG
*
2131919 ATAAAAAAATAA
1 ATAAATAAATAA
2131931 TAATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.33
18 15 0.62
19 1 0.04
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (19 bp):
ATAAATAAATAAAACATAG
Found at i:2132018 original size:23 final size:24
Alignment explanation
Indices: 2131984--2132048 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
2131974 ACGCAAAGAA
2131984 AAATGAAA-AAAATTATAA-TAAAT
1 AAAT-AAATAAAATTATAATTAAAT
2132007 AAATAAATAAAA-TATAATTAAAT
1 AAATAAATAAAATTATAATTAAAT
* * *
2132030 ATATACATATAAATAATAA
1 AAATAAATA-AAATTATAA
2132049 GGGTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 8 0.23
23 20 0.57
24 3 0.09
25 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAATTATAATTAAAT
Found at i:2132023 original size:19 final size:18
Alignment explanation
Indices: 2132001--2132045 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
2131991 AAAAATTATA
2132001 ATAAATAAATAAATAAAAT
1 ATAAATAAATAAAT-AAAT
* * *
2132020 ATAATTAAATATATACAT
1 ATAAATAAATAAATAAAT
2132038 ATAAATAA
1 ATAAATAA
2132046 TAAGGGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAAATAAATAAAT
Found at i:2143472 original size:136 final size:136
Alignment explanation
Indices: 2142924--2143472 Score: 647
Period size: 136 Copynumber: 4.1 Consensus size: 136
2142914 TAAACCATTA
* * * *
2142924 AACATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCAAAACAGGGACAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * *
2142989 TGA-AA-AGTTTGTTCGACCTATTGCTTGATTCACGACATTTCGAATTAGTAACACCTCGCTTGA
66 TGAGAAGAGCTTGTTCGACCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCACTTGA
2143052 GGGATT
131 GGGATT
* * * * *
2143058 AATATTTCCAATGGAGAGTTCTTAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCGTAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * * * * * *
2143123 TGAGAAGAGCTTG-TCTAATCTATCGCTTGATTCACGATATTTCGAATTAACGACACCTTACTTG
66 TGAGAAGAGCTTGTTC-GACCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCACTTG
*
2143187 AGAGATT
130 AGGGATT
* ** * * * * *
2143194 AATATTTCTGATAGAGAGTTCATAATGAGAATAAATCATCCGATAGAGGGAGAAAAAGTTCATGA
1 AACATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * ** *
2143259 TGAGAAGAGTTTGCTCGACCTATTGCTCGATTCACGGTATTTTGAATCA-CTAACACCTCACTTG
66 TGAGAAGAGCTTGTTCGACCTATTGCTCGATTCACGACATTTCGAATCAGC-AACACCTCACTTG
2143323 AGGGATT
130 AGGGATT
* * **
2143330 AGCATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGTAAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * *
2143395 TGAGAAGAACTTGTTCGACCTATTGCTCGATTCACGACATTTTGAATCAGCAACGCCTCACTTGA
66 TGAGAAGAGCTTGTTCGACCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCACTTGA
*
2143460 GGGATC
131 GGGATT
2143466 AACATTT
1 AACATTT
2143473 ATAGTAGAAA
Statistics
Matches: 348, Mismatches: 61, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
134 60 0.17
135 5 0.01
136 280 0.80
137 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (136 bp):
AACATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCGACCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCACTTGA
GGGATT
Found at i:2147542 original size:18 final size:18
Alignment explanation
Indices: 2147519--2147557 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2147509 AGGCATTTGA
*
2147519 TCCTCTGATCGTGCTTGT
1 TCCTCTGATCGAGCTTGT
* *
2147537 TCCTCTGGTGGAGCTTGT
1 TCCTCTGATCGAGCTTGT
2147555 TCC
1 TCC
2147558 CCGTGCTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.28, G:0.26, T:0.41
Consensus pattern (18 bp):
TCCTCTGATCGAGCTTGT
Found at i:2157155 original size:20 final size:20
Alignment explanation
Indices: 2157130--2157167 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2157120 GGCTGCTGGA
2157130 AACCGGTTT-AACCGGTTTTC
1 AACCGGTTTGAA-CGGTTTTC
2157150 AACCGGTTTGAACGGTTT
1 AACCGGTTTGAACGGTTT
2157168 GACCGGCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (20 bp):
AACCGGTTTGAACGGTTTTC
