Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008252.1 Hibiscus syriacus cultivar Beakdansim tig00110904_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: 2928487
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 13
Found at i:1899514 original size:19 final size:19
Alignment explanation
Indices: 1899475--1899511 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1899465 ACTATATTAC
1899475 TATATACATATATAATAAA
1 TATATACATATATAATAAA
*
1899494 TATATATATATAT-ATAAA
1 TATATACATATATAATAAA
1899512 ATAATTCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TATATACATATATAATAAA
Found at i:1899881 original size:6 final size:7
Alignment explanation
Indices: 1899860--1899885 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1899850 TATGTTAATA
1899860 TTTATTT
1 TTTATTT
1899867 TTTATTT
1 TTTATTT
1899874 TTTATTT
1 TTTATTT
1899881 TTTAT
1 TTTAT
1899886 AATATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:1901972 original size:21 final size:21
Alignment explanation
Indices: 1901942--1901984 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1901932 TTTTTATAAG
* *
1901942 ATTTTATAAATTTATTTTTTA
1 ATTTTATAAATATATTTCTTA
*
1901963 ATTTTGTAAATATATTTCTTA
1 ATTTTATAAATATATTTCTTA
1901984 A
1 A
1901985 CATAAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTATAAATATATTTCTTA
Found at i:1902908 original size:2 final size:2
Alignment explanation
Indices: 1902901--1902934 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1902891 AACTTCGTCC
1902901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1902935 GTTTACAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1902988 original size:37 final size:36
Alignment explanation
Indices: 1902947--1903301 Score: 270
Period size: 37 Copynumber: 9.8 Consensus size: 36
1902937 TTACAAATGG
* *
1902947 TTTTTGAAAATACATATAATATATAATTTTTAAAACA
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
* * *
1902984 TTTTTAAAAATTATATTATATATGGTTTTTAAAACA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
* * * *
1903020 TTTTAGAAAATATATATAATATATATTTTTTGAAA-T
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
* *
1903056 TATTTTGAAAACTTATATATTATATAGTTTTTAAAACT
1 T-TTTTGAAAA-TTATATAATATATAGTTTTTAAAACA
1903094 TTTTTGAAAATTATATAATATATAGTTTTTAAAAAACA
1 TTTTTGAAAATTATATAATATATAGTTTTT--AAAACA
* *
1903132 TTTTAGAAAATATATATAATATATAGTTTTTTTAAATCA
1 TTTTTGAAAAT-TATATAATATATAG--TTTTTAAAACA
* * *
1903171 -TTTTAAAAACTTATATAATATAT-GGTTTTGAAA-A
1 TTTTTGAAAA-TTATATAATATATAGTTTTTAAAACA
*
1903205 ----T----A-TATATATTATATAGTTTTTTAAAACATTA
1 TTTTTGAAAATTATATAATATATAG-TTTTTAAAAC---A
* *
1903236 TTTTTGAAAAAGTATATATTATATAGTTTTTAAAACCA
1 TTTTTG-AAAATTATATAATATATAGTTTTTAAAA-CA
* * *
1903274 TTTTAGAAATTTATATATTATAT-GTTTT
1 TTTTTGAAAATTATATAATATATAGTTTT
1903302 GGGAAAATAT
Statistics
Matches: 260, Mismatches: 31, Indels: 55
0.75 0.09 0.16
Matches are distributed among these distances:
25 11 0.04
26 1 0.00
27 8 0.03
31 2 0.01
34 1 0.00
35 7 0.03
36 55 0.21
37 82 0.32
38 43 0.17
39 20 0.08
40 10 0.04
41 20 0.08
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:1903223 original size:102 final size:102
Alignment explanation
Indices: 1903095--1903311 Score: 271
Period size: 103 Copynumber: 2.1 Consensus size: 102
1903085 TTTAAAACTT
1903095 TTTTGAAAAT-TATATAATATATAG-TTTTTAAAA-AACATTTTAGAAAATA-TATATAATATAT
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAACAACATTTTAGAAAA-AGTATATAATATAT
* *
1903156 AGTTTTTTTAAATCATTTTAAAAACTTATATAATATATGG
65 AG-TTTTTAAAACCATTTTAAAAACTTATATAATATAT-G
* ** * *
1903196 TTTTGAAAATATATATATTATATAGTTTTTTAAAACATTATTTTTGAAAAAGTATATATTATATA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAACAACATTTTAGAAAAAGTATATAATATATA
* * *
1903261 GTTTTTAAAACCATTTTAGAAATTTATATATTATATG
66 GTTTTTAAAACCATTTTAAAAACTTATATAATATATG
1903298 TTTTGGGAAAATAT
1 TTTT--GAAAATAT
1903312 TTTTAATAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
101 10 0.10
102 18 0.18
103 40 0.40
104 32 0.32
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (102 bp):
TTTTGAAAATATATATAATATATAGTTTTTTAAAACAACATTTTAGAAAAAGTATATAATATATA
GTTTTTAAAACCATTTTAAAAACTTATATAATATATG
Found at i:1903350 original size:10 final size:11
Alignment explanation
Indices: 1903335--1903389 Score: 60
Period size: 10 Copynumber: 4.9 Consensus size: 11
1903325 ATTGTTATTG
1903335 TTTATTTTTA-
1 TTTATTTTTAT
1903345 TTTATTTTTATT
1 TTTATTTTTA-T
*
1903357 TTTATTTTTTAAC
1 TTTA-TTTTT-AT
1903370 TTTATTTTTA-
1 TTTATTTTTAT
1903380 TTTATTTTTA
1 TTTATTTTTA
1903390 GGTCTGTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 20 0.50
11 1 0.03
12 9 0.22
13 9 0.22
14 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:1903361 original size:29 final size:29
Alignment explanation
Indices: 1903330--1903389 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1903320 ATAATATTGT
**
1903330 TATTGTTTATTTTTATTTATT-TTTATTTT
1 TATTGTTTAACTTTATTT-TTATTTATTTT
*
1903359 TATTTTTTAACTTTATTTTTATTTATTTT
1 TATTGTTTAACTTTATTTTTATTTATTTT
1903388 TA
1 TA
1903390 GGTCTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (29 bp):
TATTGTTTAACTTTATTTTTATTTATTTT
Found at i:1903373 original size:19 final size:16
Alignment explanation
Indices: 1903329--1903389 Score: 77
Period size: 16 Copynumber: 3.6 Consensus size: 16
1903319 AATAATATTG
1903329 TTATTGTTTATTTTTAT
1 TTATT-TTTATTTTTAT
1903346 TTATTTTTATTTTTAT
1 TTATTTTTATTTTTAT
*
1903362 TTTTTAACTTTATTTTTAT
1 TTATT---TTTATTTTTAT
1903381 TTATTTTTA
1 TTATTTTTA
1903390 GGTCTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 19 0.49
17 5 0.13
19 15 0.38
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (16 bp):
TTATTTTTATTTTTAT
Found at i:1903389 original size:6 final size:6
Alignment explanation
Indices: 1903324--1903382 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
1903314 TTAATAATAA
* **
1903324 TATTGT TATTGTT TATTTT TA--TT TATTTT TATTTT TATTTTT TAACTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TA-TTTT TATTTT
1903372 TATTTT TATTT
1 TATTTT TATTT
1903383 ATTTTTAGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
4 4 0.09
6 29 0.66
7 11 0.25
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:1904692 original size:16 final size:16
Alignment explanation
Indices: 1904673--1904703 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1904663 AAATTTAATA
1904673 TTTTTATTTTTATTTG
1 TTTTTATTTTTATTTG
1904689 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
1904704 TACTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTTATTTG
Found at i:1904714 original size:22 final size:22
Alignment explanation
Indices: 1904671--1904715 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1904661 CAAAATTTAA
**
1904671 TATTTTTATTTTTATTTGTTTT
1 TATTTTTATTTTTATTCATTTT
1904693 TATTTTTA-TTTTACTTCATTTT
1 TATTTTTATTTTTA-TTCATTTT
1904715 T
1 T
1904716 TTAATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (22 bp):
TATTTTTATTTTTATTCATTTT
Found at i:1904750 original size:15 final size:15
Alignment explanation
Indices: 1904732--1904782 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
1904722 TTTCCCCTTT
1904732 TTTATTATTATTTTA
1 TTTATTATTATTTTA
*
1904747 TTTAATTA-AATTTTA
1 TTT-ATTATTATTTTA
*
1904762 TCTATCT-TTATTTTA
1 TTTAT-TATTATTTTA
1904777 TTTATT
1 TTTATT
1904783 TAATTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 22 0.76
16 4 0.14
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:1904792 original size:15 final size:14
Alignment explanation
Indices: 1904741--1904798 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
1904731 TTTTATTATT
*
1904741 ATTTTATTTAATTAA
1 ATTTTATTT-ATTTA
* *
1904756 ATTTTATCTATCTTT
1 ATTTTATTTAT-TTA
1904771 ATTTTATTTATTTA
1 ATTTTATTTATTTA
1904785 ATTATTATTATATT
1 ATT-TTATT-TATT
1904799 AACATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 7 0.20
15 24 0.69
16 4 0.11
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTATTTATTTA
Found at i:1905867 original size:16 final size:16
Alignment explanation
Indices: 1905842--1905872 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1905832 AACCTCTCTA
*
1905842 ATTCTTTTTTATTTTT
1 ATTCTCTTTTATTTTT
1905858 ATTCTCTTTTATTTT
1 ATTCTCTTTTATTTT
1905873 ATTTTCATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTCTCTTTTATTTTT
Found at i:1910345 original size:36 final size:36
Alignment explanation
Indices: 1910248--1910406 Score: 203
Period size: 37 Copynumber: 4.4 Consensus size: 36
1910238 TTTGAATATG
* * *
1910248 TTTC-CTTGAAACAAATTTTGTCTCCCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAA
* * * * *
1910283 TTACTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAA
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAA
*
1910320 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAA
*
1910356 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
1 TTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAA
1910393 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
1910407 CCAGTTTTTG
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
35 3 0.03
36 41 0.39
37 62 0.58
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAA
Found at i:1910374 original size:73 final size:73
Alignment explanation
Indices: 1910248--1910406 Score: 239
Period size: 73 Copynumber: 2.2 Consensus size: 73
1910238 TTTGAATATG
* ** * *
1910248 TTTC-CTTGAAACAAATTTTGTCTCCCTTGAGATAGTTACTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTACCCTTGAAACAAAGTTTTGTCTCTCT
*
1910312 TGAGATAA
66 TGAGACAA
* *
1910320 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTACCCTTGAAACAAAGTTTTGTCTCTCT
1910385 TGAGACAA
66 TGAGACAA
1910393 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
1910407 CCAGTTTTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 4 0.05
73 74 0.95
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (73 bp):
TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTACCCTTGAAACAAAGTTTTGTCTCTCT
TGAGACAA
Found at i:1910502 original size:34 final size:33
Alignment explanation
Indices: 1910459--1910546 Score: 140
Period size: 36 Copynumber: 2.6 Consensus size: 33
1910449 CTTGGAGACA
1910459 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAT
1910492 CGTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAT
1 -GTTTCTCTTGAAACAC--AAAAAAACCTTTGAAAT
*
1910528 GTTTCTCTTGAAACGCAAA
1 GTTTCTCTTGAAACACAAA
1910547 GACCCTTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
33 3 0.06
34 16 0.31
35 15 0.29
36 17 0.33
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTGAAAT
Found at i:1910532 original size:35 final size:36
Alignment explanation
Indices: 1910459--1910546 Score: 146
