Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_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: 3902382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:1899099 original size:104 final size:105
Alignment explanation
Indices: 1898982--1899200 Score: 406
Period size: 104 Copynumber: 2.1 Consensus size: 105
1898972 ATAAATAATA
1898982 TATCATATAATATAATACGTACTATATATTTATTTAAAAACTATATAACATATATTATATTTTC-
1 TATCATATAATATAATACGTACTATATATTTATTTAAAAACTATATAACATATATTATATTTTCA
1899046 AAAA-ATATATATTGTATATTTTTGAAATTATTATATATAT
66 AAAACATATATATTGTATATTTTT-AAATTATTATATATAT
1899086 TATCATATAATATAATACGTACTATATATTTATTTAAAAACTATATAACATATATTATATTTTCA
1 TATCATATAATATAATACGTACTATATATTTATTTAAAAACTATATAACATATATTATATTTTCA
1899151 AAAACTATATATATTGTATATTTTTAAATTATTATATATAT
66 AAAAC-ATATATATTGTATATTTTTAAATTATTATATATAT
1899192 TATCATATA
1 TATCATATA
1899201 TACTAAATAC
Statistics
Matches: 112, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
104 64 0.57
105 4 0.04
106 25 0.22
107 19 0.17
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (105 bp):
TATCATATAATATAATACGTACTATATATTTATTTAAAAACTATATAACATATATTATATTTTCA
AAAACATATATATTGTATATTTTTAAATTATTATATATAT
Found at i:1899163 original size:31 final size:26
Alignment explanation
Indices: 1899109--1899161 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 26
1899099 AATACGTACT
1899109 ATATATTTATTTAAAAACTATATAAC
1 ATATATTTATTTAAAAACTATATAAC
1899135 ATATATTATATTTTCAAAAACTATATA
1 ATATATT-TA-TTT-AAAAACTATATA
1899162 TATTGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.29
27 2 0.08
28 3 0.12
29 12 0.50
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATATTTATTTAAAAACTATATAAC
Found at i:1903613 original size:24 final size:24
Alignment explanation
Indices: 1903581--1903638 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
1903571 CATGATACAG
* *
1903581 ATACAAGAATTAGCGTAACTAATT
1 ATACAAGAATTAACGTAACTAACT
1903605 ATACAAGAATTAACGTAACTAACT
1 ATACAAGAATTAACGTAACTAACT
1903629 ATACAAGAAT
1 ATACAAGAAT
1903639 GATACAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (24 bp):
ATACAAGAATTAACGTAACTAACT
Found at i:1904019 original size:23 final size:23
Alignment explanation
Indices: 1903989--1904041 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
1903979 AGCTTTTACT
1903989 GGCAAATAACTTGCAATTCAGAA
1 GGCAAATAACTTGCAATTCAGAA
*
1904012 GGCAAATAACTTGCAATTCGGAA
1 GGCAAATAACTTGCAATTCAGAA
*
1904035 AGCAAAT
1 GGCAAAT
1904042 TCAGATATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (23 bp):
GGCAAATAACTTGCAATTCAGAA
Found at i:1904838 original size:22 final size:22
Alignment explanation
Indices: 1904813--1904855 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1904803 AACTATATAT
* * *
1904813 ATATTTTTTTTTTTATAAATAA
1 ATATTTATTTATTTAAAAATAA
1904835 ATATTTATTTATTTAAAAATA
1 ATATTTATTTATTTAAAAATA
1904856 TCGGAATAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTATTTATTTAAAAATAA
Found at i:1906456 original size:24 final size:20
Alignment explanation
Indices: 1906429--1906486 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
1906419 GCATGGGTAG
1906429 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
1906453 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
1906473 TGTATCGATGCACT
1 TGCATCGATGCACT
1906487 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:1907750 original size:30 final size:30
Alignment explanation
Indices: 1907716--1907812 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
1907706 TCTATGATAT
1907716 GTGAATCATATAAAAATGTTCTACGCGTAA
1 GTGAATCATATAAAAATGTTCTACGCGTAA
* * ** * * * * *
1907746 GTGAACCATGTGTTTATATG-TATATGTGATAT
1 GTGAATCA--TATAAAAATGTTCTACGCG-TAA
1907778 GTGAATCATATAAAAATGTTCTACGCGTAA
1 GTGAATCATATAAAAATGTTCTACGCGTAA
1907808 GTGAA
1 GTGAA
1907813 CCATGTGTTT
Statistics
Matches: 45, Mismatches: 18, Indels: 8
0.63 0.25 0.11
Matches are distributed among these distances:
30 20 0.44
31 10 0.22
32 15 0.33
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (30 bp):
GTGAATCATATAAAAATGTTCTACGCGTAA
Found at i:1907788 original size:62 final size:62
Alignment explanation
Indices: 1907710--1907842 Score: 259
Period size: 62 Copynumber: 2.2 Consensus size: 62
1907700 ATAAGCTCTA
1907710 TGATATGTGAATCATATAAAAATGTTCTACGCGTAAGTGAACCATGTGTTTATATGTATATG
1 TGATATGTGAATCATATAAAAATGTTCTACGCGTAAGTGAACCATGTGTTTATATGTATATG
1907772 TGATATGTGAATCATATAAAAATGTTCTACGCGTAAGTGAACCATGTGTTTATATGTATATG
1 TGATATGTGAATCATATAAAAATGTTCTACGCGTAAGTGAACCATGTGTTTATATGTATATG
1907834 T-ATATGTGA
1 TGATATGTGA
1907843 TATGTGATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 8 0.11
62 63 0.89
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (62 bp):
TGATATGTGAATCATATAAAAATGTTCTACGCGTAAGTGAACCATGTGTTTATATGTATATG
Found at i:1908204 original size:23 final size:23
Alignment explanation
Indices: 1908169--1908217 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1908159 CTTTAGGGAC
* *
1908169 ATTTTATATGGCACTTCGGTGCA
1 ATTTTATACGGCACTACGGTGCA
*
1908192 ATTTTATGCGGCACTACGGTGCA
1 ATTTTATACGGCACTACGGTGCA
1908215 ATT
1 ATT
1908218 CTACATGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (23 bp):
ATTTTATACGGCACTACGGTGCA
Found at i:1908237 original size:23 final size:23
Alignment explanation
Indices: 1908176--1908237 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
1908166 GACATTTTAT
* *
1908176 ATGGCACTTCGGTGCAATTTTAT
1 ATGGCACTTCGGTGCAATTCTAC
** *
1908199 GCGGCACTACGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
1908222 ATGGCACTTCGATGCA
1 ATGGCACTTCGGTGCA
1908238 TTTATACGAG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:1912908 original size:20 final size:20
Alignment explanation
Indices: 1912856--1912911 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
1912846 GCATCTTCAT
*
1912856 GGTGTATCGATGCGCTTTCAA
1 GGTGTATCGATGCACTTT-AA
*
1912877 GGATGCATCGATGCACTGTT-A
1 GG-TGTATCGATGCACT-TTAA
1912898 GGTGTATCGATGCA
1 GGTGTATCGATGCA
1912912 TTAAGCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.37
21 5 0.17
22 12 0.40
23 2 0.07
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (20 bp):
GGTGTATCGATGCACTTTAA
Found at i:1918798 original size:65 final size:65
Alignment explanation
Indices: 1918666--1918825 Score: 236
Period size: 65 Copynumber: 2.5 Consensus size: 65
1918656 TGCACTAAGA
* * * *
1918666 GTGCATTGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATACCCTCAGTGCATCGATGCATGGCTT
*
1918730 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTCAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATACCCTCAGTGCATCGATGCATGGCT
1918793 AT
65 -T
1918795 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
1918826 CAATTTATTC
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
64 27 0.31
65 57 0.66
66 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATACCCTCAGTGCATCGATGCATGGCTT
Found at i:1918864 original size:65 final size:61
Alignment explanation
Indices: 1918666--1918866 Score: 190
Period size: 65 Copynumber: 3.1 Consensus size: 61
1918656 TGCACTAAGA
* * * *
1918666 GTGCATTGATGCATGAAGTGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTC-AATTAACCTG-GTGCATCGATGCATGG-TT
* * *
1918730 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACCCTCAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAT-TAA-CCT-GGTGCATCGATGCATGGT-
1918794 T
61 T
* *
1918795 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATGGTGCATCGAAGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA-TTA-ACC-TGGTGCATCGATGCATGG-TT
1918859 GGTGCATC
1 -GTGCATC
1918867 ACTTTGAAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
63 4 0.04
64 48 0.42
65 62 0.54
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (61 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAACCTGGTGCATCGATGCATGGTT
Found at i:1922770 original size:62 final size:62
Alignment explanation
Indices: 1922669--1922804 Score: 236
Period size: 62 Copynumber: 2.2 Consensus size: 62
1922659 TGATAAGCTC
*
1922669 TGTGATATGTGAATCATATAAAAATGTTCTACGCGTAAGTAAACCATGTGTTTATATGTATA
1 TGTGATATGTGAATCATATAAAAATGTTCTACGCATAAGTAAACCATGTGTTTATATGTATA
* *
1922731 TGTGATATGTGAATCATATAAAAATGTTCTACGCATAAGTGAACCATGTGTTTATGTGTATA
1 TGTGATATGTGAATCATATAAAAATGTTCTACGCATAAGTAAACCATGTGTTTATATGTATA
*
1922793 TGTGGTATGTGA
1 TGTGATATGTGA
1922805 TTTATATGAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (62 bp):
TGTGATATGTGAATCATATAAAAATGTTCTACGCATAAGTAAACCATGTGTTTATATGTATA
Found at i:1923178 original size:23 final size:23
Alignment explanation
Indices: 1923133--1923178 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1923123 ACATTTTATA
*
1923133 TGGCACTTCAGTGCAATTCTACG
1 TGGCACTTCAGTGCAATTATACG
*
1923156 TGGCACTTC-GATGCATTTATACG
1 TGGCACTTCAG-TGCAATTATACG
1923179 AGCTATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
TGGCACTTCAGTGCAATTATACG
Found at i:1925360 original size:42 final size:42
Alignment explanation
Indices: 1925313--1925398 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
1925303 CTCATTTGAA
* *
1925313 AACATCCTGCACTGAAGGTCTTATGGATG-CCCGAAGGACTTT
1 AACATCCTGAACTGAAGGTCTTA-AGATGACCCGAAGGACTTT
* *
1925355 AACATCTTTAACTGAAGGTCTTAAGATGACCCGAAGGACTTT
1 AACATCCTGAACTGAAGGTCTTAAGATGACCCGAAGGACTTT
1925397 AA
1 AA
1925399 ATTAAGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 4 0.10
42 35 0.90
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AACATCCTGAACTGAAGGTCTTAAGATGACCCGAAGGACTTT
Found at i:1925406 original size:129 final size:131
Alignment explanation
Indices: 1925149--1925724 Score: 838
Period size: 129 Copynumber: 4.4 Consensus size: 131
1925139 TTAGTTAACC
* * * * * * *
1925149 CCCGAAGGTTTGGTTTCTAAAATCTCATTTGCAAGCAACCAT-CACTGAAGGTCTTATAGATGAC
1 CCCGAAGGCTTAGTTTCT-AAATCTCATTTGAAAACATCC-TGCACTGAAGGTCTTATGGATGGC
** * * *
1925213 TTGAAGGACTTTAACATCTTGCCCTGAAGGCCTTACAGATGACCCAAAGGATTTTAAATTAAGAA
64 CCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTTAAATTAAGAA
1925278 ACT
129 ACT
*
1925281 CCCGAAGTCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT-GCCC
1 CCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCC
** * *
1925345 GAAGGACTTTAACATCTTTAACTGAAGGTCTTA-AGATGACCCGAAGGACTTTAAATTAAGAAAT
66 GAAGGACTTTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTTAAATTAAGAAAC
1925409 T
131 T
* *
1925410 CCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAAGTCTTATGGATGGACC
1 CCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCC
* *
1925475 TAAGGACTTTAACATCTTGC-GTGAAGGTCTTACAGATGACCCGAAGGATTTTAAATTAAGAAAC
66 GAAGGACTTTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTTAAATTAAGAAAC
1925539 T
131 T
*
1925540 -CCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCC
1 CCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCC
* * *
1925604 GAAAGACTTTAACATCTTGCACTGAAGGTTTTACAGATGGCCCGAAGGATTTTAAATTAAGAAAC
66 GAAGGACTTTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTTAAATTAAGAAAC
