Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 19 of 310
Found at i:4893788 original size:54 final size:54
Alignment explanation
Indices: 4893669--4893799 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
4893659 CATTACATAG
* * ** * *
4893669 GGGCAAAACAGTCATCTTACCATATAAGGGAAAAATAATCATTTTACCTCACAA
1 GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAATCATTTAACCACACAA
* * * *
4893723 GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAGTTATTTAATCACACAG
1 GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAATCATTTAACCACACAA
* *
4893777 GGGTAATACAATCATTTTACCAC
1 GGGCAAAACAATCATTTTACCAC
4893800 AAAGAGGCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (54 bp):
GGGCAAAACAATCATTTTACCACGTAAGGGAAAAATAATCATTTAACCACACAA
Found at i:4897103 original size:34 final size:35
Alignment explanation
Indices: 4897029--4897120 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 35
4897019 TTTGTTTGCT
* * *
4897029 TACTG-TACTGAAATGGGCTAAGGCCCAGACTGCC
1 TACTGTTACTAAAATGAGCTAAGGCCCAGACTGCA
* *
4897063 T-TTGTTACTAAAATGAGCTTAGGCCCAGACTG-A
1 TACTGTTACTAAAATGAGCTAAGGCCCAGACTGCA
*
4897096 TACTGTTACTGAAAAAGAGGCTAAG
1 TACTGTTACT-AAAATGA-GCTAAG
4897121 CCCTAACTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
33 3 0.07
34 32 0.70
35 6 0.13
36 5 0.11
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (35 bp):
TACTGTTACTAAAATGAGCTAAGGCCCAGACTGCA
Found at i:4909423 original size:53 final size:53
Alignment explanation
Indices: 4909341--4910241 Score: 1671
Period size: 53 Copynumber: 16.9 Consensus size: 53
4909331 ATAATCTTCA
* * *
4909341 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGTAATCTTAGATATGAT-TGCAATATTAGATATGATACAATCTTAGAT
4909396 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909449 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909502 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909555 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909608 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909661 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909714 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909767 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909820 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909873 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909926 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4909979 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
4910032 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
* *
4910085 ATGATTGTAATC-TAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGAT-TGCAATATTAGATATGATACAATCTTAGAT
4910138 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
* * *
4910191 ATGATTGCAATCTTAGATATGA-TACAATCTTAGATATGATATACAATCTTA
1 ATGATTGTAATCTTAGATATGATTGCAATATTAGATATG--ATACAATCTTA
4910242 AAAGATATGA
Statistics
Matches: 832, Mismatches: 10, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
52 23 0.03
53 768 0.92
54 36 0.04
55 5 0.01
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (53 bp):
ATGATTGTAATCTTAGATATGATTGCAATATTAGATATGATACAATCTTAGAT
Found at i:4910248 original size:17 final size:19
Alignment explanation
Indices: 4909343--4910249 Score: 319
Period size: 18 Copynumber: 51.3 Consensus size: 19
4909333 AATCTTCAAT
* **
4909343 GATATGCAATCTTAGATGT
1 GATATACAATCTTAGATAA
* *
4909362 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAA
*
4909381 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909398 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909416 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909434 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909451 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909469 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909487 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909504 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909522 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909540 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909557 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909575 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909593 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909610 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909628 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909646 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909663 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909681 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909699 