Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_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: 2464137
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:2149477 original size:30 final size:30
Alignment explanation
Indices: 2149441--2149512 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
2149431 ATTTTAGTCA
2149441 TTTGAGTTTTTGTTTATT-TTATCTAGGTCC
1 TTTGAGTTTTTGTTT-TTGTTATCTAGGTCC
* * **
2149471 TTTGAGTTTCTGTTTTTGTTATTTTTGTCC
1 TTTGAGTTTTTGTTTTTGTTATCTAGGTCC
*
2149501 TTTAAGTTTTTG
1 TTTGAGTTTTTG
2149513 AAATTATTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.11, C:0.08, G:0.17, T:0.64
Consensus pattern (30 bp):
TTTGAGTTTTTGTTTTTGTTATCTAGGTCC
Found at i:2149623 original size:28 final size:28
Alignment explanation
Indices: 2149553--2149627 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
2149543 TTTTTGCCAT
*
2149553 TTTAGTCTTTTAAATTTCATCTTGTGATA
1 TTTAGTCTTTTAAATTT-ATATTGTGATA
* * *
2149582 TTTGGTC-TTCAAATTTATATT-TTACTA
1 TTTAGTCTTTTAAATTTATATTGTGA-TA
2149609 TTTAGTCTTTTAAATTTAT
1 TTTAGTCTTTTAAATTTAT
2149628 GTTTGTGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.05
27 12 0.32
28 18 0.47
29 6 0.16
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.57
Consensus pattern (28 bp):
TTTAGTCTTTTAAATTTATATTGTGATA
Found at i:2160313 original size:42 final size:41
Alignment explanation
Indices: 2160266--2160362 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 41
2160256 ATAATTTAAG
* *
2160266 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATGAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATGAT-AAA
* * *
2160308 TCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAAG
1 TCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATGATAAA
*
2160349 TCATTCGGGCCATC
1 TCCTTCGGGCCATC
2160363 CATAAAGCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 14 0.29
42 34 0.71
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATGATAAA
Found at i:2160544 original size:42 final size:42
Alignment explanation
Indices: 2160482--2160574 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
2160472 ACTTAGTAAG
* *
2160482 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
*
2160524 TCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
2160566 TCCTTCAGG
1 TCCTTCAGG
2160575 TAATTTGTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (42 bp):
TCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
Found at i:2160631 original size:13 final size:13
Alignment explanation
Indices: 2160613--2160637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2160603 TGAAGCAAAT
2160613 CCATCAGTAAGTG
1 CCATCAGTAAGTG
2160626 CCATCAGTAAGT
1 CCATCAGTAAGT
2160638 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:2160760 original size:80 final size:80
Alignment explanation
Indices: 2160627--2160908 Score: 442
Period size: 80 Copynumber: 3.5 Consensus size: 80
2160617 CAGTAAGTGC
2160627 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
2160692 GTAGTGAAGCAAATT
66 GTAGTGAAGCAAATT
* * * ** *
2160707 CATCAGTAAGTCTTTCGAGCATGGTAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACCGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
* **
2160772 GTAGTAAAGCAAACC
66 GTAGTGAAGCAAATT
2160787 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
2160852 GTAGTGAAGCAAATT
66 GTAGTGAAGCAAATT
*
2160867 CATCAGTAAGTCTTTCGAGCAGGATG-TTGAAA-CCTTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATT-AAATCC-TTCGGGT
2160909 CATCAGTAAG
Statistics
Matches: 181, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
79 4 0.02
80 177 0.98
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (80 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
GTAGTGAAGCAAATT
Found at i:2160913 original size:42 final size:41
Alignment explanation
Indices: 2160866--2160978 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 41
2160856 TGAAGCAAAT
2160866 TCATCAGTAAGTCTTTCGAGCAGGATGTTGAAA-CCTTTCGGG
1 TCATCAGTAAGTCTTTCGAGCAGGATGTT-AAATCC-TTCGGG
*
2160908 TCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
1 TCATCAGTAAGTCTTTCGAGCAGGATG-TTAAATCCTTCGGG
* * *
2160950 TCATCCA-TAAGTCCTTCGGGTAGGATGTT
1 TCAT-CAGTAAGTCTTTCGAGCAGGATGTT
2160979 TTCACACCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.03
42 55 0.87
43 6 0.10
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (41 bp):
TCATCAGTAAGTCTTTCGAGCAGGATGTTAAATCCTTCGGG
Found at i:2161473 original size:53 final size:53
Alignment explanation
Indices: 2161391--2161595 Score: 283
Period size: 53 Copynumber: 3.9 Consensus size: 53
2161381 ATCACACCAG
*
2161391 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAA
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAA
* * * * *
2161444 AAGATTGTTCGAGTTTTACTCCCTAAAGCAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAA
2161497 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTA-AGCAGA
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA-CA-A
* *
2161551 AA-ATTATTCAAATTCTACTCCCTGAA-CAAGAGGGAGC-AGACCCGT
1 AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGA-ACCCGT
2161596 CATTCGAAGA
Statistics
Matches: 138, Mismatches: 11, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
51 1 0.01
52 17 0.12
53 118 0.86
54 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAA
Found at i:2173887 original size:145 final size:146
Alignment explanation
Indices: 2173618--2174424 Score: 1054
Period size: 145 Copynumber: 5.5 Consensus size: 146
2173608 CGTTACGACA
* *
2173618 AGGTATATAATAAATTTTCTTTCATCCCATTAATATAATTTTTCTTTGATTAATCTGGGGTAAAT
1 AGGTATATAATAAATTTTCTTTCAACCCTTTAATATAA-TTTT-TTT-ATTAATCTGGGGTAAAT
* *
2173683 TAAGTAGCATTTACCTTTTACTAAAATTACTCAGGTGAAATTAAGTTTGACATTAATTATATTAA
63 TAAGTAGCATTTACCTTTTACTAAAATTACGCAGGAGAAATTAAGTTTGACATTAATTATATTAA
* *
2173748 CCGTCGATAGTGCTAGATT
128 CCGTTGATAGGGCTAGATT
* * * *
2173767 AGGTATATAATAAATTTACTTTCCACCCTTTAATAT-ATTTTTTTATTAATCTAGGGTAAATTAT
1 AGGTATATAATAAATTTTCTTTCAACCCTTTAATATAATTTTTTTATTAATCTGGGGTAAATTAA
* * *
2173831 GTAGCATTTACCTTTTACTAAAATTACGCATGAGAAATTAAGTTTGACATTTATTATATTAATCG
66 GTAGCATTTACCTTTTACTAAAATTACGCAGGAGAAATTAAGTTTGACATTAATTATATTAACCG
2173896 TTGATAGGGCTAG-TT
131 TTGATAGGGCTAGATT
* * ** *
2173911 GGGTATATAATAAATTTTCTTTCTACCCCATAATATAATTTTTTTATTAATCTGGGGTAAACTAA
1 AGGTATATAATAAATTTTCTTTCAACCCTTTAATATAATTTTTTTATTAATCTGGGGTAAATTAA
* * * * *
2173976 TTAGCATTTTCCCTTTACTAAAATTACGTAGGAGAAATTAAGTTTGTCATTAATTATATTAACCG
66 GTAGCATTTACCTTTTACTAAAATTACGCAGGAGAAATTAAGTTTGACATTAATTATATTAACCG
*
2174041 TTGATAGGACTAGA-T
131 TTGATAGGGCTAGATT
* *
2174056 CGAGTATATAATAAATTTTCTTTCAACCCCTTAATATATATATTTTTTGATTAATCTGGGGTAAA
1 AG-GTATATAATAAATTTTCTTTCAACCCTTTAATATA-AT-TTTTTT-ATTAATCTGGGGTAAA
* * * * *
2174121 TTAAGCATCATTTACCTTTTACTAAAATTACGTAGGAGAAATTAAGTTTTACATTTATTATATTA
62 TTAAGTAGCATTTACCTTTTACTAAAATTACGCAGGAGAAATTAAGTTTGACATTAATTATATTA
*
2174186 ATCGTTGATAGGGCTAGATT
127 ACCGTTGATAGGGCTAGATT
* * *
2174206 GGGTATATAAT--A-TTTCTTTCAACCCCTTAATATAATTTTTTGATTAATCTGGGGTAAATTAA
1 AGGTATATAATAAATTTTCTTTCAACCCTTTAATATAATTTTTTTATTAATCTGGGGTAAATTAA
* * * * * *
2174268 GTTGCATTTACCATTTACTAAAATTACGCAGGAGAAACTAAGTTTGACATTCATTATCTTAACAG
66 GTAGCATTTACCTTTTACTAAAATTACGCAGGAGAAATTAAGTTTGACATTAATTATATTAACCG
*
2174333 TTCATAGGGCTAGATT
131 TTGATAGGGCTAGATT
* *
2174349 -GGATATATAATAAATTTTCTTTCGACCCTTTAATAT-ATTTTTTTGATTAATCTGGTGTAAATA
1 AGG-TATATAATAAATTTTCTTTCAACCCTTTAATATAATTTTTTT-ATTAATCTGGGGTAAAT-
*
2174412 TAATGTAGTATTT
63 TAA-GTAGCATTT
2174425 GTTCAAAGAT
Statistics
Matches: 580, Mismatches: 64, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
142 2 0.00
143 97 0.17
144 38 0.07
145 195 0.34
146 93 0.16
147 10 0.02
148 14 0.02
149 129 0.22
150 2 0.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (146 bp):
AGGTATATAATAAATTTTCTTTCAACCCTTTAATATAATTTTTTTATTAATCTGGGGTAAATTAA
GTAGCATTTACCTTTTACTAAAATTACGCAGGAGAAATTAAGTTTGACATTAATTATATTAACCG
TTGATAGGGCTAGATT
Found at i:2178863 original size:24 final size:25
Alignment explanation
Indices: 2178819--2178866 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
2178809 TATTATAGTT
*
2178819 TATTTTTAAGTTAATAAAATTATAC
1 TATTTTTAAGTTAAAAAAATTATAC
2178844 TATTTTT-A-TTAAAAATAATTATA
1 TATTTTTAAGTTAAAAA-AATTATA
2178867 TTTAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TATTTTTAAGTTAAAAAAATTATAC
Found at i:2181627 original size:21 final size:21
Alignment explanation
Indices: 2181603--2181681 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
2181593 AACGCGAATT
*
2181603 TTCGCATTGCGAATTGGGAAA
1 TTCGCAATGCGAATTGGGAAA
** *
2181624 TTCGCAATGCGAATAAGTAAA
1 TTCGCAATGCGAATTGGGAAA
*
2181645 -TCGCAACGCGAATTGGGAAA
1 TTCGCAATGCGAATTGGGAAA
*
2181665 ATCGCAATGCGATATTG
1 TTCGCAATGCGA-ATTG
2181682 ACTATCGCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.34
21 27 0.57
22 4 0.09
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (21 bp):
TTCGCAATGCGAATTGGGAAA
Found at i:2181707 original size:41 final size:41
Alignment explanation
Indices: 2181662--2181739 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
2181652 GCGAATTGGG
* * *
2181662 AAAATCGCAATGCGATA-TTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTT-ACTATCGCAACGCGATAATAA
*
2181703 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
2181740 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.94
42 2 0.06
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
Found at i:2181755 original size:20 final size:20
Alignment explanation
Indices: 2181707--2181758 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2181697 TAATAAAAAA
* *
2181707 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
2181727 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
2181747 TCGCAACGCGAT
1 TCGCAACGCGAT
2181759 TTACATAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:2182334 original size:19 final size:19
Alignment explanation
Indices: 2182274--2182354 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
2182264 TTCGAGAATG
2182274 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
2182294 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
2182310 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
2182327 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
2182346 AAAATCGCA
1 AAAATCGCA
2182355 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:2182380 original size:20 final size:19
Alignment explanation
Indices: 2182350--2182496 Score: 98
Period size: 20 Copynumber: 8.1 Consensus size: 19
2182340 GAAACCAAAA
* *
2182350 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
2182369 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
2182389 TCGCGTTGCGA--TT-ATC
1 TCGCGTTGCGATTTTCATT
* **
