Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_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: 3983240
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:1888461 original size:21 final size:21
Alignment explanation
Indices: 1888347--1888463 Score: 128
Period size: 21 Copynumber: 5.6 Consensus size: 21
1888337 ATTCACCTGT
*
1888347 CATCATTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * *
1888368 TATCGTTCAAGAGGCCACTCT
1 CATCGTTCAAGAGGCCCCTCC
1888389 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* **
1888410 CACCGTTCAAGAGG-CCCTGT
1 CATCGTTCAAGAGGCCCCTCC
* * *
1888430 CATCATTCAAGAGGTCTCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
1888451 CACCGTTCAAGAG
1 CATCGTTCAAGAG
1888464 CCCGATTCAC
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 16 0.21
21 62 0.79
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:1889914 original size:207 final size:206
Alignment explanation
Indices: 1889559--1889961 Score: 693
Period size: 207 Copynumber: 1.9 Consensus size: 206
1889549 GTGCTGAAAG
*
1889559 TGTGCATAAACAACCATTTGTTATTGGTAAGTTTGAGCAAGTGTTGTTAACATATATACTCTTTG
1 TGTGCATAAACAACCAGTTGTTATTGGTAAGTTTGAGCAAGTGTTGTTAACATATATAC-CTTTG
1889624 TTGGTTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTGTTTGTTGGTTTTAGATG
65 TTGGTTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTGTTTGTTGGTTTTAGATG
* *
1889689 TGTAGAAAGTGTTGTTTGAGCAAATGTTTAGTTTCTGCAGGTTAATCCTGAAGTGAGTTGCGTGA
130 TGTAGAAAGTGTTGTTTGAGCAAATGATTAGTTTCTGCAGGTTAATCCTGAAGTGAGTTGCATGA
1889754 AATTGATGTATT
195 AATTGATGTATT
* *
1889766 TGTGCATAAACAACCAGTTGTTATTGGTAAGTTTGTGCAAGTGTTGTTAACTGTTATATA-C-TT
1 TGTGCATAAACAACCAGTTGTTATTGGTAAGTTTGAGCAAGTGTTGTTAAC--ATATATACCTTT
1889829 GTTGGTTTGAAAATGTTTGGTTTAAGTACCTAGAATTCAATAATTTGTTGTTTGTTGGTTTTAGA
64 GTTGGTTTGAAAATGTTTGG-TTAAGTACCTAGAATTCAATAATTTGTTGTTTGTTGGTTTTAGA
* *
1889894 TGTGTAGAAAGTGTTGTTTGAGTAAATGATTGGTTTCTGCAGGTTAATCCTGAAGTGAGTTGCAT
128 TGTGTAGAAAGTGTTGTTTGAGCAAATGATTAGTTTCTGCAGGTTAATCCTGAAGTGAGTTGCAT
1889959 GAA
193 GAA
1889962 TGTATTTGGA
Statistics
Matches: 186, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
206 22 0.12
207 158 0.85
209 6 0.03
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (206 bp):
TGTGCATAAACAACCAGTTGTTATTGGTAAGTTTGAGCAAGTGTTGTTAACATATATACCTTTGT
TGGTTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTGTTTGTTGGTTTTAGATGT
GTAGAAAGTGTTGTTTGAGCAAATGATTAGTTTCTGCAGGTTAATCCTGAAGTGAGTTGCATGAA
ATTGATGTATT
Found at i:1890518 original size:36 final size:36
Alignment explanation
Indices: 1890478--1890549 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1890468 AGAGGAAAAG
1890478 ATGATTGTGATGGCACTAGTGATCCACAGGTCAACC
1 ATGATTGTGATGGCACTAGTGATCCACAGGTCAACC
1890514 ATGATTGTGATGGCACTAGTGATCCACAGGTCAACC
1 ATGATTGTGATGGCACTAGTGATCCACAGGTCAACC
1890550 TTGTATGACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (36 bp):
ATGATTGTGATGGCACTAGTGATCCACAGGTCAACC
Found at i:1893503 original size:16 final size:15
Alignment explanation
Indices: 1893481--1893519 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1893471 GAAATCATCG
1893481 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
1893497 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
1893512 AAAAATTA
1 AAAAATTA
1893520 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:1893739 original size:20 final size:20
Alignment explanation
Indices: 1893687--1893725 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1893677 GTGCGAAATT
1893687 AAAATTCGTGTTGCGAATTCG
1 AAAA-TCGTGTTGCGAATTCG
*
1893708 AAAATCGAGTTGCGAATT
1 AAAATCGTGTTGCGAATT
1893726 TGGAAACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (20 bp):
AAAATCGTGTTGCGAATTCG
Found at i:1894595 original size:16 final size:16
Alignment explanation
Indices: 1894570--1894600 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1894560 CTTCTAAATT
*
1894570 TTTTTTAGTTCAAGTC
1 TTTTTGAGTTCAAGTC
1894586 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
1894601 TTCAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTC
Found at i:1895542 original size:16 final size:16
Alignment explanation
Indices: 1895523--1895556 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1895513 CAATATACGA
1895523 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
1895539 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
1895555 AT
1 AT
1895557 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:1895561 original size:18 final size:16
Alignment explanation
Indices: 1895530--1895567 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 16
1895520 CGAATAAAAA
1895530 TATATTTATATAAATG
1 TATATTTATATAAATG
1895546 TATATTTATATTTAAATG
1 TATATTTATA--TAAATG
1895564 TATA
1 TATA
1895568 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
18 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
TATATTTATATAAATG
Found at i:1895633 original size:16 final size:18
Alignment explanation
Indices: 1895601--1895634 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1895591 TATTAATGTA
1895601 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
1895619 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
1895635 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:1896307 original size:130 final size:130
Alignment explanation
Indices: 1896103--1896350 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
1896093 AATTTTCTTC
* *
1896103 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
1896168 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
1896233 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
1896298 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
1896351 TATATAAAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1896802 original size:35 final size:35
Alignment explanation
Indices: 1896752--1896827 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
1896742 AATTGAATTT
* *
1896752 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
1896787 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
1896822 AATTGA
1 AATTGA
1896828 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:1897250 original size:14 final size:14
Alignment explanation
Indices: 1897231--1897258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1897221 TTTTCACTTC
1897231 TCAGTCAGAAAAAA
1 TCAGTCAGAAAAAA
1897245 TCAGTCAGAAAAAA
1 TCAGTCAGAAAAAA
1897259 ATTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
TCAGTCAGAAAAAA
Found at i:1900684 original size:18 final size:16
Alignment explanation
Indices: 1900661--1900699 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 16
1900651 TATATATATA
1900661 TATATATAATATCTTTTT
1 TATATATAATA--TTTTT
1900679 TATATATAATATTTTT
1 TATATATAATATTTTT
1900695 TATAT
1 TATAT
1900700 GTAAGATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATATAATATTTTT
Found at i:1901134 original size:60 final size:59
Alignment explanation
Indices: 1900990--1901145 Score: 177
Period size: 59 Copynumber: 2.6 Consensus size: 59
1900980 ATTCATCCCT
* * * * * *
1900990 AAACTTTTGAATGTTTCAATTTCATCCTTAAACAATGAGTCTCGTTCTAAATTAGCCCT
1 AAACTTTTGAATATTCCAATTTCATCCCTAAACCATGACTCTCGTTCTAAATTAGCCCC
* * * * *
1901049 TAACTTTTGAACATTCTAATTTCATCCCTAAACCATGACTCTCTTTCTAAATTGGACCCC
1 AAACTTTTGAATATTCCAATTTCATCCCTAAACCATGACTCTCGTTCTAAATTAG-CCCC
* *
1901109 AAACTTTTGAATATTCCATTTTCATCCCCAAATCCAT
1 AAACTTTTGAATATTCCAATTTCATCCCTAAA-CCAT
1901146 CCAAATATGT
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
59 45 0.57
60 30 0.38
61 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (59 bp):
AAACTTTTGAATATTCCAATTTCATCCCTAAACCATGACTCTCGTTCTAAATTAGCCCC
Found at i:1901357 original size:60 final size:60
Alignment explanation
Indices: 1901252--1901417 Score: 174
Period size: 60 Copynumber: 2.8 Consensus size: 60
1901242 GTATACATAC
* * * * * *
1901252 AGTTT-GGTATGAAATTGGAATGTTCAAAAAGTTTGGGGACCAATTTAGAATGAAGGTCAT
1 AGTTTAGGGATGAAATTGAAATATTC-AAAAGTTTGAGGACCAATTTAGAATCAAGGTCAG
** *
1901312 AGTTTAGGGATGAAATTGAAATATTCAAAAGTTTGAGGATTAATTTAGAATCATGGTCAG
1 AGTTTAGGGATGAAATTGAAATATTCAAAAGTTTGAGGACCAATTTAGAATCAAGGTCAG
* * * * * *
1901372 AGTTTAGGGATAAAATTAAAAAATT-AAAAGCTTAAGGACCTATTTA
1 AGTTTAGGGATGAAATTGAAATATTCAAAAGTTTGAGGACCAATTTA
1901418 AAACGAAAGT
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
59 16 0.18
60 55 0.62
61 17 0.19
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (60 bp):
AGTTTAGGGATGAAATTGAAATATTCAAAAGTTTGAGGACCAATTTAGAATCAAGGTCAG
Found at i:1905409 original size:18 final size:20
Alignment explanation
Indices: 1905386--1905426 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
1905376 TGATTAAAAA
1905386 ATCTTATAA-A-TTAATATT
1 ATCTTATAACATTTAATATT
1905404 ATCTTATAATCATTTAATATT
1 ATCTTATAA-CATTTAATATT
1905425 AT
1 AT
1905427 TTAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
20 1 0.05
21 10 0.50
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
ATCTTATAACATTTAATATT
Found at i:1907119 original size:65 final size:64
Alignment explanation
Indices: 1907050--1907209 Score: 261
Period size: 65 Copynumber: 2.5 Consensus size: 64
1907040 GAATAAATTG
* *
1907050 AACATCGAATGCATTTTATGCATCGATGCACATA-TCATGCATCGATGCACTCAGG-TTTTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACA-AGCCATGCATCGATGCACTCAGGCTATTT-T-
1907113 AA
63 AA
1907115 AACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTAA
1 AACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTAA
1907179 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
1907210 CCTTAGTGCA
Statistics
Matches: 91, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
64 34 0.37
65 53 0.58
66 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTAA
Found at i:1907225 original size:64 final size:64
Alignment explanation
Indices: 1907050--1907229 Score: 235
Period size: 65 Copynumber: 2.8 Consensus size: 64
1907040 GAATAAATTG
* *
1907050 AACATCGAATGCATTTTATGCATCGATGCA-CATATCATGCATCGATGCACTCAGGTTTTTATGA
1 AACATCGAATGCATTTTATGCATCGATGCACCCT-T-ATGCATCGATGCACTCAGGTATTTATGA
1907114 A
64 A
1907115 AACATCGAATGCATTTTATGCATCGATGCACAAGCC--ATGCATCGATGCACTCAGGCTATTT-T
1 AACATCGAATGCATTTTATGCATCGATGCAC---CCTTATGCATCGATGCACTCAGG-TATTTAT
1907177 -AA
62 GAA
*
1907179 AACATCGAATGCATTTTATGCATCGATGCACCCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTTATGCATCGATGCACCCTTA-TGCATCGATGCACT
1907230 AAGTGTTCCA
Statistics
Matches: 104, Mismatches: 3, Indels: 17
0.84 0.02 0.14
Matches are distributed among these distances:
61 2 0.02
63 1 0.01
64 46 0.44
65 50 0.48
66 4 0.04
69 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACCCTTATGCATCGATGCACTCAGGTATTTATGAA
Found at i:1909173 original size:21 final size:21
Alignment explanation
Indices: 1909147--1909186 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1909137 AAGACTCTAT
1909147 TTTCAAAA-TACAAAAATGATG
1 TTTCAAAATTA-AAAAATGATG
1909168 TTTCAAAATTAAAAAATGA
1 TTTCAAAATTAAAAAATGA
1909187 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATTAAAAAATGATG
Found at i:1915896 original size:19 final size:19
Alignment explanation
