Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 49
Found at i:1775921 original size:21 final size:21
Alignment explanation
Indices: 1775891--1775943 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1775881 ATTTACGTAT
*
1775891 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
1775912 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
1775933 TCGCAATGCGA
1 TCGCAATGCGA
1775944 TAGTCAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:1782123 original size:19 final size:22
Alignment explanation
Indices: 1782101--1782150 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1782091 AAAAAATAGA
1782101 AATAAAAAT-AAGTAA-TA-AT
1 AATAAAAATAAAGTAATTATAT
*
1782120 AATAATAATAAAGTAATTATAT
1 AATAAAAATAAAGTAATTATAT
*
1782142 AATATAAAT
1 AATAAAAAT
1782151 TTTAAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.32
20 6 0.24
21 2 0.08
22 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (22 bp):
AATAAAAATAAAGTAATTATAT
Found at i:1782279 original size:13 final size:13
Alignment explanation
Indices: 1782261--1782285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1782251 AACTATATGA
1782261 TTTTCAAAAATTG
1 TTTTCAAAAATTG
1782274 TTTTCAAAAATT
1 TTTTCAAAAATT
1782286 AGATATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTTCAAAAATTG
Found at i:1782344 original size:76 final size:74
Alignment explanation
Indices: 1782262--1782406 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 74
1782252 ACTATATGAT
* * * *
1782262 TTTCAAAAATTGTTTTCAAAAATTAGATATTATATAAGTTTT-CAAAAATGTTTTTAAAATCTAT
1 TTTCAAAAAATGTTTTCAAAAACTAGATATTATAT-A-TTTTGCAAAAAT-ATTTTAAAAACTAT
1782326 ATATTATTTAAA
63 ATATTATTTAAA
* * *
1782338 TTTCAAAAAATGTTTTTAAAAACTATATATTATATATTTTGCAAAAATATTTTAAAAACTATATT
1 TTTCAAAAAATGTTTTCAAAAACTAGATATTATATATTTTGCAAAAATATTTTAAAAACTATATA
1782403 TTAT
66 TTAT
1782407 ACGGTTTTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
74 22 0.36
75 8 0.13
76 31 0.51
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (74 bp):
TTTCAAAAAATGTTTTCAAAAACTAGATATTATATATTTTGCAAAAATATTTTAAAAACTATATA
TTATTTAAA
Found at i:1782391 original size:36 final size:37
Alignment explanation
Indices: 1782254--1782481 Score: 241
Period size: 36 Copynumber: 6.2 Consensus size: 37
1782244 TTTTAAAAAC
* * * *
1782254 TATATGATTTTCAAAAATTGTTTTCAAAAATTAGATAT
1 TATATAATTTTCAAAAA-TGTTTTTAAAAACTATATAT
*
1782292 TATATAAGTTTTCAAAAATGTTTTTAAAATCTATATAT
1 TATATAA-TTTTCAAAAATGTTTTTAAAAACTATATAT
* *
1782330 TATTTAAATTTCAAAAAATGTTTTTAAAAACTATATAT
1 TATATAATTTTC-AAAAATGTTTTTAAAAACTATATAT
* *
1782368 TATAT-ATTTTGCAAAAAT-ATTTTAAAAACTATATTT
1 TATATAATTTT-CAAAAATGTTTTTAAAAACTATATAT
*** * *
1782404 TATACGGTTTTC-AAAA-GTACTTTAAAAACCATATAT
1 TATATAATTTTCAAAAATGT-TTTTAAAAACTATATAT
*
1782440 TATATAATTTT-TAAAATGTTTTTAAAAACTATATAT
1 TATATAATTTTCAAAAATGTTTTTAAAAACTATATAT
1782476 TATATA
1 TATATA
1782482 CATATTTTCA
Statistics
Matches: 159, Mismatches: 23, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
35 4 0.03
36 68 0.43
37 20 0.13
38 57 0.36
39 10 0.06
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (37 bp):
TATATAATTTTCAAAAATGTTTTTAAAAACTATATAT
Found at i:1788499 original size:21 final size:21
Alignment explanation
Indices: 1788473--1788513 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1788463 AGGTCGGTTA
1788473 CAACCTTTGTAATGTGGAACT
1 CAACCTTTGTAATGTGGAACT
1788494 CAACCTTTGTAATGTGGAAC
1 CAACCTTTGTAATGTGGAAC
1788514 CAAGTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
CAACCTTTGTAATGTGGAACT
Found at i:1789315 original size:66 final size:66
Alignment explanation
Indices: 1789240--1789372 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
1789230 GTGTCCGATG
* *
1789240 AGTGCTCAATCTGAAAAGGACGGCTGAGCATATAAACCACAATATGTGCATCAAGTTCCACGATC
1 AGTGCTCAATCTGAAAAGGACGGCTGAGCATATAAACCACAATAAGTGCATCAAGTTCCACAATC
1789305 A
66 A
* *
1789306 AGTGCTCAATCTGTAAAGGACGGCTGAGCATATAAGCCACAATAAGTGCATCAAGTTCCACAATC
1 AGTGCTCAATCTGAAAAGGACGGCTGAGCATATAAACCACAATAAGTGCATCAAGTTCCACAATC
1789371 A
66 A
1789372 A
1 A
1789373 TCACGACAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (66 bp):
AGTGCTCAATCTGAAAAGGACGGCTGAGCATATAAACCACAATAAGTGCATCAAGTTCCACAATC
A
Found at i:1792958 original size:26 final size:28
Alignment explanation
Indices: 1792929--1792989 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
1792919 AAATCGAATC
* *
1792929 ATTTTAATT-TAA-TTAATATTTTTATT
1 ATTTTAATTAAAAGTTAATATTTTAATT
1792955 A-TTT-ATTAAAAGTTAATATTTTAATT
1 ATTTTAATTAAAAGTTAATATTTTAATT
1792981 ACTTTTAAT
1 A-TTTTAAT
1792990 AAATAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
25 5 0.18
26 15 0.54
28 3 0.11
29 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTAATTAAAAGTTAATATTTTAATT
Found at i:1792996 original size:25 final size:26
Alignment explanation
Indices: 1792942--1792997 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
1792932 TTAATTTAAT
* * *
1792942 TAATATTTTTATTATTTATTAAAAGT
1 TAATATTTTAATTACTTATTAAAAGA
1792968 TAATATTTTAATTACTT-TTAATAA-A
1 TAATATTTTAATTACTTATTAA-AAGA
1792993 TAATA
1 TAATA
1792998 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TAATATTTTAATTACTTATTAAAAGA
Found at i:1797534 original size:3 final size:3
Alignment explanation
Indices: 1797526--1797611 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
1797516 TTTTCAGTAA
1797526 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1797574 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1797612 AATCATTTAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1801340 original size:2 final size:2
Alignment explanation
Indices: 1801335--1801408 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
1801325 GTTTTTTTTA
1801335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1801377 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1801409 TTCCATACTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1801986 original size:3 final size:3
Alignment explanation
Indices: 1801971--1802028 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
1801961 TAAACACACT
*
1801971 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1802019 T-T TAA TAA TA
1 TAA TAA TAA TA
1802029 TTTTTTAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1810382 original size:31 final size:33
Alignment explanation
Indices: 1810335--1810399 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
1810325 TATTAAAGTG
*
1810335 ATAAAATGATTACTTGACTA-TCATATAATTCA
1 ATAAAATGATCACTTGACTATTCATATAATTCA
1810367 ATAAAA-GATCACTTGACTATTCATATAATTCA
1 ATAAAATGATCACTTGACTATTCATATAATTCA
1810399 A
1 A
1810400 ACTCTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (33 bp):
ATAAAATGATCACTTGACTATTCATATAATTCA
Found at i:1814494 original size:195 final size:195
Alignment explanation
Indices: 1814162--1814543 Score: 764
Period size: 195 Copynumber: 2.0 Consensus size: 195
1814152 TTGTTGAGGG
1814162 GTTCGCTACTGTGAACTGTCTTTTAATGCCTTCTTTCCTGCAAAAGTCATCAAATTCTTCGCTTG
1 GTTCGCTACTGTGAACTGTCTTTTAATGCCTTCTTTCCTGCAAAAGTCATCAAATTCTTCGCTTG
1814227 TGTATTCTCCTCCATTATCTGTTCTGAAACACTTGATCTTATTTCCAGAATCAAGTTCCACCCGT
66 TGTATTCTCCTCCATTATCTGTTCTGAAACACTTGATCTTATTTCCAGAATCAAGTTCCACCCGT
1814292 GCTTTGAAGTTTTTGAAAGTTGAAACACATCTGACTTCTCTTAATAGGGTACACCCATGAGGAGT
131 GCTTTGAAGTTTTTGAAAGTTGAAACACATCTGACTTCTCTTAATAGGGTACACCCATGAGGAGT
1814357 GTTCGCTACTGTGAACTGTCTTTTAATGCCTTCTTTCCTGCAAAAGTCATCAAATTCTTCGCTTG
1 GTTCGCTACTGTGAACTGTCTTTTAATGCCTTCTTTCCTGCAAAAGTCATCAAATTCTTCGCTTG
1814422 TGTATTCTCCTCCATTATCTGTTCTGAAACACTTGATCTTATTTCCAGAATCAAGTTCCACCCGT
66 TGTATTCTCCTCCATTATCTGTTCTGAAACACTTGATCTTATTTCCAGAATCAAGTTCCACCCGT
1814487 GCTTTGAAGTTTTTGAAAGTTGAAACACATCTGACTTCTCTTAATAGGGTACACCCA
131 GCTTTGAAGTTTTTGAAAGTTGAAACACATCTGACTTCTCTTAATAGGGTACACCCA
1814544 ACATCTCCTG
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 187 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (195 bp):
GTTCGCTACTGTGAACTGTCTTTTAATGCCTTCTTTCCTGCAAAAGTCATCAAATTCTTCGCTTG
TGTATTCTCCTCCATTATCTGTTCTGAAACACTTGATCTTATTTCCAGAATCAAGTTCCACCCGT
GCTTTGAAGTTTTTGAAAGTTGAAACACATCTGACTTCTCTTAATAGGGTACACCCATGAGGAGT
Found at i:1815299 original size:20 final size:20
Alignment explanation
Indices: 1815274--1815314 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1815264 GTGACCCTTC
1815274 TTTCCACAGTGGTAGCACTT
1 TTTCCACAGTGGTAGCACTT
1815294 TTTCCACAGTGGTAGCACTT
1 TTTCCACAGTGGTAGCACTT
1815314 T
1 T
1815315 AATTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (20 bp):
TTTCCACAGTGGTAGCACTT
Found at i:1818399 original size:23 final size:22
Alignment explanation
Indices: 1818371--1818434 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
1818361 ATAGAATTTT
1818371 AATCTTTACTTTCTTTAAATTA
1 AATCTTTACTTTCTTTAAATTA
* ** * *
1818393 ATTTCTTTGTTTTCTCTAGATTA
1 A-ATCTTTACTTTCTTTAAATTA
1818416 AATCTTTCACTTTCTTTAA
1 AATCTTT-ACTTTCTTTAA
1818435 TAACTTCTCA
Statistics
Matches: 30, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.25, C:0.16, G:0.03, T:0.56
Consensus pattern (22 bp):
AATCTTTACTTTCTTTAAATTA
Found at i:1819769 original size:18 final size:18
Alignment explanation
Indices: 1819746--1819787 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
1819736 CTGGGGCCAT
1819746 ATTCTTCTAAATTTCCAA
1 ATTCTTCTAAATTTCCAA
1819764 ATTCTTCTAAATTTCCAA
1 ATTCTTCTAAATTTCCAA
1819782 ATTCTT
1 ATTCTT
1819788 TGTATCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTCTTCTAAATTTCCAA
Found at i:1827397 original size:21 final size:22
Alignment explanation
Indices: 1827371--1827423 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1827361 TGATGTTCCC
1827371 TGGTATCGATAC-CCTTCACAT-
1 TGGTATCGATACTCCTTC-CATA
* *
1827392 TGGTATCGACACTCCTTCCTTA
1 TGGTATCGATACTCCTTCCATA
1827414 TGGTATCGAT
1 TGGTATCGAT
1827424 TCCTGTTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (22 bp):
TGGTATCGATACTCCTTCCATA
Found at i:1835503 original size:13 final size:13
Alignment explanation
Indices: 1835485--1835509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1835475 TTAATATATC
1835485 TTTTAAAATTATA
1 TTTTAAAATTATA
1835498 TTTTAAAATTAT
1 TTTTAAAATTAT
1835510 GAAAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATTATA
Found at i:1836043 original size:73 final size:73
Alignment explanation
Indices: 1835920--1836056 Score: 256
Period size: 73 Copynumber: 1.9 Consensus size: 73
1835910 TACCATTACT
* *
1835920 GAACCAGACTGCAGTATACGAATATCCAATAATAAGATGAGTAAATGAGTAGTGTGCATTCCTCG
1 GAACCAGACTGCAGTATACGAATATCCAATAATAAGATGAGTAAAGGAGTAGTGTACATTCCTCG
1835985 TTGAAGCA
66 TTGAAGCA
1835993 GAACCAGACTGCAGTATACGAATATCCAATAATAAGATGAGTAAAGGAGTAGTGTACATTCCTC
1 GAACCAGACTGCAGTATACGAATATCCAATAATAAGATGAGTAAAGGAGTAGTGTACATTCCTC