2182405 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2182422 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2182436 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2182455 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
2182475 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2182495 TC
1 TC
2182497 AACCAAAAGA
Statistics
Matches: 100, Mismatches: 15, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
14 16 0.16
15 1 0.01
16 6 0.06
17 7 0.07
18 1 0.01
19 20 0.20
20 48 0.48
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2182421 original size:33 final size:33
Alignment explanation
Indices: 2182384--2182468 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
2182374 GTTGCGATTT
*
2182384 TCATTTCGCGTTGCGATTATCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTATCTCGTCGCGATAG
* *
2182417 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTATCTCGTCGCGATAG
2182450 TCATTTCCGCGTTGCGATT
1 TCATTT-CGCGTTGCGATT
2182469 CTCATTATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 36 0.75
34 12 0.25
ACGTcount: A:0.13, C:0.24, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTATCTCGTCGCGATAG
Found at i:2183562 original size:19 final size:19
Alignment explanation
Indices: 2183538--2183604 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
2183528 TAATACCATA
2183538 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
2183557 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
2183576 TGCAATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
2183595 TGCGATTTTC
1 TGCGATTTTC
2183605 TCGTTGCGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCAT
Found at i:2185699 original size:14 final size:14
Alignment explanation
Indices: 2185680--2185736 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
2185670 ATGCGAAATG
2185680 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2185694 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
2185710 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2185726 AAAATCGCAAC
1 AAAATCGCAAC
2185737 TCGAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.49, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2185722 original size:32 final size:33
Alignment explanation
Indices: 2185664--2185754 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
2185654 GGAAATGGCT
*
2185664 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2185697 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
2185729 ATCGCAACTCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
2185755 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2185748 original size:19 final size:19
Alignment explanation
Indices: 2185606--2185759 Score: 105
Period size: 19 Copynumber: 8.6 Consensus size: 19
2185596 TAGTTTACTT
* *
2185606 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2185626 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
2185645 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
2185665 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2185684 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2185698 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
2185716 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
*
2185730 TCGCAACTCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2185749 TCGCAATGCGA
1 TCGCAACGCGA
2185760 TTTGTGTTTC
Statistics
Matches: 107, Mismatches: 15, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
14 20 0.19
15 1 0.01
16 6 0.06
17 2 0.02
18 11 0.10
19 38 0.36
20 29 0.27
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2185800 original size:19 final size:19
Alignment explanation
Indices: 2185785--2185869 Score: 82
Period size: 19 Copynumber: 4.4 Consensus size: 19
2185775 GCGATTTTGT
2185785 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
2185803 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
2185822 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
2185842 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
2185862 TGTTGCGA
1 CGTTGCGA
2185870 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.14
19 23 0.40
20 23 0.40
21 3 0.05
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2185849 original size:20 final size:19
Alignment explanation
Indices: 2185785--2185869 Score: 91
Period size: 20 Copynumber: 4.4 Consensus size: 19
2185775 GCGATTTTGT
*
2185785 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAGTCATTTCG
**
2185803 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
2185822 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
2185842 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
2185862 TGTTGCGA
1 CGTTGCGA
2185870 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.16
19 22 0.39
20 23 0.40
21 3 0.05
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:2186277 original size:18 final size:18
Alignment explanation
Indices: 2186251--2186295 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2186241 GTCGATCAGA
*
2186251 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
2186269 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
2186287 TGATGGCTC
1 TGATGGCTC
2186296 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:2193765 original size:21 final size:21
Alignment explanation
Indices: 2193739--2193778 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2193729 CCCCCTTTGA
*
2193739 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2193760 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2193779 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2197285 original size:20 final size:20
Alignment explanation
Indices: 2197260--2197297 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2197250 AATAGTTTCT
2197260 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
2197280 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
2197298 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2197586 original size:22 final size:22
Alignment explanation
Indices: 2197561--2197604 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2197551 GATTTAGATA
2197561 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2197583 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2197605 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2197817 original size:20 final size:20
Alignment explanation
Indices: 2197792--2197885 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
2197782 GATTATGTAT
2197792 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2197812 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
2197832 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
2197853 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2197873 TATCGCATTGCGA
1 TATCGCGTTGCGA
2197886 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2197857 original size:41 final size:41
Alignment explanation
Indices: 2197812--2197889 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
2197802 CGAAAGTCAG
* * *
2197812 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
2197853 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
2197890 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:2197886 original size:20 final size:20
Alignment explanation
Indices: 2197772--2197886 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
2197762 CGCTTTGAAA
*
2197772 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
2197793 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
2197813 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
2197833 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
2197854 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
2197874 ATCGCATTGCGAT
1 ATCGCATTGCGAT
2197887 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:2197905 original size:41 final size:41
Alignment explanation
Indices: 2197875--2198011 Score: 238
Period size: 41 Copynumber: 3.3 Consensus size: 41
2197865 ATAGTCAGTA
* *
2197875 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACGTAT
*
2197916 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACGTAT
*
2197957 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACGTAT
2197998 TCGCATTGCGAATT
1 TCGCATTGCGAATT
2198012 GGGAAAATCG
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACGTAT
Found at i:2197919 original size:20 final size:20
Alignment explanation
Indices: 2197875--2198008 Score: 133
Period size: 20 Copynumber: 6.5 Consensus size: 20
2197865 ATAGTCAGTA
* **
2197875 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
2197896 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
2197916 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
2197937 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
2197957 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
2197978 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
2197998 TCGCATTGCGA
1 TCGCATTGCGA
2198009 ATTGGGAAAA
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
20 48 0.53
21 42 0.47
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:2197925 original size:82 final size:81
Alignment explanation
Indices: 2197855--2198008 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
2197845 TTTTTTATTA
*
2197855 TCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTC
1 TCGCATTGCGAT--TCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTC
2197918 GCATTGCGAATTTCCCAAT
64 GCATTGCG-ATTTCCCAAT
* * *
2197937 TCGCGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTCGC
1 TCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTCGC
2198002 ATTGCGA
66 ATTGCGA
2198009 ATTGGGAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
80 2 0.03
81 3 0.05
82 61 0.92
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (81 bp):
TCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTATTCGC
ATTGCGATTTCCCAAT
Found at i:2199125 original size:271 final size:273
Alignment explanation
Indices: 2198707--2199251 Score: 1040
Period size: 271 Copynumber: 2.0 Consensus size: 273
2198697 ATCCACATTC
*
2198707 CCTCGTTTGGTTGGCCGGTAATCTCATTCTCGGTAATGTTTTATTATCAAAAGTGGATTTTTTTG
1 CCTCATTTGGTTGGCCGGTAATCTCATTCTCGGTAATGTTTTATTATCAAAAGTGGATTTTTTTG
*
2198772 GATATATTACCGAGAATGTCATTACCCCTCCCTTAGGTATTGTTGGATTACCGGTGTTTTGGACT
66 GATATATTACCGAGAATGTCATTACCCCTCCATTAGGTATTGTTGGATTACCGGTGTTTTGGACT
2198837 AAAATGCCCTTAAATTTTTTCTCTAAAAAATATCATTCTTCTGTCATTGAATAATAAAAATTCAA
131 AAAATGCCCTTAAATTTTTTCTCTAAAAAATATCATTCTTCTGTCATTGAATAATAAAAATTCAA
*
2198902 GAAGGTTAAATTATAAA-TTTTCCTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAAT
196 GAAGGTTAAATTACAAATTTTTCCTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAAT
2198966 TTTATATGAAGTT
261 TTTATATGAAGTT
2198979 CCTCATTTGGTTGGCCGGTAATCTCATTCTCGGTAATGTTTTATTATCAAAAGTGGA-TTTTTTG
1 CCTCATTTGGTTGGCCGGTAATCTCATTCTCGGTAATGTTTTATTATCAAAAGTGGATTTTTTTG
