Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 29
Found at i:4377553 original size:2 final size:2
Alignment explanation
Indices: 4377546--4377614 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
4377536 TACTTTAAAT
4377546 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
* *
4377588 TA TA TA TA TA TA TA TT TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4377615 TGATCAAGAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4379586 original size:31 final size:31
Alignment explanation
Indices: 4379551--4379660 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 31
4379541 TTAGGTTCAT
4379551 AAGGAATTACCAGTCAGTGTTGAACCTATAC
1 AAGGAATTACCAGTCAGTGTTGAACCTATAC
* * * *
4379582 AAGGAATTACCA-ACATTGATTGAACTTGCTAGAG
1 AAGGAATTACCAGTCAGTG-TTGAAC---CTATAC
* *
4379616 ATAGGAATTACCAGTCAGTGTTAAACCAATAC
1 A-AGGAATTACCAGTCAGTGTTGAACCTATAC
4379648 AAGGAATTACCAG
1 AAGGAATTACCAG
4379661 CAGCGACTGA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
30 4 0.06
31 30 0.48
32 4 0.06
34 5 0.08
35 16 0.25
36 4 0.06
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (31 bp):
AAGGAATTACCAGTCAGTGTTGAACCTATAC
Found at i:4396959 original size:20 final size:20
Alignment explanation
Indices: 4396936--4396986 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4396926 CACGGAATGT
*
4396936 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGAGAATAA
* *
4396956 AAGATTATCAATGAGAATAA
1 AAGATTACCAGTGAGAATAA
*
4396976 AATATTACCAG
1 AAGATTACCAG
4396987 GGAATAAGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.24
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:4397126 original size:26 final size:26
Alignment explanation
Indices: 4397088--4397147 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
4397078 TATTAGAATG
*
4397088 TATATTTTATCAAATTGTCCTTGTTC
1 TATATTTTATCAAATTGTCATTGTTC
*
4397114 TTTATTTTATCAAATTGTCATTGTTC
1 TATATTTTATCAAATTGTCATTGTTC
4397140 TATATTTT
1 TATATTTT
4397148 TTAACAAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (26 bp):
TATATTTTATCAAATTGTCATTGTTC
Found at i:4397186 original size:15 final size:15
Alignment explanation
Indices: 4397168--4397198 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4397158 AAATTCTAAA
4397168 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
4397183 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
4397198 T
1 T
4397199 CTATCTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:4399609 original size:12 final size:12
Alignment explanation
Indices: 4399592--4399616 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4399582 TAGAGTTGAT
4399592 AAGTTGAATTTG
1 AAGTTGAATTTG
4399604 AAGTTGAATTTG
1 AAGTTGAATTTG
4399616 A
1 A
4399617 CTTGTCATCT
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:4399923 original size:22 final size:21
Alignment explanation
Indices: 4399880--4399919 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4399870 CAGATAGTGC
4399880 AGGGGGTACAGATTCCCCCTA
1 AGGGGGTACAGATTCCCCCTA
4399901 AGGGGGTATC-GATTCCCCC
1 AGGGGGTA-CAGATTCCCCC
4399920 CTAAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (21 bp):
AGGGGGTACAGATTCCCCCTA
Found at i:4400262 original size:2 final size:2
Alignment explanation
Indices: 4400257--4400341 Score: 163
Period size: 2 Copynumber: 43.0 Consensus size: 2
4400247 GGGTTGTGTG
4400257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4400298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4400340 AT
1 AT
4400342 GTGCTTACAT
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 81 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4400627 original size:12 final size:12
Alignment explanation
Indices: 4400610--4400634 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4400600 AATGGTGATG
4400610 ATAAGAATAATA
1 ATAAGAATAATA
4400622 ATAAGAATAATA
1 ATAAGAATAATA
4400634 A
1 A
4400635 AACGATATGT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATAAGAATAATA
Found at i:4401997 original size:75 final size:76
Alignment explanation
Indices: 4401895--4402093 Score: 285
Period size: 75 Copynumber: 2.6 Consensus size: 76
4401885 CCGTTGTACA
* * *
4401895 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAG
** *
4401959 CAAAACTGTTT
66 CAAAACCATTC
* *
4401970 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAG
*
4402034 CCAAACCATTC
66 CAAAACCATTC
*
4402045 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGG-ATCGGTTCCCTCCGAGCA
4402094 ATCTGTAATT
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
75 87 0.79
76 6 0.05
77 17 0.15
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAG
CAAAACCATTC
Found at i:4402730 original size:17 final size:17
Alignment explanation
Indices: 4402708--4402751 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4402698 TTCATAAATC
4402708 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
4402725 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
4402742 -AAATATCCAA
1 CAAA-ATCCAA
4402752 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:4402743 original size:9 final size:8
Alignment explanation
Indices: 4402703--4402753 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
4402693 CACCATTCAT
4402703 AAATCC-A
1 AAATCCAA
4402710 AAATCCAA
1 AAATCCAA
*
4402718 CAATCCACA
1 AAATCCA-A
4402727 AAAT-CAA
1 AAATCCAA
4402734 ACAATCCAA
1 A-AATCCAA
4402743 AATATCCAA
1 AA-ATCCAA
4402752 AA
1 AA
4402754 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:4410697 original size:75 final size:76
Alignment explanation
Indices: 4410527--4410729 Score: 277
Period size: 74 Copynumber: 2.7 Consensus size: 76
4410517 CCGTTGTACA
* * * * *
4410527 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
** *
4410591 CAAAACTGTTT
66 CAAAACCATTC
4410602 A-GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
*
4410665 CCAAACCATTC
66 CAAAACCATTC
* *
4410676 AGGGGGGAATCGGTTCCTCCTATGGAGGGGAATCGGTTCCCTCTGAGCAATCTG
1 AGGGGGGAATCGGTTCCTCCTATGG-GGGGAATCGGTTCCCTCCGAGCATTCTG
4410730 TAATTTTTGG
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
74 63 0.56
75 23 0.20
76 1 0.01
77 26 0.23
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
CAAAACCATTC
Found at i:4411391 original size:31 final size:31
Alignment explanation
Indices: 4411270--4411397 Score: 123
Period size: 31 Copynumber: 4.1 Consensus size: 31
4411260 AGAGTCGAGG
4411270 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
4411301 GAATTACCTATG-TCTTTCGGGACATATTGACA
1 G-TTTACCTATGTTC-TACGGAACATATGGACA
* * * *
4411333 ATATACCTATGTTCTAAGGAATATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
4411364 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
4411395 GTT
1 GTT
4411398 GCTGAGGTTC
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
31 49 0.66
32 25 0.34
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:4412240 original size:22 final size:22
Alignment explanation
Indices: 4412215--4412261 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4412205 ACATTCAGGG
*
4412215 TACTGTAAACGGTATTGTTCAT
1 TACTGTAAACGGTACTGTTCAT
**
4412237 TACTGTTCACGGTACTGTTCAT
1 TACTGTAAACGGTACTGTTCAT
4412259 TAC
1 TAC
4412262 AGTTCATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (22 bp):
TACTGTAAACGGTACTGTTCAT
Found at i:4412266 original size:22 final size:22
Alignment explanation
Indices: 4412223--4412267 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4412213 GGTACTGTAA
* *
4412223 ACGGTATTGTTCATTACTGTTC
1 ACGGTACTGTTCATTACAGTTC
4412245 ACGGTACTGTTCATTACAGTTC
1 ACGGTACTGTTCATTACAGTTC
4412267 A
1 A
4412268 TATGATATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (22 bp):
ACGGTACTGTTCATTACAGTTC
Found at i:4413732 original size:12 final size:12
Alignment explanation
Indices: 4413715--4413739 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4413705 TAGAGTTGAT
4413715 AAGTTGAATTTG
1 AAGTTGAATTTG
4413727 AAGTTGAATTTG
1 AAGTTGAATTTG
4413739 A
1 A
4413740 CTTGTCATCT
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:4414028 original size:22 final size:22
Alignment explanation
Indices: 4414003--4414047 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4413993 TAGATTGTGC
4414003 AGGGGGTATAGATTCCCCCCTA
1 AGGGGGTATAGATTCCCCCCTA
*
4414025 AGGGGGTATCGATTCCCCCCTA
1 AGGGGGTATAGATTCCCCCCTA
4414047 A
1 A
4414048 ATGAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (22 bp):
AGGGGGTATAGATTCCCCCCTA
Found at i:4415216 original size:20 final size:18
Alignment explanation
Indices: 4415188--4415231 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
4415178 TGTAATATCA
*
4415188 ATGTTATATGAAATGTGACT
1 ATGTGATATG-AATGTGA-T
4415208 ATGTGATATGAATGTGAT
1 ATGTGATATGAATGTGAT
4415226 ATGTGA
1 ATGTGA
4415232 ACATAAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (18 bp):
ATGTGATATGAATGTGAT
Found at i:4415405 original size:153 final size:153
Alignment explanation
Indices: 4415233--4415542 Score: 611