Indices: 1915872--1915923 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1915862 AATGCATTTT
*
1915872 ATGCATCAATGCACAAGCC
1 ATGCATCGATGCACAAGCC
1915891 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
1915910 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1915924 TCAGGCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACAAGCC
Found at i:1915912 original size:84 final size:83
Alignment explanation
Indices: 1915807--1915968 Score: 256
Period size: 84 Copynumber: 1.9 Consensus size: 83
1915797 AATGCATTTT
* *
1915807 ATGCATCGATGCACATACCATGCATTGATGCACTCAGG-TTTTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTATTT-T-AAAACATCGAATGCATTT
1915871 TATGCATCAATGCACAAGCC
64 TATGCATCAATGCACAAGCC
1915891 ATGCATCGATGCACA-AGCCATGCATCGATGCACTCAGGCTATTTTAAAACATCGAATGCATTTT
1 ATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGCTATTTTAAAACATCGAATGCATTTT
*
1915955 ATGCATCGATGCAC
65 ATGCATCAATGCAC
1915969 CCTTAGTGCT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
83 33 0.45
84 36 0.49
85 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (83 bp):
ATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTATTTTAAAACATCGAATGCATTTTA
TGCATCAATGCACAAGCC
Found at i:1918247 original size:3 final size:3
Alignment explanation
Indices: 1918239--1918273 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1918229 AGCAAAAAGA
1918239 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1918274 AGAGCGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1919199 original size:31 final size:33
Alignment explanation
Indices: 1919122--1919205 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 33
1919112 AGATCTGCCT
*
1919122 TTATCTTTCATTACCTTTTTCTAGTGCATCATTAC
1 TTATCTTTCATTACCTTTTTCTACTG-A-CATTAC
*
1919157 TTAGATCTTTCATTACCTTTTTCTACTG-CATT-G
1 TT--ATCTTTCATTACCTTTTTCTACTGACATTAC
1919190 TTATCTTTCATTACCT
1 TTATCTTTCATTACCT
1919206 GTTTAACCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
31 14 0.31
33 2 0.04
34 4 0.09
35 2 0.04
37 23 0.51
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (33 bp):
TTATCTTTCATTACCTTTTTCTACTGACATTAC
Found at i:1924323 original size:21 final size:21
Alignment explanation
Indices: 1924281--1924323 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1924271 CAATTACTAC
* * * *
1924281 ATCTTAATTAGATAAGACCGA
1 ATCTTAATTAAAGAAAAACGA
1924302 ATCTTAATTAAAGAAAAACGA
1 ATCTTAATTAAAGAAAAACGA
1924323 A
1 A
1924324 AATAACCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (21 bp):
ATCTTAATTAAAGAAAAACGA
Found at i:1926078 original size:2 final size:2
Alignment explanation
Indices: 1926071--1926101 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1926061 TTAGTAAATT
1926071 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
1926102 TTTTTAAAAA
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:1926187 original size:38 final size:35
Alignment explanation
Indices: 1926087--1926188 Score: 86
Period size: 38 Copynumber: 2.7 Consensus size: 35
1926077 TATATATATA
1926087 TATATATATATATATTTTTTA-AAAAATTATTTTGAT
1 TATATA-ATATATATTTTTTATAAAAATTATTTT-AT
1926123 TATATAA-ATA-ATTTAATTGTAATAAAAATTATTTT-T
1 TATATAATATATATTT--TT-T-ATAAAAATTATTTTAT
1926159 TAAATATAATATATATTTCTTTATTAAAAA
1 T--ATATAATATATATTT-TTTA-TAAAAA
1926189 GTAAATTATT
Statistics
Matches: 55, Mismatches: 1, Indels: 18
0.74 0.01 0.24
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 3 0.05
36 9 0.16
37 2 0.04
38 25 0.45
39 5 0.09
40 4 0.07
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (35 bp):
TATATAATATATATTTTTTATAAAAATTATTTTAT
Found at i:1926394 original size:25 final size:25
Alignment explanation
Indices: 1926360--1926408 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1926350 ATTGAAATTT
*
1926360 TAAAATATACATTGAAA-TATTTTG
1 TAAAATATACATTCAAATTATTTTG
*
1926384 TAAAAGTATACTTTCAAATTATTTT
1 TAAAA-TATACATTCAAATTATTTT
1926409 TTATTAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 10 0.48
26 6 0.29
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (25 bp):
TAAAATATACATTCAAATTATTTTG
Found at i:1927617 original size:26 final size:27
Alignment explanation
Indices: 1927583--1927633 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
1927573 AGTTTACGAA
* *
1927583 CTTCATTATAATTTTAA-ATATTTAAT
1 CTTCATTATAAATCTAACATATTTAAT
*
1927609 CTTCCTTATAAATCTAACATATTTA
1 CTTCATTATAAATCTAACATATTTA
1927634 TTTCCATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (27 bp):
CTTCATTATAAATCTAACATATTTAAT
Found at i:1928604 original size:19 final size:19
Alignment explanation
Indices: 1928548--1928596 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1928538 AAAACGTATT
*
1928548 TATGAACAGTAAAATATGG
1 TATGAACAGTAAAATATGA
*
1928567 TATAAACAGTAAAATATGA
1 TATGAACAGTAAAATATGA
1928586 TATGAACAGTA
1 TATGAACAGTA
1928597 CCATATGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (19 bp):
TATGAACAGTAAAATATGA
Found at i:1928706 original size:21 final size:22
Alignment explanation
Indices: 1928664--1928707 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1928654 ATTCAAAGAG
*
1928664 GGGAATCGATTCCCCTGCTACA
1 GGGAATCGATTACCCTGCTACA
*
1928686 GGGAATCGA-TACCCTGTTACA
1 GGGAATCGATTACCCTGCTACA
1928707 G
1 G
1928708 TGCTGCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (22 bp):
GGGAATCGATTACCCTGCTACA
Found at i:1929816 original size:21 final size:21
Alignment explanation
Indices: 1929792--1929834 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1929782 ATGAAATTTT
1929792 TGTTCAAGCCCAGAAAA-TCAC
1 TGTTCAAGCCC-GAAAATTCAC
* *
1929813 TGTTTATGCCCGAAAATTCAC
1 TGTTCAAGCCCGAAAATTCAC
1929834 T
1 T
1929835 ATATCAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (21 bp):
TGTTCAAGCCCGAAAATTCAC
Found at i:1932561 original size:2 final size:2
Alignment explanation
Indices: 1932554--1932579 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1932544 CAAATTATCC
1932554 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1932580 TCTTTCCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1936404 original size:2 final size:2
Alignment explanation
Indices: 1936397--1936425 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1936387 GTGTTTAAAT
1936397 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 T
1936426 TATTTAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1945229 original size:2 final size:2
Alignment explanation
Indices: 1945222--1945248 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1945212 CTCCCTTCAT
1945222 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1945249 ATTTCCTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1948495 original size:80 final size:81
Alignment explanation
Indices: 1948396--1948580 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 81
1948386 CCTTTTCAGC
* *
1948396 TTCCACTT-CAGGTTCCTTCTTTTCAACCAAATTGATTTTA-ATACCATTTCAGCTTCAAATTTC
1 TTCCA-TTGCAGGTTCCTTCTTTTCAACCAAATTGAATTCAGATACCATTTCAGCTTCAAATTTC
1948459 TT-TGTTTCGACCCGTTG
65 TTCT-TTTCGACCCGTTG
* * * * * **
1948476 TTCCATTGCAGGTTCCTTCTTATCAACCGACTTTAATTCAGGTACCATTTCAGCTTCAGGTTTCT
1 TTCCATTGCAGGTTCCTTCTTTTCAACCAAATTGAATTCAGATACCATTTCAGCTTCAAATTTCT
*
1948541 TCTTTTTGACCCGTTG
66 TCTTTTCGACCCGTTG
**
1948557 TTCTTTTGCAGGTTCCTTCTTTTC
1 TTCCATTGCAGGTTCCTTCTTTTC
1948581 CACCCATTGT
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 31 0.35
81 55 0.62
82 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.45
Consensus pattern (81 bp):
TTCCATTGCAGGTTCCTTCTTTTCAACCAAATTGAATTCAGATACCATTTCAGCTTCAAATTTCT
TCTTTTCGACCCGTTG
Found at i:1948576 original size:33 final size:33
Alignment explanation
Indices: 1948532--1948613 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
1948522 ATTTCAGCTT
* ** * *
1948532 CAGGTTTCTTCTTTTTGACCCGTTGTTCTTTTG
1 CAGGTTCCTTCTTTTCCACCCATTGTTCATTTG
1948565 CAGGTTCCTTCTTTTCCACCCATTGTTCATTTG
1 CAGGTTCCTTCTTTTCCACCCATTGTTCATTTG
*
1948598 CAAGTTCCTTCTTTTC
1 CAGGTTCCTTCTTTTC
1948614 AACCGACCGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.10, C:0.27, G:0.13, T:0.50
Consensus pattern (33 bp):
CAGGTTCCTTCTTTTCCACCCATTGTTCATTTG
Found at i:1948638 original size:36 final size:35
Alignment explanation
Indices: 1948551--1948654 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 35
1948541 TCTTTTTGAC
* * *
1948551 CCGTTGTTCTTTTGCAGGTTCCTTCTTTTCCAC--
1 CCGTTGTTCATTTGCAAGTTCCTTCTTTTCAACGA
*
1948584 CCATTGTTCATTTGCAAGTTCCTTCTTTTCAACCGA
1 CCGTTGTTCATTTGCAAGTTCCTTCTTTTCAA-CGA
* *
1948620 CCGTTGTTCCTTTACAAGTTCC--CTTTTCAATCGA
1 CCGTTGTTCATTTGCAAGTTCCTTCTTTTCAA-CGA
1948654 C
1 C
1948655 TTTGATTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
33 28 0.47
34 13 0.22
36 19 0.32
ACGTcount: A:0.14, C:0.30, G:0.12, T:0.43
Consensus pattern (35 bp):
CCGTTGTTCATTTGCAAGTTCCTTCTTTTCAACGA
Found at i:1948741 original size:80 final size:80
Alignment explanation
Indices: 1948646--1949447 Score: 627
Period size: 81 Copynumber: 10.5 Consensus size: 80
1948636 AGTTCCCTTT
* **
1948646 TCAATCGACTTTGATTTTGGTATTATTTCAGCTTCAGGTTCCTTCTTTTCAACTGTTGTTCCTTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAACTGTTGTTCCTTT
*
1948711 GTAGGTTTCTTCTTA
66 GTAGGTTCCTTCTTA
* * * * *
1948726 TCAATCGACTTTGATTTGGGAACCATTTGAGCTTCAGGTTCC-T-TTTTCGA-TCG--G-----T
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAACT-GTTGTTCCTT
1948781 TGT----TCCTTCTTA
65 TGTAGGTTCCTTCTTA
*
1948793 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTC-TTTCGACCTGTTGTTCCTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTC-AACTGTTGTTCCTT
1948857 TGTAGGTTCCTTCTTA
65 TGTAGGTTCCTTCTTA
* * * * * *
1948873 TCAACTGACTTTGA-TTTAGTATCATTTCAGCTTCAGGTTCATTCCTTTCAACCGTTGTTCCTTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAACTGTTGTTCCTTT
*
1948937 GCAGGTTCCTTCTTA
66 GTAGGTTCCTTCTTA
* * *
1948952 TCAACCAACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCGTTTCCACCTGTTGTTCCTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTC-TTTTCAACTGTTGTTCCTT
* * *
1949017 TGCAAGTTCCTTCTTT
65 TGTAGGTTCCTTCTTA
* * * * *
1949033 TCAACCGAC--CG-TGTT--T-CC-TTT--G---CAAGTTCTTTCTTTTCAACCCGTTGTTCCTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAA-CTGTTGTTCCTT
1949086 TGTAGGTTCCTTCTTA
65 TGTAGGTTCCTTCTTA
* * **
1949102 TCAACCGACTTTGATTTTGGAACCAATTC--CTTC---TT--TTC-GATC-A--GTTGTTCCTTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAACTGTTGTTCCTTT
* *
1949156 GCAGGTT-CATCATTA
66 GTAGGTTCCTTC-TTA
* * * **
1949171 TCAACCAACTTTGGTTTTGGAACCA--T-AGCTTCAGGTTCCTTCTTTTTTA-TAGATTGTTCCT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAACT-G-TTGTTCCT
*
1949232 TTGTAAGTTCCTTCTTA
64 TTGTAGGTTCCTTCTTA
* * * ** * * *
1949249 TCAACCGATTTTGATTTTAGTATCATTTCAGAGTCAGGTTCCTTCTTTTCGAC--CTGTTCATTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAACTGTTGTTCCTTT
** *
1949312 CCAGGTT-CTTTTGTA
66 GTAGGTTCCTTCT-TA
* * * * *** *
1949327 TCAACCGACTTAGATTTTGGTATCATTTCAGCTTCGGGTTCCTTTTTTTTGTCCCGTTGTTCCTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCC-TTCTTTTCAACTGTTGTTCCTT
1949392 TGTAGGTTCCTTCTTA
65 TGTAGGTTCCTTCTTA
* * * *
