Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_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: 2428596
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1922634 original size:13 final size:11
Alignment explanation
Indices: 1922602--1922644 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
1922592 ATCTGTTGTA
*
1922602 TTTTTTGTAAT
1 TTTTTTATAAT
1922613 TTTTTTATAAT
1 TTTTTTATAAT
*
1922624 TTTCTTATATAT
1 TTTTTTATA-AT
1922636 TTTATTTAT
1 TTT-TTTAT
1922645 TTAATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 18 0.67
12 5 0.19
13 4 0.15
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:1927652 original size:15 final size:14
Alignment explanation
Indices: 1927620--1927653 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1927610 GATTTAACAG
*
1927620 AATATATGCTTTGA
1 AATATATGCTTAGA
1927634 AATATATGCTTCAGA
1 AATATATGCTT-AGA
1927649 AATAT
1 AATAT
1927654 TATTATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (14 bp):
AATATATGCTTAGA
Found at i:1930153 original size:18 final size:18
Alignment explanation
Indices: 1930126--1930263 Score: 78
Period size: 22 Copynumber: 6.8 Consensus size: 18
1930116 GTGAATATTT
*
1930126 GTCCCAAAGGACCATTAC
1 GTCCCGAAGGACCATTAC
* *
1930144 GTCCCTAAGGACCACTAGATAT
1 GTCCCGAAGGACCA-T---TAC
*
1930166 GTCCCGAAGGACCACTAC
1 GTCCCGAAGGACCATTAC
*
1930184 GTCCCGAAGGACCACTGGATAT
1 GTCCCGAAGGACCA-T---TAC
1930206 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCA-T---TAC
*
1930228 GTCCCGAAGAACCACTGGATAC
1 GTCCCGAAGGACCA-T---TAC
1930250 GTCCCGAAGGACCA
1 GTCCCGAAGGACCA
1930264 CTGGATATGT
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
18 29 0.28
19 1 0.01
22 72 0.71
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.15
Consensus pattern (18 bp):
GTCCCGAAGGACCATTAC
Found at i:1930175 original size:22 final size:22
Alignment explanation
Indices: 1930141--1930288 Score: 205
Period size: 22 Copynumber: 6.9 Consensus size: 22
1930131 AAAGGACCAT
* *
1930141 TACGTCCCTAAGGACCACTAGA
1 TACGTCCCGAAGGACCACTGGA
*
1930163 TATGTCCCGAAGGACCAC----
1 TACGTCCCGAAGGACCACTGGA
1930181 TACGTCCCGAAGGACCACTGGA
1 TACGTCCCGAAGGACCACTGGA
*
1930203 TATGTCCCGAAGGACCACTGGA
1 TACGTCCCGAAGGACCACTGGA
*
1930225 TACGTCCCGAAGAACCACTGGA
1 TACGTCCCGAAGGACCACTGGA
1930247 TACGTCCCGAAGGACCACTGGA
1 TACGTCCCGAAGGACCACTGGA
* *
1930269 TATGTCCCGAATGACCACTG
1 TACGTCCCGAAGGACCACTG
1930289 TAAACCCTTG
Statistics
Matches: 113, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
18 17 0.15
22 96 0.85
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (22 bp):
TACGTCCCGAAGGACCACTGGA
Found at i:1930185 original size:40 final size:40
Alignment explanation
Indices: 1930125--1930265 Score: 192
Period size: 40 Copynumber: 3.4 Consensus size: 40
1930115 AGTGAATATT
* * * *
1930125 TGTCCCAAAGGACCATTACGTCCCTAAGGACCACTAGATA
1 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
1930165 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
*
1930205 TGTCCCGAAGGACCACTGGATACGTCCCGAAGAACCACTGGATA
1 TGTCCCGAAGGACCAC----TACGTCCCGAAGGACCACTGGATA
*
1930249 CGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1930266 GGATATGTCC
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
40 53 0.58
44 38 0.42
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.16
Consensus pattern (40 bp):
TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
Found at i:1937809 original size:63 final size:63
Alignment explanation
Indices: 1937693--1937860 Score: 156
Period size: 63 Copynumber: 2.7 Consensus size: 63
1937683 GATGCATCCC
* * * * * *
1937693 TTAACGGGAGCATCGATGCACTACCTATGCATCGGTACACAAATCCCATTCGATGTTTGAATA
1 TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACACAAATCCCACTCGATGTTTGAATA
* ** ** ** *
1937756 TTAAGGGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGGCACTCGATGTTTTTATT
1 TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACACAAATCCCACTCGATGTTTGAATA
* * * * *
1937819 TTAAAGGAGTGCATCGATACACTTCATGTGTATCGATGCACA
1 TT-AAGGGGTGCATCGATGCACTACATGTGCATCGATACACA
1937861 TTTAATAATT
Statistics
Matches: 84, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
63 52 0.62
64 32 0.38
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (63 bp):
TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACACAAATCCCACTCGATGTTTGAATA
Found at i:1941146 original size:10 final size:10
Alignment explanation
Indices: 1941127--1941161 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1941117 GAAGCCATTG
*
1941127 ATCAATAACA
1 ATCAACAACA
1941137 ATCAACAACA
1 ATCAACAACA
*
1941147 ATCAACAAGA
1 ATCAACAACA
1941157 ATCAA
1 ATCAA
1941162 GAGAGAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.60, C:0.23, G:0.03, T:0.14
Consensus pattern (10 bp):
ATCAACAACA
Found at i:1946542 original size:20 final size:21
Alignment explanation
Indices: 1946514--1946605 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 21
1946504 TTGTGCTTAA
1946514 TGCATCGATACACC-T-AATAG
1 TGCATCGATACACCTTAAAT-G
* *
1946534 TGTATCGATGCATCCTTAAATG
1 TGCATCGATACA-CCTTAAATG
* * *
1946556 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTAAATG
* *
1946577 TGCACCGATGCACGCCTTAAATG
1 TGCATCGAT--ACACCTTAAATG
1946600 TGCATC
1 TGCATC
1946606 AATGCATCGG
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
20 10 0.19
21 16 0.30
22 12 0.22
23 16 0.30
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACCTTAAATG
Found at i:1946565 original size:42 final size:44
Alignment explanation
Indices: 1946514--1946605 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
1946504 TTGTGCTTAA
* * *
1946514 TGCATCGATACACC-T-AATAGTGTATCGATGCA-TCCTTAAATG
1 TGCATCGATACACCATGAA-AGTGCACCGATGCACGCCTTAAATG
*
1946556 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTAAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTAAATG
1946600 TGCATC
1 TGCATC
1946606 AATGCATCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 14 0.33
43 12 0.28
44 17 0.40
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTAAATG
Found at i:1948407 original size:16 final size:16
Alignment explanation
Indices: 1948386--1948419 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1948376 TTCAGCGGGA
1948386 GATGCGTGAACGTATG
1 GATGCGTGAACGTATG
1948402 GATGCGTGAACGTATG
1 GATGCGTGAACGTATG
1948418 GA
1 GA
1948420 CGCGCTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.38, T:0.24
Consensus pattern (16 bp):
GATGCGTGAACGTATG
Found at i:1948551 original size:14 final size:15
Alignment explanation
Indices: 1948526--1948554 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1948516 TTGTTTTTTA
1948526 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
1948541 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
1948555 AAATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:1951565 original size:17 final size:18
Alignment explanation
Indices: 1951532--1951565 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1951522 CCGCTATTAG
1951532 TGAACCGGTTAGAACCGT
1 TGAACCGGTTAGAACCGT
*
1951550 TGAACC-GTTCGAACCG
1 TGAACCGGTTAGAACCG
1951566 GATCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (18 bp):
TGAACCGGTTAGAACCGT
Found at i:1952215 original size:47 final size:47
Alignment explanation
Indices: 1952159--1952254 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
1952149 ACCTTAAATA
1952159 TTATATTATAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGG
1 TTATATTATAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGG
*
1952206 TTATGTTATAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGG
1 TTATATTATAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGG
1952253 TT
1 TT
1952255 TTTAATTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.56
Consensus pattern (47 bp):
TTATATTATAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGG
Found at i:1955546 original size:57 final size:59
Alignment explanation
Indices: 1955473--1955584 Score: 158
Period size: 57 Copynumber: 1.9 Consensus size: 59
1955463 TAGTTAAATG
* * *
1955473 ATCATTTTGTAACTTTTAATATTA-A-GCGACTCAACAAAA-AATATCCTATAATTAGAT
1 ATCAATTTGTAACTTTTAATA-TACATGAGACTCAACAAAATAATACCCTATAATTAGAT
*
1955530 ATCAATTTGTAACTTTTAATATACATGAGACTCAATAAAATAATACCCTATAATT
1 ATCAATTTGTAACTTTTAATATACATGAGACTCAACAAAATAATACCCTATAATT
1955585 CATCTGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 2 0.04
57 21 0.44
58 12 0.25
59 13 0.27
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (59 bp):
ATCAATTTGTAACTTTTAATATACATGAGACTCAACAAAATAATACCCTATAATTAGAT
Found at i:1958749 original size:244 final size:240
Alignment explanation
Indices: 1958292--1958778 Score: 866
Period size: 244 Copynumber: 2.0 Consensus size: 240
1958282 AATGTAATCA
*
1958292 TATTAATTCTATGAAGGCTATAAAACAAAAACCTTTTGATCGTAACTCATGAGCAACAGTTGTCC
1 TATTAATTCTATGAAGGCTATAAAACAAAAACCTTTTGATCATAACTCATGAGCAACAGTTGTCC
1958357 ACTAACAGAACATTAAGAAAGCAAAAGTATTAATTGCAGAAAAGACATTCAGACAGAAAAATGAA
66 ACTAACAGAACATTAAGAAAGCAAAAGTATTAATTGCAGAAAAGACATTCAGACAGAAAAATGAA
*
1958422 AACAAAATGTAAAAATGTCAACTTCTCACTAAATAATTAAATTGTTAACGTCAATATTAGAGAGA
131 AACAAAATGTAAAAATGTCAACTTCTCACTAAATAATTAAATAGTTAACGTCAATATTAGAGAGA
1958487 GGAAGAGAGAATTACCATAGTTTTCATCTATTCTAAACTGAGTTCT
196 GGAAGAGAGAATTACCATAGTTTTCATCTATTCTAAACTGAGTT-T
1958533 TATTAATTCTATGAAGGCTATAAAACAAAAACCTTTTGATCATAACTCATGAGCAACACTGTTGT
1 TATTAATTCTATGAAGGCTATAAAACAAAAACCTTTTGATCATAACTCATGAGCAACA--GTTGT
* *
1958598 TCACTAACAGAACATTAAGAAAGCAAAAGTATTAATTGCAGAAAAGACGTTCAGACAGAAAAATG