2199043 GATATATTACCGAGAATGTCATTACCCCTCCATTAGGTATTGTTGGATTACCGGTGTTTTGGACT
66 GATATATTACCGAGAATGTCATTACCCCTCCATTAGGTATTGTTGGATTACCGGTGTTTTGGACT
*
2199108 AAAATGCCCTTAAATTTTTTCTCTATAAAATATCATTCTTCTGTCATTGAATAATAAAAATTCAA
131 AAAATGCCCTTAAATTTTTTCTCTAAAAAATATCATTCTTCTGTCATTGAATAATAAAAATTCAA
2199173 GAAGGTTAAATTACAAATTTTTCCTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAAT
196 GAAGGTTAAATTACAAATTTTTCCTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAAT
2199238 TTTATATGAAGTT
261 TTTATATGAAGTT
2199251 C
1 C
2199252 AGGGGTTAAA
Statistics
Matches: 268, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
271 151 0.56
272 117 0.44
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (273 bp):
CCTCATTTGGTTGGCCGGTAATCTCATTCTCGGTAATGTTTTATTATCAAAAGTGGATTTTTTTG
GATATATTACCGAGAATGTCATTACCCCTCCATTAGGTATTGTTGGATTACCGGTGTTTTGGACT
AAAATGCCCTTAAATTTTTTCTCTAAAAAATATCATTCTTCTGTCATTGAATAATAAAAATTCAA
GAAGGTTAAATTACAAATTTTTCCTTAAACTATTTTAGATTTACAAAAAAATCTATAATTAAAAT
TTTATATGAAGTT
Found at i:2199572 original size:20 final size:20
Alignment explanation
Indices: 2199544--2199587 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2199534 TATTCCCTGA
* *
2199544 TAATCTTTTATTCTCACTGG
1 TAATATTTTATTCTCACGGG
2199564 TAATATTTTATTCTCACGGG
1 TAATATTTTATTCTCACGGG
2199584 TAAT
1 TAAT
2199588 CTTACATTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (20 bp):
TAATATTTTATTCTCACGGG
Found at i:2199596 original size:20 final size:20
Alignment explanation
Indices: 2199553--2199596 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2199543 ATAATCTTTT
* **
2199553 ATTCTCACTGGTAATATTTT
1 ATTCTCACGGGTAATATTAC
*
2199573 ATTCTCACGGGTAATCTTAC
1 ATTCTCACGGGTAATATTAC
2199593 ATTC
1 ATTC
2199597 CGTGAACCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (20 bp):
ATTCTCACGGGTAATATTAC
Found at i:2199950 original size:28 final size:28
Alignment explanation
Indices: 2199919--2199974 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
2199909 CTATTATATG
*
2199919 TGACAATAATAACATTATTAATCGAATT
1 TGACAATAATAACAATATTAATCGAATT
* *
2199947 TGACATTAATAACAATGTTAATCGAATT
1 TGACAATAATAACAATATTAATCGAATT
2199975 AAGATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (28 bp):
TGACAATAATAACAATATTAATCGAATT
Found at i:2200804 original size:14 final size:14
Alignment explanation
Indices: 2200787--2200817 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2200777 TCACTTTTCT
2200787 TTTCTTTTTTTTAA
1 TTTCTTTTTTTTAA
*
2200801 TTTCTTTTTTTTGA
1 TTTCTTTTTTTTAA
2200815 TTT
1 TTT
2200818 TATCTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.06, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTCTTTTTTTTAA
Found at i:2201548 original size:21 final size:21
Alignment explanation
Indices: 2201523--2201578 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2201513 TACATATATC
* *
2201523 ATCATCTATTTTCTTAGCATT
1 ATCATCTATATTATTAGCATT
* *
2201544 ATCATATATATTATTATCATT
1 ATCATCTATATTATTAGCATT
2201565 ATC-TCTATCATTAT
1 ATCATCTAT-ATTAT
2201579 CATCAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (21 bp):
ATCATCTATATTATTAGCATT
Found at i:2201583 original size:21 final size:21
Alignment explanation
Indices: 2201540--2201583 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2201530 ATTTTCTTAG
*
2201540 CATTATCATATATATTATTAT
1 CATTATCATATATATTATCAT
*
2201561 CATTATC-TCTATCATTATCAT
1 CATTATCATATAT-ATTATCAT
2201582 CA
1 CA
2201584 AATTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
CATTATCATATATATTATCAT
Found at i:2202065 original size:149 final size:149
Alignment explanation
Indices: 2201795--2202244 Score: 780
Period size: 149 Copynumber: 3.0 Consensus size: 149
2201785 CCGAAGTGCA
*
2201795 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
2201860 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
2201925 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
2201944 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
2202009 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATA
66 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
2202072 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
2202091 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* * * * * * * *
2202156 CATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCATAAATGTTCCAAAGAATATA
66 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
* *
2202220 CATATGTCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
2202239 CGTAGA
1 CGTAGA
2202245 CCCTCGACTC
Statistics
Matches: 288, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
146 19 0.07
147 119 0.41
148 27 0.09
149 123 0.43
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:2203726 original size:64 final size:63
Alignment explanation
Indices: 2203593--2203753 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
2203583 TAATGAAGGT
* * * *
2203593 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTCCA-TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* * * *
2203658 ATGCATCGATTCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* *
2203722 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTCCATATGCATCGATGCA
2203754 CCTTAAATAA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 57 0.70
65 22 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:2206694 original size:21 final size:21
Alignment explanation
Indices: 2206669--2206724 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2206659 TACATATATC
* *
2206669 ATCATCTATTTTCTTAGCATT
1 ATCATCTATATTATTAGCATT
* *
2206690 ATCATATATATTATTATCATT
1 ATCATCTATATTATTAGCATT
2206711 ATC-TCTATCATTAT
1 ATCATCTAT-ATTAT
2206725 CATCAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (21 bp):
ATCATCTATATTATTAGCATT
Found at i:2206729 original size:21 final size:21
Alignment explanation
Indices: 2206686--2206729 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2206676 ATTTTCTTAG
*
2206686 CATTATCATATATATTATTAT
1 CATTATCATATATATTATCAT
*
2206707 CATTATC-TCTATCATTATCAT
1 CATTATCATATAT-ATTATCAT
2206728 CA
1 CA
2206730 AATTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
CATTATCATATATATTATCAT
Found at i:2207211 original size:149 final size:149
Alignment explanation
Indices: 2206941--2207392 Score: 780
Period size: 149 Copynumber: 3.0 Consensus size: 149
2206931 CCGAAGTGCA
*
2206941 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
2207006 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
2207071 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
2207090 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGAACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
2207155 TATATACATATACTAAAGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
2207220 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
2207239 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* * * * * * * *
2207304 CATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCATAAATGTTCCAAAGAATATA
66 TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
* *
2207368 CATATGTCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
2207387 CGTAGA
1 CGTAGA
2207393 CCCTCGACTC
Statistics
Matches: 288, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
148 48 0.17
149 240 0.83
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
TATATACATATACTAAGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:2208863 original size:64 final size:65
Alignment explanation
Indices: 2208740--2208863 Score: 189
Period size: 64 Copynumber: 1.9 Consensus size: 65
2208730 TAATGAAGGT
*
2208740 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGGG
* * *
2208805 ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATTTTTCTTTTTAA
1 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAA
2208864 ATTAATGCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
63 1 0.02
64 38 0.70
65 15 0.28
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (65 bp):
ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGGG
Found at i:2212952 original size:31 final size:32
Alignment explanation
Indices: 2212871--2212952 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
2212861 ATAGTTTGAC
*
2212871 TAAATTTAATGATCATTTTGTAACAATTCAAT
1 TAAATTTAATGATCATTTTCTAACAATTCAAT
* * * *
2212903 TAAATTTGATGAAT-ATTTTCTAATAGTTCTA-
1 TAAATTTAATG-ATCATTTTCTAACAATTCAAT
*
2212934 TAAATTTCATGATCATTTT
1 TAAATTTAATGATCATTTT
2212953 GGAACTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
30 2 0.05
31 15 0.36
32 23 0.55
33 2 0.05
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (32 bp):
TAAATTTAATGATCATTTTCTAACAATTCAAT
Found at i:2213493 original size:18 final size:19
Alignment explanation
Indices: 2213458--2213494 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2213448 CACGGAATGT
2213458 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2213478 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
2213495 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:2220165 original size:16 final size:16
Alignment explanation
Indices: 2220144--2220181 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2220134 AAAAATTGTA
*
2220144 AAGAAAGGGAGAAGAG
1 AAGAAAAGGAGAAGAG
*
2220160 AAGAAAAGGAGAGGAG
1 AAGAAAAGGAGAAGAG
2220176 AAGAAA
1 AAGAAA
2220182 TCTTACCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (16 bp):
AAGAAAAGGAGAAGAG
Found at i:2225359 original size:21 final size:21
Alignment explanation
Indices: 2225335--2225374 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2225325 ATTCGGGTCA
2225335 ACCATTAGATTTTCAATTCGG
1 ACCATTAGATTTTCAATTCGG
2225356 ACCATTAGATTTTCAATTC
1 ACCATTAGATTTTCAATTC
2225375 AAATTCAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (21 bp):
ACCATTAGATTTTCAATTCGG
Found at i:2226714 original size:89 final size:89
Alignment explanation
Indices: 2226593--2226773 Score: 362
Period size: 89 Copynumber: 2.0 Consensus size: 89
2226583 ATATTATGAT
2226593 TATTTCACCAAAATAAATATTTAAGTAGTACTATATTAGTTTTATAAAATAAATTAACTAAAAAT
1 TATTTCACCAAAATAAATATTTAAGTAGTACTATATTAGTTTTATAAAATAAATTAACTAAAAAT
2226658 ATTGACGATAAAAGAGAAAAAAGA
66 ATTGACGATAAAAGAGAAAAAAGA
2226682 TATTTCACCAAAATAAATATTTAAGTAGTACTATATTAGTTTTATAAAATAAATTAACTAAAAAT
1 TATTTCACCAAAATAAATATTTAAGTAGTACTATATTAGTTTTATAAAATAAATTAACTAAAAAT
2226747 ATTGACGATAAAAGAGAAAAAAGA
66 ATTGACGATAAAAGAGAAAAAAGA
2226771 TAT
1 TAT
2226774 GAAAATTATA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (89 bp):
TATTTCACCAAAATAAATATTTAAGTAGTACTATATTAGTTTTATAAAATAAATTAACTAAAAAT
ATTGACGATAAAAGAGAAAAAAGA
Found at i:2227165 original size:83 final size:83
Alignment explanation
Indices: 2227026--2227191 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
2227016 GAGATTATGG
2227026 AAGGGTGGCGTGTTGAGCCTAGAGCGGTGTGAGCCTTACTTTTTGTCTCCTCTCACCAACATATT