Period size: 35 Copynumber: 2.5 Consensus size: 36
1910449 CTTGGAGACA
1910459 GTTTCTCTTGAAACAC--AAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATC
1910493 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAT-
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATC
*
1910528 GTTTCTCTTGAAACGCAAA
1 GTTTCTCTTGAAACACAAA
1910547 GACCCTTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
34 16 0.31
35 18 0.35
36 17 0.33
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (36 bp):
GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAATC
Found at i:1911361 original size:77 final size:74
Alignment explanation
Indices: 1911197--1911489 Score: 322
Period size: 77 Copynumber: 3.9 Consensus size: 74
1911187 AAAAACTATA
* *
1911197 TTGAAAAC-TATATTATATATGGTTTTTAAAACATTTTAGAAATATATATAATATATAG-TTTTT
1 TTGAAAACTTATATAATATATAGTTTTTAAAACATTTTAGAAATATATATAATATATAGTTTTTT
* *
1911260 GAAACCATT
66 AAAATCATT
*
1911269 TCGAAAACTTATATAATATATAGTTTTTAAAAAACATTTTAGAAAATATATATAATATATAGTTT
1 TTGAAAACTTATATAATATATAGTTTTT--AAAACATTTTAG-AAATATATATAATATATAGTTT
1911334 TTTAAAATCATT
63 TTTAAAATCATT
* ** * *
1911346 TTGAAAACTTATATAATATATGGTTTCGAAAATATTTTTGAATATATATATATATATTATATAGT
1 TTGAAAACTTATATAATATATAGTTTTTAAAACATTTTAG-A-A-ATATATATA-A-TATATAGT
* *
1911411 TTTTAAAACATTATTT
61 TTTTTAAA-ATCA-TT
* * * *
1911427 TTGAAAAATTATATATTATATAGTTTTTAAAACTATTTTAGAAATTTATATATTATAT-GTTTT
1 TTGAAAACTTATATAATATATAGTTTTTAAAAC-ATTTTAGAAATATATATAATATATAGTTTT
1911490 GGGAAAATAT
Statistics
Matches: 187, Mismatches: 22, Indels: 20
0.82 0.10 0.09
Matches are distributed among these distances:
72 7 0.04
73 17 0.09
75 24 0.13
76 25 0.13
77 50 0.27
78 1 0.01
79 23 0.12
80 4 0.02
81 30 0.16
82 6 0.03
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (74 bp):
TTGAAAACTTATATAATATATAGTTTTTAAAACATTTTAGAAATATATATAATATATAGTTTTTT
AAAATCATT
Found at i:1911454 original size:118 final size:116
Alignment explanation
Indices: 1911205--1911514 Score: 300
Period size: 118 Copynumber: 2.7 Consensus size: 116
1911195 TATTGAAAAC
* * * ** **
1911205 TATATTATATAT-GGTTTTTAAAAC-ATTTTAGAAA-TATATATAATATATAGTTTTTGAAACCA
1 TATATAATATATAGTTTTTTAAAACTATTTTAGAAACT-TATATAATATATGGTTTGCGAAAATA
**
1911267 TTTCGAA-AACT--TATATAATATATAGTTTTTAAAAAACATTTTAGAAAATA
65 TTTTTAATAA-TAATATATAATATATAGTTTTTAAAAAACATTTTAGAAAATA
1911317 TATATAATATATAGTTTTTTAAAA-TCATTTT-GAAAACTTATATAATATATGGTTT-CGAAAAT
1 TATATAATATATAGTTTTTTAAAACT-ATTTTAG-AAACTTATATAATATATGGTTTGCGAAAAT
* ** *
1911379 ATTTTTGAATATATATATATATATTATATAGTTTTTAAAACATTATTTTTGAAAA-A
64 ATTTTT-AATA-ATA-ATATATAATATATAGTTTTTAAAA-AACATTTTAGAAAATA
* * * * *
1911435 TTATATATTATATAG-TTTTTAAAACTATTTTAGAAATTTATATATTATATGTTTTGGGAAAATA
1 -TATATAATATATAGTTTTTTAAAACTATTTTAGAAACTTATATAATATATGGTTTGCGAAAATA
1911499 TTTTTAATAATAATAT
65 TTTTTAATAATAATAT
1911515 TGTTATTGTT
Statistics
Matches: 165, Mismatches: 17, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
112 11 0.07
113 19 0.12
114 26 0.16
115 3 0.02
116 5 0.03
117 3 0.02
118 60 0.36
119 38 0.23
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (116 bp):
TATATAATATATAGTTTTTTAAAACTATTTTAGAAACTTATATAATATATGGTTTGCGAAAATAT
TTTTAATAATAATATATAATATATAGTTTTTAAAAAACATTTTAGAAAATA
Found at i:1911501 original size:37 final size:38
Alignment explanation
Indices: 1911205--1911502 Score: 243
Period size: 37 Copynumber: 7.8 Consensus size: 38
1911195 TATTGAAAAC
* * * *
1911205 TATATTATATATGGTTTTT-AAAACATTTTAG-AAATA
1 TATATAATATATAGTTTTTGAAAATATTTTAGAAAATT
** * *
1911241 TATATAATATATAGTTTTTGAAACCA-TTTCGAAAACT
1 TATATAATATATAGTTTTTGAAAATATTTTAGAAAATT
* * *
1911278 TATATAATATATAGTTTTTAAAAAACATTTTAGAAAATA
1 TATATAATATATAGTTTTT-GAAAATATTTTAGAAAATT
* *
1911317 TATATAATATATAGTTTTTTAAAATCATTTT-GAAAACT
1 TATATAATATATAGTTTTTGAAAAT-ATTTTAGAAAATT
* * *
1911355 TATATAATATAT-GGTTTCGAAAATATTTTTGAATATATAT
1 TATATAATATATAGTTTTTGAAAATATTTTAGAA-A-AT-T
* * * *
1911395 ATATATATTATATAGTTTTTAAAACATTATTTTTGAAAAAT
1 -TATATAATATATAGTTTTTGAAA-A-TATTTTAGAAAATT
*
1911436 TATATATTATATAGTTTTT-AAAACTATTTTAG-AAATT
1 TATATAATATATAGTTTTTGAAAA-TATTTTAGAAAATT
* *
1911473 TATATATTATAT-GTTTTGGGAAAATATTTT
1 TATATAATATATAGTTTT-TGAAAATATTTT
1911503 TAATAATAAT
Statistics
Matches: 219, Mismatches: 28, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
36 31 0.14
37 61 0.28
38 39 0.18
39 36 0.16
40 20 0.09
41 12 0.05
42 8 0.04
43 2 0.01
44 10 0.05
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (38 bp):
TATATAATATATAGTTTTTGAAAATATTTTAGAAAATT
Found at i:1911558 original size:10 final size:10
Alignment explanation
Indices: 1911523--1911562 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
1911513 ATTGTTATTG
1911523 TTTATTTTTA
1 TTTATTTTTA
*
1911533 TTT-TTTTAA
1 TTTATTTTTA
1911542 CTTTATTTTTA
1 -TTTATTTTTA
1911553 TTTATTTTTA
1 TTTATTTTTA
1911563 GGTTGGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 5 0.19
10 16 0.62
11 5 0.19
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:1912677 original size:22 final size:22
Alignment explanation
Indices: 1912621--1912677 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
1912611 TTAAATCTTA
1912621 TTCTATTTTAA--TTTAGCCAC
1 TTCTATTTTAATTTTTAGCCAC
* **
1912641 -TATATTTTTCTTTTTTAGCCAC
1 TTCTA-TTTTAATTTTTAGCCAC
1912663 TTCTATTTTAATTTT
1 TTCTATTTTAATTTT
1912678 CACATTTTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
19 3 0.11
20 4 0.15
22 17 0.63
23 3 0.11
ACGTcount: A:0.21, C:0.16, G:0.04, T:0.60
Consensus pattern (22 bp):
TTCTATTTTAATTTTTAGCCAC
Found at i:1912838 original size:29 final size:30
Alignment explanation
Indices: 1912790--1912846 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
1912780 TTTTTTATTA
*
1912790 TTATTTTCTTTTATTAAATT-TTAGTTATCT
1 TTATTTTCATTTATTAAATTATTA-TTATCT
*
1912820 TTATTTT-ATTTATTTAATTATTATTAT
1 TTATTTTCATTTATTAAATTATTATTAT
1912847 ATTAACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (30 bp):
TTATTTTCATTTATTAAATTATTATTATCT
Found at i:1917139 original size:2 final size:2
Alignment explanation
Indices: 1917132--1917156 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1917122 GCTTTTTCCG
1917132 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1917157 TCGAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1923142 original size:21 final size:21
Alignment explanation
Indices: 1923118--1923170 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1923108 TAACAAAGGT
*
1923118 AGTATCGATACTCTATTTAGG
1 AGTACCGATACTCTATTTAGG
1923139 AGTACCGATACTCTATTTAGG
1 AGTACCGATACTCTATTTAGG
1923160 AGTACCGATAC
1 AGTACCGATAC
1923171 CCTCTATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (21 bp):
AGTACCGATACTCTATTTAGG
Found at i:1932379 original size:3 final size:3
Alignment explanation
Indices: 1932373--1932419 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
1932363 GGGTTTCGTT
* *
1932373 TTA TTA TTA TTA TTTA TTA TTA TTA TTA CTA TTAA TTA TTT TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
1932420 CATATTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1932390 original size:13 final size:13
Alignment explanation
Indices: 1932372--1932419 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
1932362 CGGGTTTCGT
1932372 TTTATTATTATTA
1 TTTATTATTATTA
1932385 TTTATTATTATTA
1 TTTATTATTATTA
*
1932398 -TTACTATTAATTA
1 TTTATTATT-ATTA
1932411 TTT-TTATTA
1 TTTATTATTA
1932420 CATATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 8 0.26
13 21 0.68
14 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:1932397 original size:19 final size:19
Alignment explanation
Indices: 1932373--1932425 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1932363 GGGTTTCGTT
* *
1932373 TTATTATTATTATTTATTA
1 TTATTATTACTATTAATTA
1932392 TTATTATTACTATTAATTA
1 TTATTATTACTATTAATTA
*
1932411 TTTTTATTACATATT
1 TTATTATTAC-TATT
1932426 TTTGCAGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATTACTATTAATTA
Found at i:1939662 original size:37 final size:37
Alignment explanation
Indices: 1939630--1939744 Score: 155
Period size: 36 Copynumber: 3.2 Consensus size: 37
1939620 GTTGTCACCT
1939630 TTGAGACAATTTCTTTTAAAAACAAATTTTGTCTCGC
1 TTGAGACAATTTCTTTTAAAAACAAATTTTGTCTCGC
* *
1939667 TGGAGAC-A-GTCTTCTTAAAAACAAATTTTGTCTCGC
1 TTGAGACAATTTCTT-TTAAAAACAAATTTTGTCTCGC
* * *
1939703 TTGAGACAATTT-ATCTCAAAACAAATTTTGTCTCGC
1 TTGAGACAATTTCTTTTAAAAACAAATTTTGTCTCGC
1939739 TTGAGA
1 TTGAGA
1939745 TATTTTTTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
35 4 0.06
36 55 0.81
37 8 0.12
38 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (37 bp):
TTGAGACAATTTCTTTTAAAAACAAATTTTGTCTCGC
Found at i:1939993 original size:67 final size:66
Alignment explanation
Indices: 1939899--1940061 Score: 184
Period size: 67 Copynumber: 2.5 Consensus size: 66
1939889 ATTGACAATC
* * * * *
1939899 TTTGAGTCTTTTTCTCTTGAAATAAATTTTGTCACCCTTGAGACAGTTTCCCTTAAAACAAAATC
1 TTTGAGTCTGTTTCCCTTGAAACAAATTTTATCACCCTTGAGAAAGTTTCCCTTAAAAC--AATC
1939964 AGA
64 AGA
* * * * *
1939967 TTTGAGTC-GTTTCCCTTGAAACAAATTTTATCTCTCTTGAGAAAGTTTCTCTTGAAACAATCAT
1 TTTGAGTCTGTTTCCCTTGAAACAAATTTTATCACCCTTGAGAAAGTTTCCCTTAAAACAATCAG
*
1940031 C
66 A
* *
1940032 TTTGAGTCTGTTTTCCTTGAAGCAAATTTT
1 TTTGAGTCTGTTTCCCTTGAAACAAATTTT
1940062 TTCTCTTGAG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 13 0.16
66 19 0.23
67 41 0.51
68 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (66 bp):
TTTGAGTCTGTTTCCCTTGAAACAAATTTTATCACCCTTGAGAAAGTTTCCCTTAAAACAATCAG
A
Found at i:1940115 original size:63 final size:65
Alignment explanation
Indices: 1939967--1940117 Score: 184
Period size: 63 Copynumber: 2.3 Consensus size: 65
1939957 CAAAATCAGA
* * * *
1939967 TTTGAGTCGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGAAAGTTTCTCTTGAAACAATCATC
1 TTTGAGTCGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGAAAGCTTATATTGAAACAATCATC
* * *
1940032 TTTGAGTCTGTTT-TCCTTGAAGCAAATTTT-T-TCTCTTGAGACAGCTTATATTGAAGC-ATCA
1 TTTGAGTC-GTTTCT-CTTGAAACAAATTTTATCTCTCTTGAGAAAGCTTATATTGAAACAATCA
1940093 TC
64 TC
1940095 TTTGAGTCGGTTTCTCTTGAAAC
1 TTTGAGTC-GTTTCTCTTGAAAC
1940118 CATTATCCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 25 0.34
64 22 0.30
65 9 0.12
66 18 0.24
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (65 bp):
TTTGAGTCGTTTCTCTTGAAACAAATTTTATCTCTCTTGAGAAAGCTTATATTGAAACAATCATC
Found at i:1940382 original size:132 final size:132
Alignment explanation
Indices: 1940143--1940561 Score: 506
Period size: 132 Copynumber: 3.2 Consensus size: 132
1940133 TGGTCGACCG
* * * *
1940143 TCCTCATCGCGTAGGAACCGTGTCATCCC-CCGACCAGACCTTCTCATCACATAGGAGTCGTGTA