Period size: 153 Copynumber: 2.0 Consensus size: 153
4415223 GATATGTGAA
4415233 CATAAGTGACTAATTGACATGAGCTATGTAACTATATGAAAGCAAGAACATGTGACATGAAATAC
1 CATAAGTGACTAATTGACATGAGCTATGTAACTATATGAAAGCAAGAACATGTGACATGAAATAC
4415298 ATGATAAGAAGATATAATACTATGTAAGGGTATTACATGATATGAAATTAAAGAGTAATGAGTTA
66 ATGATAAGAAGATATAATACTATGTAAGGGTATTACATGATATGAAATTAAAGAGTAATGAGTTA
4415363 TATGTATATGAGATATATGTTTT
131 TATGTATATGAGATATATGTTTT
4415386 CATAAGTGACTAATTGACATGAGCTATGTAACTATATGAAAGCAAGAACATGTGACATGAAATAC
1 CATAAGTGACTAATTGACATGAGCTATGTAACTATATGAAAGCAAGAACATGTGACATGAAATAC
4415451 ATGATAAGAAGATATAATACTATGTAAGGGTATTACATGATATGAAATTAAAGAGTAATGAGTTA
66 ATGATAAGAAGATATAATACTATGTAAGGGTATTACATGATATGAAATTAAAGAGTAATGAGTTA
*
4415516 TATGTATATGAGATATTTGTTTT
131 TATGTATATGAGATATATGTTTT
4415539 CATA
1 CATA
4415543 TACATGTGGT
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 156 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (153 bp):
CATAAGTGACTAATTGACATGAGCTATGTAACTATATGAAAGCAAGAACATGTGACATGAAATAC
ATGATAAGAAGATATAATACTATGTAAGGGTATTACATGATATGAAATTAAAGAGTAATGAGTTA
TATGTATATGAGATATATGTTTT
Found at i:4416630 original size:22 final size:23
Alignment explanation
Indices: 4416600--4416656 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
4416590 TTAACATTCG
* *
4416600 GGTACTGTTCATTATTGTTC-AC
1 GGTATTGTTCATTACTGTTCAAC
*
4416622 GGTATTGTTCATTACTGTTCATAT
1 GGTATTGTTCATTACTGTTCA-AC
4416646 GGTATTGTTCA
1 GGTATTGTTCA
4416657 ATGTTCATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 18 0.60
24 12 0.40
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.47
Consensus pattern (23 bp):
GGTATTGTTCATTACTGTTCAAC
Found at i:4416663 original size:21 final size:23
Alignment explanation
Indices: 4416622--4416665 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
4416612 TATTGTTCAC
4416622 GGTATTGTTCATTACTGTTCATAT
1 GGTATTGTTCA-TACTGTTCATAT
4416646 GGTATTGTTCA-A-TGTTCATA
1 GGTATTGTTCATACTGTTCATA
4416666 CCGTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
24 11 0.55
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (23 bp):
GGTATTGTTCATACTGTTCATAT
Found at i:4416671 original size:21 final size:21
Alignment explanation
Indices: 4416623--4416684 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
4416613 ATTGTTCACG
**
4416623 GTATTGTTCATTACTGTTCATATG
1 GTATTGTTCA--A-TGTTCATACC
4416647 GTATTGTTCAATGTTCATACC
1 GTATTGTTCAATGTTCATACC
*
4416668 GTATT-TT-ACTGTTCATA
1 GTATTGTTCAATGTTCATA
4416685 AAACGTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
21 13 0.37
22 1 0.03
24 10 0.29
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.48
Consensus pattern (21 bp):
GTATTGTTCAATGTTCATACC
Found at i:4416682 original size:19 final size:20
Alignment explanation
Indices: 4416633--4416684 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
4416623 GTATTGTTCA
**
4416633 TTACTGTTCATATGGTATTG
1 TTACTGTTCATACCGTATTG
*
4416653 TTCAATGTTCATACCGTATT-
1 TT-ACTGTTCATACCGTATTG
4416673 TTACTGTTCATA
1 TTACTGTTCATA
4416685 AAACGTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 9 0.33
20 4 0.15
21 14 0.52
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.48
Consensus pattern (20 bp):
TTACTGTTCATACCGTATTG
Found at i:4419289 original size:28 final size:27
Alignment explanation
Indices: 4419205--4419295 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
4419195 GTTAACTTAA
*
4419205 AAAAATATTTT-TTA-T-ATTAACGTATT
1 AAAAATATTTTATTATTAATTAA-AT-TT
*
4419231 AAATATATTTTATTATTAATTAAATTT
1 AAAAATATTTTATTATTAATTAAATTT
* *
4419258 AAAAATATTTTATT-TATATTTTAATTT
1 AAAAATATTTTATTAT-TAATTAAATTT
4419285 AAAAATATTTT
1 AAAAATATTTT
4419296 TTTGTTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
26 11 0.20
27 38 0.68
28 2 0.04
29 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
AAAAATATTTTATTATTAATTAAATTT
Found at i:4419292 original size:16 final size:16
Alignment explanation
Indices: 4419253--4419318 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
4419243 TTATTAATTA
4419253 AATTTAAAAATATTTT
1 AATTTAAAAATATTTT
4419269 -ATTT----ATATTTT
1 AATTTAAAAATATTTT
4419280 AATTTAAAAATATTTT
1 AATTTAAAAATATTTT
* * *
4419296 -TTTGTTAAAATATTTG
1 AATT-TAAAAATATTTT
4419312 AATTTAA
1 AATTTAA
4419319 GATAAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
11 7 0.18
12 4 0.11
15 6 0.16
16 19 0.50
17 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTAAAAATATTTT
Found at i:4419384 original size:19 final size:20
Alignment explanation
Indices: 4419349--4419386 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4419339 AATAATTTAA
4419349 AGTAATAATATAGTAAAATT
1 AGTAATAATATAGTAAAATT
4419369 AGTAA-AATA-AGATAAAAT
1 AGTAATAATATAG-TAAAAT
4419387 ATATACTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 10 0.59
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
AGTAATAATATAGTAAAATT
Found at i:4419480 original size:31 final size:31
Alignment explanation
Indices: 4419371--4419485 Score: 99
Period size: 33 Copynumber: 3.6 Consensus size: 31
4419361 GTAAAATTAG
* **
4419371 TAAAATAAGATAAAATATATACTTTGAAAAGT
1 TAAAATAAAATAAAATATATA-TTTTTAAAGT
* *
4419403 TAAAATGATATATCAAA-ATATATTTTTAAAGGT
1 TAAAAT-A-AAATAAAATATATATTTTTAAA-GT
* *
4419436 TTAGATAAGAATAAAATATATATTTTTAAA-T
1 TAAAATAA-AATAAAATATATATTTTTAAAGT
4419467 TAAAATACAAATAAAATAT
1 TAAAATA-AAATAAAATAT
4419486 TTTTAAATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
31 17 0.25
32 19 0.28
33 25 0.37
34 6 0.09
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (31 bp):
TAAAATAAAATAAAATATATATTTTTAAAGT
Found at i:4419490 original size:27 final size:27
Alignment explanation
Indices: 4419455--4419518 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
4419445 AATAAAATAT
4419455 ATATTTTTAAATTAAAATACA-AATAAA
1 ATATTTTTAAATTAAAATA-ATAATAAA
**
4419482 ATATTTTTAAATTAAGTTAATAATAAA
1 ATATTTTTAAATTAAAATAATAATAAA
*
4419509 ATATATTTAA
1 ATATTTTTAA
4419519 TAAGTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
ATATTTTTAAATTAAAATAATAATAAA
Found at i:4419534 original size:25 final size:27
Alignment explanation
Indices: 4419476--4419539 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
4419466 TTAAAATACA
*
4419476 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATATTTAAATTAAGTTAAT
4419503 AATAAAATATATTT-AA-TAAGTTAAT
1 AATAAAATATATTTAAATTAAGTTAAT
*
4419528 -GTAAAA-ATATTT
1 AATAAAATATATTT
4419540 CTTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 9 0.26
26 2 0.06
27 13 0.37
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (27 bp):
AATAAAATATATTTAAATTAAGTTAAT
Found at i:4423417 original size:27 final size:27
Alignment explanation
Indices: 4423379--4423444 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
4423369 ATTATTTGAT
4423379 GGCATACGAGGATAAGGCAAAGGATAA
1 GGCATACGAGGATAAGGCAAAGGATAA
4423406 GGCATACGAGGATAAGGCAAAGGATAA
1 GGCATACGAGGATAAGGCAAAGGATAA
4423433 GGCATACGAGGA
1 GGCATACGAGGA
4423445 AATGTACAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.35, T:0.11
Consensus pattern (27 bp):
GGCATACGAGGATAAGGCAAAGGATAA
Found at i:4423419 original size:15 final size:15
Alignment explanation
Indices: 4423379--4423444 Score: 90
Period size: 12 Copynumber: 4.8 Consensus size: 15
4423369 ATTATTTGAT
4423379 GGCATACGAGGATAA
1 GGCATACGAGGATAA
4423394 GGCA-A--AGGATAA
1 GGCATACGAGGATAA
4423406 GGCATACGAGGATAA
1 GGCATACGAGGATAA
4423421 GGCA-A--AGGATAA
1 GGCATACGAGGATAA
4423433 GGCATACGAGGA
1 GGCATACGAGGA
4423445 AATGTACAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
12 22 0.49
13 2 0.04
14 2 0.04
15 19 0.42
ACGTcount: A:0.42, C:0.12, G:0.35, T:0.11
Consensus pattern (15 bp):
GGCATACGAGGATAA
Found at i:4425735 original size:18 final size:19
Alignment explanation
Indices: 4425712--4425759 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
4425702 GCCAAATTTG
*
4425712 GTATCGATA-ATGAAGTGA
1 GTATCGATACATGAAGAGA
*
4425730 GTATCGATACCATGACGAGA
1 GTATCGATA-CATGAAGAGA
4425750 GTATCGATAC
1 GTATCGATAC
4425760 TCAACTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
20 16 0.62
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (19 bp):
GTATCGATACATGAAGAGA
Found at i:4429117 original size:94 final size:94
Alignment explanation
Indices: 4428956--4429144 Score: 378
Period size: 94 Copynumber: 2.0 Consensus size: 94
4428946 ACAAGTACGA
4428956 GGATGAATGGAAGTAAATATTCACTCCAACGAATACATGATACAAGGAAGGATTTTGCACTTACA
1 GGATGAATGGAAGTAAATATTCACTCCAACGAATACATGATACAAGGAAGGATTTTGCACTTACA
4429021 CGAGGAATGTAACACACTCAGACTGATAC
66 CGAGGAATGTAACACACTCAGACTGATAC
4429050 GGATGAATGGAAGTAAATATTCACTCCAACGAATACATGATACAAGGAAGGATTTTGCACTTACA
1 GGATGAATGGAAGTAAATATTCACTCCAACGAATACATGATACAAGGAAGGATTTTGCACTTACA
4429115 CGAGGAATGTAACACACTCAGACTGATAC
66 CGAGGAATGTAACACACTCAGACTGATAC
4429144 G
1 G
4429145 AGAGACTCAA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (94 bp):
GGATGAATGGAAGTAAATATTCACTCCAACGAATACATGATACAAGGAAGGATTTTGCACTTACA