1 AAGGGTGGCGTGTTGAGCCTAGAGCGGTGTGAGCCTTACTTTTTGTCTCCTCTCACCAACATATT
2227091 TCATGAAAATGGTTTGGC
66 TCATGAAAATGGTTTGGC
2227109 AAGGGTGGCGTGTTGAGCCTAGAGCGGTGTGAGCCTTACTTTTTGTCTCCTCTCACCAACATATT
1 AAGGGTGGCGTGTTGAGCCTAGAGCGGTGTGAGCCTTACTTTTTGTCTCCTCTCACCAACATATT
2227174 TCATGAAAATGGTTTGGC
66 TCATGAAAATGGTTTGGC
2227192 TCACGTTCCT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (83 bp):
AAGGGTGGCGTGTTGAGCCTAGAGCGGTGTGAGCCTTACTTTTTGTCTCCTCTCACCAACATATT
TCATGAAAATGGTTTGGC
Found at i:2232195 original size:137 final size:138
Alignment explanation
Indices: 2231949--2232226 Score: 549
Period size: 137 Copynumber: 2.0 Consensus size: 138
2231939 CGTTTCCAGC
2231949 ACTCTCATAAGCGTGAAACCCGCTAGTCCTTTGGCTTGTATTTGGTTAGCAAGATTACCAATCTT
1 ACTCTCATAAGCGTGAAACCCGCTAGTCCTTTGGCTTGTATTTGGTTAGCAAGATTACCAATCTT
2232014 GATAAAGTTCTTGCACCACCCCACAAGACAGTTAGACAACACATG-AGTTTATCTGCGTCCACAA
66 GATAAAGTTCTTGCACCACCCCACAAGACAGTTAGACAACACATGAAGTTTATCTGCGTCCACAA
2232078 CACCCTCA
131 CACCCTCA
2232086 ACTCTCATAAGCGTGAAACCCGCTAGTCCTTTGGCTTGTATTTGGTTAGCAAGATTACCAATCTT
1 ACTCTCATAAGCGTGAAACCCGCTAGTCCTTTGGCTTGTATTTGGTTAGCAAGATTACCAATCTT
2232151 GATAAAGTTCTTGCACCACCCCACAAGACAGTTAGACAACACATGAAGTTTATCTGCGTCCACAA
66 GATAAAGTTCTTGCACCACCCCACAAGACAGTTAGACAACACATGAAGTTTATCTGCGTCCACAA
2232216 CACCCTCA
131 CACCCTCA
2232224 ACT
1 ACT
2232227 TCACAGTGTT
Statistics
Matches: 140, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 110 0.79
138 30 0.21
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (138 bp):
ACTCTCATAAGCGTGAAACCCGCTAGTCCTTTGGCTTGTATTTGGTTAGCAAGATTACCAATCTT
GATAAAGTTCTTGCACCACCCCACAAGACAGTTAGACAACACATGAAGTTTATCTGCGTCCACAA
CACCCTCA
Found at i:2233602 original size:20 final size:20
Alignment explanation
Indices: 2233577--2233624 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2233567 GTCAGAGTGT
*
2233577 GGCGGCGGACGGCTGACGGC
1 GGCGGCGGACGGCGGACGGC
* *
2233597 GGCGGCAGACGGCGGGCGGC
1 GGCGGCGGACGGCGGACGGC
*
2233617 GGCAGCGG
1 GGCGGCGG
2233625 CCAGCGGGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.29, G:0.58, T:0.02
Consensus pattern (20 bp):
GGCGGCGGACGGCGGACGGC
Found at i:2233614 original size:17 final size:16
Alignment explanation
Indices: 2233594--2233625 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2233584 GACGGCTGAC
2233594 GGCGGCGGCAGACGGCG
1 GGCGGCGGCAG-CGGCG
2233611 GGCGGCGGCAGCGGC
1 GGCGGCGGCAGCGGC
2233626 CAGCGGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.31, G:0.59, T:0.00
Consensus pattern (16 bp):
GGCGGCGGCAGCGGCG
Found at i:2245384 original size:2 final size:2
Alignment explanation
Indices: 2245377--2245437 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
2245367 TTTCATCTGT
2245377 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
*
2245419 TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
2245438 CCAAGTTTCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2245559 original size:3 final size:3
Alignment explanation
Indices: 2245551--2245593 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2245541 ATACAAATAA
2245551 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2245594 GAGAAGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2245976 original size:25 final size:26
Alignment explanation
Indices: 2245938--2245993 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
2245928 TTAATTTACC
2245938 CTTAATTTTATTATACTAACTTTTAG
1 CTTAATTTTATTATACTAACTTTTAG
2245964 CTTAA-TTTATTATACTAACTTTTAG
1 CTTAATTTTATTATACTAACTTTTAG
2245989 CTTAA
1 CTTAA
2245994 CCACGTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (26 bp):
CTTAATTTTATTATACTAACTTTTAG
Found at i:2249331 original size:19 final size:17
Alignment explanation
Indices: 2249297--2249333 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
2249287 TCTCAACAAG
2249297 AGAACTATATGTAAAAA
1 AGAACTATATGTAAAAA
2249314 AGAACTATATGTAAAAA
1 AGAACTATATGTAAAAA
2249331 AGA
1 AGA
2249334 GAAAATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (17 bp):
AGAACTATATGTAAAAA
Found at i:2249336 original size:19 final size:18
Alignment explanation
Indices: 2249294--2249336 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
2249284 ATGTCTCAAC
2249294 AAGAGAACTATATGTAAA
1 AAGAGAACTATATGTAAA
2249312 AA-AGAACTATATGTAAAA
1 AAGAGAACTATATGT-AAA
2249330 AAGAGAA
1 AAGAGAA
2249337 AATTATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.52
18 7 0.30
19 4 0.17
ACGTcount: A:0.60, C:0.05, G:0.16, T:0.19
Consensus pattern (18 bp):
AAGAGAACTATATGTAAA
Found at i:2254227 original size:22 final size:21
Alignment explanation
Indices: 2254190--2254232 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
2254180 AAAATATTAT
*
2254190 ATTTTTTATTTGTTTTTGTAG
1 ATTTTTTATTTGTTTTGGTAG
2254211 ATTTTTTAAATTT-TTTTGGTAG
1 ATTTTTT--ATTTGTTTTGGTAG
2254233 GGTTGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (21 bp):
ATTTTTTATTTGTTTTGGTAG
Found at i:2259515 original size:18 final size:18
Alignment explanation
Indices: 2259492--2259526 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2259482 GACCCATAAA
2259492 ACCAAAACGATCAAACCC
1 ACCAAAACGATCAAACCC
2259510 ACCAAAACGATCAAACC
1 ACCAAAACGATCAAACC
2259527 AATTTCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.37, G:0.06, T:0.06
Consensus pattern (18 bp):
ACCAAAACGATCAAACCC
Found at i:2262406 original size:41 final size:41
Alignment explanation
Indices: 2262361--2262812 Score: 435
Period size: 41 Copynumber: 10.9 Consensus size: 41
2262351 AAACGTTGTA
* *
2262361 AAAGAGTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCT
1 AAAGACTAGTACTTTAGTGGCATTTTTATACAAACGCCGCT
* *
2262402 AAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCT
1 AAAGACTAGTACTTTAGTGGCATTTTTATACAAACGCCGCT
* * * *
2262443 ATAGAATTGTACTTTAGTGGCATTTTTATACAAACGCCGTT
1 AAAGACTAGTACTTTAGTGGCATTTTTATACAAACGCCGCT
* * * * * *
2262484 ATACAC-ATGTACTATAGTGGCGTTTGTGTTTACAAACGCCTCT
1 AAAGACTA-GTACTTTAGTGGCATTT-T-TATACAAACGCCGCT
* **
2262527 AAAGACTCA-TAATTTAGTGGTGTTTTTATACAAACGCCGCT
1 AAAGACT-AGTACTTTAGTGGCATTTTTATACAAACGCCGCT
* * * *
2262568 AAAGACTCA-TACTTTAGTGGCGTTTTTATATAAACTCTGCT
1 AAAGACT-AGTACTTTAGTGGCATTTTTATACAAACGCCGCT
** * * *
2262609 AAAGACGCGTACTTTAGTGGCATTTTTATTCAAACACCGTT
1 AAAGACTAGTACTTTAGTGGCATTTTTATACAAACGCCGCT
* * * * * * * *
2262650 ATACACTTGTACTATAATGGCGTTTGTGTTTACAAACGTCGCT
1 AAAGACTAGTACTTTAGTGGCATTT-T-TATACAAACGCCGCT
* *
2262693 AAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCT
1 AAAGACTAGTACTTTAGTGGCATTTTTATACAAACGCCGCT
* *
2262734 AAAGACTCA-TACTTTATTGACATTTTTATACAAACGCCGCT
1 AAAGACT-AGTACTTTAGTGGCATTTTTATACAAACGCCGCT
* * *
2262775 AAAGACTCGTACTTTATTGGCATTTTTATTCAAACGCC
1 AAAGACTAGTACTTTAGTGGCATTTTTATACAAACGCC
2262813 ACTCGGAGTT
Statistics
Matches: 336, Mismatches: 65, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
41 274 0.82
42 4 0.01
43 57 0.17
45 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (41 bp):
AAAGACTAGTACTTTAGTGGCATTTTTATACAAACGCCGCT
Found at i:2262553 original size:125 final size:123
Alignment explanation
Indices: 2262369--2262812 Score: 395
Period size: 125 Copynumber: 3.6 Consensus size: 123
2262359 TAAAAGAGTA
* *
2262369 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACA
1 GTACTATAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
* **
2262434 AACGCCGCTATAGAATTGTACTTTAGTGGCATTTTTATACAAACGCCGTTATACACAT
66 AACGCCGCTAAAGAATCATACTTTAGTGGCATTTTTATACAAACGCCGTTATACACAT
* * **
2262492 GTACTATAGTGGCGTTTGTGTTTACAAACGCCTCTAAAGACTCATAATTTAGTGGTGTTTTTATA
1 GTACTATAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
* * * * * * * * **
2262557 CAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATATAAACTCTGCTAAAGACGC
64 CAAACGCCGCTAAAGAATCATACTTTAGTGGCATTTTTATACAAACGCCGTTATACACAT
* * * * * * * ** * * * * *
2262617 GTACTTTAGTGGCATTTTTATTCAAACACCGTTATACACTTGTACTATAATGGCGTTTGTGTTTA
1 GTACTATAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTT-T-TATA
* * * * * * *
2262682 CAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGAC-T
64 CAAACGCCGCTAAAGAATCATACTTTAGTGGCATTTTTATACAAACGCCGTTATACACAT
* * * * * * * * *
2262741 CATACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACTTTATTGGCATTTTTATTC
1 -GTACTATAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATAC
2262806 AAACGCC
65 AAACGCC
2262813 ACTCGGAGTT
Statistics
Matches: 258, Mismatches: 58, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
123 52 0.20
124 4 0.02
125 202 0.78
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (123 bp):
GTACTATAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
AACGCCGCTAAAGAATCATACTTTAGTGGCATTTTTATACAAACGCCGTTATACACAT
Found at i:2262557 original size:166 final size:166
Alignment explanation
Indices: 2262373--2262812 Score: 682
Period size: 166 Copynumber: 2.7 Consensus size: 166
2262363 AGAGTAGTAC
* *
2262373 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACG
* * * * *
2262438 CCGCTATAGAATTGTACTTTAGTGGCATTTTTATACAAACGCCGTTATACACATGTACTATAGTG
66 CCGCTAAAGACTCGTACTTTAGTGGCATTTTTATTCAAACGCCGTTATACACATGTACTATAATG
*
2262503 GCGTTTGTGTTTACAAACGCCTCTAAAGACTCATAA
131 GCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAA
* * * *
2262539 TTTAGTGGTGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATATAAACT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACG
* * * *
2262604 CTGCTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAACACCGTTATACACTTGTACTATAATG
66 CCGCTAAAGACTCGTACTTTAGTGGCATTTTTATTCAAACGCCGTTATACACATGTACTATAATG
* *
2262669 GCGTTTGTGTTTACAAACGTCGCTAAAGACTCGTAA
131 GCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAA
* * *
2262705 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTATTGACATTTTTATACAAACG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACG
*
2262770 CCGCTAAAGACTCGTACTTTATTGGCATTTTTATTCAAACGCC
66 CCGCTAAAGACTCGTACTTTAGTGGCATTTTTATTCAAACGCC
2262813 ACTCGGAGTT
Statistics
Matches: 245, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
166 245 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (166 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACG
CCGCTAAAGACTCGTACTTTAGTGGCATTTTTATTCAAACGCCGTTATACACATGTACTATAATG
GCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAA
Found at i:2262964 original size:21 final size:21
Alignment explanation
Indices: 2262926--2262966 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2262916 CGCTGTTTAC
*
2262926 CCAAACCCATCTTCTTCACTA
1 CCAAACCCATATTCTTCACTA
2262947 CCAAACCCATATGT-TTCACT
1 CCAAACCCATAT-TCTTCACT
2262967 TCCTCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.29, C:0.39, G:0.02, T:0.29
Consensus pattern (21 bp):
CCAAACCCATATTCTTCACTA
Found at i:2266285 original size:43 final size:43
Alignment explanation