1 TCCTCATCACGTAGGAACCGTGTCATCCCTCCGACCAGACCTCCTCATCACGTAGGAGTCGTGTC
* * * * *
1940207 AACCTTAGATAACCAGTCATCCTTATCACGTAGGAACCT-TGTTATCATCCCTAAAGATTACCTG
66 ACCCCTAGATAACCAATCATCCTCATCACGTAAGAA-CTGTGTTATCATCCCTAAAGATTACCTG
1940271 CCA
130 CCA
* * * *
1940274 TCCTCATCACGTAGGAACTGTTTCATCCCTCCGACCAGACCTCCTCATCATGTAGGAGCCGTGTC
1 TCCTCATCACGTAGGAACCGTGTCATCCCTCCGACCAGACCTCCTCATCACGTAGGAGTCGTGTC
* * *
1940339 ACCCCTAGATAACCAATCGTCCTCATCGCGTATGAACTGTGTTATCATCATCCCTAAAGA-TAGC
66 ACCCCTAGATAACCAATCATCCTCATCACGTAAGAACTGTG-T-T-ATCATCCCTAAAGATTA-C
*
1940403 CTACCA
127 CTGCCA
* * *
1940409 TCCTCATCACGTAGGAACCGTGTCATCCAT-CGACCAGATCTCCTCATCACGTAGAAGTCGTGTC
1 TCCTCATCACGTAGGAACCGTGTCATCCCTCCGACCAGACCTCCTCATCACGTAGGAGTCGTGTC
* * * *
1940473 ACCCCTAGATAACCAACCATCCTCATCACGTAAGAA-TCGTGTTATCACCCTCTAAAGATGACAT
66 ACCCCTAGATAACCAATCATCCTCATCACGTAAGAACT-GTGTTATCATCC-CTAAAGATTACCT
*
1940537 GCCG
129 GCCA
*
1940541 TCCTCATCGCGTAGGAACCGT
1 TCCTCATCACGTAGGAACCGT
1940562 ATCAACCCCT
Statistics
Matches: 246, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
131 34 0.14
132 93 0.38
133 4 0.02
134 68 0.28
135 47 0.19
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (132 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCTCCGACCAGACCTCCTCATCACGTAGGAGTCGTGTC
ACCCCTAGATAACCAATCATCCTCATCACGTAAGAACTGTGTTATCATCCCTAAAGATTACCTGC
CA
Found at i:1940502 original size:43 final size:42
Alignment explanation
Indices: 1940307--1940514 Score: 113
Period size: 43 Copynumber: 4.7 Consensus size: 42
1940297 CATCCCTCCG
* * *
1940307 ACCAGACCTCCTCATCATGTAGGAGCCGTGTCACCCCTAGATA
1 ACCA-ACCTCCTCATCACGTAGAAGTCGTGTCACCCCTAGATA
* * *
1940350 ACCAATCGTCCTCATCGCGTATGAACTGT-GTTATCATCATCCCTAAAGATA
1 ACCAA-CCTCCTCATCACGTA-GAA--GTCG-TGTCA-C--CCCT--AGATA
* * * * * *
1940401 GCCTACCATCCTCATCACGTAGGAA-CCGTGTCATCCATCG---
1 ACCAACC-TCCTCATCACGTA-GAAGTCGTGTCACCCCTAGATA
*
1940441 ACCAGATCTCCTCATCACGTAGAAGTCGTGTCACCCCTAGATA
1 ACCA-ACCTCCTCATCACGTAGAAGTCGTGTCACCCCTAGATA
1940484 ACCAACCATCCTCATCACGTAAGAA-TCGTGT
1 ACCAACC-TCCTCATCACGT-AGAAGTCGTGT
1940515 TATCACCCTC
Statistics
Matches: 122, Mismatches: 24, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
39 3 0.02
40 26 0.21
41 2 0.02
42 3 0.02
43 39 0.32
44 6 0.05
45 4 0.03
46 5 0.04
47 1 0.01
48 4 0.03
49 5 0.04
50 1 0.01
51 23 0.19
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (42 bp):
ACCAACCTCCTCATCACGTAGAAGTCGTGTCACCCCTAGATA
Found at i:1940772 original size:3 final size:3
Alignment explanation
Indices: 1940758--1940802 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
1940748 AGTTCTTGTT
* *
1940758 TTA TTA TT- TTA TTA TTA TTA TTA TTA ATA TTAA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
1940803 CAATTTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1944089 original size:29 final size:29
Alignment explanation
Indices: 1944028--1944104 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
1944018 TATAGTTTCA
*
1944028 ATTTTTCCTAATATTTATTATTATAGGATT
1 ATTTTT-CTAATATTTATTATTAGAGGATT
*
1944058 ATTTTTCTAATATTTATTATTAG-GG-GT
1 ATTTTTCTAATATTTATTATTAGAGGATT
*
1944085 ATATTTTATAATATTT-TTAT
1 AT-TTTTCTAATATTTATTAT
1944105 AAGTGTCCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.16
28 14 0.33
29 16 0.37
30 6 0.14
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (29 bp):
ATTTTTCTAATATTTATTATTAGAGGATT
Found at i:1948005 original size:17 final size:17
Alignment explanation
Indices: 1947979--1948011 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1947969 TTTAGATTCA
1947979 TTATTATAAATTAAATT
1 TTATTATAAATTAAATT
*
1947996 TTATTTTAAATTAAAT
1 TTATTATAAATTAAAT
1948012 CTAGCTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTATAAATTAAATT
Found at i:1948469 original size:68 final size:66
Alignment explanation
Indices: 1948374--1948513 Score: 212
Period size: 68 Copynumber: 2.1 Consensus size: 66
1948364 GCACCCTCAT
* *
1948374 CAAAACGACGTCGTTTTGTTGATGAAAAATATGTTTTTCATGAGATTCGAACCATAAACCTTTAG
1 CAAATCGACGTCGTTTTGTTGATGAAAAATATGTTTTTCATGAGATT--AAACAT-AACCTTT-G
1948439 -AATC
62 CAATC
1948443 CAAATCGACGTCGTTTTG-TGATGAAAAATATGTTTTTCATGAGATTAAACATAACCTTTGCAAT
1 CAAATCGACGTCGTTTTGTTGATGAAAAATATGTTTTTCATGAGATTAAACATAACCTTTGCAAT
1948507 C
66 C
1948508 CAAATC
1 CAAATC
1948514 TAAATACCCA
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
64 1 0.01
65 17 0.25
66 5 0.07
68 28 0.41
69 17 0.25
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (66 bp):
CAAATCGACGTCGTTTTGTTGATGAAAAATATGTTTTTCATGAGATTAAACATAACCTTTGCAAT
C
Found at i:1951677 original size:45 final size:44
Alignment explanation
Indices: 1951602--1951706 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 44
1951592 AGGATTAGAT
*
1951602 TTATTATTTTATTAGGAATTAAGGATGAGTTAAAACATTATTTTTAGTTA
1 TTATTATTTTATTAGGAATT-A--ATGAGTTAAAAC---ATGTTTAGTTA
*
1951652 TTATTATTTTATTAGGAATT-A-GAGTTAAGACATGTTTAGTTA
1 TTATTATTTTATTAGGAATTAATGAGTTAAAACATGTTTAGTTA
1951694 TTATTATTTTATT
1 TTATTATTTTATT
1951707 CATTAGTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
42 23 0.43
45 9 0.17
46 1 0.02
50 20 0.38
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (44 bp):
TTATTATTTTATTAGGAATTAATGAGTTAAAACATGTTTAGTTA
Found at i:1958184 original size:2 final size:2
Alignment explanation
Indices: 1958177--1958202 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1958167 AATTAGTTTG
1958177 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
1958203 CATTTGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1978270 original size:60 final size:60
Alignment explanation
Indices: 1978131--1978247 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 60
1978121 GACGAATTTG
**
1978131 GAAGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAATGCAACACTCTATAGCCA
1 GAAGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAACAACACTCTATAGCCA
* *
1978191 GAAGACCATTTTGTAACTTTTAATAGTCG-GAGGACTTAACAAAACATCACTCTATAG
1 GAAGACCATTTTGTAACTTTTAATAGTCGAGA-GACTCAACAAAACAACACTCTATAG
1978248 TCGGGGGACC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 2 0.04
60 50 0.96
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (60 bp):
GAAGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAACAACACTCTATAGCCA
Found at i:1979325 original size:21 final size:22
Alignment explanation
Indices: 1979276--1979326 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
1979266 GAAAACTGAG
*
1979276 GAAAAATAATATTTTCTAAGGA
1 GAAAAATAATATTTTCTAAGAA
1979298 GAGAAAAT-AT-TTTTCTAGAGAA
1 GA-AAAATAATATTTTCTA-AGAA
1979320 GAAAAAT
1 GAAAAAT
1979327 TCTTAAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (22 bp):
GAAAAATAATATTTTCTAAGAA
Found at i:1979751 original size:43 final size:41
Alignment explanation
Indices: 1979689--1979803 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 41
1979679 GTTTGAGAAC
* * * * *
1979689 AACAAATGCCGCAATAGGTCAAGATCTATAGTGGCGTTTTT
1 AACAAACGCCGCAAAAGGTCGAGATCTATAGTAGCATTTTT
* * *
1979730 AGAACAAACGCCGAAAAAGGTCGATATCTATATTAGCATTTTT
1 --AACAAACGCCGCAAAAGGTCGAGATCTATAGTAGCATTTTT
*
1979773 AACAAACGCTGCAAAAGGTCGAGATCTATAG
1 AACAAACGCCGCAAAAGGTCGAGATCTATAG
1979804 AGGTATTTGT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 27 0.45
43 33 0.55
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (41 bp):
AACAAACGCCGCAAAAGGTCGAGATCTATAGTAGCATTTTT
Found at i:1989581 original size:58 final size:56
Alignment explanation
Indices: 1989506--1989662 Score: 169
Period size: 56 Copynumber: 2.8 Consensus size: 56
1989496 TACCAAATGA
* * *
1989506 CACTAAGTGTGCAAAAATTTTAA-CATATTCATATTAAGTGTATGAA-TTTCTGTATGGG
1 CACTATGTGTGCAAAAA---TAAGCAAATTCATACTAAGTGTATGAATTTTCT-TATGGG
* *
1989564 CACTTTGTGTGCAAAAATAAGGAAATTCATACTAAGTGTATGAATTTTCTTATGGG
1 CACTATGTGTGCAAAAATAAGCAAATTCATACTAAGTGTATGAATTTTCTTATGGG
* * * *
1989620 CACTATGTGTGC-GAACTAAG-AAATTTATACCAAGTGTATGAAT
1 CACTATGTGTGCAAAAATAAGCAAATTCATACTAAGTGTATGAAT
1989663 GTTCGTATTG
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
54 21 0.24
55 9 0.10
56 37 0.43
57 5 0.06
58 15 0.17
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (56 bp):
CACTATGTGTGCAAAAATAAGCAAATTCATACTAAGTGTATGAATTTTCTTATGGG
Found at i:1989600 original size:56 final size:54
Alignment explanation
Indices: 1989532--1989670 Score: 174
Period size: 56 Copynumber: 2.5 Consensus size: 54
1989522 ATTTTAACAT
* *
1989532 ATTCATATTAAGTGTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAATAAGGAA
1 ATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGTGTGC-AAAATAA-GAA
* *
1989588 ATTCATACTAAGTGTATGAATTTTCT-TATGGGCACTATGTGTGCGAACTAAGAA
1 ATTCATACTAAGTGTATGAA-TTTCTGTATGGGCACTATGTGTGCAAAATAAGAA
* *
1989642 ATTTATACCAAGTGTATGAATGTTC-GTAT
1 ATTCATACTAAGTGTATGAAT-TTCTGTAT
1989671 TGGAAAATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
53 1 0.01
54 27 0.36
55 5 0.07
56 36 0.49
57 5 0.07
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (54 bp):
ATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGTGTGCAAAATAAGAA
Found at i:1990000 original size:68 final size:68
Alignment explanation
Indices: 1989888--1990166 Score: 393
Period size: 68 Copynumber: 4.1 Consensus size: 68
1989878 GATTAATATA
* * **
1989888 CCTAATTGTGCATT-TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 CCTAACTGTGC-TTATGACAGAAAGGTGTCATTTAAACCAGTTAGATGAAAGGCTAAGTGCCTTT
1989952 GAGG
65 GAGG
* * *
1989956 CCTAACTGTGCTTATGACAGAAAGGTTTCATTTAAACCAATTAGATAAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCTTATGACAGAAAGGTGTCATTTAAACCAGTTAGATGAAAGGCTAAGTGCCTTTG
1990021 AGG
66 AGG
* * * *
1990024 ACTAACTGTGCTTATGACAGAAAGGTGACATTTAAGCCAGTTAGATGAAATGCTAAGTGCCTTT-
1 CCTAACTGTGCTTATGACAGAAAGGTGTCATTTAAACCAGTTAGATGAAAGGCTAAGTGCCTTTG
1990088 ATGG
66 A-GG
* *
1990092 CCTAACTGTGATTATGATAGAAAGGTGTCATTTAAGA-CAGTTAGATGAAAGGCTAAGTGCCTTT
1 CCTAACTGTGCTTATGACAGAAAGGTGTCATTTAA-ACCAGTTAGATGAAAGGCTAAGTGCCTTT
1990156 GAGG
65 GAGG
1990160 CCTAACT
1 CCTAACT
1990167 ATGTAATTGG
Statistics
Matches: 187, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
67 3 0.02
68 183 0.98
69 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
CCTAACTGTGCTTATGACAGAAAGGTGTCATTTAAACCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGG
Found at i:1990182 original size:136 final size:136
Alignment explanation
Indices: 1989902--1990205 Score: 407
Period size: 136 Copynumber: 2.2 Consensus size: 136
1989892 ATTGTGCATT
* * *
1989902 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
1 TGACAGAAAGGTGACATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGA
* *
1989967 TTATGACAGAAAGGTTTCATTTAAACCAATTAGATAAAAGGCTAAGTGCCTTTGAGGACTAACTG