Found at i:2157215 original size:19 final size:19
Alignment explanation
Indices: 2157151--2157221 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
2157141 CCGGTTTTCA
* *
2157151 ACCGGTTTGAA-CGGTTTG
1 ACCGGTCTGAACCGATTTG
* *
2157169 ACCGG-CTCAAACCGGTTTG
1 ACCGGTCT-GAACCGATTTG
2157188 ACCGGTCTGAACCGATTTG
1 ACCGGTCTGAACCGATTTG
*
2157207 ACCGGTCTGACCCGA
1 ACCGGTCTGAACCGA
2157222 CCCGACCCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.02
18 7 0.16
19 35 0.78
20 2 0.04
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (19 bp):
ACCGGTCTGAACCGATTTG
Found at i:2157217 original size:9 final size:9
Alignment explanation
Indices: 2157131--2157218 Score: 59
Period size: 9 Copynumber: 9.3 Consensus size: 9
2157121 GCTGCTGGAA
*
2157131 ACCGGTTTA
1 ACCGGTTTG
*
2157140 ACCGGTTTTCA
1 ACCGG-TTT-G
2157151 ACCGGTTTG
1 ACCGGTTTG
*
2157160 AACGGTTTG
1 ACCGGTTTG
***
2157169 ACCGGCTCAA
1 ACCGG-TTTG
2157179 ACCGGTTTG
1 ACCGGTTTG
*
2157188 ACCGGTCTG
1 ACCGGTTTG
*
2157197 AACCGATTTG
1 -ACCGGTTTG
*
2157207 ACCGGTCTG
1 ACCGGTTTG
2157216 ACC
1 ACC
2157219 CGACCCGACC
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
9 36 0.59
10 19 0.31
11 6 0.10
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2157225 original size:5 final size:5
Alignment explanation
Indices: 2157215--2157255 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
2157205 TGACCGGTCT
*
2157215 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC
2157256 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:2157242 original size:22 final size:22
Alignment explanation
Indices: 2157214--2157262 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
2157204 TTGACCGGTC
2157214 TGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGACCCGACCGT
2157236 TGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGACCCGACCGT
2157258 TGACC
1 TGACC
2157263 GTTGACCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.10
Consensus pattern (22 bp):
TGACCCGACCCGACCCGACCGT
Found at i:2157264 original size:7 final size:7
Alignment explanation
Indices: 2157252--2157282 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2157242 GACCCGACCC
2157252 GACCGTT
1 GACCGTT
2157259 GACCGTT
1 GACCGTT
2157266 GACCGTT
1 GACCGTT
2157273 GACCGTT
1 GACCGTT
2157280 GAC
1 GAC
2157283 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:2164473 original size:10 final size:10
Alignment explanation
Indices: 2164449--2164506 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
2164439 GGCTGCTGGA
2164449 AACCGGTTT-
1 AACCGGTTTC
2164458 AACCGGTTTC
1 AACCGGTTTC
2164468 AACCGG-TTC
1 AACCGGTTTC
*
2164477 TGACCGGTTTC
1 -AACCGGTTTC
2164488 AACCGG-TTC
1 AACCGGTTTC
2164497 AAACCGGTTT
1 -AACCGGTTT
2164507 GACCGGTCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 15 0.36
10 22 0.52
11 5 0.12
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (10 bp):
AACCGGTTTC
Found at i:2164484 original size:20 final size:20
Alignment explanation
Indices: 2164449--2164506 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
2164439 GGCTGCTGGA
2164449 AACCGGTT-TAACCGGTTTC
1 AACCGGTTCTAACCGGTTTC
*
2164468 AACCGGTTCTGACCGGTTTC
1 AACCGGTTCTAACCGGTTTC
*
2164488 AACCGGTTCAAACCGGTTT
1 AACCGGTTCTAACCGGTTT
2164507 GACCGGTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (20 bp):
AACCGGTTCTAACCGGTTTC
Found at i:2164497 original size:29 final size:29
Alignment explanation
Indices: 2164450--2164513 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
2164440 GCTGCTGGAA
2164450 ACCGGTTTAACCGGTTTC-AACCGGTTCTG
1 ACCGGTTTAACCGGTTTCAAACCGGTT-TG
2164479 ACCGGTTTCAACCGG-TTCAAACCGGTTTG
1 ACCGGTTT-AACCGGTTTCAAACCGGTTTG
2164508 ACCGGT
1 ACCGGT
2164514 CTGACCCGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (29 bp):
ACCGGTTTAACCGGTTTCAAACCGGTTTG
Found at i:2164537 original size:17 final size:17
Alignment explanation