1949408 TCAATCAATTTTGATTTTGATACCATTTCAGCTTCAGGTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTT
1949448 TCTTTGTAGG
Statistics
Matches: 572, Mismatches: 96, Indels: 107
0.74 0.12 0.14
Matches are distributed among these distances:
67 47 0.08
68 17 0.03
69 86 0.15
70 1 0.00
71 8 0.01
72 5 0.01
73 5 0.01
74 7 0.01
75 5 0.01
76 10 0.02
77 6 0.01
78 97 0.17
79 79 0.14
80 91 0.16
81 104 0.18
82 4 0.01
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (80 bp):
TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCAACTGTTGTTCCTTT
GTAGGTTCCTTCTTA
Found at i:1948805 original size:147 final size:149
Alignment explanation
Indices: 1948646--1949037 Score: 470
Period size: 147 Copynumber: 2.6 Consensus size: 149
1948636 AGTTCCCTTT
* ** *
1948646 TCAATCGACTTTGATTTTGGTATTATTTCAGCTTCAGGTTCCTTCTTTTCAACTGTTGTTCCTTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCACCTGTTGTTCCTTT
* * * * *
1948711 GTAGGTTTCTTCTTATCAATCGACTTTGATTTGGGAACCATTTGAGCTTCAGGTTCCTT-TTTCG
66 GTAGGTTCCTTCTTATCAA-CGACTTTGATTT-AGAACCATTTCAGCTTCAGGTTCATTCTTTCA
*
1948775 ATCG-G-TT-GTTCCTTCTTA
129 ACCGTGTTTGGTTCCTTCTTA
1948793 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTC-TTTCGACCTGTTGTTCCTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTC-ACCTGTTGTTCCTT
* *
1948857 TGTAGGTTCCTTCTTATCAACTGACTTTGATTTAGTATCATTTCAGCTTCAGGTTCATTCCTTTC
65 TGTAGGTTCCTTCTTATCAAC-GACTTTGATTTAGAACCATTTCAGCTTCAGGTTCATT-CTTTC
1948922 AACCGTTGTTCCTTTGCAGGTTCCTTCTTA
128 AACCG-TG----TTT---GGTTCCTTCTTA
* *
1948952 TCAACCAACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCGTTTCCACCTGTTGTTCCTT
1 TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTC-TTTTCACCTGTTGTTCCTT
* * *
1949017 TGCAAGTTCCTTCTTTTCAAC
65 TGTAGGTTCCTTCTTATCAAC
1949038 CGACCGTGTT
Statistics
Matches: 211, Mismatches: 17, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
146 26 0.12
147 85 0.40
148 7 0.03
150 1 0.00
155 2 0.01
159 55 0.26
160 32 0.15
161 3 0.01
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.45
Consensus pattern (149 bp):
TCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCACCTGTTGTTCCTTT
GTAGGTTCCTTCTTATCAACGACTTTGATTTAGAACCATTTCAGCTTCAGGTTCATTCTTTCAAC
CGTGTTTGGTTCCTTCTTA
Found at i:1948827 original size:67 final size:68
Alignment explanation
Indices: 1948719--1948856 Score: 215
Period size: 67 Copynumber: 2.0 Consensus size: 68
1948709 TTGTAGGTTT
* * *
1948719 CTTCTTATCAATCGACTTTGATTTGGGAACCATTTGAGCTTCAGGTTCCTT-TTTCGATCGGTTG
1 CTTCTTATCAACCGACTTTGATTTGGGAACCATTTCAGCTTCAGGTTCCTTCTTTCGACCGGTTG
1948783 TTC
66 TTC
* * *
1948786 CTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTCGACCTGTTG
1 CTTCTTATCAACCGACTTTGATTTGGGAACCATTTCAGCTTCAGGTTCCTTCTTTCGACCGGTTG
1948851 TTC
66 TTC
1948854 CTT
1 CTT
1948857 TGTAGGTTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
67 47 0.73
68 17 0.27
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (68 bp):
CTTCTTATCAACCGACTTTGATTTGGGAACCATTTCAGCTTCAGGTTCCTTCTTTCGACCGGTTG
TTC
Found at i:1948992 original size:159 final size:159
Alignment explanation
Indices: 1948782--1949447 Score: 573
Period size: 159 Copynumber: 4.3 Consensus size: 159
1948772 TCGATCGGTT
1948782 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTCGACCT
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTCGACCT
* * *
1948847 GTTGTTCCTTTGTAGGTTCCTTCTTATCAACTGACTTTGATTTAGTATCATTTCAGCTTCAGGTT
66 GTTGTTCCTTTGCAGGTTCCTTCTTATCAACCGACTTTGATTTGGTATCATTTCAGCTTCAGGTT
1948912 CATTCCTTTCAACCGTTGTTCCTTTGCAG
131 CATTCCTTTCAACCGTTGTTCCTTTGCAG
* *
1948941 GTTCCTTCTTATCAACCAACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCGTTTCCACC
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTC-TTTCGACC
* * * * * *
1949006 TGTTGTTCCTTTGCAAGTTCCTTCTTTTCAACCGAC--CG---T-GTTTCCTTT--G---CAAGT
65 TGTTGTTCCTTTGCAGGTTCCTTCTTATCAACCGACTTTGATTTGGTATCATTTCAGCTTCAGGT
* * *
1949060 TCTTTCTTTTCAACCCGTTGTTCCTTTGTAG
130 TCATTCCTTTCAA-CCGTTGTTCCTTTGCAG
* * * *
1949091 GTTCCTTCTTATCAACCGACTTTGATTTTGGAACCA----A--TTC--CTT-C-T-TTTCGATCA
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTCGACCT
* * * * *
1949145 GTTGTTCCTTTGCAGGTT-CATCATTATCAACCAACTTTGGTTTTGGAACCA--T-AGCTTCAGG
66 GTTGTTCCTTTGCAGGTTCCTTC-TTATCAACCGACTTT-GATTTGGTATCATTTCAGCTTCAGG
* * ** ** * *
1949206 TTCCTTCTTTTTTATAGATTGTTCCTTTGTAA
129 TTCATTCCTTTCAACCG-TTGTTCCTTTGCAG
* * * **
1949238 GTTCCTTCTTATCAACCGATTTTGATTTTAGTATCATTTCAGAGTCAGGTTCCTTCTTTTCGACC
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTC-TTTCGACC
* * * * *
1949303 ---TGTTCATTTCCAGGTT-CTTTTGTATCAACCGACTTAGATTTTGGTATCATTTCAGCTTCGG
65 TGTTGTTCCTTTGCAGGTTCCTTCT-TATCAACCGACTTTGA-TTTGGTATCATTTCAGCTTCAG
* ** *** *
1949364 GTTCCTTTTTTTTGTCCCGTTGTTCCTTTGTAG
128 GTT-CATTCCTTTCAACCGTTGTTCCTTTGCAG
* * * *
1949397 GTTCCTTCTTATCAATCAATTTTGATTTTGATACCATTTCAGCTTCAGGTT
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTT
1949448 TCTTTGTAGG
Statistics
Matches: 408, Mismatches: 66, Indels: 66
0.76 0.12 0.12
Matches are distributed among these distances:
137 3 0.01
138 33 0.08
140 1 0.00
141 2 0.00
142 2 0.00
143 1 0.00
144 5 0.01
145 2 0.00
146 2 0.00
147 59 0.14
149 15 0.04
150 50 0.12
151 1 0.00
152 1 0.00
153 2 0.00
154 7 0.02
155 5 0.01
156 37 0.09
157 1 0.00
158 2 0.00
159 129 0.32
160 48 0.12
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (159 bp):
GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTCGACCT
GTTGTTCCTTTGCAGGTTCCTTCTTATCAACCGACTTTGATTTGGTATCATTTCAGCTTCAGGTT
CATTCCTTTCAACCGTTGTTCCTTTGCAG
Found at i:1949054 original size:36 final size:36
Alignment explanation
Indices: 1949007--1949110 Score: 135
Period size: 36 Copynumber: 3.0 Consensus size: 36
1948997 GTTTCCACCT
1949007 GTTGTTCCTTTGCAAGTTCCTTCTTTTCAACCGACC
1 GTTGTTCCTTTGCAAGTTCCTTCTTTTCAACCGACC
*
1949043 G-TGTTTCCTTTGCAAGTTCTTTCTTTTCAA-C--CC
1 GTTG-TTCCTTTGCAAGTTCCTTCTTTTCAACCGACC
* * *
1949076 GTTGTTCCTTTGTAGGTTCCTTCTTATCAACCGAC
1 GTTGTTCCTTTGCAAGTTCCTTCTTTTCAACCGAC
1949111 TTTGATTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
33 25 0.43
34 3 0.05
35 3 0.05
36 27 0.47
ACGTcount: A:0.13, C:0.28, G:0.14, T:0.44
Consensus pattern (36 bp):
GTTGTTCCTTTGCAAGTTCCTTCTTTTCAACCGACC
Found at i:1949100 original size:33 final size:33
Alignment explanation
Indices: 1948989--1949107 Score: 132
Period size: 33 Copynumber: 3.5 Consensus size: 33
1948979 TCAGCTTCAG
* * *
1948989 GTTCCTTCGTTTCCACCTGTTGTTCCTTTGCAA
1 GTTCCTTCTTTTCAACCCGTTGTTCCTTTGCAA
1949022 GTTCCTTCTTTTCAACCGACCG-TGTTTCCTTTGCAA
1 GTTCCTTCTTTTCAA-C--CCGTTG-TTCCTTTGCAA
* * *
1949058 GTTCTTTCTTTTCAACCCGTTGTTCCTTTGTAG
1 GTTCCTTCTTTTCAACCCGTTGTTCCTTTGCAA
*
1949091 GTTCCTTCTTATCAACC
1 GTTCCTTCTTTTCAACC
1949108 GACTTTGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
33 40 0.55
34 3 0.04
35 3 0.04
36 27 0.37
ACGTcount: A:0.12, C:0.29, G:0.13, T:0.45
Consensus pattern (33 bp):
GTTCCTTCTTTTCAACCCGTTGTTCCTTTGCAA
Found at i:1949136 original size:69 final size:69
Alignment explanation
Indices: 1949063--1949195 Score: 187
Period size: 69 Copynumber: 1.9 Consensus size: 69
1949053 TGCAAGTTCT
* * * *
1949063 TTCTTTTCAACCCGTTGTTCCTTTGTAGGTTCCTTC-TTATCAACCGACTTTGATTTTGGAACCA
1 TTCTTTTCAACCAGTTGTTCCTTTGCAGGTT-CATCATTATCAACCAACTTTGATTTTGGAACCA
1949127 ATTCC
65 ATTCC
* * *
1949132 TTCTTTTCGATCAGTTGTTCCTTTGCAGGTTCATCATTATCAACCAACTTTGGTTTTGGAACCA
1 TTCTTTTCAACCAGTTGTTCCTTTGCAGGTTCATCATTATCAACCAACTTTGATTTTGGAACCA
1949196 TAGCTTCAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 3 0.05
69 53 0.95
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (69 bp):
TTCTTTTCAACCAGTTGTTCCTTTGCAGGTTCATCATTATCAACCAACTTTGATTTTGGAACCAA
TTCC
Found at i:1949424 original size:81 final size:79
Alignment explanation
Indices: 1949128--1949452 Score: 248
Period size: 78 Copynumber: 4.1 Consensus size: 79
1949118 TTGGAACCAA
* * * * * * * *
1949128 TTCCTTCTTTTCGATCAGTTGTTCCTTTGCAGGTT-CATCATTATCAACCAACTTTGGTTTTGGA
1 TTCCTTTTTTTCGA-C-CTTGTTCCTTTGTAGGTTCCTTC-TTATCAACCGATTTTGATTTTGGT
*
1949192 ACCA--T-AGCTTCAGG
63 ATCATTTCAGCTTCAGG
** ** * *
1949206 TTCCTTCTTTTTTATAGATTGTTCCTTTGTAAGTTCCTTCTTATCAACCGATTTTGATTTTAGTA
1 TTCC-T-TTTTTTCGACCTTGTTCCTTTGTAGGTTCCTTCTTATCAACCGATTTTGATTTTGGTA
**
1949271 TCATTTCAGAGTCAGG
64 TCATTTCAGCTTCAGG
* * ** * * *
1949287 TTCCTTCTTTTCGACC-TGTTCATTTCCAGGTT-CTTTTGTATCAACCGACTTAGATTTTGGTAT
1 TTCCTTTTTTTCGACCTTGTTCCTTTGTAGGTTCCTTCT-TATCAACCGATTTTGATTTTGGTAT
*
1949350 CATTTCAGCTTCGGG
65 CATTTCAGCTTCAGG
* * * * *
1949365 TTCCTTTTTTTTGTCCCGTTGTTCCTTTGTAGGTTCCTTCTTATCAATCAATTTTGATTTTGATA
1 TTCCTTTTTTTCG-ACC-TTGTTCCTTTGTAGGTTCCTTCTTATCAACCGATTTTGATTTTGGTA
*
1949430 CCATTTCAGCTTCAGG
64 TCATTTCAGCTTCAGG
*
1949446 TTTCTTT
1 TTCCTTT
1949453 GTAGGTTGTT
Statistics
Matches: 189, Mismatches: 47, Indels: 19
0.74 0.18 0.07
Matches are distributed among these distances:
77 4 0.02
78 98 0.52
79 12 0.06
80 8 0.04
81 63 0.33
82 4 0.02
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (79 bp):
TTCCTTTTTTTCGACCTTGTTCCTTTGTAGGTTCCTTCTTATCAACCGATTTTGATTTTGGTATC
ATTTCAGCTTCAGG
Found at i:1949466 original size:60 final size:60
Alignment explanation
Indices: 1949389--1949503 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
1949379 CCCGTTGTTC
* *
1949389 CTTTGTAGGTTCCTTCTTATCAATCAATTTTGAT-TTTGATACCATTTCAGCTTCAGGTTT
1 CTTTGTAGGTTCCTTCTTATCAACCAACTTTGATATTTG-TACCATTTCAGCTTCAGGTTT
** *
1949449 CTTTGTAGGTTGTTTCTTATCAACCGACTTTGATATTTGTACCATTTCAGCTTCA
1 CTTTGTAGGTTCCTTCTTATCAACCAACTTTGATATTTGTACCATTTCAGCTTCA
1949504 AGTTCCTTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 45 0.92
61 4 0.08
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (60 bp):
CTTTGTAGGTTCCTTCTTATCAACCAACTTTGATATTTGTACCATTTCAGCTTCAGGTTT
Found at i:1949581 original size:139 final size:141
Alignment explanation
Indices: 1949325--1949586 Score: 386
Period size: 139 Copynumber: 1.9 Consensus size: 141
1949315 GGTTCTTTTG
* ** * * *
1949325 TATCAACCGACTTAGATTTTGGTATCATTTCAGCTTCGGGTTCCTTTTTTTTGTCCCGTTGTTCC
1 TATCAACCGACTTAGATTTTGGTACCATTTCAGCTTCAAGTTCCTTTCTTTCGACCCGTTGTTCC
* * *
1949390 TTTGTAGGTTCCTTCTTATCAATCAATTTTGATTTTGATACCATTTCAGCTTCAGGTTTCTTTGT
66 TTTGCAGGTTCCTTCTTATCAATCAACTCTGATTTTGATACCATTTCAGCTTCAGGTTTCTTTGT
1949455 AGGTTGTTTCT
131 AGGTTGTTTCT
* *
1949466 TATCAACCGACTTTGATATTT-GTACCATTTCAGCTTCAAGTTCC-TTCTTTCGACCTGTTGTTC
1 TATCAACCGACTTAGAT-TTTGGTACCATTTCAGCTTCAAGTTCCTTTCTTTCGACCCGTTGTTC
*
1949529 CTTTGCAGGTT-CTTCTTATCAATCGACTCTGATTTTGATACCATTTCAGCTTCAGGTT
65 CTTTGCAGGTTCCTTCTTATCAATCAACTCTGATTTTGATACCATTTCAGCTTCAGGTT
1949587 CCTTCTTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
139 44 0.41
140 25 0.23
141 36 0.33
142 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.46
Consensus pattern (141 bp):
TATCAACCGACTTAGATTTTGGTACCATTTCAGCTTCAAGTTCCTTTCTTTCGACCCGTTGTTCC
TTTGCAGGTTCCTTCTTATCAATCAACTCTGATTTTGATACCATTTCAGCTTCAGGTTTCTTTGT
AGGTTGTTTCT
Found at i:1949611 original size:220 final size:219
Alignment explanation
Indices: 1949243--1949667 Score: 606
Period size: 220 Copynumber: 1.9 Consensus size: 219
1949233 TGTAAGTTCC