Indices: 2266224--2266544 Score: 330
Period size: 43 Copynumber: 7.5 Consensus size: 43
2266214 AAGGTAATTA
* * *
2266224 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* *
2266267 GCGGCGTTTGTGTTCAAAAACGCCGTTATAGGTCTAACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
2266310 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* * * *
2266353 ACGGCGTTTGT-TCTAAAAACGCCAG-TATAGGTAT-TCTCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCC-GCTATAGGTCTAAC-CTTTT
* * * *
2266395 GCGGCGTTTGTATCCAAAAACGCCACTATAGATCTGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* * * * ** *
2266438 GTGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTC-TAACCTTTT
* * * *
2266481 GCGGCGTTTAT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCT-AACCTTTT
* *
2266524 GCGACGTTTGT-TCAAAAAACG
1 GCGGCGTTTGTGTCCAAAAACG
2266545 TCGTAATAGA
Statistics
Matches: 235, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.00
42 54 0.23
43 178 0.76
44 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
Found at i:2266402 original size:128 final size:128
Alignment explanation
Indices: 2266225--2266544 Score: 369
Period size: 128 Copynumber: 2.5 Consensus size: 128
2266215 AGGTAATTAG
* * *
2266225 CGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAACGC
1 CGGCGTTTGT-TCCAAAAACGCCGCTATAGGTATGACTTTTTGCGGCGTTTGTATCCAAAAACGC
** * *
2266290 CGTTATAGGTCTAACCTTTTGCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTC-TAACCTTTTA
65 CACTATAGATCTAACCTTTTGCGGCGTTT-TGTCCAAAAACGCCGCTATAGATCATAACCTTTTA
* *
2266354 CGGCGTTTGTTCTAAAAACGCCAG-TATAGGTAT-TCTCTTTTGCGGCGTTTGTATCCAAAAACG
1 CGGCGTTTGTTCCAAAAACGCC-GCTATAGGTATGACT-TTTTGCGGCGTTTGTATCCAAAAACG
* * * * * * * *
2266417 CCACTATAGATCTGACCTTTTGTGGCGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTTG
64 CCACTATAGATCTAACCTTTTGCGGCGTTTTGTCCAAAAACGCCGCTATAGATCATAACCTTTTA
* * * * *
2266482 CGGCGTTTATTCCAAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGT-TCAAAAAACG
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGGTAT-GACTTTTTGCGGCGTTTGTATCCAAAAACG
2266545 TCGTAATAGA
Statistics
Matches: 161, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
127 22 0.14
128 113 0.70
129 25 0.16
130 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (128 bp):
CGGCGTTTGTTCCAAAAACGCCGCTATAGGTATGACTTTTTGCGGCGTTTGTATCCAAAAACGCC
ACTATAGATCTAACCTTTTGCGGCGTTTTGTCCAAAAACGCCGCTATAGATCATAACCTTTTA
Found at i:2266411 original size:85 final size:86
Alignment explanation
Indices: 2266224--2266544 Score: 384
Period size: 85 Copynumber: 3.7 Consensus size: 86
2266214 AAGGTAATTA
* *
2266224 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
* *
2266288 GCCGTTATAGGTCTAAC-CTTTT
64 GCCGCTATAGGTATAACTCTTTT
* * * *
2266310 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTTACGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
*
2266375 CAG-TATAGGTAT-TCTCTTTT
66 C-GCTATAGGTATAACTCTTTT
* * * *
2266395 GCGGCGTTTGTATCCAAAAACGCCACTATAGATCTGACCTTTTGTGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
**
2266460 CGCTATATATCATAACT-TTTT
66 CGCTATAGGT-ATAACTCTTTT
* * * *
2266481 GCGGCGTTTAT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGTTCAAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCTAAAAACG
2266545 TCGTAATAGA
Statistics
Matches: 203, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
84 2 0.01
85 107 0.53
86 92 0.45
87 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (86 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CGCTATAGGTATAACTCTTTT
Found at i:2266569 original size:86 final size:85
Alignment explanation
Indices: 2266224--2266575 Score: 383
Period size: 86 Copynumber: 4.1 Consensus size: 85
2266214 AAGGTAATTA
* *
2266224 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
* *
2266288 GCCGTTATAGGT-CTAACCTTTT
64 GCCG-TATAGATATTAACCTTTT
* * * *
2266310 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTTACGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
*
2266375 CAGTATAGGTATT--CTCTTTT
66 C-GTATAGATATTAAC-CTTTT
* * * *
2266395 GCGGCGTTTGTATCCAAAAACGCCACTATAGATCTGACCTTTTGTGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
* *
2266460 CGCTATATATCA-TAACTTTTT
66 CG-TATAGAT-ATTAACCTTTT
* * * *
2266481 GCGGCGTTTAT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGTTCAAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCTAAAAACG
* * *
2266545 TCGTAATAGATATTGACCTATT
65 CCGT-ATAGATATTAACCTTTT
2266567 GCGGCGTTT
1 GCGGCGTTT
2266576 TTTGTTCTCA
Statistics
Matches: 226, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
84 2 0.01
85 109 0.48
86 114 0.50
87 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CGTATAGATATTAACCTTTT
Found at i:2270419 original size:2 final size:2
Alignment explanation
Indices: 2270412--2270437 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2270402 AATAATATAC
2270412 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2270438 GAAAGAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2283032 original size:78 final size:78
Alignment explanation
Indices: 2282881--2283032 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
2282871 TGAAAGGTTA
* * *
2282881 GGAGGCATTATGCCCACTAGAGATGCTAGTGTAGAATACCTTGAATGAAGATTTATGTTATGGTG
1 GGAGACATTATGCCCACTAGAGATGCTAGTGTAGAATACCTTGAATGAAGATTTATGGTATGGCG
2282946 CTCAATAACCCTC
66 CTCAATAACCCTC
* * * * * *
2282959 GGAGACATTATGCCGACTGGAGATGTTGGTGTAGAATATCC-TGACTGATGATTTATGGTA-GGA
1 GGAGACATTATGCCCACTAGAGATGCTAGTGTAGAATA-CCTTGAATGAAGATTTATGGTATGG-
*
2283022 CGCTCGATAAC
64 CGCTCAATAAC
2283033 GCTCAGGGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.03
78 58 0.94
79 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (78 bp):
GGAGACATTATGCCCACTAGAGATGCTAGTGTAGAATACCTTGAATGAAGATTTATGGTATGGCG
CTCAATAACCCTC
Found at i:2286632 original size:36 final size:35
Alignment explanation
Indices: 2286551--2286690 Score: 190
Period size: 36 Copynumber: 3.9 Consensus size: 35
2286541 AGATGAACAA
***
2286551 TTGAATCGAAAGTAAGGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
* *
2286586 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC-AC
*
2286622 TTGAATCGAAAGTGCCGATGCTTCCTTCCATTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
* *
2286657 TTTGAATCGAAAGTGCTGATGCTTCCTTTCGTTC
1 -TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC
2286691 TTCTTATTCA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
35 30 0.33
36 62 0.67
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
Found at i:2286691 original size:72 final size:71
Alignment explanation
Indices: 2286551--2286695 Score: 236
Period size: 72 Copynumber: 2.0 Consensus size: 71
2286541 AGATGAACAA
* *
2286551 TTGAATCGAAAGTAAGGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCG
1 TTGAATCGAAAGTAACGATGCTTCCTTCCATTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCG
2286616 TTCTTC
66 TTCTTC
** *
2286622 TTGAATCGAAAGTGCCGATGCTTCCTTCCATTCACTTTGAATCGAAAGTGCTGATGCTTCCTTTC
1 TTGAATCGAAAGTAACGATGCTTCCTTCCATTCAC-TTGAATCGAAAGTGCCGATGCTTCCTTTC
2286687 GTTCTTC
65 GTTCTTC
2286694 TT
1 TT
2286696 ATTCACTTCA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 31 0.46
72 37 0.54
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (71 bp):
TTGAATCGAAAGTAACGATGCTTCCTTCCATTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCG
TTCTTC
Found at i:2293419 original size:31 final size:31
Alignment explanation
Indices: 2293381--2293565 Score: 336
Period size: 31 Copynumber: 6.0 Consensus size: 31
2293371 GGGTCGAGGG
2293381 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2293412 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2293443 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2293474 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2293505 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
2293536 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
2293566 GTCCTTCGGG
Statistics
Matches: 151, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
31 150 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:2297824 original size:31 final size:31
Alignment explanation
Indices: 2297786--2297970 Score: 336
Period size: 31 Copynumber: 6.0 Consensus size: 31
2297776 GGGTCGAGGG
2297786 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2297817 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2297848 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2297879 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2297910 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
2297941 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
2297971 GTCCTTCGGG
Statistics
Matches: 151, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
31 150 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:2306095 original size:41 final size:42
Alignment explanation
Indices: 2306038--2306122 Score: 154
Period size: 41 Copynumber: 2.0 Consensus size: 42
2306028 CCTTAAAATT
*
2306038 TTTAACATAACTTCTTAAGTTCTCA-CCGGTGCAACCTGACA
1 TTTAACATAACTTCTTAAGTTCGCACCCGGTGCAACCTGACA
2306079 TTTAACATAACTTCTTAAGTTCGCACCCGGTGCAACCTGACA
1 TTTAACATAACTTCTTAAGTTCGCACCCGGTGCAACCTGACA
2306121 TT
1 TT
2306123 CGCACCCAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 24 0.57
42 18 0.43
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (42 bp):
TTTAACATAACTTCTTAAGTTCGCACCCGGTGCAACCTGACA
Found at i:2306128 original size:23 final size:22
Alignment explanation
Indices: 2306098--2306145 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
2306088 ACTTCTTAAG
*
2306098 TTCGCACCCGGTGCAACCTGACA
1 TTCGCACCCAGTGCAACCTGA-A
2306121 TTCGCACCCAGTGCAACCTGAA
1 TTCGCACCCAGTGCAACCTGAA
2306143 TTC
1 TTC
2306146 CTATGTCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
TTCGCACCCAGTGCAACCTGAA
Found at i:2311563 original size:216 final size:219
Alignment explanation
Indices: 2311189--2311664 Score: 663
Period size: 216 Copynumber: 2.2 Consensus size: 219
2311179 CTTGTTTCGT
* * * * *
2311189 GAGGAAATGAAAATGTTTTCTCCTACAAGTCCTTATGGTCTTGCTAGTTTGTTTAGTGATCCTAA
1 GAGGAAATGAACATGTTTTCTCCTAGAAGTCCTTATGGTCTTGCAAATTTGTTTAATGATCCTAA
* * * *
2311254 TTTCTTGGACGAAAATACGGAGTCGGTCTTCGACGAGAAAGGGAGGAATAGCATGGAACATGGAG
66 TTTCTTGGACGAAAATACGGAGTCAGTATTCGACGAGAAAGGGAGGAATAACATGGAACATGGAA
*
2311319 GGAGTTCCTTCAATATTAGGACAAAAAATGATCGA-AC-AAT-TACGAAGTCGCGGTTTAATGAT
131 GGAGTTCCTTCAATATTAAGACAAAAAATGATCGACACTAATGTACGAAGTCGCGGTTTAATGAT
** *
2311381 GGCTTTCAACGACAGTCAGGAAGG
196 ACCTTTCAACGACAGTCAAGAAGG
2311405 GAGGAAATGAACATGTTTTCTCCTAGAAGTCCTTATGGTCTTGCAAATTTGTTTAATGATCCTAA
1 GAGGAAATGAACATGTTTTCTCCTAGAAGTCCTTATGGTCTTGCAAATTTGTTTAATGATCCTAA
* *
2311470 TTTCTTGGACGAAAATCCGGAGTCAGTATTGGACGAGAAAGGGAGGAATAACATGGAACATGGAA
66 TTTCTTGGACGAAAATACGGAGTCAGTATTCGACGAGAAAGGGAGGAATAACATGGAACATGGAA