64 CCACTAACAGAACATTAAGAAAGCAAAAGTATTAATTGCAGAAAAGACATTCAGACAGAAAAATG
* * *
1958663 AAAACAAAAATGTAAAAATGTTAACTTTTCACTAAATAATTAAATAGTTAACGTCAATATTTGAG
129 AAAAC-AAAATGTAAAAATGTCAACTTCTCACTAAATAATTAAATAGTTAACGTCAATATTAGAG
*
1958728 AGAGGAAGAGAGAATTACCATAGTTTTCATCTCTTCTAAACTGAGTTT
193 AGAGGAAGAGAGAATTACCATAGTTTTCATCTATTCTAAACTGAGTTT
1958776 TAT
1 TAT
1958779 GTGGCCCAAT
Statistics
Matches: 235, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
241 57 0.24
243 77 0.33
244 101 0.43
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (240 bp):
TATTAATTCTATGAAGGCTATAAAACAAAAACCTTTTGATCATAACTCATGAGCAACAGTTGTCC
ACTAACAGAACATTAAGAAAGCAAAAGTATTAATTGCAGAAAAGACATTCAGACAGAAAAATGAA
AACAAAATGTAAAAATGTCAACTTCTCACTAAATAATTAAATAGTTAACGTCAATATTAGAGAGA
GGAAGAGAGAATTACCATAGTTTTCATCTATTCTAAACTGAGTTT
Found at i:1960688 original size:7 final size:7
Alignment explanation
Indices: 1960676--1960703 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1960666 AATACATTGT
1960676 TTTCTTG
1 TTTCTTG
1960683 TTTCTTG
1 TTTCTTG
1960690 TTTCTTG
1 TTTCTTG
1960697 TTTCTTG
1 TTTCTTG
1960704 CCTAACTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.71
Consensus pattern (7 bp):
TTTCTTG
Found at i:1966206 original size:48 final size:48
Alignment explanation
Indices: 1966134--1966230 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
1966124 GGCACGCCTT
*
1966134 TTAAAACCAAGGAGTTGACCAAATATACAGGGATTAAAGACCTACTAA
1 TTAAAACCAAGGAGTTGACAAAATATACAGGGATTAAAGACCTACTAA
1966182 TTAAAACCAAGGAGTTGACAAAATATACAGGGATTAAAGACCTACTAA
1 TTAAAACCAAGGAGTTGACAAAATATACAGGGATTAAAGACCTACTAA
1966230 T
1 T
1966231 ATTTATTCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.22
Consensus pattern (48 bp):
TTAAAACCAAGGAGTTGACAAAATATACAGGGATTAAAGACCTACTAA
Found at i:1984501 original size:17 final size:17
Alignment explanation
Indices: 1984479--1984528 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
1984469 AGGAGTATCG
1984479 ATATTTATGAATGAATA
1 ATATTTATGAATGAATA
* *
1984496 ATATTTATGAAT-CATT
1 ATATTTATGAATGAATA
*
1984512 GTATTTATGAATGAATA
1 ATATTTATGAATGAATA
1984529 GTATAAACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
ATATTTATGAATGAATA
Found at i:1995468 original size:24 final size:25
Alignment explanation
Indices: 1995425--1995471 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1995415 CAAATAAAAC
1995425 TAAGATCACAAAAAAACTAATCACT
1 TAAGATCACAAAAAAACTAATCACT
*
1995450 TAAGATCAC-AAAAACCTAATCA
1 TAAGATCACAAAAAAACTAATCA
1995472 AATAAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.19
Consensus pattern (25 bp):
TAAGATCACAAAAAAACTAATCACT
Found at i:1996110 original size:29 final size:29
Alignment explanation
Indices: 1996054--1996110 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
1996044 AAAGATAATA
* * * *
1996054 TTTAATGTGATTTAATTTTTTAATTATTT
1 TTTAATGTGATTTAAATGTTAAAATATTT
1996083 TTTAATGTGATTTAAATGTTAAAATATT
1 TTTAATGTGATTTAAATGTTAAAATATT
1996111 ATTATTGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTAATGTGATTTAAATGTTAAAATATTT
Found at i:2001307 original size:22 final size:21
Alignment explanation
Indices: 2001263--2001306 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2001253 TTTAATGCAC
* *
2001263 AAGGGATCGATCCTTTTACAA
1 AAGGGATCAATCATTTTACAA
*
2001284 AAGGGATCAATCATTTTTCAA
1 AAGGGATCAATCATTTTACAA
2001305 AA
1 AA
2001307 ATTTTGATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (21 bp):
AAGGGATCAATCATTTTACAA
Found at i:2001781 original size:21 final size:21
Alignment explanation
Indices: 2001757--2001800 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2001747 TGTTGGCGCA
*
2001757 ACAAGGAATTTTGAAGGCTCT
1 ACAAGGAATTTTAAAGGCTCT
2001778 ACAAGGAATTTTAAAGGCTCT
1 ACAAGGAATTTTAAAGGCTCT
2001799 AC
1 AC
2001801 GACCTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (21 bp):
ACAAGGAATTTTAAAGGCTCT
Found at i:2010511 original size:31 final size:31
Alignment explanation
Indices: 2010431--2010517 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 31
2010421 ATTAACTCGG
* * *
2010431 GTGATCACACCTTATTTAAATAAAAATAAAA
1 GTGACCACATCTTAATTAAATAAAAATAAAA
* * *
2010462 GGGACCACGTC-TAATTAAATAAAAATTAAA
1 GTGACCACATCTTAATTAAATAAAAATAAAA
2010492 GTGACCACATCTTAATTAAATAAAAA
1 GTGACCACATCTTAATTAAATAAAAA
2010518 AAATGATCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 26 0.55
31 21 0.45
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (31 bp):
GTGACCACATCTTAATTAAATAAAAATAAAA
Found at i:2011649 original size:21 final size:21
Alignment explanation
Indices: 2011619--2011712 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
2011609 TATGGTATAA
*
2011619 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
2011640 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
2011661 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
2011682 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
2011703 AACCATGCGG
1 AACCCTGCGG
2011713 AGATGGCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 3 0.04
21 62 0.91
22 3 0.04
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:2011742 original size:21 final size:21
Alignment explanation
Indices: 2011716--2011763 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2011706 CATGCGGAGA
*
2011716 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
2011737 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
2011758 GGGCAT
1 TGGCAT
2011764 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:2013333 original size:34 final size:34
Alignment explanation
Indices: 2013295--2013383 Score: 151
Period size: 34 Copynumber: 2.6 Consensus size: 34
2013285 TACATTATAA
*
2013295 AAAATTAAAATTAATATAAATTCATAATAACTTT
1 AAAATAAAAATTAATATAAATTCATAATAACTTT
2013329 AAAATAAAAATTAATATAAATTCATAATAACTTT
1 AAAATAAAAATTAATATAAATTCATAATAACTTT
* *
2013363 AAAATAAAAATAAATTTAAAT
1 AAAATAAAAATTAATATAAAT
2013384 ATTAACATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (34 bp):
AAAATAAAAATTAATATAAATTCATAATAACTTT
Found at i:2013565 original size:34 final size:31
Alignment explanation
Indices: 2013522--2013610 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
2013512 TTAATAATTC
*
2013522 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
2013556 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
2013587 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
2013611 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:2013567 original size:31 final size:33
Alignment explanation
Indices: 2013525--2013599 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
2013515 ATAATTCTAA
* * *
2013525 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
2013557 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
2013588 ATAAAAAATAAT
1 ATAAAAAATAAT
2013600 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:2018674 original size:21 final size:21
Alignment explanation
Indices: 2018649--2018696 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
2018639 AAAATGTTAG
2018649 TTACATGATTTAATTTTGATA
1 TTACATGATTTAATTTTGATA
2018670 TTACATGATTTAATTTTGATA
1 TTACATGATTTAATTTTGATA
2018691 TTACAT
1 TTACAT
2018697 TAAATGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (21 bp):
TTACATGATTTAATTTTGATA
Found at i:2021652 original size:35 final size:35
Alignment explanation
Indices: 2021606--2021677 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
2021596 CCAAAAAAGA
*
2021606 AGAGTTGGATTATGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
2021641 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
2021676 AG
1 AG
2021678 GGTTTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.29
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:2022080 original size:17 final size:18
Alignment explanation
Indices: 2022054--2022093 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2022044 ATTATATGAA
2022054 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
2022070 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
2022088 TATTAT
1 TATTAT
2022094 ACATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:2031202 original size:106 final size:102
Alignment explanation
Indices: 2031112--2031759 Score: 551
Period size: 106 Copynumber: 6.3 Consensus size: 102
2031102 ATTTCAGAGC
* * **
2031112 CAATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAAC-A-CAA-GT-ACAACGAAGGGAC
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACAATCAACGTCACAACGAAGGGAC
*
2031173 GACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGT
66 GACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
* *
2031210 CAATTTTAACTTCACAGCGAAGGATATTGGACTCAAGACAACATAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAAC--AA--TCAACGTCACAACGAAG
* *
2031275 GGACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAGAG-
62 GGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
* *
2031315 C-----CAA--T---AGCGAAGGATATTGGACTCGAGATGAC-ACAAGTTCAACTTCACAACAAA
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTC-A-A-GACAACAA--TCAACGTCACAACGAA
* *
2031369 GGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCATG-GT
61 GGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCA-GAGC
* * * *
2031411 CAATTTCAACTTCACATCGAAGGATATTGAACTCAAGAC-ACAAGTTCAACTTCACAATGAAGGG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACAA--TCAACGTCACAACGAAGGG
** * *
2031475 ACGGTTGGTTTTCAACAAATAATTTCCCAATTTCAGAGC
64 ACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
* * *
2031514 CAATTTCAACTTCACAGCGAAGGATATTGGATTCGAGACGACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGAC-A-ACAA--TCAACGTCACAACGAAG