1925669 T
131 T
* * * *
1925670 CCTGAAGGCTTAGTTTCTAAATCTCATTTGAAAATATCTTGCACTTAAGGTCTTA
1 CCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTA
1925725 CAAATGACCA
Statistics
Matches: 401, Mismatches: 38, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
129 177 0.44
130 123 0.31
131 86 0.21
132 15 0.04
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (131 bp):
CCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCC
GAAGGACTTTAACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTTAAATTAAGAAAC
T
Found at i:1925632 original size:43 final size:43
Alignment explanation
Indices: 1925571--1925658 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
1925561 CTCATTTGAA
**
1925571 AACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAAGACTTT
1 AACATCCTGCACTAAAGGTCTTACAGATGGCCCGAAAGACTTT
* * * * *
1925614 AACATCTTGCACTGAAGGTTTTACAGATGGCCCGAAGGATTTT
1 AACATCCTGCACTAAAGGTCTTACAGATGGCCCGAAAGACTTT
1925657 AA
1 AA
1925659 ATTAAGAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AACATCCTGCACTAAAGGTCTTACAGATGGCCCGAAAGACTTT
Found at i:1925834 original size:88 final size:88
Alignment explanation
Indices: 1925614--1925834 Score: 334
Period size: 88 Copynumber: 2.5 Consensus size: 88
1925604 GAAAGACTTT
* *
1925614 AACATCTTGCACTGAAGGTTTTACAGATGGCCCGAAGGATTTTAAATTAAGAAACTCCTGAAGGC
1 AACATCTTGCACTGAAGGTCTTACAGATGGCCCGAAGGATTTTAAATTAAGAAACTCCCGAAGGC
1925679 TTAGTTTCTAAATCTCATTTGAA
66 TTAGTTTCTAAATCTCATTTGAA
* * * * * *
1925702 AATATCTTGCACTTAAGGTCTTACAAATGACCAGAATGATTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCTTGCACTGAAGGTCTTACAGATGGCCCGAAGGATTTTAAATTAAGAAACTCCCGAAGGC
1925767 TTAGTTTCTAAATCTCATTTGAA
66 TTAGTTTCTAAATCTCATTTGAA
* ** *
1925790 AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAA
1 AACATCTTGCACTGAAGGTCTTACAGATGGCCCGAAGGATTTTAA
1925835 CACCTTGCAC
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 115 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (88 bp):
AACATCTTGCACTGAAGGTCTTACAGATGGCCCGAAGGATTTTAAATTAAGAAACTCCCGAAGGC
TTAGTTTCTAAATCTCATTTGAA
Found at i:1926620 original size:22 final size:22
Alignment explanation
Indices: 1926562--1926621 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 22
1926552 AATAAAGCCT
*
1926562 TCATCTTTGAA-AAGAGAATCTA
1 TCATCTTTGAAGAA-TGAATCTA
1926584 TCATCTTTGAAGAATGAATCTA
1 TCATCTTTGAAGAATGAATCTA
1926606 TCATCTTTGAAGAATG
1 TCATCTTTGAAGAATG
1926622 TAGATGTAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAGAATGAATCTA
Found at i:1932045 original size:14 final size:13
Alignment explanation
Indices: 1932028--1932129 Score: 66
Period size: 14 Copynumber: 7.5 Consensus size: 13
1932018 CAAATGTAAA
1932028 AATGCAAAGATGTG
1 AATGCAAA-ATGTG
**
1932042 AATGC-AAATGCA
1 AATGCAAAATGTG
1932054 AATGCAAAGATGTG
1 AATGCAAA-ATGTG
*
1932068 AATGC-AAATG-C
1 AATGCAAAATGTG
1932079 AATGCAAAGATGTAG
1 AATGCAAA-ATGT-G
**
1932094 AAATGCAAAAATAAG
1 -AATGC-AAAATGTG
*
1932109 AATGCAAATTGTG
1 AATGCAAAATGTG
1932122 CAATGCAA
1 -AATGCAA
1932130 CAGCAAACAT
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
11 5 0.07
12 13 0.19
13 14 0.21
14 25 0.37
15 1 0.01
16 7 0.10
17 3 0.04
ACGTcount: A:0.48, C:0.11, G:0.22, T:0.20
Consensus pattern (13 bp):
AATGCAAAATGTG
Found at i:1932056 original size:26 final size:26
Alignment explanation
Indices: 1932027--1932102 Score: 127
Period size: 26 Copynumber: 2.9 Consensus size: 26
1932017 ACAAATGTAA
1932027 AAATGCAAAGATGTGAATGCAAATGC
1 AAATGCAAAGATGTGAATGCAAATGC
1932053 AAATGCAAAGATGTGAATGCAAATGC
1 AAATGCAAAGATGTGAATGCAAATGC
1932079 -AATGCAAAGATGTAGAAATGCAAA
1 AAATGCAAAGATGT-G-AATGCAAA
1932103 AATAAGAATG
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
25 13 0.27
26 27 0.56
27 8 0.17
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (26 bp):
AAATGCAAAGATGTGAATGCAAATGC
Found at i:1945454 original size:13 final size:13
Alignment explanation
Indices: 1945436--1945460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1945426 ATTAAATAAA
1945436 AATAAATATTTTC
1 AATAAATATTTTC
1945449 AATAAATATTTT
1 AATAAATATTTT
1945461 TTTAATTAAA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAAATATTTTC
Found at i:1945470 original size:56 final size:56
Alignment explanation
Indices: 1945399--1945513 Score: 171
Period size: 56 Copynumber: 2.1 Consensus size: 56
1945389 ATCTATACAT
1945399 TATTTTTTTAATTAAATCT-CTATTTTTATTAAATAAAAATAA-ATATTTTCAATAAA
1 TATTTTTTTAATTAAAT-TACTATTTTTATTAAATAAAAATAATA-ATTTTCAATAAA
* * *
1945455 TATTTTTTTAATTAAATTATTATTTTTATTGAATAAAAATAATAATTTTTAATAAA
1 TATTTTTTTAATTAAATTACTATTTTTATTAAATAAAAATAATAATTTTCAATAAA
1945511 TAT
1 TAT
1945514 ATCATTTTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
55 1 0.02
56 52 0.96
57 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (56 bp):
TATTTTTTTAATTAAATTACTATTTTTATTAAATAAAAATAATAATTTTCAATAAA
Found at i:1945475 original size:17 final size:17
Alignment explanation
Indices: 1945397--1945482 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 17
1945387 CTATCTATAC
1945397 ATTATTTTTTTAATTAA
1 ATTATTTTTTTAATTAA
*
1945414 ATCTCTATTTTTATTAAATAAAA
1 A--T-TATTTTT-TT-AAT-TAA
* * *
1945437 ATAAATATTTTCAA-TAA
1 AT-TATTTTTTTAATTAA
1945454 A-TATTTTTTTAATTAA
1 ATTATTTTTTTAATTAA
1945470 ATTATTATTTTTA
1 ATTATT-TTTTTA
1945483 TTGAATAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 17
0.66 0.12 0.22
Matches are distributed among these distances:
15 8 0.16
16 4 0.08
17 8 0.16
18 6 0.12
19 3 0.06
20 8 0.16
21 8 0.16
22 3 0.06
23 3 0.06
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTTTTTTAATTAA
Found at i:1957827 original size:2 final size:2
Alignment explanation
Indices: 1957820--1957850 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1957810 GATTTTGTAT
1957820 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1957851 TACATGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1960634 original size:13 final size:14
Alignment explanation
Indices: 1960599--1960637 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1960589 GTAAAATTCT
*
1960599 AAATATTTAAATAA
1 AAATATTTATATAA
1960613 AAATATTTATATAA
1 AAATATTTATATAA
1960627 AAAT-TTTATAT
1 AAATATTTATAT
1960638 GTTGATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTTATATAA
Found at i:1963366 original size:27 final size:27
Alignment explanation
Indices: 1963300--1963354 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1963290 CCAAGGTTGG
*
1963300 ACAAAGCATTCTAAATGCAACTCATAA
1 ACAAAACATTCTAAATGCAACTCATAA
* *
1963327 ACAAAACACTCTAAATGCAACTCTTAA
1 ACAAAACATTCTAAATGCAACTCATAA
1963354 A
1 A
1963355 TTTATCATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (27 bp):
ACAAAACATTCTAAATGCAACTCATAA
Found at i:1963963 original size:20 final size:20
Alignment explanation
Indices: 1963916--1963963 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1963906 AGGGAAGAAA
*
1963916 ATTACTATTGGTATTACTTC
1 ATTACTGTTGGTATTACTTC
1963936 ATTACTGTTGGTATTACTTC
1 ATTACTGTTGGTATTACTTC
*
1963956 ATTCCTGT
1 ATTACTGT
1963964 CATTTGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTACTGTTGGTATTACTTC
Found at i:1968349 original size:18 final size:18
Alignment explanation
Indices: 1968328--1968378 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1968318 GCAGCTGGGG
*
1968328 ATGGGCGCCCAGCCAGGA
1 ATGGGTGCCCAGCCAGGA
* * * *
1968346 ATGGATACTCAGCCAGGG
1 ATGGGTGCCCAGCCAGGA
1968364 ATGGGTGCCCAGCCA
1 ATGGGTGCCCAGCCA
1968379 ATTACTCACT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (18 bp):
ATGGGTGCCCAGCCAGGA
Found at i:1974770 original size:22 final size:22
Alignment explanation
Indices: 1974742--1974785 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1974732 AATCGAATAA
1974742 GTTCCTTATAGCAAAAAGATAG
1 GTTCCTTATAGCAAAAAGATAG
1974764 GTTCCTTATAGCAAAAAGATAG
1 GTTCCTTATAGCAAAAAGATAG
1974786 AAAACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
GTTCCTTATAGCAAAAAGATAG
Found at i:1977128 original size:16 final size:17
Alignment explanation
Indices: 1977107--1977140 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1977097 TTGGCTTTTT
*
1977107 TTATTTGTA-TTTAAAA
1 TTATTTGAATTTTAAAA
1977123 TTATTTGAATTTTAAAA
1 TTATTTGAATTTTAAAA
1977140 T
1 T
1977141 ATTAATGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TTATTTGAATTTTAAAA
Found at i:1979578 original size:188 final size:182
Alignment explanation
Indices: 1979144--1979654 Score: 473
Period size: 188 Copynumber: 2.8 Consensus size: 182
1979134 ACATGGTTGC
* * * * *
1979144 TCCTTGATATTTGGTTGTACCCTTGAACTTTGATTTTGCTGTTTCTAATAGTTTCCTGCCTGTCT
1 TCCTTGATATTTGGTTG-AACCTTGAACTTTGATTTTGTTGTTTTTAATTGTTTCTTGCCT-TCT
* * * * * * * *
1979209 TCTAATGATTCA-GGACAAGCACGTAATAGTTAGTTTTAAAGTTCTCCTAGTCCTCTGCACCACC
64 TCTAATGATTTACGGATAAGCACTTAATTGTTAGCTTTAAATTTCTCCTAGTCTTCTGCATCACC
* * * * * * *
1979273 TTGGCCAGCTACTGGAGGGTTTAAACTGGAATCTTGTTTAGCTTTTTATATCAG
129 TTGGCAAGCTAATGGAGGGTTTAAACTGGAATCCTCTTTAGCTATTGAAATCAG
* *
1979327 TCCTTGATCTTTGGTTGAACCTTTGAACTTTGATTTT-TAT-TTTTTTATTGTTTCCTGTGCCTT
1 TCCTTGATATTTGGTTGAACC-TTGAACTTTGATTTTGT-TGTTTTTAATTGTTT-CT-TGCCTT
* *
1979390 CAGAATTCTAATGATTTACGGGTAAGCACTTAATTGTTAGCTTTAGATTTCTCCTAGTCTTCTGC
62 C----TTCTAATGATTTACGGATAAGCACTTAATTGTTAGCTTTAAATTTCTCCTAGTCTTCTGC
* **
1979455 ATCACCTTGGCAAGCTAATGGAGGG-TTAAATTGGAATCCTCTTTTTCATATTGAAAT-AG
123 ATCACCTTGGCAAGCTAATGGAGGGTTTAAACTGGAATCCTCTTTAGC-TATTGAAATCAG
* *
1979514 TACTCTTTGAT-TTTGGTTGAATCCTTGAACCTCGATTTTGTTGTTTTTAATTGTTTCTTGCCTT
1 T-C-C-TTGATATTTGGTTGAA-CCTTGAACTTTGATTTTGTTGTTTTTAATTGTTTCTTGCCTT
* * * * * *
1979578 CCTTCTAATGATTT-CTAGATGACCAGTTAGTTGTTA-CTTCTAAATTTCTTCC-AGTCTTTTGC
62 -CTTCTAATGATTTAC-GGATAAGCACTTAATTGTTAGCTT-TAAATTTC-TCCTAGTCTTCTGC
1979640 ATCACCTTGGCAAGC
123 ATCACCTTGGCAAGC
1979655 AGACACAAAG
Statistics
Matches: 270, Mismatches: 38, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
182 13 0.05
183 35 0.13
184 9 0.03
185 57 0.21
186 3 0.01
187 32 0.12
188 73 0.27
189 28 0.10
190 20 0.07
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (182 bp):
TCCTTGATATTTGGTTGAACCTTGAACTTTGATTTTGTTGTTTTTAATTGTTTCTTGCCTTCTTC
TAATGATTTACGGATAAGCACTTAATTGTTAGCTTTAAATTTCTCCTAGTCTTCTGCATCACCTT
GGCAAGCTAATGGAGGGTTTAAACTGGAATCCTCTTTAGCTATTGAAATCAG
Found at i:1982918 original size:18 final size:18
Alignment explanation
Indices: 1982895--1982937 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1982885 GTATATTGGT
1982895 GGATTTCCCACTTGTGGA
1 GGATTTCCCACTTGTGGA
1982913 GGATTTCCCACTTGTGGA
1 GGATTTCCCACTTGTGGA
*
1982931 GGGTTTC
1 GGATTTC
1982938 AAGAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.21, G:0.30, T:0.35
Consensus pattern (18 bp):
GGATTTCCCACTTGTGGA
Found at i:1988353 original size:12 final size:13
Alignment explanation
Indices: 1988336--1988364 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1988326 TTTTAATAAG
1988336 AATAATTTA-TTT
1 AATAATTTATTTT
1988348 AATAATTTATTTT