66 TTATGACAGAAAGGTGTCATTTAAACCAATTAGATAAAAGGCTAAGTGCCTTTGAGGACTAACTA
*
1990032 TGCTTA
131 TGCTAA
* *
1990038 TGACAGAAAGGTGACATTTAAGCCAGTTAGATGAAATGCTAAGTGCCTTT-ATGGCCTAACTGTG
1 TGACAGAAAGGTGACATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA-GGCCTAACTGTG
* * * *
1990102 ATTATGATAGAAAGGTGTCATTTAAGA-CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
65 ATTATGACAGAAAGGTGTCATTTAA-ACCAATTAGATAAAAGGCTAAGTGCCTTTGAGGACTAAC
1990166 TATG-TAA
129 TATGCTAA
** * * *
1990173 TTGGTAGAAAGATGCCAATTATGCCAGTTAGAT
1 -TGACAGAAAGGTGACATTTATGCCAGTTAGAT
1990206 AATAATGGCC
Statistics
Matches: 147, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
135 3 0.02
136 143 0.97
137 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.30
Consensus pattern (136 bp):
TGACAGAAAGGTGACATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGA
TTATGACAGAAAGGTGTCATTTAAACCAATTAGATAAAAGGCTAAGTGCCTTTGAGGACTAACTA
TGCTAA
Found at i:1990341 original size:81 final size:81
Alignment explanation
Indices: 1990206--1990523 Score: 459
Period size: 81 Copynumber: 4.0 Consensus size: 81
1990196 CCAGTTAGAT
* *
1990206 AATAATGGCCTAACTGTTCATTTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAA
1 AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAA
*
1990271 TATCGTTGAGTAAAAG
66 TACCGTTGAGTAAAAG
* *
1990287 AATAATGGCCTAACTAT-CGAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTTA
1 AATAATGGCCTAACTGTGC-AATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAA
1990351 ATACCGTTGAGTAAAAG
65 ATACCGTTGAGTAAAAG
* *
1990368 AATAATGGCCTAACTGTGCAATTGGTAGAAATGTACCAATTATGCCAGTTAGAT-----GTTAAA
1 AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAA
*
1990428 TACCGTTGAGTAAAAA
66 TACCGTTGAGTAAAAG
* * *
1990444 AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAATTATATGAATGGTTAAA
1 AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAA
* **
1990509 CATTGTTGAGTAAAA
66 TACCGTTGAGTAAAA
1990524 ATGAAAGGTT
Statistics
Matches: 214, Mismatches: 16, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
76 70 0.33
80 1 0.00
81 142 0.66
82 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (81 bp):
AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAA
TACCGTTGAGTAAAAG
Found at i:1990500 original size:157 final size:158
Alignment explanation
Indices: 1990206--1990523 Score: 451
Period size: 157 Copynumber: 2.0 Consensus size: 158
1990196 CCAGTTAGAT
* * *
1990206 AATAATGGCCTAACTGTTCATTTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAA
1 AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGAT--A--GTTAAA
* * *
1990271 TATCGTTGAGTAAAAGAATAATGGCCTAACTATCGAATTGGTAGAAAGGTGCCAATTATGCCAGT
62 TACCGTTGAGTAAAAAAATAATGGCCTAACTATCGAATTGGTAGAAAGGTGCCAATTATGCCAAT
* *
1990336 TAGATGAACGGTTTAATACCGTTGAGTAAAAG
127 TAGATGAACGGTTAAACACCGTTGAGTAAAAG
*
1990368 AATAATGGCCTAACTGTGCAATTGGTAGAAATGTACCAATTATGCCAGTTAGAT-GTTAAATACC
1 AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATAGTTAAATACC
* *
1990432 GTTGAGTAAAAAAATAATGGCCTAACTGT-GCAATTGGTAGAAAGGTGCCAATTATGCCAATTAT
66 GTTGAGTAAAAAAATAATGGCCTAACTATCG-AATTGGTAGAAAGGTGCCAATTATGCCAATTAG
* **
1990496 ATGAATGGTTAAACATTGTTGAGTAAAA
130 ATGAACGGTTAAACACCGTTGAGTAAAA
1990524 ATGAAAGGTT
Statistics
Matches: 141, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
156 1 0.01
157 90 0.64
162 50 0.35
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (158 bp):
AATAATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATAGTTAAATACC
GTTGAGTAAAAAAATAATGGCCTAACTATCGAATTGGTAGAAAGGTGCCAATTATGCCAATTAGA
TGAACGGTTAAACACCGTTGAGTAAAAG
Found at i:1990536 original size:28 final size:28
Alignment explanation
Indices: 1990496--1990551 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1990486 TGCCAATTAT
* * *
1990496 ATGAATGGTTAAACATTGTTGAGTAAAA
1 ATGAAAGGTTAAACACTGTTGAATAAAA
1990524 ATGAAAGGTTAAACACTGTTGAATAAAA
1 ATGAAAGGTTAAACACTGTTGAATAAAA
1990552 GAATGATGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (28 bp):
ATGAAAGGTTAAACACTGTTGAATAAAA
Found at i:1990694 original size:2 final size:2
Alignment explanation
Indices: 1990687--1990723 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1990677 TGAAGGGATG
* *
1990687 AT AT AT AT AT AT AT AT AT AT GT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1990724 CAAGGTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1992610 original size:22 final size:21
Alignment explanation
Indices: 1992584--1992642 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
1992574 TACCAGAAGG
*
1992584 AGTATCGATACCATAGTATAGA
1 AGTATCGATACTATAG-ATAGA
* * *
1992606 AGTATCAATACTAT-GGTAGT
1 AGTATCGATACTATAGATAGA
1992626 AGTATCGATACTATAGA
1 AGTATCGATACTATAGA
1992643 GCCAGAAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.53
21 2 0.07
22 12 0.40
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (21 bp):
AGTATCGATACTATAGATAGA
Found at i:1993053 original size:56 final size:54
Alignment explanation
Indices: 1992979--1993126 Score: 208
Period size: 56 Copynumber: 2.7 Consensus size: 54
1992969 GAAAAAATTC
* * *
1992979 TAAGATATTCATATTAAGTGTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGTGTGC-AAAA
* *
1993034 TAAGGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTATGTGTGCAAAC
1 TAA-GAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGTGTGCAAAA
*
1993089 TAAGAAATTCATACCAAGTGTATGAATGTTC-GTATGGG
1 TAAGAAATTCATACTAAGTGTATGAAT-TTCTGTATGGG
1993127 AAAGTATATG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
54 30 0.36
55 11 0.13
56 43 0.51
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (54 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGTGTGCAAAA
Found at i:1993451 original size:68 final size:68
Alignment explanation
Indices: 1993338--1993554 Score: 321
Period size: 68 Copynumber: 3.2 Consensus size: 68
1993328 AAATATTAAT
* *
1993338 AGGCCTAACTGTGCATT-TGACAGAAATGTGTCATTTATGCGAGTTAGATGAAAGGCTAAGTGCC
1 AGGCCTAACTGTGC-TTATGACAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCC
1993402 TTTG
65 TTTG
* * * *
1993406 AGGCCTAACTGTACTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAAGTTAAGTGCCT
1 AGGCCTAACTGTGCTTATGACAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCT
1993471 TTG
66 TTG
* * * *
1993474 AGGCCTAACTGTGCTGATGACAAAAATGTGTCATTTAAG-CAGTTAGATGAAAGACTACGTGCCT
1 AGGCCTAACTGTGCTTATGACAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCT
1993538 TTG
66 TTG
1993541 AGGCCTAACTGTGC
1 AGGCCTAACTGTGC
1993555 AATTGGTAGA
Statistics
Matches: 134, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
67 40 0.30
68 94 0.70
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTGTGCTTATGACAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1993599 original size:135 final size:136
Alignment explanation
Indices: 1993338--1993592 Score: 354
Period size: 135 Copynumber: 1.9 Consensus size: 136
1993328 AAATATTAAT
* * * *
1993338 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCGAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATATGACAAAAATGTGTCATTTAAGCGAGTTAGATGAAAGACTAAGTGCCT
* * * *
1993403 TTGAGGCCTAACTGTACTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAAGTTAAGTG
66 TTGAGGCCTAACTGTACATATGACAGAAAGGTGCCAATTAAGCCAATTAGATGAAAAGTTAAGTG
1993468 CCTTTG
131 CCTTTG
*
1993474 AGGCCTAACTGTGC-TGATGACAAAAATGTGTCATTTAAGC-AGTTAGATGAAAGACTACGTGCC
1 AGGCCTAACTGTGCAT-ATGACAAAAATGTGTCATTTAAGCGAGTTAGATGAAAGACTAAGTGCC
* ** *
1993537 TTTGAGGCCTAACTGTGCA-ATTGGTAGAAAGGTGCCAATTATGCCAATTAGATGAA
65 TTTGAGGCCTAACTGTACATA-TGACAGAAAGGTGCCAATTAAGCCAATTAGATGAA
1993593 TGGTTAAATA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
134 1 0.01
135 68 0.65
136 35 0.34
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (136 bp):
AGGCCTAACTGTGCATATGACAAAAATGTGTCATTTAAGCGAGTTAGATGAAAGACTAAGTGCCT
TTGAGGCCTAACTGTACATATGACAGAAAGGTGCCAATTAAGCCAATTAGATGAAAAGTTAAGTG
CCTTTG
Found at i:1993681 original size:81 final size:81
Alignment explanation
Indices: 1993542--1993777 Score: 339
Period size: 81 Copynumber: 2.9 Consensus size: 81
1993532 GTGCCTTTGA
* * * * *
1993542 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAATTAGATGAATGGTTAAATACCGT
1 GGCCTAACTATGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAATGATTAAAAACAGT
1993607 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
1993623 GGCCTAACTATGTAATTGGTAGAAAGGTGCCAATTATACCAGTTAGATGAACGATTAAAAATAGT
1 GGCCTAACTATGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAATGATTAAAAACAGT
*
1993688 TGAATAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
1993704 GGCCTAAC-AGTGCAATTGGTAGAAAGGTGCTAATTATGCCAGTTAGATGAATGATTAAACACTG
1 GGCCTAACTA-TGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAATGATTAAAAACAG
1993768 TTGAGTAAAA
65 TTGAGTAAAA
1993778 ATGAAAGGTT
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 1 0.01
81 135 0.99
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.27
Consensus pattern (81 bp):
GGCCTAACTATGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAATGATTAAAAACAGT
TGAGTAAAAGAATAAT
Found at i:2000189 original size:41 final size:41
Alignment explanation
Indices: 2000135--2000500 Score: 345
Period size: 41 Copynumber: 8.9 Consensus size: 41
2000125 TTGTAAAAAC
* * *
2000135 AAACGTCACTAAAGTATGAGTCTATAGCGGCGTTTCTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * * * * *
2000176 AAACACCACTAAAGTACGAGTTTTTAGCGACGTTTTTTTCTTAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG--TTTGT-ATAA
* * * * * *
2000220 AAATGACAATATAGCACGAGTGTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * * ** *
2000261 AAACGCCACTAAAGCACGAGTCCATTGCAACATTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * * * * * * *
2000302 AAACGCCACTATAGCACAAGTTTATTGTGGCATTTTTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* *
2000343 AAACGCCACTAAAGCATGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
2000384 AAACGCCACTAAAGTACGAGGCTATAGCGGCATTTGTATAG
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
2000425 AAACGCCTCTAAAGTACTAGTCTATAGTGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
2000466 AAACGCCAATAAAGTACGAGTCTTTAGTGGCGTTT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTT
2000501 TCCCTTAAAA
Statistics
Matches: 262, Mismatches: 60, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
41 228 0.87
42 4 0.02
43 4 0.02
44 26 0.10
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:2003662 original size:23 final size:23
Alignment explanation
Indices: 2003636--2003738 Score: 102
Period size: 23 Copynumber: 4.5 Consensus size: 23
2003626 AGAGTTGAGG
*
2003636 ATTCTACATGGTCATTCGGGACA
1 ATTCTACGTGGTCATTCGGGACA
** *
2003659 ATTCTGTGTGTTCATTCGGGACAA
1 ATTCTACGTGGTCATTCGGGAC-A