* * * * *
2031579 TGAC-AGCTGGTTGTTAACAAATAATTTCCCAATTTCAGGGT
62 GGACGA-CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
* * * * *
2031620 CAATTTCAACTTCACATCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCAAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGAC-A-ACAA--TCAACGTCACAACGAAG
** ** * * * * * * * *
2031685 GGGTGGTTAGCTATCAACAAACAATTTTCTAGTTCCAAAGC
62 GGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
*
2031726 CAATTTCAACTTCACAGCGGAGGATATTGGACTC
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTC
2031760 GAAACAATAC
Statistics
Matches: 462, Mismatches: 59, Indels: 50
0.81 0.10 0.09
Matches are distributed among these distances:
95 76 0.16
96 3 0.01
97 3 0.01
98 41 0.09
100 2 0.00
101 4 0.01
102 1 0.00
103 95 0.21
104 4 0.01
105 3 0.01
106 230 0.50
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (102 bp):
CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACAATCAACGTCACAACGAAGGGAC
GACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
Found at i:2031334 original size:95 final size:99
Alignment explanation
Indices: 2030926--2031678 Score: 577
Period size: 106 Copynumber: 7.3 Consensus size: 99
2030916 ATATCGCGCC
* * * * *
2030926 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTTAACAAACCACTTT-T
1 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-CAATTTCC
*
2030990 CAGTTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CA--AT--TTCAGAGCC----TCAAC-T--CAGCGAAGGATATTGG
** *
2031036 ACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
2031101 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGG
66 AATTTCAGAGCC----TCAAC-T--CAGCGAAGGATATTGG
** * *
2031142 ACTCGGGAC-A-AC-A---CAA-GT-ACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
2031199 AATTTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAG-C---CTCAAC-T--CAGCGAAGGATATTGG
* * *
2031240 ACTCAAGACAACATAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATCTCCC
1 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
2031305 AATTTCAGAG-C-CAA-T-AGCGAAGGATATTGG
66 AATTTCAGAGCCTCAACTCAGCGAAGGATATTGG
* * *
2031335 ACTCGAGATGACACAAGTTCAACTTCACAACAAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
2031400 AATTTCATG-GTCAATTTCAACTTCACATCGAAGGATATTGA
66 AATTTCA-GAG-C---CTCAAC-T--CAGCGAAGGATATTGG
* * * *
2031441 ACTC-A-A-GACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTTTCAACAAATAATTTCCC
1 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
2031503 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCC----TCAAC-T--CAGCGAAGGATATTGG
* * * * * *
2031544 ATTCGAGACGACACAAGTTCAACTTCACAACGAAGTGACAGCTGGTTGTTAACAAATAATTTCCC
1 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * * *
2031609 AATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAG
66 AATTTCAGAG-C---CTCAAC-T--CAGCGAAGGATATTGG
* *
2031650 ACTCAAGACAACACAAGCTCAACTTCACA
1 ACTCAAGACGACACAAGTTCAACTTCACA
2031679 GCAAAGGGGT
Statistics
Matches: 553, Mismatches: 53, Indels: 78
0.81 0.08 0.11
Matches are distributed among these distances:
95 82 0.15
96 1 0.00
98 78 0.14
99 3 0.01
100 6 0.01
101 4 0.01
102 2 0.00
103 87 0.16
104 7 0.01
105 4 0.01
106 216 0.39
107 1 0.00
108 1 0.00
109 5 0.01
110 56 0.10
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (99 bp):
ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCTCAACTCAGCGAAGGATATTGG
Found at i:2031607 original size:209 final size:210
Alignment explanation
Indices: 2031320--2031761 Score: 627
Period size: 209 Copynumber: 2.1 Consensus size: 210
2031310 CAGAGCCAAT
* *
2031320 AGCGAAGGATATTGGACTCGAGATGACACAAGTTCAACTTCACAACAAAGGGACGGCTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACAAAGGGACAGCTGGTTGTC
*
2031385 AACAAACAATTTCCCAATTTCATGGTCAATTTCAACTTCACATCGAAGGATATT-GAACTCAAG-
66 AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAG-ACTCAAGA
* ** * * * * * *
2031448 ACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTTTCAACAAATAATTTCCCAATTTCAGAG
130 ACACAAGCTCAACTTCACAACAAAGGGACGGTTAGCTATCAACAAACAATTTCCCAATTCCAAAG
2031513 CCAATTTCAACTTCAC
195 CCAATTTCAACTTCAC
* * * *
2031529 AGCGAAGGATATTGGATTCGAGACGACACAAGTTCAACTTCACAACGAAGTGACAGCTGGTTGTT
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACAAAGGGACAGCTGGTTGTC
*
2031594 AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGAC
66 AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAG--
* ** * * *
2031659 AACACAAGCTCAACTTCACAGCAAAGGGGTGGTTAGCTATCAACAAACAATTTTCTAGTTCCAAA
129 AACACAAGCTCAACTTCACAACAAAGGGACGGTTAGCTATCAACAAACAATTTCCCAATTCCAAA
2031724 GCCAATTTCAACTTCAC
194 GCCAATTTCAACTTCAC
*
2031741 AGCGGAGGATATTGGACTCGA
1 AGCGAAGGATATTGGACTCGA
2031762 AACAATACAA
Statistics
Matches: 204, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
209 118 0.58
210 1 0.00
212 85 0.42
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (210 bp):
AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACAAAGGGACAGCTGGTTGTC
AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGAA
CACAAGCTCAACTTCACAACAAAGGGACGGTTAGCTATCAACAAACAATTTCCCAATTCCAAAGC
CAATTTCAACTTCAC
Found at i:2032291 original size:35 final size:35
Alignment explanation
Indices: 2032244--2032315 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
2032234 CCAAAAAAGA
2032244 AGAGTTGAATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGAATTAGGACTCAAATACTAGTCTAAAAT
*
2032279 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGAATTAGGACTCAAATACTAGTCTAAAAT
2032314 AG
1 AG
2032316 GTTTTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (35 bp):
AGAGTTGAATTAGGACTCAAATACTAGTCTAAAAT
Found at i:2032717 original size:17 final size:18
Alignment explanation
Indices: 2032691--2032730 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2032681 ATTATATGAA
2032691 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
2032707 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
2032725 TATTAT
1 TATTAT
2032731 ACGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:2032741 original size:2 final size:2
Alignment explanation
Indices: 2032734--2032768 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2032724 TTATTATACG
2032734 TA TA 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 TA TA T
2032769 TAAATGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2032945 original size:17 final size:17
Alignment explanation
Indices: 2032923--2032957 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2032913 ATAGTTTATT
2032923 TATATACATATTATTAA
1 TATATACATATTATTAA
* *
2032940 TATATATATATTCTTAA
1 TATATACATATTATTAA
2032957 T
1 T
2032958 TATTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATACATATTATTAA
Found at i:2041841 original size:16 final size:16
Alignment explanation
Indices: 2041820--2041850 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2041810 TTCTAAATAT
2041820 TTTTTGAGTTCAAGTC
1 TTTTTGAGTTCAAGTC
2041836 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
2041851 TTCAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTC
Found at i:2047055 original size:18 final size:18
Alignment explanation
Indices: 2047015--2047055 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
2047005 TTGCAATTTT
2047015 TATTTATATAATTCTAAA
1 TATTTATATAATTCTAAA
*
2047033 T-TTTATCATAA-TCTGAA
1 TATTTAT-ATAATTCTAAA
2047050 TATTTA
1 TATTTA
2047056 AATATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTTATATAATTCTAAA
Found at i:2051338 original size:16 final size:18
Alignment explanation
Indices: 2051306--2051339 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2051296 TATTAATGTA
2051306 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
2051324 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
2051340 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:2052044 original size:130 final size:130
Alignment explanation
Indices: 2051811--2052058 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
2051801 ATTTTTCTTC
* *
2051811 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
2051876 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
2051941 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
2052006 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
2052059 TATATAAATA
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:2052508 original size:35 final size:35
Alignment explanation
Indices: 2052458--2052533 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
2052448 AATTGAATTG
* *
2052458 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
2052493 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
2052528 AATTGA
1 AATTGA
2052534 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:2056239 original size:19 final size:19
Alignment explanation
Indices: 2056199--2056239 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2056189 GATTAATCAA
*
2056199 GGTAAAATCCTGATAATAG
1 GGTAAAATCCTGAGAATAG
* *
2056218 GGTAAAATCTTGAGAATCG
1 GGTAAAATCCTGAGAATAG
2056237 GGT
1 GGT
2056240 GGTAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (19 bp):
GGTAAAATCCTGAGAATAG
Found at i:2059135 original size:18 final size:17
Alignment explanation
Indices: 2059103--2059152 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
2059093 AATTTATATT
2059103 AGTAAAATATTAAATAA
1 AGTAAAATATTAAATAA
2059120 AGTAAAATACTTAAATAA
1 AGTAAAATA-TTAAATAA
* *
2059138 A-TTAAATATAAAATA
1 AGTAAAATATTAAATA
2059153 TTAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 6 0.20
17 15 0.50
18 9 0.30