CGAGGAATGTAACACACTCAGACTGATAC
Found at i:4432648 original size:6 final size:6
Alignment explanation
Indices: 4432637--4432665 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4432627 TTTATTTTAA
4432637 ACGGGG ACGGGG ACGGGG ACGGGG ACGGG
1 ACGGGG ACGGGG ACGGGG ACGGGG ACGGG
4432666 TTTGGTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.66, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:4432704 original size:12 final size:12
Alignment explanation
Indices: 4432676--4432712 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
4432666 TTTGGTAATC
4432676 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
4432689 CCCGCCCCGATA
1 CCCGCCCCGATA
*
4432701 CCCGACCCGATA
1 CCCGCCCCGATA
4432713 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:4432765 original size:32 final size:32
Alignment explanation
Indices: 4432713--4432809 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 32
4432703 CGACCCGATA
*
4432713 AATATTAA-AAATAATT-ATTTATATATATATAT
1 AATATTAATAAAT--TTAATTTAAATATATATAT
* *
4432745 AATATTAATAAATTTAATTTAAATA-AAAAAT
1 AATATTAATAAATTTAATTTAAATATATATAT
* *
4432776 ATATATTTATATATTTAATTTAAATATATATAT
1 A-ATATTAATAAATTTAATTTAAATATATATAT
4432809 A
1 A
4432810 TATACCCGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
31 7 0.13
32 38 0.70
33 9 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
AATATTAATAAATTTAATTTAAATATATATAT
Found at i:4432838 original size:24 final size:24
Alignment explanation
Indices: 4432811--4432865 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
4432801 ATATATATAT
* * *
4432811 ATACCCGACCCGATTCTCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
4432835 ATACCCGACCCAATACCCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
4432859 ATACCCG
1 ATACCCG
4432866 TTTAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (24 bp):
ATACCCGACCCAATACCCGGCCCA
Found at i:4432848 original size:12 final size:12
Alignment explanation
Indices: 4432811--4432865 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
4432801 ATATATATAT
*
4432811 ATACCCGACCCG
1 ATACCCGACCCA
* * *
4432823 ATTCTCGGCCCA
1 ATACCCGACCCA
4432835 ATACCCGACCCA
1 ATACCCGACCCA
*
4432847 ATACCCGGCCCA
1 ATACCCGACCCA
4432859 ATACCCG
1 ATACCCG
4432866 TTTAAATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:4439174 original size:3 final size:3
Alignment explanation
Indices: 4439166--4439206 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
4439156 TCAGTTCATT
*
4439166 TTA TTA TTA TTAA TTA TTA AT- TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4439207 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4448420 original size:84 final size:84
Alignment explanation
Indices: 4448278--4448583 Score: 510
Period size: 84 Copynumber: 3.7 Consensus size: 84
4448268 TGGAACAAAT
*
4448278 ATAATGTGCTCAATAGCATCTTTTGGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAATGTGCTCAATAGCATCTTCT-GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
4448343 CAATCATTGAATTTGGAAGA
65 CAATCATTGAATTTGGAAGA
4448363 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-C
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
*
4448427 AATCATTGAATTTAGAAG-
66 AATCATTGAATTTGGAAGA
* *
4448445 ATAAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAAC
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
4448509 TAATCATTGAATTTGGAAGA
65 CAATCATTGAATTTGGAAGA
* *
4448529 ATAATGTGTTCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTT
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
4448584 TGGTAGGAAC
Statistics
Matches: 208, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
82 54 0.26
83 46 0.22
84 85 0.41
85 23 0.11
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (84 bp):
ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
AATCATTGAATTTGGAAGA
Found at i:4451181 original size:22 final size:22
Alignment explanation
Indices: 4451152--4451206 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4451142 ATCTACACTC
*
4451152 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
4451174 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
4451196 TTCAAAGATGA
1 TTCAAAGATGA
4451207 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:4451927 original size:113 final size:113
Alignment explanation
Indices: 4451609--4452278 Score: 931
Period size: 113 Copynumber: 6.0 Consensus size: 113
4451599 CAAAGATTCA
** * **
4451609 AATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
4451672 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * *
4451721 AATCCATCATTCGATGGATTGA-CATTTCCATAG-AAGTTCATAATGAGAAGAACTCATATGAAG
1 AATCCATCATTTGATGGA-TCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
4451784 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
*
4451833 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
4451898 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * *
4451946 AATCTATTATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
4452011 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GTCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TG
* * * * * *
4452059 AATTCATCACTTGATGGATTAT-TTTTGCCAGAGAAGGTTCATAATAAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
4452123 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * * * *
4452172 AATCCATCACTTGATGGAACAGCTTTTCTAGAG-AAGTTCATAATGAGAAGAACTCATCTAAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
4452236 AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
4452279 GCATAATTCT
Statistics
Matches: 508, Mismatches: 41, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
111 2 0.00
112 193 0.38
113 307 0.60
114 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
Found at i:4452785 original size:76 final size:76
Alignment explanation
Indices: 4452685--4453324 Score: 1145
Period size: 76 Copynumber: 8.4 Consensus size: 76
4452675 ACTATTTCCC
*
4452685 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
4452750 AAGCCTTCGGG
66 AAGCCTTCGGG
* *
4452761 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
4452826 AAGCCTTCGGG
66 AAGCCTTCGGG
*
4452837 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
*
4452902 AAAGCCTTAGGG
65 AAAGCCTTCGGG
*
4452914 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
4452979 AAGCCTTCAGG
66 AAGCCTTCGGG
*
4452990 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
4453055 AAGCCTTCTGG
66 AAGCCTTCGGG
* *
4453066 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
4453131 AAGCCTTCGGG
66 AAGCCTTCGGG
4453142 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
4453207 AAGCCTTCGGG
66 AAGCCTTCGGG
*
4453218 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
4453283 AAGCCTTAGGG
66 AAGCCTTCGGG
*
4453294 TCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTT
4453325 TCAACATTTC
Statistics
Matches: 544, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
76 471 0.87
77 73 0.13
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (76 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGG
Found at i:4453794 original size:21 final size:21
Alignment explanation
Indices: 4453753--4453794 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
4453743 CCACAGAGAG
* *
4453753 ACAGAGAACAAAAAATAGAAA
1 ACAGAGAAAAAAAAAAAGAAA
4453774 ACAGA-AAAAAAAAAAACGAAA
1 ACAGAGAAAAAAAAAAA-GAAA
4453795 GGAAGAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.02
Consensus pattern (21 bp):
ACAGAGAAAAAAAAAAAGAAA
Found at i:4463035 original size:22 final size:19
Alignment explanation
Indices: 4462995--4463034 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4462985 GTTGGAAATA
4462995 TTCTCCTCCTCCCTTGTTG
1 TTCTCCTCCTCCCTTGTTG
4463014 TTCTCCTCCTCCCTTGTTG
1 TTCTCCTCCTCCCTTGTTG
4463033 TT
1 TT
4463035 GAACCAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.40, G:0.10, T:0.50
Consensus pattern (19 bp):
TTCTCCTCCTCCCTTGTTG
Found at i:4463924 original size:53 final size:53
Alignment explanation
Indices: 4463843--4463994 Score: 205
Period size: 53 Copynumber: 2.9 Consensus size: 53
4463833 CTTTGACTAG
* * * * *
4463843 CGGGTTCGCTCCCTCTTGCTTTAAGGAGTATAACTCGAACAGTCTTCTATCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTCTACCTA
** * * * *
4463896 CGGGTTCAATCCCTCTTACTTCAGGGAGTAGAACTCGAATAATCTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTCTACCTA
4463949 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTT
4463995 ATAGTGTGAA
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 84 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (53 bp):
CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTCTACCTA
Found at i:4464105 original size:22 final size:21
Alignment explanation
Indices: 4464038--4464147 Score: 66
Period size: 20 Copynumber: 5.2 Consensus size: 21
4464028 GGATGACCCA
*
4464038 AAAGATTTATCATCTTGCTCG
1 AAAGATTTATCATCATGCTCG
* * * * *
4464059 AGAGACTCA-CA-AATGACCCG