* * *
1949243 TTCTTATCAACCGATTTTGATTTTAGTATCATTTCAGAGTCAGGTTCCTTCTTTTCGACCTGTTC
1 TTCTTATCAACCGACTTTGATTTTAGTACCATTTCAGAGTCAAGTTCCTTCTTTTCGACCTGTTC
* * * * *
1949308 ATTTCCAGGTTCTTTTGTATCAACCGACTTAGATTTTGGTATCATTTCAGCTTCGGGTTCCTTTT
66 ATTTCCAGGTTCTTCTGTATCAACCGACTTAGATTTTGATACCATTTCAGCTTCAGGTTCCTTCT
* * * * * *
1949373 TTTTGTCCCGTTGTTCCTTTGTAGGTTCCTTCTTATCAATCAATTTTGATTTTGATACCATTTCA
131 TTTTGACCCGTTGTTCCTTTGCAGGTTCCTTCTTATCAACCAACTCTGATTTTGATACAATTTCA
1949438 GCTTCAGGTTTCTTTGTAGGTTGT
196 GCTTCAGGTTTCTTTGTAGGTTGT
**
1949462 TTCTTATCAACCGACTTTGATATTT-GTACCATTTCAGCTTCAAGTTCCTTC-TTTCGACCTGTT
1 TTCTTATCAACCGACTTTGAT-TTTAGTACCATTTCAGAGTCAAGTTCCTTCTTTTCGACC---T
* * *
1949525 GTTCCTTTGCAGGTTCTTCT-TATCAATCGACTCT-GATTTTGATACCATTTCAGCTTCAGGTTC
62 GTTCATTTCCAGGTTCTTCTGTATCAACCGACT-TAGATTTTGATACCATTTCAGCTTCAGGTTC
1949588 CTTCTTTTTGACCCGTTGTTCCTTTGCAGGTTCCTTCTTATCAACCAACTCTGATTTTGATACAA
126 CTTCTTTTTGACCCGTTGTTCCTTTGCAGGTTCCTTCTTATCAACCAACTCTGATTTTGATACAA
1949653 TTTCAGCTTCAGGTT
191 TTTCAGCTTCAGGTT
1949668 CCTTCTTATC
Statistics
Matches: 182, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
218 8 0.04
219 42 0.23
220 113 0.62
221 19 0.10
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (219 bp):
TTCTTATCAACCGACTTTGATTTTAGTACCATTTCAGAGTCAAGTTCCTTCTTTTCGACCTGTTC
ATTTCCAGGTTCTTCTGTATCAACCGACTTAGATTTTGATACCATTTCAGCTTCAGGTTCCTTCT
TTTTGACCCGTTGTTCCTTTGCAGGTTCCTTCTTATCAACCAACTCTGATTTTGATACAATTTCA
GCTTCAGGTTTCTTTGTAGGTTGT
Found at i:1949650 original size:81 final size:80
Alignment explanation
Indices: 1949462--1950347 Score: 338
Period size: 81 Copynumber: 11.7 Consensus size: 80
1949452 TGTAGGTTGT
* * *
1949462 TTCTTATCAACCGACTTTGATATTTG-TACCATTTCAGCTTCAAGTTCCTTC-TTTCGACCTGTT
1 TTCTTATCAACCGACTCTGAT-TTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTT
1949525 GTTCCTTTGCAGGTTC
65 GTTCCTTTGCAGGTTC
* *
1949541 TTCTTATCAATCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTTGACCCGTTG
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTTG
1949606 TTCCTTTGCAGGTTCC
66 TTCCTTTGCAGGTT-C
* * * * *
1949622 TTCTTATCAACCAACTCTGATTTTGATACAATTTCAGCTTCAGGTTCCTTCTTATCAACCGACTT
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACC--CGT
*
1949687 TGGT--TTT---GGTGTC
64 TGTTCCTTTGCAGGT-TC
** ** ** ** ** ** * *
1949700 ATTTCAGATTTA--GGTTCTTTCTTTTCGACT-CGTTGTTC-CTTTGCAGGTTCCTTC-TTGCAA
1 --TTCTTATCAACCGACTC-TGATTTT-GA-TACCAT-TTCAGCTT-CAGGTTCCTTCTTTTCGA
1949760 CCGACTGTTGTTCCTTTGCAGGTTC
59 CC--C-GTTGTTCCTTTGCAGGTTC
* * * * *
1949785 TTTCTT-TCAACCGACT-TCAATTTTGGTACAATTTCAGCTTCAGG-----T-TTTTC-A-AC-A
1 -TTCTTATCAACCGACTCT-GATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGT
*
1949839 TGTTCCTTTGTC-TGTTCC
64 TGTTCCTTTG-CAGGTT-C
* * * *
1949857 TTCTTATCAACTG-CT-TGATTTTGGTACCATTTCAGCTTCAGG----TTC--TTC-A-AC-ATG
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTTG
*
1949911 TTCCTTTGTC-TGTTCC
66 TTCCTTTG-CAGGTT-C
* * * * * *
1949927 TTC-TATCAACAGGCTTTGATTTTGGTACCATTTCAGCTTCAGG----TTC-TTT--A-AC-ATG
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTTG
* *
1949982 TTCCTTTGTATGTTCC
66 TTCCTTTGCAGGTT-C
* * * * * *
1949998 TTCTTATCAACAGGCTTTGATTTTGGTACCATTTCAGCTTCAGG----TTC--TT--A-AC-ATG
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTTG
* *
1950053 TTCC-TTGTATGTTCC
66 TTCCTTTGCAGGTT-C
** * ** * *
1950068 TTCTTATCAGTCGACTTTGATTGGGA-ACCATTTGAGCTTCAGGTTCCTTC-TTTCGA-TCG--G
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTTG
*
1950128 TT--GTT-C-----C
66 TTCCTTTGCAGGTTC
* *
1950135 TTCTTATCAA-CGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCGA--C-TTG
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTT-
*
1950196 GTTCCTTTGTAGGTTCC
65 GTTCCTTTGCAGGTT-C
* * * * * * *
1950213 TTCTTATCAACTGACTTTGATTTAG-TATCATTTCAGCTTCAGGTTCATTCCTTTCAACCCGTTT
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCG--T
1950277 TGTTCCTTTGCAGGTTC
64 TGTTCCTTTGCAGGTTC
* * * *
1950294 TTCTTATCAACCAACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCTTT
1 TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTT
1950348 CTTTTCCTTG
Statistics
Matches: 661, Mismatches: 81, Indels: 127
0.76 0.09 0.15
Matches are distributed among these distances:
66 12 0.02
67 34 0.05
68 6 0.01
69 27 0.04
70 84 0.13
71 89 0.13
72 53 0.08
73 4 0.01
74 4 0.01
75 3 0.00
76 3 0.00
77 4 0.01
78 49 0.07
79 61 0.09
80 47 0.07
81 100 0.15
82 48 0.07
83 18 0.03
84 8 0.01
85 4 0.01
86 3 0.00
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (80 bp):
TTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCCTTCTTTTCGACCCGTTG
TTCCTTTGCAGGTTC
Found at i:1949704 original size:48 final size:48
Alignment explanation
Indices: 1949614--1949722 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 48
1949604 TGTTCCTTTG
*
1949614 CAGGTTCCTTCTTATCAACCAACTCTGATTTTGATACAATTTCAGCTT
1 CAGGTTCCTTCTTATCAACCAACTCTGATTTTGATACAATTTCAGATT
* * * * *
1949662 CAGGTTCCTTCTTATCAACCGACTTTGGTTTTGGTGTC-ATTTCAGATT
1 CAGGTTCCTTCTTATCAACCAACTCTGATTTTGAT-ACAATTTCAGATT
* *
1949710 TAGGTTCTTTCTT
1 CAGGTTCCTTCTT
1949723 TTCGACTCGT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 51 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (48 bp):
CAGGTTCCTTCTTATCAACCAACTCTGATTTTGATACAATTTCAGATT
Found at i:1949776 original size:35 final size:36
Alignment explanation
Indices: 1949725--1949800 Score: 127
Period size: 35 Copynumber: 2.1 Consensus size: 36
1949715 TCTTTCTTTT
1949725 CGACTCGTTGTTCCTTTGCAGGTTCCTTCTTGCAAC
1 CGACTCGTTGTTCCTTTGCAGGTTCCTTCTTGCAAC
* *
1949761 CGACT-GTTGTTCCTTTGCAGGTTCTTTCTTTCAAC
1 CGACTCGTTGTTCCTTTGCAGGTTCCTTCTTGCAAC
1949796 CGACT
1 CGACT
1949801 TCAATTTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41
Consensus pattern (36 bp):
CGACTCGTTGTTCCTTTGCAGGTTCCTTCTTGCAAC
Found at i:1949846 original size:71 final size:71
Alignment explanation
Indices: 1949804--1950258 Score: 495
Period size: 70 Copynumber: 6.4 Consensus size: 71
1949794 ACCGACTTCA
* *
1949804 ATTTTGGTACAATTTCAGCTTCAGGTTTTTCAACATGTTCCTTTGTCTGTTCCTTCTTATCAAC-
1 ATTTTGGTACCATTTCAGCTTCAGGTTCTT-AACATGTTCCTTTGTCTGTTCCTTCTTATCAACA
*
1949868 TGC-TTG
65 GGCTTTG
1949874 ATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTTGTCTGTTCCTTC-TATCAACA
1 ATTTTGGTACCATTTCAGCTTCAGGTTCTT-AACATGTTCCTTTGTCTGTTCCTTCTTATCAACA
1949938 GGCTTTG
65 GGCTTTG
*
1949945 ATTTTGGTACCATTTCAGCTTCAGGTTCTTTAACATGTTCCTTTGTATGTTCCTTCTTATCAACA
1 ATTTTGGTACCATTTCAGCTTCAGGTTC-TTAACATGTTCCTTTGTCTGTTCCTTCTTATCAACA
1950010 GGCTTTG
65 GGCTTTG
* *
1950017 ATTTTGGTACCATTTCAGCTTCAGGTTCTTAACATGTTCC-TTGTATGTTCCTTCTTATCAGTC-
1 ATTTTGGTACCATTTCAGCTTCAGGTTCTTAACATGTTCCTTTGTCTGTTCCTTCTTATCA-ACA
*
1950080 GACTTTG
65 GGCTTTG
* * * * **
1950087 A-TTGGGAACCATTTGAGCTTCAGGTTCCTT--C-T-TTCGATCGGT-TGTTCCTTCTTATCAAC
1 ATTTTGGTACCATTTCAGCTTCAGGTT-CTTAACATGTTC-CTTTGTCTGTTCCTTCTTATCAAC
*
1950146 -GACTTTG
64 AGGCTTTG
* * **
1950153 ATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCGACTTGGTTCCTTTGTAGGTTCCTTCTT
1 ATTTTGGTACCATTTCAGCTTCAGG----TTC--TT-AACAT-GTTCCTTTGTCTGTTCCTTCTT
* *
1950218 ATCAACTGACTTTG
58 ATCAACAGGCTTTG
* *
1950232 A-TTTAGTATCATTTCAGCTTCAGGTTC
1 ATTTTGGTACCATTTCAGCTTCAGGTTC
1950259 ATTCCTTTCA
Statistics
Matches: 340, Mismatches: 22, Indels: 42
0.84 0.05 0.10
Matches are distributed among these distances:
66 12 0.04
67 36 0.11
68 3 0.01
69 29 0.09
70 87 0.26
71 70 0.21
72 47 0.14
74 3 0.01
75 1 0.00
76 1 0.00
77 3 0.01
78 40 0.12
79 8 0.02
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (71 bp):
ATTTTGGTACCATTTCAGCTTCAGGTTCTTAACATGTTCCTTTGTCTGTTCCTTCTTATCAACAG
GCTTTG
Found at i:1949889 original size:70 final size:71
Alignment explanation
Indices: 1949768--1950340 Score: 528
Period size: 71 Copynumber: 7.9 Consensus size: 71
1949758 AACCGACTGT
* * * * ** * *
1949768 TGTTCCTTTGCAGGTTCTTTCTT-TCAACCGACTTCAATTTTGGTACAATTTCAGCTTCAGGTTT
1 TGTTCCTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1949832 TTCAACA
66 TT-AACA
*
1949839 TGTTCCTTTGTCTGTTCCTTCTTATCAACTG-C-TTGATTTTGGTACCATTTCAGCTTCAGGTTC
1 TGTTCCTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1949902 TTCAACA
66 TT-AACA
* * *
1949909 TGTTCCTTTGTCTGTTCCTTC-TATCAACAGGCTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1 TGTTCCTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1949973 TTTAACA
66 -TTAACA
* *
1949980 TGTTCCTTTGTATGTTCCTTCTTATCAACAGGCTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1 TGTTCCTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1950045 TTAACA
66 TTAACA
* * * *
1950051 TGTTCC-TTGTATGTTCCTTCTTATC-AGTCGACTTTGA-TTGGGAACCATTTGAGCTTCAGGTT
1 TGTTCCTTTGTATGTTCCTTCTTATCAACT-GACTTTGATTTTGGTACCATTTCAGCTTCAGGTT
1950113 CCTT--C-
65 -CTTAACA
* **
1950118 T-TTCGATCGGT-TGTTCCTTCTTATCAAC-GACTTTGATTTTGGTACCATTTCAGCTTCAGGTT
1 TGTTC-CTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGG--
* *
1950180 CCTTCTTTTCGACT
63 --TTC--TT-AACA
* * *
1950194 TGGTTCCTTTGTAGGTTCCTTCTTATCAACTGACTTTGA-TTTAGTATCATTTCAGCTTCAGGTT
1 T-GTTCCTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGG--
*
1950258 CATTCCTTTCAACCCGTTT
63 --TT-C-TT-AA--C---A
* * **
1950277 TGTTCCTTTGCAGGTT-CTTCTTATCAACCAACTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1 TGTTCCTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1950341 ATTCTTTCTT
Statistics
Matches: 433, Mismatches: 37, Indels: 58
0.82 0.07 0.11
Matches are distributed among these distances:
66 11 0.03
67 35 0.08
68 4 0.01
69 31 0.07
70 86 0.20
71 89 0.21
72 53 0.12
75 1 0.00
76 1 0.00
77 4 0.01
78 52 0.12
79 9 0.02
80 1 0.00
81 19 0.04
82 35 0.08
83 2 0.00
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (71 bp):
TGTTCCTTTGTATGTTCCTTCTTATCAACTGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
TTAACA
Found at i:1950066 original size:141 final size:142
Alignment explanation
Indices: 1949768--1950340 Score: 555
Period size: 141 Copynumber: 4.0 Consensus size: 142
1949758 AACCGACTGT
* * * ** *
1949768 TGTTCCTTTGCAGGTTCTTTCTT-TCAACCGACTTCAATTTTGGTACAATTTCAGCTTCAGGTT-
1 TGTTCCTTTGTATGTTCCTTCTTATCAA-CGACTTTGA-TTTGGTACCATTTCAGCTTCAGGTTC
*
1949831 TTTCAACATGTTCCTTTGTCTGTTCCTTCTTATCAACTG-C-TTGATTTTGGTACCATTTCAGCT
64 TTTCAACATGTTCCTTTGTATGTTCCTTCTTATCAAC-GACTTTGATTTTGGTACCATTTCAGCT
1949894 TCAGGTTCTTCAACA
128 TCAGGTTCTTCAACA
* *
1949909 TGTTCCTTTGTCTGTTCCTTC-TATCAACAGGCTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1 TGTTCCTTTGTATGTTCCTTCTTATCAAC-GACTTTGA-TTTGGTACCATTTCAGCTTCAGGTTC
*
1949973 TTT-AACATGTTCCTTTGTATGTTCCTTCTTATCAACAGGCTTTGATTTTGGTACCATTTCAGCT
64 TTTCAACATGTTCCTTTGTATGTTCCTTCTTATCAAC-GACTTTGATTTTGGTACCATTTCAGCT
1950037 TCAGGTTCTT-AACA
128 TCAGGTTCTTCAACA
* * * * *
1950051 TGTTCC-TTGTATGTTCCTTCTTATCAGTCGACTTTGATTGGGAACCATTTGAGCTTCAGGTTCC
1 TGTTCCTTTGTATGTTCCTTCTTATCA-ACGACTTTGATTTGGTACCATTTCAGCTTCAGGTTCT
* **
1950115 TT---C-T-TTCGATCGGT-TGTTCCTTCTTATCAACGACTTTGATTTTGGTACCATTTCAGCTT
65 TTCAACATGTTC-CTTTGTATGTTCCTTCTTATCAACGACTTTGATTTTGGTACCATTTCAGCTT
* *
1950174 CAGGTTCCTTCTTTTCGACT
129 CAGG----TTC--TTCAACA
* * *
1950194 TGGTTCCTTTGTAGGTTCCTTCTTATCAACTGACTTTGATTTAGTATCATTTCAGCTTCAGGTTC