1836057 ACTAAAGCTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (73 bp):
GAACCAGACTGCAGTATACGAATATCCAATAATAAGATGAGTAAAGGAGTAGTGTACATTCCTCG
TTGAAGCA
Found at i:1838017 original size:17 final size:17
Alignment explanation
Indices: 1837995--1838050 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
1837985 TTTTTTTTAG
1837995 TTTAATAATATTATTAT
1 TTTAATAATATTATTAT
*
1838012 TTTAATAAGTAATTAATAT
1 TTTAATAA-T-ATTATTAT
*
1838031 ACTTAATAATA-TATTAT
1 -TTTAATAATATTATTAT
1838048 TTT
1 TTT
1838051 TATTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 2 0.06
17 13 0.41
18 2 0.06
19 8 0.25
20 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAATAATATTATTAT
Found at i:1838057 original size:42 final size:42
Alignment explanation
Indices: 1838003--1838092 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
1837993 AGTTTAATAA
* * *
1838003 TATTATTATTTTAATAAGTAATTAATATACTTAATAATA-TAT
1 TATTTTTATTTTAATAAATAATTAATATAATT-ATAATATTAT
* *
1838045 TATTTTTATTTTAATAAATATTTAATATAATTATAATATTTT
1 TATTTTTATTTTAATAAATAATTAATATAATTATAATATTAT
1838087 TATTTT
1 TATTTT
1838093 AATAAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 6 0.14
42 36 0.86
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (42 bp):
TATTTTTATTTTAATAAATAATTAATATAATTATAATATTAT
Found at i:1838085 original size:36 final size:33
Alignment explanation
Indices: 1838035--1838124 Score: 119
Period size: 36 Copynumber: 2.6 Consensus size: 33
1838025 TAATATACTT
* *
1838035 AATAATATATTATTTTTATTTTAATAAATATTTA
1 AATAATATAATATTTTTATTTTAATAAA-ATATA
1838069 ATATAATTATAATATTTTTATTTTAATAAAATATA
1 A-ATAA-TATAATATTTTTATTTTAATAAAATATA
1838104 AA-AATATTAATATTTTTATTT
1 AATAATA-TAATATTTTTATTT
1838125 AAAGTTGTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
32 2 0.04
33 16 0.31
34 2 0.04
35 9 0.18
36 22 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
AATAATATAATATTTTTATTTTAATAAAATATA
Found at i:1841612 original size:171 final size:174
Alignment explanation
Indices: 1841325--1841669 Score: 660
Period size: 171 Copynumber: 2.0 Consensus size: 174
1841315 GGAGCCACGT
1841325 GTAATTGTAGGTGGACACATGTTCACTTTGAAATCTTTTTTCTGTTAATTCATTTTTTTATTGAT
1 GTAATTGTAGGTGGACACATGTTCACTTTGAAATCTTTTTTCTGTTAATTCATTTTTTTATTGAT
1841390 GGTGTATATGCTGAAATTTTATTTGTGCAACTTTATTCAAAAAATTTGTGTTGTTAACCTATGTG
66 GGTGTATATGCTGAAATTTTATTTGTGCAACTTTATTCAAAAAATTTGTGTTGTTAACCTATGTG
1841455 TATCCTTTCTAAAAAATA-TTCTGGTCTTTCACCATGGCTGCTG
131 TATCCTTTCTAAAAAATATTTCTGGTCTTTCACCATGGCTGCTG
1841498 GTAATTGTAGGTGGAC-CATGTTCACTTTGAAATC-TTTTTCTGTTAATTCATTTTTTTATTGAT
1 GTAATTGTAGGTGGACACATGTTCACTTTGAAATCTTTTTTCTGTTAATTCATTTTTTTATTGAT
1841561 GGTGTATATGCTGAAATTTTATTTGTGCAACTTTATTCAAAAAATTTGTGTTGTTAACCTATGTG
66 GGTGTATATGCTGAAATTTTATTTGTGCAACTTTATTCAAAAAATTTGTGTTGTTAACCTATGTG
*
1841626 TATCCTTTCTAAAAAATATTTCTGGTCTTTCACCATGTCTGCTG
131 TATCCTTTCTAAAAAATATTTCTGGTCTTTCACCATGGCTGCTG
1841670 CATTGTTACA
Statistics
Matches: 170, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
171 112 0.66
172 42 0.25
173 16 0.09
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (174 bp):
GTAATTGTAGGTGGACACATGTTCACTTTGAAATCTTTTTTCTGTTAATTCATTTTTTTATTGAT
GGTGTATATGCTGAAATTTTATTTGTGCAACTTTATTCAAAAAATTTGTGTTGTTAACCTATGTG
TATCCTTTCTAAAAAATATTTCTGGTCTTTCACCATGGCTGCTG
Found at i:1847067 original size:28 final size:28
Alignment explanation
Indices: 1847020--1847073 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1847010 TTTTATTAAC
* * *
1847020 ATATGAATGTGTTCTATGAAAGTGCTTT
1 ATATGAATGTGCTATATGAAAATGCTTT
*
1847048 ATATGAATGTGCTATGTGAAAATGCT
1 ATATGAATGTGCTATATGAAAATGCT
1847074 ATGCGAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (28 bp):
ATATGAATGTGCTATATGAAAATGCTTT
Found at i:1847233 original size:24 final size:24
Alignment explanation
Indices: 1847201--1847268 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
1847191 GTCGAGGGTT
*
1847201 TACGCGGTCCTTCGGGACAATTTC
1 TACGCGGTCCTTCGGGACAAGTTC
* *
1847225 TACGTGGTCCTTCGGGATAAGTTC
1 TACGCGGTCCTTCGGGACAAGTTC
*
1847249 TACGCGGTTCTTCGGGACAA
1 TACGCGGTCCTTCGGGACAA
1847269 ACCTATGTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.29
Consensus pattern (24 bp):
TACGCGGTCCTTCGGGACAAGTTC
Found at i:1847678 original size:40 final size:40
Alignment explanation
Indices: 1847634--1847715 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
1847624 GATTAGTTTG
1847634 TAAACAGACTATTTTACATTTATGTAAATTATCAAGTATT
1 TAAACAGACTATTTTACATTTATGTAAATTATCAAGTATT
1847674 TAAACAGACTATTTTACATTTATGTAAATTATCAAGTATT
1 TAAACAGACTATTTTACATTTATGTAAATTATCAAGTATT
1847714 TA
1 TA
1847716 TTGTCATTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (40 bp):
TAAACAGACTATTTTACATTTATGTAAATTATCAAGTATT
Found at i:1847835 original size:16 final size:17
Alignment explanation
Indices: 1847803--1847835 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1847793 ATTTTCAATG
1847803 AGTTTTAAAAGAGTCAA
1 AGTTTTAAAAGAGTCAA
*
1847820 AGTTTTGAAA-AGTCAA
1 AGTTTTAAAAGAGTCAA
1847836 TATGACACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
AGTTTTAAAAGAGTCAA
Found at i:1848422 original size:42 final size:41
Alignment explanation
Indices: 1848371--1848465 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
1848361 GTATAAATGA
* * *
1848371 GATTGAAAAAACTTAGGGCCTCAATTAT-AA-GTTAAAAAGTAG
1 GATT-AAAAAAATTAGGG--TCAATTATAAAGGTAAAAAAATAG
* *
1848413 GATTAAAAAAATTATGGTTAATTATAAAGGTAAAAAAATAG
1 GATTAAAAAAATTAGGGTCAATTATAAAGGTAAAAAAATAG
1848454 GATTAAAAAAAT
1 GATTAAAAAAAT
1848466 AGAGACTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 7 0.15
40 2 0.04
41 33 0.72
42 4 0.09
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (41 bp):
GATTAAAAAAATTAGGGTCAATTATAAAGGTAAAAAAATAG
Found at i:1848533 original size:43 final size:43
Alignment explanation
Indices: 1848432--1848533 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
1848422 AATTATGGTT
* *
1848432 AATTATAAAGGTAAAAAAATAGGATTAAAAAAATAGAGACTTC
1 AATTATAAAGGTAAAAAAATAGCATTAAAAAAATAGAAACTTC
* * * *
1848475 AACTATCAAGATAAAAAAGTTA-CATTGAAAAAAATTAGAAAC-TC
1 AATTATAAAGGTAAAAAA-ATAGCATT-AAAAAAA-TAGAAACTTC
1848519 -ATTATAAAGGTAAAA
1 AATTATAAAGGTAAAA
1848534 GATAAATTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
43 30 0.64
44 11 0.23
45 6 0.13
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.24
Consensus pattern (43 bp):
AATTATAAAGGTAAAAAAATAGCATTAAAAAAATAGAAACTTC
Found at i:1849213 original size:176 final size:178
Alignment explanation
Indices: 1848921--1849743 Score: 1057
Period size: 175 Copynumber: 4.7 Consensus size: 178
1848911 TGTCGGTTTA
* * *
1848921 TGTCGATACTTTATAA-AACTGTATCGATTCACATC-ATAACATGTAAAAATATGACAAAA-CGG
1 TGTCGATACTTTATAACAA-TGTATCGATCCACAACGATAACAGGT-AAAATATGACAAAACCGG
* *
1848983 TCTCGAAAAGACAAAACCGGTA-A-AGCGGTACCGG--ATATTGAAAGTGTCGATACTTTAATAT
64 TCTCTAAAGGACAAAACC-GTATAGAGC-G-ACCGGATATATTGAAAGTGTCGATACTTTAATAT
*
1849044 AAGTATCGCCACTTTGTGAATTT-AAAGAG-AGCAGTTTTAGCGCCTATAAAG
126 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
1849095 TGTCGATACTTTATAACAATGTATCGATCCACAACGATAACAGGTAAAAATATGACAAAACCGGT
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATAACAGGT-AAAATATGACAAAACCGGT
* *
1849160 CTCTAAAGGACAAAACCGTATAGAACGACCGGATATATT-TAAGTGTCGATACTTTAATATAAGT
65 CTCTAAAGGACAAAACCGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGT
*
1849224 ATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCACCTATAAAG
130 ATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
1849273 TGTTGATACTTTATAACAATGTATCGATCCACGA-TATAA-AGGTAAAATATGACAAAACCAGTC
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATAACAGGTAAAATATGACAAAACCGGTC
* * * *
1849336 TCTAAAGGCCAAAACTGGTATAGAGCGACTGAATATATTGAAAGTGTCGATAC-TT--TATAAGT
66 TCTAAAGGACAAAAC-CGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGT
1849398 ATCGACAC-TTGTGAATTTAAAAGA-AAGCAGTTTTAGCGCCTATAAAG
130 ATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
*
1849445 TGTCGATACTTTATAACAATGTATCGATCC-CAACGATATAACAGTTAAAATATGACAAAACCGG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACG--ATAACAGGTAAAATATGACAAAACCGG
* * * * *
1849509 TCTCTAAAGGACAAAACTGTTATAGAGTGACTGAATATATTGAAAGTGTCGATACTTCAATATAA
64 TCTCTAAAGGACAAAACCG-TATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAA
* * *
1849574 GTATTGACACTTTGTG-ATTTAAAAGAGAAACAG-TTTAGCGCCAATAAAG
128 GTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
1849623 TGTCGATA-TTT-TAAAAATGTTTCGATCCATAACGATATAACAGGTAAAATATGACAAAACCGG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACG--ATAACAGGTAAAATATGACAAAACCGG
* * *
1849686 TCTC-AAATGACAAAACCGGTA-AAACGCTACC-GATATATTGAAAGTGTCGATACTTTAA
64 TCTCTAAAGGACAAAACC-GTATAGA-GCGACCGGATATATTGAAAGTGTCGATACTTTAA
1849744 AGTACGCGTA
Statistics
Matches: 581, Mismatches: 44, Indels: 47
0.86 0.07 0.07
Matches are distributed among these distances:
171 2 0.00
172 51 0.09
173 16 0.03
174 50 0.09
175 163 0.28
176 120 0.21
177 69 0.12
178 100 0.17
179 10 0.02
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (178 bp):
TGTCGATACTTTATAACAATGTATCGATCCACAACGATAACAGGTAAAATATGACAAAACCGGTC
TCTAAAGGACAAAACCGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTA
TCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:1852004 original size:15 final size:15
Alignment explanation
Indices: 1851984--1852015 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1851974 GATTGTATTG
1851984 GGGGGATGACAGTGA
1 GGGGGATGACAGTGA
*
1851999 GGGGGATGACGGTGA
1 GGGGGATGACAGTGA
1852014 GG
1 GG
1852016 AAAAACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.59, T:0.12
Consensus pattern (15 bp):
GGGGGATGACAGTGA
Found at i:1852120 original size:21 final size:21
Alignment explanation
Indices: 1852096--1852139 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1852086 AAGACAATCA
1852096 AGAGTCAAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
* *
1852117 AGAGTCGAAGAGACACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
1852138 AG
1 AG
1852140 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:1852210 original size:33 final size:33
Alignment explanation
Indices: 1852173--1852239 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
1852163 AAATAGATGG
1852173 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1852206 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1852239 A
1 A
1852240 CTTAAGATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
Found at i:1852447 original size:18 final size:18
Alignment explanation
Indices: 1852421--1852485 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
1852411 TGAAAAATAT
*
1852421 GAAGGAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1852439 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