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
AGTAAAATATTAAATAA
Found at i:2059171 original size:10 final size:10
Alignment explanation
Indices: 2059144--2059172 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
2059134 ATAAATTAAA
2059144 TATAAAATAT
1 TATAAAATAT
2059154 TA-AAAATAT
1 TATAAAATAT
2059163 TATAAAATAT
1 TATAAAATAT
2059173 ATCTTAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TATAAAATAT
Found at i:2062288 original size:50 final size:50
Alignment explanation
Indices: 2062169--2062288 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 50
2062159 GCAGTAAAGC
* * *
2062169 GCCCCC-GAACCGCGCTATACGCTGATTTGGCGTCACGTGGGTATAGCGC
1 GCCCCCTGAACCGCGATATACGCTGATTTGGCGTCACGTGGGTATAACGA
* ** * * *
2062218 TCCCCCTGCCCCGTGATATACGGTGATTTGGCGTCACTTGGGTATAACGA
1 GCCCCCTGAACCGCGATATACGCTGATTTGGCGTCACGTGGGTATAACGA
* *
2062268 GCCCCCTGATCCGCGTTATAC
1 GCCCCCTGAACCGCGATATAC
2062289 CTGCGTATCT
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
49 5 0.09
50 51 0.91
ACGTcount: A:0.17, C:0.33, G:0.27, T:0.24
Consensus pattern (50 bp):
GCCCCCTGAACCGCGATATACGCTGATTTGGCGTCACGTGGGTATAACGA
Found at i:2062453 original size:12 final size:10
Alignment explanation
Indices: 2062411--2062451 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2062401 TTTATCACAC
2062411 CAAATTCTCT
1 CAAATTCTCT
2062421 CAAATTCTCT
1 CAAATTCTCT
2062431 -AAATTTCTCT
1 CAAA-TTCTCT
*
2062441 CAAATACTCT
1 CAAATTCTCT
2062451 C
1 C
2062452 TCTTTTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:2062771 original size:111 final size:111
Alignment explanation
Indices: 2062577--2062909 Score: 621
Period size: 111 Copynumber: 3.0 Consensus size: 111
2062567 TGGAAATCAT
*
2062577 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
2062642 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* *
2062688 ATATCTCGACATTTTGCTGATACGGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
2062753 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
2062799 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
2062864 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2062910 TTTTTGTAAT
Statistics
Matches: 215, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 215 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:2064440 original size:18 final size:18
Alignment explanation
Indices: 2064417--2064451 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2064407 CAACAGCCAC
*
2064417 CGCAGCCATATATGATGT
1 CGCAGCAATATATGATGT
2064435 CGCAGCAATATATGATG
1 CGCAGCAATATATGATG
2064452 CCGCCATCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (18 bp):
CGCAGCAATATATGATGT
Found at i:2064803 original size:3 final size:3
Alignment explanation
Indices: 2064795--2064843 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
2064785 CCTGCTCAGT
* * ** *
2064795 ACG ACG ACG ACG ACG ATG ACG ACG ATG GTG ACA ACG ACG ACG ACG ACG
1 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG
2064843 A
1 A
2064844 TGATGACAGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.27, G:0.33, T:0.06
Consensus pattern (3 bp):
ACG
Found at i:2064839 original size:24 final size:24
Alignment explanation
Indices: 2064804--2064851 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2064794 TACGACGACG
* *
2064804 ACGACGATGACGACGATGGTGACA
1 ACGACGACGACGACGATGATGACA
2064828 ACGACGACGACGACGATGATGACA
1 ACGACGACGACGACGATGATGACA
2064852 GCGAGGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.31, T:0.10
Consensus pattern (24 bp):
ACGACGACGACGACGATGATGACA
Found at i:2070408 original size:64 final size:64
Alignment explanation
Indices: 2070335--2070468 Score: 153
Period size: 64 Copynumber: 2.1 Consensus size: 64
2070325 GGTTTGAATT
* * **
2070335 AATATCGGATATGTTGACTTTTGG-TTCGGGTCAATATCTTATCAATTAGAGTTTAGGTCGAGTC
1 AATATCGGATAGGATGACTTTTGGATT-GGGTCAATATCAGATCAATTAGAGTTTAGGTCGAGTC
* * *** * *
2070399 AATATCGGATCGGATGATTTTTGGATTGGGTCAATATCAGATTGGTTAGATTTTGGGTCGAGTC
1 AATATCGGATAGGATGACTTTTGGATTGGGTCAATATCAGATCAATTAGAGTTTAGGTCGAGTC
2070463 AATATC
1 AATATC
2070469 AAACTGTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 56 0.97
65 2 0.03
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.38
Consensus pattern (64 bp):
AATATCGGATAGGATGACTTTTGGATTGGGTCAATATCAGATCAATTAGAGTTTAGGTCGAGTC
Found at i:2070703 original size:16 final size:16
Alignment explanation
Indices: 2070651--2070704 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
2070641 GTATATAGAT
* *
2070651 TTTCGATTTGGATTGC
1 TTTCGGTTTGGATTAC
* * *
2070667 TTTCAGTTAGGATTAA
1 TTTCGGTTTGGATTAC
2070683 TTTCGGTTTGGATTAC
1 TTTCGGTTTGGATTAC
2070699 TTTCGG
1 TTTCGG
2070705 ATCAGGTTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.17, C:0.11, G:0.24, T:0.48
Consensus pattern (16 bp):
TTTCGGTTTGGATTAC
Found at i:2070787 original size:16 final size:16
Alignment explanation
Indices: 2070679--2070807 Score: 71
Period size: 16 Copynumber: 8.1 Consensus size: 16
2070669 TCAGTTAGGA
*
2070679 TTAATTTCGGTT-TGG
1 TTAATTTCGGTTCAGG
* *
2070694 ATTACTTTCGGATCAGG
1 -TTAATTTCGGTTCAGG
* ** *
2070711 TTAAATTCAATTTAGG
1 TTAATTTCGGTTCAGG
* ** *
2070727 TTAAATTCAATTCAGT
1 TTAATTTCGGTTCAGG
** *
2070743 TTGCTTTCGATTCAGG
1 TTAATTTCGGTTCAGG
*
2070759 TTATTTTCGGTTCAGG
1 TTAATTTCGGTTCAGG
* *
2070775 TTAATTTCTGTTCGGG
1 TTAATTTCGGTTCAGG
**
2070791 ACAATTTCGGTTCAGG
1 TTAATTTCGGTTCAGG
2070807 T
1 T
2070808 CAAATTGGAT
Statistics
Matches: 85, Mismatches: 27, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
16 83 0.98
17 2 0.02
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (16 bp):
TTAATTTCGGTTCAGG
Found at i:2071114 original size:2 final size:2
Alignment explanation
Indices: 2071102--2071160 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
2071092 ATTTTTATTT
* *
2071102 TA TA CA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2071144 TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA
2071161 GTTTTTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2071298 original size:24 final size:23
Alignment explanation
Indices: 2071259--2071307 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
2071249 ATTTATTTAT
* *
2071259 TTATTTATTTATTATTACTATTA
1 TTATTAATTTATTATTACAATTA
2071282 TTATTAATTTATATATTACAATTA
1 TTATTAATTTAT-TATTACAATTA
2071306 TT
1 TT
2071308 TTGTAGGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTAATTTATTATTACAATTA
Found at i:2073495 original size:19 final size:19
Alignment explanation
Indices: 2073471--2073508 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2073461 AAGTAATTTG
* *
2073471 AATTTAATTTTTAATTTTT
1 AATTTAAATTTCAATTTTT
2073490 AATTTAAATTTCAATTTTT
1 AATTTAAATTTCAATTTTT
2073509 CGCAACTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTAAATTTCAATTTTT
Found at i:2075763 original size:132 final size:132
Alignment explanation
Indices: 2075526--2075788 Score: 499
Period size: 132 Copynumber: 2.0 Consensus size: 132
2075516 GAATCGGATC
* **
2075526 GACTTCAACAACTTGGGGGTATCCAAGTGGAGAAGATCATTTCATCATTTGAGGTATTCTGTTTG
1 GACTTCAACAACTTGGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGACATTCTGTTTG
2075591 AATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTTTAA
66 AATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTTTAA
2075656 TA
131 TA
2075658 GACTTCAACAACTTGGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGACATTCTGTTTG
1 GACTTCAACAACTTGGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGACATTCTGTTTG
2075723 AATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTTTAA
66 AATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTTTAA
2075788 T
131 T
2075789 GATGGCGAGC
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 128 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (132 bp):
GACTTCAACAACTTGGGGGCATCCAAGTGGAGAAGATCATTTCATCATTTGAGACATTCTGTTTG
AATCTGTTTTTTCATTATTTCTCAAGTTTTTGTAAGGACTTTTAAATAAATTTATGTTGCTTTAA
TA
Found at i:2077491 original size:105 final size:104
Alignment explanation
Indices: 2077309--2078116 Score: 1226
Period size: 105 Copynumber: 7.9 Consensus size: 104
2077299 CTCGAGAGTA
*
2077309 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
2077374 GACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAAAATTTC-CAATTTCAGAGCC
*
2077414 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
2077479 GACCGCTGGTTGTCAATAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAAAATTTC-CAATTTCAGAGCC
*
2077519 AATTTCAACTTCACAACGAAGGATTTTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2077584 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAA-AATTTCC-AATTTCAGAGCC
2077625 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2077690 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAA-AATTTCC-AATTTCAGAGCC
* * *
2077731 AATTTCAACTTCACAGCGAAGGGTATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
2077796 GACCGCTGGTTGTCAATAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-CAAAAATTTCCAATTTCAGAGCC
*
2077836 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
2077901 GACCGCTGGTTGTC-A-ATAAA----CAATTTC----CC
66 GACCGCTGGTTGTCAACAAAAATTTCCAATTTCAGAGCC
* *
2077930 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGT
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
2077995 GACCGCTGGTTGTC-A-ATAAA---CC--TTTC----CC
66 GACCGCTGGTTGTCAACAAAAATTTCCAATTTCAGAGCC
*
2078023 AATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
2078088 GACCGTTGGTTGTCAATAAACAATTTCCA
66 GACCGCTGGTTGTCAACAAA-AATTTCCA
2078117 CGGTTTCAAC
Statistics