* *
2003683 ATTCTACGTGGTCCTCCGGGACA
1 ATTCTACGTGGTCATTCGGGACA
*
2003706 TTTCTAC-TGGTC-TTCGGGACA
1 ATTCTACGTGGTCATTCGGGACA
* *
2003727 TTTCTATGTGGT
1 ATTCTACGTGGT
2003739 ACTTTGGTGC
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
21 14 0.21
22 9 0.14
23 25 0.38
24 18 0.27
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (23 bp):
ATTCTACGTGGTCATTCGGGACA
Found at i:2003755 original size:24 final size:23
Alignment explanation
Indices: 2003728--2003784 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
2003718 TTCGGGACAT
* *
2003728 TTCTATGTGGTACTTTGGTGCATA
1 TTCTATGTGGAACTTGGGTGCA-A
*
2003752 TTCTACGTGGAACTTGGGTGCAA
1 TTCTATGTGGAACTTGGGTGCAA
*
2003775 TTATATGTGG
1 TTCTATGTGG
2003785 CATTTGTGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.40
Consensus pattern (23 bp):
TTCTATGTGGAACTTGGGTGCAA
Found at i:2010730 original size:23 final size:23
Alignment explanation
Indices: 2010651--2010737 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
2010641 TTCAGGATAA
* * *
2010651 TTCTATGTGGTCCTTCGGGACAAT
1 TTCTACGTGGCCCTTCGAGAC-AT
** *
2010675 TTCTACGTGATCATTCGAGACAT
1 TTCTACGTGGCCCTTCGAGACAT
2010698 TTCTACGTGGCCCTTCGAGACAT
1 TTCTACGTGGCCCTTCGAGACAT
* *
2010721 TTCTATGTGGCACTTCG
1 TTCTACGTGGCCCTTCG
2010738 GTGGATATTC
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 37 0.69
24 17 0.31
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (23 bp):
TTCTACGTGGCCCTTCGAGACAT
Found at i:2010753 original size:24 final size:23
Alignment explanation
Indices: 2010721--2010776 Score: 85
Period size: 24 Copynumber: 2.4 Consensus size: 23
2010711 TTCGAGACAT
*
2010721 TTCTATGTGGCACTTCGGTGGATA
1 TTCTATGTGGCACTTCAGTGGA-A
2010745 TTCTATGTGGCACTTCAGTGGAA
1 TTCTATGTGGCACTTCAGTGGAA
*
2010768 TTATATGTG
1 TTCTATGTG
2010777 ACAGTTTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (23 bp):
TTCTATGTGGCACTTCAGTGGAA
Found at i:2011449 original size:16 final size:16
Alignment explanation
Indices: 2011424--2011477 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
2011414 ATATGTTTCT
2011424 ATTG-AAAGTCAATGA
1 ATTGAAAAGTCAATGA
2011439 ATTGAAAAGTCAATGA
1 ATTGAAAAGTCAATGA
*
2011455 ATTTAAAAGTCAATGA
1 ATTGAAAAGTCAATGA
2011471 ATTGAAA
1 ATTGAAA
2011478 GTACATGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
15 4 0.11
16 32 0.89
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (16 bp):
ATTGAAAAGTCAATGA
Found at i:2011778 original size:18 final size:20
Alignment explanation
Indices: 2011755--2011801 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
2011745 TTATTATTGT
2011755 TAGTATTAAATAAAT-TTA-
1 TAGTATTAAATAAATATTAC
2011773 TAGTA-TAAATAAATATTAC
1 TAGTATTAAATAAATATTAC
2011792 TA-TATTAAAT
1 TAGTATTAAAT
2011802 TATATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.35
18 10 0.38
19 7 0.27
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
TAGTATTAAATAAATATTAC
Found at i:2020108 original size:2 final size:2
Alignment explanation
Indices: 2020097--2020148 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
2020087 TAAAGGTAAT
2020097 TA TA -A 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
2020138 TA TA TA T- TA TA
1 TA TA TA TA TA TA
2020149 CAATAAAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2022001 original size:42 final size:41
Alignment explanation
Indices: 2021954--2022039 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
2021944 AGCCCATCAG
* * *
2021954 TAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATACA
1 TAAGTCTTTCGAGCAAGATGA-TAAATCCTTCGGGCCATACA
* * *
2021996 TAAGTCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCA
1 TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATACA
2022037 TAA
1 TAA
2022040 CACCTTCGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
41 19 0.50
42 19 0.50
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATACA
Found at i:2022249 original size:238 final size:237
Alignment explanation
Indices: 2021832--2022267 Score: 669
Period size: 238 Copynumber: 1.8 Consensus size: 237
2021822 ATTAAGTTAT
* * *
2021832 TTTGAAAAATGGGTAAGTGATTTTCAAGATTTCCCATTTAATCTTTTCTGAAAGTTGAATTTTTG
1 TTTGAAAAATGGGAAAGCGATTTTCAAGATTTCCCATTTAATCTTTTCTGAAAGATGAATTTTTG
* * *
2021897 AAAAGTAAGAAAATAATTTCCAAAGTTTTTTACTTAGTAAGTCCTTCAGCCCATCAGTAAGTCTT
66 AAAAGTAAGAAAATAATTTCCAAAGTTTCTTAATTAGTAAGTCCTTCAGACCATCAGTAAGTCTT
* * * *
2021962 TCGAGCATGATGATTAAATCCTTTGGGTCATACATAAGTCTTTTGAGCAAGATGATAAGTCCTTC
131 TCGAGCATCATGATTAAATCCTTCGGGTCATACATAAGTCTTTTGAGCAAAATGATAAGTCATTC
2022027 GGGCCATCCATAACACCTTCGGGTAGGATGTTTTCACATGAA
196 GGGCCATCCATAACACCTTCGGGTAGGATGTTTTCACATGAA
*
2022069 TTTGAAAAATGGGAAAGCGATTTTCAA-AGTTTCTCATTTAAATCTTTTCTGAAA-ATGAAATTT
1 TTTGAAAAATGGGAAAGCGATTTTCAAGA-TTTCCCATTT-AATCTTTTCTGAAAGATG-AATTT
* * * *
2022132 TTGGAAAGTAAGAAAATGATTTCCAAAGTTTCTTAATTAGTAAGTCCTTCGGACCATTAGTAAGT
63 TTGAAAAGTAAGAAAATAATTTCCAAAGTTTCTTAATTAGTAAGTCCTTCAGACCATCAGTAAGT
***
2022197 CTTTCGAGCATCATGATTAAATCCTTCGGGTCATTTGTAAGTCTTTTGAGCAAAATGATAAGTCA
128 CTTTCGAGCATCATGATTAAATCCTTCGGGTCATACATAAGTCTTTTGAGCAAAATGATAAGTCA
2022262 TTCGGG
193 TTCGGG
2022268 TAAAATGTTT
Statistics
Matches: 178, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
236 1 0.01
237 36 0.20
238 141 0.79
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (237 bp):
TTTGAAAAATGGGAAAGCGATTTTCAAGATTTCCCATTTAATCTTTTCTGAAAGATGAATTTTTG
AAAAGTAAGAAAATAATTTCCAAAGTTTCTTAATTAGTAAGTCCTTCAGACCATCAGTAAGTCTT
TCGAGCATCATGATTAAATCCTTCGGGTCATACATAAGTCTTTTGAGCAAAATGATAAGTCATTC
GGGCCATCCATAACACCTTCGGGTAGGATGTTTTCACATGAA
Found at i:2022255 original size:42 final size:41
Alignment explanation
Indices: 2022176--2022268 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
2022166 AATTAGTAAG
** **
2022176 TCCTTCGGACCATTAGTAAGTCTTTCGAGCATCATGATTAAA
1 TCCTTCGGGTCATTAGTAAGTCTTTCGAGCAAAATGA-TAAA
* * *
2022218 TCCTTCGGGTCATTTGTAAGTCTTTTGAGCAAAATGATAAG
1 TCCTTCGGGTCATTAGTAAGTCTTTCGAGCAAAATGATAAA
*
2022259 TCATTCGGGT
1 TCCTTCGGGT
2022269 AAAATGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 12 0.28
42 31 0.72
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (41 bp):
TCCTTCGGGTCATTAGTAAGTCTTTCGAGCAAAATGATAAA
Found at i:2022662 original size:264 final size:263
Alignment explanation
Indices: 2022293--2022781 Score: 712
Period size: 264 Copynumber: 1.9 Consensus size: 263
2022283 TGATTTTTGT
* * * * **
2022293 AAAATAAGAAAGCGATTTTCAAAGTTTCTCATTTAGTGTTTTCAGAAAATCAAATTTTGAGGAGT
1 AAAATAAGAAAACGATTTCCAAAGTTTATCATTTAGTGTTTTCAGAAAATAAAATTTTGAAAAGT
* *
2022358 GAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAG-CGCTTCGAG
66 AAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTC-CTTCGAG
* * * * *
2022422 CCATTAGTAAGTCTTTAGAGCATGATGATTAAATCATTCGGGTTATCTGTCAGTCTTTCGAGTAA
130 CCATCAGTAAGCCTTTAGAGCATGATGATTAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAA
* *
2022487 GATGATAAGTTCTTTGGGCAATCTATAAGACCTTCAAGGAAGATGTTTTCACATGATTTTTTTTA
195 GATGATAAGTCCTTCGGGCAATCTATAAGACCTTCAAGGAAGATGTTTTCACATGATTTTTTTTA
2022552 AAAA
260 AAAA
*
2022556 AAAATGAGAAAACGATTTCCAAAGTTTATCATTTAGTGTTTTC-GAAAAATAAAATTTTTGAAAA
1 AAAATAAGAAAACGATTTCCAAAGTTTATCATTTAGTGTTTTCAG-AAAATAAAA-TTTTGAAAA
* * *
2022620 GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAGACTATTTCCAAAATTGGTAAGTCCTTTGG
64 GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGA
* * * * *
2022685 GCCATCAGTAAGCCTTTCGAGCATGATGGTTAAATCCTTTGGGTCATGTGTAAGTCTTTCGAGCA
129 GCCATCAGTAAGCCTTTAGAGCATGATGATTAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCA
*
2022750 AGATGATAAGTCCTTCGGGCCATCTATAAGAC
194 AGATGATAAGTCCTTCGGGCAATCTATAAGAC
2022782 ATTTGGGCAA
Statistics
Matches: 198, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
262 1 0.01
263 47 0.24
264 149 0.75
265 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (263 bp):
AAAATAAGAAAACGATTTCCAAAGTTTATCATTTAGTGTTTTCAGAAAATAAAATTTTGAAAAGT
AAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGC
CATCAGTAAGCCTTTAGAGCATGATGATTAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAG
ATGATAAGTCCTTCGGGCAATCTATAAGACCTTCAAGGAAGATGTTTTCACATGATTTTTTTTAA
AAA
Found at i:2022724 original size:42 final size:41
Alignment explanation
Indices: 2022677--2022773 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
2022667 AATTGGTAAG
* *
2022677 TCCTTTGGGCCATCAGTAAGCCTTTCGAGCATGATGGTTAAA
1 TCCTTTGGGCCATCAGTAAGCCTTTCGAGCAAGAT-GATAAA
* ** * *
2022719 TCCTTTGGGTCATGTGTAAGTCTTTCGAGCAAGATGATAAG
1 TCCTTTGGGCCATCAGTAAGCCTTTCGAGCAAGATGATAAA
*
2022760 TCCTTCGGGCCATC
1 TCCTTTGGGCCATC
2022774 TATAAGACAT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 15 0.33
42 30 0.67
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (41 bp):
TCCTTTGGGCCATCAGTAAGCCTTTCGAGCAAGATGATAAA
Found at i:2022874 original size:8 final size:8
Alignment explanation
Indices: 2022856--2022899 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
2022846 CATTTAAATT
2022856 AAAAG-AA
1 AAAAGAAA
2022863 AAAAGAAA
1 AAAAGAAA
*
2022871 AAAAGAGA
1 AAAAGAAA
2022879 AAAAGAAA
1 AAAAGAAA
*
2022887 AATAGAAA
1 AAAAGAAA
2022895 GAAAA
1 -AAAA
2022900 ATAGAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 5 0.16
8 23 0.74
9 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAGAAA
Found at i:2022911 original size:12 final size:12
Alignment explanation
Indices: 2022857--2022904 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
2022847 ATTTAAATTA
2022857 AAAGAAAAA-AG
1 AAAGAAAAATAG
* *
2022868 AAA-AAAAGAGAA
1 AAAGAAAA-ATAG
2022880 AAAGAAAAATAG
1 AAAGAAAAATAG
2022892 AAAGAAAAATAG
1 AAAGAAAAATAG
2022904 A
1 A
2022905 GAAAAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.13
11 4 0.13
12 19 0.61
13 4 0.13
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (12 bp):
AAAGAAAAATAG
Found at i:2023380 original size:47 final size:46
Alignment explanation
Indices: 2023180--2023447 Score: 258
Period size: 45 Copynumber: 5.9 Consensus size: 46
2023170 ATCATCCTAC
* * * ** *
2023180 TTGACTTTCTAGTGAAGAGAAGTCAA-CATTTTAGTGGTGTTGTTCT
1 TTGACTTTCTCGTGAAGAGGAGTCAATC-TTTTAGTGTTGTCCTTTT
* * * * * *
2023226 TT-ACTTTCTCGTGGAGAGAAGTCAACCTTTTAGTGATGT-CATTC
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCCTTTT
*** ** *
2023270 TTGACTTTCTAACGAAGAGGAGTTGATCTTTTAGTGTTGTCATTTT
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCCTTTT
* *
2023316 TT-ACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTTTTCCTTTT
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTG-TTGTCCTTTT
** *
2023362 TTGACTTTCTCGCAAAGAGGAGTCAATCTTTAAGTGTTGTCC-TTT
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCCTTTT
* *