1 T-GTTCCTTTGTATGTTCCTTCTTATCAAC-GACTTTGATTTGGTACCATTTCAGCTTCAGG---
* * * *
1950259 ATTCCTTTCAACCCGTTTTGTTCCTTTGCAGGTT-CTTCTTATCAACCAACTTTGATTTTGGTAC
61 -TT-CTTTCAA--C---ATGTTCCTTTGTATGTTCCTTCTTATCAA-CGACTTTGATTTTGGTAC
1950323 CATTTCAGCTTCAGGTTC
118 CATTTCAGCTTCAGGTTC
1950341 ATTCTTTCTT
Statistics
Matches: 360, Mismatches: 37, Indels: 55
0.80 0.08 0.12
Matches are distributed among these distances:
136 31 0.09
137 20 0.06
138 4 0.01
139 1 0.00
140 5 0.01
141 122 0.34
142 28 0.08
143 37 0.10
144 6 0.02
145 45 0.12
149 2 0.01
150 3 0.01
155 1 0.00
156 3 0.01
159 14 0.04
160 38 0.11
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (142 bp):
TGTTCCTTTGTATGTTCCTTCTTATCAACGACTTTGATTTGGTACCATTTCAGCTTCAGGTTCTT
TCAACATGTTCCTTTGTATGTTCCTTCTTATCAACGACTTTGATTTTGGTACCATTTCAGCTTCA
GGTTCTTCAACA
Found at i:1950295 original size:78 final size:75
Alignment explanation
Indices: 1950135--1950348 Score: 243
Period size: 82 Copynumber: 2.7 Consensus size: 75
1950125 CGGTTGTTCC
* * *
1950135 TTCTTATCAACGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCGACTTGGTTC
1 TTCTTATCAACGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTCAACTTGGTTC
*
1950200 CTTTGTAGGTT
66 CTTTGCAGG-T
* *
1950211 CCTTCTTATCAACTGACTTTGA-TTTAGTATCATTTCAGCTTCAGGTTCATTCCTTTCAACCCGT
1 --TTCTTATCAAC-GACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTCAA--C--
*
1950275 TTTGTTCCTTTGCAGGTT
59 TTGGTTCCTTTGCAGG-T
*
1950293 CTTCTTATCAACCAACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATT-CTTTC
1 -TTCTTATCAA-CGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTC
1950349 TTTTCCTTGC
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
78 43 0.36
79 8 0.07
80 1 0.01
81 23 0.19
82 44 0.37
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (75 bp):
TTCTTATCAACGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTCAACTTGGTTC
CTTTGCAGGT
Found at i:1950327 original size:82 final size:79
Alignment explanation
Indices: 1950130--1950348 Score: 293
Period size: 78 Copynumber: 2.8 Consensus size: 79
1950120 TCGATCGGTT
* * *
1950130 GTTCCTTCTTATCAA-CGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCCTTCTTTTCGACT
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTCAACT
*
1950194 TGGTTCCTTTGTAG
66 TGGTTCCTTTGCAG
* * *
1950208 GTTCCTTCTTATCAACTGACTTTGA-TTTAGTATCATTTCAGCTTCAGGTTCATTCCTTTCAACC
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTCAA--
*
1950272 CGTTTTGTTCCTTTGCAG
64 C--TTGGTTCCTTTGCAG
*
1950290 GTT-CTTCTTATCAACCAACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATT-CTTTC
1 GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTC
1950349 TTTTCCTTGC
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
78 47 0.38
79 8 0.07
80 1 0.01
81 24 0.20
82 43 0.35
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (79 bp):
GTTCCTTCTTATCAACCGACTTTGATTTTGGTACCATTTCAGCTTCAGGTTCATTCCTTTCAACT
TGGTTCCTTTGCAG
Found at i:1950827 original size:80 final size:80
Alignment explanation
Indices: 1950588--1950843 Score: 257
Period size: 80 Copynumber: 3.2 Consensus size: 80
1950578 TTGGAACCAT
* * **
1950588 AGCTTCAGGTTCCTTCTTTTT-TATCGGTTGTTCCTTTGTAGGTTCCTTCTTATCAACCGGTTTT
1 AGCTTCAGGTTCCTTCTTTTTGT-CCCGTTGTTCCTTTGTAGGTTCCTTCTTATCAACCAATTTT
*
1950652 GATTTTAGTATCATTTC
65 GATTTGA-TATCATTTC
* * * * * ** * * *
1950669 GGCTTCAGGTTCCTTC-TTTCGACCTGTTGTTCATTTCCAGGTTCTTTCGTATCAACCGAA-TTA
1 AGCTTCAGGTTCCTTCTTTTTGTCCCGTTGTTCCTTTGTAGGTTCCTTCTTATCAACC-AATTTT
*
1950732 GATTTTGGTATCATTTC
65 GA-TTTGATATCATTTC
* * * *
1950749 AGCTTCGGGTTCCTTCTTTTTGTCCCGTCGTTCCTTTGTAGGTTCCTTCTTTTCAATCAATTTTG
1 AGCTTCAGGTTCCTTCTTTTTGTCCCGTTGTTCCTTTGTAGGTTCCTTCTTATCAACCAATTTTG
*
1950814 ATTTGATACCATTTC
66 ATTTGATATCATTTC
*
1950829 AGCTTCGGGTTCCTT
1 AGCTTCAGGTTCCTT
1950844 TGTAGGTTCT
Statistics
Matches: 139, Mismatches: 31, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
80 87 0.63
81 52 0.37
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (80 bp):
AGCTTCAGGTTCCTTCTTTTTGTCCCGTTGTTCCTTTGTAGGTTCCTTCTTATCAACCAATTTTG
ATTTGATATCATTTC
Found at i:1950850 original size:59 final size:58
Alignment explanation
Indices: 1950778--1950902 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 58
1950768 TTGTCCCGTC
* * * **
1950778 GTTCCTTTGTAGGTTCCTTCTTTTCAATCAATTTTGA-TTTGATACCATTTCAGCTTCGG
1 GTTCCTTTGTAGGTTCCTTCTTATCAACCAA-CTTGACTTTG-TACCATTTCAGCTTCAA
* *
1950837 GTTCCTTTGTAGGTTCTTTCTTATCAACCGACTTGATCTTTGTACCATTTCAGCTTCAA
1 GTTCCTTTGTAGGTTCCTTCTTATCAACCAACTTGA-CTTTGTACCATTTCAGCTTCAA
1950896 GTTCCTT
1 GTTCCTT
1950903 CTTTTCGACC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 4 0.07
59 49 0.86
60 4 0.07
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.46
Consensus pattern (58 bp):
GTTCCTTTGTAGGTTCCTTCTTATCAACCAACTTGACTTTGTACCATTTCAGCTTCAA
Found at i:1951107 original size:81 final size:79
Alignment explanation
Indices: 1950837--1951184 Score: 393
Period size: 80 Copynumber: 4.4 Consensus size: 79
1950827 TCAGCTTCGG
* *
1950837 GTTCCTTTGTAGGTTCTTTCTTATCAACCGACTTGATCTTT-GTACCATTTCAGCTTCAAGTTCC
1 GTTCCTTTGCAGGTTCCTTCTTATCAACCGACTTGAT-TTTGGTACCATTTCAGCTTCAAGTTCC
1950901 TTCTTTTCGACCTGTT
65 TTCTTTTCGACC-GTT
* *
1950917 GTTCCTTTGCAGGTTCCTTCTTATCAACCGACTCTGATTTTGATACCATTTCAGCTTCAGGTTCC
1 GTTCCTTTGCAGGTTCCTTCTTATCAACCGACT-TGATTTTGGTACCATTTCAGCTTCAAGTTCC
*
1950982 TTCTTTTTGACCGTT
65 TTCTTTTCGACCGTT
* ** * *
1950997 GTTCC-TTGCAGGTTCCTTCTTATCAACCGACTTTGATTTTGGTATCATCACGGCTTCAAGTCCC
1 GTTCCTTTGCAGGTTCCTTCTTATCAACCGAC-TTGATTTTGGTACCATTTCAGCTTCAAGTTCC
* *
1951061 TGCTTTTCGAACCATT
65 TTCTTTTCG-ACCGTT
* ** * * * * * *
1951077 GATCCTTTGCACATTCCTTCTTATCAACCGACTTGGTTTTGGTATCATTTCAGATTTAGGTTCTT
1 GTTCCTTTGCAGGTTCCTTCTTATCAACCGACTTGATTTTGGTACCATTTCAGCTTCAAGTTCCT
*
1951142 TC-TTTCTA-C-TT
66 TCTTTTCGACCGTT
*
1951153 GTTCCTTTGCAGCTTCCTTCTT-TGCAACCGAC
1 GTTCCTTTGCAGGTTCCTTCTTAT-CAACCGAC
1951185 CATTGTTCCT
Statistics
Matches: 230, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
75 1 0.00
76 29 0.13
77 1 0.00
78 1 0.00
79 61 0.27
80 77 0.33
81 60 0.26
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.43
Consensus pattern (79 bp):
GTTCCTTTGCAGGTTCCTTCTTATCAACCGACTTGATTTTGGTACCATTTCAGCTTCAAGTTCCT
TCTTTTCGACCGTT
Found at i:1951299 original size:59 final size:60
Alignment explanation
Indices: 1951225--1951397 Score: 206
Period size: 71 Copynumber: 2.7 Consensus size: 60
1951215 ACCAACTTCA
* *
1951225 ATTTTGGTACAATTTCAGCTTCAGGTTCTTCAACATGTTCCTTCTTATCAACAGGCTTTG
1 ATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTCTTATCAACAGACTTTG
1951285 A-TTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTTGTATGCTCCTTCTTATCAACA
1 ATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACA--------TG--T--TCCTTCTTATCAACA
1951349 GACTTTG
54 GACTTTG
1951356 ATTTTGGTACCA-TTCAGCTTCAGGTTCTTCAACATGTTCCTT
1 ATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTT
1951398 TGTATGTTCC
Statistics
Matches: 98, Mismatches: 2, Indels: 27
0.77 0.02 0.21
Matches are distributed among these distances:
59 37 0.38
60 1 0.01
61 1 0.01
63 2 0.02
67 2 0.02
69 1 0.01
71 44 0.45
72 10 0.10
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (60 bp):
ATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTCTTATCAACAGACTTTG
Found at i:1951348 original size:71 final size:71
Alignment explanation
Indices: 1951263--1951454 Score: 314
Period size: 71 Copynumber: 2.7 Consensus size: 71
1951253 TTCAACATGT
1951263 TCCTTCTTATCAACAGGCTTTGATTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTT
1 TCCTTCTTATCAACAGGCTTTGATTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTT
1951328 GTATGC
66 GTATGC
*
1951334 TCCTTCTTATCAACAGACTTTGATTTTGGTACCA-TTCAGCTTCAGGTTCTTCAACATGTTCCTT
1 TCCTTCTTATCAACAGGCTTTGA-TTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTT
*
1951398 TGTATGT
65 TGTATGC
* * *
1951405 TCCTTCTTATCAACAGGTTTTGATTCTGGTACTATTTCAGTTTCAGGTTC
1 TCCTTCTTATCAACAGGCTTTGATT-TGGTACCATTTCAGCTTCAGGTTC
1951455 CTTATTTTCG
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
70 2 0.02
71 86 0.77
72 24 0.21
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (71 bp):
TCCTTCTTATCAACAGGCTTTGATTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTT
GTATGC
Found at i:1951669 original size:80 final size:80
Alignment explanation
Indices: 1951490--1951788 Score: 246
Period size: 80 Copynumber: 3.9 Consensus size: 80
1951480 TTTTTGACCC
* * * * *
1951490 GTTGTTCCTTTGCAGGTTCCTTCTTATCAACTGACTTTGATTTT-GTATCGTTTCGGCTTCAAGT
1 GTTGTTTC-TTGCAGGTTCCTTCTTATCAACCGACTTTGATTTTGGTATCATTTCAGCTTCAGGT
*
1951554 TCCTGCTTTTCAAACT
65 TCTTGCTTTTCAAACT
* * * * *
1951570 GTTGATCTT-TTGTATGTTCCTTCTTATCAACCGACTTTGGTTTTGGTATCATTTCAGATTTAGG
1 GTTG-T-TTCTTGCAGGTTCCTTCTTATCAACCGACTTTGATTTTGGTATCATTTCAGCTTCAGG
* **
1951634 TTCTTTCTTTTC-GGCT
64 TTCTTGCTTTTCAAACT
* * *
1951650 AGTTGTTTCTTGCAGGTTCCTT-TTTTCAACCGACTTTGATTTTGATACCATTTCAGCTTCAGG-
1 -GTTGTTTCTTGCAGGTTCCTTCTTATCAACCGACTTTGATTTTGGTATCATTTCAGCTTCAGGT
*
1951713 --TT-C--TTCACA-T
65 TCTTGCTTTTCAAACT
** * * * * *
1951723 GTT-CCT-TTGGATGTTCCTTCTTATCAACAGGCTTTGATTTTGGTACCATTTCAGCTTCAGGTT
1 GTTGTTTCTTGCAGGTTCCTTCTTATCAACCGACTTTGATTTTGGTATCATTTCAGCTTCAGGTT
1951786 CTT
66 CTT
1951789 CAACATGTTC
Statistics
Matches: 177, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
70 11 0.06
71 38 0.21
72 3 0.02
73 4 0.02
74 2 0.01
75 1 0.01
76 2 0.01
79 37 0.21
80 49 0.28
81 29 0.16
82 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (80 bp):
GTTGTTTCTTGCAGGTTCCTTCTTATCAACCGACTTTGATTTTGGTATCATTTCAGCTTCAGGTT
CTTGCTTTTCAAACT
Found at i:1951828 original size:72 final size:72
Alignment explanation
Indices: 1951683--1951929 Score: 410
Period size: 72 Copynumber: 3.5 Consensus size: 72
1951673 TTTCAACCGA
* * *
1951683 CTTTGATTTTGATACCATTTCAGCTTCAGGTTCTTC-ACATGTTCCTTTGGATGTTCCTTCTTAT
1 CTTTGATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTTGTATGTTCCTGCTTAT
1951747 CAACAGG
66 CAACAGG
1951754 CTTTGATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTTGTATGTTCCTGCTTAT
1 CTTTGATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTTGTATGTTCCTGCTTAT
1951819 CAACAGG
66 CAACAGG
* *
1951826 CTTTGATTTTGGTACCGTTTCAGCTTCAGGTTCTTCAGCATGTTCCTTTGTATGTT-CTGTCTTA
1 CTTTGATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTTGTATGTTCCTG-CTTA
1951890 TCAACAGG
65 TCAACAGG
*
1951898 CTTTGA-TTTGGTACCATTTCAGTTTCAGGTTC
1 CTTTGATTTTGGTACCATTTCAGCTTCAGGTTC
1951930 CTTCTTTTCT
Statistics
Matches: 167, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
71 62 0.37
72 105 0.63
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (72 bp):
CTTTGATTTTGGTACCATTTCAGCTTCAGGTTCTTCAACATGTTCCTTTGTATGTTCCTGCTTAT
CAACAGG
Found at i:1951968 original size:33 final size:33
Alignment explanation
Indices: 1951926--1952001 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
1951916 TCAGTTTCAG
1951926 GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACAT
1 GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACAT
1951959 GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACAT
1 GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACAT
1951992 GTTCCTTCTT
1 GTTCCTTCTT
1952002 CAACAGACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.05, C:0.28, G:0.12, T:0.55
Consensus pattern (33 bp):
GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACAT
Found at i:1952126 original size:79 final size:78
Alignment explanation
Indices: 1951959--1952128 Score: 258
Period size: 78 Copynumber: 2.2 Consensus size: 78
1951949 TCCTTCACAT
1951959 GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACATGTTCCTTCTTCAACAGACTTTGATTTGGTACC
1 GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACATGTTCCTTCTTCAACAGACTTTGATTTGGTACC
*
1952024 ATTTCAGCTTCAG
66 ATTTCAGCTCCAG
1952037 GTTCCTTCTTTT-TAGCTTGTTGTTCCTTCAC-TGTTCCTTCTTATCAACCA-ACTTTGATTTTG
1 GTTCCTTCTTTTCT-GCTTGTTGTTCCTTCACATGTTCCTTC-T-TCAA-CAGACTTTGA-TTTG
1952099 GTACCATTTCAGCTCCA-
61 GTACCATTTCAGCTCCAG
1952116 GTTCCTTCTTTTC
1 GTTCCTTCTTTTC
1952129 CACCGTTCCT
Statistics
Matches: 85, Mismatches: 1, Indels: 10
0.89 0.01 0.10
Matches are distributed among these distances:
77 10 0.12
78 30 0.35
79 23 0.27
80 22 0.26
ACGTcount: A:0.14, C:0.26, G:0.12, T:0.48
Consensus pattern (78 bp):
GTTCCTTCTTTTCTGCTTGTTGTTCCTTCACATGTTCCTTCTTCAACAGACTTTGATTTGGTACC
ATTTCAGCTCCAG
Found at i:1952597 original size:227 final size:215
Alignment explanation
Indices: 1952314--1952792 Score: 624
Period size: 221 Copynumber: 2.2 Consensus size: 215
1952304 CTTCCTCTTC
* *
1952314 CTCTTCATGGATCATCTCAGGC-TCTTGTTCTCGTTC-GGCTTTGGGACCTCTTCATCTTCCTTG
1 CTCTTCATTGATCATCTCA-GCTTCTTGTTCTCGTTCTGGCTTTGGGAACTCTTCATCTTCCTTG
*
1952377 GGAAGCACTTCATTAATCATCTCAGGTTCTTCTTGTCCTTGTCGTTCTCGTTCTGGATTCAAAAC
65 GGAAGCACTTCATTAATCATCTCAGG--CTGC-TG---TTGTCGTTCTCGTTCTGGATTCAAAAC
* *
1952442 CCCTTCATCATCCTCGGGAAGCTCTTCGTT-ATCATCTTAGGCTCCTCTTGTCCTTCTTGTTCGT
124 CCCTTCATCATCCTCGGGAAGCTCTTCATTAATCATCTTAAGCTCCTCTTGT-CTTC--GTTCGT
1952506 GTTCACGTTCTGGCCTTGGAACCTTGGGCAG
186 GTTCACGTTCTGGCCTTGGAACC-TGGGCAG
* *
1952537 CTCTTCATTGATCATCTCATGCTCTTCTTGTTCTGGTTCTGTCTTTGGGAACTCTTCATCTTCCT
1 CTCTTCATTGATCATCTCA-G--CTTCTTGTTCTCGTTCTGGCTTTGGGAACTCTTCATCTTCCT
* * ** *
1952602 TGGGCAGTACTTCATTAATCATCTCAGGCTGCTGTTGTCGTTCTCGTTCTGGATTTGAAACCTCT
63 TGGGAAGCACTTCATTAATCATCTCAGGCTGCTGTTGTCGTTCTCGTTCTGGATTCAAAACCCCT
** * **
1952667 TCATTGTCCTCGGGAAGCTCTTCATTAATCATCTTAAGCTCTTCTTGTCTTCGTTCGTGTTCTGG
128 TCATCATCCTCGGGAAGCTCTTCATTAATCATCTTAAGCTCCTCTTGTCTTCGTTCGTGTTCACG
*
1952732 TTCTGGCCTTGGGACCTGGGCAG
193 TTCTGGCCTTGGAACCTGGGCAG
* *
1952755 CTCTTCA-TAATCATCTCAGCTTCTTGTTCTTGTTCTGG
1 CTCTTCATTGATCATCTCAGCTTCTTGTTCTCGTTCTGG
1952793 TTTTTCATGA
Statistics
Matches: 229, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
214 17 0.07
216 1 0.00
217 10 0.04
218 14 0.06
219 26 0.11
221 55 0.24
222 19 0.08
223 19 0.08
224 2 0.01
225 4 0.02
226 13 0.06
227 49 0.21
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (215 bp):
CTCTTCATTGATCATCTCAGCTTCTTGTTCTCGTTCTGGCTTTGGGAACTCTTCATCTTCCTTGG
GAAGCACTTCATTAATCATCTCAGGCTGCTGTTGTCGTTCTCGTTCTGGATTCAAAACCCCTTCA
TCATCCTCGGGAAGCTCTTCATTAATCATCTTAAGCTCCTCTTGTCTTCGTTCGTGTTCACGTTC
TGGCCTTGGAACCTGGGCAG
Found at i:1952715 original size:75 final size:74
Alignment explanation
Indices: 1952340--1952715 Score: 211
Period size: 75 Copynumber: 5.0 Consensus size: 74
1952330 TCAGGCTCTT
* ** *
1952340 GTTCTCGTTC-GGCTTTGGGACCTCTTCATCTTCCTTGGGAAGCACTTCATTAATCATCTCAGGT
1 GTTCTCGTTCTGGATTTGAAACCTCTTCAT-TTCCTTGGGAAGCTCTTCATTAATCATCTCAGG-
1952404 TCTTCTTGTCCTTGTC
64 -C-TC-T-T-CTTGTC
** * * * * *
1952420 GTTCTCGTTCTGGATTCAAAACCCCTTCATCATCCTCGGGAAGCTCTTCGTT-ATCATCTTAGGC
1 GTTCTCGTTCTGGATTTGAAACCTCTTCAT-TTCCTTGGGAAGCTCTTCATTAATCATCTCAGGC
*
1952484 TCCTCTTGTC
65 TCTTCTTGTC
* * * * * * * * *
1952494 CTTCTTGTTC--G-TGTT--CACGTTCTGGCCTTGGAACCTTGGGCAGCTCTTCATTGATCATCT
1 GTTCTCGTTCTGGAT-TTGAAAC-CTCT-TCATT---TCCTTGGGAAGCTCTTCATTAATCATCT
*
1952554 CATGCTCTTC-T-T-
60 CAGGCTCTTCTTGTC
* ** * *
1952566 GTTCTGGTTCTGTCTTTGGGAA-CTCTTCATCTTCCTTGGGCAG-TACTTCATTAATCATCTCAG
1 GTTCTCGTTCTGGATTT-GAAACCTCTTCAT-TTCCTTGGGAAGCT-CTTCATTAATCATCTCAG
*
1952629 GCTGC-TGTTGTC
63 GCT-CTTCTTGTC
* * *
1952641 GTTCTCGTTCTGGATTTGAAACCTCTTCATTGTCCTCGGGAAGCTCTTCATTAATCATCTTAAGC
1 GTTCTCGTTCTGGATTTGAAACCTCTTCATT-TCCTTGGGAAGCTCTTCATTAATCATCTCAGGC
1952706 TCTTCTTGTC
65 TCTTCTTGTC
1952716 TTCGTTCGTG
Statistics
Matches: 224, Mismatches: 48, Indels: 53
0.69 0.15 0.16
Matches are distributed among these distances:
70 2 0.01
71 4 0.02
72 42 0.19
73 3 0.01
74 41 0.18
75 76 0.34
76 1 0.00
77 3 0.01
78 1 0.00
80 20 0.09
81 31 0.14
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.40
Consensus pattern (74 bp):
GTTCTCGTTCTGGATTTGAAACCTCTTCATTTCCTTGGGAAGCTCTTCATTAATCATCTCAGGCT
CTTCTTGTC
Found at i:1959124 original size:18 final size:18
Alignment explanation
Indices: 1959097--1959136 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1959087 CTACTGGATT
1959097 AATA-TTATATTACGTTC
1 AATATTTATATTACGTTC
*
1959114 TATATTTATATTACGTTC
1 AATATTTATATTACGTTC
1959132 AATAT
1 AATAT
1959137 AATATATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (18 bp):
AATATTTATATTACGTTC
Found at i:1960255 original size:3 final size:3
Alignment explanation
Indices: 1960241--1960295 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
1960231 ATTCCCCTTA
*
1960241 ATT ATT -TT ATT ATT ATT -TGT CCTT ATT ATT ATT ATT ACTT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T -ATT ATT ATT ATT ATT A-TT ATT ATT
1960287 ATT ATT ATT
1 ATT ATT ATT
1960296 TTCTTATTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
2 3 0.07
3 38 0.83
4 4 0.09
5 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1960268 original size:16 final size:16
Alignment explanation
Indices: 1960247--1960293 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
1960237 CTTAATTATT
*
1960247 TTATTATTATT-TGTCC
1 TTATTATTATTAT-TAC
1960263 TTATTATTATTATTAC
1 TTATTATTATTATTAC
1960279 TTATTATTATTATTA
1 TTATTATTATTATTA
1960294 TTTTCTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 28 0.97
17 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATTATTATTATTAC
Found at i:1960271 original size:19 final size:19
Alignment explanation
Indices: 1960247--1960296 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1960237 CTTAATTATT
* *
1960247 TTATTATTATTTGTCCTTA
1 TTATTATTATTTCTCATTA
* *
1960266 TTATTATTATTACTTATTA
1 TTATTATTATTTCTCATTA
1960285 TTATTATTATTT
1 TTATTATTATTT
1960297 TCTTATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTATTATTTCTCATTA
Found at i:1960308 original size:4 final size:4
Alignment explanation
Indices: 1960299--1960328 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1960289 TATTATTTTC
1960299 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1960329 TGTTTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:1960310 original size:19 final size:20
Alignment explanation
Indices: 1960246--1960328 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
1960236 CCTTAATTAT
*
1960246 TTTA-TTATTATTTGTCCTTA
1 TTTATTTATTATTTAT-CTTA
1960266 -TTA-TTATTA-TTA-CTTA
1 TTTATTTATTATTTATCTTA
1960282 -TTATTATTATTATTT-TCTTA
1 TTTA-T-TTATTATTTATCTTA
1960302 TTTATTTATTTATTTAT-TTA
1 TTTATTTA-TTATTTATCTTA
1960322 TTTATTT
1 TTTATTT
1960329 TGTTTTGTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
16 7 0.13
18 2 0.04
19 18 0.33
20 23 0.43
21 4 0.07
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTATTTATTATTTATCTTA
Found at i:1960349 original size:15 final size:16
Alignment explanation
Indices: 1960326--1960360 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1960316 TATTTATTTA
1960326 TTTTGTTTTGTTTTT-
1 TTTTGTTTTGTTTTTG
*
1960341 TTTTTTTTTGTTTTTG
1 TTTTGTTTTGTTTTTG
1960357 TTTT
1 TTTT
1960361 ATTATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (16 bp):
TTTTGTTTTGTTTTTG
Found at i:1960457 original size:3 final size:3
Alignment explanation
Indices: 1960449--1960479 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1960439 ATTTATCTAT
1960449 TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1960480 TTAGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1960472 original size:11 final size:11
Alignment explanation
Indices: 1960449--1960482 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
1960439 ATTTATCTAT
1960449 TTATTATTATTA
1 TTATTATT-TTA
1960461 TTATTATTTTA
1 TTATTATTTTA
1960472 TTATTATTTTA
1 TTATTATTTTA
1960483 GTTTTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:1965807 original size:22 final size:22
Alignment explanation
Indices: 1965782--1965827 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1965772 TATCCTGAAA
* *
1965782 GACCTATGTATTTGTCCCGAAG
1 GACCTATGCATATGTCCCGAAG
*
1965804 GACCTATGCATATGTCTCGAAG
1 GACCTATGCATATGTCCCGAAG
1965826 GA
1 GA
1965828 ACGCGTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (22 bp):
GACCTATGCATATGTCCCGAAG
Found at i:1966278 original size:24 final size:24
Alignment explanation
Indices: 1966251--1966329 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
1966241 CATTTTAGGA
*
1966251 GTCACTTCTTACCATAGTAACTCC
1 GTCACTTCTTACCATAGTAACTCT
1966275 GTCACTTCTTACCATAGTAACTCT
1 GTCACTTCTTACCATAGTAACTCT
1966299 GTCACTTCTTACCATAGTAACTCT
1 GTCACTTCTTACCATAGTAACTCT
1966323 GTCACTT
1 GTCACTT
1966330 ACTCATCGCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.24, C:0.30, G:0.09, T:0.37
Consensus pattern (24 bp):
GTCACTTCTTACCATAGTAACTCT
Found at i:1976715 original size:4 final size:4
Alignment explanation
Indices: 1976702--1976809 Score: 56
Period size: 4 Copynumber: 28.0 Consensus size: 4
1976692 TTCTTTTCTC
* * *
1976702 ATTT -TTT ATTT ATTT GTTTT ATTT ATTT ATTT ATTT GTTT -TGT -TTT
1 ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
*
1976748 AGTTTT AGTTT A-TT A-TT A-TT A-TT ATTC ATTT ATTTT ATTTT ATTT
1 A--TTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT A-TTT ATTT
1976793 -TTT A-TT -TTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT
1976810 TTTTGTTTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
3 26 0.30
4 40 0.47
5 16 0.19
6 4 0.05
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:1976728 original size:17 final size:17
Alignment explanation
Indices: 1976706--1976817 Score: 62
Period size: 17 Copynumber: 6.9 Consensus size: 17
1976696 TTTCTCATTT
1976706 TTTATTTATTTGTTTTA
1 TTTATTTATTTGTTTTA
*
1976723 TTTATTTATTTATTTGT-
1 TTTATTTATTTGTTT-TA
* *
1976740 TTT-GTT-TTAGTTTTA
1 TTTATTTATTTGTTTTA
*
1976755 GTTTA-TTATTAT-TATTA
1 -TTTATTTATT-TGTTTTA
* *
1976772 TTCATTTATTTTATTTTA
1 TTTATTTA-TTTGTTTTA
1976790 TTT-TTTA--T-TTTTA
1 TTTATTTATTTGTTTTA
*
1976803 TTTATTTTTTTGTTT
1 TTTATTTATTTGTTT
1976818 AATCTTAGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
13 8 0.11
14 5 0.07
15 5 0.07
16 11 0.15
17 34 0.47
18 9 0.12
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTGTTTTA
Found at i:1976732 original size:21 final size:21
Alignment explanation
Indices: 1976702--1976799 Score: 78
Period size: 21 Copynumber: 4.6 Consensus size: 21
1976692 TTCTTTTCTC