1 AATAATTTATTTT
1988361 AATA
1 AATA
1988365 TATTGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATAATTTATTTT
Found at i:1988795 original size:21 final size:20
Alignment explanation
Indices: 1988738--1988795 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
1988728 TTTTTTTTAA
*
1988738 TTTTTAATAATAAAAATATAT
1 TTTTTAA-AATAAAATTATAT
*
1988759 TTTTTAAAATTAAAATTTTATT
1 TTTTTAAAA-TAAAATTATA-T
1988781 TTTTTAAAATAAAAT
1 TTTTTAAAATAAAAT
1988796 ATTAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 21 0.64
22 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTTAAAATAAAATTATAT
Found at i:2009506 original size:13 final size:13
Alignment explanation
Indices: 2009490--2009547 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
2009480 ATATATAAAC
2009490 TATATAATTTATA
1 TATATAATTTATA
2009503 TATATAA--TATA
1 TATATAATTTATA
*
2009514 TACATAATTTATA
1 TATATAATTTATA
* *
2009527 TTTATATTATTATA
1 TATATAAT-TTATA
2009541 TACTATA
1 TA-TATA
2009548 TAGATAAACC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 10 0.28
13 16 0.44
14 6 0.17
15 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATAATTTATA
Found at i:2009520 original size:24 final size:22
Alignment explanation
Indices: 2009478--2009532 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
2009468 ATTTTATACA
2009478 ATATATATAAACTATATAATTT
1 ATATATATAAACTATATAATTT
2009500 ATATATATAATA-TATACATAATTT
1 ATATATATAA-ACTAT--ATAATTT
*
2009524 ATATTTATA
1 ATATATATA
2009533 TTATTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 13 0.45
23 1 0.03
24 15 0.52
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATATATAAACTATATAATTT
Found at i:2009598 original size:36 final size:35
Alignment explanation
Indices: 2009537--2009605 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
2009527 TTTATATTAT
*
2009537 TATATACTATATAGATAAACCATATAGTTTATACG
1 TATATACTATATAGATAAACCATATAATTTATACG
*
2009572 TATATACTACTAT-GTATAAACTATATAATTTATA
1 TATATACTA-TATAG-ATAAACCATATAATTTATA
2009606 TATATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 10 0.33
36 20 0.67
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (35 bp):
TATATACTATATAGATAAACCATATAATTTATACG
Found at i:2009624 original size:28 final size:27
Alignment explanation
Indices: 2009593--2009652 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 27
2009583 ATGTATAAAC
2009593 TATA-TAATTTATATATATTATATTATAT
1 TATATTAATTTATATATATTA-A-TATAT
**
2009621 TATATTTTTTTTATATATATTAATATAT
1 TATA-TTAATTTATATATATTAATATAT
2009649 TATA
1 TATA
2009653 ATTGTTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 13 0.46
29 1 0.04
30 14 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TATATTAATTTATATATATTAATATAT
Found at i:2009660 original size:28 final size:30
Alignment explanation
Indices: 2009600--2009661 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
2009590 AACTATATAA
* *
2009600 TTTATATATATTATATTATATTATATTTTT
1 TTTATATATATTATATTATATTATAATTGT
2009630 TTTATATATATTA-A-TATATTATAATTGT
1 TTTATATATATTATATTATATTATAATTGT
2009658 TTTA
1 TTTA
2009662 GTTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 16 0.53
29 1 0.03
30 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTATATATATTATATTATATTATAATTGT
Found at i:2014460 original size:41 final size:41
Alignment explanation
Indices: 2014414--2014942 Score: 851
Period size: 41 Copynumber: 12.9 Consensus size: 41
2014404 ACGCGATAGT
* *
2014414 CGAAGTTCACGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
2014455 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
2014496 CAAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
2014537 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
2014578 TGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
2014619 CGAAGTTCGTATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* * * *
2014660 TGAAGTTCGCATTGCAATTCATTCCAATTCGTTACGATAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
2014701 CGAAGTTCGTATTGCGATTCATTCCAATTCGTTGCGACAGA
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
2014742 CGAATTTCGCATTGCGATTCATTCCAATTCGTTGCGACAAG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* * *
2014783 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTACAACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
2014824 CGAAGTTTGCATTGCGATTCATTCCAATTTGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* **
2014865 TGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATA
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
2014906 CGAAGTTTGCATTGCGATTCATTCCAATTCGTTGCGA
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGA
2014943 TTCATTCCAA
Statistics
Matches: 447, Mismatches: 41, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 447 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (41 bp):
CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
Found at i:2014972 original size:19 final size:21
Alignment explanation
Indices: 2014917--2014973 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
2014907 GAAGTTTGCA
*
2014917 TTGCGATTCATTCC-AATTCG
1 TTGCGATTCAGTCCAAATTCG
*
2014937 TTGCGATTCATTCCAAATTCG
1 TTGCGATTCAGTCCAAATTCG
2014958 TTGCGA-T-AGTCCAAAT
1 TTGCGATTCAGTCCAAAT
2014974 ATTGCATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 8 0.23
20 15 0.43
21 12 0.34
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (21 bp):
TTGCGATTCAGTCCAAATTCG
Found at i:2015749 original size:6 final size:6
Alignment explanation
Indices: 2015729--2015766 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2015719 TCCCGTCTCG
*
2015729 GGTCG- GGTAGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
2015767 AATACGTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.03, C:0.13, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:2015907 original size:41 final size:41
Alignment explanation
Indices: 2015844--2016384 Score: 832
Period size: 41 Copynumber: 13.2 Consensus size: 41
2015834 AATATTTGGA
* * *
2015844 CTATCACAACGAATTTGGAATGAATCGCAATGCGAACTTCAC
1 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGC
*
2015886 CTATCGCAACGATTTGGAATGAATCGC-ATGCGAACTTCGC
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
* *
2015926 CTATCGCAACGAATTAGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
*
2015967 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGA
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
* * *
2016008 CTATCGCAACGAATTGAAATGAATCGCAACACGAACTTCGC
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
* *
2016049 CTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGG
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
2016090 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
* * *
2016131 CTATCGCAACGATTTGGAATGAATCGCAACACGAACTTTGA
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
2016172 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
* * * *
2016213 CTGTCGCAACGAATTGGAATGAATCGCAATGTGAACTTCGC
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
*
2016254 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGA
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
*
2016295 CTATCGCAACGATTTGGAATGAATCGCAACACGAACTTCGC
1 CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
* * * *
2016336 CTATCGCAACGAATTTGGAATAAATCGCAATGCGAAATTCGA
1 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGC
2016378 CTATCGC
1 CTATCGC
2016385 GTTACGAATC
Statistics
Matches: 458, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
40 37 0.08
41 379 0.83
42 42 0.09
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
CTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGC
Found at i:2016362 original size:21 final size:20
Alignment explanation
Indices: 2015969--2016365 Score: 96
Period size: 21 Copynumber: 19.4 Consensus size: 20
2015959 AACTTCGCCT
2015969 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
* * *
2015989 ATCGCAACGCGAACTTCGACT-
1 ATCGCAA--CGAATTTGGAATA
*
2016010 ATCGCAACGAA-TTGAAATGA
1 ATCGCAACGAATTTGGAAT-A
* * **
2016030 ATCGCAACACGAACTTCGCCT-
1 ATCGC-A-ACGAATTTGGAATA
2016051 ATCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
* *
2016071 ATCGCAACGCGAACTTCGG-CT-
1 ATCGCAA--CGAA-TTTGGAATA
2016092 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
* * **
2016112 ATCGCAACGCGAACTTCGCCT-
1 ATCGCAA--CGAATTTGGAATA
2016133 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
*
2016153 ATCGCAACACGAACTTT-GACT-
1 ATCGC-A-ACGAA-TTTGGAATA
2016174 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
* * **
2016194 ATCGCAACGCGAACTTCGCCT-
1 ATCGCAA--CGAATTTGGAATA
*
2016215 GTCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
* * * **
2016235 ATCGCAATGTGAACTTCGCCT-
1 ATCGCAA--CGAATTTGGAATA
2016256 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
* * *
2016276 ATCGCAACGCGAACTTCGACT-
1 ATCGCAA--CGAATTTGGAATA
2016297 ATCGCAACG-ATTTGGAATGA
1 ATCGCAACGAATTTGGAAT-A
* * **
2016317 ATCGCAACACGAACTTCGCCT-
1 ATCGC-A-ACGAATTTGGAATA
2016338 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAAT-A
2016359 ATCGCAA
1 ATCGCAA
2016366 TGCGAAATTC
Statistics
Matches: 269, Mismatches: 59, Indels: 97
0.63 0.14 0.23
Matches are distributed among these distances:
17 7 0.03
18 34 0.13
19 32 0.12
20 59 0.22
21 66 0.25
22 26 0.10
23 39 0.14
24 6 0.02
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAATTTGGAATA
Found at i:2018243 original size:23 final size:23
Alignment explanation
Indices: 2018214--2018259 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2018204 TTAGAGATTG
2018214 TTGGCGTGAGAACCATCAAATTA
1 TTGGCGTGAGAACCATCAAATTA
*
2018237 TTGGCGTGGGAACCATCAAATTA
1 TTGGCGTGAGAACCATCAAATTA
2018260 AAGTTGTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (23 bp):
TTGGCGTGAGAACCATCAAATTA
Found at i:2019422 original size:21 final size:21
Alignment explanation
Indices: 2019396--2019449 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2019386 TTACACTTAG
*
2019396 GGAACCGATTCCCTATGAGGA
1 GGAACCGATTCCCTATAAGGA
*
2019417 GGAACCGATTCCCTATAAGGG
1 GGAACCGATTCCCTATAAGGA
2019438 GGAACCGATTCC
1 GGAACCGATTCC
2019450 TCCCACACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (21 bp):
GGAACCGATTCCCTATAAGGA
Found at i:2025227 original size:8 final size:8
Alignment explanation
Indices: 2025214--2025239 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2025204 GGCCAGAACA
2025214 CCCAAAAC
1 CCCAAAAC
2025222 CCCAAAAC
1 CCCAAAAC
2025230 CCCAAAAC
1 CCCAAAAC
2025238 CC
1 CC
2025240 TTCCACCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.54, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCAAAAC
Found at i:2025573 original size:18 final size:18
Alignment explanation
Indices: 2025538--2025572 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2025528 AAAAACACAA
2025538 AAATTTTCCAAAAATTTT
1 AAATTTTCCAAAAATTTT
*
2025556 AAATTTT-CGAAAATTTT
1 AAATTTTCCAAAAATTTT