1 AAAGATTTATCATCATG-CTCG
4464079 AAAGATTTAATCATCATGCTCG
1 AAAGATTT-ATCATCATGCTCG
* * *
4464101 AAAGACTTA-C-TGATGACCCG
1 AAAGATTTATCATCATG-CTCG
*
4464121 AAGGATTTCATCATCATGCTCG
1 AAAGATTT-ATCATCATGCTCG
4464143 AAAGA
1 AAAGA
4464148 CTTACTGATG
Statistics
Matches: 62, Mismatches: 19, Indels: 15
0.65 0.20 0.16
Matches are distributed among these distances:
19 6 0.10
20 20 0.32
21 9 0.15
22 20 0.32
23 7 0.11
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (21 bp):
AAAGATTTATCATCATGCTCG
Found at i:4464150 original size:42 final size:41
Alignment explanation
Indices: 4464029--4464157 Score: 177
Period size: 42 Copynumber: 3.1 Consensus size: 41
4464019 AGGTCTTATG
* * * * *
4464029 GATGACCCAAAAGATTTATCATCTTGCTCGAGAGACTCACA
1 GATGACCCGAAAGATTTATCATCATGCTCGAAAGACTTACT
*
4464070 AATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAAGATTT-ATCATCATGCTCGAAAGACTTACT
*
4464112 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAAGATTT-ATCATCATGCTCGAAAGACTTACT
4464154 GATG
1 GATG
4464158 GATTTGCTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 15 0.19
42 63 0.81
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
GATGACCCGAAAGATTTATCATCATGCTCGAAAGACTTACT
Found at i:4475259 original size:7 final size:7
Alignment explanation
Indices: 4475247--4475279 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
4475237 CCTACAAAAT
4475247 AAAATAA
1 AAAATAA
4475254 AAAATAA
1 AAAATAA
4475261 AAAATAA
1 AAAATAA
4475268 AAAATAA
1 AAAATAA
4475275 AAAAT
1 AAAAT
4475280 TAATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:4476206 original size:18 final size:18
Alignment explanation
Indices: 4476180--4476215 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4476170 TTGATTTGAT
4476180 TGGTAATGATGCTCGAAA
1 TGGTAATGATGCTCGAAA
* *
4476198 TGGTGATGATGCTTGAAA
1 TGGTAATGATGCTCGAAA
4476216 AGTCGATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (18 bp):
TGGTAATGATGCTCGAAA
Found at i:4477159 original size:30 final size:30
Alignment explanation
Indices: 4477093--4477198 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
4477083 CAGAGGTCAT
* * *
4477093 AAAGAACCTCGGCAACTGTCCATAGGTCCC
1 AAAGAACCTAGGTAACTGTCCATATGTCCC
*
4477123 AAAGAACCTAGGTAACTGTCCATATGTTCC
1 AAAGAACCTAGGTAACTGTCCATATGTCCC
** * *
4477153 TTAGAACATAGGTATACTGTCCATATGTCTCG
1 AAAGAACCTAGGTA-ACTGTCCATATGTC-CC
*
4477185 AAAG-ACATAGGTAA
1 AAAGAACCTAGGTAA
4477199 AACCCTCGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
30 38 0.60
31 22 0.35
32 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (30 bp):
AAAGAACCTAGGTAACTGTCCATATGTCCC
Found at i:4477175 original size:31 final size:30
Alignment explanation
Indices: 4477106--4477198 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
4477096 GAACCTCGGC
* *
4477106 AACTGTCCATAGGTCCCAAAGAACCTAGGT
1 AACTGTCCATATGTCCCAAAGAACATAGGT
* **
4477136 AACTGTCCATATGTTCCTTAGAACATAGGT
1 AACTGTCCATATGTCCCAAAGAACATAGGT
*
4477166 ATACTGTCCATATGTCTCGAAAG-ACATAGGT
1 A-ACTGTCCATATGTC-CCAAAGAACATAGGT
4477197 AA
1 AA
4477199 AACCCTCGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
30 27 0.52
31 22 0.42
32 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (30 bp):
AACTGTCCATATGTCCCAAAGAACATAGGT
Found at i:4477365 original size:17 final size:19
Alignment explanation
Indices: 4477333--4477368 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
4477323 CATATATCTC
4477333 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
4477352 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
4477369 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:4477963 original size:64 final size:64
Alignment explanation
Indices: 4477855--4478014 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 64
4477845 CAATGAATGT
* * ** *
4477855 ATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTT-TATTTAATGGGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTAA-AAGC
* * *
4477919 ATGCATCGATGCACTCCTTATGCATCGATGCAT-AAATCCTATTCGATGTTTTCTATTTAAAATC
1 ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCC-ATTCGATGTTTTCTATTTAAAAGC
* *
4477983 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACTTGTGCATCGATGCA
4478015 CCTTAAACAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 5 0.06
64 71 0.86
65 7 0.08
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTAAAAGC
Found at i:4479784 original size:31 final size:31
Alignment explanation
Indices: 4479742--4479814 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
4479732 ATAAAGTCCG
*
4479742 ATGATCGATTTATTA-AATATC-GATAACATTA
1 ATGATCAATTTATTATAA-ATCAG-TAACATTA
*
4479773 ATGATCAATTTATTATAAATCAGTAATATTA
1 ATGATCAATTTATTATAAATCAGTAACATTA
*
4479804 TTGATCAATTT
1 ATGATCAATTT
4479815 GTTGATTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 34 0.92
32 3 0.08
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (31 bp):
ATGATCAATTTATTATAAATCAGTAACATTA
Found at i:4488137 original size:38 final size:38
Alignment explanation
Indices: 4488086--4488162 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
4488076 GTTCTGGTAA
*
4488086 TAACCTGCATGGTATGCCAAGGTGGATTAATTTTTCTT
1 TAACCTGCATGGTAAGCCAAGGTGGATTAATTTTTCTT
* * * *
4488124 TAACCTGCATGGTAAGCTAATGTGTATTATTTTTTCTT
1 TAACCTGCATGGTAAGCCAAGGTGGATTAATTTTTCTT
4488162 T
1 T
4488163 TAAATAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (38 bp):
TAACCTGCATGGTAAGCCAAGGTGGATTAATTTTTCTT
Found at i:4488569 original size:105 final size:105
Alignment explanation
Indices: 4488387--4488596 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
4488377 CTGTACAAGG
4488387 AATGAATTTATTAAAATTCAGGAAGAAGGAAGAAAGAGTGTAAGAAACGCCTAAAAGGGAGAAGG
1 AATGAATTTATTAAAATTCAGGAAGAAGGAAGAAAGAGTGTAAGAAACGCCTAAAAGGGAGAAGG
4488452 AAACAGATAATGATGCTAAGATACATCACATTTTTCTAAT
66 AAACAGATAATGATGCTAAGATACATCACATTTTTCTAAT
4488492 AATGAATTTATTAAAATTCAGGAAGAAGGAAGAAAGAGTGTAAGAAACGCCTAAAAGGGAGAAGG
1 AATGAATTTATTAAAATTCAGGAAGAAGGAAGAAAGAGTGTAAGAAACGCCTAAAAGGGAGAAGG
4488557 AAACAGATAATGATGCTAAGATACATCACATTTTTCTAAT
66 AAACAGATAATGATGCTAAGATACATCACATTTTTCTAAT
4488597 GTATTTACTG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.23
Consensus pattern (105 bp):
AATGAATTTATTAAAATTCAGGAAGAAGGAAGAAAGAGTGTAAGAAACGCCTAAAAGGGAGAAGG
AAACAGATAATGATGCTAAGATACATCACATTTTTCTAAT
Found at i:4491494 original size:2 final size:2
Alignment explanation
Indices: 4491481--4491514 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4491471 AAATAAATAA
*
4491481 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4491515 TTACTTGCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4494626 original size:56 final size:56
Alignment explanation
Indices: 4494523--4494650 Score: 150
Period size: 56 Copynumber: 2.3 Consensus size: 56
4494513 ATAGGATCCT
* * * * * *
4494523 GAAATCGAATATATCTATCAGTTGTTACAATTAATAAGCATAGAAATAGGGGCTCC
1 GAAATCGAATATATCTATCAGTTGTTACAATTAAGAAACATAAAAATAAGAGCCCC
* * **
4494579 GAAATCGAGTATATCTATCAGTTGTTGCCGTTAAGAAACATAAAAATAAGAGCCCC
1 GAAATCGAATATATCTATCAGTTGTTACAATTAAGAAACATAAAAATAAGAGCCCC
4494635 GAAATC-ACATATATCT
1 GAAATCGA-ATATATCT
4494651 CCATTTATCA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 1 0.02
56 59 0.98
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (56 bp):
GAAATCGAATATATCTATCAGTTGTTACAATTAAGAAACATAAAAATAAGAGCCCC
Found at i:4495001 original size:55 final size:55
Alignment explanation
Indices: 4494890--4495118 Score: 291
Period size: 55 Copynumber: 4.2 Consensus size: 55
4494880 AATATAGGAA
* * *
4494890 TATAT-TATCAGTTATTGTCATTAATAAGA-ATAAAAATAAGGGTCTTGAAATCGAG
1 TATATCTATCAGTTGTTGTCATTAAGAA-ACATAAAAAT-AGGGTCCTGAAATCGAG
* *
4494945 TATATCTATCAGTTGTTGTTATTAAGAAACATAAAAATAGGATCCTGAAATCGAG
1 TATATCTATCAGTTGTTGTCATTAAGAAACATAAAAATAGGGTCCTGAAATCGAG
* * * * *
4495000 TATATCTATCAGTTGTTGTTATTAAGAAATATAAAAGTAGGGTCCTAAAATTGAG
1 TATATCTATCAGTTGTTGTCATTAAGAAACATAAAAATAGGGTCCTGAAATCGAG
* * * * *
4495055 TATATATATCAGTTGTTGTCATTAACAAGCATAAAAATAGGGTCCCGAAATCGAA
1 TATATCTATCAGTTGTTGTCATTAAGAAACATAAAAATAGGGTCCTGAAATCGAG
4495110 TATATCTAT
1 TATATCTAT
4495119 AAAATATGAG
Statistics
Matches: 151, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
55 124 0.82
56 27 0.18
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (55 bp):
TATATCTATCAGTTGTTGTCATTAAGAAACATAAAAATAGGGTCCTGAAATCGAG
Found at i:4496483 original size:183 final size:183
Alignment explanation
Indices: 4496134--4496483 Score: 544
Period size: 183 Copynumber: 1.9 Consensus size: 183
4496124 TTATATATAA
*
4496134 CTCAAACCATTTAAAACCTAATTAATAATTTAAGATCTAATAACTTTTAAACCTAAATCAATATT
1 CTCAAACCATTTAAAACCTAATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATT
* *
4496199 AATTAATTAAAAAACTATATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTGTAAA
66 AATTAATTAAAAAACTATATAAAATTTTAATTTTATAATTATATATTATTTAAATTAATTATAAA
*
4496264 CTGTTTTTTAATTAAAAAATATTAAATATATTATATATAACATATGGGCTAAG