1976702 ATTT-TTTATTTATTTGTTTT
1 ATTTATTTATTTATTTGTTTT
1976722 ATTTATTTATTTATTTGTTTT
1 ATTTATTTATTTATTTGTTTT
* *
1976743 GTTTTAGTTTTAGTTTATTAT-TATT
1 -ATTTA--TTTA-TTTATT-TGTTTT
* *
1976768 A-TTATTCATTTATTTTATTTT
1 ATTTATTTATTTA-TTTGTTTT
1976789 ATTT-TTTATTT
1 ATTTATTTATTT
1976800 TTATTTATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
20 9 0.14
21 31 0.49
22 6 0.10
23 3 0.05
24 4 0.06
25 9 0.14
26 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.74
Consensus pattern (21 bp):
ATTTATTTATTTATTTGTTTT
Found at i:1976813 original size:13 final size:13
Alignment explanation
Indices: 1976703--1976813 Score: 77
Period size: 13 Copynumber: 8.4 Consensus size: 13
1976693 TCTTTTCTCA
1976703 TTTTTTATTTATT
1 TTTTTTATTTATT
*
1976716 TGTTTTATTTA-T
1 TTTTTTATTTATT
* *
1976728 TTATTTATTTGTT
1 TTTTTTATTTATT
*
1976741 TTGTTTTAGTTT-TAG
1 TT-TTTTA-TTTAT-T
*
1976756 TTTATTA-TTATT
1 TTTTTTATTTATT
* *
1976768 ATTATTCATTTATT
1 -TTTTTTATTTATT
1976782 TTATTTTATTT-TT
1 TT-TTTTATTTATT
1976795 TATTTTTATTTATT
1 T-TTTTTATTTATT
1976809 TTTTT
1 TTTTT
1976814 GTTTAATCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
12 11 0.15
13 35 0.47
14 24 0.32
15 5 0.07
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:1979179 original size:16 final size:16
Alignment explanation
Indices: 1979155--1979194 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1979145 TTATTAAGTT
1979155 ATATATAACGCAAATA
1 ATATATAACGCAAATA
* *
1979171 ATATGTAACGTAAATA
1 ATATATAACGCAAATA
*
1979187 ATAAATAA
1 ATATATAA
1979195 TAAATAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (16 bp):
ATATATAACGCAAATA
Found at i:1979193 original size:7 final size:7
Alignment explanation
Indices: 1979181--1979206 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1979171 ATATGTAACG
1979181 TAAATAA
1 TAAATAA
1979188 TAAATAA
1 TAAATAA
1979195 TAAATAA
1 TAAATAA
1979202 TAAAT
1 TAAAT
1979207 TGACAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAATAA
Found at i:1979247 original size:13 final size:13
Alignment explanation
Indices: 1979229--1979262 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
1979219 AAAAAAGTTG
1979229 AAACCAAAGTACC
1 AAACCAAAGTACC
1979242 AAACCAAAGTACC
1 AAACCAAAGTACC
1979255 AAACCAAA
1 AAACCAAA
1979263 ATTTAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.59, C:0.29, G:0.06, T:0.06
Consensus pattern (13 bp):
AAACCAAAGTACC
Found at i:1983970 original size:19 final size:18
Alignment explanation
Indices: 1983946--1984001 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
1983936 TCTTTTTGAA
1983946 TTCTTTTTCCTTTCTTTT
1 TTCTTTTTCCTTTCTTTT
*
1983964 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCCT-TTCTTTT
1983983 TGTCTTTTT-CTTTCTTTT
1 T-TCTTTTTCCTTTCTTTT
1984001 T
1 T
1984002 GCACTCCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 15 0.47
19 13 0.41
20 4 0.12
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (18 bp):
TTCTTTTTCCTTTCTTTT
Found at i:1984747 original size:21 final size:21
Alignment explanation
Indices: 1984723--1984841 Score: 141
Period size: 21 Copynumber: 5.7 Consensus size: 21
1984713 GTGAATCGGG
* * *
1984723 CTCTTGATCGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
1984744 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
1984765 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
1984786 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
1984807 CACTTGAATGAT-AGGAGGGGC
1 CTCTTGAACGATGA-GAGGGGC
* *
1984828 CTTTTAAACGATGA
1 CTCTTGAACGATGA
1984842 CAGGTGAATT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
20 1 0.01
21 81 0.98
22 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:1984782 original size:42 final size:42
Alignment explanation
Indices: 1984723--1984841 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
1984713 GTGAATCGGG
*
1984723 CTCTTGATCGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1984765 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
* * * * * *
1984807 CACTTGAATGATAGGAGGGGCCTTTTAAACGATGA
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGA
1984842 CAGGTGAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
Found at i:1985004 original size:12 final size:12
Alignment explanation
Indices: 1984985--1985026 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
1984975 GGGCCGCTAA
1984985 AAATAAATTAAT
1 AAATAAATTAAT
* *
1984997 ACATAAATTAGT
1 AAATAAATTAAT
*
1985009 AAATAAATAAAT
1 AAATAAATTAAT
1985021 AAATAA
1 AAATAA
1985027 TGCTGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:1985161 original size:21 final size:20
Alignment explanation
Indices: 1985123--1985173 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
1985113 TGAAACAATC
* *
1985123 TCACGTAGAACAGTTACCTTA
1 TCACGTA-AACAGATACCTCA
1985144 TCACGTAAAGCAGATACCTCA
1 TCACGTAAA-CAGATACCTCA
*
1985165 CCACGTAAA
1 TCACGTAAA
1985174 ATACCATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (20 bp):
TCACGTAAACAGATACCTCA
Found at i:1991595 original size:98 final size:98
Alignment explanation
Indices: 1991420--1991615 Score: 320
Period size: 98 Copynumber: 2.0 Consensus size: 98
1991410 GAGGAAGAGA
* *
1991420 AGGAGAGGCTAAGTATCCCCTTGTTTGAATTGCTTTAAAGAAGAGGAAAAGGACAGGAAGGGGTA
1 AGGAGAGGCTAAGTATCCCCTTGTCTGAATTGCTTTAAAGAAGAGGAAAAGGAAAGGAAGGGGTA
** *
1991485 TCTCATCAAGCTCATTAACCTTATTTGGCTAAG
66 TCTCATCAAGCTCACCAACCTTATTTAGCTAAG
*
1991518 AGGAGAGGCTAAGTATCCTCTTGTCTGAATTGCTTTAAAGAAGAGGAAAAGGAAAGGAAGGGGTA
1 AGGAGAGGCTAAGTATCCCCTTGTCTGAATTGCTTTAAAGAAGAGGAAAAGGAAAGGAAGGGGTA
* *
1991583 TCTCGTCGAGCTCACCAACCTTATTTAGCTAAG
66 TCTCATCAAGCTCACCAACCTTATTTAGCTAAG
1991616 GAGTAGAAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (98 bp):
AGGAGAGGCTAAGTATCCCCTTGTCTGAATTGCTTTAAAGAAGAGGAAAAGGAAAGGAAGGGGTA
TCTCATCAAGCTCACCAACCTTATTTAGCTAAG
Found at i:1996757 original size:20 final size:20
Alignment explanation
Indices: 1996732--1996824 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
1996722 TTTTCCCAAT
1996732 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
1996752 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
1996772 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
1996793 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
1996814 TCGCAATGCGA
1 TCGCAATGCGA
1996825 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:1996774 original size:41 final size:41
Alignment explanation
Indices: 1996729--1996824 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
1996719 CGATTTTCCC
*
1996729 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1996770 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
1996811 AAATCGCAATGCGA
1 AATTCGCAATGCGA
1996825 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:1996837 original size:41 final size:41
Alignment explanation
Indices: 1996751--1996885 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
1996741 GAATAAGTAA
* * * *
1996751 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
1996792 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
1996833 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
1996874 TTCGCAACGCGA
1 ATCGCAACGCGA
1996886 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:1996838 original size:20 final size:20
Alignment explanation
Indices: 1996813--1996907 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1996803 AATTGAGAAA
*
1996813 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
1996833 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
1996854 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
1996874 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1996894 TTCGCAACGCGATA
1 ATCGCAACGCGATA
1996908 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1997123 original size:22 final size:22
Alignment explanation
Indices: 1997095--1997138 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1997085 CACTCTCTCA
1997095 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1997117 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1997139 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1997427 original size:20 final size:20
Alignment explanation
Indices: 1997402--1997439 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1997392 CGATTCTCTC
1997402 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1997422 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1997440 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1998780 original size:18 final size:18
Alignment explanation
Indices: 1998759--1998803 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1998749 TCCACTTCGG
* *
1998759 GAGCCGTCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
1998777 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
1998795 GAGCCATCA
1 GAGCCATCA
1998804 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.42, G:0.18, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1999330 original size:19 final size:20
Alignment explanation
Indices: 1999276--1999342 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1999266 TAGTTTACTT
* *
1999276 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1999296 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1999316 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1999335 TCGCAACG
1 TCGCAACG
1999343 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1999350 original size:14 final size:14
Alignment explanation
Indices: 1999331--1999388 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1999321 ATGCGAAATG
*
1999331 AAAATCGCAACGAC
1 AAAATCGCAACGAA
1999345 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAA
*
1999361 ATGAAATCGCAACGAT
1 A--AAATCGCAACGAA
1999377 AAAATCGCAACG
1 AAAATCGCAACG
1999389 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:1999373 original size:32 final size:33
Alignment explanation
Indices: 1999315--1999405 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
1999305 GGAAATGGCT
*
1999315 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
1999348 ATCGCAACGCGAAATG-AAATCGCAACGATAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1999380 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
1999406 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1999399 original size:19 final size:19
Alignment explanation
Indices: 1999276--1999410 Score: 94
Period size: 19 Copynumber: 7.6 Consensus size: 19
1999266 TAGTTTACTT
* **
1999276 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
1999296 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
1999316 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1999335 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
1999349 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
1999367 TCGCAA--CG--AT-AAAA
1 TCGCAACGCGAAATGAAAA
1999381 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1999400 TCGCAATGCGA
1 TCGCAACGCGA
1999411 TTTGTGTTTC
Statistics
Matches: 94, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
14 21 0.22
15 1 0.01
16 6 0.06
17 2 0.02
18 12 0.13