2025573 TTTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATTTTCCAAAAATTTT
Found at i:2027444 original size:19 final size:19
Alignment explanation
Indices: 2027420--2027459 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2027410 AGTGTAAGTG
2027420 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
2027439 TGTGTTTTAAAATGATAAA
1 TGTGTTTTAAAATGATAAA
2027458 TG
1 TG
2027460 AGAGAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TGTGTTTTAAAATGATAAA
Found at i:2027971 original size:21 final size:21
Alignment explanation
Indices: 2027945--2027998 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 21
2027935 TTACACTTAG
2027945 GGAACCGATTCCCTATGAGGA
1 GGAACCGATTCCCTATGAGGA
*
2027966 GGAACCGATT-CCTATGAGGG
1 GGAACCGATTCCCTATGAGGA
2027986 GGAACCGATTCCC
1 GGAACCGATTCCC
2027999 CCACGCTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (21 bp):
GGAACCGATTCCCTATGAGGA
Found at i:2033199 original size:215 final size:211
Alignment explanation
Indices: 2032801--2033332 Score: 745
Period size: 215 Copynumber: 2.5 Consensus size: 211
2032791 TTTTTTTATT
* * * *
2032801 TCGGGTCGGGTTTTTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCG
1 TCGGGTCGGATTTCTAATTCATATATTCGGGTCGGCTCGGATGAAACTTTATTTT-GT----TCG
* *
2032866 GATCGGGTTTTTTTAAGTGTGATA-T----TCGGGTCGGATTCGGGTTTAGGGTGAAAAAAACCG
61 GGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGGGTCGGATTCGAGTTTAGGGTGAAAAAAACCG
* *
2032926 GACCGACCCGAAAATATATATATTTCAGGTCGGGTCGTATTAAGTCACTGTTTTTATTAAATAAA
125 GACCGACCCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAA
2032991 AATAATTTTTTATTATTTTGGGTCGGG
190 AATAATTTTTTATTA--TT---TCGGG
*
2033018 TCGGGTTGGATTTCTAATTCATATATTCGGGTCGGCTCGGATGAAACTTTATTTTGTTCGGGTCG
1 TCGGGTCGGATTTCTAATTCATATATTCGGGTCGGCTCGGATGAAACTTTATTTTGTTCGGGTCG
* *
2033083 GGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGGTG-AAAAAATCGGACCGA
66 GGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGATTCGAGTTTAGGGTGAAAAAAACCGGACCGA
*
2033147 CCCGAAAATATATATAATTC-GGTTCGGGTCGGATTAAGTCACTTTTTTTATTAAATAAAAATAA
131 CCCGAAAATATATATAATTCAGG-TCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAA
2033211 TTTTTTATTATTTCGGG
195 TTTTTTATTATTTCGGG
2033228 TCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCG
1 TCGGGTCGGATTTCTAATTCATATATTCGGGTC-GG-C---TCGGATGAAACTTTATTTTGTTCG
*
2033293 GGTCGGATTTTTTAAGTGTGATATTCGGGTCGGGTCGGAT
61 GGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGAT
2033333 CGGGTTTTTT
Statistics
Matches: 289, Mismatches: 15, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
210 37 0.13
211 18 0.06
212 11 0.04
213 2 0.01
214 2 0.01
215 144 0.50
216 25 0.09
217 50 0.17
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.38
Consensus pattern (211 bp):
TCGGGTCGGATTTCTAATTCATATATTCGGGTCGGCTCGGATGAAACTTTATTTTGTTCGGGTCG
GGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGATTCGAGTTTAGGGTGAAAAAAACCGGACCGA
CCCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAAT
TTTTTATTATTTCGGG
Found at i:2033352 original size:37 final size:37
Alignment explanation
Indices: 2033290--2033377 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
2033280 TTTATTTTGT
* * *
2033290 TCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGATCGGGTTTTTTAAGTATGATATTCGGGTCGGG
2033327 TCGGATCGGGTTTTTTAAGTATGATATTCGGGTCGGG
1 TCGGATCGGGTTTTTTAAGTATGATATTCGGGTCGGG
*
2033364 TCGGGTTCGGGTTT
1 TC-GGATCGGGTTT
2033378 AAGGTGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 36 0.78
38 10 0.22
ACGTcount: A:0.12, C:0.11, G:0.38, T:0.39
Consensus pattern (37 bp):
TCGGATCGGGTTTTTTAAGTATGATATTCGGGTCGGG
Found at i:2033607 original size:248 final size:249
Alignment explanation
Indices: 2033075--2033661 Score: 877
Period size: 253 Copynumber: 2.4 Consensus size: 249
2033065 TTTATTTTGT
* *
2033075 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGGTGAAAAAATC
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAAGGTGAAAAAAAC
* * * *
2033140 GGACCGACCCGAAAATATATATAATTCGGTTCGGGTCGGATTAAGTCACTTTTTTTATTAAATAA
66 GGACCGACCCAAAAATATATATAATTCGGGTCGGCTCGGATTAAGTCACTGTTTTTATTAAATAA
*
2033205 AAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGGT
131 AAATAATTTTTTATTATTTCGGGTCGGGTCAGATTTCTAATTCATATATT---GTCGGGTCGGGT
* *
2033270 CGGATGAAACTTTATTTTGTTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGGG
193 CGGATGAAACTTTATTTTATTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGAG
* * *
2033327 TCGGATCGGGTTTTTTAAGTATGATATTCGGGTCGGGTCGGGTTCGGGTTTAAGGTGAAAAAAAC
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAAGGTGAAAAAAAC
*
2033392 TGGACTGACCCAAAAATATATATAATTCGGGTCGGCTCGGATTAAGTCACTGTTTTTATTAAATA
66 -GGACCGACCCAAAAATATATATAATTCGGGTCGGCTCGGATTAAGTCACTGTTTTTATTAAATA
*
2033457 AAAATATTTTTTTATTATTTCGGGTCGGGTCAGATTT-TAAATTCATATA-T-TCGGGTCGGGTC
130 AAAATAATTTTTTATTATTTCGGGTCGGGTCAGATTTCT-AATTCATATATTGTCGGGTCGGGTC
*
2033519 GGATGAAACTTTATTTTATTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTTGAG
194 GGATGAAACTTTATTTTATTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGAG
* * *
2033575 TCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCAGGTC--G---G-GTTTAGGGTGAAAAAAAC
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAAGGTGAAAAAAA-
*
2033634 CGGACCGACCCGAAAAAAATATATAATT
65 CGGACCGACCC-AAAAATATATATAATT
2033662 TTACCTTATA
Statistics
Matches: 309, Mismatches: 22, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
242 25 0.08
243 17 0.06
246 1 0.00
248 100 0.32
252 62 0.20
253 104 0.34
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (249 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAAGGTGAAAAAAAC
GGACCGACCCAAAAATATATATAATTCGGGTCGGCTCGGATTAAGTCACTGTTTTTATTAAATAA
AAATAATTTTTTATTATTTCGGGTCGGGTCAGATTTCTAATTCATATATTGTCGGGTCGGGTCGG
ATGAAACTTTATTTTATTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:2033615 original size:37 final size:37
Alignment explanation
Indices: 2033538--2033617 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
2033528 TTTATTTTAT
*
2033538 TCGGGTCGGATTTTTTAAGTGTGATATTCGGGTTGAG
1 TCGGGTCGGATTTTTTAAGTGTGATATTCGGGTAGAG
*
2033575 TCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCAG-G
1 TCGGGTCGGATTTTTTAAGTGTGATATTCGGGT-AGAG
2033612 TCGGGT
1 TCGGGT
2033618 TTAGGGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 39 0.98
38 1 0.03
ACGTcount: A:0.14, C:0.10, G:0.36, T:0.40
Consensus pattern (37 bp):
TCGGGTCGGATTTTTTAAGTGTGATATTCGGGTAGAG
Found at i:2034146 original size:18 final size:17
Alignment explanation
Indices: 2034111--2034157 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
2034101 ATGGAATTAG
2034111 ATTCCAATTC-CTACAA
1 ATTCCAATTCTCTACAA
*
2034127 ATTCCAATTCTTTCACAA
1 ATTCCAATTCTCT-ACAA
*
2034145 ATTCTAATTCTCT
1 ATTCCAATTCTCT
2034158 CATAAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 10 0.38
17 1 0.04
18 15 0.58
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTCCAATTCTCTACAA
Found at i:2038382 original size:174 final size:176
Alignment explanation
Indices: 2038038--2038387 Score: 670
Period size: 174 Copynumber: 2.0 Consensus size: 176
2038028 GTGGGATTAC
2038038 TATTTTCATCCTGAGGTTCGCTAGATATAAAATATTGATTATTCATCAATCAATTACGATTTCAT
1 TATTTTCATCCTGAGGTTCGCTAGATATAAAATATTGATTATTCATCAATCAATTACGATTTCAT
2038103 AGGGGTTTTAGTCGCTGAGAGGAGGGGAGGTCGGGTTTCGCGGTGGCCAGTGTGGGTTTAGGGGT
66 AGGGGTTTTAGTCGCTGAGAGGAGGGGAGGTCGGGTTTCGCGGTGGCCAGTGTGGGTTTAGGGGT
2038168 CGAATGAATGTTTTTAAAGTTTAAGGTTTATTTCAAAATTTGTTTT
131 CGAATGAATGTTTTTAAAGTTTAAGGTTTATTTCAAAATTTGTTTT
2038214 TATTTTCATCCTGAGGTTCGCTAGATAT-AAATATTGATTATTCATCAATCAATTACGATTTCAT
1 TATTTTCATCCTGAGGTTCGCTAGATATAAAATATTGATTATTCATCAATCAATTACGATTTCAT
2038278 AGGGGTTTTAGTCGCTGAGAGGA-GGGAGGTCGGGTTTCGCGGTGG-CAGTGTGGGTTTAGGGGT
66 AGGGGTTTTAGTCGCTGAGAGGAGGGGAGGTCGGGTTTCGCGGTGGCCAGTGTGGGTTTAGGGGT
2038341 CGAAATGAATGTTTTTAAAGTTTAAGGTTTATTTCAAAATTTGTTTT
131 CG-AATGAATGTTTTTAAAGTTTAAGGTTTATTTCAAAATTTGTTTT
2038388 CTTTTAATAT
Statistics
Matches: 173, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
173 20 0.12
174 66 0.38
175 59 0.34
176 28 0.16
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.38
Consensus pattern (176 bp):
TATTTTCATCCTGAGGTTCGCTAGATATAAAATATTGATTATTCATCAATCAATTACGATTTCAT
AGGGGTTTTAGTCGCTGAGAGGAGGGGAGGTCGGGTTTCGCGGTGGCCAGTGTGGGTTTAGGGGT
CGAATGAATGTTTTTAAAGTTTAAGGTTTATTTCAAAATTTGTTTT
Found at i:2039102 original size:36 final size:36
Alignment explanation
Indices: 2039028--2039102 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
2039018 TTTTTATATT
*
2039028 TTTAATTTTGTAAAAAAAATTATATAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAATATTATCAA
* *
2039064 TTTAATTTT-TAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATAT-AATATTAT-CAA
2039100 TTT
1 TTT
2039103 GTAATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 5 0.15
35 15 0.44
36 14 0.41
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAAATTATATAATATTATCAA
Found at i:2039283 original size:20 final size:20
Alignment explanation
Indices: 2039247--2039284 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2039237 ATCCTATTCC
**
2039247 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2039267 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2039285 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2049701 original size:26 final size:26
Alignment explanation
Indices: 2049671--2049729 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
2049661 TAGTTGGTCT
2049671 ATAAATATAAAAGAAAAATGTAATAA
1 ATAAATATAAAAGAAAAATGTAATAA
* *
2049697 ATAAAAATAAAAGAAAATTGTAATAA
1 ATAAATATAAAAGAAAAATGTAATAA
2049723 ATAAATA
1 ATAAATA
2049730 AACGTTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (26 bp):
ATAAATATAAAAGAAAAATGTAATAA
Found at i:2051093 original size:20 final size:21
Alignment explanation
Indices: 2051056--2051099 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2051046 AAAAGTTATT
** *
2051056 TATGAATAATTTTCAAATATA
1 TATGAATAATTTAAAAATAAA
2051077 TATGAA-AATTTAAAAATAAA
1 TATGAATAATTTAAAAATAAA
2051097 TAT
1 TAT
2051100 AGTTAGTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TATGAATAATTTAAAAATAAA
Found at i:2052644 original size:21 final size:21
Alignment explanation
Indices: 2052619--2052663 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2052609 TGTTTTCATG
*
2052619 TTTTAAA-AGCTTTAAAACCAT
1 TTTTAAATA-CTTTAAAAACAT
2052640 TTTTAAATACTTTAAAAACAT
1 TTTTAAATACTTTAAAAACAT
2052661 TTT
1 TTT
2052664 AATCAACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTTAAATACTTTAAAAACAT
Found at i:2054876 original size:156 final size:157
Alignment explanation
Indices: 2054509--2054882 Score: 511
Period size: 157 Copynumber: 2.4 Consensus size: 157
2054499 ACAATAACAT
* *
2054509 AAAA-TTTTCAGTGATATATCACTTCAATTCAGTGATTTATCATACCATTGAATGATGTTTTTAA
1 AAAACTTTTTAGTGATATATCACTTCAATTCAGTGATATATCATACCATTGAATGATGTTTTTAA
* * * *
2054573 CTTATTTCCCTTTAATGAAAAACGTCATTTTCTAATAGACCATTTAGTACACAATTACAAAAAAC