Indices: 2164515--2164553 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2164505 TTGACCGGTC
2164515 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
2164532 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
2164549 TGACC
1 TGACC
2164554 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:2164553 original size:7 final size:7
Alignment explanation
Indices: 2164543--2164573 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2164533 GACCCGACCC
2164543 GACCGTT
1 GACCGTT
2164550 GACCGTT
1 GACCGTT
2164557 GACCGTT
1 GACCGTT
2164564 GACCGTT
1 GACCGTT
2164571 GAC
1 GAC
2164574 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:2167337 original size:137 final size:137
Alignment explanation
Indices: 2167160--2167424 Score: 381
Period size: 137 Copynumber: 1.9 Consensus size: 137
2167150 CAATTTGAGG
* *
2167160 AATTAAATTGGAACCTCGAGCAAAAACGAGGACAAAATTAAGAATTCTCTTAATTTAAGGGA-CA
1 AATTAAATTGGAACCTCGAGCAAAAACGAGGACAAAATTAAGAATTCACCTAATTTAA-GGATCA
** * * *
2167224 AATGTGAAATTGGGCCTAAGATGTAGGCTCTAATATTAAT-CTTAATCAACTTTAATCAATTATT
65 AACATGAAATTAGGCCTAAGATGAAGGCTCTAATATTAATAC-TAATCAACTTTAATAAATTATT
2167288 GATTTGAAT
129 GATTTGAAT
* * * *
2167297 AATTAAATTGGAACCTCGAGCAAAAGCGATGACCAAATTAAGAATTCACCTAATTTAAGGATTAA
1 AATTAAATTGGAACCTCGAGCAAAAACGAGGACAAAATTAAGAATTCACCTAATTTAAGGATCAA
* *
2167362 ACATGAAATTAGGCCTAAGATGAAGGCTCTAATATTAATACTAATTAATTTTAATAAATTATT
66 ACATGAAATTAGGCCTAAGATGAAGGCTCTAATATTAATACTAATCAACTTTAATAAATTATT
2167425 ACTAGAATTT
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 3 0.03
137 109 0.96
138 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (137 bp):
AATTAAATTGGAACCTCGAGCAAAAACGAGGACAAAATTAAGAATTCACCTAATTTAAGGATCAA
ACATGAAATTAGGCCTAAGATGAAGGCTCTAATATTAATACTAATCAACTTTAATAAATTATTGA
TTTGAAT
Found at i:2169525 original size:20 final size:21
Alignment explanation
Indices: 2169502--2169557 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 21
2169492 GTTGAACAAA
*
2169502 TTCTTCTCATTATGAACT-TC
1 TTCTTCTCATTATGAACTGAC
*
2169522 TTCTTTCTCA-TA-GAA-TGAG
1 TTC-TTCTCATTATGAACTGAC
2169541 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
2169558 CCTTCCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 8 0.28
21 6 0.21
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.46
Consensus pattern (21 bp):
TTCTTCTCATTATGAACTGAC
Found at i:2170288 original size:117 final size:117
Alignment explanation
Indices: 2169777--2171030 Score: 1256
Period size: 117 Copynumber: 10.7 Consensus size: 117
2169767 CGAGCTAATT
* * * *
2169777 TTGAATAAGTTCTTCTTATTATGAACTTCTTCTCCCTCACCGGATGAGTTCTTCTCATTACGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTT-TCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * * *
2169842 -CCTTCTATTGGAAATTTTGATCCACCTCCTTCTGTGATAGAATCGAACCAAGG
65 TCTTTC-ATTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
* * * * * *
2169895 TTGAACAATTTCTTCTTAGTATGAACTTCTTTTCCCCCATCGAATGAGTTCTTCTCATTACGAAA
1 TTGAACAAGTTCTTCTCATTATGAACTTC-TTTCCCTCATCGGATGAGTTCTTCTCATTATG-AA
* ** * * *** *
2169960 C-CTTCCATTTAAAATGTTGATCCACC-TCTCTCTTTGATAGAATCGAGTGAAATG
64 CTCTTTCATTGGAAATGTTGATCCACCTTCT-TCTGTGATGGAATCGA-ACCAAGG
* * * * * *
2170014 TTAAAACAAGTTCTTCTAATTAGGAACTTCTTCTCCCTCATCGGACGAGTTATTCTCTTTATGAA
1 TT-GAACAAGTTCTTCTCATTATGAACTTCTT-TCCCTCATCGGATGAGTTCTTCTCATTATGAA
* * * * * * *
2170079 CTC--TCAACTGGAAATGTTAATCCACCTCCTTTTATGATGG-AT-GAGCCAAGA
64 CTCTTTC-ATTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
* *
2170130 TTGAACAAGTTCTTCTCATTATGAACTTATCCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCT-TTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* *
2170195 TCTTTCATTGGAAATGTTCATCCA-CTTCTTCTGTGATGGAATCAAACCAAGG
65 TCTTTCATTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
* * *
2170247 TTGAACAAGTTCTTCTCATTATGAACTTCGTTTTCCTCATCGAACGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTC-TTTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * * *
2170312 TC-TCCACTT-GAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGT
65 TCTTTCA-TTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
* *
2170364 TTGAACAAGTTCTTCTCATTATAAACTT-TTTCTCTCTCATCGAATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTTC-C-CTCATCGGATGAGTTCTTCTCATTATGAA
* * * * * *
2170428 CT-TTTCACTGAAAATGTTGATACACCTTCTTCTCTGATGGAAACGAACAAAGG
64 CTCTTTCATTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
*
2170481 TTGAACAAGTTCTTCTCATTATGAACTTC-TTCTCCTGCATCGGATGAGTTCTTCTTATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTTC-CCT-CATCGGATGAGTTCTTCTCATTATGAA
* * *
2170545 CTCTTTCATTGGAAATATTGATCGACC-TCTTTCTGTGATAGAATCGAACCAAGG
64 CTCTTTCATTGGAAATGTTGATCCACCTTC-TTCTGTGATGGAATCGAACCAAGG
* * * *
2170599 TTGATCAAATTCTTCTCATTATGAACTTCTTCTCTCTCATCGGACGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTT-TCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * * * * *
2170664 T-TTCCACTGGAAATGTTGATCCAACTCCTTCTATGATGGAATGGAACCAAGG
65 TCTTTCATTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
* ** * ** *
2170716 TTGACCAAGTTCTTCTCATTATGAACTTCTTAAGCCTCATCAGACAAGTTCTTCTCATTATGCAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTT-TCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * * * *
2170781 TC-TCCACT-GAAATCGTTGATCCACC-TCATTTTATGATGG-AT-GAGCCAAGG
65 TCTTTCATTGGAAAT-GTTGATCCACCTTC-TTCTGTGATGGAATCGAACCAAGG
* * *
2170831 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGCATGAGTTCTTCTCATTATGAA-
1 TTGAACAAGTTCTTCTCATTATGAACTTCTT-TCCCTCATCGGATGAGTTCTTCTCATTATGAAC
** * *** *
2170895 -CTTTCTACCGAAAATGTTGATCCACCGAATTCTGTGATGGAATCGAACCAATG
65 TCTTTC-ATTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
* * * *
2170948 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGACGAGTTCTTCTCATTATGTAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTT-TCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * *
2171013 TCTCTGATTAGAAATGTT
65 TCTTTCATTGGAAATGTT
2171031 AACTAGTTTA
Statistics
Matches: 945, Mismatches: 152, Indels: 78
0.80 0.13 0.07
Matches are distributed among these distances:
113 1 0.00
114 2 0.00
115 154 0.16
116 56 0.06
117 443 0.47
118 191 0.20
119 47 0.05
120 51 0.05
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (117 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
CTTTCATTGGAAATGTTGATCCACCTTCTTCTGTGATGGAATCGAACCAAGG
Found at i:2170327 original size:232 final size:233
Alignment explanation
Indices: 2169777--2171016 Score: 1349
Period size: 235 Copynumber: 5.3 Consensus size: 233
2169767 CGAGCTAATT
* * * * * *
2169777 TTGAATAAGTTCTTCTTATTATGAACTTCTTCTCCCTCACCGGATGAGTTCTTCTCATTACGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTCATTATGAAC
* * * * * *
2169842 CCTTCTA-TTGGAAATTTTGATCCACCTCCTTCTGTGATAGAATCGAACCAAGGTTGAACAATTT
66 TC-TCCACTT-GAAATGTTGATCCACCTCCTTTTGTGAT-GGATCGAACCAAGGTTGAACAAGTT
* * * * * * * * *
2169906 CTTCTTAGTATGAACTTCTTTTCCCCCATCGAATGAGTTCTTCTCATTACGAAAC-CTTCCATTT
128 CTTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTCTTCTCATTATG-AACTCTTTCACTG
* * * *** *
2169970 AAAATGTTGATCCACCTCTCTCTTTGATAGAATCGAGTGAAATG
192 AAAATGTTGATCCACTTCT-TCTGTGATGGAATCGA-ACCAAGG
* * * * * *
2170014 TTAAAACAAGTTCTTCTAATTAGGAACTTCTTCTCCCTCATCGGACGAGTTATTCTCTTTATGAA
1 TT-GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTCATTATGAA
* * * * * *
2170079 CTCTCAACTGGAAATGTTAATCCACCTCCTTTTATGATGGAT-GAGCCAAGATTGAACAAGTTCT
65 CTCTCCACTTGAAATGTTGATCCACCTCCTTTTGTGATGGATCGAACCAAGGTTGAACAAGTTCT
* * * *
2170143 TCTCATTATGAACTTATCCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTTTCATTGGAA
130 TCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTTTCACTGAAA
* *
2170208 ATGTTCATCCACTTCTTCTGTGATGGAATCAAACCAAGG
195 ATGTTGATCCACTTCTTCTGTGATGGAATCGAACCAAGG
*
2170247 TTGAACAAGTTCTTCTCATTATGAACTTCGTT-TTCCTCATCGAACGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTC-TTCTCCCTCATCGAACGAGTTCTTCTCATTATGAA