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1999441 original size:14 final size:14
Alignment explanation
Indices: 1999422--1999511 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
1999412 TTGTGTTTCG
1999422 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1999436 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1999452 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
1999468 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
1999484 CGCGTTGCGTTTTTGT
1 --CGTTGCGATTTTGT
1999500 CGTTGCGATTTT
1 CGTTGCGATTTT
1999512 CATTTCGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
14 33 0.53
16 8 0.13
18 21 0.34
ACGTcount: A:0.08, C:0.18, G:0.26, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1999456 original size:32 final size:32
Alignment explanation
Indices: 1999417--1999527 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
1999407 GCGATTTGTG
1999417 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1999449 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
*
1999481 TTTCGCGTTGCGTTTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
1999514 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
1999528 AGCCATTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 58 0.77
33 17 0.23
ACGTcount: A:0.09, C:0.19, G:0.24, T:0.48
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:1999526 original size:19 final size:19
Alignment explanation
Indices: 1999436--1999585 Score: 108
Period size: 20 Copynumber: 8.4 Consensus size: 19
1999426 GCGATTTTGT
1999436 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1999454 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
1999468 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1999486 CGTTGCG-TTTT--TGT--
1 CGTTGCGATTTTCATTTCG
1999500 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
1999519 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
1999539 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1999558 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
1999578 TGTTGCGA
1 CGTTGCGA
1999586 AAGTAAACTA
Statistics
Matches: 106, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
14 18 0.17
15 4 0.04
16 6 0.06
17 2 0.02
18 21 0.20
19 26 0.25
20 29 0.27
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1999663 original size:27 final size:26
Alignment explanation
Indices: 1999599--1999665 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
1999589 TAAACTATTC
*
1999599 TTCTTCTGGAATGTTTATATATGTTG
1 TTCTTCTGGAATGTTTATATAAGTTG
**
1999625 TTCTT-TTAAATGTTTATATAAG-TG
1 TTCTTCTGGAATGTTTATATAAGTTG
1999649 CTTACTTCTGGAATGTT
1 -TT-CTTCTGGAATGTT
1999666 ATCTGAGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 2 0.06
25 16 0.48
26 8 0.24
27 7 0.21
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.52
Consensus pattern (26 bp):
TTCTTCTGGAATGTTTATATAAGTTG
Found at i:2001450 original size:14 final size:14
Alignment explanation
Indices: 2001431--2001466 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2001421 ATTGTTTAAT
2001431 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2001445 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2001459 TGATTTGT
1 TGATTTGT
2001467 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2001576 original size:19 final size:18
Alignment explanation
Indices: 2001552--2001621 Score: 58
Period size: 19 Copynumber: 4.0 Consensus size: 18
2001542 GCAAAACAGA
2001552 CTATCGCAATGCGAAATGG
1 CTATCGCAATGCGAAAT-G
* *
2001571 CTATCGCAACGAGAAA--
1 CTATCGCAATGCGAAATG
2001587 --ATCGCAATGCGAAATG
1 CTATCGCAATGCGAAATG
**
2001603 AAAATCGCAATGCGAAATG
1 -CTATCGCAATGCGAAATG
2001622 AAAATCGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 12 0.29
19 30 0.71
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (18 bp):
CTATCGCAATGCGAAATG
Found at i:2001622 original size:19 final size:19
Alignment explanation
Indices: 2001583--2001650 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
2001573 ATCGCAACGA
2001583 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2001602 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2001621 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
2001635 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2001651 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:2001694 original size:20 final size:20
Alignment explanation
Indices: 2001669--2001725 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
2001659 TCGCATTGCG
*
2001669 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
2001689 ATTTTCGCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
2001709 ATTTTCGCATTGCGATA
1 ATTTTCGCGTTGCGATA
2001726 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:2002111 original size:14 final size:14
Alignment explanation
Indices: 2002092--2002127 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2002082 ATTGTTTAAT
2002092 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2002106 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2002120 TGATTTGT
1 TGATTTGT
2002128 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2002701 original size:14 final size:14
Alignment explanation
Indices: 2002682--2002717 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2002672 ATTGTTTAAT
2002682 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2002696 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2002710 TGATTTGT
1 TGATTTGT
2002718 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2003056 original size:590 final size:589
Alignment explanation
Indices: 2001689--2003093 Score: 2747
Period size: 590 Copynumber: 2.4 Consensus size: 589
2001679 TGCGATAACC
*
2001689 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
2001754 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
2001819 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
2001884 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTATGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
*
2001949 TTGTTTGAGCAAATGTTTGGTTTCTGCATGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
2002014 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
2002079 TTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACA
391 TTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACA
*
2002144 TAATTTTTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAA
456 TAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAA
2002209 CATACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCAT
521 CATACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCAT
2002274 TGCG
586 TGCG
2002278 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
2002343 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
2002408 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
2002473 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
2002538 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
2002603 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTA-TT
2002668 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
390 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
2002733 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
455 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
2002798 ACATACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
520 ACATACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
2002863 TTGCG
585 TTGCG
2002868 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
2002933 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
*
2002998 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCATTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
2003063 ATATTTGGTTAAGTACCTAGAATTCAATAAT
196 ATGTTTGGTTAAGTACCTAGAATTCAATAAT
2003094 AATTGTTAAA
Statistics
Matches: 809, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
589 384 0.47
590 425 0.53
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (589 bp):
ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
TTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACA
TAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAA
CATACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCAT
TGCG
Found at i:2004019 original size:24 final size:24
Alignment explanation
Indices: 2003963--2004021 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
2003953 AGTCAGTATT
* *
2003963 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
2003987 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
2004011 CGAATTTTGAT
1 CGAAATTTGAT
2004022 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:2004213 original size:12 final size:12
Alignment explanation
Indices: 2004196--2004220 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2004186 ATATAATCCT
2004196 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2004208 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2004220 G
1 G
2004221 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:2006556 original size:33 final size:33
Alignment explanation
Indices: 2006514--2006607 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
2006504 GGAAATTACT
*
2006514 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2006547 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2006580 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2006608 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2006570 original size:19 final size:19
Alignment explanation
Indices: 2006514--2006611 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2006504 GGAAATTACT
2006514 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
2006533 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2006547 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2006566 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
2006580 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2006599 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2006612 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2006629 original size:19 final size:20
Alignment explanation
Indices: 2006607--2006649 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2006597 AAATCGCAAC
2006607 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
2006626 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
2006646 GCGA
1 GCGA
2006650 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:2006634 original size:14 final size:14
Alignment explanation
Indices: 2006635--2006668 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2006625 TGCGATTTTC
2006635 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
2006649 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
2006663 ATTTTC
1 ATTTTC
2006669 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:2006809 original size:14 final size:14
Alignment explanation
Indices: 2006790--2006826 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2006780 CATCAATTAA
2006790 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2006804 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2006818 ACAAATCAA
1 ACAAATCAA
2006827 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Done.