2023407 TTGACTTTCTCGTGAAGAGGAGTCAACCTTTTAGTGATGTC
1 TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC
2023448 ATCCTCAACT
Statistics
Matches: 180, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
44 3 0.02
45 126 0.70
46 22 0.12
47 29 0.16
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (46 bp):
TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCCTTTT
Found at i:2023402 original size:92 final size:90
Alignment explanation
Indices: 2023225--2023449 Score: 297
Period size: 92 Copynumber: 2.5 Consensus size: 90
2023215 GGTGTTGTTC
* *
2023225 TTTACTTTCTCGTGGAGAGAAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTAACGAAGAGG
1 TTTACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTAACAAAGAGG
** *
2023290 AGTTGATCTTTTAGTGTTGTCATTT
66 AGTCAATCTTTAAGTGTTGTCATTT
* * * * * **
2023315 TTTACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTTTTCCTTTTTTGACTTTCTCGCAAAGA
1 TTTACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTG-ATGT-CATTCTTGACTTTCTAACAAAGA
*
2023380 GGAGTCAATCTTTAAGTGTTGTCCTTT
64 GGAGTCAATCTTTAAGTGTTGTCATTT
* *
2023407 TTGACTTTCTCGTGAAGAGGAGTCAACCTTTTAGTGATGTCAT
1 TTTACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTCAT
2023450 CCTCAACTTG
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
90 36 0.32
91 4 0.04
92 74 0.65
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (90 bp):
TTTACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTAACAAAGAGG
AGTCAATCTTTAAGTGTTGTCATTT
Found at i:2023429 original size:137 final size:135
Alignment explanation
Indices: 2023183--2023449 Score: 311
Period size: 137 Copynumber: 2.0 Consensus size: 135
2023173 ATCCTACTTG
* ***
2023183 ACTTTCTAGTGAAGAGAAGTCAACATTTTAGTGGTGTTGTTCTTTACTTTCTCGTGGAGAGAAGT
1 ACTTTCTAGTGAAGAGAAGTCAACATTTTAGTGGTGTTCTTCTTTACTTTCTCGCAAAGAGAAGT
* ** * *
2023248 CAACCTTTTAGTGATGTCATTCTTGACTTTCTAACGAAGAGGAGTTGATCTTTTAGTGTTGTCAT
66 CAACCTTTAAGTGATGTCATTCTTGACTTTCTAACGAAGAGGAGTCAACCTTTTAGTGATGTCAT
2023313 TTTTT
131 TTTTT
* * * * *
2023318 ACTTTCTCGTGAAGAGAAGTCAATC-TTTTAGTGTTTTTCCTTTTTTGACTTTCTCGCAAAGAGG
1 ACTTTCTAGTGAAGAGAAGTCAA-CATTTTAGTGGTGTT-CTTCTTT-ACTTTCTCGCAAAGAGA
* * * * ***
2023382 AGTCAATCTTTAAGTGTTGTCCTTTTTGACTTTCTCGTGAAGAGGAGTCAACCTTTTAGTGATGT
63 AGTCAACCTTTAAGTGATGTCATTCTTGACTTTCTAACGAAGAGGAGTCAACCTTTTAGTGATGT
2023447 CAT
128 CAT
2023450 CCTCAACTTG
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
135 33 0.31
136 6 0.06
137 69 0.64
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (135 bp):
ACTTTCTAGTGAAGAGAAGTCAACATTTTAGTGGTGTTCTTCTTTACTTTCTCGCAAAGAGAAGT
CAACCTTTAAGTGATGTCATTCTTGACTTTCTAACGAAGAGGAGTCAACCTTTTAGTGATGTCAT
TTTTT
Found at i:2023476 original size:50 final size:51
Alignment explanation
Indices: 2023407--2023519 Score: 140
Period size: 50 Copynumber: 2.2 Consensus size: 51
2023397 GTTGTCCTTT
* * *
2023407 TTGACTTTCTCGTGAAGAGGAGTCAACCTTTT-AGTGATGTCA-TCCTCAAC
1 TTGACTTTCTCGCGAAGAGGAGTCAA-CTTTTCAATGATATCATTCCTCAAC
* * * *
2023457 TTGACTTTCTTGCGGAGAGGAGTTAACTTTTCAATGGTATCATTCCTCAAC
1 TTGACTTTCTCGCGAAGAGGAGTCAACTTTTCAATGATATCATTCCTCAAC
2023508 TTGACTTTCTCG
1 TTGACTTTCTCG
2023520 TATAGAGAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 5 0.09
50 29 0.55
51 19 0.36
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (51 bp):
TTGACTTTCTCGCGAAGAGGAGTCAACTTTTCAATGATATCATTCCTCAAC
Found at i:2024379 original size:134 final size:134
Alignment explanation
Indices: 2024136--2024727 Score: 609
Period size: 134 Copynumber: 4.5 Consensus size: 134
2024126 GATTTGCCAG
* *
2024136 ATTTGGTCTTCCCGAAGAGCAACGAAACAAATCACTTTT-GATTCAATCTTCCCTGAAGAGCAGC
1 ATTTGGTCTTCCTGAAGAGCAGCGAAACAAATCA-TTTTCGATTCAATCTTCCCTGAAGAGCAGC
* * *
2024200 -AAAGTGAATCAAAATTTTCTCAAGTCTTATCTCCCCTAAATAGTAGTGGAGCAGATTATTCTTC
65 GAAA-TGAATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTC
*
2024264 TTTCAT
129 TTTCAA
* * * *
2024270 ATTTGGTCTTTCTAAAGAGCAACGAAGCAAATCATTTTCGATTCAATCTTCCCTGAAGAGCAGCG
1 ATTTGGTCTTCCTGAAGAGCAGCGAAACAAATCATTTTCGATTCAATCTTCCCTGAAGAGCAGCG
* * * *
2024335 AAATGAATCTAACTGTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGATCAG---ATTC-T-TT
66 AAATGAATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTCTT
*
2024395 TCAC
131 TCAA
* * ** * * *
2024399 ATTTGGACTTCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCAATCTTCCCTAAAGAGTAGTG
1 ATTTGGTCTTCCTGAAGAGCAGCGAAACAAATCATTTTCGATTCAATCTTCCCTGAAGAGCAGCG
* * * * * *
2024464 AAGTGGATCAAAATTTTCTTGAATCTTATCTCCCCTAAAGAGTAGTGGAGCAGATTATTTTTCTT
66 AAATGAATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTCTT
2024529 TCAA
131 TCAA
* * * * * *
2024533 ATTTGGTATTCCTAAAGAGCAGTGAAACAATTCGATTCT-GATTCAATCTT-CCTGAAGTGCAGC
1 ATTTGGTCTTCCTGAAGAGCAGCGAAACAAATC-ATTTTCGATTCAATCTTCCCTGAAGAGCAGC
* * * * ** *
2024596 GAAGTGGATCAAAA-TTT-ACGAGTTTGATCTCCCCTAAAGAGTAGTGGAGCAGACCCACT-TTC
65 GAAATGAATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGA-TTATTCTTC
*
2024658 TTTCAG
129 TTTCAA
* * * ** * *
2024664 ATTTGGTCTTCTTGAAGAACAGTG-AA-AAATCAAGTTCGATTCAATCTTCCTTGAAGAGTAGCG
1 ATTTGGTCTTCCTGAAGAGCAGCGAAACAAATCATTTTCGATTCAATCTTCCCTGAAGAGCAGCG
2024727 A
66 A
2024728 TGGTGAATCA
Statistics
Matches: 382, Mismatches: 65, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
128 2 0.01
129 120 0.31
130 15 0.04
131 63 0.16
132 8 0.02
133 28 0.07
134 141 0.37
135 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (134 bp):
ATTTGGTCTTCCTGAAGAGCAGCGAAACAAATCATTTTCGATTCAATCTTCCCTGAAGAGCAGCG
AAATGAATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTCTT
TCAA
Found at i:2024696 original size:263 final size:262
Alignment explanation
Indices: 2024136--2024740 Score: 702
Period size: 263 Copynumber: 2.3 Consensus size: 262
2024126 GATTTGCCAG
* * * * ** * *
2024136 ATTTGGTCTTCCCGAAGAGCAACGAAACAAATCACTTTTGATTCAATCTTCCCTGAAGAGCAGCA
1 ATTTGGACTTCCTGAAGAACAGCG-AACAAATCAAATTCGATTCAATCTTCCCTGAAGAGTAGCA
*
2024201 AAGTGAATCAAAATTTTCTCAAGTCTTATCTCCCCTAAATAGTAGTGGAGCAGATTATTCTTCTT
65 AAGTGAATCAAAATTTTCTCAAGTCTTATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTCTT
* * * * *
2024266 TCATATTTGGTCTTTCTAAAGAGCAACGAAGCAAATCATTTTCGATTCAATCTTCCCTGAAGAGC
130 TCAAATTTGGTATTCCTAAAGAGCAACGAAACAAATCATTCTCGATTCAATCTTCCCTGAAGAGC
* * * *
2024331 AGCGAAATGAATCTAACTGTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGATCAGATTCTTTT
195 AGCGAAATGAATCAAAATGTTCACGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTTT
2024396 CAC
260 CAC
* * **
2024399 ATTTGGACTTCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCAATCTTCCCTAAAGAGTAGTG
1 ATTTGGACTTCCTGAAGAACAGCGAA-CAAATCAAATTCGATTCAATCTTCCCTGAAGAGTAGCA
* * *
2024464 AAGTGGATCAAAATTTTCTTGAA-TCTTATCTCCCCTAAAGAGTAGTGGAGCAGATTATTTTTCT
65 AAGTGAATCAAAATTTTC-TCAAGTCTTATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTCT
** * *
2024528 TTCAAATTTGGTATTCCTAAAGAGCAGTGAAACAATTCGATTCT-GATTCAATCTT-CCTGAAGT
129 TTCAAATTTGGTATTCCTAAAGAGCAACGAAACAAATC-ATTCTCGATTCAATCTTCCCTGAAGA
* * *
2024591 GCAGCGAAGTGGATCAAAAT-TT-ACGAGTTTGATCTCCCCTAAAGAGTAGTGGAGCAGACCCAC
193 GCAGCGAAATGAATCAAAATGTTCACGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAG----A-
*
2024654 TT-TCTTTCAG
253 TTCT-TTTCAC
* * * * *
2024664 ATTTGGTCTTCTTGAAGAACAGTGAA-AAATCAAGTTCGATTCAATCTTCCTTGAAGAGTAGCGA
1 ATTTGGACTTCCTGAAGAACAGCGAACAAATCAAATTCGATTCAATCTTCCCTGAAGAGTAGC-A
**
2024728 TGGTGAATCAAAA
65 AAGTGAATCAAAA
2024741 AAAATTTCAA
Statistics
Matches: 289, Mismatches: 43, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
260 32 0.11
261 2 0.01
262 25 0.09
263 182 0.63
264 19 0.07
265 29 0.10
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (262 bp):
ATTTGGACTTCCTGAAGAACAGCGAACAAATCAAATTCGATTCAATCTTCCCTGAAGAGTAGCAA
AGTGAATCAAAATTTTCTCAAGTCTTATCTCCCCTAAAGAGTAGTGGAGCAGATTATTCTTCTTT
CAAATTTGGTATTCCTAAAGAGCAACGAAACAAATCATTCTCGATTCAATCTTCCCTGAAGAGCA
GCGAAATGAATCAAAATGTTCACGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTTTC
AC
Found at i:2025084 original size:10 final size:10
Alignment explanation
Indices: 2025069--2025093 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2025059 ATTATCGGGG
2025069 TATATGTCCA
1 TATATGTCCA
2025079 TATATGTCCA
1 TATATGTCCA
2025089 TATAT
1 TATAT
2025094 TATGTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (10 bp):
TATATGTCCA
Found at i:2075305 original size:30 final size:30
Alignment explanation
Indices: 2075229--2075373 Score: 155
Period size: 30 Copynumber: 4.7 Consensus size: 30
2075219 TTGGATTTGC
* *
2075229 ACTATAGTATGTAAGGACACTTAGTGCATATGGT
1 ACTATAGTGTGTAAGGACACTTAGT--ATA--AT
*
2075263 ACTATGGTGTGTAAGGACACTTAGTATAAT
1 ACTATAGTGTGTAAGGACACTTAGTATAAT
* *
2075293 ACAATAGTGTGTAAGGACACTTAGTACAAT
1 ACTATAGTGTGTAAGGACACTTAGTATAAT
* * * * *
2075323 ATTATAGTGTATAAGGACACTCAGTGTAAC
1 ACTATAGTGTGTAAGGACACTTAGTATAAT
*
2075353 ACTATGGTGTGTAAGGACACT
1 ACTATAGTGTGTAAGGACACT
2075374 CGGTGTATAT
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
30 69 0.73
32 3 0.03
34 23 0.24
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (30 bp):
ACTATAGTGTGTAAGGACACTTAGTATAAT
Found at i:2075364 original size:60 final size:62
Alignment explanation
Indices: 2075228--2075373 Score: 172
Period size: 60 Copynumber: 2.4 Consensus size: 62
2075218 ATTGGATTTG
* * * *
2075228 CACTATAGTATGTAAGGACACTTAGTGCATATGGTACTATGGTGTGTAAGGACACTTAGTATAA
1 CACTATAGTGTGTAAGGACACTTAGTACATAT-GTACTA-GGTGTATAAGGACACTCAGTATAA
* * *
2075292 TACAATAGTGTGTAAGGACACTTAGTACAATAT-TA-TA-GTGTATAAGGACACTCAGTGTAA
1 CACTATAGTGTGTAAGGACACTTAGTAC-ATATGTACTAGGTGTATAAGGACACTCAGTATAA
*
2075352 CACTATGGTGTGTAAGGACACT
1 CACTATAGTGTGTAAGGACACT
2075374 CGGTGTATAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
60 39 0.55
62 2 0.03
63 2 0.03
64 24 0.34
65 4 0.06
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (62 bp):
CACTATAGTGTGTAAGGACACTTAGTACATATGTACTAGGTGTATAAGGACACTCAGTATAA
Found at i:2075879 original size:18 final size:20
Alignment explanation
Indices: 2075856--2075902 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
2075846 TTATTATAGT
2075856 TAATATTAAATAAAT-TTA-
1 TAATATTAAATAAATATTAC
2075874 TAATA-TAAATAAATATTAC
1 TAATATTAAATAAATATTAC
2075893 T-ATATTAAAT
1 TAATATTAAAT
2075903 TATATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.35
18 11 0.42
19 6 0.23
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATATTAAATAAATATTAC
Found at i:2084649 original size:160 final size:162
Alignment explanation
Indices: 2084375--2084701 Score: 633
Period size: 160 Copynumber: 2.0 Consensus size: 162
2084365 ATTAAAAGTG
2084375 CTAAT-CTTATTTTAAACACTAAGTGAAGATAGGTTGGTCAAACTTAATTCTCTCCTAAGTGTCC
1 CTAATGCTTATTTTAAACACTAAGTGAAGATAGGTTGGTCAAACTTAATTCTCTCCTAAGTGTCC