1852457 GAATAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1852475 GAAGAAGAAAA
1 GAAGAAGAAAA
1852486 TATAGAGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.06
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:1854992 original size:191 final size:193
Alignment explanation
Indices: 1854346--1855404 Score: 994
Period size: 190 Copynumber: 5.6 Consensus size: 193
1854336 GTAAGCAGAT
* *
1854346 GTGTCGATACATTTATAAAAAGTATCGATCCCA-AAATATCGAAACCC-TAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAG-ATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
1854409 GGTAATTTGTAATATAACCGGTATAAATATCGGTTTTATAT-AGAATATGTCTAC--AATGTATC
65 GGTAATTTGTAATGTAACCGGTATAAATACCGG-TTTATGTGAGAATATGTCTACATAATGTAT-
* * *
1854471 CG---CTTTTGAAATTG-GT-GTTACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATA
128 CGAAAC-TTTGAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCCATA
1854531 AA
192 AA
** * *
1854533 GTGTAAATACA-TTTAAAAAAGTATCGAT--CAGAAATATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAG-ATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
** * ** * *
1854594 GGTAAATTTACAATGTAACTGAAATAACTATACCGGTTT-TATAAGAAATATGTCTACATAATGT
65 GGT-AATTTGTAATGTAACCGGTATAA--ATACCGGTTTATGTGAG-AATATGTCTACATAATGT
* * *
1854658 ATC-AACACTTATGTAATT-T-TCGATA--TTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCC
126 ATCGAA-ACTT-TGAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCC
1854718 ATAAA
189 ATAAA
* * *
1854723 GTGTCGATACAGTTTTT-AAAAGTATCGATCACAGAGACATCGAAATCCATAATTATAA--TAAT
1 GTGTCGATACA-TTTTTAAAAAG-ATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * *
1854785 AGGTATTTTGTAATGTAACCGGTATAAATACTGGTTTATGTGAGAATAGGTCTACATAATGTATC
64 AGGTAATTTGTAATGTAACCGGTATAAATACCGGTTTATGTGAGAATATGTCTACATAATGTATC
* *
1854850 GAAACATTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCAT-
129 GAAAC-TTTGAAATT-GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCCATA
1854914 AA
192 AA
* *
1854916 GTGTTGATACATTTTTAAAAAG-TCGAT-CCAGAGACATCG-AACCCATAATTATAATGTAATAG
1 GTGTCGATACATTTTTAAAAAGATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
* * *
1854978 GTATTTTGTAATGTAACCGGTATAATATACCGTTTTATGTGAGAATATGTCTACAAAATG--TCG
66 GTAATTTGTAATGTAACCGGTATAA-ATACCGGTTTATGTGAGAATATGTCTACATAATGTATCG
* ** * * * * *
1855041 ATACTTTTTAATTATGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAACGGTG--CACATA
130 AAACTTTGAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAAGGGTGAACCCATA
1855104 AA
192 AA
* * * * *
1855106 GTATTGATACATTTAT-AAAAGTATCAATCCCAGAAACATCGAAACCCATGATTATAAT-TAATA
1 GTGTCGATACATTTTTAAAAAG-ATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
1855169 GGAAATTTTTCAATGTAACC-GTATAAATACCGGTTTTAT-CGAGAATA-GTCTAGAAAATGTAT
65 GGTAATTTGT-AATGTAACCGGTATAAATACCGG-TTTATGTGAGAATATGTCTACATAATGTAT
* * * *
1855231 CGACACTTCTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG--C-AAAGGGTGCACCCATT
128 CGAAACTT-TGAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCCATA
1855293 AA
192 AA
* * ***
1855295 GTGTCGATACATTTTTAAAAA-ATGTCGATCCCAAAAACATTGAAACTGGTAATTATAATGTAAT
1 GTGTCGATACATTTTTAAAAAGA--TCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
** * * *
1855359 AGGTAAATTTCCAATGTAACCGATATAAATACCTGTTT-TATGAGAA
64 AGGT-AATTTGTAATGTAACCGGTATAAATACCGGTTTATGTGAGAA
1855405 ACAGGTCAGC
Statistics
Matches: 727, Mismatches: 90, Indels: 106
0.79 0.10 0.11
Matches are distributed among these distances:
184 7 0.01
185 27 0.04
186 35 0.05
187 21 0.03
188 47 0.06
189 87 0.12
190 137 0.19
191 119 0.16
192 120 0.17
193 80 0.11
194 47 0.06
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (193 bp):
GTGTCGATACATTTTTAAAAAGATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
GTAATTTGTAATGTAACCGGTATAAATACCGGTTTATGTGAGAATATGTCTACATAATGTATCGA
AACTTTGAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCCATAAA
Found at i:1858246 original size:24 final size:24
Alignment explanation
Indices: 1858219--1858265 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1858209 TTTCATATGT
* *
1858219 AATTGGAGTTTGAATTTAAATTTC
1 AATTGGAGTTTCAATATAAATTTC
*
1858243 AATTTGAGTTTCAATATAAATTT
1 AATTGGAGTTTCAATATAAATTT
1858266 TGACTCCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTGGAGTTTCAATATAAATTTC
Found at i:1860201 original size:399 final size:398
Alignment explanation
Indices: 1859598--1860534 Score: 1244
Period size: 399 Copynumber: 2.3 Consensus size: 398
1859588 TAAAGTTTCC
* * **
1859598 CATAAAGTGTCGATACATGTT-TAAAAAGTATCGATCCCAAAAACATCGAAACAGAAAACAATAA
1 CATAAAGTGTCGATACAT-TTAT-AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * *
1859662 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACC-ATTTT-TTAGAAACTAGATATAC
64 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAA-TAGGTCTAC
* * * *
1859725 ATTATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGTGG
128 ATAATGTATCGACACTAGTGGAATTTGTGTCAATACTTTTTGTCCAAAATGAATGCCAAAAGTGG
*
1859790 TGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCACAAAAACATCGAAACCTATAAT
193 TGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCACAAAAACATCGAAACCGATAAT
* ** * * *
1859855 TATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGG
258 TATAATGTAATAGGTAAATTTACAATATAACCGGCATAAATATACCGGTTTTATGAGAAAATAGG
* * * * *
1859920 TCTATATAATGTGTCGACAT-TTTT-GAATTT-TGTATCGATACTTTTTGTCCAGAATGATTGCC
323 TCAACATAATGTATCGACATGTTTTAG-ATTTGTGT-T-GATACATTTTGTCCAGAATGAATG-C
*
1859982 CAAA-ATGGTGAACG
384 CAAACAGGGTGAACG
** * *
1859996 CATAAAGTGTCGATACATTTATAAAAGTATCGATCATAGAAACATCGAAACCCATAATTATAATG
1 CATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
*
1860061 TAATAGGTAAATTTACAATGTAACCGGTATAACTATACCGATTTTATGAGATAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA-AATAGGTCTACAT
1860126 AATGTATCGACACTAGTGGAATTTGTGTCAATACTTTTTGTCCAAAATGAATGCCAAAAG-GGTT
130 AATGTATCGACACTAGTGGAATTTGTGTCAATACTTTTTGTCCAAAATGAATGCCAAAAGTGG-T
* * * *
1860190 GTATGCATAAAGTGTCGATACATTTTTAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATT
194 GCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCACAAAAACATCGAAACCGATAATT
* * *
1860255 ATAATGTAATAGGTAAATTTACAATGTAACCGGCATAAATTTACTGGTTTTATGAGAAAATAGGT
259 ATAATGTAATAGGTAAATTTACAATATAACCGGCATAAATATACCGGTTTTATGAGAAAATAGGT
*
1860320 GAACATAATGTATCGACATGTTTTAGATTTGTGTTGATACATTTTGTCCAGAATGAATGCCAAAC
324 CAACATAATGTATCGACATGTTTTAGATTTGTGTTGATACATTTTGTCCAGAATGAATGCCAAAC
* * *
1860385 GGGGTGCAGG
389 AGGGTGAACG
* * ** * *
1860395 CACAAAGTGTCGAAACATTTGA-AATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAAC
1 CATAAAGTGTCGATACATTT-ATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * * *
1860459 ATAATAGGTAAATTTAAAACGTAACGGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA-AATAGGTCTACA
1860524 TAATGTATCGA
129 TAATGTATCGA
1860535 TATTTTTAAA
Statistics
Matches: 471, Mismatches: 58, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
397 75 0.16
398 31 0.07
399 349 0.74
400 12 0.03
401 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (398 bp):
CATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAATAGGTCTACATA
ATGTATCGACACTAGTGGAATTTGTGTCAATACTTTTTGTCCAAAATGAATGCCAAAAGTGGTGC
ACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCACAAAAACATCGAAACCGATAATTAT
AATGTAATAGGTAAATTTACAATATAACCGGCATAAATATACCGGTTTTATGAGAAAATAGGTCA
ACATAATGTATCGACATGTTTTAGATTTGTGTTGATACATTTTGTCCAGAATGAATGCCAAACAG
GGTGAACG
Found at i:1860308 original size:200 final size:198
Alignment explanation
Indices: 1859598--1860562 Score: 1177
Period size: 199 Copynumber: 4.9 Consensus size: 198
1859588 TAAAGTTTCC
* * * **
1859598 CATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACAGAAAACAATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * *
1859663 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACC-ATTTT-TTAGA-AACTAGATATAC
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAA-TAGGTCTAC
* *
1859725 ATTATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGTGG
130 ATAATGTATCGACA-TTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAG-GG
1859790 TGCACG
193 TGCACG
* *
1859796 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCACAAAAACATCGAAACCTATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* ** * * *
1859861 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTATA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA
* * * * * * *
1859926 TAATGTGTCGACATTTTTGAATTTTGTATCGATACTTTTTGTCCAGAATGATTGCCCAAAATGGT
131 TAATGTATCGACATTGTGGAA-TTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGGGT
*
1859991 GAACG
194 GCACG
* ** * *
1859996 CATAAAGTGTCGATACATTTAT-AAAAGTATCGATCATAGAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * *
1860060 GTAATAGGTAAATTTACAATGTAACCGGTATAACTATACCGATTTTATGAGATAATAGGTCTACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA
* *
1860125 TAATGTATCGACACTAGTGGAATTTGTGTCAATACTTTTTGTCCAAAATGAATGCCAAAAGGGTT
131 TAATGTATCGACA-TTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGG-T
* *
1860190 GTATG
194 GCACG
*
1860195 CATAAAGTGTCGATACATTTTTAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * **
1860260 GTAATAGGTAAATTTACAATGTAACCGGCATAAATTTACTGGTTTTATGAGAAAATAGGTGAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA
** * * * *
1860325 TAATGTATCGACA-TGTTTTAGATTTGTGTTGATACATTTTGTCCAGAATGAATGCCAAACGGGG
131 TAATGTATCGACATTG-TGGA-ATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAA-AGGG
*
1860389 TGCAGG
193 TGCACG
* * * ** * *
1860395 CACAAAGTGTCGAAACA-TTTGAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAAC
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * *
1860459 ATAATAGGTAAATTTAAAACGTAACGGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA
* * **
1860524 TAATGTATCGATATTTTTAAATTTGTGTCGATACTTTTT
131 TAATGTATCGACATTGTGGAATTTGTGTCGATACTTTTT
1860563 AAATAACGCG
Statistics
Matches: 658, Mismatches: 97, Indels: 24
0.84 0.12 0.03
Matches are distributed among these distances:
198 120 0.18
199 284 0.43
200 244 0.37
201 10 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA
TAATGTATCGACATTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTGC
ACG
Found at i:1862165 original size:19 final size:19
Alignment explanation
Indices: 1862141--1862189 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
1862131 AATGTAGGGT
*
1862141 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTCA
** *
1862160 TAATTTTACATACGATTCA
1 TAATTTTGTATAAGATTCA
1862179 TAATTTTGTAT
1 TAATTTTGTAT
1862190 GTGACTGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (19 bp):
TAATTTTGTATAAGATTCA
Found at i:1865050 original size:200 final size:200
Alignment explanation
Indices: 1864666--1865367 Score: 787
Period size: 199 Copynumber: 3.5 Consensus size: 200