* * *
2170311 CTCTCCACTTGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGTTTGAACAAGTTC
65 CTCTCCACTTGAAATGTTGATCCACCTCCTTTTGTGATGG-ATCGAACCAAGGTTGAACAAGTTC
* * *
2170376 TTCTCATTATAAACTTTTTCTCTCTCATCGAATGAGTTCTTCTCATTATGAACT-TTTCACTGAA
129 TTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTTTCACTGAA
* * * *
2170440 AATGTTGATACACCTTCTTCTCTGATGGAAACGAACAAAGG
194 AATGTTGATCCA-CTTCTTCTGTGATGGAATCGAACCAAGG
* * *
2170481 TTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTGCATCGGATGAGTTCTTCTTATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-CATCGAACGAGTTCTTCTCATTATGAA
* * * * * *
2170545 CTCTTTCA-TTGGAAATATTGATCGACCT-CTTTCTGTGATAGAATCGAACCAAGGTTGATCAAA
65 CTC-TCCACTT-GAAATGTTGATCCACCTCCTTT-TGTGAT-GGATCGAACCAAGGTTGAACAAG
* * * * *
2170608 TTCTTCTCATTATGAACTTCTTCTCTCTCATCGGACGAGTTCTTCTCATTATGAACT-TTCCACT
126 TTCTTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTTTCACT
* * * *
2170672 GGAAATGTTGATCCAACTCCTTCTATGATGGAATGGAACCAAGG
191 GAAAATGTTGATCC-ACTTCTTCTGTGATGGAATCGAACCAAGG
* *** * *
2170716 TTGACCAAGTTCTTCTCATTATGAACTTCTTAAGCCTCATC-AGACAAGTTCTTCTCATTATGCA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGA-ACGAGTTCTTCTCATTATGAA
* * *
2170780 CTCTCCAC-TGAAATCGTTGATCCACCTCATTTTATGATGGAT-GAGCCAAGGTTGAACAAGTTC
65 CTCTCCACTTGAAAT-GTTGATCCACCTCCTTTTGTGATGGATCGAACCAAGGTTGAACAAGTTC
* * *
2170843 TTCTCATTATGAACTTATTCTCCCTCATTGCATGAGTTCTTCTCATTATGAA--CTTTCTACCGA
129 TTCTCATTATGAACTTATTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTTTC-ACTGA
*** *
2170906 AAATGTTGATCCACCGAATTCTGTGATGGAATCGAACCAATG
193 AAATGTTGATCCA-CTTCTTCTGTGATGGAATCGAACCAAGG
* *
2170948 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATC-AGACGAGTTCTTCTCATTATGTA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGA-ACGAGTTCTTCTCATTATGAA
2171012 CTCTC
65 CTCTC
2171017 TGATTAGAAA
Statistics
Matches: 851, Mismatches: 130, Indels: 49
0.83 0.13 0.05
Matches are distributed among these distances:
231 4 0.00
232 251 0.29
233 40 0.05
234 188 0.22
235 275 0.32
236 8 0.01
237 29 0.03
238 56 0.07
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (233 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTCATTATGAAC
TCTCCACTTGAAATGTTGATCCACCTCCTTTTGTGATGGATCGAACCAAGGTTGAACAAGTTCTT
CTCATTATGAACTTATTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTTTCACTGAAAA
TGTTGATCCACTTCTTCTGTGATGGAATCGAACCAAGG
Found at i:2170694 original size:352 final size:346
Alignment explanation
Indices: 2169777--2171009 Score: 1442
Period size: 352 Copynumber: 3.5 Consensus size: 346
2169767 CGAGCTAATT
* * * * *
2169777 TTGAATAAGTTCTTCTTATTATGAACTTCTTCTCCCTCACCGGATGAGTTCTTCTCATTACGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * *
2169842 CCTTCTATTGGAAATTTTGATCCACCTCCTTCTGTGATAGAATCGAACCAAGGTTGAACAATTTC
66 CTTTCTATTGGAAATGTTGATCCACCT-CTTCTGTGATAGAATCGAACCAAGGTTGAACAAGTTC
* * * * * * * * *
2169907 TTCTTAGTATGAACTTCTTTTCCCCCATCGAATGAGTTCTTCTCATTACGAAACCTTCCATTTAA
130 TTCTCATTATGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTCATTATG-AACTTTCCACTTGA
* * **** ** *
2169972 AATGTTGATCCACCT-CTCTCTTTGATAGAATCGAGTGAAATGTTAAAACAAGTTCTTCTAATTA
194 AATGTTGATCCACCTCCT-TCTATGATGGAATC-AAACCAA-GTTTGAACAAGTTCTTCTCATTA
* * * * * * *
2170036 GGAACTTCTTCTCCCTCATCGGACGAGTTATTCTCTTTATGAAC-TCTCAACTGGAAATGTTAAT
256 TGAACTTTTTCT-CCTCATC-GAAGAGTTCTTCTCATTATGAACTTTTC-ACT-GAAATGTTGAT
* *
2170100 CCACCTCCTTTTATGATGGATGAGCCAAGA
317 CCACCTTCTTTTATGATGGATGAGCCAAGG
*
2170130 TTGAACAAGTTCTTCTCATTATGAACTTATCCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * * *
2170195 TCTTTC-ATTGGAAATGTTCATCCACTTCTTCTGTGATGGAATCAAACCAAGGTTGAACAAGTTC
66 -CTTTCTATTGGAAATGTTGATCCACCTCTTCTGTGATAGAATCGAACCAAGGTTGAACAAGTTC
* *
2170259 TTCTCATTATGAACTTCGTT-TTCCTCATCGAACGAGTTCTTCTCATTATGAACTCTCCACTTGA
130 TTCTCATTATGAACTTC-TTCTCCCTCATCGAACGAGTTCTTCTCATTATGAACTTTCCACTTGA