66 CTTATATCCCTTTAATGAAAAACATAATTTTCTAATAGACCATTTAGTACACAATGACAAAAAAC
* *
2054638 TTTTCAGTACACAATCACTTTATTTTA
131 TTTTCAGTACACAATCACTTCATTTCA
* * * *
2054665 GAAACTTTTTAATGATATATCACTTCAATTCAGTGATATATCATACCATTGAATGATTTTTTTGA
1 AAAACTTTTTAGTGATATATCACTTCAATTCAGTGATATATCATACCATTGAATGATGTTTTTAA
* *
2054730 CTTGTATCCCTTTAATGAAAAACATAATTTTCTCATAGACCATTTTA-TACACAATGAC-AAAAA
66 CTTATATCCCTTTAATGAAAAACATAATTTTCTAATAGACCA-TTTAGTACACAATGACAAAAAA
* * *
2054793 CTTTTTAGTGCCCAATCACTTCATTTCA
130 CTTTTCAGTACACAATCACTTCATTTCA
* * * * **
2054821 AAAACTTTTTAGTAATATATCACTTCAGTTCAGTGATATATCAGACAATAAAATGATGTTTT
1 AAAACTTTTTAGTGATATATCACTTCAATTCAGTGATATATCATACCATTGAATGATGTTTT
2054883 AACCATATTT
Statistics
Matches: 190, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
156 84 0.44
157 102 0.54
158 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (157 bp):
AAAACTTTTTAGTGATATATCACTTCAATTCAGTGATATATCATACCATTGAATGATGTTTTTAA
CTTATATCCCTTTAATGAAAAACATAATTTTCTAATAGACCATTTAGTACACAATGACAAAAAAC
TTTTCAGTACACAATCACTTCATTTCA
Found at i:2056447 original size:20 final size:18
Alignment explanation
Indices: 2056379--2056445 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 18
2056369 TTATTTATGA
*
2056379 AGTATCAATACCTGAAGGGC
1 AGTATCGATACCT-AA-GGC
2056399 AGTATCGATACC-AAGG-
1 AGTATCGATACCTAAGGC
*
2056415 -GTACCGATACCATAAGGTC
1 AGTATCGATACC-TAAGG-C
2056434 AGTATCGATACC
1 AGTATCGATACC
2056446 ATTTTTGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 10 0.26
17 6 0.15
18 2 0.05
20 21 0.54
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (18 bp):
AGTATCGATACCTAAGGC
Found at i:2057544 original size:20 final size:20
Alignment explanation
Indices: 2057511--2057618 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
2057501 TTGCAGCCTT
*
2057511 GATGCATGGATGCATCGCAG
1 GATGCATCGATGCATCGCAG
*
2057531 GATACATCGATGCAT-G--G
1 GATGCATCGATGCATCGCAG
*
2057548 CA---AT-GATGCATCGCAG
1 GATGCATCGATGCATCGCAG
*
2057564 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATCGC-AG
* *
2057585 GATGCATCGATGCATAGCAA
1 GATGCATCGATGCATCGCAG
2057605 GATGCATCGATGCA
1 GATGCATCGATGCA
2057619 CTAATTGCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.10
14 3 0.04
16 2 0.03
17 2 0.03
19 3 0.04
20 37 0.51
21 19 0.26
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (20 bp):
GATGCATCGATGCATCGCAG
Found at i:2057561 original size:33 final size:33
Alignment explanation
Indices: 2057518--2057593 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
2057508 CTTGATGCAT
2057518 GGATGCATCGCAGGATACATCGATGCATGGCAA
1 GGATGCATCGCAGGATACATCGATGCATGGCAA
* *
2057551 TGATGCATCGCAGGATGCATCGATGCATGGCAA
1 GGATGCATCGCAGGATACATCGATGCATGGCAA
2057584 GGATGCATCG
1 GGATGCATCG
2057594 ATGCATAGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.20
Consensus pattern (33 bp):
GGATGCATCGCAGGATACATCGATGCATGGCAA
Found at i:2057609 original size:33 final size:33
Alignment explanation
Indices: 2057518--2057611 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
2057508 CTTGATGCAT
* * *
2057518 GGATGCATCGCAGGATACATCGATGCATGGCAA
1 GGATGCATCGCAGCATGCATAGATGCATGGCAA
* * *
2057551 TGATGCATCGCAGGATGCATCGATGCATGGCAA
1 GGATGCATCGCAGCATGCATAGATGCATGGCAA
2057584 GGATGCATCG-ATGCATAGCA-AGATGCAT
1 GGATGCATCGCA-GCAT-GCATAGATGCAT
2057612 CGATGCACTA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 1 0.02
33 50 0.93
34 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (33 bp):
GGATGCATCGCAGCATGCATAGATGCATGGCAA
Found at i:2057664 original size:21 final size:21
Alignment explanation
Indices: 2057638--2057696 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
2057628 TTCGATGTTT
*
2057638 GGATGCATGGATGCATTGCAG
1 GGATGCATGGATGCACTGCAG
2057659 GGATGCATGGATGCACTGCAG
1 GGATGCATGGATGCACTGCAG
2057680 GGATGCATGGATGCACT
1 GGATGCATGGATGCACT
2057697 TTGACACCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (21 bp):
GGATGCATGGATGCACTGCAG
Found at i:2057835 original size:30 final size:30
Alignment explanation
Indices: 2057778--2057837 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
2057768 AACTTTGAAT
2057778 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
* *
2057808 AAATTCAATTCAAGTCCAAAAATATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
2057838 CTTAAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:2059644 original size:14 final size:15
Alignment explanation
Indices: 2059625--2059653 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2059615 ATGCCTACAT
2059625 CTTTCTT-ATCTTCC
1 CTTTCTTCATCTTCC
2059639 CTTTCTTCATCTTCC
1 CTTTCTTCATCTTCC
2059654 TTTACCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (15 bp):
CTTTCTTCATCTTCC
Found at i:2061088 original size:20 final size:20
Alignment explanation
Indices: 2061063--2061137 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
2061053 TTGCAGCCTT
* *
2061063 GATGCATGGATGCATCGCAG
1 GATGCATCGATGCATAGCAG
* *
2061083 GATGCATCGATGCATGGAAAG
1 GATGCATCGATGCATAG-CAG
* *
2061104 GATGCATCGATGCATATCAA
1 GATGCATCGATGCATAGCAG
2061124 GATGCATCGATGCA
1 GATGCATCGATGCA
2061138 CTAATTGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 30 0.64
21 17 0.36
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GATGCATCGATGCATAGCAG
Found at i:2061370 original size:30 final size:30
Alignment explanation
Indices: 2061313--2061372 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
2061303 AACTTTGAAT
2061313 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
2061343 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
2061373 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:2061765 original size:21 final size:20
Alignment explanation
Indices: 2061704--2061766 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
2061694 AGTCGAGTGT
* *
2061704 TACATAGGTCATTCAGGATATA
1 TACATGGGTCATTCAGG--ACA
2061726 TACATGGGTCATTCAGGACA
1 TACATGGGTCATTCAGGACA
* *
2061746 TACATGAGGTCTTTCGGGACA
1 TACATG-GGTCATTCAGGACA
2061767 AATTTCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 8 0.22
21 12 0.33
22 16 0.44
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (20 bp):
TACATGGGTCATTCAGGACA
Found at i:2065935 original size:4 final size:4
Alignment explanation
Indices: 2065926--2065957 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2065916 TATATGTATA
2065926 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
2065958 ACTTTCAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TCAT
Found at i:2066780 original size:17 final size:17
Alignment explanation
Indices: 2066754--2066786 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2066744 TCATGCAATT
*
2066754 CAAATTAGAATCATTTC
1 CAAATGAGAATCATTTC
2066771 CAAATGAGAATCATTT
1 CAAATGAGAATCATTT
2066787 TCATTCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (17 bp):
CAAATGAGAATCATTTC
Found at i:2076274 original size:14 final size:14
Alignment explanation
Indices: 2076255--2076284 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2076245 TTTAGATTTT
*
2076255 TTAAAATTACATTA
1 TTAAAAATACATTA
2076269 TTAAAAATACATTA
1 TTAAAAATACATTA
2076283 TT
1 TT
2076285 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:2077181 original size:20 final size:20
Alignment explanation
Indices: 2077087--2077455 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
2077077 GATTTTCCAT
* ** *
2077087 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2077107 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2077127 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2077147 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2077167 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2077187 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2077207 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2077227 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2077247 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
2077267 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2077287 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2077307 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2077327 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2077347 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2077367 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2077387 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2077407 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2077427 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2077447 AATCACAAC
1 AATCGCAAC
2077456 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2078177 original size:24 final size:24
Alignment explanation
Indices: 2078138--2078184 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2078128 AAATTTGGTC
2078138 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2078162 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2078185 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2078376 original size:12 final size:12
Alignment explanation
Indices: 2078359--2078383 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2078349 ATATAATCCT
2078359 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2078371 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2078383 G
1 G
2078384 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2080676 original size:19 final size:19
Alignment explanation
Indices: 2080654--2080946 Score: 365
Period size: 19 Copynumber: 16.4 Consensus size: 19
2080644 CGGAAAATAC
*
2080654 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2080673 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2080687 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2080707 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2080721 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2080740 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2080759 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
2080773 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
2080792 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2080811 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2080830 AATCGCAATGCGAAATGAC
1 AATCGCAATGCGAAATGAA
*
2080849 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2080868 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2080887 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2080901 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2080920 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2080939 AATCGCAA
1 AATCGCAA
2080947 CGAGATAATC
Statistics
Matches: 239, Mismatches: 14, Indels: 42
0.81 0.05 0.14
Matches are distributed among these distances:
14 40 0.17
15 2 0.01
16 10 0.04
17 8 0.03
18 3 0.01
19 163 0.68
20 13 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2080866 original size:128 final size:126
Alignment explanation
Indices: 2080654--2080968 Score: 458
Period size: 128 Copynumber: 2.6 Consensus size: 126
2080644 CGGAAAATAC
* *