1864656 ACCTAAATAT
* *
1864666 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAC
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAA
* * * * * *
1864729 TAAGTAAATTAACAATGTAACTGGTATAAATATATCG-GTTAATTAGAAAA-CGGATCAACATAA
65 TAAGTAAATTTACAATGTAACCGGTATAAATATATCGATTTTATAAGAAAATAGGATC-ACATAA
* **
1864792 TGTATCAACACTTGTGCAATTTGTGTCGATACTTATTGTCCAGAATGAATGTTCAAACGAGGTGC
129 TGTATCGACACTTGTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATG-TCAAACGAGGTGC
1864857 ACGCATAAA
192 ACGCATAAA
* *
1864866 GTGTCGATAAATTTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
1864930 ATGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATAAGAAAATAGG-TCAGCATAAA
66 AAGTAAATTTACAATGTAACCGGTATAAATATATCGATTTTATAAGAAAATAGGATCA-CATAAT
*
1864994 GTATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGTCAAACG-GGTGCAC
130 GTATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGTCAAACGAGGTGCAC
*
1865058 GTATAAA
194 GCATAAA
* ** ** * * *
1865065 GTGTCAATACATTTATTAAAAGTATCGATATC-AAAAACATCGAAAGTGATAATTACAATATGAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * * * * * *
1865129 AAGTAAATTTACAATGTATCTGATAGAAATATATCGGTTTTATGATAAAATAGGTTTAAATAATG
66 AAGTAAATTTACAATGTAACCGGTATAAATATATCGATTTTATAAGAAAATAGGATCACATAATG
* * * * * *
1865194 TATTGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCACGC
131 TATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGTCAAACGAGGTGCACGC
1865259 ATAAA
196 ATAAA
* ** ***
1865264 GTTTCGATACATTTCA--AATTGTATCGATTAAAAAAAACA-CTGAAACCGATAATTATAATGTA
1 GTGTCGATACATTT-ATTAAAAGTATCGATCCCAAAAAACATC-GAAACCGATAATTATAATGTA
* * * *
1865326 ATAGGTAAATTTACAATATTACCTGTATAAATATATCGATTT
64 ATAAGTAAATTTACAATGTAACCGGTATAAATATATCGATTT
1865368 ACTTATAAAA
Statistics
Matches: 421, Mismatches: 69, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
198 36 0.09
199 220 0.52
200 92 0.22
201 69 0.16
202 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
AAGTAAATTTACAATGTAACCGGTATAAATATATCGATTTTATAAGAAAATAGGATCACATAATG
TATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGTCAAACGAGGTGCACGC
ATAAA
Found at i:1866831 original size:18 final size:18
Alignment explanation
Indices: 1866808--1866862 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
1866798 AGATCCGGAC
*
1866808 GAGGCGGTTATGGTGGAG
1 GAGGCGGTTACGGTGGAG
* *
1866826 GAGGCGGTTACGGTAGCG
1 GAGGCGGTTACGGTGGAG
*
1866844 GCGGCGGTTACGGTGGAG
1 GAGGCGGTTACGGTGGAG
1866862 G
1 G
1866863 TGGATCTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.15, C:0.13, G:0.55, T:0.18
Consensus pattern (18 bp):
GAGGCGGTTACGGTGGAG
Found at i:1868230 original size:23 final size:23
Alignment explanation
Indices: 1868196--1868239 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1868186 TTAAAGTATA
1868196 TTTTATTATATTTAAAATTTTGT
1 TTTTATTATATTTAAAATTTTGT
*
1868219 TTTTAATT-TATTTAATATTTT
1 TTTT-ATTATATTTAAAATTTT
1868240 ATTTAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTATTATATTTAAAATTTTGT
Found at i:1871119 original size:47 final size:48
Alignment explanation
Indices: 1871021--1871204 Score: 239
Period size: 47 Copynumber: 3.9 Consensus size: 48
1871011 TTCTCTTAAG
*
1871021 AGGTATATAATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
* ** *
1871069 AGGTGTATGATTGATCATGAAATATATTTGA-TACTATTTGTGAGTTT
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
* *
1871116 AGGTCTATGATTGACCATGAAATATATTCCATTACTATTGGTGAG--T
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
* * * * *
1871162 AGGTATTTGATTGATAATGAAATATGTTCCAATCCTATTGGTG
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTG
1871205 GGGTGAAACG
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 37 0.31
47 42 0.36
48 39 0.33
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (48 bp):
AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
Found at i:1872320 original size:3 final size:3
Alignment explanation
Indices: 1872312--1872368 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
1872302 TTTTACTTAA
* *
1872312 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATTT ATAT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T AT-T ATT
1872360 ATT ATT ATT
1 ATT ATT ATT
1872369 TAATAAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 38 0.79
4 10 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1872344 original size:24 final size:23
Alignment explanation
Indices: 1872312--1872380 Score: 97
Period size: 22 Copynumber: 3.0 Consensus size: 23
1872302 TTTTACTTAA
1872312 ATTATTATTATTATTATAAATATT
1 ATTATTATTATT-TTATAAATATT
*
1872336 ATTATTATTA-TTTATATATA-T
1 ATTATTATTATTTTATAAATATT
*
1872357 ATTATTATTATTTAATAAATATT
1 ATTATTATTATTTTATAAATATT
1872380 A
1 A
1872381 CAAACCTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 11 0.28
22 16 0.40
23 3 0.08
24 10 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATTATTATTTTATAAATATT
Found at i:1874074 original size:113 final size:109
Alignment explanation
Indices: 1873837--1874074 Score: 244
Period size: 113 Copynumber: 2.1 Consensus size: 109
1873827 ATTATGTTTT
* * * * * *
1873837 AATATATATTTATTTATTTTTTAATATTAAGAAATGACAGTCTTAAAATAACTGGATGTCTATTT
1 AATATATTTTTATTTATTTTTTAATATGAAGAAAAGACAGTCTTAAAACAACTAGAAGTCTATTT
* *
1873902 TCTGATATTTTTAAATAAATAAATATCTTATTGTTTTAAAATTA
66 TCTGATATTTCTAAATAAATAAATATCTTATTATTTTAAAATTA
* * ** *
1873946 TATATTAATTGTTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTC
1 AATA-T-ATT-TTTATTTATTTTTTAATAT-GAAGAAAAGA-CAGTCTTAAAACAACTAGAAGTC
* * * *
1874011 -CTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATATTTTATATATA
61 TATTTTCTGATATTTCTAAATAAATAAATATCTTA-TTAT-TTTAAAAT-TA
1874062 AATATATTTTTAT
1 AATATATTTTTAT
1874075 ATAATTATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
109 3 0.03
110 1 0.01
111 2 0.02
112 19 0.18
113 44 0.43
114 22 0.21
115 7 0.07
116 5 0.05
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (109 bp):
AATATATTTTTATTTATTTTTTAATATGAAGAAAAGACAGTCTTAAAACAACTAGAAGTCTATTT
TCTGATATTTCTAAATAAATAAATATCTTATTATTTTAAAATTA
Found at i:1874077 original size:16 final size:17
Alignment explanation
Indices: 1874047--1874083 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1874037 ATATTTTATT
1874047 TATATTTTATATATAAA
1 TATATTTTATATATAAA
*
1874064 TATATTTT-TATATAAT
1 TATATTTTATATATAAA
1874080 TATA
1 TATA
1874084 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:1874082 original size:26 final size:26
Alignment explanation
Indices: 1874033--1874083 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1874023 TTCTAAATAA
* *
1874033 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATATTATTTATATATTATAT
1874059 ATAAATATATT-TTTATATAATTATA
1 ATAAATATATTATTTATAT-ATTATA
1874084 ACTTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAAATATATTATTTATATATTATAT
Found at i:1881735 original size:114 final size:114
Alignment explanation
Indices: 1881535--1881752 Score: 339
Period size: 114 Copynumber: 1.9 Consensus size: 114
1881525 TGTTCTCGTA
* * *
1881535 GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAATTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
* * *
1881600 TATGAACCCCAAAACCAATCATTGGATTTGA-AAGATGAATTTGCTCATG
66 TAGGAACCACAAAACCAATCATTGGAATT-ATAAGATGAATTTGCTCATG
* *
1881649 GTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
1 GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
*
1881714 TAGGAACCACAGAACCAATCATTGGAATTATAAGATGAA
66 TAGGAACCACAAAACCAATCATTGGAATTATAAGATGAA
1881753 CTGCATGATC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
113 1 0.01
114 93 0.99
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (114 bp):
GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
TAGGAACCACAAAACCAATCATTGGAATTATAAGATGAATTTGCTCATG
Found at i:1884100 original size:22 final size:22
Alignment explanation
Indices: 1884071--1884125 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1884061 ATCTACACTC
*
1884071 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
1884093 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
1884115 TTCAAAGATGA
1 TTCAAAGATGA
1884126 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:1884886 original size:76 final size:76
Alignment explanation
Indices: 1884804--1885779 Score: 1631
Period size: 76 Copynumber: 12.9 Consensus size: 76
1884794 CTATTTCCCA
*
1884804 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1884869 AGCCTTCGGGT
66 AGCCTTCGGGT
1884880 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1884945 AGCCTTCGGGT
66 AGCCTTCGGGT
1884956 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1885021 AGCCTTCGGGT
66 AGCCTTCGGGT
1885032 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1885097 AGCCTTCAGGT
66 AGCCTTCGGGT
1885108 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1885173 AGCCTTAGGGT
66 AGCCTTCGGGT
*
1885184 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
1885249 AACCTTAGGGT
66 AGCCTTCGGGT
* * *
1885260 CATCTGCAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGTTTTTTTGATG-TTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG-CTTTTTGATGTTTTCA
*
1885324 AAGCCTTAGGGT
65 AAGCCTTCGGGT
*
1885336 CATTTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1885400 AGCCTTAGGGT
66 AGCCTTCGGGT
* *
1885411 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1885476 A-CCCTCAGGGT
66 AGCCTTC-GGGT
*
1885487 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1885551 AGCCTTAGGGT
66 AGCCTTCGGGT
* *
1885562 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1885627 A-CCCTCAGGGT
66 AGCCTTC-GGGT
* * *
1885638 CATCTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1885703 A-CCCTCAGGGT
66 AGCCTTC-GGGT
* * *
1885714 CATTTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1885779 A
66 A
1885780 CCCTCAGGAT
Statistics
Matches: 863, Mismatches: 31, Indels: 12
0.95 0.03 0.01
Matches are distributed among these distances:
75 155 0.18
76 699 0.81
77 9 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:1885955 original size:20 final size:20
Alignment explanation
Indices: 1885926--1886015 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
1885916 CTGTAGACAC
*
1885926 TAATTTTTATT-TTACTTAAA
1 TAATTATTATTATTA-TTAAA
1885946 TAATTATTATTATTA-TAAA
1 TAATTATTATTATTATTAAA
*
1885965 T-ATTATTATTATTATTTATA
1 TAATTATTATTATTA-TTAAA
*
1885985 TATATATATTATTATTATTTAA
1 TA-AT-TATTATTATTATTAAA
*
1886007 TAAATATTA
1 TAATTATTA
1886016 CAAATCCAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
18 13 0.22
19 5 0.08
20 19 0.32
21 4 0.07
22 7 0.12
23 11 0.19
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
TAATTATTATTATTATTAAA
Found at i:1885956 original size:3 final size:3
Alignment explanation