* * ** * * *
2311535 TGAGTTCCTTCAATATTAAGACAAAAAATGATGGAGCACTTCGTGGTATGAAGTCTCGGTTTAGT
131 GGAGTTCCTTCAATATTAAGACAAAAAATGATCGA-CAC-TAAT-GTACGAAGTCGCGGTTTAAT
2311600 GATACCTTTCAACGACAGTCAAGAAGG
193 GATACCTTTCAACGACAGTCAAGAAGG
* * * *
2311627 GAGGAAATGAACAGGTTGTCTCCAAGAACTCCTT-TGGT
1 GAGGAAATGAACATGTTTTCTCCTAGAAGTCCTTATGGT
2311665 TGGATGAAAT
Statistics
Matches: 228, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
216 151 0.66
218 2 0.01
220 1 0.00
221 4 0.02
222 70 0.31
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (219 bp):
GAGGAAATGAACATGTTTTCTCCTAGAAGTCCTTATGGTCTTGCAAATTTGTTTAATGATCCTAA
TTTCTTGGACGAAAATACGGAGTCAGTATTCGACGAGAAAGGGAGGAATAACATGGAACATGGAA
GGAGTTCCTTCAATATTAAGACAAAAAATGATCGACACTAATGTACGAAGTCGCGGTTTAATGAT
ACCTTTCAACGACAGTCAAGAAGG
Found at i:2312287 original size:28 final size:28
Alignment explanation
Indices: 2312236--2312359 Score: 223
Period size: 28 Copynumber: 4.5 Consensus size: 28
2312226 CTTTATTTTG
2312236 TTCGGGTCGGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATA
2312263 TTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATA
*
2312291 TTCGGGTCGGGTTTTTTTAAGTGTGCTA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATA
*
2312319 TTCGGGTCGGGTTTTTTTAAGTGTGCTA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATA
2312347 TTCGGGTCGGGTT
1 TTCGGGTCGGGTT
2312360 AGGTTCGGGT
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
27 11 0.12
28 84 0.88
ACGTcount: A:0.11, C:0.10, G:0.34, T:0.45
Consensus pattern (28 bp):
TTCGGGTCGGGTTTTTTTAAGTGTGATA
Found at i:2312984 original size:18 final size:18
Alignment explanation
Indices: 2312948--2313011 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
2312938 ATGAAATTTT
2312948 ATTCCAATTCCTT-ACAG
1 ATTCCAATTCCTTCACAG
2312965 ATTCCAATTCCTTCACAG
1 ATTCCAATTCCTTCACAG
2312983 ATTCCAATTCCTTCACAG
1 ATTCCAATTCCTTCACAG
*
2313001 ATTACAATTCC
1 ATTCCAATTCC
2313012 CTCATAAACA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
17 13 0.29
18 32 0.71
ACGTcount: A:0.30, C:0.31, G:0.05, T:0.34
Consensus pattern (18 bp):
ATTCCAATTCCTTCACAG
Found at i:2313378 original size:57 final size:57
Alignment explanation
Indices: 2313288--2313403 Score: 137
Period size: 57 Copynumber: 2.0 Consensus size: 57
2313278 GTCGGGATGG
* * * *
2313288 GAGGAAATGGACAAGTTCTCACCTAGAACTCCTTATGGTATTGCTA-ATTTGTTTCGT
1 GAGGAAATGGAAAAGTTCTCACCAAGAACTCCTTACGGTATTGCTAGA-TTGTTTAGT
* * *
2313345 GAGGAAAT-GAAAATGTTTTCACCAAGAAGTCCTTACGGTCTTGCTAGATTGTTTAGT
1 GAGGAAATGGAAAA-GTTCTCACCAAGAACTCCTTACGGTATTGCTAGATTGTTTAGT
2313402 GA
1 GA
2313404 TCGTAATTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 4 0.08
57 45 0.90
58 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (57 bp):
GAGGAAATGGAAAAGTTCTCACCAAGAACTCCTTACGGTATTGCTAGATTGTTTAGT
Found at i:2313553 original size:278 final size:277
Alignment explanation
Indices: 2313045--2314063 Score: 1226
Period size: 278 Copynumber: 3.7 Consensus size: 277
2313035 AACGCCACGT
* * * * *
2313045 TGGTATTTCTAATCTGTTTAAG-GAGGAAATGAAAATGTTTTCTCCTAGAAGTCCTTATGGTCTT
1 TGGTATTGCTAATTTGTTT-CGTGAGGAAATGAAAATGTTTTCTCCCAGAAGTCCTTACGGTCTT
* * ** * * * *
2313109 GCTAGTTTGTTTAGTGATAGTAATTTCTCGGACCAAAATTCAAAGTCAATCTTCGACGAGGAAGG
65 GCTAGATTGTTTAGTAATCCTAATTTCTTGGACGAAAATCCAAAGTCGATCTTCGACGAGGAAGG
* * *
2313174 GAGGAATGGCATGGAACATGGAGGGAGTTCCTCCAATATCGAGACTGCAAATGATCGAGCACTTG
130 GAGGAATAGCATGGAACATGGAGGGAGTTCCTCCAATATAGAGACTGAAAATGATCGAGCACTTG
* * * *
2313239 CTGAAATGAATTCGTGGTCGAGTGATAGCTTCAAGAACAGTCGGGATGGGAGGAAATGGACAAGT
195 CTGATATGAATT-TTTGTCGAGTGATAGCTTCAAGAACAGTCGGGAAGGGAGGAAATGGACAAGT
*
2313304 TCTCACCTAGAACTCCTTA
259 TTTCACCTAGAACTCCTTA
* *
2313323 TGGTATTGCTAATTTGTTTCGTGAGGAAATGAAAATGTTTTCACCAAGAAGTCCTTACGGTCTTG
1 TGGTATTGCTAATTTGTTTCGTGAGGAAATGAAAATGTTTTCTCCCAGAAGTCCTTACGGTCTTG
* * * * * * *
2313388 CTAGATTGTTTAGTGATCGTAATTTCTTTGATGAAAATCCAAAGTCGATTTTTGACGAGGAATGG
66 CTAGATTGTTTAGTAATCCTAATTTCTTGGACGAAAATCCAAAGTCGATCTTCGACGAGGAAGGG
* * *
2313453 AGGAATGGCATGGAACA-GGAGGGAGTTCCTCCAATAAAGAGA-TGGAAAATGATCGAGCACTTT
131 AGGAATAGCATGGAACATGGAGGGAGTTCCTCCAATATAGAGACT-GAAAATGATCGAGCACTTG
*
2313516 CTGATATGAATTTATTGTCGAGTGATAGCTCTCAAGAACAGTCGAGAAGGGAGGAAATGGACAAG
195 CTGATATGAATTT-TTGTCGAGTGATAGCT-TCAAGAACAGTCGGGAAGGGAGGAAATGGACAAG
2313581 TTTTCACCTAGAACTCCTTA
258 TTTTCACCTAGAACTCCTTA
* * * * *
2313601 TGGTATTGCTAATTTG-TTCTTTGAGGAAATGAAAATGTTTTCTCCCAGAAGTTCGTATGGACTT
1 TGGTATTGCTAATTTGTTTC-GTGAGGAAATGAAAATGTTTTCTCCCAGAAGTCCTTACGGTCTT
* *** * * *
2313665 CCTA-ATTTGTTTAGTAATCCTAATTTCTTGGACGAAAATCGGGAGTC-AGTTTTCAACAAGGAA
65 GCTAGA-TTGTTTAGTAATCCTAATTTCTTGGACGAAAATCCAAAGTCGA-TCTTCGACGAGGAA
* * * * * *
2313728 GGGAGGAATAGCATTGAACGTGTAGGGAATTCCTCCAATATAGAGACTGTAAATGATCGTGCACT
128 GGGAGGAATAGCATGGAACATGGAGGGAGTTCCTCCAATATAGAGACTGAAAATGATCGAGCACT
* * ** * * *
2313793 TGATAATACAAATTGTCTATCGAGTGATAGCTTTCAAGAACAGTCGGGAAGGGAGGAAATGGACT
193 TGCTGATATGAATT-TTTGTCGAGTGATAGC-TTCAAGAACAGTCGGGAAGGGAGGAAATGGACA
* * *
2313858 GGTTTTCTCCTAGAGCTCCTTA
256 AGTTTTCACCTAGAACTCCTTA
*
2313880 TGGTATTGCTAATTTGTTTCGTGAGGAAATGAAAATGTTTTCTCCCAGAAGTCCTTACAGTCTTG
1 TGGTATTGCTAATTTGTTTCGTGAGGAAATGAAAATGTTTTCTCCCAGAAGTCCTTACGGTCTTG
* * * * * *
2313945 CTAGTTTGTTTAGTAATCCTAATTTCTTGGACGAAAATCCGAAGACGGTCTTCGATGAGAAAGGG
66 CTAGATTGTTTAGTAATCCTAATTTCTTGGACGAAAATCCAAAGTCGATCTTCGACGAGGAAGGG
* * * *
2314010 AGGAATAG-ATGGATCATGGAGGGAGTTCCTCCCATGTCGAGA-TCGAAAATGATC
131 AGGAATAGCATGGAACATGGAGGGAGTTCCTCCAATATAGAGACT-GAAAATGATC
2314064 TGCCGAGTGA
Statistics
Matches: 634, Mismatches: 92, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
276 1 0.00
277 73 0.12
278 331 0.52
279 223 0.35
280 6 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (277 bp):
TGGTATTGCTAATTTGTTTCGTGAGGAAATGAAAATGTTTTCTCCCAGAAGTCCTTACGGTCTTG
CTAGATTGTTTAGTAATCCTAATTTCTTGGACGAAAATCCAAAGTCGATCTTCGACGAGGAAGGG
AGGAATAGCATGGAACATGGAGGGAGTTCCTCCAATATAGAGACTGAAAATGATCGAGCACTTGC
TGATATGAATTTTTGTCGAGTGATAGCTTCAAGAACAGTCGGGAAGGGAGGAAATGGACAAGTTT
TCACCTAGAACTCCTTA
Found at i:2319398 original size:64 final size:63
Alignment explanation
Indices: 2319143--2319416 Score: 236
Period size: 64 Copynumber: 4.3 Consensus size: 63
2319133 TCTTTCAATG
* * * * *
2319143 AAGGTATGCATCGATGCAGTA-CTTGTGCATCGGTGCATAAAATGAATTCGATGTT-TCCTTATT
1 AAGG-ATGCATCGATGCA-TACCTTATGCATCGATGCATCAAATGCATTCGATGTTCTTCTT-TT
2319206 A
63 A
* * * * *
2319207 ATGAGATACATCGATGCATACCTTATGCATCGATGCA-CTAATTGCATTTGATGTTCTAT-TATT
1 AAG-GATGCATCGATGCATACCTTATGCATCGATGCATC-AAATGCATTCGATGTTCT-TCTTTT
2319270 A
63 A
* * ** * * *
2319271 ATGGGATGCATTGATGCACT-CCTTATGCATCGATGCATTGATTGCATTCGATGTTATTATTTTA
1 A-AGGATGCATCGATGCA-TACCTTATGCATCGATGCATCAAATGCATTCGATGTTCTTCTTTT-
2319335 A
63 A
* *
2319336 AAGGATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTCTTTTA
1 AAGGATGCATCGATGCA-TACCTTATGCATCGATGCATCAAATGCATTCGATGTTCTTCTTTTA
2319399 AAGGAATGCATCGATGCA
1 AAGG-ATGCATCGATGCA
2319417 CTTATGAATG
Statistics
Matches: 170, Mismatches: 28, Indels: 24
0.77 0.13 0.11
Matches are distributed among these distances:
63 8 0.05
64 154 0.91
65 8 0.05
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (63 bp):
AAGGATGCATCGATGCATACCTTATGCATCGATGCATCAAATGCATTCGATGTTCTTCTTTTA
Found at i:2325544 original size:32 final size:32
Alignment explanation
Indices: 2325503--2325564 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2325493 TGCAGTCAGT
*
2325503 CCAAATATGTCTTAATATTGGATTAATCAAAA
1 CCAAATATGTCCTAATATTGGATTAATCAAAA
2325535 CCAAATATGTCCTAATATTGGATTAATCAA
1 CCAAATATGTCCTAATATTGGATTAATCAA
2325565 CATTTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (32 bp):
CCAAATATGTCCTAATATTGGATTAATCAAAA
Found at i:2341219 original size:5 final size:5
Alignment explanation
Indices: 2341187--2341216 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
2341177 TATGTTTATA
*
2341187 GAAGT GAAGT GAAGT GAAGT GAAGT AAAGT
1 GAAGT GAAGT GAAGT GAAGT GAAGT GAAGT
2341217 AAACTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (5 bp):
GAAGT
Found at i:2344064 original size:35 final size:36
Alignment explanation
Indices: 2344025--2344096 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
2344015 TGTTATGTTT
2344025 TGGTTT-CGTTTTATCACACGA-GTTTAAAAAATAAA
1 TGGTTTACGTTTTATCACACGATG-TTAAAAAATAAA
** * *
2344060 TGGTTTATTTTTTATTACATGATGTTAAAAAATAAA
1 TGGTTTACGTTTTATCACACGATGTTAAAAAATAAA
2344096 T
1 T
2344097 AAAATTGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 6 0.19
36 24 0.77
37 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (36 bp):
TGGTTTACGTTTTATCACACGATGTTAAAAAATAAA
Found at i:2347369 original size:19 final size:19
Alignment explanation
Indices: 2347345--2347415 Score: 97
Period size: 19 Copynumber: 3.6 Consensus size: 19
2347335 GCGATTTTGA
2347345 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
2347364 AAAATGTGTTGCGATAATT
1 AAAATGTGTTGCGATAGTT
*
2347383 AAAATGTGTTGCGAGAGTTT
1 AAAATGTGTTGCGATAG-TT
2347403 GAAAAATGTGTTG
1 --AAAATGTGTTG
2347416 TTGCGATAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 33 0.72
20 2 0.04
22 11 0.24
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:2347905 original size:20 final size:20
Alignment explanation
Indices: 2347882--2347986 Score: 97
Period size: 20 Copynumber: 5.2 Consensus size: 20
2347872 TATTATCACA
*
2347882 TTGCGATAGTCAGAATCACG
1 TTGCGATAGTCAGAATCGCG
**
2347902 TTGCGATTATGT-ATTATCGCG
1 TTGCGA-TA-GTCAGAATCGCG
2347923 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* * **
2347943 TTGCAATTTTGT-ATTATCGCG
1 TTGCGA--TAGTCAGAATCGCG
2347964 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
2347984 TTG
1 TTG
2347987 TGATTTACAT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
19 5 0.08
20 30 0.45
21 26 0.39
22 5 0.08
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:2347926 original size:21 final size:21
Alignment explanation
Indices: 2347900--2347970 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
2347890 GTCAGAATCA
2347900 CGTTGCGATTATGTATTATCG
1 CGTTGCGATTATGTATTATCG
**
2347921 CGTTGCGA-TA-GTCAGAATCG
1 CGTTGCGATTATGT-ATTATCG
* *
2347941 CGTTGCAATTTTGTATTATCG
1 CGTTGCGATTATGTATTATCG
2347962 CGTTGCGAT
1 CGTTGCGAT
2347971 AGTCAGAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 14 0.35
21 22 0.55
22 2 0.05
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTATGTATTATCG
Found at i:2347927 original size:41 final size:41
Alignment explanation
Indices: 2347854--2348160 Score: 312
Period size: 41 Copynumber: 7.4 Consensus size: 41
2347844 AAATTTGAAA
* * * *
2347854 AATCGCATTGTGATTTTGTATTATCACATTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* *
2347895 AATCACGTTGCGATTATGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
*