Matches: 668, Mismatches: 24, Indels: 27
0.93 0.03 0.04
Matches are distributed among these distances:
93 81 0.12
94 85 0.13
95 3 0.00
96 2 0.00
98 7 0.01
99 2 0.00
102 4 0.01
104 1 0.00
105 274 0.41
106 206 0.31
107 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (104 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAAAATTTCCAATTTCAGAGCC
Found at i:2077696 original size:211 final size:209
Alignment explanation
Indices: 2077309--2078116 Score: 1239
Period size: 211 Copynumber: 3.9 Consensus size: 209
2077299 CTCGAGAGTA
*
2077309 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
2077374 GACCGCTGGTTGTCAACAAACATTT-CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAACAAAAATTTCCT-AATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
*
2077438 ATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATT
2077503 TCTCAATTTCAGAGCC
195 TC-CAATTTCAGAGCC
*
2077519 AATTTCAACTTCACAACGAAGGATTTTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
2077584 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAACAAA-AATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* *
2077649 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAAT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-CAT
2077714 TTCCTAATTTCAGAGCC
194 TTCC-AATTTCAGAGCC
* * *
2077731 AATTTCAACTTCACAGCGAAGGGTATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
2077796 GACCGCTGGTTGTCAATAAAAAATTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 GACCGCTGGTTGTCAACAAAAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
2077861 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT-AA-A---
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTT
2077921 -CAATTTC----CC
196 CCAATTTCAGAGCC
* *
2077930 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAAGT
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
2077995 GACCGCTGGTTGTC-A-ATAAA---CC---TTTC----CCAATTTCAACTTCACAACGAAGAATA
66 GACCGCTGGTTGTCAACAAAAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
*
2078048 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATT
2078113 TCCA
195 TCCA
2078117 CGGTTTCAAC
Statistics
Matches: 565, Mismatches: 22, Indels: 38
0.90 0.04 0.06
Matches are distributed among these distances:
187 81 0.14
188 2 0.00
190 1 0.00
191 4 0.01
194 4 0.01
197 4 0.01
198 1 0.00
199 78 0.14
203 6 0.01
204 1 0.00
208 1 0.00
210 85 0.15
211 198 0.35
212 99 0.18
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (209 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAAAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTT
CCAATTTCAGAGCC
Found at i:2078078 original size:93 final size:94
Alignment explanation
Indices: 2077729--2078139 Score: 599
Period size: 94 Copynumber: 4.3 Consensus size: 94
2077719 AATTTCAGAG
* * *
2077729 CCAATTTCAACTTCACAGCGAAGGGTATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
2077794 GGGACCGCTGGTTGTCAATAAAAAATTCCCAATTTC
66 GGGACCGCTGGTTGTCAAT---AAA----CAATTTC
*
2077830 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 ----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2077895 CGAAGGGACCGCTGGTTGTCAATAAACAATTTC
62 CGAAGGGACCGCTGGTTGTCAATAAACAATTTC
*
2077928 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCATCTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
2077993 GTGACCGCTGGTTGTCAATAAAC-CTTTC
66 GGGACCGCTGGTTGTCAATAAACAATTTC
*
2078021 CCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
2078086 GGGACCGTTGGTTGTCAATAAACAATTTC
66 GGGACCGCTGGTTGTCAATAAACAATTTC
** *
2078115 CACGGTTTCAACTTCACGACGAAGG
1 C-CAATTTCAACTTCACAACGAAGG
2078140 GAATCGTGCC
Statistics
Matches: 289, Mismatches: 15, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
93 88 0.30
94 90 0.31
95 19 0.07
98 7 0.02
102 3 0.01
105 82 0.28
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (94 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAATTTC
Found at i:2078320 original size:86 final size:84
Alignment explanation
Indices: 2078153--2078322 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 84
2078143 TCGTGCCAAC
* ** * * *
2078153 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCG
1 CAAAGACCTTCAAGTTCGACTACAATCAGCTCCAAGGCAAACCATTTACAGCATAGCTTAAGTCA
2078218 AGAAGGGTTATCTGTCAAA
66 AGAAGGGTTATCTGTCAAA
*
2078237 CAAAGACCTTCAAGTTCGATTACAATCAGCT-CAGAGGCAAACCAGATTTACAGCATAGCTTAA-
1 CAAAGACCTTCAAGTTCGACTACAATCAGCTCCA-AGGCAAACC--ATTTACAGCATAGCTTAAG
*
2078300 TGCAAGAAGGGTTATTTGTCAAA
63 T-CAAGAAGGGTTATCTGTCAAA
2078323 AAAAAATTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
83 2 0.03
84 34 0.46
85 1 0.01
86 37 0.50
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (84 bp):
CAAAGACCTTCAAGTTCGACTACAATCAGCTCCAAGGCAAACCATTTACAGCATAGCTTAAGTCA
AGAAGGGTTATCTGTCAAA
Found at i:2079017 original size:24 final size:23
Alignment explanation
Indices: 2078978--2079026 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
2078968 ATTTATTTAT
* *
2078978 TTATTTATTTATTATTACTATTA
1 TTATTAATTTATTATTACAATTA
2079001 TTATTAATTTATATATTACAATTA
1 TTATTAATTTAT-TATTACAATTA
2079025 TT
1 TT
2079027 TTGTAGGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTAATTTATTATTACAATTA
Found at i:2081215 original size:19 final size:19
Alignment explanation
Indices: 2081191--2081228 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2081181 AAGTAATTTG
* *
2081191 AATTTAATTTTTAATTTTT
1 AATTTAAATTTCAATTTTT
2081210 AATTTAAATTTCAATTTTT
1 AATTTAAATTTCAATTTTT
2081229 CGCAACTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTAAATTTCAATTTTT
Found at i:2085887 original size:22 final size:20
Alignment explanation
Indices: 2085846--2085887 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2085836 AGGGACTGTG
*
2085846 GTGTTTCTGATTTAGTAAAA
1 GTGTTTCTGATTTAGGAAAA
2085866 GTGTTTCTTGATTTTAGGAAAA
1 GTGTTTC-TGA-TTTAGGAAAA
2085888 TATAGAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
22 9 0.47
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
GTGTTTCTGATTTAGGAAAA
Found at i:2085955 original size:21 final size:21
Alignment explanation
Indices: 2085931--2085990 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
2085921 TTAAAAAAAT
2085931 AAATAATAATAAATAAAAGAG
1 AAATAATAATAAATAAAAGAG
* *
2085952 AAATAATAAAATAAT-AAATAG
1 AAATAATAATA-AATAAAAGAG
* *
2085973 TAATAGTAATAAATAAAA
1 AAATAATAATAAATAAAA
2085991 AAGGGGTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 3 0.09
21 26 0.81
22 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
AAATAATAATAAATAAAAGAG
Found at i:2086740 original size:19 final size:19
Alignment explanation
Indices: 2086716--2086753 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2086706 AAATAATATT
*
2086716 CTAAAACTTAATTAAAATA
1 CTAAAACATAATTAAAATA
*
2086735 CTAAAACATATTTAAAATA
1 CTAAAACATAATTAAAATA
2086754 AAATACCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (19 bp):
CTAAAACATAATTAAAATA
Found at i:2086755 original size:24 final size:25
Alignment explanation
Indices: 2086728--2086783 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
2086718 AAAACTTAAT
* **
2086728 TAAAATA-CTAAAACATATTTAAAA
1 TAAAATACCTAAAACAAAAATAAAA
2086752 TAAAATACCTAAAACAAAAATAAAA
1 TAAAATACCTAAAACAAAAATAAAA
2086777 TAAAATA
1 TAAAATA
2086784 TTTAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (25 bp):
TAAAATACCTAAAACAAAAATAAAA
Found at i:2091583 original size:16 final size:14
Alignment explanation
Indices: 2091552--2091586 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
2091542 AATAAAAGGG
2091552 AAATATTAAATAAT
1 AAATATTAAATAAT
2091566 AAATATTAATAGTAAT
1 AAATATTAA-A-TAAT
2091582 AAATA
1 AAATA
2091587 AAAGGGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 1 0.05
16 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAATATTAAATAAT
Found at i:2092331 original size:19 final size:19
Alignment explanation
Indices: 2092307--2092344 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2092297 TAAAAACAAT
2092307 ATACTAAAACTTAATTAAA
1 ATACTAAAACTTAATTAAA
*
2092326 ATACTAAAACTTATTTAAA
1 ATACTAAAACTTAATTAAA
2092345 CTAAAATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (19 bp):
ATACTAAAACTTAATTAAA
Found at i:2092385 original size:14 final size:14
Alignment explanation
Indices: 2092337--2092386 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
2092327 TACTAAAACT
*
2092337 TATTTAAACTAAAA
1 TATTTAAAATAAAA
**
2092351 TACCTAAAAT-AAA
1 TATTTAAAATAAAA
2092364 TA--TAAAATAAAA
1 TATTTAAAATAAAA
2092376 TATTTAAAATA
1 TATTTAAAATA
2092387 TTATCATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.20
12 5 0.17
13 5 0.17
14 14 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
TATTTAAAATAAAA
Found at i:2093951 original size:7 final size:7
Alignment explanation
Indices: 2093914--2093945 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
2093904 CCCATTCTTC
2093914 TCTTTCT
1 TCTTTCT
2093921 TCTTTCT
1 TCTTTCT
2093928 TCTTTCT
1 TCTTTCT
2093935 TCTTTCT
1 TCTTTCT
2093942 TCTT
1 TCTT
2093946 CTTTCTCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTCT
Found at i:2099300 original size:17 final size:16
Alignment explanation
Indices: 2099267--2099300 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2099257 GATATAAAAT
*
2099267 TTTAAAAATTATTTTA
1 TTTAAAAATTATATTA
2099283 TTTAAAAATTAATATTA
1 TTTAAAAATT-ATATTA
2099300 T
1 T
2099301 AATTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAAAATTATATTA
Found at i:2100420 original size:30 final size:30
Alignment explanation