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909716 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909734 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909752 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909769 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909787 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909805 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909822 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909840 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909858 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909875 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909893 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909911 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909928 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909946 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4909964 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4909981 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4909999 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4910017 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4910034 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4910052 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4910070 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** **
4910087 GAT-TGTAATC-TAGATGT
1 GATATACAATCTTAGATAA
* *
4910104 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAA
*
4910123 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
** *
4910140 GAT-TGTAATCTTAGATAT
1 GATATACAATCTTAGATAA
* * *
4910158 GAT-TGCAATATTAGATAT
1 GATATACAATCTTAGATAA
*
4910176 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
* *
4910193 GAT-TGCAATCTTAGATAT
1 GATATACAATCTTAGATAA
*
4910211 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAA
4910228 GATATACAATCTTA-A-AA
1 GATATACAATCTTAGATAA
4910245 GATAT
1 GATAT
4910250 GATTTTGTAA
Statistics
Matches: 742, Mismatches: 95, Indels: 104
0.79 0.10 0.11
Matches are distributed among these distances:
17 258 0.35
18 447 0.60
19 37 0.05
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATACAATCTTAGATAA
Found at i:4913445 original size:12 final size:12
Alignment explanation
Indices: 4913428--4913452 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4913418 TAAAGTTATT
4913428 AAAAAGAGAAAG
1 AAAAAGAGAAAG
4913440 AAAAAGAGAAAG
1 AAAAAGAGAAAG
4913452 A
1 A
4913453 GAGAAGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:4916006 original size:16 final size:16
Alignment explanation
Indices: 4915980--4916022 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
4915970 CTTCTATTTC
*
4915980 AAAAGAAAAAAAA-AG
1 AAAAGAAAAAAAAGAA
*
4915995 AGAAGAAAAAAAAGAA
1 AAAAGAAAAAAAAGAA
4916011 AAAAGAAAAAAA
1 AAAAGAAAAAAA
4916023 TAAAAATGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAA
Found at i:4916019 original size:12 final size:11
Alignment explanation
Indices: 4915980--4916028 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 11
4915970 CTTCTATTTC
4915980 AAAAGAAAAAA
1 AAAAGAAAAAA
4915991 AAAGAGAAGAAAA
1 AAA-AGAA-AAAA
4916004 AAAAGAAAAAA
1 AAAAGAAAAAA
4916015 GAAAA-AAATAAA
1 -AAAAGAAA-AAA
4916027 AA
1 AA
4916029 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 12 0.35
12 15 0.44
13 7 0.21
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:4916027 original size:15 final size:14
Alignment explanation
Indices: 4915980--4916028 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
4915970 CTTCTATTTC
4915980 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
*
4915994 GAGAAGAAAAAAAAGAA
1 -AAAAG-AAAAAAA-AA
4916011 AAAAGAAAAAAATAA
1 AAAAGAAAAAAA-AA
4916026 AAA
1 AAA
4916029 TGGAGAGGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.55
16 11 0.38
17 2 0.07
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:4916027 original size:21 final size:21
Alignment explanation
Indices: 4915980--4916028 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4915970 CTTCTATTTC
* *
4915980 AAAAGAAA-AAAAAAGAGAAG
1 AAAAAAAAGAAAAAAGAGAAA
4916000 AAAAAAAAGAAAAAAGA-AAA
1 AAAAAAAAGAAAAAAGAGAAA
4916020 AAATAAAAA
1 AAA-AAAAA
4916029 TGGAGAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAGAGAAA
Found at i:4916027 original size:24 final size:24
Alignment explanation
Indices: 4915980--4916028 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4915970 CTTCTATTTC
*
4915980 AAAAGAAAAAAAAAGAGAAGAAAA
1 AAAAGAAAAAAAAAGAAAAGAAAA
*
4916004 AAAAGAAAAAAGAAA-AAAATAAAA
1 AAAAGAAAAAA-AAAGAAAAGAAAA
4916028 A
1 A