Indices: 1885948--1886003 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
1885938 TACTTAAATA
* *
1885948 ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT -TAT ATAT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T AT-T ATT
1885995 ATT ATT ATT
1 ATT ATT ATT
1886004 TAATAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 37 0.79
4 9 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1885971 original size:18 final size:18
Alignment explanation
Indices: 1885942--1885999 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
1885932 TTATTTTACT
1885942 TAAATAATTATTATTATTA
1 TAAAT-ATTATTATTATTA
1885961 TAAATATTATTATTATTA
1 TAAATATTATTATTATTA
**
1885979 TTTATATATATATATTATTA
1 TAAATAT-TAT-TATTATTA
1885999 T
1 T
1886000 TATTTAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 18 0.51
19 8 0.23
20 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAATATTATTATTATTA
Found at i:1886013 original size:26 final size:23
Alignment explanation
Indices: 1885948--1886015 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 23
1885938 TACTTAAATA
1885948 ATTATTATTA-TTATAA-ATATT
1 ATTATTATTATTTATAATATATT
1885969 ATTATTATTATTTAT-ATATATAT
1 ATTATTATTATTTATAATATAT-T
1885992 ATTATTATTATTTAATAA-ATATT
1 ATTATTATTATTT-ATAATATATT
1886015 A
1 A
1886016 CAAATCCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.26
22 8 0.19
23 16 0.38
24 6 0.14
25 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTATTATTATTTATAATATATT
Found at i:1887479 original size:24 final size:26
Alignment explanation
Indices: 1887431--1887479 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1887421 TTCTAAATAA
* *
1887431 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATATTATTTATATTATATAT
1887457 ATAAATATATT-TTT-TATTATATA
1 ATAAATATATTATTTATATTATATA
1887480 ATTATAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
ATAAATATATTATTTATATTATATAT
Found at i:1887485 original size:26 final size:26
Alignment explanation
Indices: 1887426--1887486 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
1887416 GATATTTCTA
* *
1887426 AATAAATAAATATTTTATTTATATTT
1 AATATATAAATATTTTATTTATATAT
*
1887452 TATATATAAATATATTT-TTTATTATAT
1 AATATATAAATAT-TTTATTTA-TATAT
1887479 AAT-TATAA
1 AATATATAA
1887487 CTTTGAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AATATATAAATATTTTATTTATATAT
Found at i:1887485 original size:30 final size:30
Alignment explanation
Indices: 1887427--1887485 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1887417 ATATTTCTAA
*
1887427 ATAAATAAATATTTTATTTATATTTTATAT
1 ATAAATAAATATTTTATTTATATATTATAT
* *
1887457 ATAAATATATTTTTTA-TTATATAATTATA
1 ATAAATAAATATTTTATTTATAT-ATTATA
1887486 ACTTTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
ATAAATAAATATTTTATTTATATATTATAT
Found at i:1894424 original size:23 final size:23
Alignment explanation
Indices: 1894364--1894429 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
1894354 CACCACAGCT
* * *
1894364 CGTATAATTGCACCAAAGTACCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1894387 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1894410 CGTAGAATTGCACCGTAGTG
1 CGTAGAATTGCACCGAAGTG
1894430 TCATATAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1895956 original size:21 final size:21
Alignment explanation
Indices: 1895914--1895974 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
1895904 TTCGCTTGAG
*
1895914 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
1895936 GGGTACCGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
1895957 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
1895975 CCTAGAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 24 0.63
22 14 0.37
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:1897721 original size:14 final size:14
Alignment explanation
Indices: 1897704--1897737 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1897694 AATACAAATG
1897704 ATCAAATTGGAGAA
1 ATCAAATTGGAGAA
1897718 ATC-AATTGGAGAA
1 ATCAAATTGGAGAA
*
1897731 ATGAAAT
1 ATCAAAT
1897738 GAAACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.24
Consensus pattern (14 bp):
ATCAAATTGGAGAA
Found at i:1899255 original size:24 final size:23
Alignment explanation
Indices: 1899201--1899255 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
1899191 TAGAATGTAA
* *
1899201 TATTTATTATATTCTACTAAATT
1 TATTTTTTATATTCTAATAAATT
* * *
1899224 AATATTTTAGTATTTTAATAAATT
1 TATTTTTTA-TATTCTAATAAATT
1899248 TATTTTTT
1 TATTTTTT
1899256 TTTACAGTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTTATATTCTAATAAATT
Found at i:1899417 original size:23 final size:23
Alignment explanation
Indices: 1899374--1899418 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1899364 TAGTAATAAT
* *
1899374 TATTTATTTATTATTAGTTTATA
1 TATTAATTTATTAATAGTTTATA
1899397 TATTAATTTATGTAATA-TTTAT
1 TATTAATTTAT-TAATAGTTTAT
1899419 TAAATAGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TATTAATTTATTAATAGTTTATA
Found at i:1900306 original size:30 final size:31
Alignment explanation
Indices: 1900270--1900329 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
1900260 CTTAGCTTTA
**
1900270 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
1900300 TATTATGTTTACATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
1900330 GGCAGCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:1900829 original size:10 final size:10
Alignment explanation
Indices: 1900816--1900854 Score: 60
Period size: 10 Copynumber: 3.7 Consensus size: 10
1900806 TGGACTAAAG
1900816 GTAGCTGGAA
1 GTAGCTGGAA
1900826 GTAGCTGGAA
1 GTAGCTGGAA
1900836 GTAGCTGGGAGA
1 GTAGCT-GGA-A
1900848 GTAGCTG
1 GTAGCTG
1900855 AGGAGCTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 16 0.59
11 4 0.15
12 7 0.26
ACGTcount: A:0.26, C:0.10, G:0.44, T:0.21
Consensus pattern (10 bp):
GTAGCTGGAA
Found at i:1901260 original size:19 final size:20
Alignment explanation
Indices: 1901236--1901278 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1901226 AGCATTTATC
*
1901236 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
1901255 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
1901275 TTCA
1 TTCA
1901279 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:1903334 original size:24 final size:24
Alignment explanation
Indices: 1903307--1903374 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
1903297 GACATGTCCT
* *
1903307 TTGACGTTCCAACAGTTATGCCAC
1 TTGAAGTTCCAAAAGTTATGCCAC
* * *
1903331 TTGAAGTTCAAAAAGATATGTCAC
1 TTGAAGTTCCAAAAGTTATGCCAC
*
1903355 TTGAAGTGCCAAAAGTTATG
1 TTGAAGTTCCAAAAGTTATG
1903375 ATCATTGAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (24 bp):
TTGAAGTTCCAAAAGTTATGCCAC
Found at i:1903390 original size:24 final size:23
Alignment explanation
Indices: 1903314--1903390 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
1903304 CCTTTGACGT
* *
1903314 TCCAACAGTTATGCCACTTGAAG
1 TCCAAAAGTTATGTCACTTGAAG
* *
1903337 TTCAAAAAGATATGTCACTTGAAG
1 -TCCAAAAGTTATGTCACTTGAAG
1903361 TGCCAAAAGTTATGATCA-TTGAAG
1 T-CCAAAAGTTATG-TCACTTGAAG
1903385 CTCCAA
1 -TCCAA
1903391 GTTCATTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 39 0.89
25 4 0.09
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (23 bp):
TCCAAAAGTTATGTCACTTGAAG
Found at i:1904468 original size:30 final size:31
Alignment explanation
Indices: 1904416--1904475 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
1904406 CTTAGCTTTA
**
1904416 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
**
1904446 TATTATGTTTGTATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
1904476 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:1910927 original size:8 final size:8
Alignment explanation
Indices: 1910914--1910954 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
1910904 CTCATTTTCA
1910914 GAGAATTT
1 GAGAATTT
1910922 GAGAATTT
1 GAGAATTT
1910930 -AGAATTT
1 GAGAATTT
*
1910937 GGGAATTT
1 GAGAATTT
1910945 GAGAATTT
1 GAGAATTT
1910953 GA
1 GA
1910955 AAGATTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1910935 original size:15 final size:16
Alignment explanation
Indices: 1910914--1910954 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
1910904 CTCATTTTCA
1910914 GAGAATTTGAGAATTT
1 GAGAATTTGAGAATTT
*
1910930 -AGAATTTGGGAATTT
1 GAGAATTTGAGAATTT
1910945 GAGAATTTGA
1 GAGAATTTGA
1910955 AAGATTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (16 bp):
GAGAATTTGAGAATTT
Found at i:1911292 original size:126 final size:128
Alignment explanation
Indices: 1911025--1911891 Score: 1475
Period size: 126 Copynumber: 6.9 Consensus size: 128
1911015 TAATCGGAGT
* *
1911025 ACTATTCACATGAAGGCACGTTCTCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
1911090 CATTGCCCTATTATGTCACTCATGTCCATCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
1911153 ACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAG-ATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1911217 CATTGCCCTATTATGTCACTCATGT-CCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
1911279 ACTATTCACATGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1911343 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCA-TACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
1911405 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATG-TAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
1911469 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATT-TTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
1911531 ACTATTCACATGAA-GCGCGTTCCCGGGGGCGC-CCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1911594 CATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTA-ATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* ***
1911655 -TTAGGGGACATGAAGGCGCGTTCCC-GGGG-GCGCCTTCCATTATTTCGTCAGAGAATATG-T-
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
1911715 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA-TATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
1911778 ACTATTCACATGAAGGCGCGTTCCCGGGGG-GCGCCTTCTATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
1911842 CATTGCCCTATTA--TCACTCATGTCCCTTGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
1911892 AATCAGGTAA
Statistics
Matches: 704, Mismatches: 20, Indels: 34
0.93 0.03 0.04
Matches are distributed among these distances:
122 31 0.04
123 54 0.08
124 162 0.23
125 86 0.12
126 226 0.32
127 93 0.13
128 52 0.07
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:1911504 original size:253 final size:254
Alignment explanation
Indices: 1911025--1911891 Score: 1476
Period size: 253 Copynumber: 3.5 Consensus size: 254
1911015 TAATCGGAGT
* *
1911025 ACTATTCACATGAAGGCACGTTCTCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