2347936 AATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* ** *** ** *
2347977 AATCGCGTTGTGA-TTTACA-TATTCTTATTGCGATTTTCTAA
1 AATCGCGTTGCGATTTTGTATTA-TCGCGTTGCGATAGTC-AG
*** * * *
2348018 AATCGCAACAACGCGATTCTGTATTATCTCGTTGTGATAGTCAG
1 AATCG---CGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* **
2348062 AATCGCGTTGCAAATTTTGTATTATCATGTTGCGATAGTCAG
1 AATCGCGTTGC-GATTTTGTATTATCGCGTTGCGATAGTCAG
*
2348104 AATCGCGTTGTGATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
2348145 AATCGCGTTGCGATTT
1 AATCGCGTTGCGATTT
2348161 ACATATTCGT
Statistics
Matches: 213, Mismatches: 45, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.01
40 15 0.07
41 135 0.63
42 35 0.16
44 10 0.05
45 14 0.07
46 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (41 bp):
AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
Found at i:2348147 original size:168 final size:167
Alignment explanation
Indices: 2347865--2348191 Score: 528
Period size: 168 Copynumber: 2.0 Consensus size: 167
2347855 ATCGCATTGT
* * *
2347865 GATTTTGTATTATCACATTGCGATAGTCAGAATCACGTTGCGATTATGTATTATCGCGTTGCGAT
1 GATTCTGTATTATCACATTGCGATAGTCAGAATCACGTTGCAATTATGTATTATCACGTTGCGAT
*
2347930 AGTCAGAATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGTGATTTAC
66 AGTCAGAATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTAC
*
2347995 ATATTCTTATTGCGATTTTCTAAAATCGCAACAACGC
131 ATATTCGTATTGCGATTTTCTAAAATCGCAACAACGC
* * * * * *
2348032 GATTCTGTATTATCTCGTTGTGATAGTCAGAATCGCGTTGCAAATTTTGTATTATCATGTTGCGA
1 GATTCTGTATTATCACATTGCGATAGTCAGAATCACGTTGC-AATTATGTATTATCACGTTGCGA
**
2348097 TAGTCAGAATCGCGTTGTGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTA
65 TAGTCAGAATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTA
2348162 CATATTCGTATTGCGATTTTCTAAAATCGC
130 CATATTCGTATTGCGATTTTCTAAAATCGC
2348192 GTTACGAATC
Statistics
Matches: 146, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
167 36 0.25
168 110 0.75
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (167 bp):
GATTCTGTATTATCACATTGCGATAGTCAGAATCACGTTGCAATTATGTATTATCACGTTGCGAT
AGTCAGAATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTAC
ATATTCGTATTGCGATTTTCTAAAATCGCAACAACGC
Found at i:2348151 original size:20 final size:20
Alignment explanation
Indices: 2348090--2348298 Score: 79
Period size: 20 Copynumber: 10.3 Consensus size: 20
2348080 GTATTATCAT
2348090 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* * **
2348110 GTTGTGATTTTGT-ATTATCGC
1 GTTGCGA--TAGTCAGAATCGC
2348131 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* * * *
2348151 GTTGCGAT-TTACATATTCGT
1 GTTGCGATAGT-CAGAATCGC
* ** *
2348171 ATTGCGATTTTCTAAAATCGC
1 GTTGCGATAGTC-AGAATCGC
* * * *
2348192 GTTACGA-A-TCTGGAAACTGA
1 GTTGCGATAGTC-AGAATC-GC
* * *
2348212 TTTGCGATACT-GGAGATCGC
1 GTTGCGATAGTCAGA-ATCGC
2348232 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* * *
2348252 GTTGCGAT-TTACATATTCGC
1 GTTGCGATAGT-CAGAATCGC
** *
2348272 AATGCGATAGTCAAAATCGC
1 GTTGCGATAGTCAGAATCGC
2348292 GTTGCGA
1 GTTGCGA
2348299 ATCTGGAAAC
Statistics
Matches: 136, Mismatches: 40, Indels: 26
0.67 0.20 0.13
Matches are distributed among these distances:
19 11 0.08
20 91 0.67
21 30 0.22
22 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:2359493 original size:25 final size:25
Alignment explanation
Indices: 2359465--2359512 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2359455 TTTTTTATTT
*
2359465 AAAAAACTT-ATAATTTTTAATTTTG
1 AAAAAACTTAAT-ATTCTTAATTTTG
*
2359490 AAAAACCTTAATATTCTTAATTT
1 AAAAAACTTAATATTCTTAATTT
2359513 CTCTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (25 bp):
AAAAAACTTAATATTCTTAATTTTG
Found at i:2364158 original size:2 final size:2
Alignment explanation
Indices: 2364151--2364207 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
2364141 AGAGATAGCT
2364151 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
2364193 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
2364208 GTAGTTAGTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2367915 original size:71 final size:71
Alignment explanation
Indices: 2367837--2368195 Score: 367
Period size: 71 Copynumber: 5.0 Consensus size: 71
2367827 GTAAGTATCG
* *
2367837 ATACTTTTTCACAAGTAT-AGATACTTTCTAATTTTAAAAAAAATAGAAAATGAGAAAGCTGCAA
1 ATACTTTTTCACAAATATCA-ATACTTTCAAATTTTAAAAAAAATAGAAAATGAGAAAGCTGCAA
2367901 AGTATT-A
65 AGT-TTCA
* * * *
2367908 ATACTTTTCCACAAATATCGATACTTTCAAATTTTTTTAAAAAAATAGAAAATGA-AAATGTTGC
1 ATACTTTTTCACAAATATCAATACTTTCAAA--TTTTAAAAAAAATAGAAAATGAGAAA-GCTGC
2367972 AAAGTTTCA
63 AAAGTTTCA
* *
2367981 ATA-TTTTTCCATAAATATCAATACTTTCTAA-TTTAAAAAAACAT-GTAAAATGA-AAAGGC-G
1 ATACTTTTT-CACAAATATCAATACTTTCAAATTTTAAAAAAA-ATAG-AAAATGAGAAA-GCTG
** *
2368041 GTAAGTTACA
62 CAAAGTTTCA
* * * *
2368051 ATACTTTTCCATAAATATCAATACTTTCAAATTTTAAAAAAAAT-GAAAAATGAGAAAACTGTAA
1 ATACTTTTTCACAAATATCAATACTTTCAAATTTTAAAAAAAATAG-AAAATGAGAAAGCTGCAA
2368115 AGTTTCA
65 AGTTTCA
* * * *
2368122 ATATTTTTTCACAAATATCAATACTTTCGAATTTTAAAAAATATATAGAAAATGAGAAGGTTGCA
1 ATACTTTTTCACAAATATCAATACTTTCAAATTTTAAAAAA-A-ATAGAAAATGAGAAAGCTGCA
*
2368187 AAGTATCA
64 AAGTTTCA
2368195 A
1 A
2368196 ATTTTTTTTA
Statistics
Matches: 241, Mismatches: 32, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
70 53 0.22
71 101 0.42
72 10 0.04
73 76 0.32
74 1 0.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (71 bp):
ATACTTTTTCACAAATATCAATACTTTCAAATTTTAAAAAAAATAGAAAATGAGAAAGCTGCAAA
GTTTCA
Found at i:2368020 original size:143 final size:144
Alignment explanation
Indices: 2367841--2368192 Score: 411
Period size: 143 Copynumber: 2.5 Consensus size: 144
2367831 GTATCGATAC
*
2367841 TTTTT-CACAAGTAT-AGATACTTTCTAATTTTAAAAAAA-ATAGAAAATGAGAAAGCTGCAAAG
1 TTTTTCCACAAATATCA-ATACTTTCTAATTTTAAAAAAACATAGAAAATGAGAAAGCTGCAAAG
* * *
2367903 TAT-TAATACTTTTCCACAAATATCGATACTTTCAAATTTTTTTAAAAAAAT-AGAAAATGA-AA
65 TATACAATACTTTTCCACAAATATCAATACTTTCAAA--TTTTAAAAAAAATGA-AAAATGAGAA
**
2367965 ATGTTGCAAAGTTTCAATA
127 A-ACTGCAAAGTTTCAATA
* **
2367984 TTTTTCCATAAATATCAATACTTTCTAA-TTTAAAAAAACAT-GTAAAATGA-AAAGGC-GGTAA
1 TTTTTCCACAAATATCAATACTTTCTAATTTTAAAAAAACATAG-AAAATGAGAAA-GCTGCAAA
*
2368045 GT-TACAATACTTTTCCATAAATATCAATACTTTCAAATTTTAAAAAAAATGAAAAATGAGAAAA
64 GTATACAATACTTTTCCACAAATATCAATACTTTCAAATTTTAAAAAAAATGAAAAATGAGAAAA
*
2368109 CTGTAAAGTTTCAATA
129 CTGCAAAGTTTCAATA
* * * * *
2368125 TTTTTTCACAAATATCAATACTTTCGAATTTTAAAAAATATATAGAAAATGAGAAGGTTGCAAAG
1 TTTTTCCACAAATATCAATACTTTCTAATTTTAAAAAA-ACATAGAAAATGAGAAAGCTGCAAAG
2368190 TAT
65 TAT
2368193 CAAATTTTTT
Statistics
Matches: 176, Mismatches: 19, Indels: 26
0.80 0.09 0.12
Matches are distributed among these distances:
141 58 0.33
142 14 0.08
143 65 0.37
144 37 0.21
145 2 0.01
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.34
Consensus pattern (144 bp):
TTTTTCCACAAATATCAATACTTTCTAATTTTAAAAAAACATAGAAAATGAGAAAGCTGCAAAGT
ATACAATACTTTTCCACAAATATCAATACTTTCAAATTTTAAAAAAAATGAAAAATGAGAAAACT
GCAAAGTTTCAATA
Found at i:2368618 original size:100 final size:100
Alignment explanation
Indices: 2368443--2368641 Score: 319
Period size: 100 Copynumber: 2.0 Consensus size: 100
2368433 GTAATAACAA
* * *
2368443 TTACAACTTAACCGGTTAAAATAAAATAGGTGCAACCTATTACGTTAAGCCAGCTACTTGTTTGT
1 TTACAACTTAACCGATTAAAATAAAATAGGTGCAACCTATTACGTTAAACCAGCTACTGGTTTGT
* *
2368508 TTAAATGTATAATAATAATGTAAACGATAAAATAT
66 TTAAAAGTATAATAATAATGTAAAAGATAAAATAT
*
2368543 TTACAACTTAACCGATTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTA-TCGGTTTG
1 TTACAACTTAACCGATTAAAATAAAATAGGTGCAACCTATTACGTTAAACCAGCTACT-GGTTTG
*
2368607 TTTAAAAGTATAATAATAATGTAAAAGGTAAAATA
65 TTTAAAAGTATAATAATAATGTAAAAGATAAAATA
2368642 AAATATGTGC
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 1 0.01
100 90 0.99
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (100 bp):
TTACAACTTAACCGATTAAAATAAAATAGGTGCAACCTATTACGTTAAACCAGCTACTGGTTTGT
TTAAAAGTATAATAATAATGTAAAAGATAAAATAT
Found at i:2368652 original size:76 final size:75
Alignment explanation
Indices: 2368559--2368747 Score: 272
Period size: 76 Copynumber: 2.5 Consensus size: 75
2368549 CTTAACCGAT
* *
2368559 TAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTATCGGTTTGTTTAAAAGTATAATAAT
1 TAAAATAAAATA-GTGCAACCTATTACGTTAAACTAGCTACCGGTTTATTTAAAAGTATAATAAT
*
2368624 AATGTAAAAGG
65 AATGTAAAAGA
* * *
2368635 TAAAATAAAATATGTGCAACATATTATGTTAAACTAGCTACCGGTTTATTTAAAGGTATAATAAT
1 TAAAATAAAATA-GTGCAACCTATTACGTTAAACTAGCTACCGGTTTATTTAAAAGTATAATAAT
*
2368700 AATGTAAACGA
65 AATGTAAAAGA
2368711 TAAAATAAAATAGACT-CAACCTATTACGTTAAACTAG
1 TAAAATAAAATAG--TGCAACCTATTACGTTAAACTAG
2368748 AAACCTATTA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
75 1 0.01
76 99 0.98
77 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (75 bp):
TAAAATAAAATAGTGCAACCTATTACGTTAAACTAGCTACCGGTTTATTTAAAAGTATAATAATA
ATGTAAAAGA
Found at i:2368754 original size:21 final size:21
Alignment explanation
Indices: 2368728--2368789 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
2368718 AAATAGACTC
2368728 AACCTATTACGTTAAACTAGA
1 AACCTATTACGTTAAACTAGA
* *
2368749 AACCTATTACGTTAAATTAAA
1 AACCTATTACGTTAAACTAGA
*
2368770 AATCTATTACGTTAAACTAG
1 AACCTATTACGTTAAACTAG
2368790 CTACCGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (21 bp):
AACCTATTACGTTAAACTAGA
Found at i:2368915 original size:27 final size:27
Alignment explanation
Indices: 2368885--2368938 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
2368875 TGTTTAAAGG
2368885 TATAATAATAAAGTAAATTGTATTTAC
1 TATAATAATAAAGTAAATTGTATTTAC
*
2368912 TATAATAATAATGTAAATTGTATTTAC
1 TATAATAATAAAGTAAATTGTATTTAC
2368939 AACTTAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
TATAATAATAAAGTAAATTGTATTTAC
Found at i:2378074 original size:29 final size:29
Alignment explanation
Indices: 2377982--2378068 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
2377972 CTATAATCGA
2377982 GAGACTATTTTGTAATTTTTAATAGTTGG
1 GAGACTATTTTGTAATTTTTAATAGTTGG
*
2378011 GAGACTATTTTATAATTTTTAATAGTTGG
1 GAGACTATTTTGTAATTTTTAATAGTTGG
* *
2378040 GAGACTATTTTGTAACTTTTAATAATTGG
1 GAGACTATTTTGTAATTTTTAATAGTTGG
2378069 AGGACTTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (29 bp):
GAGACTATTTTGTAATTTTTAATAGTTGG
Found at i:2383041 original size:48 final size:47
Alignment explanation
Indices: 2382968--2383061 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 47
2382958 ATTCGTATTC
* * * *
2382968 CAATGATAGAGATCGAAGATGAAGGTTTTCATAGGAAGAATGATAAAA
1 CAATGACAGAGATCAAAGATAAAGGTTTTCA-AAGAAGAATGATAAAA
2383016 CAATGACAGAGATCAAAGATAAAGGTTTTCAAAGAAGAATGATAAA
1 CAATGACAGAGATCAAAGATAAAGGTTTTCAAAGAAGAATGATAAA
2383062 GAAGAATACG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 14 0.33
48 28 0.67
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.21
Consensus pattern (47 bp):