4916029 TGGAGAGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (24 bp):
AAAAGAAAAAAAAAGAAAAGAAAA
Found at i:4917035 original size:44 final size:44
Alignment explanation
Indices: 4916985--4917211 Score: 173
Period size: 44 Copynumber: 5.3 Consensus size: 44
4916975 CGCCTTAATC
4916985 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
* * * ** *** * * *
4917029 CCCTAAGCAATAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTTATTCT
4917070 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
* * * ** *** * * *
4917114 CCCTAAGCAATAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTTATTCT
4917155 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
*
4917199 CCCTAAGAAGTAG
1 CCCTAAGCAGTAG
4917212 TGGAGCAGAT
Statistics
Matches: 128, Mismatches: 45, Indels: 20
0.66 0.23 0.10
Matches are distributed among these distances:
40 4 0.03
41 38 0.30
42 16 0.12
43 16 0.12
44 50 0.39
45 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
Found at i:4917078 original size:41 final size:41
Alignment explanation
Indices: 4917029--4917163 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
4917019 ATCTTATTCT
4917029 CCCTAAGCAATAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 CCCTAAGCAATAGTGGAGCAGATCGAAGACCCGCCTTAATC
* * * ** *** * * *
4917070 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTTATTC
1 CCCTAAGCAATAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC
4917113 TCCCTAAGCAATAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAATAGTGGAGCAGATCGAAGACCCGCCTTAATC
4917155 CCCTAAGCA
1 CCCTAAGCA
4917164 GTAGGGTAAC
Statistics
Matches: 67, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
40 2 0.03
41 28 0.42
42 8 0.12
43 8 0.12
44 19 0.28
45 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
CCCTAAGCAATAGTGGAGCAGATCGAAGACCCGCCTTAATC
Found at i:4917079 original size:85 final size:85
Alignment explanation
Indices: 4916975--4917432 Score: 628
Period size: 85 Copynumber: 5.4 Consensus size: 85
4916965 CAAAATTCAG
4916975 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
4917040 AGTGGAGCAGATCGAAGACC
66 AGTGGAGCAGATCGAAGACC
4917060 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
4917125 AGTGGAGCAGATCGAAGACC
66 AGTGGAGCAGATCGAAGACC
4917145 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAG-AAG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAA-
* *
4917209 TAGTGGAGCAGATTGAAGACT
65 TAGTGGAGCAGATCGAAGACC
* * * * * *
4917230 CGCCTTAATCTCTTAAGCAGTAGGGTAAC-----AAGTTCGCAGATATTA-TCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
* *
4917289 AGCGGAGCAGATCGATGACGACT
66 AGTGGAGCAGATCGA--A-GACC
* * * *
4917312 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTA-TCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
* ** **
4917376 AGTGGAGTAGATTAAAGATG
66 AGTGGAGCAGATCGAAGACC
*
4917396 CGCCTTAA-CCCCTTAAGCAGTAGGGTAATAGGTTAAA
1 CGCCTTAATCCCC-TAAGCAGTAGGGTAACAGGTTAAA
4917433 GTATAGCATA
Statistics
Matches: 337, Mismatches: 25, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
79 24 0.07
80 14 0.04
81 1 0.00
82 31 0.09
83 4 0.01
84 34 0.10
85 193 0.57
87 36 0.11
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (85 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAAT
AGTGGAGCAGATCGAAGACC
Found at i:4917432 original size:41 final size:41
Alignment explanation
Indices: 4917312--4917433 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 41
4917302 GATGACGACT
* *
4917312 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAA-ATTG
1 CGCCTTAA-CCCCTAAGCAGTAGGGTAATAGGTTAAAGATTG
* * * *
4917353 CGGATCTTATCTCCCTAAGCAGTAGTGG-AGTAGATTAAAGA-TG
1 C-G-CCTTAAC-CCCTAAGCAGTAG-GGTAATAGGTTAAAGATTG
4917396 CGCCTTAACCCCTTAAGCAGTAGGGTAATAGGTTAAAG
1 CGCCTTAACCCC-TAAGCAGTAGGGTAATAGGTTAAAG
4917434 TATAGCATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
40 5 0.08
41 26 0.41
42 3 0.05
43 27 0.42
44 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (41 bp):
CGCCTTAACCCCTAAGCAGTAGGGTAATAGGTTAAAGATTG
Found at i:4918053 original size:206 final size:207
Alignment explanation
Indices: 4917557--4918476 Score: 1511
Period size: 207 Copynumber: 4.5 Consensus size: 207
4917547 TGGAAAGCAG
* * * * *
4917557 ATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
4917622 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* *
4917687 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAAATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
4917752 TACAAGGAACAA
196 TACAAGGAACAA
*
4917764 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