* *
2170323 AATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGTTTGAACAAGTTCTTCTCATTATAA
194 AATGTTGATCCACCTCCTTCTATGATGGAATCAAACCAAGTTTGAACAAGTTCTTCTCATTATGA
*
2170388 ACTTTTTCTCTCTCATCGAATGAGTTCTTCTCATTATGAACTTTTCACTGAAAATGTTGATACAC
259 ACTTTTTCTC-CTCATCGAA-GAGTTCTTCTCATTATGAACTTTTCACTG-AAATGTTGATCCAC
* * * * *
2170453 CTTCTTCTCTGATGGAAACGAACAAAGG
321 CTTCTTTTATGATGG--ATGAGCCAAGG
* *
2170481 TTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTGCATCGGATGAGTTCTTCTTATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCT-CATCGGATGAGTTCTTCTCATTATGAA
* * * *
2170545 CTCTTTC-ATTGGAAATATTGATCGACCTCTTTCTGTGATAGAATCGAACCAAGGTTGATCAAAT
65 C-CTTTCTATTGGAAATGTTGATCCACCTC-TTCTGTGATAGAATCGAACCAAGGTTGAACAAGT
* * *
2170609 TCTTCTCATTATGAACTTCTTCTCTCTCATCGGACGAGTTCTTCTCATTATGAACTTTCCACTGG
128 TCTTCTCATTATGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTCATTATGAACTTTCCACTTG
* ** * *
2170674 AAATGTTGATCCAACTCCTTCTATGATGGAATGGAACCAAGGTTGACCAAGTTCTTCTCATTATG
193 AAATGTTGATCCACCTCCTTCTATGATGGAATCAAACCAAGTTTGAACAAGTTCTTCTCATTATG
*** * * *
2170739 AACTTCTTAAGCCTCATCAGACA-AGTTCTTCTCATTATGCACTCTCCACTGAAATCGTTGATCC
258 AACTT-TTTCTCCTCATC-GA-AGAGTTCTTCTCATTATGAACTTTTCACTGAAAT-GTTGATCC
2170803 ACC-TCATTTTATGATGGATGAGCCAAGG
319 ACCTTC-TTTTATGATGGATGAGCCAAGG
* *
2170831 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATTGCATGAGTTCTTCTCATTATGAA-
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
** * ** * *
2170895 CTTTCTACCGAAAATGTTGATCCACCGAATTCTGTGATGGAATCGAACCAATGTTGAACAAGTTC
66 CTTTCTATTGGAAATGTTGATCCACC-TCTTCTGTGATAGAATCGAACCAAGGTTGAACAAGTTC
*
2170960 TTCTCATTATGAACTTCTTCTCCCTTATC-AGACGAGTTCTTCTCATTATG
130 TTCTCATTATGAACTTCTTCTCCCTCATCGA-ACGAGTTCTTCTCATTATG
2171010 TACTCTCTGA
Statistics
Matches: 758, Mismatches: 101, Indels: 46
0.84 0.11 0.05
Matches are distributed among these distances:
348 9 0.01
349 173 0.23
350 73 0.10
351 137 0.18
352 277 0.37
353 84 0.11
354 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (346 bp):
TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
CTTTCTATTGGAAATGTTGATCCACCTCTTCTGTGATAGAATCGAACCAAGGTTGAACAAGTTCT
TCTCATTATGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTCATTATGAACTTTCCACTTGAAA
TGTTGATCCACCTCCTTCTATGATGGAATCAAACCAAGTTTGAACAAGTTCTTCTCATTATGAAC
TTTTTCTCCTCATCGAAGAGTTCTTCTCATTATGAACTTTTCACTGAAATGTTGATCCACCTTCT
TTTATGATGGATGAGCCAAGG
Found at i:2172636 original size:54 final size:54
Alignment explanation
Indices: 2172534--2172706 Score: 165
Period size: 54 Copynumber: 3.2 Consensus size: 54
2172524 TTACAATTAT
* * * ** *
2172534 CATCAAGAAACCCTTAAAAATTAGGTTTAGCTTTTTTGAAAATCCATTTG-AAGA
1 CATCAAGAAACCCCTGAAAATCAGGTTTAGCTCATTTGAAAATACATTTGTAA-A
*
2172588 CATCAAGAAACCCCTGAAAACCAGGTTTAGCTCATTT-ATAAATACATTTGTAAA
1 CATCAAGAAACCCCTGAAAATCAGGTTTAGCTCATTTGA-AAATACATTTGTAAA
* * * ** *
2172642 TATCGAA-AAACCCCTGAAAATCAGGCTTAACTCATTTCCAAAT-CTTTTTGTAAA
1 CATC-AAGAAACCCCTGAAAATCAGGTTTAGCTCATTTGAAAATAC-ATTTGTAAA
2172696 CATCAAGAAAC
1 CATCAAGAAAC
2172707 TTTTGAAAAC
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
53 4 0.04
54 91 0.92
55 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
CATCAAGAAACCCCTGAAAATCAGGTTTAGCTCATTTGAAAATACATTTGTAAA
Found at i:2174826 original size:24 final size:23
Alignment explanation
Indices: 2174797--2174861 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 23
2174787 AAGTATTTTT
*
2174797 CTTTCTTATTTTTTCTTTTTTTCC
1 CTTTCTT-TTCTTTCTTTTTTTCC
*
2174821 CTTTCTTTTCTTTGTTTTTTT--
1 CTTTCTTTTCTTTCTTTTTTTCC
2174842 C-TTCTTTTCTCTT-TTTTTTT
1 CTTTCTTTTCT-TTCTTTTTTT
2174862 ACTCTTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 16 0.42
21 3 0.08
23 12 0.32
24 7 0.18
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTTCTTTTCTTTCTTTTTTTCC
Found at i:2174846 original size:20 final size:20
Alignment explanation