2084439 AAAATATTTCTTTATCTAAAGGTTTTGTAAAAATATCTGCTAATTGGTGAAAGTATTAACAAATT
66 AAAATATTTCTTTATCTAAAGGTTTTGTAAAAATATCTGCTAATTGGTGAAAGTATTAACAAATT
2084504 CTAGAACTACGTCTTC-TTAACGACATGATAT
131 CTAGAACTACGTCTTCTTTAACGACATGATAT
2084535 CTAATGCTTA-TTTAAACACTAAGTGAAGATAGGTTGGTCAAACTTAATTCTCTCCTAAGTGTCC
1 CTAATGCTTATTTTAAACACTAAGTGAAGATAGGTTGGTCAAACTTAATTCTCTCCTAAGTGTCC
2084599 AAAATATTTCTTTATCTAAAGGTTTTGTAAAAATATCTGCTAATTGGTGAAAGTATTAACAAATT
66 AAAATATTTCTTTATCTAAAGGTTTTGTAAAAATATCTGCTAATTGGTGAAAGTATTAACAAATT
2084664 CTAGAACTACGTCTTCTTTAACGACATGATAT
131 CTAGAACTACGTCTTCTTTAACGACATGATAT
2084696 CTAATG
1 CTAATG
2084702 AAATGATGTC
Statistics
Matches: 165, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
160 140 0.85
161 25 0.15
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (162 bp):
CTAATGCTTATTTTAAACACTAAGTGAAGATAGGTTGGTCAAACTTAATTCTCTCCTAAGTGTCC
AAAATATTTCTTTATCTAAAGGTTTTGTAAAAATATCTGCTAATTGGTGAAAGTATTAACAAATT
CTAGAACTACGTCTTCTTTAACGACATGATAT
Found at i:2093046 original size:55 final size:55
Alignment explanation
Indices: 2092982--2093421 Score: 639
Period size: 55 Copynumber: 8.0 Consensus size: 55
2092972 ATTGCCAAAT
**
2092982 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
2093037 GGCACTGTGTGTACAAAACTAAGAAATTCATAATGAGTTTATGAATTTCTGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* ** *
2093092 GGCATTGTGTGTAAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
2093147 GGCACTGTGTTTGCAAAACTAAGAGATTCATAATAAGTTTGTGGATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
2093202 GGCACTGTGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
2093257 GGCACTGTGTGTGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
** * * * *
2093312 GGCACTGTGTGTGTGCAAGTCTAAGAAATTCACAATGAGTTTATGAATTTCTGTATT
1 GGCAC--TGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
2093369 GGCACTGTGTGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
2093422 TGGTAGTGGG
Statistics
Matches: 343, Mismatches: 40, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
54 33 0.10
55 263 0.77
57 47 0.14
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (55 bp):
GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:2094672 original size:3 final size:3
Alignment explanation
Indices: 2094664--2094702 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
2094654 AATTAAAAGA
*
2094664 AAT AAT AAT AAT AAT AA- AAT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2094703 TTAAAAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2100676 original size:130 final size:133
Alignment explanation
Indices: 2100426--2100729 Score: 418
Period size: 130 Copynumber: 2.3 Consensus size: 133
2100416 TGGGTGTTAC
**
2100426 ATCTGGTCGGTGGATGACAATGTTCCTACGTGATGAGGATGTATTGGCCATCTTTAAGGATGATG
1 ATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTATTGGCCATCTTTAAGGA-GATG
* * * *
2100491 ATAACACGGTTCCTACATGATGAAGACAGTTGGTTATCTAGGGTGGCATGGCTCCTACGTGATGA
65 ATAACACGGTTCCTACATGATGAAGACAGCTAGTTATCTAGGGTGACATGACTCCTACGTGATGA
*
2100556 GGAT
130 GGAG
2100560 ATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATG-ATAT-GCCATCTTTAAGGA-A-G
1 ATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTAT-TGGCCATCTTTAAGGAGATG
* * * ** *
2100621 ATAACATGGTTCCTACGTGATGAGGATGGCTAGTTATCTAGGGTGACATGACTCCTACGTGATTA
65 ATAACACGGTTCCTACATGATGAAGACAGCTAGTTATCTAGGGTGACATGACTCCTACGTGATGA
2100686 GGAG
130 GGAG
* * *
2100690 GTCTGGTCGGTGGATGACACGATTCCTACGCGATGAGGAT
1 ATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGAT
2100730 AACTAGCCAT
Statistics
Matches: 153, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
130 96 0.63
131 1 0.01
133 16 0.10
134 40 0.26
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (133 bp):
ATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTATTGGCCATCTTTAAGGAGATGA
TAACACGGTTCCTACATGATGAAGACAGCTAGTTATCTAGGGTGACATGACTCCTACGTGATGAG
GAG
Found at i:2100803 original size:36 final size:36
Alignment explanation
Indices: 2100752--2100877 Score: 117
Period size: 36 Copynumber: 3.7 Consensus size: 36
2100742 TTAGGGATAA
2100752 TGGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAAT
1 TGGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAAT
* **
2100788 TGGTTTCAAGGGAAA-CGATCTCAA-AGATG-----GG
1 TGGTTTCAAGAGAAACCG-TCTCAAGAGA-GACAAAAT
2100819 T-GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAAT
1 TGGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAAT
* *
2100854 TCGTTTCAA-AGAAAACGATCTCAA
1 TGGTTTCAAGAGAAACCG-TCTCAA
2100878 AGATTGGTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
30 19 0.26
31 6 0.08
35 13 0.18
36 34 0.47
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (36 bp):
TGGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAAT
Found at i:2100860 original size:66 final size:65
Alignment explanation
Indices: 2100754--2100932 Score: 277
Period size: 66 Copynumber: 2.7 Consensus size: 65
2100744 AGGGATAATG
2100754 GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATTGGTTTCAAGGGAAACGATCTCAAAGATGGG
1 GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATT-GTTTCAAGGGAAACGATCTCAAAGATGGG
2100819 T
65 T
* * *
2100820 GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATTCGTTTCAAAGAAAACGATCTCAAAGATTGG
1 GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATT-GTTTCAAGGGAAACGATCTCAAAGATGGG
2100885 T
65 T
** *
2100886 GTTTCAAGAGAAATTGTCTCAAGGGAGACAAAACTTGTTTCAAGGGA
1 GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAA-TTGTTTCAAGGGA
2100933 GATAAAACTT
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
66 101 0.98
67 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (65 bp):
GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATTGTTTCAAGGGAAACGATCTCAAAGATGGGT
Found at i:2100928 original size:21 final size:21
Alignment explanation
Indices: 2100899--2100958 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
2100889 TCAAGAGAAA
*
2100899 TTGTCTCAAGGGAGACAAAAC
1 TTGTTTCAAGGGAGACAAAAC
*
2100920 TTGTTTCAAGGGAGATAAAAC
1 TTGTTTCAAGGGAGACAAAAC
*
2100941 TTGTTTCAAGGGAAACAA
1 TTGTTTCAAGGGAGACAA
2100959 TCTCAAAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (21 bp):
TTGTTTCAAGGGAGACAAAAC
Found at i:2100991 original size:87 final size:87
Alignment explanation
Indices: 2100838--2101019 Score: 242
Period size: 87 Copynumber: 2.1 Consensus size: 87
2100828 AGAAACCGTC
* * * *
2100838 TCAAGAGAGACAAAATTCGTTTCAAAGAAAACGATCTCAAAGATTGGTGTTTCAAGAGAAATTGT
1 TCAAGGGAGACAAAATTCGTTTCAAAGAAAACAATCTCAAAGATTGGTGTTACAAGAGAAACTGT
2100903 CTCAAGGGAGACAAAACTT-GTT
66 CTCAAGGGAGACAAAA-TTCGTT
* * * * * *
2100925 TCAAGGGAGATAAAACTT-GTTTCAAGGGAAACAATCTCAAAGGTTGGTGTTACACGATAAACTG
1 TCAAGGGAGACAAAA-TTCGTTTCAAAGAAAACAATCTCAAAGATTGGTGTTACAAGAGAAACTG
2100989 TCTCAAGGGAGACAAAATTCGTT
65 TCTCAAGGGAGACAAAATTCGTT
2101012 TCAAGGGA
1 TCAAGGGA
2101020 AATGATCTCA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 2 0.02
87 79 0.95
88 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTCGTTTCAAAGAAAACAATCTCAAAGATTGGTGTTACAAGAGAAACTGT
CTCAAGGGAGACAAAATTCGTT
Found at i:2102395 original size:24 final size:23
Alignment explanation
Indices: 2102358--2102402 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
2102348 GTGCTTCTTG
*
2102358 TCTTTTTTTATTTCTTTCTTTTGT
1 TCTTTTGTTATTTCTTT-TTTTGT
*
2102382 TCTTTTGTTCTTTCTTTTTTT
1 TCTTTTGTTATTTCTTTTTTT
2102403 CCTTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.80
Consensus pattern (23 bp):
TCTTTTGTTATTTCTTTTTTTGT
Found at i:2106387 original size:3 final size:3
Alignment explanation
Indices: 2106379--2106428 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
2106369 AATTATAAGA
* *
2106379 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2106427 AA
1 AA
2106429 AATTTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2106491 original size:18 final size:19
Alignment explanation
Indices: 2106468--2106514 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
2106458 TGTCTACAGT
2106468 TAGTATTAAATAAAT-TTA
1 TAGTATTAAATAAATATTA
2106486 TAGTA-TAAATAAATATTA
1 TAGTATTAAATAAATATTA
* *
2106504 CAATATTAAAT
1 TAGTATTAAAT
2106515 TATATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
TAGTATTAAATAAATATTA
Found at i:2107001 original size:17 final size:17
Alignment explanation
Indices: 2106979--2107013 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2106969 CTTCACGAAT
2106979 TGCCCAAGCTACTGACC
1 TGCCCAAGCTACTGACC
2106996 TGCCCAAGCTACTGACC
1 TGCCCAAGCTACTGACC
2107013 T
1 T
2107014 ACCAATGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.20
Consensus pattern (17 bp):
TGCCCAAGCTACTGACC
Found at i:2115320 original size:15 final size:15
Alignment explanation
Indices: 2115300--2115332 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2115290 TATTTACCGA
2115300 TTTCCATTACAAA-AT
1 TTTCCATTA-AAATAT
2115315 TTTCCATTAAAATAT
1 TTTCCATTAAAATAT
2115330 TTT
1 TTT
2115333 TTTGGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTCCATTAAAATAT
Found at i:2120208 original size:6 final size:6
Alignment explanation
Indices: 2120184--2120245 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
2120174 TCTTGGGGCT
* * * * * * *
2120184 GGAGGA GTATGA GGAGGA GGTGGA GGAGTA TGAGGA GGAGGT GGAGGT
1 GGAGGA GGAGGA GGAGGA GGAGGA GGAGGA GGAGGA GGAGGA GGAGGA
*
2120232 GGAGGA GGGGGA GG
1 GGAGGA GGAGGA GG
2120246 TGCTGCTACG
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.63, T:0.11
Consensus pattern (6 bp):
GGAGGA
Found at i:2120209 original size:21 final size:21
Alignment explanation
Indices: 2120183--2120230 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
2120173 CTCTTGGGGC
2120183 TGGAGGAGTATGAGGAGGAGG
1 TGGAGGAGTATGAGGAGGAGG
2120204 TGGAGGAGTATGAGGAGGAGG
1 TGGAGGAGTATGAGGAGGAGG
2120225 TGGAGG
1 TGGAGG
2120231 TGGAGGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.58, T:0.15
Consensus pattern (21 bp):
TGGAGGAGTATGAGGAGGAGG
Found at i:2120235 original size:15 final size:15
Alignment explanation
Indices: 2120217--2120247 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2120207 AGGAGTATGA
*
2120217 GGAGGAGGTGGAGGT
1 GGAGGAGGGGGAGGT
2120232 GGAGGAGGGGGAGGT
1 GGAGGAGGGGGAGGT
2120247 G
1 G
2120248 CTGCTACGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.71, T:0.10
Consensus pattern (15 bp):
GGAGGAGGGGGAGGT
Found at i:2120239 original size:21 final size:21
Alignment explanation
Indices: 2120183--2120247 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
2120173 CTCTTGGGGC
* *
2120183 TGGAGGAGTATGAGGAGGAGG
1 TGGAGGAGGAGGAGGAGGAGG
* *
2120204 TGGAGGAGTATGAGGAGGAGG
1 TGGAGGAGGAGGAGGAGGAGG