Indices: 2100386--2100450 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
2100376 AGTGCTCTAT
* *
2100386 AGGTCGTCGTGTGCTCCTGGATACCTATGG
1 AGGTCGTCATGTGCTCCTGGAGACCTATGG
*
2100416 AGGTCGTTATGTGCTCCTGGAGACCTATGG
1 AGGTCGTCATGTGCTCCTGGAGACCTATGG
*
2100446 TGGTC
1 AGGTC
2100451 ACTGTAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.14, C:0.22, G:0.34, T:0.31
Consensus pattern (30 bp):
AGGTCGTCATGTGCTCCTGGAGACCTATGG
Found at i:2106878 original size:32 final size:32
Alignment explanation
Indices: 2106837--2106929 Score: 100
Period size: 31 Copynumber: 2.9 Consensus size: 32
2106827 AGTTGAGGGC
2106837 TTACCTATG-TCTTTCGGGACATATGGACAGGA
1 TTACCTATGTTC-TTCGGGACATATGGACAGGA
*** * *
2106869 TTACCTATGTTCTAAAGAACATATGGACA-GT
1 TTACCTATGTTCTTCGGGACATATGGACAGGA
* *
2106900 TTACCTAGGTTCTTCGGGACCTATGGACAG
1 TTACCTATGTTCTTCGGGACATATGGACAG
2106930 CTGCCGAGGT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
31 24 0.50
32 22 0.46
33 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (32 bp):
TTACCTATGTTCTTCGGGACATATGGACAGGA
Found at i:2108661 original size:6 final size:6
Alignment explanation
Indices: 2108643--2108676 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
2108633 TTAATTGCGA
2108643 AAATTT GAAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAA
2108677 AACTTGATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:2111097 original size:98 final size:98
Alignment explanation
Indices: 2110928--2111194 Score: 381
Period size: 98 Copynumber: 2.6 Consensus size: 98
2110918 TTAGAACCGG
** ** * *
2110928 GAAATTGTTTGTTGACAACCAACCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTC
1 GAAATTGGGTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
2110993 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
*
2111026 GAAATTGGGTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTCGAGTCC
1 GAAATTGGGTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
2111091 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
*
2111124 GAAATTGGGAAATTATTTGTTGATAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 GAAATTGGG--------TGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
*
2111189 TTGAGT
58 TCGAGT
2111195 GGTACGATAT
Statistics
Matches: 151, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
98 100 0.66
106 51 0.34
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (98 bp):
GAAATTGGGTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
AATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
Found at i:2111665 original size:213 final size:212
Alignment explanation
Indices: 2111262--2111888 Score: 905
Period size: 213 Copynumber: 2.9 Consensus size: 212
2111252 ATCCTCCGTC
* * * *
2111262 GTGAAGTTGAAATTGACTCTGGAACTGGGAAATTGTTGGTTGACAACCAGCCGTCCCTTCGTTGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
* * * *
2111327 GAAGTTGAACTTGTGTTGTCTTGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAA
66 GAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAA
* * * *
2111392 TTGGGAAGTTATTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTG
131 TTGGAAAATT-GTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
2111457 AGTCCAATATCCTTCACT
195 AGTCCAATATCCTTCACT
* *
2111475 GTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTTGTTGACAACCAGCCGTCCCTTCGTTG
* *
2111540 TGATGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGGAATTGGCTTTGAA
65 TGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAA
* * *
2111605 ATTGGAAAATTGTTTGTTGATAACTAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
130 ATTGGAAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
**
2111670 AGTCCAATATCCTTCGTT
195 AGTCCAATATCCTTCACT
*
2111688 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCTGCCGTCCCTTCGTTGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
* * **
2111753 GAAGTTTAACTTGTGTTGCCCCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAT
66 GAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT-T---T
* * * * *
2111818 GAAACT-GAAAAGTGGTTTGTTGACAACCAGTCGTCCTTTCGTTGTGAAGTTAAACTTGTGTTGT
127 GAAATTGGAAAA-TTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGT
2111882 CTCGAGT
191 CTCGAGT
2111889 GGCGCGATAT
Statistics
Matches: 370, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
212 82 0.22
213 129 0.35
214 96 0.26
215 5 0.01
216 58 0.16
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (212 bp):
GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
GAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAA
TTGGAAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA
GTCCAATATCCTTCACT
Found at i:2111685 original size:106 final size:106
Alignment explanation
Indices: 2111242--2111888 Score: 893
Period size: 106 Copynumber: 6.0 Consensus size: 106
2111232 TGTATTGCTC
* * * * * *
2111242 CGAGTTCAATATCCTCCG-TCGTGAAGTTGAAATTGACTCTGGAACTGGGAAATTGTTGGTTGAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
2111306 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
2111348 TGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTATTTTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT-GTTTGTTGAC
2111413 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
2111455 TGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTTGTTGAC
*
2111520 AACCAGCCGTCCCTTCGTTGTGATGTTGAACTTGTGTTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
2111562 TGAGTCCAATATCCTTCGCTGTGAAGTTGGAATTGGCTTTGAAATTGGAAAATTGTTTGTTGATA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
2111627 ACTAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
2111668 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * *
2111733 ACCTGCCGTCCCTTCGTTGTGAAGTTTAACTTGTGTTGCCC
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
2111774 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACT-GAAAAGTGGTTTGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAATTGGGAAA-TTGTTTGT
* * *
2111838 TGACAACCAGTCGTCCTTTCGTTGTGAAGTTAAACTTGTGTTGTCT
61 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
2111884 CGAGT
1 CGAGT
2111889 GGCGCGATAT
Statistics
Matches: 485, Mismatches: 48, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
106 222 0.46
107 201 0.41
109 4 0.01
110 58 0.12
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:2112770 original size:33 final size:33
Alignment explanation
Indices: 2112730--2112794 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
2112720 TTAATGTTTA
**
2112730 TGTTTCAAGAGAAACTTTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACGATTTCAAAGGTTTTTTG
2112763 TGTTTCAAGAGAAACGATTTCAAAGGTTTTTT
1 TGTTTCAAGAGAAACGATTTCAAAGGTTTTTT
2112795 TCTAAGGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.43
Consensus pattern (33 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTTTTTTG
Found at i:2112856 original size:38 final size:38
Alignment explanation
Indices: 2112783--2112859 Score: 131
Period size: 36 Copynumber: 2.1 Consensus size: 38
2112773 GAAACGATTT
*
2112783 CAAAGGTTTTTTTCTAAGGGAAACTGTCTCAAGAGAGA
1 CAAAGGTTTGTTTCTAAGGGAAACTGTCTCAAGAGAGA
2112821 CAAA-GTTTGTTTC-AAGGGAAACTGTCTCAAGAGAGA
1 CAAAGGTTTGTTTCTAAGGGAAACTGTCTCAAGAGAGA
2112857 CAA
1 CAA
2112860 TGATGAGCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 26 0.68
37 8 0.21
38 4 0.11
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (38 bp):
CAAAGGTTTGTTTCTAAGGGAAACTGTCTCAAGAGAGA
Found at i:2113758 original size:23 final size:23
Alignment explanation
Indices: 2113725--2113784 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
2113715 TCATATAATC
*
2113725 ACACCGAAGTGCCACGTAGAATT
1 ACACCGTAGTGCCACGTAGAATT
* *
2113748 GCACCAG-AGTGCCGCGTAGAATT
1 ACACC-GTAGTGCCACGTAGAATT
2113771 ACACCGTAGTGCCA
1 ACACCGTAGTGCCA
2113785 TATAATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (23 bp):
ACACCGTAGTGCCACGTAGAATT
Found at i:2113926 original size:103 final size:103
Alignment explanation
Indices: 2113800--2114017 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
2113790 TAATGTCCAT
* * *
2113800 AAGGACCACATATCAATCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCAATCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
2113865 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
2113903 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCAATCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
*
2113968 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2114006 AAGGACCACATA
1 AAGGACCACATA
2114018 GACCCTCTAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCAATCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2114573 original size:64 final size:67
Alignment explanation
Indices: 2114466--2114593 Score: 201
Period size: 64 Copynumber: 2.0 Consensus size: 67
2114456 ATTTTCATCT
*
2114466 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
1 TTTAATGGAGGTATACATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
2114531 TA
66 TA
*
2114533 TTTAATGG-GG-ATACATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATACATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTT
2114594 TCTTTTTAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.57
65 14 0.24
66 2 0.03
67 8 0.14
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (67 bp):
TTTAATGGAGGTATACATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
TA
Found at i:2114614 original size:64 final size:64
Alignment explanation
Indices: 2114478--2114638 Score: 179
Period size: 64 Copynumber: 2.5 Consensus size: 64
2114468 TAATGGAGGT
* *
2114478 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* * *