4917829 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
4917894 AGTAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGA-CCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
4917958 TACAAGGAACAA
196 TACAAGGAACAA
* * *
4917970 ATTGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * * *
4918035 TCTCTGTATTGCCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAATGGAGGGTAGGCACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
4918100 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
4918165 TACAAGGAACAA
196 TACAAGGAACAA
* *
4918177 ATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * **
4918242 TCTCTGTATTTTCAGAGAGCAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGACAGACTTAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
** * *
4918307 AGCAGATCTAACCTTCAGATGTTTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
4918371 TACAAGGAGCAA
196 TACAAGGAACAA
* * *
4918383 ATCGAAGACATAGCTGATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
4918448 TTTCTGTATTGTCAGGGAACAAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
4918477 AAGCAGATTT
Statistics
Matches: 665, Mismatches: 47, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
206 322 0.48
207 343 0.52
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:4918327 original size:413 final size:413
Alignment explanation
Indices: 4917557--4918476 Score: 1518
Period size: 413 Copynumber: 2.2 Consensus size: 413
4917547 TGGAAAGCAG
* * *
4917557 ATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
*
4917622 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
*
4917687 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAAATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGGTTTGGCATCCTTGTGCT
* * *
4917752 TACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAA
196 TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
4917817 GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
261 GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
* * ** *
4917882 GGGCAGACACATAGTAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGA-CCAAGATGGTTTGG
326 GGACAGACACATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGC-AGATCCAAGATGGTTTGG
4917946 CATCCTTGTGCTTACAAGGAACAA
390 CATCCTTGTGCTTACAAGGAACAA
* * * * *
4917970 ATTGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
* * * *
4918035 TCTCTGTATTGCCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAATGGAGGGTAGGCACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
*
4918100 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGGTTTGGCATCCTTGTGCT
4918165 TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
196 TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
* *
4918230 GATGATTTGGCATCTCTGTATTTTCAGAGAGCAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
261 GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
** *
4918295 GGACAGACTTATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCAGATCCAAGATGGTTTGGT
326 GGACAGACACATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCAGATCCAAGATGGTTTGGC
*
4918360 ATCCTTGTGCTTACAAGGAGCAA
391 ATCCTTGTGCTTACAAGGAACAA
* *
4918383 ATCGAAGACATAGCTGATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
* * *
4918448 TTTCTGTATTGTCAGGGAACAAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
4918477 AAGCAGATTT
Statistics
Matches: 467, Mismatches: 39, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
412 3 0.01
413 464 0.99
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (413 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTGAAGCAAGTATAA
GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGA
GGACAGACACATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCAGATCCAAGATGGTTTGGC
ATCCTTGTGCTTACAAGGAACAA
Found at i:4918908 original size:18 final size:18
Alignment explanation
Indices: 4918841--4919042 Score: 302
Period size: 18 Copynumber: 11.3 Consensus size: 18
4918831 ATAATCTTCA
4918841 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
4918860 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
4918879 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
4918896 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4918914 GTGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4918932 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
4918949 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4918967 GTGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4918985 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