2080654 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
*
2080714 A--CGAGA-GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
65 ATGCGAAATGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
*
2080773 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
2080838 TGCGAAATGACTATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
66 TGCGAAATGA--ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
*
2080901 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
2080961 TGCGAAAT
66 TGCGAAAT
2080969 TATAAACGCA
Statistics
Matches: 179, Mismatches: 7, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
119 24 0.13
121 1 0.01
123 34 0.19
124 17 0.09
125 4 0.02
126 4 0.02
128 95 0.53
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (126 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
Found at i:2080984 original size:52 final size:52
Alignment explanation
Indices: 2080654--2080968 Score: 324
Period size: 52 Copynumber: 5.9 Consensus size: 52
2080644 CGGAAAATAC
* * *
2080654 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GATAATCGCAATGC-GAAATGAA
* * * * *
2080707 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGATAATCGCAATGCGAAATGAA
* *
2080759 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAGA-T--AATCGCAATGCGAAATGAA
*
2080811 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGACTATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAGAT-A--ATCGCAATGCGAAATGAA
*
2080868 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAA
2080920 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
2080969 TATAAACGCA
Statistics
Matches: 230, Mismatches: 14, Indels: 37
0.82 0.05 0.13
Matches are distributed among these distances:
45 4 0.02
46 3 0.01
47 3 0.01
48 1 0.00
49 1 0.00
50 2 0.01
52 109 0.47
53 23 0.10
54 12 0.05
55 10 0.04
56 2 0.01
57 60 0.26
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAA
Found at i:2081060 original size:33 final size:35
Alignment explanation
Indices: 2080978--2081095 Score: 141
Period size: 33 Copynumber: 3.2 Consensus size: 35
2080968 TTATAAACGC
*
2080978 ATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCG
1 ATTGCGATTTTCATTT-CGCATTGCGA--TTCATCTCG
2081016 CATTGCGATTTTCATTTCGCATTGCGATTC-TCTCG
1 -ATTGCGATTTTCATTTCGCATTGCGATTCATCTCG
*
2081051 -TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 ATTGCGATTTTCATTTCGCATTGCGA--TTCATCTCG
2081087 CATTGCGAT
1 -ATTGCGAT
2081096 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
33 25 0.35
35 7 0.10
36 7 0.10
38 17 0.24
39 16 0.22
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (35 bp):
ATTGCGATTTTCATTTCGCATTGCGATTCATCTCG
Found at i:2081103 original size:19 final size:19
Alignment explanation
Indices: 2080975--2081095 Score: 189
Period size: 19 Copynumber: 6.6 Consensus size: 19
2080965 AAATTATAAA
2080975 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2080994 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
2081014 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
2081033 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2081049 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2081066 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2081085 CGCATTGCGAT
1 CGCATTGCGAT
2081096 AGTCATTTTT
Statistics
Matches: 94, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.06
16 7 0.07
17 7 0.07
19 55 0.59
20 19 0.20
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2081221 original size:14 final size:14
Alignment explanation
Indices: 2081202--2081238 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2081192 CATCAATTAC
2081202 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2081216 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2081230 ACAAATCAA
1 ACAAATCAA
2081239 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2083214 original size:14 final size:14
Alignment explanation
Indices: 2083197--2083253 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2083187 GCAAAATGAA
*
2083197 AATCGCAACGACAG
1 AATCGCAACGAAAG
2083211 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2083228 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2083244 AATCGCAACG
1 AATCGCAACG
2083254 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2083215 original size:33 final size:33
Alignment explanation
Indices: 2083178--2083270 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
2083168 GCGAAACCAA
* *
2083178 AATCGCAACGCAAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2083211 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2083244 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2083271 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2083235 original size:19 final size:19
Alignment explanation
Indices: 2083141--2083275 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
2083131 TAGTTTACTT
* *
2083141 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2083161 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
2083180 TCGCAACGCAAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2083199 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2083213 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2083232 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2083246 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2083265 TCGCAATGCGA
1 TCGCAACGCGA
2083276 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 10 0.11
19 46 0.48
20 12 0.13
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2083267 original size:52 final size:51
Alignment explanation
Indices: 2083141--2083275 Score: 130
Period size: 52 Copynumber: 2.6 Consensus size: 51
2083131 TAGTTTACTT
* * *
2083141 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
1 TCGCAACACGAAA-TGAAAATCGCAATGCGAAACCAAAATCGCAACGAAAAA
* * * **
2083193 T-G-AAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACA-CGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAAA-AA
*
2083246 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAACACGAAATGAAAATCGCAATGCGA
2083276 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
50 4 0.06
51 6 0.09
52 42 0.65
53 4 0.06
54 7 0.11
55 2 0.03
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (51 bp):
TCGCAACACGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAAAAA
Found at i:2083293 original size:19 final size:19
Alignment explanation
Indices: 2083271--2083398 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
2083261 AAAATCGCAA
2083271 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2083290 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2083304 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2083323 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2083337 TGCGA-TTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2083355 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2083374 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2083394 TGCGA
1 TGCGA
2083399 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 19 0.22
15 1 0.01
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2083313 original size:33 final size:33
Alignment explanation
Indices: 2083271--2083361 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
2083261 AAAATCGCAA
2083271 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2083304 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2083337 TGCGA-TTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2083362 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 18 0.33
33 35 0.64
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2083711 original size:92 final size:93
Alignment explanation
Indices: 2083442--2083911 Score: 894
Period size: 92 Copynumber: 5.1 Consensus size: 93
2083432 TTGAATGGAT
2083442 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083507 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2083535 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083598 AGTTTAGCAGAATTGGCAGCAA-CGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2083625 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083690 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2083718 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083782 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2083810 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2083875 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2083903 AAATTTACT
1 AAATTTACT
2083912 AAGCAATCTA
Statistics
Matches: 370, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
90 21 0.06
91 69 0.19
92 160 0.43
93 120 0.32
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2085636 original size:14 final size:14
Alignment explanation
Indices: 2085617--2085706 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2085607 TTGAAATGAA
2085617 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2085631 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2085648 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2085664 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2085683 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2085697 AATCGCAACG
1 AATCGCAACG
2085707 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2085654 original size:33 final size:33
Alignment explanation
Indices: 2085609--2085723 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2085599 TCTTTTGGTT
2085609 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2085642 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2085675 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2085708 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2085724 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2085655 original size:19 final size:18
Alignment explanation
Indices: 2085616--2085728 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2085606 GTTGAAATGA
2085616 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2085631 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2085648 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2085664 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2085681 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2085697 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2085714 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2085729 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2085759 original size:14 final size:14
Alignment explanation
Indices: 2085740--2085794 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2085730 TTTGGTTTCG
2085740 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2085754 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2085773 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2085787 CGTTGCGA
1 CGTTGCGA
2085795 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2085772 original size:33 final size:33
Alignment explanation