1911090 CATTGCCCTATTATGTCACTCATGTCCATCGGGGACACTAGATATATCAGTACCTATTATTTCAC
65 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
1911155 TATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAG-ATATGTTATCA
130 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATG-TATCA
1911219 TTGCCCTATTATGTCACTCATGT-CCTCGGGGACACTAGATATATCAGTACCTATTATTTC
194 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
1911279 ACTATTCACATGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
1911344 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCA-TACCTATTATTTCACT
66 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACT
*
1911408 ATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTATCATT
131 ATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTATCATT
*
1911473 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATT-TTTC
196 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
1911531 ACTATTCACATGAA-GCGCGTTCCC-GGGGGCGCCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGGCG-CCTTCCATTATTTCGTCAGAGAATATGTTAT
*
1911594 CATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTA-ATATATCAGTACCTATTATTTC-T
65 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
***
1911656 TAGGGGACATGAAGGCGCGTTCCC-GGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGT-TCA
130 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTATCA
1911718 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA-TATTTC
194 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
1911778 ACTATTCACATGAAGGCGCGTTCCCGGGGGGCGCCTTCTATTATTTCATCAGAGAATATGTTATC
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
*
1911843 ATTGCCCTATTA--TCACTCATGTCCCTTGGGGACACTAGATATATCAGTA
66 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
1911892 AATCAGGTAA
Statistics
Matches: 588, Mismatches: 15, Indels: 26
0.93 0.02 0.04
Matches are distributed among these distances:
246 15 0.03
247 83 0.14
248 93 0.16
249 21 0.04
250 47 0.08
251 71 0.12
252 112 0.19
253 118 0.20
254 28 0.05
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (254 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACT
ATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTATCATT
GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:1912347 original size:33 final size:33
Alignment explanation
Indices: 1912286--1912386 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 33
1912276 AAATTTAATG
* *
1912286 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAA-TTTGAATAATATAATTTTTATTTTAAAT
* * *
1912320 TTAAATTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTGAATAATATAATTTTTATTTTAAAT
1912353 TTAAATTTCGAATAATATAATTTTGTATTTTAAA
1 TTAAATTT-GAATAATATAATTTT-TATTTTAAA
1912387 AACATTTATC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
33 31 0.54
34 19 0.33
35 7 0.12
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (33 bp):
TTAAATTTGAATAATATAATTTTTATTTTAAAT
Found at i:1912986 original size:21 final size:21
Alignment explanation
Indices: 1912901--1912980 Score: 117
Period size: 21 Copynumber: 3.8 Consensus size: 21
1912891 ATAAAACCCT
*
1912901 GGGCTAGGCATGTAACCTGGC
1 GGGCTAGGAATGTAACCTGGC
*
1912922 GGGCTAGGCATGTAACCTGGC
1 GGGCTAGGAATGTAACCTGGC
1912943 GGGCTAGGAATGTAACCCT-GC
1 GGGCTAGGAATGTAA-CCTGGC
*
1912964 GGGCTCGGAATGTAACC
1 GGGCTAGGAATGTAACC
1912981 CTGCGGAGAT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.04
21 51 0.91
22 3 0.05
ACGTcount: A:0.21, C:0.24, G:0.36, T:0.19
Consensus pattern (21 bp):
GGGCTAGGAATGTAACCTGGC
Found at i:1914602 original size:19 final size:19
Alignment explanation
Indices: 1914558--1914605 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
1914548 TTCGTTTTCC
* *
1914558 ATTATAACTGTAGACAAAACA
1 ATTATAA-T-TAGAAAAAAAA
1914579 A-TATAATTAGAAAAAAAA
1 ATTATAATTAGAAAAAAAA
1914597 ATTATAATT
1 ATTATAATT
1914606 CTAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 10 0.42
19 8 0.33
20 5 0.21
21 1 0.04
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (19 bp):
ATTATAATTAGAAAAAAAA
Found at i:1918513 original size:36 final size:35
Alignment explanation
Indices: 1918473--1918888 Score: 195
Period size: 38 Copynumber: 11.6 Consensus size: 35
1918463 ACGGTTTTCA
*
1918473 AAAATATATATATTATATAGTTTTGAAAACATTTCG
1 AAAATATATATA-TATATAGTTTTGAAAACATTTTG
*
1918509 ---A-A-A-ATATATATAGTTTTGAAAA-TTTTTG
1 AAAATATATATATATATAGTTTTGAAAACATTTTG
* *
1918537 AAAACATATATAATATATAGTTTTGAAAACGTTTT-
1 AAAATATATAT-ATATATAGTTTTGAAAACATTTTG
1918572 AAATATATATATAATATATAGCTTTTGAAAACATTTTTTG
1 AAA-ATATATAT-ATATATAG-TTTTGAAAACA--TTTTG
*****
1918612 AAAACGTATAT-TATATAT-G-TTTGAAAACACACACACAC
1 AAAA--TATATATATATATAGTTTTG--AA-A-ACATTTTG
* * *
1918650 ACACACATATATATATATATTATTTTTTAAAACATTTTAA
1 A-A-A-ATATATATATATA-TAGTTTTGAAAACATTTT-G
* * *
1918690 AAACATATGTATAATATATAGTTTTTAAAATATTTTG
1 AAA-ATATATAT-ATATATAGTTTTGAAAACATTTTG
* *
1918727 AAAATATATATATAATATATAGTTTTTAAAATATTTTG
1 -AAA-ATATATAT-ATATATAGTTTTGAAAACATTTTG
* * *
1918765 -AAA-ACAT-TATATA-GGTTTTGAAAACATTTTTA
1 AAAATATATATATATATAGTTTTGAAAACA-TTTTG
* * *
1918797 AAAAAATATATAATCTATAGTTTTTGAAAACGTTTTGG
1 AAAATATATAT-ATATATAG-TTTTGAAAACATTTT-G
* * *
1918835 AAAATATAT-TATATA-A-TTTTAAAAAATATTTTT
1 AAAATATATATATATATAGTTTT-GAAAACATTTTG
*
1918868 TAAAT-TATATATTATATAGTT
1 AAAATATATATA-TATATAGTT
1918889 GTTGTTATTA
Statistics
Matches: 298, Mismatches: 40, Indels: 84
0.71 0.09 0.20
Matches are distributed among these distances:
28 4 0.01
29 16 0.05
30 3 0.01
31 12 0.04
32 14 0.05
33 16 0.05
34 20 0.07
35 24 0.08
36 36 0.12
37 16 0.05
38 82 0.28
39 27 0.09
40 16 0.05
41 9 0.03
43 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (35 bp):
AAAATATATATATATATAGTTTTGAAAACATTTTG
Found at i:1918520 original size:64 final size:63
Alignment explanation
Indices: 1918452--1918588 Score: 143
Period size: 64 Copynumber: 2.1 Consensus size: 63
1918442 TTATGAAAAA
* **
1918452 ATATAATATGTACGGTTTTCAAAA-ATATATATATTATATAGTTTTGAAAACATTTCGAAA-ATA
1 ATATAATATGAAAAGTTTTCAAAACATATATA-A-TATATAGTTTTGAAAACATTT-GAAATATA
1918515 T
63 T
* * * * * *
1918516 ATATAGTTTTGAAAATTTTTGAAAACATATATAATATATAGTTTTGAAAACGTTTTAAATATAT
1 ATATA-ATATGAAAAGTTTTCAAAACATATATAATATATAGTTTTGAAAACATTTGAAATATAT
1918580 ATATAATAT
1 ATATAATAT
1918589 ATAGCTTTTG
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
63 5 0.08
64 34 0.58
65 13 0.22
66 7 0.12
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (63 bp):
ATATAATATGAAAAGTTTTCAAAACATATATAATATATAGTTTTGAAAACATTTGAAATATAT
Found at i:1918548 original size:28 final size:29
Alignment explanation
Indices: 1918486--1918548 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
1918476 ATATATATAT
*
1918486 TATATAGTTTTGAAAACATTTCGAAAATA
1 TATATAGTTTTGAAAACATTTCGAAAACA
* *
1918515 TATATAGTTTTGAAAA-TTTTTGAAAACA
1 TATATAGTTTTGAAAACATTTCGAAAACA
1918543 TATATA
1 TATATA
1918549 ATATATAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (29 bp):
TATATAGTTTTGAAAACATTTCGAAAACA
Found at i:1918627 original size:37 final size:36
Alignment explanation
Indices: 1918512--1918888 Score: 176
Period size: 36 Copynumber: 10.3 Consensus size: 36
1918502 CATTTCGAAA
1918512 ATATATATAGTTTTG-AAA-ATTTTTGAAAACATAT
1 ATATATATAGTTTTGAAAACATTTTTGAAAACATAT
* *
1918546 ATAATATATAGTTTTGAAAAC-GTTTT-AAATATATAT
1 AT-ATATATAGTTTTGAAAACATTTTTGAAA-ACATAT
*
1918582 ATAATATATAGCTTTTGAAAACATTTTTTGAAAACGTAT
1 AT-ATATATAG-TTTTGAAAACA-TTTTTGAAAACATAT
******
1918621 AT-TATATA-TGTTTGAAAACACACACACACACACACATATAT
1 ATATATATAGT-TTTGAAAACA-TTTTTGA-A-A-AC--ATAT
* * *
1918662 ATATATATTATTTTTTAAAACA-TTTTAAAAACATATGT
1 ATATATA-TAGTTTTGAAAACATTTTTGAAAACATA--T
* * *
1918700 ATAATATATAGTTTTTAAAATA-TTTTGAAAATATATAT
1 AT-ATATATAGTTTTGAAAACATTTTTG-AAA-ACATAT
* *
1918738 ATAATATATAGTTTTTAAAATA-TTTTGAAAAC--AT
1 AT-ATATATAGTTTTGAAAACATTTTTGAAAACATAT
* * *
1918772 -TATATA-GGTTTTGAAAACATTTTTAAAAAAATAT
1 ATATATATAGTTTTGAAAACATTTTTGAAAACATAT
* * *
1918806 ATAATCTATAGTTTTTGAAAAC-GTTTTGGAAA-ATAT
1 AT-ATATATAG-TTTTGAAAACATTTTTGAAAACATAT
* * * * **
1918842 AT-TATATAATTTTAAAAAATATTTTTTAAATTATAT
1 ATATATATAGTTTT-GAAAACATTTTTGAAAACATAT
1918878 AT-TATATAGTT
1 ATATATATAGTT
1918889 GTTGTTATTA
Statistics
Matches: 268, Mismatches: 43, Indels: 62
0.72 0.12 0.17
Matches are distributed among these distances:
31 10 0.04
32 13 0.05
33 5 0.02
34 15 0.06
35 24 0.09
36 62 0.23
37 28 0.10
38 60 0.22
39 21 0.08
40 8 0.03
41 6 0.02
42 4 0.01
43 11 0.04
44 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (36 bp):
ATATATATAGTTTTGAAAACATTTTTGAAAACATAT
Found at i:1918794 original size:31 final size:30
Alignment explanation
Indices: 1918740--1918808 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
1918730 ATATATATAT
* * *
1918740 AATATATAGTTTTTAAAATATTTTGAAAAC
1 AATATATAGTTTTGAAAACATTTTGAAAAA
* *
1918770 ATTATATAGGTTTTGAAAACATTTTTAAAAA
1 AATATATA-GTTTTGAAAACATTTTGAAAAA
1918801 AATATATA
1 AATATATA
1918809 ATCTATAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (30 bp):
AATATATAGTTTTGAAAACATTTTGAAAAA
Found at i:1918899 original size:3 final size:3
Alignment explanation
Indices: 1918893--1918940 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
1918883 ATAGTTGTTG
1918893 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1918939 TT
1 TT
1918941 TATATAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1918967 original size:23 final size:23
Alignment explanation
Indices: 1918940--1918985 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1918930 TTTATTTTAT
1918940 TTATATAATATATAGGTTTTAAA
1 TTATATAATATATAGGTTTTAAA
* *
1918963 TTATATATTATATAGTTTTTAAA
1 TTATATAATATATAGGTTTTAAA
1918986 ATGATCAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
TTATATAATATATAGGTTTTAAA
Found at i:1930166 original size:38 final size:38
Alignment explanation
Indices: 1930115--1930203 Score: 169
Period size: 38 Copynumber: 2.3 Consensus size: 38
1930105 AAAAAAACAA
1930115 TAATGACTAAATAGATTAAAATGGATTTTTATATAGTG
1 TAATGACTAAATAGATTAAAATGGATTTTTATATAGTG
1930153 TAATGACTAAATAGATTAAAATGGATTTTTATATAGTG
1 TAATGACTAAATAGATTAAAATGGATTTTTATATAGTG
*
1930191 TAAAGACTAAATA
1 TAATGACTAAATA
1930204 AACTCTGATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (38 bp):
TAATGACTAAATAGATTAAAATGGATTTTTATATAGTG
Found at i:1930194 original size:22 final size:22
Alignment explanation
Indices: 1930131--1930194 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
1930121 CTAAATAGAT
1930131 TAAAATGGATTTTTATATAGTG
1 TAAAATGGATTTTTATATAGTG
* *
1930153 T--AAT-GA---CTAAATAGAT-
1 TAAAATGGATTTTTATATAG-TG
1930169 TAAAATGGATTTTTATATAGTG
1 TAAAATGGATTTTTATATAGTG
1930191 TAAA
1 TAAA
1930195 GACTAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 16