4919002 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4919020 GTGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
4919038 ATGAT
1 ATGAT
4919043 ACTTTGTTCA
Statistics
Matches: 166, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
17 48 0.29
18 97 0.58
19 21 0.13
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:4918928 original size:53 final size:53
Alignment explanation
Indices: 4918841--4919044 Score: 390
Period size: 53 Copynumber: 3.8 Consensus size: 53
4918831 ATAATCTTCA
4918841 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATGTGAT-TGCAATCTTAGATATGATACAATCTTAGAT
4918896 ATGATTGCAATCTTAGATGTGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATGTGATTGCAATCTTAGATATGATACAATCTTAGAT
4918949 ATGATTGCAATCTTAGATGTGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATGTGATTGCAATCTTAGATATGATACAATCTTAGAT
4919002 ATGATTGCAATCTTAGATGTGATTGCAATCTTAGATATGATAC
1 ATGATTGCAATCTTAGATGTGATTGCAATCTTAGATATGATAC
4919045 TTTGTTCATC
Statistics
Matches: 149, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
53 126 0.85
54 18 0.12
55 5 0.03
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (53 bp):
ATGATTGCAATCTTAGATGTGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:4926872 original size:14 final size:13
Alignment explanation
Indices: 4926853--4926886 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4926843 TATATCTAAG
*
4926853 AAAAAAAAAAGGA
1 AAAAAAAAAAAGA
4926866 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
*
4926879 AAAGAAAA
1 AAAAAAAA
4926887 GAGAAGACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:4927993 original size:48 final size:46
Alignment explanation
Indices: 4927941--4928053 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 46
4927931 AATCCACTTA
**
4927941 AAAAAATTTTAACATTTCATATTTAAAATATATATTTTTAA-ACAGAAT
1 AAAAAATTTTAA-ATTAAATATTT-AAA-ATATATTTTTAATACAGAAT
*
4927989 AAAAAATTAAATTAAATTAAATATTTAAAATATATTTTTAATATAGAAT
1 AAAAAATT---TTAAATTAAATATTTAAAATATATTTTTAATACAGAAT
4928038 AAAAAA-TTT-AATTAAA
1 AAAAAATTTTAAATTAAA
4928054 GACAAATAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
44 7 0.12
45 2 0.03
48 21 0.36
49 15 0.26
50 9 0.16
51 4 0.07
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (46 bp):
AAAAAATTTTAAATTAAATATTTAAAATATATTTTTAATACAGAAT
Found at i:4928039 original size:49 final size:50
Alignment explanation
Indices: 4927959--4928053 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
4927949 TTAACATTTC
4927959 ATATTTAAAATATATATTTTTAAACAGAATAAAAAATTAAATTAAATTAA
1 ATATTTAAAATATATATTTTTAAACAGAATAAAAAATTAAATTAAATTAA
* *
4928009 ATATTT-AAA-ATATATTTTTAATATAGAATAAAAAATTTAATTAAA
1 ATATTTAAAATATATATTTTTAA-ACAGAATAAAAAATTAAATTAAA
4928054 GACAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
48 12 0.29
49 24 0.57
50 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (50 bp):
ATATTTAAAATATATATTTTTAAACAGAATAAAAAATTAAATTAAATTAA
Found at i:4935053 original size:27 final size:26
Alignment explanation
Indices: 4934991--4935128 Score: 123
Period size: 27 Copynumber: 5.1 Consensus size: 26
4934981 AGCATGGCTG
*
4934991 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
* *
4935017 CCAAATACAGATAATCGTGACAGAACCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
* *
4935045 CCGGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
4935072 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * * *
4935099 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
4935126 CCA
1 CCA
4935129 AAACGCTTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.04
27 79 0.81
28 15 0.15
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:4935053 original size:54 final size:54
Alignment explanation
Indices: 4934991--4935130 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
4934981 AGCATGGCTG
*
4934991 CCAGAACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTGACAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGACAGAACCA
* * * * * * *
4935045 CCGGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGACAGAACCA
* * * *
4935099 CCAGATCAGATATTTGTGGCATAGCCACCAAA
1 CCAGAACAGATATATGTGACAGAGCCACCAAA
4935131 ACGCTTCCTC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 55 0.76
55 17 0.24
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGACAGAACCA
Found at i:4935297 original size:28 final size:26
Alignment explanation
Indices: 4935238--4935308 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 26
4935228 TTAACCCTAC
* * *
4935238 GGGTATAACAGTAATTTTGCACCTAG
1 GGGTATAATAGTAATTTTCCACATAG
4935264 GGGTATAATAGTAATTTTCCATACATAG