Indices: 2085724--2085794 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2085714 AAAATCGCAA
**
2085724 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2085757 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2085790 TGCGA
1 TGCGA
2085795 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2085802 original size:33 final size:33
Alignment explanation
Indices: 2085735--2085816 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2085725 GCGATTTTGG
***
2085735 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
2085768 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
2085801 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
2085817 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:2085821 original size:20 final size:20
Alignment explanation
Indices: 2085747--2085835 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
2085737 TCGCGTTGCG
2085747 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2085767 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
2085780 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
2085800 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2085820 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
2085836 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2085957 original size:33 final size:33
Alignment explanation
Indices: 2085915--2085985 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2085905 AATACTAACT
*
2085915 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2085948 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2085981 TGAAA
1 TGAAA
2085986 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2086217 original size:22 final size:22
Alignment explanation
Indices: 2086165--2086219 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2086155 TGGTTGTGAG
**
2086165 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2086187 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2086209 GGATTTCTTCG
1 GGATTTCTTCG
2086220 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2086390 original size:20 final size:20
Alignment explanation
Indices: 2086365--2086557 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
2086355 CTTTAAATAT
2086365 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2086385 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2086407 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2086426 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2086446 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2086466 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2086486 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2086506 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2086526 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2086546 CGCGTTGCGATT
1 CGCGTTGCGATT
2086558 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2086552 original size:60 final size:60
Alignment explanation
Indices: 2086365--2086557 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
2086355 CTTTAAATAT
**
2086365 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2086426 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2086486 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2086546 CGCGTTGCGATT
1 CGCGTTGCGATT
2086558 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2086638 original size:20 final size:20
Alignment explanation
Indices: 2086613--2086664 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2086603 AAGAATCGCG
*
2086613 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2086633 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2086653 TTGCGATTCTGG
1 TTGCGATTCTGG
2086665 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2093798 original size:257 final size:252
Alignment explanation
Indices: 2093497--2094048 Score: 771
Period size: 257 Copynumber: 2.2 Consensus size: 252
2093487 ATAAAGTTTC
*
2093497 ACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAATGACTTAATTGG-AAATAA
1 ACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAAA
*
2093561 -TATATAGAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTT
66 TTATAT-G-GAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA-TATT
* **
2093625 TGGGTTGGGTCGGGTATTTTTCACCCTAAATTCG-A-ACCCGACCCGAATATCACACTT-AAAAA
128 T---TCGGGTC-GGTATTTTTCACCCTAAACCCGAACACCCGACCCGAATATCACACTTAAAAAA
*
2093687 -AA-CCGACCCGACCAAAATAAAGTTTCA-CCGACCCGACCCGAATATA-AGAATTAGAAATCCG
189 CAACCCGACCCAACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATA-AATTAGAAA--C-
2093748 ACTCG
250 -C-CG
* *
2093753 ACCCGACCCAAAATAATAAAAAATATATTTTTATTCAATAAAAACATTGACTTAATTGGAAAAAA
1 ACCCGACCCGAAATAATAAAAAA-ATATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAA
*
2093818 ATTATATGTAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTT
65 ATTATATGGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTT
* *
2093883 CGGGTCGTTATTTTTCACCCTAAACCCGAACTCGACCCGACCTGAATATCACACTTAAAAAACCA
130 CGGGTCGGTATTTTTCACCCTAAACCCGAA--C-ACCCGACCCGAATATCACACTTAAAAAA-CA
2093948 ACCCGACCCAACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATAAATTAGAAACCCG
191 ACCCGACCCAACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATAAATTAGAAACCCG
*
2094010 ACCTGACCCGAAATAATAAAAAAATATTTTTATTCAATA
1 ACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
2094049 TATGAATAAG
Statistics
Matches: 269, Mismatches: 13, Indels: 28
0.87 0.04 0.09
Matches are distributed among these distances:
252 19 0.07
253 7 0.03
256 42 0.16
257 128 0.48
258 12 0.04
259 5 0.02
260 3 0.01
261 24 0.09
262 28 0.10
263 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (252 bp):
ACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAAA
TTATATGGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTC
GGGTCGGTATTTTTCACCCTAAACCCGAACACCCGACCCGAATATCACACTTAAAAAACAACCCG
ACCCAACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATAAATTAGAAACCCG
Found at i:2097223 original size:96 final size:96
Alignment explanation
Indices: 2097059--2097250 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
2097049 AGCATAACTA
*
2097059 CCGTTGAATTATGATCCGTATTGTATTCTCGCACTTGTGTTTGGGTAAAAAGGCAGTATATAGGA
1 CCGTTGAATTATGATCCGTATTGTATTCTCACACTTGTGTTTGGGTAAAAAGGCAGTATATAGGA
2097124 TAAACTACAGCACAAGTCACTCTATTATTAG
66 TAAACTACAGCACAAGTCACTCTATTATTAG
2097155 CCGTTGAATTATGATCCGTATTGTATTCTCACACTTGTGTTTGGGTAAAAAGGCAGTATATAGGA
1 CCGTTGAATTATGATCCGTATTGTATTCTCACACTTGTGTTTGGGTAAAAAGGCAGTATATAGGA
* *
2097220 TAAATTACAGCATAAGTCACTCTATTATTAG
66 TAAACTACAGCACAAGTCACTCTATTATTAG
2097251 TCGTAAGTCT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (96 bp):
CCGTTGAATTATGATCCGTATTGTATTCTCACACTTGTGTTTGGGTAAAAAGGCAGTATATAGGA
TAAACTACAGCACAAGTCACTCTATTATTAG
Found at i:2100759 original size:325 final size:325
Alignment explanation
Indices: 2100169--2100818 Score: 1273
Period size: 325 Copynumber: 2.0 Consensus size: 325
2100159 ATTGTACGAA
2100169 TCGTGGAAAAATTAAAGATTTCAAGCTCAGAGTATCGATACTGCTATGAGAGTATAGATATTGCC
1 TCGTGGAAAAATTAAAGATTTCAAGCTCAGAGTATCGATACTGCTATGAGAGTATAGATATTGCC
*
2100234 CCTTCAATCTCGAGACTGAAAGTGTTGGTCTCGAGACTAGGCCTGTTTTTCAACAACAAAATGCA
66 CCTTCAATCTCGAGACTGAAAGTGTTGGTCTCGAGACTAGGCCTATTTTTCAACAACAAAATGCA
*
2100299 TTTTTGGTACAAATACTCGTAGGGATATCGATATTTGACTCTAAAGTATCGATACTACACACCTT
131 TTTTTGGTACAAATACTCGTAGGGATATCGATATTTGACTCTAAAGTATCGATACTACACACATT
2100364 GGATGATCATATTCGATGCAATTAAGGTCTGTAATAGCTAGGGATGGTTCGTAAGGATAGAACTT
196 GGATGATCATATTCGATGCAATTAAGGTCTGTAATAGCTAGGGATGGTTCGTAAGGATAGAACTT
2100429 AGCTTGACACTCGTAGGTATACGTTACAATCAGAGTAACCATAGCAGGCGTAATCGTCCAAGTAT
261 AGCTTGACACTCGTAGGTATACGTTACAATCAGAGTAACCATAGCAGGCGTAATCGTCCAAGTAT
2100494 TCGTGGAAAAATTAAAGATTTCAAGCTCAGAGTATCGATACTGCTATGAGAGTATAGATATTGCC
1 TCGTGGAAAAATTAAAGATTTCAAGCTCAGAGTATCGATACTGCTATGAGAGTATAGATATTGCC
2100559 CCTTCAATCTCGAGACTGAAAGTGTTGGTCTCGAGACTAGGCCTATTTTTCAACAACAAAATGCA
66 CCTTCAATCTCGAGACTGAAAGTGTTGGTCTCGAGACTAGGCCTATTTTTCAACAACAAAATGCA
2100624 TTTTTGGTACAAATACTCGTAGGGATATCGATATTTGACTCTAAAGTATCGATACTACACACATT
131 TTTTTGGTACAAATACTCGTAGGGATATCGATATTTGACTCTAAAGTATCGATACTACACACATT
2100689 GGATGATCATATTCGATGCAATTAAGGTCTGTAATAGCTAGGGATGGTTCGTAAGGATAGAACTT
196 GGATGATCATATTCGATGCAATTAAGGTCTGTAATAGCTAGGGATGGTTCGTAAGGATAGAACTT
*
2100754 AGCTTGACACTCGTAGGTATACGTTACAATCAGAGTAACCATAGCAGGTGTAATCGTCCAAGTAT
261 AGCTTGACACTCGTAGGTATACGTTACAATCAGAGTAACCATAGCAGGCGTAATCGTCCAAGTAT
2100819 CTTCAGTTGA
Statistics
Matches: 322, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
325 322 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (325 bp):
TCGTGGAAAAATTAAAGATTTCAAGCTCAGAGTATCGATACTGCTATGAGAGTATAGATATTGCC
CCTTCAATCTCGAGACTGAAAGTGTTGGTCTCGAGACTAGGCCTATTTTTCAACAACAAAATGCA
TTTTTGGTACAAATACTCGTAGGGATATCGATATTTGACTCTAAAGTATCGATACTACACACATT
GGATGATCATATTCGATGCAATTAAGGTCTGTAATAGCTAGGGATGGTTCGTAAGGATAGAACTT
AGCTTGACACTCGTAGGTATACGTTACAATCAGAGTAACCATAGCAGGCGTAATCGTCCAAGTAT
Found at i:2101707 original size:32 final size:32
Alignment explanation
Indices: 2101671--2101864 Score: 185
Period size: 32 Copynumber: 6.1 Consensus size: 32
2101661 TAGTTTCAAC
* * *
2101671 ATTGCATTCAGATAATGCATATCAGAGTTAGT
1 ATTGCATTCAAATAATGCATAACAGAGTCAGT
* * * *
2101703 ATTGCATTTAGATAATGCACAACAGAGTTAGT
1 ATTGCATTCAAATAATGCATAACAGAGTCAGT
* * * * *
2101735 ATTGCATTCAGATAATGCACAGA-AAAATCAAT
1 ATTGCATTCAAATAATGCATA-ACAGAGTCAGT
2101767 ATTGCATTCAAATAATGCATAACAGAGTCAGT
1 ATTGCATTCAAATAATGCATAACAGAGTCAGT
** * *
2101799 ATTGCATTCAAATAATGTGTAGCAGAGTCAAT
1 ATTGCATTCAAATAATGCATAACAGAGTCAGT
* **
2101831 ATCGCATTCAAATAATGTGTAGA-AGAGTCAGT
1 ATTGCATTCAAATAATGCATA-ACAGAGTCAGT
2101863 AT
1 AT
2101865 CACATTCTGA
Statistics
Matches: 139, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
31 1 0.01
32 137 0.99
33 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (32 bp):
ATTGCATTCAAATAATGCATAACAGAGTCAGT
Found at i:2101830 original size:64 final size:64
Alignment explanation
Indices: 2101671--2101879 Score: 222
Period size: 64 Copynumber: 3.3 Consensus size: 64
2101661 TAGTTTCAAC
* * * * * * *
2101671 ATTGCATTCAGATAATGCATATCAGAGTTAGTATTGCATTTAGATAATGCACAACAGAGTTAGT
1 ATTGCATTCAGATAATGCATAGCAGAGTCAATATTGCATTCAAATAATGCATAACAGAGTCAGT
* * * *
2101735 ATTGCATTCAGATAATGCACAGAAAAATCAATATTGCATTCAAATAATGCATAACAGAGTCAGT
1 ATTGCATTCAGATAATGCATAGCAGAGTCAATATTGCATTCAAATAATGCATAACAGAGTCAGT
* ** * **
2101799 ATTGCATTCAAATAATGTGTAGCAGAGTCAATATCGCATTCAAATAATGTGTAGA-AGAGTCAGT
1 ATTGCATTCAGATAATGCATAGCAGAGTCAATATTGCATTCAAATAATGCATA-ACAGAGTCAGT
** *
2101863 ATCACATTCTGATAATG
1 ATTGCATTCAGATAATG
2101880 AGCGTCATAT
Statistics
Matches: 119, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
64 118 0.99
65 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (64 bp):
ATTGCATTCAGATAATGCATAGCAGAGTCAATATTGCATTCAAATAATGCATAACAGAGTCAGT
Found at i:2101838 original size:96 final size:96
Alignment explanation
Indices: 2101666--2101847 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 96