2114543 ATACATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-
1 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATG
*
2114605 TA
63 GA
*
2114607 ATGCATCGATGCACATACA--GTGCATCGATGCA
1 ATGCATCGATGCAC-TACACCATGCATCGATGCA
2114639 CCTTAAACAA
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
63 1 0.01
64 55 0.67
65 22 0.27
66 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:2116679 original size:17 final size:17
Alignment explanation
Indices: 2116659--2116708 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
2116649 TTTGTCCCTT
2116659 TTTCT-TTTTTATTCTTG
1 TTTCTCTTTTT-TTCTTG
*
2116676 TTTCTCTTTTTTTCTTT
1 TTTCTCTTTTTTTCTTG
*
2116693 TTTCCCTTTTTGTTCT
1 TTTCTCTTTTT-TTCT
2116709 GATTGAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTCTCTTTTTTTCTTG
Found at i:2120142 original size:15 final size:17
Alignment explanation
Indices: 2120118--2120159 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
2120108 TGAAGCAAGT
*
2120118 GATGAAAATAAAATAAA
1 GATGAAAATAAAAGAAA
2120135 -AT-AAAATAAAAGAAA
1 GATGAAAATAAAAGAAA
2120150 GATGAAAATA
1 GATGAAAATA
2120160 GTTAGTGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 12 0.55
16 4 0.18
17 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (17 bp):
GATGAAAATAAAAGAAA
Found at i:2126976 original size:11 final size:11
Alignment explanation
Indices: 2126960--2126984 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2126950 TGTTAGTAGT
2126960 TAGAGTGGTTC
1 TAGAGTGGTTC
2126971 TAGAGTGGTTC
1 TAGAGTGGTTC
2126982 TAG
1 TAG
2126985 GGAACCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (11 bp):
TAGAGTGGTTC
Found at i:2134282 original size:65 final size:63
Alignment explanation
Indices: 2134128--2134293 Score: 185
Period size: 65 Copynumber: 2.6 Consensus size: 63
2134118 AAATAGCCAG
*
2134128 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCAATGTTTTCATAAAATCCTC
1 AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCAATG-TTTCATAAAAT-CTC
* * * **
2134193 AGTGCATCGGTGCATGGTAT-GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TC
1 AGTGCATCGATGCATGGT-TGGTGCATCGATGCATCAAATGCATTCAATGTTTC-ATAAAATCTC
*
2134255 ATGGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 A--GTGCATCGATGCATGG-TTGGTGCATCGATGCATCA
2134294 CTCTGAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 21 0.24
65 58 0.67
66 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCAATGTTTCATAAAATCTC
Found at i:2134612 original size:10 final size:9
Alignment explanation
Indices: 2134590--2134614 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2134580 AAGATTTTCT
2134590 AAAAATTTG
1 AAAAATTTG
2134599 AAAAATTTG
1 AAAAATTTG
2134608 AAAAATT
1 AAAAATT
2134615 ACTCCCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
AAAAATTTG
Found at i:2134758 original size:2 final size:2
Alignment explanation
Indices: 2134751--2134796 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2134741 ATTAAATAAC
2134751 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2134793 TA TA
1 TA TA
2134797 GTTTAAGCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2136980 original size:24 final size:24
Alignment explanation
Indices: 2136953--2136998 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2136943 AAGGCGTGCA
*
2136953 TCAAAATGATGAATCGATGCACAT
1 TCAAAAGGATGAATCGATGCACAT
* *
2136977 TCAAAGGGATGCATCGATGCAC
1 TCAAAAGGATGAATCGATGCAC
2136999 TGTTAAGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (24 bp):
TCAAAAGGATGAATCGATGCACAT
Found at i:2142846 original size:64 final size:62
Alignment explanation
Indices: 2142773--2142982 Score: 208
Period size: 65 Copynumber: 3.3 Consensus size: 62
2142763 TGGATCCTTA
*
2142773 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGACATAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA-ACATAGTGCATCGATGCATGG-TG
* * * *
2142837 GTGCATCGATGCATCAAATGCATTCAATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAACAT-AGTGCATCGATGCATGGT-
*
2142901 T
62 G
* * ** *
2142902 GTGCATCGATGTATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAA--CATAGTGCATCGATGCATGG--T
2142966 G
62 G
*
2142967 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
2142983 CTCTGAAAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 45 0.38
65 63 0.53
66 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAACATAGTGCATCGATGCATGGTG
Found at i:2145568 original size:15 final size:16
Alignment explanation
Indices: 2145542--2145571 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2145532 TTATAAATAT
2145542 AATAATATTTTAAAAA
1 AATAATATTTTAAAAA
2145558 AATAA-ATTTTAAAA
1 AATAATATTTTAAAA
2145572 TACCGAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATATTTTAAAAA
Found at i:2161483 original size:32 final size:31
Alignment explanation
Indices: 2161433--2161513 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 31
2161423 CCCGAAAGAC
* *
2161433 CTATCCATATGTTTCGAAGAACATAGGTAATC
1 CTATCCATATGTCTCGAAGAACATAGGTAA-A
* * *
2161465 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCTCGAAGAACATAGGTAAA
2161496 CTATCCATATGTCTCGAA
1 CTATCCATATGTCTCGAA
2161514 AGATATAGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 16 0.38
32 26 0.62
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (31 bp):
CTATCCATATGTCTCGAAGAACATAGGTAAA
Found at i:2161506 original size:31 final size:32
Alignment explanation
Indices: 2161433--2161525 Score: 116
Period size: 31 Copynumber: 2.9 Consensus size: 32
2161423 CCCGAAAGAC
* * *
2161433 CTATCCATATGTTTCGAAGAACATAGGTAATC
1 CTATCCATATGTCTCGAAGGACATAGGTAATA
* *
2161465 CTGTCCATATGTCCCGAAGGACATAGGTAA-A
1 CTATCCATATGTCTCGAAGGACATAGGTAATA
* *
2161496 CTATCCATATGTCTCGAAAGATATAGGTAA
1 CTATCCATATGTCTCGAAGGACATAGGTAA
2161526 CCCTCGACTC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
31 26 0.50
32 26 0.50
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (32 bp):
CTATCCATATGTCTCGAAGGACATAGGTAATA
Found at i:2162082 original size:18 final size:18
Alignment explanation
Indices: 2162061--2162102 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2162051 AACATGTCAA
2162061 CACATATAATCAT-GCATT
1 CACATA-AATCATAGCATT
* *
2162079 CACACAAATCATATCATT
1 CACATAAATCATAGCATT
2162097 CACATA
1 CACATA
2162103 CTTATAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (18 bp):
CACATAAATCATAGCATT
Found at i:2165670 original size:31 final size:32
Alignment explanation
Indices: 2165597--2165689 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 32
2165587 CCCGAATGAC
* * *
2165597 CTATCCATATATTCC-GAAGAACATAGGTAATC
1 CTATCCATAT-GTCCTGAAGGACATAGGTAATA
*
2165629 CTGTCCATATGTCCTGAAGGACATAGGTAA-A
1 CTATCCATATGTCCTGAAGGACATAGGTAATA
*
2165660 CTATCCATATGT-CTCGAAAGACATAGGTAA
1 CTATCCATATGTCCT-GAAGGACATAGGTAA
2165690 CCCTTGACTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
30 2 0.04
31 28 0.53
32 23 0.43
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (32 bp):
CTATCCATATGTCCTGAAGGACATAGGTAATA
Found at i:2166249 original size:18 final size:18
Alignment explanation
Indices: 2166228--2166269 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2166218 AACATGTCAA
2166228 CACATATAATCAT-GCATT
1 CACATA-AATCATAGCATT
* *
2166246 CACACAAATCATATCATT
1 CACATAAATCATAGCATT
2166264 CACATA
1 CACATA
2166270 CTTATAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (18 bp):
CACATAAATCATAGCATT
Found at i:2173786 original size:15 final size:15
Alignment explanation
Indices: 2173766--2173794 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2173756 AAATTTTTTG
2173766 TTTATAATATTAATA
1 TTTATAATATTAATA
2173781 TTTATAATATTAAT
1 TTTATAATATTAAT
2173795 CATAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATAATATTAATA
Found at i:2174300 original size:30 final size:29
Alignment explanation
Indices: 2174253--2174324 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
2174243 TTAAAGTAGC
*
2174253 ATTCTATCTGAAGTTTA-GAGTCAAATTAGT
1 ATTCTATCT-AAATTTAGGA-TCAAATTAGT
*
2174283 ATTCTATCTACAATTTAGGATCAAGTTAGT
1 ATTCTATCTA-AATTTAGGATCAAATTAGT
2174313 ATTCTATCTAAA
1 ATTCTATCTAAA
2174325 GTTCAAGGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 3 0.08
30 33 0.87
31 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (29 bp):
ATTCTATCTAAATTTAGGATCAAATTAGT
Found at i:2174715 original size:30 final size:29
Alignment explanation
Indices: 2174679--2174744 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
2174669 TAAAGTTTGG
*
2174679 AAAAGTTTAAGGACTAAAAGGGTAACTTT
1 AAAAGTTTAAGGACCAAAAGGGTAACTTT
* *
2174708 CAAAAGTTTAGGGACCAAAAGTGTAACTTT
1 -AAAAGTTTAAGGACCAAAAGGGTAACTTT
2174738 AAAAGTT
1 AAAAGTT
2174745 ATGTATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (29 bp):
AAAAGTTTAAGGACCAAAAGGGTAACTTT
Found at i:2179811 original size:30 final size:30
Alignment explanation
Indices: 2179763--2179829 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
2179753 TAAAGTTTGA
***
2179763 AAAAGTTTAAGGTTCAAAAGGGTAATTTTC
1 AAAAGTTTAAGAACCAAAAGGGTAATTTTC
** *
2179793 AAAAGTTTAAGAACCAAAAGTTTACTTTTC
1 AAAAGTTTAAGAACCAAAAGGGTAATTTTC
2179823 AAAAGTT
1 AAAAGTT
2179830 ATGTATTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (30 bp):
AAAAGTTTAAGAACCAAAAGGGTAATTTTC
Found at i:2180963 original size:19 final size:19
Alignment explanation
Indices: 2180935--2181031 Score: 101
Period size: 19 Copynumber: 5.2 Consensus size: 19
2180925 GATATAAACG
2180935 TGAAAGTAAGCTATGAATT
1 TGAAAGTAAGCTATGAATT
* *
2180954 TGAAATTAAGCTAT-AATC
1 TGAAAGTAAGCTATGAATT