131 CTGTTTTTTAATTAAAAAACATTAAATATATTATATATAACATATGGGCTAAG
4496317 CTCAAACCATTTAAAA-CTCAATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATAT
1 CTCAAACCATTTAAAACCT-AATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATAT
* * * *
4496381 TAATTAATTAAAAAATTTATCTGAAATTTTAATTTTATAATTATATATTGTTTAAATTAATTATA
65 TAATTAATTAAAAAA-CTATATAAAATTTTAATTTTATAATTATATATTATTTAAATTAATTATA
* * * *
4496446 AA-TTTTTTTTGAATTTAAAAACATTTAAT-TTTTATATA
129 AACTGTTTTTT-AATTAAAAAACATTAAATATATTATATA
4496484 AATTAGAAAT
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
182 2 0.01
183 90 0.59
184 60 0.39
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (183 bp):
CTCAAACCATTTAAAACCTAATTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATT
AATTAATTAAAAAACTATATAAAATTTTAATTTTATAATTATATATTATTTAAATTAATTATAAA
CTGTTTTTTAATTAAAAAACATTAAATATATTATATATAACATATGGGCTAAG
Found at i:4497837 original size:20 final size:22
Alignment explanation
Indices: 4497814--4497856 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
4497804 TTAAAAAATC
*
4497814 ACCTAAACCATT-AT-TTTTTT
1 ACCTAAAACATTAATGTTTTTT
4497834 ACCTAAAACATTAATGTTTTTT
1 ACCTAAAACATTAATGTTTTTT
4497856 A
1 A
4497857 ACATTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (22 bp):
ACCTAAAACATTAATGTTTTTT
Found at i:4498143 original size:3 final size:3
Alignment explanation
Indices: 4498137--4498173 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
4498127 TTCATTTGGT
4498137 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
4498174 AATAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4512336 original size:26 final size:28
Alignment explanation
Indices: 4512293--4512356 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
4512283 TTCATTTTGC
4512293 TTCTCTCTCTAAAGAGAGAAGCTCTTAA
1 TTCTCTCTCTAAAGAGAGAAGCTCTTAA
* *
4512321 TTCTCTCTCTAAAGAGAGAAGCTGTTAC
1 TTCTCTCTCTAAAGAGAGAAGCTCTTAA
4512349 TTCTCTCT
1 TTCTCTCT
4512357 AAACTTAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (28 bp):
TTCTCTCTCTAAAGAGAGAAGCTCTTAA
Found at i:4512411 original size:22 final size:22
Alignment explanation
Indices: 4512376--4512440 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
4512366 CACCAGTCGG
* *
4512376 CCACCGTCGGTCACTATTCCGA
1 CCACCGCCGATCACTATTCCGA
* *
4512398 CCGCCGCCGATCACTATTCCAA
1 CCACCGCCGATCACTATTCCGA
*
4512420 CCACCGCCGGTCACTATTCCG
1 CCACCGCCGATCACTATTCCG
4512441 GCTGTCGATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.18, C:0.45, G:0.17, T:0.20
Consensus pattern (22 bp):
CCACCGCCGATCACTATTCCGA
Found at i:4512888 original size:23 final size:23
Alignment explanation
Indices: 4512861--4512906 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4512851 GGGAACATAA
*
4512861 CGGCGGAGTAGTTGGAGTAGAGG
1 CGGCGGAGCAGTTGGAGTAGAGG
4512884 CGGCGGAGCAGTTGGAGTAGAGG
1 CGGCGGAGCAGTTGGAGTAGAGG
4512907 AACGGCTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.11, G:0.52, T:0.15
Consensus pattern (23 bp):
CGGCGGAGCAGTTGGAGTAGAGG
Found at i:4513645 original size:18 final size:18
Alignment explanation
Indices: 4513622--4513659 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4513612 CAAGTTTATC
4513622 TTTTCGAAATTCAATTTA
1 TTTTCGAAATTCAATTTA
4513640 TTTTCGAAATTCAATTTA
1 TTTTCGAAATTCAATTTA
4513658 TT
1 TT
4513660 CTTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTCGAAATTCAATTTA
Found at i:4514400 original size:22 final size:22
Alignment explanation
Indices: 4514338--4514392 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
4514328 ACATCTACAT
4514338 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
4514360 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
4514382 TTTTCAAAGAT
1 TCTTCAAAGAT
4514393 TAAAGATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:4515203 original size:123 final size:123
Alignment explanation
Indices: 4514782--4515337 Score: 812
Period size: 123 Copynumber: 4.5 Consensus size: 123
4514772 CACTCGATGG
* * * *
4514782 ATCACCATTTCCAGAGAAAGTTCATAATAAAAAGAACTCATCTGAAGAGGAAGAATAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
* * * *
4514847 ATAAGAAGAACTTATTCGACCTTTTGCATGAGTCTATCACAGAAGGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
* * * *
4514905 ATCAACTTTTTCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
** * * *
4514970 ATGAGAAGAGTTTGATCAACCTTTTGC-TCGATTCTATCA-AGAAGGAGATGGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAAC
4515027 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
*
4515092 ATGAGAAGAACTTGGTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
* * *
4515150 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
* *
4515215 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATTGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
* ** *
4515273 ATCAACATTTCTAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAGAAGAACATGTTC
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-A-G-GAAGAACAAGTTC
4515337 A
63 A
4515338 ACCTTAATTT
Statistics
Matches: 390, Mismatches: 37, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
122 140 0.36
123 237 0.61
124 1 0.00
125 12 0.03
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (123 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
Found at i:4515217 original size:245 final size:246
Alignment explanation
Indices: 4514782--4515337 Score: 848
Period size: 245 Copynumber: 2.3 Consensus size: 246
4514772 CACTCGATGG
* * * *
4514782 ATCACCATTTCCAGAGAAAGTTCATAATAAAAAGAACTCATCTGAAGAGGAAGAATAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
* * *
4514847 ATAAGAAGAACTTATTCGACCTTTTGCATGAGTCTATCACAGAAGGAGATAGATCAACATCAACT
66 ATAAGAAGAACTTAGTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAACT
*
4514912 TTTTCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAA
131 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAA
** *
4514977 GAGTTTGATCAACCTTTTGC-TCGATTCTATCA-AGAAGGAGATGGATCAAC
196 GAACTTGATCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATGGATCAAC
4515027 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
* *
4515092 ATGAGAAGAACTTGGTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAACT
66 ATAAGAAGAACTTAGTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAACT
* * *
4515157 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
131 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAA
* * *
4515222 GAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATTGATCAGC
196 GAACTTGATCAACCTTTTGCATGACTCTATCACAGAAGGAGATGGATCAAC
* ** *
4515273 ATCAACATTTCTAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAGAAGAACATGTTC
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-A-G-GAAGAACAAGTTC
4515337 A
63 A
4515338 ACCTTAATTT
Statistics
Matches: 283, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
245 237 0.84
246 32 0.11
247 1 0.00
248 13 0.05
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (246 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
ATAAGAAGAACTTAGTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAACT
TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAA
GAACTTGATCAACCTTTTGCATGACTCTATCACAGAAGGAGATGGATCAAC
Found at i:4515231 original size:20 final size:20
Alignment explanation
Indices: 4515169--4515232 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
4515159 TCCAGAGAAA
4515169 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
4515189 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
4515208 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
4515228 GTTCA
1 GTTCA
4515233 ACCTTTTGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:4515712 original size:3 final size:3
Alignment explanation
Indices: 4515706--4515749 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
4515696 TTCATTTGGT
*
4515706 TTA TTA TTA TTA TTA TTA TGA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4515750 AATAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4515735 original size:20 final size:20
Alignment explanation
Indices: 4515710--4515749 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4515700 TTTGGTTTAT
4515710 TATTATTATTATTATGATTA
1 TATTATTATTATTATGATTA
*
4515730 TATTATTATTATTATTATTA
1 TATTATTATTATTATGATTA
4515750 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTATGATTA
Found at i:4516776 original size:15 final size:15
Alignment explanation
Indices: 4516727--4516777 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
4516717 ACTGAAATCA
*
4516727 AATTTAGATCTTTAT
1 AATTTAGGTCTTTAT
4516742 AATTT-GGTCTTT-T
1 AATTTAGGTCTTTAT
**
4516755 AATTTTATTTCTTTAT
1 AA-TTTAGGTCTTTAT
4516771 AATTTAG
1 AATTTAG
4516778 TCACTAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 3 0.10
14 9 0.31
15 14 0.48
16 3 0.10
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (15 bp):
AATTTAGGTCTTTAT
Found at i:4517191 original size:13 final size:13
Alignment explanation