CAATGACAGAGATCAAAGATAAAGGTTTTCAAAGAAGAATGATAAAA
Found at i:2383958 original size:20 final size:20
Alignment explanation
Indices: 2383933--2383980 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
2383923 ACTTCGACTA
2383933 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
2383953 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
2383973 TCGCATTG
1 TCGCATTG
2383981 TGATAGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:2384003 original size:61 final size:61
Alignment explanation
Indices: 2383933--2384069 Score: 140
Period size: 61 Copynumber: 2.2 Consensus size: 61
2383923 ACTTCGACTA
* * *
2383933 TCGCATTGCGATTTAC-ATA-TTCGCATTGCGA-TTTACATATTCGCATTGTGATAGTTC-AAGT
1 TCGCGTTGCGATTTACGA-AGTTCGCATTGCGATTTTACAAATTCG--TTGCGATAG-TCGAAGT
* * *
2383994 TCGCGTTGCGATAGT-CGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGAT-TTACGAAGTTCGCATTGCGATTTTACAAATTCGTTGCGATAGTCGAAGT
2384055 TCGCGTTGCGATTTA
1 TCGCGTTGCGATTTA
2384070 TTTCAAATTC
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
60 3 0.05
61 37 0.59
62 13 0.21
63 10 0.16
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (61 bp):
TCGCGTTGCGATTTACGAAGTTCGCATTGCGATTTTACAAATTCGTTGCGATAGTCGAAGT
Found at i:2384006 original size:21 final size:21
Alignment explanation
Indices: 2383972--2384066 Score: 106
Period size: 21 Copynumber: 4.6 Consensus size: 21
2383962 GATTTACATA
* *
2383972 TTCGCATTGTGATAGTTC-AAG
1 TTCGCGTTGCGATAG-TCGAAG
2383993 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
** * *
2384014 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCGAAG
2384035 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
2384054 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
2384067 TTATTTCAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 15 0.25
20 2 0.03
21 44 0.72
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:2384042 original size:19 final size:19
Alignment explanation
Indices: 2384018--2384087 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 19
2384008 TCGAAGTTCG
2384018 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** * *
2384037 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
*
2384056 CGCGTTGCGATTTATTTCAAATT
1 --CGTTGCGA-TT-TTCCAAATT
2384079 CGTTGCGAT
1 CGTTGCGAT
2384088 AGTCCAAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
19 15 0.39
20 1 0.03
21 16 0.42
22 1 0.03
23 5 0.13
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:2384043 original size:40 final size:42
Alignment explanation
Indices: 2383997--2384091 Score: 167
Period size: 40 Copynumber: 2.3 Consensus size: 42
2383987 TTCAAGTTCG
2383997 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
2384037 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
2384079 CGTTGCGATAGTC
1 CGTTGCGATAGTC
2384092 CAAAATCGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
40 29 0.56
41 2 0.04
42 21 0.40
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:2391497 original size:3 final size:3
Alignment explanation
Indices: 2391483--2391567 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
2391473 GACGTGACAG
* * *
2391483 CTT CTT CCT CTT CTT CTGT -TT TTT CTT TTT CTT CATT CTTT CTT CTGT
1 CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT CTT C-TT C-TT CTT CT-T
* *
2391531 -TT -TT TTT CTT TTT CTT CCTT CTTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT -CTT C-TT CTT CTT CTT CTT C
2391568 AAAGCAATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
2 4 0.06
3 48 0.73
4 14 0.21
ACGTcount: A:0.01, C:0.27, G:0.02, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:2391526 original size:17 final size:16
Alignment explanation
Indices: 2391504--2391567 Score: 62
Period size: 17 Copynumber: 4.0 Consensus size: 16
2391494 TCTTCTGTTT
2391504 TTTCTTTTTCTTCATTC
1 TTTCTTTTTCTTC-TTC
*
2391521 TTTCTTCTGT-TT-TT-
1 TTTCTT-TTTCTTCTTC
2391535 TTTCTTTTTCTTCCTTC
1 TTTCTTTTTCTT-CTTC
*
2391552 TTTCTTCTTCTTCTTC
1 TTTCTTTTTCTTCTTC
2391568 AAAGCAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
13 2 0.05
14 8 0.21
15 2 0.05
16 6 0.15
17 19 0.49
18 2 0.05
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTCTTTTTCTTCTTC
Found at i:2391539 original size:31 final size:29
Alignment explanation
Indices: 2391493--2391559 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 29
2391483 CTTCTTCCTC
2391493 TTCTTCTGTTTTTTCTTTTTCTTCATTCT
1 TTCTTCTGTTTTTTCTTTTTCTTCATTCT
*
2391522 TTCTTCTGTTTTTTTTCTTTTTCTTCCTTCT
1 TTCTTCTG--TTTTTTCTTTTTCTTCATTCT
2391553 TTCTTCT
1 TTCTTCT
2391560 TCTTCTTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 8 0.23
31 27 0.77
ACGTcount: A:0.01, C:0.22, G:0.03, T:0.73
Consensus pattern (29 bp):
TTCTTCTGTTTTTTCTTTTTCTTCATTCT
Found at i:2391554 original size:13 final size:13
Alignment explanation
Indices: 2391491--2391566 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
2391481 AGCTTCTTCC
2391491 TCTTCTTCTGTT-T
1 TCTTCTTCT-TTCT
2391504 T-TTCTT-TTTCT
1 TCTTCTTCTTTCT
*
2391515 TCATTCTTTCTTCTGT
1 TC-TTC-TTCTT-TCT
* *
2391531 TTTTTTTCTTT-T
1 TCTTCTTCTTTCT
2391543 TCTTCCTTCTTTCT
1 TCTT-CTTCTTTCT
2391557 TCTTCTTCTT
1 TCTTCTTCTT
2391567 CAAAGCAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
10 2 0.04
11 3 0.06
12 9 0.18
13 17 0.34
14 12 0.24
15 4 0.08
16 3 0.06
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (13 bp):
TCTTCTTCTTTCT
Found at i:2397821 original size:3 final size:3
Alignment explanation
Indices: 2397813--2397848 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2397803 CCTCCCCGAC
2397813 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2397849 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2401534 original size:20 final size:19
Alignment explanation
Indices: 2401511--2401557 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2401501 CGATATACCA
2401511 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2401531 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2401551 GGTAAAA
1 GGTAAAA
2401558 CGTTAGCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2401645 original size:181 final size:182
Alignment explanation
Indices: 2401299--2401771 Score: 673
Period size: 181 Copynumber: 2.6 Consensus size: 182
2401289 GATCCAAATT
* * * * *
2401299 AAAAATGTGTCGATCCAAAACGATATAATAGGTAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TGAAAATGAT
* * * * *
2401363 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
2401428 CGTGAATTTAAAAGAGAAGCAGTTTTAAGTCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCAATACTTTAA
* *
2401481 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
* * * *
2401546 AAACCGGTAAAACGTTAGCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
2401610 GTGAATTTAAAAGAGAAGCAGTTTT-AGCGCCTATAATGTGTCAATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAG-GCCTATAAAGTGTCAATACTTTAA
* * * *
2401662 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
**
2401727 AAACCGGTAAAATAATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
2401772 CGTAAGTATG
Statistics
Matches: 260, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
180 2 0.01
181 163 0.63
182 95 0.37
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCAATACTTTAA
Found at i:2401711 original size:20 final size:19
Alignment explanation
Indices: 2401683--2401738 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2401673 GATCCACAAC
*
2401683 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
*
2401703 GATAAAACAGGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
2401723 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
2401739 TAATACCGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:2403984 original size:21 final size:21
Alignment explanation
Indices: 2403958--2404022 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2403948 AAGACAATCA
*
2403958 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
2403979 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2404000 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2404021 AG
1 AG
2404023 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2404098 original size:33 final size:33
Alignment explanation
Indices: 2404056--2404121 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2404046 AAATAGATGG
*
2404056 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
2404089 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2404122 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2405937 original size:19 final size:19
Alignment explanation
Indices: 2405913--2405961 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2405903 AATGTAGGGT
2405913 TAATTTTGTATA-AGATTTA
1 TAATTTTGTATACA-ATTTA
2405932 TAATTTTGTATACAATTTA
1 TAATTTTGTATACAATTTA
2405951 TAATTTTGTAT
1 TAATTTTGTAT
2405962 GTGAATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 28 0.97
20 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATACAATTTA
Found at i:2406425 original size:200 final size:200
Alignment explanation
Indices: 2406080--2406656 Score: 1007
Period size: 200 Copynumber: 2.9 Consensus size: 200
2406070 CAATATGGCC
*
2406080 AACAGGGTGCAACCATAAAGTGTCGATTCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
2406145 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2406210 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAA
131 GAATATGTATAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAA
2406275 GGGAA
196 GGGAA
*
2406280 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
2406345 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2406410 GAATATGTTTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAA
131 GAATATGTATAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAA
*
2406475 TGGAA
196 GGGAA
* *
2406480 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCCAAAAACATCAAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
2406545 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
2406610 GAAT-TGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 GAATAT-GTATA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
2406657 CTAATTTAAA
Statistics
Matches: 362, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
199 1 0.00
200 354 0.98
201 7 0.02
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTATAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAA
GGGAA
Found at i:2408134 original size:6 final size:6
Alignment explanation
Indices: 2408123--2408180 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
2408113 CAAGCGGTCA
* * * ** * *
2408123 ATGAAG ATGAAG CTGAAG ATGACG ATGATG ATGGCG ATGAAG CTGACG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
2408171 ATGAAG ATGA
1 ATGAAG ATGA
2408181 TGACGATGAT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.19
Consensus pattern (6 bp):
ATGAAG
Done.