2101656 CATAGTAGTT
* * * * *
2101666 TCAACATTGCATTCAGATAATGCATATCAGAGTTAGTATTGCATTTAGATAATGCACAACAGAGT
1 TCAACATTGCATTCAAATAATGCATAACAGAGTCAGTATTGCATTCAAATAATGCACAACAGAGT
* * * *
2101731 TAGTATTGCATTCAGATAATGCACAGAAAAA
66 CAATATCGCATTCAAATAATGCACAGAAAAA
* *** *
2101762 TCAATATTGCATTCAAATAATGCATAACAGAGTCAGTATTGCATTCAAATAATGTGTAGCAGAGT
1 TCAACATTGCATTCAAATAATGCATAACAGAGTCAGTATTGCATTCAAATAATGCACAACAGAGT
2101827 CAATATCGCATTCAAATAATG
66 CAATATCGCATTCAAATAATG
2101848 TGTAGAAGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (96 bp):
TCAACATTGCATTCAAATAATGCATAACAGAGTCAGTATTGCATTCAAATAATGCACAACAGAGT
CAATATCGCATTCAAATAATGCACAGAAAAA
Found at i:2103909 original size:21 final size:22
Alignment explanation
Indices: 2103884--2103928 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2103874 TATTATATTG
2103884 AAAATG-TCCATACTT-TTTATA
1 AAAATGATCCATACTTCTTT-TA
*
2103905 AAAATGATCGATACTTCTTTTA
1 AAAATGATCCATACTTCTTTTA
2103927 AA
1 AA
2103929 GTTATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 12 0.57
23 3 0.14
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (22 bp):
AAAATGATCCATACTTCTTTTA
Found at i:2104260 original size:23 final size:23
Alignment explanation
Indices: 2104225--2104297 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2104215 ATAATTTACA
*
2104225 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2104248 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2104271 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2104294 ATAT
1 ATAT
2104298 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2104693 original size:23 final size:23
Alignment explanation
Indices: 2104667--2104725 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
2104657 AAGCACTACC
2104667 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
2104690 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
2104713 TATTACATCATAT
1 TATTACATTATAT
2104726 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:2105120 original size:23 final size:23
Alignment explanation
Indices: 2105094--2105152 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
2105084 AACCACTACC
2105094 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
2105117 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
2105140 TATTACATCATAT
1 TATTACATTATAT
2105153 TTTTACTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:2105177 original size:427 final size:430
Alignment explanation
Indices: 2103874--2105781 Score: 3510
Period size: 428 Copynumber: 4.5 Consensus size: 430
2103864 TATTACATTA
* *
2103874 TATTATATTGAAAATGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2103939 TTATGTTTCAATTTATTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTT-TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
2104004 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
2104069 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
195 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
2104134 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
* * * * *
2104199 TTTATAAAAAGGATAAATAATTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTA
325 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATA
2104264 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
2104305 TATTATATTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2104370 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
2104435 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
2104500 ATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
2104563 TTAAAACTCACTCAAAAGATGACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGTACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
2104628 TTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACATAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
2104693 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2104733 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2104798 TTATGTTTTAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
2104863 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
2104928 ATAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
2104990 TTAAAACTTACTCAAAAGATGACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
2105055 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
*
2105120 TACATTATATAAGCGCTACCTATTACATCATATTTTTACT
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2105160 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2105225 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
2105290 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
2105355 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
2105420 TTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
2105485 TTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
* *
2105550 TACATTATATAAGTGCTACCTATTACATCATA-TTTTATC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2105589 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2105653 TTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
2105718 -TTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
2105781 A
196 A
2105782 CAACATTAAC
Statistics
Matches: 1442, Mismatches: 32, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
426 10 0.01
427 458 0.32
428 538 0.37
429 43 0.03
430 318 0.22
431 75 0.05
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:2105535 original size:21 final size:22
Alignment explanation
Indices: 2105510--2105561 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
2105500 ATACTTTACA
*
2105510 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
2105533 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
2105556 ATATAA
1 ATATAA
2105562 GTGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:2105546 original size:23 final size:23
Alignment explanation
Indices: 2105520--2105582 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2105510 ATATAACCAC
2105520 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2105543 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAACGA
*
2105566 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2105583 TTTATCTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2105618 original size:855 final size:858
Alignment explanation
Indices: 2103874--2105781 Score: 3506
Period size: 855 Copynumber: 2.2 Consensus size: 858
2103864 TATTACATTA
* *
2103874 TATTATATTGAAAATGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2103939 TTATGTTTCAATTTATTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTT-TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
2104004 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
2104069 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
195 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
2104134 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
* * * *
2104199 TTTATAAAAAGGATAAATAATTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTA
325 TTTATAAAAAGGATAAACAATTTACAATATAACCACTACCTATTACATTATATAAACGATACATA
*
2104264 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTTCATACT
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACT
*
2104329 TTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
455 TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
2104394 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTG
520 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTG
2104459 TTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATCGTAACGTAAAA
585 TTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATCGTAACGTAAAA
*
2104524 AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATGACCTT
650 AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTT
*
2104589 AAATTAATGTTTTCCACAGTGAAAAAAGTATGTACACTTTTATAAAAAGGATAGATACTTTACAA
715 AAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAA
*
2104654 TATAAGCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTAC
780 TATAACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTAC
2104719 ATCATATTTTTACC
845 ATCATATTTTTACC
2104733 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2104798 TTATGTTTTAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
2104863 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
2104928 ATAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
2104990 TTAAAACTTACTCAAAAGATGACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
2105055 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
326 TTATAAAAAGGATAAACAATTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
*
2105120 TACATTATATAAGCGCTACCTATTACATCATATTTTTACTTATTATATTGAAAGTGTCCATACTT
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
2105185 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTG
456 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTG
2105250 TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
521 TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
*
2105315 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAA
586 TTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT-A-ATATATCGTAACGTAAA
*
2105380 AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCT
649 AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
*
2105445 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACA
714 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACA
* *
2105510 ATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGTGCTACCTATTA
779 ATATAACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTA
*
2105575 CATCATA-TTTTATC
844 CATCATATTTTTACC
2105589 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2105653 TTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
2105718 -TTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
2105781 A
196 A
2105782 CAACATTAAC
Statistics
Matches: 1019, Mismatches: 28, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
853 10 0.01
854 52 0.05
855 504 0.49
856 44 0.04
857 213 0.21
858 120 0.12
859 76 0.07
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (858 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAAACAATTTACAATATAACCACTACCTATTACATTATATAAACGATACATAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTG
TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
TTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATCGTAACGTAAAAA
ATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTA
AATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAAT
ATAACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACA
TCATATTTTTACC
Found at i:2106054 original size:39 final size:39
Alignment explanation
Indices: 2106000--2106086 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
2105990 TCAAGTTGTA
*
2106000 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
2106039 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
2106078 GATTTTGAT
1 GATTTTGAT
2106087 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Done.