Indices: 4517173--4517199 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4517163 ATAAATAATA
4517173 TTTATTTATTTAT
1 TTTATTTATTTAT
4517186 TTTATTTATTTAT
1 TTTATTTATTTAT
4517199 T
1 T
4517200 AAATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:4518763 original size:30 final size:29
Alignment explanation
Indices: 4518727--4518789 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
4518717 CATATAGATT
* * *
4518727 AATATTATTTATATTATATATAAATATATA
1 AATATTATTTAAAATATAAATAAAT-TATA
*
4518757 AATATTATTTAAAATATAAATATATTATA
1 AATATTATTTAAAATATAAATAAATTATA
4518786 AATA
1 AATA
4518790 ACATTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AATATTATTTAAAATATAAATAAATTATA
Found at i:4518775 original size:18 final size:21
Alignment explanation
Indices: 4518737--4518789 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 21
4518727 AATATTATTT
4518737 ATATTATATATAAATATATAA
1 ATATTATATATAAATATATAA
4518758 ATATTAT-T-TAAA-ATATAA
1 ATATTATATATAAATATATAA
4518776 ATA-TAT-TATAAATA
1 ATATTATATATAAATA
4518790 ACATTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.13
18 13 0.43
19 5 0.17
20 1 0.03
21 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATTATATATAAATATATAA
Found at i:4521217 original size:23 final size:23
Alignment explanation
Indices: 4521191--4521264 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
4521181 AAGTGCCGCA
4521191 TAGATATGTCCCGAAGGACCGTG
1 TAGATATGTCCCGAAGGACCGTG
* *
4521214 TAGAATTTGTCCCGAAGGACCATG
1 TAG-ATATGTCCCGAAGGACCGTG
* *
4521238 TAGA-ATTGTCTCGAAGGACCGCG
1 TAGATA-TGTCCCGAAGGACCGTG
4521261 TAGA
1 TAGA
4521265 ACCCTCGACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
23 22 0.51
24 21 0.49
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (23 bp):
TAGATATGTCCCGAAGGACCGTG
Found at i:4521265 original size:23 final size:24
Alignment explanation
Indices: 4521197--4521265 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
4521187 CGCATAGATA
4521197 TGTCCCGAAGGACCGTGTAGAATT
1 TGTCCCGAAGGACCGTGTAGAATT
*
4521221 TGTCCCGAAGGACCATGTAGAA-T
1 TGTCCCGAAGGACCGTGTAGAATT
* *
4521244 TGTCTCGAAGGACCGCGTAGAA
1 TGTCCCGAAGGACCGTGTAGAA
4521266 CCCTCGACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 20 0.49
24 21 0.51
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (24 bp):
TGTCCCGAAGGACCGTGTAGAATT
Found at i:4521411 original size:30 final size:30
Alignment explanation
Indices: 4521370--4521446 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
4521360 GTCTTTTATC
* * * * *
4521370 CACATAAAACACTTTCGCATAGAGCATTTT
1 CACATAGAACACATTCACATAAAGCACTTT
*
4521400 CACGTAGAACACATTCACATAAAGCACTTT
1 CACATAGAACACATTCACATAAAGCACTTT
*
4521430 CACATATAACACATTCA
1 CACATAGAACACATTCA
4521447 TATGTTAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (30 bp):
CACATAGAACACATTCACATAAAGCACTTT
Found at i:4521416 original size:15 final size:14
Alignment explanation
Indices: 4521407--4521446 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
4521397 TTTCACGTAG
4521407 AACACATTCACATA
1 AACACATTCACATA
*
4521421 AAGCACTTTCACATA
1 AA-CACATTCACATA
4521436 TAACACATTCA
1 -AACACATTCA
4521447 TATGTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.45, C:0.28, G:0.03, T:0.25
Consensus pattern (14 bp):
AACACATTCACATA
Found at i:4523643 original size:17 final size:17
Alignment explanation
Indices: 4523621--4523661 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
4523611 TCTGAACCGG
*
4523621 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
4523638 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
4523655 GTTGACC
1 GTTGACC
4523662 GTTGACCGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:4523663 original size:7 final size:7
Alignment explanation
Indices: 4523651--4523687 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
4523641 GACCCGACCC
4523651 GACCGTT
1 GACCGTT
4523658 GACCGTT
1 GACCGTT
4523665 GACCG-T
1 GACCGTT
4523671 GACCGTT
1 GACCGTT
4523678 GACCGTT
1 GACCGTT
4523685 GAC
1 GAC
4523688 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:4523675 original size:13 final size:13
Alignment explanation
Indices: 4523651--4523683 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4523641 GACCCGACCC
4523651 GACCGTTGACCGTT
1 GACCG-TGACCGTT
4523665 GACCGTGACCGTT
1 GACCGTGACCGTT
4523678 GACCGT
1 GACCGT
4523684 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:4530859 original size:10 final size:10
Alignment explanation
Indices: 4530830--4530898 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
4530820 GCTGCTGGAA
4530830 AACCGGTTTG
1 AACCGGTTTG
*
4530840 -ACCAGTTTTG
1 AACC-GGTTTG
4530850 AACCGGTTTG
1 AACCGGTTTG
*
4530860 -ACCGGTTCG
1 AACCGGTTTG
4530869 AACCGGTTTG
1 AACCGGTTTG
*
4530879 -ACCGGTCTG
1 AACCGGTTTG
*
4530888 AACCGGGTTG
1 AACCGGTTTG
4530898 A
1 A
4530899 CCCGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:4530873 original size:19 final size:19
Alignment explanation
Indices: 4530830--4530900 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
4530820 GCTGCTGGAA
* *
4530830 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
4530850 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
4530869 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
*
4530888 AACCGGGTTGACC
1 AACCGGTTTGACC
4530901 CGACCCGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.04
19 32 0.68
20 13 0.28
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:4530919 original size:7 final size:7
Alignment explanation
Indices: 4530907--4530956 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
4530897 GACCCGACCC
4530907 GACCGTT
1 GACCGTT
4530914 GACCGTT
1 GACCGTT
4530921 GACCG-T
1 GACCGTT
4530927 GACCGTT
1 GACCGTT
4530934 GACCGTT
1 GACCGTT
4530941 -ACCGTT
1 GACCGTT
4530947 GACCGTT
1 GACCGTT
4530954 GAC
1 GAC
4530957 TTTCTTTGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.29
7 29 0.71
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:4530932 original size:20 final size:20
Alignment explanation
Indices: 4530907--4530956 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4530897 GACCCGACCC
4530907 GACCGTTGACCGTTGACCG-T
1 GACCGTTGACCGTT-ACCGTT
4530927 GACCGTTGACCGTTACCGTT
1 GACCGTTGACCGTTACCGTT
4530947 GACCGTTGAC
1 GACCGTTGAC
4530957 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (20 bp):
GACCGTTGACCGTTACCGTT
Found at i:4530953 original size:13 final size:13
Alignment explanation
Indices: 4530907--4530953 Score: 76
Period size: 13 Copynumber: 3.5 Consensus size: 13
4530897 GACCCGACCC
4530907 GACCGTTGACCGTT
1 GACCGTT-ACCGTT
*
4530921 GACCGTGACCGTT
1 GACCGTTACCGTT
4530934 GACCGTTACCGTT
1 GACCGTTACCGTT
4530947 GACCGTT
1 GACCGTT
4530954 GACTTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 25 0.81
14 6 0.19
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.28
Consensus pattern (13 bp):
GACCGTTACCGTT
Found at i:4541356 original size:24 final size:24
Alignment explanation
Indices: 4541312--4541380 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
4541302 TAATAAAATT
* **
4541312 TGCACCGAAGTGCCATGTAGAATA
1 TGCACCGAAGTACCACATAGAATA
4541336 TGCACCGAAGTACCACATAG-ATA
1 TGCACCGAAGTACCACATAGAATA
*
4541359 TGTC-CCGAAGGACCACATAGAA
1 TG-CACCGAAGTACCACATAGAA
4541381 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (24 bp):
TGCACCGAAGTACCACATAGAATA
Found at i:4543055 original size:112 final size:110
Alignment explanation
Indices: 4542892--4543123 Score: 365
Period size: 112 Copynumber: 2.1 Consensus size: 110
4542882 GTTGTAGGTG
* * *
4542892 CATTTCGACATACTTTGTGTCTGATAGTATTGATCGATTTTGTTAATGCATAACGGTGCATTTTC
1 CATTTCGACATACTTCGTGTATGAAAGTATTGATCGATTTTGTTAATGCATAACGGTGCATTTTC
*
4542957 GGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
66 GGCATAAAAGGTACCACCCATGGTATTCATAATGAGGTGAATTAC
* * *
4543002 CATTTTGACATACTTCGTGTATGAAAGTTATTTATCGATTTTGCTTAATGCATAAGGGTGCATTT
1 CATTTCGACATACTTCGTGTATGAAAG-TATTGATCGATTTTG-TTAATGCATAACGGTGCATTT
* *
4543067 TCGGCATAAAATGTACCACCTATGGTATTCATAATGAGGTGAATTAC
64 TCGGCATAAAAGGTACCACCCATGGTATTCATAATGAGGTGAATTAC
4543114 CATTTCGACA
1 CATTTCGACA
4543124 CTTCGGTGCA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 23 0.21
111 14 0.13
112 73 0.66
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (110 bp):
CATTTCGACATACTTCGTGTATGAAAGTATTGATCGATTTTGTTAATGCATAACGGTGCATTTTC
GGCATAAAAGGTACCACCCATGGTATTCATAATGAGGTGAATTAC
Found at i:4543198 original size:21 final size:19
Alignment explanation
Indices: 4543166--4543207 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
4543156 GTTGACATAC
4543166 ATTGGGAAAAATAAAAGATA
1 ATTGGGAAAAAT-AAAGATA
*
4543186 ATTGGGAAAAAATACAGATA
1 ATTGGG-AAAAATAAAGATA
4543206 AT
1 AT
4543208 AGGTATGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.19, T:0.21
Consensus pattern (19 bp):
ATTGGGAAAAATAAAGATA
Found at i:4550006 original size:111 final size:112
Alignment explanation
Indices: 4549874--4550082 Score: 312