Indices: 2174823--2174877 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
2174813 TTTTTTCCCT
2174823 TTCTTTTCTTTGTTTTTTT-C
1 TTCTTTTCTTT-TTTTTTTAC
2174843 TTCTTTTCTCTTTTTTTTTAC
1 TTCTTTTCT-TTTTTTTTTAC
2174864 -TCTTCTTCTTTTTT
1 TTCTT-TTCTTTTTT
2174878 GTTATATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 25 0.78
21 7 0.22
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (20 bp):
TTCTTTTCTTTTTTTTTTAC
Found at i:2174859 original size:21 final size:21
Alignment explanation
Indices: 2174792--2174877 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
2174782 TCTTGAAGTA
* * *
2174792 TTTTTCTTTCTTATTTTTTC-
1 TTTTTTTTTCTTCTTTTCTCT
**
2174812 TTTTTTTCCCTTTCTTTTCT-T
1 TTTTTTTTTC-TTCTTTTCTCT
*
2174833 TGTTTTTTTCTTCTTTTCTCT
1 TTTTTTTTTCTTCTTTTCTCT
* *
2174854 TTTTTTTTAC-TCTTCT-TCT
1 TTTTTTTTTCTTCTTTTCTCT
2174873 TTTTT
1 TTTTT
2174878 GTTATATCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 8 0.15
20 21 0.40
21 23 0.44
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTCTTCTTTTCTCT
Found at i:2174873 original size:19 final size:19
Alignment explanation
Indices: 2174824--2174896 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
2174814 TTTTTCCCTT
*
2174824 TCTT-TTCTTTGTTTTTTTC
1 TCTTCTTCTTT-TTTTTTAC
*
2174843 TTCTTTTCTCTTTTTTTTTAC
1 -TCTTCT-TCTTTTTTTTTAC
2174864 TCTTCTTCTTTTTTGTTATA-
1 TCTTCTTCTTTTTT-TT-TAC
2174884 TCTTC-TCTTTTTT
1 TCTTCTTCTTTTTT
2174897 CTCTTTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
19 16 0.34
20 16 0.34
21 10 0.21
22 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.03, T:0.75
Consensus pattern (19 bp):
TCTTCTTCTTTTTTTTTAC
Found at i:2174887 original size:20 final size:18
Alignment explanation
Indices: 2174835--2174896 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
2174825 CTTTTCTTTG
*
2174835 TTTTTTTCTT-CTTTTCTC
1 TTTTTTT-TTACTCTTCTC
2174853 TTTTTTTTTACTCTTCTTC
1 TTTTTTTTTACTCTTC-TC
2174872 TTTTTTGTTATA-TCTTCTC
1 TTTTTT-TT-TACTCTTCTC
2174891 TTTTTT
1 TTTTTT
2174897 CTCTTTGTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 16 0.41
20 7 0.18
21 2 0.05
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTACTCTTCTC
Found at i:2178564 original size:137 final size:136
Alignment explanation
Indices: 2178390--2178650 Score: 407
Period size: 137 Copynumber: 1.9 Consensus size: 136
2178380 TCCGAGGAAT
*
2178390 TAAATTAGAACCTCGAGCAAAAGCGAGGACCAAATTAAGAATTCT-CCTAATTTAAGTATCAAAT
1 TAAATTAGAACCTCGAGCAAAAGCGAGGACCAAATTAAGAATT-TGCCTAATTTAAGGATCAAAT
* *
2178454 GTGAAATTAGGCCTAATATGGAGGCTCTAATATTAATCCTAATCAACTTTAATCAATTATTGGTT
65 ATGAAATTAGG-CTAAGATGGAGGCTCTAATATTAATCCTAATCAACTTTAATCAATTATTGGTT
2178519 CGAATAAC
129 CGAATAAC
* * * *
2178527 TAAATTGGAACCTCGAGCAAAAGTGATGACCAAATTAAGAATTTGCCTAATTTAAGGATTAAATA
1 TAAATTAGAACCTCGAGCAAAAGCGAGGACCAAATTAAGAATTTGCCTAATTTAAGGATCAAATA
* * *
2178592 TGAAATTAGGCTAAGGTGGAGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATT
66 TGAAATTAGGCTAAGATGGAGGCTCTAATATTAATCCTAATCAACTTTAATCAATTATT
2178651 ACTAGAATTT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
136 46 0.41
137 67 0.59
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (136 bp):
TAAATTAGAACCTCGAGCAAAAGCGAGGACCAAATTAAGAATTTGCCTAATTTAAGGATCAAATA
TGAAATTAGGCTAAGATGGAGGCTCTAATATTAATCCTAATCAACTTTAATCAATTATTGGTTCG
AATAAC
Found at i:2181222 original size:111 final size:111
Alignment explanation
Indices: 2180884--2181232 Score: 583
Period size: 111 Copynumber: 3.1 Consensus size: 111
2180874 TTGTCGGTTT
* *
2180884 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
*
2180949 GTCTATAAATGACAAAACAGGTAAAGCTCTACCGGATATATTGAAA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
2180995 GTGTCGATACTTTATAAAAATGTATCGACCCATAACAATATAATAGGTAAATAAATGATAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-AAATGACAAAACC
2181060 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATT-AAA
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