0.60 0.08 0.32
Matches are distributed among these distances:
16 7 0.23
17 1 0.03
18 3 0.10
19 4 0.13
20 3 0.10
21 1 0.03
22 11 0.37
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.41
Consensus pattern (22 bp):
TAAAATGGATTTTTATATAGTG
Found at i:1932156 original size:15 final size:15
Alignment explanation
Indices: 1932136--1932186 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
1932126 ATTATTAGCC
*
1932136 TATTTTATTTTATTT
1 TATTTTATTTTATAT
1932151 TATTTTATTTTATAT
1 TATTTTATTTTATAT
* *
1932166 TATATTATATTA-AT
1 TATTTTATTTTATAT
*
1932180 CATTTTA
1 TATTTTA
1932187 ACTATTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 7 0.23
15 24 0.77
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTATTTTATAT
Found at i:1932177 original size:5 final size:5
Alignment explanation
Indices: 1932136--1932173 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
1932126 ATTATTAGCC
* *
1932136 TATTT TATTT TATTT TATTT TATTT TATAT TATAT TAT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT
1932174 ATTAATCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:1938795 original size:49 final size:51
Alignment explanation
Indices: 1938715--1938821 Score: 164
Period size: 49 Copynumber: 2.1 Consensus size: 51
1938705 ATTTACATAA
** *
1938715 AATATATCTTTTATAATTTTATTATAGTTTAAATTGATATAATTCATATAT
1 AATATATCTTTTATAAAATTATTATAATTTAAATTGATATAATTCATATAT
1938766 AATATAT-TTTTA-AAAATTATTATAATTTAAATTGATATAATTCATATAT
1 AATATATCTTTTATAAAATTATTATAATTTAAATTGATATAATTCATATAT
1938815 AAGTATA
1 AA-TATA
1938822 AATATAATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
49 36 0.69
50 9 0.17
51 7 0.13
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (51 bp):
AATATATCTTTTATAAAATTATTATAATTTAAATTGATATAATTCATATAT
Found at i:1944731 original size:43 final size:43
Alignment explanation
Indices: 1944682--1944764 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
1944672 GTTATTAATA
* *
1944682 TATATATGTATCTTCTCTCAAAATTTCGATTTGATAACTTTCT
1 TATATATGTACCTTCTCTCAAAATTTCGATTCGATAACTTTCT
* *
1944725 TATATATGTACCTTCTCTCATAATTTCGGTTCGATAACTT
1 TATATATGTACCTTCTCTCAAAATTTCGATTCGATAACTT
1944765 CTATATTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (43 bp):
TATATATGTACCTTCTCTCAAAATTTCGATTCGATAACTTTCT
Found at i:1945491 original size:107 final size:106
Alignment explanation
Indices: 1945303--1945496 Score: 379
Period size: 107 Copynumber: 1.8 Consensus size: 106
1945293 GTATATTCAT
1945303 ATTTTAATTGAATATAAATTCATAAATAATATATTTATATCTAAGCAAACATAAATTTATAAATC
1 ATTTTAATTGAATATAAATTCATAAATAATATATTTATATCTAAGCAAACATAAATTTATAAATC
1945368 CTTAAATGATTTAAAAAAATGATGGAGTTAACGATTAAAAAG
66 CTTAAATGA-TTAAAAAAATGATGGAGTTAACGATTAAAAAG
1945410 ATTTTAATTGAATATAAATTCATAAATAATATATTTATATCTAAGCAAACATAAATTTATAAATC
1 ATTTTAATTGAATATAAATTCATAAATAATATATTTATATCTAAGCAAACATAAATTTATAAATC
1945475 CTTAAATGATTAAAAAAATGAT
66 CTTAAATGATTAAAAAAATGAT
1945497 CGAATCGATC
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 13 0.15
107 74 0.85
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (106 bp):
ATTTTAATTGAATATAAATTCATAAATAATATATTTATATCTAAGCAAACATAAATTTATAAATC
CTTAAATGATTAAAAAAATGATGGAGTTAACGATTAAAAAG
Found at i:1954214 original size:25 final size:25
Alignment explanation
Indices: 1954185--1954232 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1954175 TACCAAACAT
*
1954185 AACTTTTAAAAGTGTTGTATAAACG
1 AACTTTTAAAAGTGGTGTATAAACG
*
1954210 AACTTTTAAAAGTGGTGTTTAAA
1 AACTTTTAAAAGTGGTGTATAAA
1954233 GATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (25 bp):
AACTTTTAAAAGTGGTGTATAAACG
Found at i:1955359 original size:21 final size:21
Alignment explanation
Indices: 1955320--1955359 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1955310 TAAAACGTCT
*
1955320 AATAATAATATTTCCGGTAGA
1 AATAATAATATTTCAGGTAGA
*
1955341 AATAATAATATTTTAGGTA
1 AATAATAATATTTCAGGTA
1955360 ATTTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
AATAATAATATTTCAGGTAGA
Found at i:1958005 original size:14 final size:14
Alignment explanation
Indices: 1957969--1957995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1957959 ATTTATTTTT
1957969 TAATTATATTTATA
1 TAATTATATTTATA
1957983 TAATTATATTTAT
1 TAATTATATTTAT
1957996 TATTTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATATTTATA
Found at i:1974662 original size:3 final size:3
Alignment explanation
Indices: 1974656--1974680 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1974646 ACAGGAGGAA
1974656 AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC A
1974681 GTGTTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:1986270 original size:30 final size:30
Alignment explanation
Indices: 1986236--1986293 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
1986226 TTAGATTATT
* *
1986236 TGAAAACTGTTTTACGTAAAATAAATTACA
1 TGAAAAATGTTTCACGTAAAATAAATTACA
1986266 TGAAAAATGTTTCACGTAAAATAAATTA
1 TGAAAAATGTTTCACGTAAAATAAATTA
1986294 TTTTAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (30 bp):
TGAAAAATGTTTCACGTAAAATAAATTACA
Found at i:1986875 original size:13 final size:15
Alignment explanation
Indices: 1986845--1986876 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
1986835 AAGAACTAAA
1986845 AAAATAAATTACATT
1 AAAATAAATTACATT
1986860 AAAA-AAATTA-ATT
1 AAAATAAATTACATT
1986873 AAAA
1 AAAA
1986877 CTATTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAAATTACATT
Found at i:1986928 original size:42 final size:44
Alignment explanation
Indices: 1986863--1986946 Score: 100
Period size: 42 Copynumber: 1.9 Consensus size: 44
1986853 TTACATTAAA
* * *
1986863 AAAATTAATTAAAACTATTAAAC-A-ATAAAAAATATTTTCCAT
1 AAAATCAATTAAAACTATCAAACAAGAAAAAAAATATTTTCCAT
* *
1986905 AAAATCAATTATAATTATCAAACAGAGAAAAAAAATATTTTC
1 AAAATCAATTAAAACTATCAAACA-AGAAAAAAAATATTTTC
1986947 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 19 0.56
44 1 0.03
45 14 0.41
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (44 bp):
AAAATCAATTAAAACTATCAAACAAGAAAAAAAATATTTTCCAT
Found at i:1990330 original size:2 final size:2
Alignment explanation
Indices: 1990323--1990360 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1990313 AAAAATTTTA
1990323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1990361 CCCGTGAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1992125 original size:23 final size:22
Alignment explanation
Indices: 1992079--1992125 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
1992069 TTTTTATTAA
*
1992079 AATTTTAAAATTTTAGATGATG
1 AATTTTAAAATTTTAGAAGATG
1992101 AATTTATAAAATTTTTAGAAG-TG
1 AATTT-TAAAA-TTTTAGAAGATG
1992124 AA
1 AA
1992126 AATCAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.43
Consensus pattern (22 bp):
AATTTTAAAATTTTAGAAGATG
Found at i:1993074 original size:32 final size:32
Alignment explanation
Indices: 1993038--1993140 Score: 87
Period size: 32 Copynumber: 3.4 Consensus size: 32
1993028 AAGATAATTA
1993038 ATAAATTTGATAAAGCACTATCTATCATATTG
1 ATAAATTTGATAAAGCACTATCTATCATATTG
* * * * *
1993070 ATAAA-CTCATAATG---T-TGTA--AGT-TTA
1 ATAAATTTGATAAAGCACTATCTATCA-TATTG
*
1993095 ATAAATTTGATAAAGCACTACCTATCATATTG
1 ATAAATTTGATAAAGCACTATCTATCATATTG
1993127 ATAAATTTGATAAA
1 ATAAATTTGATAAA
1993141 TTTGATAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 18
0.64 0.14 0.22
Matches are distributed among these distances:
25 8 0.16
26 7 0.14
27 3 0.06
28 1 0.02
29 1 0.02
30 2 0.04
31 7 0.14
32 22 0.43
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.37
Consensus pattern (32 bp):
ATAAATTTGATAAAGCACTATCTATCATATTG
Found at i:1993138 original size:9 final size:9
Alignment explanation
Indices: 1993124--1993157 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1993114 ACCTATCATA
1993124 TTGATAAAT
1 TTGATAAAT
1993133 TTGATAAAT
1 TTGATAAAT
1993142 TTGATAAAT
1 TTGATAAAT
*
1993151 TTAATAA
1 TTGATAA
1993158 CTAATAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (9 bp):
TTGATAAAT
Found at i:1993165 original size:57 final size:57
Alignment explanation
Indices: 1993035--1993165 Score: 142
Period size: 57 Copynumber: 2.3 Consensus size: 57
1993025 AATAAGATAA
* * * *
1993035 TTAATAAATTTGATAAAGCACTATCTATCATATTGATAAACTCATAATGTTGTAAGT
1 TTAATAAATCTAATAAAGCACTACCTATCATATTGATAAACTCATAATGTTGTAAAT
* * * *
1993092 TTAATAAATTTGATAAAGCACTACCTATCATATTGATAAATTTGATAAAT-TTGATAAAT
1 TTAATAAATCTAATAAAGCACTACCTATCATATTGATAAA-CTCAT-AATGTTG-TAAAT
1993151 TTAAT-AA-CTAATAAA
1 TTAATAAATCTAATAAA
1993166 CTTTGGTTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 45 0.69
58 8 0.12
59 12 0.18
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.38
Consensus pattern (57 bp):
TTAATAAATCTAATAAAGCACTACCTATCATATTGATAAACTCATAATGTTGTAAAT
Found at i:1993199 original size:2 final size:2
Alignment explanation
Indices: 1993192--1993272 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
1993182 GTATCGATAC
1993192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1993234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1993273 AGTGTTCATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2000178 original size:14 final size:14
Alignment explanation
Indices: 2000151--2000201 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 14
2000141 TTCATTGAAA
2000151 AACCGAAAAA-CCG
1 AACCGAAAAACCCG
2000164 AACCGAAAAACCCG
1 AACCGAAAAACCCG
2000178 AACCGTTAAAAAACCCG
1 AACCG---AAAAACCCG
2000195 AACCGAA
1 AACCGAA
2000202 CCGAAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.29
14 10 0.29
17 14 0.41
ACGTcount: A:0.51, C:0.31, G:0.14, T:0.04
Consensus pattern (14 bp):
AACCGAAAAACCCG
Found at i:2004112 original size:72 final size:72
Alignment explanation
Indices: 2003883--2004136 Score: 296
Period size: 73 Copynumber: 3.5 Consensus size: 72
2003873 CAACATATCT
* * * * *
2003883 GGTAGGTAGTTTAATGTAATAGGTAACACATATTTTGTTTACCGTTTATATTATTAGTAATCTTA
1 GGTAGGTATTTTAATGTAATAGGTAACGCATATTTT-TTTACCGTTTACATTATTAGCAACCTTA
*
2003948 AAAAAACC
65 AAAAAATC
* * ** * *
2003956 GGTAGGTATTTTAATGTAATAGATAACGCCTATTCTTGGTACAGTTTACATTATTAGCAACCTTC
1 GGTAGGTATTTTAATGTAATAGGTAACGCATATT-TTTTTACCGTTTACATTATTAGCAACCTTA
*
2004021 AAAAAATG
65 AAAAAATC
** *
2004029 GGTAAATATTTTAATGTAATAGGTAACGTC-TATTTTTTTACCTTTTACATTATTTA-CAACCTT
1 GGTAGGTATTTTAATGTAATAGGTAACG-CATATTTTTTTACCGTTTACATTA-TTAGCAACCTT
2004092 AAAAAAATC
64 AAAAAAATC
* *
2004101 GATTGGTATTTTAATGTAATAGGTAACGCATATTTT
1 GGTAGGTATTTTAATGTAATAGGTAACGCATATTTT
2004137 ATATTTTTGA
Statistics
Matches: 151, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.01
72 58 0.38
73 89 0.59
74 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (72 bp):
GGTAGGTATTTTAATGTAATAGGTAACGCATATTTTTTTACCGTTTACATTATTAGCAACCTTAA
AAAAATC
Found at i:2006111 original size:16 final size:16