Period size: 112 Copynumber: 1.9 Consensus size: 112
4549864 GTTATAGATG
* * * * * *
4549874 CATTTCGACATACTTTGTGTATGATA-GTATCGATCGATTTTGTTTAATGCATAACGGTGCATTT
1 CATTTCCACACACTTCGTGTATGAAACGTATCGATCGATTTTGCTTAATGCATAACAGTGCATTT
* * *
4549938 TTGGCATAAAAAGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
66 TCGGCATAAAAAGTACCACCCATGATATTCATAATGAGGTGAATTAC
*
4549985 CATTTCCACACACTTCGTGTATGAAACTTATCGATCGATTTTGCTTAATGCATAACAGTGCATTT
1 CATTTCCACACACTTCGTGTATGAAACGTATCGATCGATTTTGCTTAATGCATAACAGTGCATTT
*
4550050 TCGGCATAAAAGGTACCACCCATGATATTCATA
66 TCGGCATAAAAAGTACCACCCATGATATTCATA
4550083 TCATTTCGGC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
111 22 0.26
112 64 0.74
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (112 bp):
CATTTCCACACACTTCGTGTATGAAACGTATCGATCGATTTTGCTTAATGCATAACAGTGCATTT
TCGGCATAAAAAGTACCACCCATGATATTCATAATGAGGTGAATTAC
Found at i:4550789 original size:15 final size:15
Alignment explanation
Indices: 4550722--4550795 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 15
4550712 GTCTTTTAGC
4550722 CACATAAAACACTTT
1 CACATAAAACACTTT
* *** *
4550737 CGCATAGGGCATTTT
1 CACATAAAACACTTT
*
4550752 CACAT-AAACACATT
1 CACATAAAACACTTT
4550766 --CATAAAACACTTT
1 CACATAAAACACTTT
* *
4550779 CACATAGAACACATT
1 CACATAAAACACTTT
4550794 CA
1 CA
4550796 TATGTTAATA
Statistics
Matches: 42, Mismatches: 14, Indels: 6
0.68 0.23 0.10
Matches are distributed among these distances:
12 3 0.07
13 8 0.19
14 4 0.10
15 27 0.64
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.26
Consensus pattern (15 bp):
CACATAAAACACTTT
Found at i:4554089 original size:18 final size:18
Alignment explanation
Indices: 4554066--4554121 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
4554056 TTCTCAAAAC
4554066 TATAATTTTAAAATATTT
1 TATAATTTTAAAATATTT
**
4554084 TATAATTTTAAAATAAAT
1 TATAATTTTAAAATATTT
*
4554102 TATAAATTTTAATATATTT
1 TAT-AATTTTAAAATATTT
4554121 T
1 T
4554122 TAAAAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 19 0.59
19 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATTTTAAAATATTT
Found at i:4557723 original size:47 final size:47
Alignment explanation
Indices: 4557654--4557795 Score: 266
Period size: 47 Copynumber: 3.0 Consensus size: 47
4557644 ATGCTGAAGG
4557654 AAGGCCTTCTTTATCTTGCTCTATTGCACAGATTCTTAGGAACTAAC
1 AAGGCCTTCTTTATCTTGCTCTATTGCACAGATTCTTAGGAACTAAC
4557701 AAGGCCTTCTTTATCTTGCTCTATTGCACAGATTCTTAGGAACTAAC
1 AAGGCCTTCTTTATCTTGCTCTATTGCACAGATTCTTAGGAACTAAC
* *
4557748 AAGGCCTTCTATATCTTGCTCTATTGCACAGATTCTCAGGAACTAAC
1 AAGGCCTTCTTTATCTTGCTCTATTGCACAGATTCTTAGGAACTAAC
4557795 A
1 A
4557796 GAACCAATAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (47 bp):
AAGGCCTTCTTTATCTTGCTCTATTGCACAGATTCTTAGGAACTAAC
Found at i:4561303 original size:24 final size:23
Alignment explanation
Indices: 4561276--4561327 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
4561266 AATAATAATA
*
4561276 ATTTATAATTTATA-TAATATAAAT
1 ATTTA-AATTTAAACTAA-ATAAAT
4561300 ATTTAAATTTAAACTTAAATAAAT
1 ATTTAAATTTAAAC-TAAATAAAT
4561324 ATTT
1 ATTT
4561328 TATTAGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 7 0.28
24 15 0.60
25 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTAAATTTAAACTAAATAAAT
Found at i:4570510 original size:22 final size:22
Alignment explanation
Indices: 4570466--4570511 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4570456 GGTACCCCTT
* * *
4570466 CTATGGTATCGATACTTCTATA
1 CTATGGTACCGATACTCCGATA
4570488 CTATGGTACCGATACTCCGATA
1 CTATGGTACCGATACTCCGATA
4570510 CT
1 CT
4570512 CCTTTCAGTA
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:0.24, G:0.15, T:0.35
Consensus pattern (22 bp):
CTATGGTACCGATACTCCGATA
Found at i:4571651 original size:20 final size:21
Alignment explanation
Indices: 4571628--4571666 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4571618 GGCATTTTGA
4571628 TTTA-AGAGTATCGATACTGG
1 TTTATAGAGTATCGATACTGG
4571648 TTTATAGAGTATCGATACT
1 TTTATAGAGTATCGATACT
4571667 CAAGGAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTATAGAGTATCGATACTGG
Found at i:4587825 original size:20 final size:21
Alignment explanation
Indices: 4587779--4587839 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
4587769 TTCCCCTGTG
4587779 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
4587802 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
4587822 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
4587840 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:4599973 original size:11 final size:11
Alignment explanation
Indices: 4599957--4599981 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4599947 TAAGTGATTA
4599957 ATGATATTTTC
1 ATGATATTTTC
4599968 ATGATATTTTC
1 ATGATATTTTC
4599979 ATG
1 ATG
4599982 TTGTGTGGAA
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:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (11 bp):
ATGATATTTTC
Found at i:4601242 original size:26 final size:26
Alignment explanation
Indices: 4601206--4601256 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
4601196 CTAGAAACCG
4601206 CTGCTGGTGACTGGATCTTCTAGAAA
1 CTGCTGGTGACTGGATCTTCTAGAAA
*
4601232 CTGCTGGTGACTGGATCTTGTAGAA
1 CTGCTGGTGACTGGATCTTCTAGAA
4601257 GCTATCACGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (26 bp):
CTGCTGGTGACTGGATCTTCTAGAAA
Found at i:4607893 original size:12 final size:12
Alignment explanation
Indices: 4607868--4607903 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
4607858 TTTCTTCGGA
4607868 GAAGAGAGAAAAC
1 GAAGAGA-AAAAC
4607881 GAAGAGAAAAAC
1 GAAGAGAAAAAC
4607893 GAAGA-AAAAAC
1 GAAGAGAAAAAC
4607904 TAACCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.67, C:0.08, G:0.25, T:0.00
Consensus pattern (12 bp):
GAAGAGAAAAAC
Found at i:4608698 original size:2 final size:2
Alignment explanation
Indices: 4608691--4608718 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4608681 ATTAAATGCT
4608691 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
4608719 CATTCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4609579 original size:2 final size:2
Alignment explanation
Indices: 4609572--4609636 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
4609562 TGATATTTCT
4609572 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
4609614 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
4609637 GTATGTTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4610196 original size:64 final size:63
Alignment explanation
Indices: 4610114--4610235 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 63
4610104 TTTTTATATT
*
4610114 TTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTTATTAGGATTTAGAATA
1 TTATATTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTATTTTAATTAGGATTTAGAATA
* *
4610177 TTATATTATTTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATT-TGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTA
4610236 AGATGTTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 12 0.22
64 42 0.78
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.57
Consensus pattern (63 bp):
TTATATTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAGAATA
Found at i:4610904 original size:19 final size:18
Alignment explanation
Indices: 4610855--4610919 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
4610845 TAAAATCCCC
4610855 TTTTATATTTATTACTATTA
1 TTTT-TATTTATTA-TATTA
*
4610875 CTATTTA-TTATTATATTA
1 -TTTTTATTTATTATATTA
4610893 TTTTTCATTTATT-TATT-
1 TTTTT-ATTTATTATATTA
4610910 TATTTTATTT
1 T-TTTTATTT
4610920 TAATATATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 9 0.23
18 14 0.36
19 11 0.28
20 2 0.05
21 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTATTTATTATATTA
Found at i:4613721 original size:5 final size:5
Alignment explanation
Indices: 4613708--4613801 Score: 77
Period size: 5 Copynumber: 19.0 Consensus size: 5
4613698 GAGGTAACCC
* * * *
4613708 ATTTC ATTTT A-TTT ATTTT ATTTT ATTTT ATTTC ATTTC A-TTT ATTTC
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
* * * *
4613756 ATTTC A-TTT ATTTT ATTTT ATTAGAT AATTA ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATT--TT ATTTT ATTTT ATTTT ATTTT
4613802 TCTCTGAACA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
4 10 0.14
5 60 0.82
7 3 0.04
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (5 bp):
ATTTT
Found at i:4613730 original size:14 final size:14
Alignment explanation
Indices: 4613708--4613777 Score: 95
Period size: 14 Copynumber: 4.9 Consensus size: 14
4613698 GAGGTAACCC
4613708 ATTTCATTTTATTT
1 ATTTCATTTTATTT
*
4613722 ATTTTATTTTATTTT
1 ATTTCATTTTA-TTT
*
4613737 ATTTCATTTCATTT
1 ATTTCATTTTATTT
*
4613751 ATTTCATTTCATTT
1 ATTTCATTTTATTT
*
4613765 ATTTTATTTTATT
1 ATTTCATTTTATT
4613778 AGATAATTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
14 38 0.76
15 12 0.24
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTCATTTTATTT
Found at i:4613735 original size:19 final size:20
Alignment explanation
Indices: 4613708--4613800 Score: 93
Period size: 19 Copynumber: 4.7 Consensus size: 20
4613698 GAGGTAACCC
*
4613708 ATTTCATTTTATTT-ATTTT
1 ATTTTATTTTATTTCATTTT
*
4613727 ATTTTATTTTATTTCATTTC
1 ATTTTATTTTATTTCATTTT
*
4613747 A-TTTATTTCATTTCA-TTT
1 ATTTTATTTTATTTCATTTT
** *
4613765 ATTTTATTTTATTAGATAATTA
1 ATTTTATTTTATTTCAT--TTT
4613787 ATTTTATTTTATTT
1 ATTTTATTTTATTT
4613801 TTCTCTGAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.05
19 37 0.62
20 5 0.08
22 15 0.25
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (20 bp):
ATTTTATTTTATTTCATTTT
Found at i:4615422 original size:32 final size:32
Alignment explanation
Indices: 4615379--4615442 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
4615369 ATTAAATAGG
4615379 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTTT
1 TTTTAGTATTTTATATTAA-TTTTAGG-TATTTT
*
4615412 TTTTA-TATTTTATATTTATTTTAGGTATTTT
1 TTTTAGTATTTTATATTAATTTTAGGTATTTT
4615443 AGTTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.21
32 14 0.48
33 9 0.31
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAATTTTAGGTATTTT
Found at i:4616173 original size:18 final size:19
Alignment explanation
Indices: 4616134--4616177 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
4616124 CTTTAATTTG
* *
4616134 TTTATTTAATTATTTTTCT
1 TTTATTTAATTACTTGTCT
4616153 TTTATTTAATT-CTTGTCT
1 TTTATTTAATTACTTGTCT
4616171 TTTATTT
1 TTTATTT
4616178 TAAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTAATTACTTGTCT
Found at i:4618807 original size:414 final size:414
Alignment explanation
Indices: 4618037--4618867 Score: 1527
Period size: 414 Copynumber: 2.0 Consensus size: 414
4618027 ATCACTAAAT
* *
4618037 ACAAGAGGAGGTTCAACATCATGATTAGTCCAATATTCTTTTAAGGCTGTGATAAATGAAATGAG
1 ACAAGAGGAGGTTCAACATCATGATTAGTCCAACATTCTTTTAAGGCTGTGAGAAATGAAATGAG
*
4618102 TTTTAATCTTGAAGTTATTTGAATATCAAGTAAATTAAAAGCTCTTTTGAGGATCAAGGTTGTAA
66 TTTTAATCTTGAAGTTATTTGAATATCAAGTAAATTAAAAGCTCTTTTGAGGATCAAGGTTATAA
4618167 AAATTTTACATGTGACATGATTAGACCATTCTTATCTTAGCCAAAATATAATCAATCGATTATTT
131 AAATTTTACATGTGACATGATTAGACCATTCTTATCTTAGCCAAAATATAATCAATCGATTATTT
* * *
4618232 ACCTATCATCATTCATGGTGAATACTAAATAAAAAATCAAATCTTGATTTTACTTATCTTTGAGG
196 ACCTATAATCATTCATAGTGAATACTAAATAAAAAATCAAATATTGATTTTACTTATCTTTGAGG
* *
4618297 AAATAAAATTACACCTTCTTCTTTTAGACATAAACTCAATATTCCTCACACAATAAAACCCAAAG
261 AAATAAAATGACACATTCTTCTTTTAGACATAAACTCAATATTCCTCACACAATAAAACCCAAAG
* *
4618362 GCGACAAGTACAAAATGTCCTGATTATTTTGGCTTCTAAAATTGGGGCATCTTGAATCAAGTTTA
326 GAGACAAGTACAAAATGTCCTGATTATTTTGGCTTCTAAAATTGGGGCATCCTGAATCAAGTTTA
*
4618427 TGAAGATAAGCTTGAATAATTAGG
391 TGAAAATAAGCTTGAATAATTAGG
*
4618451 ACAAGAGGTGGTTCAACATCATGATTAGTCCAACATTCTTTTAAGGCTGTGAGAAATGAAATGAG
1 ACAAGAGGAGGTTCAACATCATGATTAGTCCAACATTCTTTTAAGGCTGTGAGAAATGAAATGAG
*
4618516 TTTTAATCTTGAAGTTATTTGAATATCAAGTGAATTAAAAGCTCTTTTGAGGATCAAGGTTATAA
66 TTTTAATCTTGAAGTTATTTGAATATCAAGTAAATTAAAAGCTCTTTTGAGGATCAAGGTTATAA
*
4618581 AAATTTTACATGTGACATGATTAGACCATTCTTATCTTAGCCAAAATATAATCAATCGATTCTTT
131 AAATTTTACATGTGACATGATTAGACCATTCTTATCTTAGCCAAAATATAATCAATCGATTATTT
*
4618646 ACCTATAATCATTCATAGTGAATACTAAATAAAAAATCAAATATTGATTTTACTTCTCTTTGAGG
196 ACCTATAATCATTCATAGTGAATACTAAATAAAAAATCAAATATTGATTTTACTTATCTTTGAGG
4618711 AAATAAAATGACACATTCTTCTTTTAGACATAAACTCAATATTCCTCACACAATAAAACCCAAAG
261 AAATAAAATGACACATTCTTCTTTTAGACATAAACTCAATATTCCTCACACAATAAAACCCAAAG
4618776 GAGACAAGTACAAAATGTCCTGATTATTTTGGCTTCTAAAATTGGGGCATCCTGAATCAAGTTTA
326 GAGACAAGTACAAAATGTCCTGATTATTTTGGCTTCTAAAATTGGGGCATCCTGAATCAAGTTTA
4618841 TGAAAATAAGCTTGAATAATTAGG
391 TGAAAATAAGCTTGAATAATTAGG
4618865 ACA
1 ACA
4618868 TGTTAGAAGC
Statistics
Matches: 402, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
414 402 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (414 bp):
ACAAGAGGAGGTTCAACATCATGATTAGTCCAACATTCTTTTAAGGCTGTGAGAAATGAAATGAG
TTTTAATCTTGAAGTTATTTGAATATCAAGTAAATTAAAAGCTCTTTTGAGGATCAAGGTTATAA
AAATTTTACATGTGACATGATTAGACCATTCTTATCTTAGCCAAAATATAATCAATCGATTATTT
ACCTATAATCATTCATAGTGAATACTAAATAAAAAATCAAATATTGATTTTACTTATCTTTGAGG
AAATAAAATGACACATTCTTCTTTTAGACATAAACTCAATATTCCTCACACAATAAAACCCAAAG
GAGACAAGTACAAAATGTCCTGATTATTTTGGCTTCTAAAATTGGGGCATCCTGAATCAAGTTTA
TGAAAATAAGCTTGAATAATTAGG
Found at i:4620653 original size:54 final size:54
Alignment explanation
Indices: 4620610--4621287 Score: 814
Period size: 54 Copynumber: 12.6 Consensus size: 54
4620600 TAAACTCATT
* ** * *
4620610 ATGAATTCTATGGGTTGCACACATAGTGCCAAAACGGTTATTCATCAACATATG
1 ATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* *
4620664 ATGAATTCCT-TGAATTGCACACTTAGTGTCGAAATGGTTATTCATCAACATATG
1 ATGAATT-CTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
** * *
4620718 ATGAATT-TCGTGCTTTGCACTCTTAGTGCCGAAATGGTTATTCATCAACATATG
1 ATGAATTCT-GTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
** * * *
4620772 ATGAATTCCAT-ACTTTGCACACTTAGTGCCGAAACGGTTATTCTTTAACATATG
1 ATGAATTCTGTGA-ATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
*** * *
4620826 ATGAATTCTGTTCTTTGCATACTTAGTGCAGAAACGGTTATTCATCAACATATG
1 ATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
*
4620880 ATGAATTCTGTGAATTGCACACTTAGTGCCGAAACTGTTATTCATCAACATATG
1 ATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * * * *
4620934 ATGAATTCTGTGAATTGCATACTTAGTGACGAAACGATTATTCGTCAATATATG
1 ATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * *
4620988 ATGAATTCCT-TGAATTGAACACTTAGTGCTGAAACGATTATTCATCAACATATG
1 ATGAATT-CTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
*
4621042 ATGAATT-TCGTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACATATG
1 ATGAATTCT-GTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * *
4621096 ATGAATT-TCGTGAATTGTACACTTAGTGCCGAAACAGTTATTCATCAACATATC
1 ATGAATTCT-GTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* ** * * *
4621150 CTGAATTCCATGAATTGCACACTTAGTGCCAAAACGGTTATTCAACAACATATT
1 ATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* * * *
4621204 ATGAATTATGT-ACTTTGCACACTTAGTGCTGAAACGGTTATTCATCAACATATA
1 ATGAATTCTGTGA-ATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
* *
4621258 ATGAATTCCGT-ACTCTGCACACTTAGTGCC
1 ATGAATTCTGTGAAT-TGCACACTTAGTGCC
4621288 TATTTGGTAA
Statistics
Matches: 541, Mismatches: 71, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.00
53 2 0.00
54 533 0.99
55 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (54 bp):
ATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATG
Found at i:4621670 original size:22 final size:22
Alignment explanation
Indices: 4621629--4621682 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
4621619 TACCCCCACC
4621629 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
4621651 ATGGTA-CTGATACT-CT-TA-T
1 ATGGTATC-GATACTACTATACT
*
4621670 ACGGTATCGATAC
1 ATGGTATCGATAC
4621683 CATTTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 11 0.38
20 3 0.10
21 3 0.10
22 12 0.41
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (22 bp):
ATGGTATCGATACTACTATACT
Found at i:4621681 original size:19 final size:22
Alignment explanation
Indices: 4621631--4621682 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
4621621 CCCCCACCAT
*
4621631 GGTATCGATACTACTATACTAT
1 GGTATCGATACTACTATACTAC
4621653 GGTA-CTGATACT-CT-TA-TAC
1 GGTATC-GATACTACTATACTAC
4621672 GGTATCGATAC
1 GGTATCGATAC
4621683 CATTTTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 3 0.11
22 10 0.37
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (22 bp):
GGTATCGATACTACTATACTAC
Found at i:4625174 original size:20 final size:20
Alignment explanation
Indices: 4625146--4625196 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4625136 CATTTGAAAA
4625146 CACATGACTTTAA-ATAAATC
1 CACATGACTTTAAGA-AAATC
* *
4625166 CATATGACTTTAAGAAAATT
1 CACATGACTTTAAGAAAATC
4625186 CACATGACTTT
1 CACATGACTTT
4625197 CAATGGACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (20 bp):
CACATGACTTTAAGAAAATC
Found at i:4626630 original size:13 final size:13
Alignment explanation
Indices: 4626613--4626660 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
4626603 AAGTTTTTCA
4626613 TATTATTAATTAA-
1 TATTATT-ATTAAT
4626626 TATTATTATTAAT
1 TATTATTATTAAT
*
4626639 TATAATTATTAAT
1 TATTATTATTAAT
4626652 TATTATTAT
1 TATTATTAT
4626661 AGATAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 5 0.16
13 27 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATTATTAAT
Found at i:4626632 original size:3 final size:3
Alignment explanation
Indices: 4626613--4626660 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
4626603 AAGTTTTTCA
* *
4626613 TAT TAT TAAT TAA TAT TAT TAT TAAT TAT AAT TAT TAAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT T-AT TAT TAT TAT
4626661 AGATAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 29 0.76
4 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Done.