2181106 TGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAAATGACAAAATC
1 -GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACC
* *
2181171 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATA
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
2181218 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
2181233 TATAAGTATC
Statistics
Matches: 222, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
111 118 0.53
112 104 0.47
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (111 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:2181416 original size:182 final size:182
Alignment explanation
Indices: 2181110--2181558 Score: 729
Period size: 182 Copynumber: 2.5 Consensus size: 182
2181100 ATTAAATGTG
*
2181110 TCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAA-ATGACAAAATCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGT
** * * *
2181174 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATTATAAG
66 CTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTACAAG
* * *
2181239 TATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTA
131 TATCAACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTA
* * *
2181291 TCGATACTTTATAAAAATGTATCAATCCATAACAATATAATAGGTAAAAATATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGT
*
2181356 CTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTACAAG
66 CTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTACAAG
* *
2181421 TATCAACACTTTTAGAATTTAAAAGAAAAGAAGTTATATCGCTAATAAAGTG
131 TATCAACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTA
* * *
2181473 TCGATACTTTATAAAAATGTATCGATCCCTAACAATATAACAAGTAAAAATATGACAAAATCGAT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGT
2181538 CTCGAAATGACAAAACAGGTA
66 CTCGAAATGACAAAACAGGTA
2181559 GTAAAAAAGT
Statistics
Matches: 245, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
181 47 0.19
182 198 0.81
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (182 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGT
CTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTACAAG
TATCAACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTA
Found at i:2182444 original size:43 final size:43
Alignment explanation
Indices: 2182396--2182490 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
2182386 GATTATGTTA
*
2182396 AAATTTGATAAATAGTTTATTTGAATAAATTCGATTCGAGTTT
1 AAATTTGATAAATACTTTATTTGAATAAATTCGATTCGAGTTT
2182439 AAATTTGATAAATACTTTATTTGAATAAATTCGATTCGAGTTT
1 AAATTTGATAAATACTTTATTTGAATAAATTCGATTCGAGTTT
2182482 AAATTTGAT
1 AAATTTGAT
2182491 TCAAGTTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (43 bp):
AAATTTGATAAATACTTTATTTGAATAAATTCGATTCGAGTTT
Found at i:2182484 original size:17 final size:17
Alignment explanation
Indices: 2182464--2182497 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2182454 TTTATTTGAA
*
2182464 TAAATTCGATTCGAGTT
1 TAAATTCGATTCAAGTT
*
2182481 TAAATTTGATTCAAGTT
1 TAAATTCGATTCAAGTT
2182498 CTTAATAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (17 bp):
TAAATTCGATTCAAGTT
Found at i:2184043 original size:2 final size:2
Alignment explanation
Indices: 2184036--2184095 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
2184026 TCTTATTCCT
* *
2184036 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2184078 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2184096 ATTATTGATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2185986 original size:30 final size:30
Alignment explanation
Indices: 2185923--2185979 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
2185913 AGAATCGGAA
*
2185923 GAACCGGCTGAAAACCAAGAAAATCGGGGT
1 GAACCGGCTGAAAACCAACAAAATCGGGGT
*
2185953 GAACCGGCTGAAAACCGACAAAATCGG
1 GAACCGGCTGAAAACCAACAAAATCGG
2185980 TTTGAACAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.28, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCAACAAAATCGGGGT
Done.