Alignment explanation
Indices: 2006090--2006120 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2006080 TAATATTGAA
2006090 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
2006106 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
2006121 AAATTAGAAG
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:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:2016500 original size:2 final size:2
Alignment explanation
Indices: 2016493--2016517 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2016483 TATTTTAATA
2016493 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2016518 CATAATATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2018660 original size:90 final size:90
Alignment explanation
Indices: 2018507--2018676 Score: 288
Period size: 90 Copynumber: 1.9 Consensus size: 90
2018497 AATGAAAATG
*
2018507 TTGAAAACATTCAGCACTGAAGGTCTTACGGATGGCCCGAAGGACTTACAAATCAAAAAACCCCC
1 TTGAAAACATTCAGCACTGAAGGTCTTACGGATGGCCCGAAAGACTTACAAATCAAAAAACCCCC
2018572 GAAGGCTTAGTTTCTAAAATCTCTT
66 GAAGGCTTAGTTTCTAAAATCTCTT
* * *
2018597 TTGAAAACA-TCATGCACTGAAGGTCTTATGGATGGTCCGAAAGACTTACAAATCAAGAAACCCC
1 TTGAAAACATTCA-GCACTGAAGGTCTTACGGATGGCCCGAAAGACTTACAAATCAAAAAACCCC
2018661 CGAAGGCTTAGTTTCT
65 CGAAGGCTTAGTTTCT
2018677 TATAAAATCT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 3 0.04
90 72 0.96
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (90 bp):
TTGAAAACATTCAGCACTGAAGGTCTTACGGATGGCCCGAAAGACTTACAAATCAAAAAACCCCC
GAAGGCTTAGTTTCTAAAATCTCTT
Found at i:2018735 original size:39 final size:38
Alignment explanation
Indices: 2018681--2018810 Score: 156
Period size: 39 Copynumber: 3.3 Consensus size: 38
2018671 GTTTCTTATA
*
2018681 AAATCTTTTGTTTCGAGAGAAACTAACTCAAGCGAGACT
1 AAATCTTTT-TTTCGAGAGAAACTATCTCAAGCGAGACT
*
2018720 AAATCTTCTTTTTCGATGA-AAACTATCTCAAGCGAGACA
1 AAATCTT-TTTTTCGA-GAGAAACTATCTCAAGCGAGACT
* * *
2018759 AAATCTTTGTTTCGAGGGAAACTATCTCAAGAGAGA-T
1 AAATCTTTTTTTCGAGAGAAACTATCTCAAGCGAGACT
2018796 AAAATCTTTTGTTTC
1 -AAATCTTTT-TTTC
2018811 AAGGAAAAAC
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
37 1 0.01
38 32 0.41
39 42 0.53
40 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (38 bp):
AAATCTTTTTTTCGAGAGAAACTATCTCAAGCGAGACT
Found at i:2018781 original size:38 final size:39
Alignment explanation
Indices: 2018680--2018970 Score: 176
Period size: 40 Copynumber: 7.4 Consensus size: 39
2018670 AGTTTCTTAT
* *
2018680 AAAATCTTTTGTTTCGAGAGAAACTAACTCAAGCGAGAC
1 AAAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* * *
2018719 TAAATCTTCTT-TTTCGATGAAAACTATCTCAAGCGAGAC
1 AAAATCTT-TTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* *
2018758 AAAATC-TTTGTTTCGAGGGAAACTATCTCAAGAGAGAT
1 AAAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* * * * * *
2018796 AAAATCTTTTGTTTCAAGGAAAAACAATCTTGAA-TGAGAT
1 AAAATCTTTTGTTTCGAGG-GAAACTATC-TCAAGCGAGAC
* * ** * ** *
2018836 AAAATCTTCTGTTTCAATGACAAACAATCTTGAGCGAGAT
1 AAAATCTTTTGTTTCGA-GGGAAACTATCTCAAGCGAGAC
* * * * ** *
2018876 AAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGCGAGAT
1 AAAATCTTTTGTTTCGAGG-GAAACTATCTCAAGCGAGAC
* * * * * * *
2018916 AAAATCTTCTGTTTCAAGGAAAAACAATCTTGAA-TGAGAT
1 AAAATCTTTTGTTTCGAGG-GAAACTATC-TCAAGCGAGAC
2018956 AAAATCTTTTGTTTC
1 AAAATCTTTTGTTTC
2018971 AAGGAAAAAT
Statistics
Matches: 216, Mismatches: 27, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
37 2 0.01
38 31 0.14
39 50 0.23
40 127 0.59
41 6 0.03
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (39 bp):
AAAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGAC
Found at i:2018842 original size:40 final size:40
Alignment explanation
Indices: 2018791--2020081 Score: 2052
Period size: 40 Copynumber: 32.4 Consensus size: 40
2018781 TATCTCAAGA
*
2018791 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* * **
2018831 GAGATAAAATCTTCTGTTTCAATGACAAACAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
**
2018871 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
2018911 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
2018951 GAGATAAAATCTTTTGTTTCAAGGAAAAATAATCTTGAGA-
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGA-AT
2018991 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019031 GAGATAAAATCTTATGTTTCAAGGAAAATA-AATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAA-ACAATCTTGAAT
*
2019071 GAGATAAAATCTTCTGTTTCAAGGAAAAATAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019111 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019151 GAGATAAAATCTTATGTTTCAAGG-AAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019190 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019230 GAGATAAAATCTTCTGTTTCAAGGAAAAAGAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* * *
2019270 GAGATAAAATCTTTTGTTTTAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* **
2019310 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* **
2019350 GAGATAAAATCTTCTGTTTCAAGGAAAAATAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019390 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
2019430 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019470 GAGATAAAATCTTCTTTTTCAAGG-AAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
2019509 GAGATAAAATCTTCTGTTTCAAGGAAAAGCAATCTTGACT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019549 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019589 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
2019629 GAGATAAAATCTTGTGTTTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
2019669 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* * * * *
2019709 GGGATAAAATATTTTGTTTTAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019749 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* * ** * **
2019789 GAGATAAAATCTTATGTTTAAAATAAAAACAATATTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* **
2019829 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATATTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
2019869 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019909 GAGATAAAATCTTCTGTTTCATGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019949 GAGATAAAATCTTCCGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
2019989 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
2020029 GAGATAAAATCTTCTGTTT-AAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
2020068 GAGATAAAATCTTC
1 GAGATAAAATCTTC
2020082 CGTATTAAAT
Statistics
Matches: 1173, Mismatches: 72, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
39 112 0.10
40 1059 0.90
41 2 0.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
Found at i:2018904 original size:23 final size:23
Alignment explanation
Indices: 2018878--2018946 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
2018868 AGCGAGATAA
2018878 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
** * *
2018901 AATC-T-TG-AGCGA-G-ATAA-
1 AATCTTCTGTTTCAAGGAAAAAC
2018918 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
2018941 AATCTT
1 AATCTT
2018947 GAATGAGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 3 0.09
20 4 0.12
21 3 0.09
22 4 0.12
23 10 0.31
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (23 bp):
AATCTTCTGTTTCAAGGAAAAAC
Found at i:2034170 original size:21 final size:21
Alignment explanation
Indices: 2034137--2034192 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
2034127 TATGTGGTCA
*
2034137 TTTGGGACGTATATACGATCC
1 TTTGGGACATATATACGATCC
* *
2034158 TTTGGAACATATATACGGTCC
1 TTTGGGACATATATACGATCC
*
2034179 TTTGGGACAAATAT
1 TTTGGGACATATAT
2034193 TTTGTCATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (21 bp):
TTTGGGACATATATACGATCC
Found at i:2034268 original size:21 final size:22
Alignment explanation
Indices: 2034244--2034291 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
2034234 TATGTGGTTC
*
2034244 TTCAAAACATA-TATGTGATCA
1 TTCAAAACAAACTATGTGATCA
* *
2034265 TTCAGAACAAACCTATGTGGTCA
1 TTCAAAACAAA-CTATGTGATCA
2034288 TTCA
1 TTCA
2034292 TGACAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (22 bp):
TTCAAAACAAACTATGTGATCA
Found at i:2036535 original size:30 final size:30
Alignment explanation
Indices: 2036499--2036571 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
2036489 AATGGATTTA
* * *
2036499 TTTAGTGATCAAATTATAAA-TTTGGTAAAG
1 TTTAGTGACCAAAGTATAAACTTT-GAAAAG
2036529 TTTAGTGACCAAAGTATAAACTTTGAAAAG
1 TTTAGTGACCAAAGTATAAACTTTGAAAAG
*
2036559 TTTAGGGACCAAA
1 TTTAGTGACCAAA
2036572 ATGTAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 35 0.92
31 3 0.08
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (30 bp):
TTTAGTGACCAAAGTATAAACTTTGAAAAG
Found at i:2037544 original size:30 final size:31
Alignment explanation
Indices: 2037510--2037570 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
2037500 TGTAAAAATG
* *
2037510 TGGGGACC-ATTTTGTAATTTTTGAAAAGTT
1 TGGGGACCAATTTGGTAATTTTGGAAAAGTT
2037540 TGGGGACCAATTTGGTAATTTTGGAAAAGTT
1 TGGGGACCAATTTGGTAATTTTGGAAAAGTT
2037571 GGGAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (31 bp):
TGGGGACCAATTTGGTAATTTTGGAAAAGTT
Found at i:2038384 original size:26 final size:26
Alignment explanation
Indices: 2038355--2038407 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2038345 GAAAATGAGT
*
2038355 ATATGTGTCATATGTTATTATATGTG
1 ATATGTGTCACATGTTATTATATGTG
* * *
2038381 ATATGTTTGACATGTTATTTTATGTG
1 ATATGTGTCACATGTTATTATATGTG
2038407 A
1 A
2038408 CACGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (26 bp):
ATATGTGTCACATGTTATTATATGTG
Found at i:2038652 original size:33 final size:32
Alignment explanation
Indices: 2038614--2038685 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 32
2038604 GTTATATGAA
*
2038614 AAATGATCTATGAGATCATAGAAGAAT-ATTAC
1 AAATGATCTATGAGATCATACAAGAATGA-TAC
*
2038646 ACAATGATTTATGAGATCATACAAGAATGATAC
1 A-AATGATCTATGAGATCATACAAGAATGATAC
2038679 AAATGAT
1 AAATGAT
2038686 GTGAACTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 7 0.19
33 28 0.78
34 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (32 bp):
AAATGATCTATGAGATCATACAAGAATGATAC
Found at i:2038820 original size:21 final size:21
Alignment explanation
Indices: 2038796--2038862 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
2038786 ATGACAGGTT
2038796 CTTCGGGACACAGATTACATC
1 CTTCGGGACACAGATTACATC
* *
2038817 CTTCGGGATGACAG-----GTC
1 CTTCGGGA-CACAGATTACATC
*
2038834 CTTCAGGACACAGATTACATC
1 CTTCGGGACACAGATTACATC
2038855 CTTCGGGA
1 CTTCGGGA
2038863 TGATAGGTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
16 4 0.12
17 9 0.26
21 17 0.50
22 4 0.12
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
CTTCGGGACACAGATTACATC
Done.