* *
2120225 TGGAGGTGGAGGAGGGGGAGG
1 TGGAGGAGGAGGAGGAGGAGG
2120246 TG
1 TG
2120248 CTGCTACGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.62, T:0.14
Consensus pattern (21 bp):
TGGAGGAGGAGGAGGAGGAGG
Found at i:2121860 original size:26 final size:27
Alignment explanation
Indices: 2121829--2121890 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
2121819 CATAAATAAG
*
2121829 AAATAAATCT-TACTT-TTAAAATAATT
1 AAATAAAT-TGTACTTGTCAAAATAATT
*
2121855 AAATAAATTGTACTTGGTCATAATAATT
1 AAATAAATTGTACTT-GTCAAAATAATT
2121883 AAATAAAT
1 AAATAAAT
2121891 AAATTGCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.03
26 13 0.42
28 17 0.55
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (27 bp):
AAATAAATTGTACTTGTCAAAATAATT
Found at i:2123839 original size:29 final size:30
Alignment explanation
Indices: 2123801--2123863 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
2123791 TTTTTGGTCC
* *
2123801 CTAAACCTTTCAAAATTTATACTTTAGCCA
1 CTAAACCTTTCAAAACTTACACTTTAGCCA
* *
2123831 CTAAA-CTTTCAAAACTTACATTTTAGTCA
1 CTAAACCTTTCAAAACTTACACTTTAGCCA
2123860 CTAA
1 CTAA
2123864 CCAAGATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
CTAAACCTTTCAAAACTTACACTTTAGCCA
Found at i:2126201 original size:18 final size:18
Alignment explanation
Indices: 2126167--2126200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2126157 TATGCCTCTA
*
2126167 CATCTCAAGATCATTTTG
1 CATCTCAAGACCATTTTG
2126185 CATCTCAAG-CCATTTT
1 CATCTCAAGACCATTTT
2126201 TTATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (18 bp):
CATCTCAAGACCATTTTG
Found at i:2126552 original size:13 final size:15
Alignment explanation
Indices: 2126531--2126591 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
2126521 ACTCTTTTAA
*
2126531 TATTATTTTT-AT-T
1 TATTTTTTTTAATAT
2126544 TATTTTTTTTAATAT
1 TATTTTTTTTAATAT
*
2126559 TATTTTTTAATAA-AT
1 TATTTTTT-TTAATAT
2126574 ATATTTTTTTTAA-AT
1 -TATTTTTTTTAATAT
2126589 TAT
1 TAT
2126592 AGTCGAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 9 0.22
14 5 0.12
15 16 0.39
16 11 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTTTTAATAT
Found at i:2126563 original size:15 final size:14
Alignment explanation
Indices: 2126543--2126591 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
2126533 TTATTTTTAT
2126543 TTATTTTTTTTAATA
1 TTATTTTTTTTAA-A
*
2126558 TTATTTTTTAATAAA
1 TTATTTTTT-TTAAA
2126573 TATATTTTTTTTAAA
1 T-TATTTTTTTTAAA
2126588 TTAT
1 TTAT
2126592 AGTCGAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 3 0.10
15 16 0.53
16 11 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTTTTTTTAAA
Found at i:2126592 original size:16 final size:16
Alignment explanation
Indices: 2126544--2126592 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2126534 TATTTTTATT
2126544 TATTTTTTTTAATATTA
1 TATTTTTTTTAA-ATTA
**
2126561 T-TTTTTAATAAA-TA
1 TATTTTTTTTAAATTA
2126575 TATTTTTTTTAAATTA
1 TATTTTTTTTAAATTA
2126591 TA
1 TA
2126593 GTCGAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 3 0.12
15 10 0.38
16 12 0.46
17 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTTTTAAATTA
Found at i:2130905 original size:5 final size:5
Alignment explanation
Indices: 2130892--2130928 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
2130882 CTCTTCTCAC
*
2130892 TTTTA TTTTG TTTTA TTTTA TTTTA TTTTA TCTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA T
2130929 AAAAATTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:2132179 original size:7 final size:7
Alignment explanation
Indices: 2132167--2132219 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
2132157 ACAATTTATA
2132167 ATGAAGC
1 ATGAAGC
2132174 ATGAAGC
1 ATGAAGC
2132181 ATGAAGC
1 ATGAAGC
2132188 ATGAAGC
1 ATGAAGC
2132195 ATGAAGC
1 ATGAAGC
2132202 ATGAAGC
1 ATGAAGC
2132209 ATGAAGC
1 ATGAAGC
2132216 ATGA
1 ATGA
2132220 CACCTTAGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.43, C:0.13, G:0.28, T:0.15
Consensus pattern (7 bp):
ATGAAGC
Found at i:2133909 original size:18 final size:18
Alignment explanation
Indices: 2133886--2133926 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2133876 CAAGTTATAA
2133886 CATCAGAAGTGATACGAG
1 CATCAGAAGTGATACGAG
2133904 CATCAGAAGTGATACGAG
1 CATCAGAAGTGATACGAG
2133922 CATCA
1 CATCA
2133927 TAATTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (18 bp):
CATCAGAAGTGATACGAG
Found at i:2136220 original size:6 final size:6
Alignment explanation
Indices: 2136211--2136279 Score: 122
Period size: 6 Copynumber: 11.5 Consensus size: 6
2136201 TATTACTATT
2136211 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG -CCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2136258 ACACACG ACCACG ACCACG ACC
1 AC-CACG ACCACG ACCACG ACC
2136280 CAATTCCCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.08
6 50 0.82
7 6 0.10
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2136880 original size:6 final size:6
Alignment explanation
Indices: 2136850--2136891 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
2136840 TCTCGTCTCA
*
2136850 GGTCG- GGTCG- GGTCG- GGTGGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
2136892 AATACGTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 14 0.41
6 20 0.59
ACGTcount: A:0.00, C:0.14, G:0.57, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:2139191 original size:25 final size:24
Alignment explanation
Indices: 2139163--2139210 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2139153 CAGCTGGAAG
2139163 AGAAAAGAAACGACCTC-ACCAAACT
1 AGAAAAGAAAC-ACC-CAACCAAACT
*
2139188 AGAAGAGAAACACCCAACCAAAC
1 AGAAAAGAAACACCCAACCAAAC
2139211 AAGTAGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 10 0.48
25 10 0.48
ACGTcount: A:0.54, C:0.29, G:0.12, T:0.04
Consensus pattern (24 bp):
AGAAAAGAAACACCCAACCAAACT
Found at i:2146455 original size:32 final size:32
Alignment explanation
Indices: 2146419--2146485 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
2146409 ATTTTACTAG
* * *
2146419 TCCTCTTCTAGTCTCCCACGGTCAAGCCTTTT
1 TCCTCTTCTAGTCTCCCAAGCTCAAACCTTTT
2146451 TCCTCTTCTAGTCTCCCAAGCTCAAACCTTTT
1 TCCTCTTCTAGTCTCCCAAGCTCAAACCTTTT
2146483 TCC
1 TCC
2146486 GCTCAAGCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.39, G:0.09, T:0.37
Consensus pattern (32 bp):
TCCTCTTCTAGTCTCCCAAGCTCAAACCTTTT
Found at i:2148577 original size:20 final size:20
Alignment explanation
Indices: 2148552--2148589 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2148542 TGAACGAATG
2148552 TGTTCTTCCAATAGGTAATT
1 TGTTCTTCCAATAGGTAATT
*
2148572 TGTTCTTCTAATAGGTAA
1 TGTTCTTCCAATAGGTAA
2148590 CATTTCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTTCTTCCAATAGGTAATT
Found at i:2151030 original size:14 final size:14
Alignment explanation
Indices: 2151008--2151038 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2150998 TTCTTTGTAA
2151008 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
*
2151022 TTTTGTTTTCTTCT
1 TTTTCTTTTCTTCT
2151036 TTT
1 TTT
2151039 GAGTTCTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:2151381 original size:22 final size:21
Alignment explanation
Indices: 2151355--2151412 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
2151345 CAGAATGCTC
2151355 GAATGGTATCGATACCCCTAT
1 GAATGGTATCGATACCCCTAT
2151376 GCAATGGTATCGATA-CCCTAT
1 G-AATGGTATCGATACCCCTAT
*
2151397 G-ATGGTACCGATACCC
1 GAATGGTATCGATACCC
2151413 TAAGGCATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.32
20 2 0.06
21 8 0.24
22 13 0.38
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GAATGGTATCGATACCCCTAT
Found at i:2151403 original size:19 final size:20
Alignment explanation
Indices: 2151355--2151414 Score: 86
Period size: 19 Copynumber: 3.0 Consensus size: 20
2151345 CAGAATGCTC
2151355 GAATGGTATCGATACCCCTAT
1 GAATGGTATCGATA-CCCTAT
2151376 GCAATGGTATCGATACCCTAT
1 G-AATGGTATCGATACCCTAT
*
2151397 G-ATGGTACCGATACCCTA
1 GAATGGTATCGATACCCTA
2151415 AGGCATATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 16 0.43
21 8 0.22
22 13 0.35
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (20 bp):
GAATGGTATCGATACCCTAT
Found at i:2157238 original size:21 final size:20
Alignment explanation
Indices: 2157162--2157281 Score: 120
Period size: 21 Copynumber: 5.7 Consensus size: 20
2157152 TTTGTGCATA
2157162 AGGTATCGATACCCCCTTTGAAT
1 AGGTATCGATA-CCCC--TGAAT
* *
2157185 AGGTATCGATAACCCTACAAT
1 AGGTATCGATACCCCT-GAAT
2157206 AGGTATCGATACCCCTGCAAT
1 AGGTATCGATACCCCTG-AAT
2157227 AGGTATCGATACCGCCTTGAAT
1 AGGTATCGATACC-CC-TGAAT
2157249 -GAGTATCGATACCCCCTG-AT
1 AG-GTATCGATA-CCCCTGAAT
2157269 -GGTATCGATACCC
1 AGGTATCGATACCC
2157282 TCTTCGGGTT
Statistics
Matches: 87, Mismatches: 4, Indels: 17
0.81 0.04 0.16
Matches are distributed among these distances:
18 3 0.03
19 9 0.10
20 4 0.05
21 37 0.43
22 19 0.22
23 15 0.17
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (20 bp):
AGGTATCGATACCCCTGAAT
Found at i:2157256 original size:43 final size:42
Alignment explanation
Indices: 2157162--2157281 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 42
2157152 TTTGTGCATA
*
2157162 AGGTATCGATACCCCCTTTGAATAGGTATCGATAACCCTACAAT
1 AGGTATCGATACCCCC--TGAATAGGTATCGATACCCCTACAAT
**
2157206 AGGTATCGATA-CCCCTGCAATAGGTATCGATACCGCCTTGAAT
1 AGGTATCGATACCCCCTG-AATAGGTATCGATACC-CCTACAAT
2157249 -GAGTATCGATACCCCCTG-AT-GGTATCGATACCC
1 AG-GTATCGATACCCCCTGAATAGGTATCGATACCC
2157282 TCTTCGGGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
40 1 0.01
41 14 0.20
42 18 0.26
43 19 0.28
44 17 0.25
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (42 bp):
AGGTATCGATACCCCCTGAATAGGTATCGATACCCCTACAAT
Found at i:2160009 original size:22 final size:21
Alignment explanation
Indices: 2159960--2160038 Score: 101
Period size: 22 Copynumber: 3.9 Consensus size: 21
2159950 ACAGAATGCT
2159960 TGAATGGTATCGATACCCC--
1 TGAATGGTATCGATACCCCTA
**
2159979 CCAATGGTATCGATACCCCTA
1 TGAATGGTATCGATACCCCTA
2160000 TGGAATGGTATCGATACCCCTA
1 T-GAATGGTATCGATACCCCTA
*
2160022 TG-ATGGTAACGATACCC
1 TGAATGGTATCGATACCC
2160039 TAAGGCATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.33
20 14 0.27
21 1 0.02
22 20 0.38
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (21 bp):
TGAATGGTATCGATACCCCTA
Found at i:2166634 original size:21 final size:21
Alignment explanation
Indices: 2166605--2166649 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
2166595 TGATTTATTA
*
2166605 TTATGGATTTCAAGTTTGTTG
1 TTATAGATTTCAAGTTTGTTG
2166626 TTATAGATTTCAAGTTTGTTG
1 TTATAGATTTCAAGTTTGTTG
2166647 TTA
1 TTA
2166650 CGGATGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TTATAGATTTCAAGTTTGTTG
Done.