*
2180972 CGAAA-TAAAGCTATGAATT
1 TGAAAGT-AAGCTATGAATT
* *
2180991 TGAAAGTAAGTTATGAA-C
1 TGAAAGTAAGCTATGAATT
*
2181009 TGAGAAGTAAGTTATGAATT
1 TGA-AAGTAAGCTATGAATT
2181029 TGA
1 TGA
2181032 GAACGAATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
17 1 0.02
18 17 0.26
19 43 0.66
20 4 0.06
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (19 bp):
TGAAAGTAAGCTATGAATT
Found at i:2183107 original size:129 final size:129
Alignment explanation
Indices: 2182877--2183173 Score: 504
Period size: 129 Copynumber: 2.3 Consensus size: 129
2182867 CTAACTTAAT
* * *
2182877 ATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACTTTTAAATGGCGATCAATTTATCATA
1 ATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACTATTAAATGGCGATAAATTTAACATA
* *
2182942 AATATCTATTTGAGTAGAACTTTATCAAATCATTTACCTAACTCAGTGATTTAACGTTTGATTA
66 AATATCTATTTGAGTAGAACTTTATCAAATCATTTACCTAACTCAGTGATCTAACGTTTAATTA
* *
2183006 ATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACTATTAAATGGGGGTAAATTTAACATA
1 ATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACTATTAAATGGCGATAAATTTAACATA
* *
2183071 AATATCTATTTGAGTATAACTTTATCAAATCATTTACCTAACTCAGTGATCTAACTTTTAATTA
66 AATATCTATTTGAGTAGAACTTTATCAAATCATTTACCTAACTCAGTGATCTAACGTTTAATTA
*
2183135 ATATATTATTGAGAGCTATAGAGGAAGTAAAAGTATAAC
1 ATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAAC
2183174 CTGCGGAAGC
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 158 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (129 bp):
ATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACTATTAAATGGCGATAAATTTAACATA
AATATCTATTTGAGTAGAACTTTATCAAATCATTTACCTAACTCAGTGATCTAACGTTTAATTA
Found at i:2183419 original size:20 final size:21
Alignment explanation
Indices: 2183379--2183420 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2183369 TATTTTGATA
* *
2183379 AAAACAATAATATATATAATT
1 AAAACAATAAAATACATAATT
2183400 AAAACAA-AAAATACATAATT
1 AAAACAATAAAATACATAATT
2183420 A
1 A
2183421 GGGAGCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAACAATAAAATACATAATT
Found at i:2184413 original size:21 final size:21
Alignment explanation
Indices: 2184387--2184445 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
2184377 ATTATCCAAT
*
2184387 AAACTTGACATCCATAACAAA
1 AAACTTGAAATCCATAACAAA
*
2184408 AAACTTGAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAA
2184429 AAACTTGAAATCCATAA
1 AAACTTGAAATCCATAA
2184446 TAATAAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAA
Found at i:2196203 original size:28 final size:28
Alignment explanation
Indices: 2196172--2196234 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
2196162 ACAAAAATTT
* *
2196172 ATAAATATTAAAA-AATACAATTAATATG
1 ATAAACATAAAAATAATACAA-TAATATG
* *
2196200 ATAAACATAAAAATAATATAATAATATT
1 ATAAACATAAAAATAATACAATAATATG
2196228 ATAAACA
1 ATAAACA
2196235 AAATTTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (28 bp):
ATAAACATAAAAATAATACAATAATATG
Found at i:2197054 original size:30 final size:30
Alignment explanation
Indices: 2197018--2197084 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
2197008 TAAAGTTTGG
*
2197018 AAAAGTTTAAGGACCAAAAGAGTAACTTTC
1 AAAAGTTTAAGGACCAAAAGAGTAACTTTA
* *
2197048 AAAAGTTTAGGGACCAAAAGTGTAACTTTA
1 AAAAGTTTAAGGACCAAAAGAGTAACTTTA
2197078 AAAAGTT
1 AAAAGTT
2197085 ATGTATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.25
Consensus pattern (30 bp):
AAAAGTTTAAGGACCAAAAGAGTAACTTTA
Found at i:2201821 original size:30 final size:30
Alignment explanation
Indices: 2201787--2201853 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
2201777 TAAAGTTTGA
***
2201787 AAAAGTTTAAGTTTCAAAAGGGTAATTTTC
1 AAAAGTTTAAGAACCAAAAGGGTAATTTTC
**
2201817 AAAAGTTTAAGAACCAAAAGTTTAATTTTC
1 AAAAGTTTAAGAACCAAAAGGGTAATTTTC
2201847 AAAAGTT
1 AAAAGTT
2201854 ATGTATTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (30 bp):
AAAAGTTTAAGAACCAAAAGGGTAATTTTC
Found at i:2201849 original size:15 final size:15
Alignment explanation
Indices: 2201787--2201853 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
2201777 TAAAGTTTGA
2201787 AAAAGTTTAAGTTTC
1 AAAAGTTTAAGTTTC
** *
2201802 AAAAGGGTAATTTTC
1 AAAAGTTTAAGTTTC
***
2201817 AAAAGTTTAAGAACC
1 AAAAGTTTAAGTTTC
*
2201832 AAAAGTTTAATTTTC
1 AAAAGTTTAAGTTTC
2201847 AAAAGTT
1 AAAAGTT
2201854 ATGTATTCGT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (15 bp):
AAAAGTTTAAGTTTC
Found at i:2202981 original size:19 final size:19
Alignment explanation
Indices: 2202953--2203026 Score: 94
Period size: 19 Copynumber: 3.9 Consensus size: 19
2202943 GATATAAACG
2202953 TGAAAGTAAGCTATGAATA
1 TGAAAGTAAGCTATGAATA
* *
2202972 TGAAAATAAGCTATGAATC
1 TGAAAGTAAGCTATGAATA
* * *
2202991 CGAAATTAAGCTATGAATT
1 TGAAAGTAAGCTATGAATA
*
2203010 TGAAAGTAAGTTATGAA
1 TGAAAGTAAGCTATGAA
2203027 CTGGGAAGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (19 bp):
TGAAAGTAAGCTATGAATA
Found at i:2203002 original size:38 final size:38
Alignment explanation
Indices: 2202954--2203026 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
2202944 ATATAAACGT
2202954 GAAAGTAAGCTATGAATATGAAAATAAGCTATGAATCC
1 GAAAGTAAGCTATGAATATGAAAATAAGCTATGAATCC
* * * *
2202992 GAAATTAAGCTATGAATTTGAAAGTAAGTTATGAA
1 GAAAGTAAGCTATGAATATGAAAATAAGCTATGAA
2203027 CTGGGAAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (38 bp):
GAAAGTAAGCTATGAATATGAAAATAAGCTATGAATCC
Found at i:2204800 original size:15 final size:14
Alignment explanation
Indices: 2204780--2204813 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2204770 GAAATAAGAG
*
2204780 TATAATATTATATAT
1 TATAATAGTATA-AT
2204795 TATAATAGTATAAT
1 TATAATAGTATAAT
2204809 TATAA
1 TATAA
2204814 CAAACAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TATAATAGTATAAT
Found at i:2205476 original size:129 final size:129
Alignment explanation
Indices: 2205246--2205502 Score: 460
Period size: 129 Copynumber: 2.0 Consensus size: 129
2205236 TTTATAAACA
2205246 TTTAAATGGCGGTCAATTTAACATAAATATATATTTGAGTAGAACTTTATCAAATCACTTACCTA
1 TTTAAATGGCGGTCAATTTAACATAAATATATATTTGAGTAGAACTTTATCAAATCACTTACCTA
* *
2205311 ACTCAGTGATTTAATGTTTAATTAATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACT
66 ACTCAGTGATCTAACGTTTAATTAATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACT
* * *
2205375 TTTAAATGGGGGTCAATTTAACATAAATATCTATTTGAGTAGAACTTTATCAAATCATTTACCTA
1 TTTAAATGGCGGTCAATTTAACATAAATATATATTTGAGTAGAACTTTATCAAATCACTTACCTA
*
2205440 ACTCAGTGATCTAACGTTTAATTAATATATTATTGAGAGCTGTAGAGGAAGCAAAAGTATAAC
66 ACTCAGTGATCTAACGTTTAATTAATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAAC
2205503 CTGCGGAAGC
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (129 bp):
TTTAAATGGCGGTCAATTTAACATAAATATATATTTGAGTAGAACTTTATCAAATCACTTACCTA
ACTCAGTGATCTAACGTTTAATTAATATATTATTGAGAGCTATAGAGGAAGCAAAAGTATAACT
Found at i:2218272 original size:12 final size:12
Alignment explanation
Indices: 2218246--2218326 Score: 56
Period size: 12 Copynumber: 6.8 Consensus size: 12
2218236 TGATAGTGAA
* *
2218246 AAAGTTGATTAT
1 AAAGGTGATTCT
2218258 AAAGGTGATGT-T
1 AAAGGTGAT-TCT
*
2218270 AAAAGTGATTCT
1 AAAGGTGATTCT
* *
2218282 AAAGGTTATTTT
1 AAAGGTGATTCT
***
2218294 AACCTTGATTCT
1 AAAGGTGATTCT
* *
2218306 AAATGTTATTCT
1 AAAGGTGATTCT
2218318 AAAGGTGAT
1 AAAGGTGAT
2218327 ACATAGCAAT
Statistics
Matches: 51, Mismatches: 16, Indels: 4
0.72 0.23 0.06
Matches are distributed among these distances:
11 1 0.02
12 49 0.96
13 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (12 bp):
AAAGGTGATTCT
Found at i:2218295 original size:24 final size:24
Alignment explanation
Indices: 2218245--2218326 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
2218235 GTGATAGTGA
* * *
2218245 AAAAGTTGATTATAAAGGTGATGTT
1 AAAAG-TGATTCTAAAGGTTATTTT
2218270 AAAAGTGATTCTAAAGGTTATTTT
1 AAAAGTGATTCTAAAGGTTATTTT
*** * *
2218294 AACCTTGATTCTAAATGTTATTCT
1 AAAAGTGATTCTAAAGGTTATTTT
*
2218318 AAAGGTGAT
1 AAAAGTGAT
2218327 ACATAGCAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 41 0.89
25 5 0.11
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (24 bp):
AAAAGTGATTCTAAAGGTTATTTT
Found at i:2223033 original size:64 final size:64
Alignment explanation
Indices: 2222896--2223033 Score: 190
Period size: 64 Copynumber: 2.2 Consensus size: 64
2222886 TTGAAGGTGT
* **
2222896 ATCGATGCACAAGAAGTGAATCGATGCACTCTTTTAAAATAAATACATCGAATGCAATTCGTGC
1 ATCGATGCATAAGAAGTGAATCGATGCACTCCATTAAAATAAATACATCGAATGCAATTCGTGC
* * *
2222960 ATCGATGCATAAGTAGTGCATCGATGCA-TCCCATTAATAATGAA-ACATCGAATGCAATTCGTG
1 ATCGATGCATAAGAAGTGAATCGATGCACT-CCATTAA-AATAAATACATCGAATGCAATTCGTG
2223023 C
64 C
2223024 ATCGATGCAT
1 ATCGATGCAT
2223034 CCCAGTAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
63 1 0.02
64 60 0.91
65 5 0.08
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGAAGTGAATCGATGCACTCCATTAAAATAAATACATCGAATGCAATTCGTGC
Found at i:2223075 original size:45 final size:45
Alignment explanation
Indices: 2222976--2223079 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
2222966 GCATAAGTAG
* * *
2222976 TGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTCG
1 TGCATCGATGCATCCCAGTAATAATGAAACATCGAATACAATTCA
* *
2223021 TGCATCGATGCATCCCAGTAATAAT-ACAACATCGAATACATTTTA
1 TGCATCGATGCATCCCAGTAATAATGA-AACATCGAATACAATTCA
*
2223066 TGCACCGATGCATC
1 TGCATCGATGCATC
2223080 AGTAGTGCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.02
45 51 0.98
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (45 bp):
TGCATCGATGCATCCCAGTAATAATGAAACATCGAATACAATTCA
Done.