1 GGGTATAATAGTAATTTTCC--ACATAG
*
4935292 GGGTATTATAGTAATTT
1 GGGTATAATAGTAATTT
4935309 AGCTACTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 18 0.46
28 21 0.54
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (26 bp):
GGGTATAATAGTAATTTTCCACATAG
Found at i:4936554 original size:26 final size:26
Alignment explanation
Indices: 4936518--4936592 Score: 141
Period size: 26 Copynumber: 2.9 Consensus size: 26
4936508 NNNNNNNNNN
*
4936518 AACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCTATTATCATGG
4936544 AACATTTACCTAACCTATTATCATGG
1 AACATTTACCTAACCTATTATCATGG
4936570 AACATTTACCTAACCTATTATCA
1 AACATTTACCTAACCTATTATCA
4936593 ATTTGTATCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
AACATTTACCTAACCTATTATCATGG
Found at i:4958644 original size:38 final size:39
Alignment explanation
Indices: 4958553--4958646 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
4958543 CGGTAGCTTT
* * * *
4958553 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCTATACT
1 TGGTGTGTAGGGTTGGATGAGTCGATTATATCCC-ACACA
*
4958593 TGGTGTGTAGGGTTGGATGAGTCGATTTTATCCC-CACA
1 TGGTGTGTAGGGTTGGATGAGTCGATTATATCCCACACA
*
4958631 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
4958647 TCGAAGATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 17 0.35
40 31 0.65
ACGTcount: A:0.15, C:0.11, G:0.36, T:0.38
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGAGTCGATTATATCCCACACA
Found at i:4960092 original size:13 final size:13
Alignment explanation
Indices: 4960074--4960107 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4960064 TAAGTAAATG
*
4960074 TTATTATATTATA
1 TTATTATAGTATA
4960087 TTATTATAGTATA
1 TTATTATAGTATA
*
4960100 ATATTATA
1 TTATTATA
4960108 ATGAAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
TTATTATAGTATA
Found at i:4967049 original size:11 final size:11
Alignment explanation
Indices: 4967035--4967061 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4967025 AATATTAAAA
4967035 ATATATAGAAC
1 ATATATAGAAC
4967046 ATATATAGAAC
1 ATATATAGAAC
4967057 ATATA
1 ATATA
4967062 CAATACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:4969052 original size:73 final size:72
Alignment explanation
Indices: 4968822--4969151 Score: 398
Period size: 73 Copynumber: 4.5 Consensus size: 72
4968812 CGGCATGTGA
* * * * * *
4968822 TCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAAAAACT-AAAGATAT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTTGAAAACAAAAATTGAAA-ATAC
4968885 CTCAACATGTG
64 CTCAAC--GTG
* * * * * *
4968896 AAC-TGAGGCTCAACTCACTTT-TTGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATT
1 -TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAAAAATTGAAAAT
*
4968959 ACCTCAGCGTG
62 ACCTCAACGTG
*
4968970 TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAAAAATTGAAAATACC
4969035 TCAACGTG
65 TCAACGTG
* *
4969043 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATACCT
*
4969108 CAATGTG
66 CAACGTG
4969115 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
4969152 TTCTTTCAAA
Statistics
Matches: 224, Mismatches: 23, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
72 67 0.30
73 72 0.32
74 35 0.16
75 24 0.11
76 22 0.10
77 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (72 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATACCT
CAACGTG
Found at i:4969122 original size:145 final size:147
Alignment explanation
Indices: 4968816--4969631 Score: 472
Period size: 147 Copynumber: 5.4 Consensus size: 147
4968806 CTTACTCGGC
* * *
4968816 ATGTGATCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAAAAACTAAA
1 ATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTAAAAACAAAAACTAAA
* * * *
4968880 GATATCTCAACATGTGAACTGAGGCTCAACTCACTTTTTGCAATATGAGTTGATTTTTTTGACAA
65 GATACCTCAACA-GTGAACTGAGGCTCAACTCACTTTTCGCAATATGAGTTGA-TATTTTGAAAA
4968945 CAGAAATTGAAATTACCTCA
128 CAGAAATTGAAATTACCTCA
** * * *
4968965 GCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTTGAAAAGCAAAAATTGAA
1 ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTT-AAAAACAAAAACT-AA
*
4969029 A-ATACCTCAAC-GTG-TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA-ATTTTGAAA
64 AGATACCTCAACAGTGAAC-TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATATTTTGAAA
4969089 ACAGAAATTGAAATTACCTCA
127 ACAGAAATTGAAATTACCTCA
*
4969110 ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGA
1 ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTT-AAAAAC------A--A
* *** * * *
4969175 AAACAGAAATGGAAAATACCTC-GGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
57 AAAC-TAAA--G---ATACCTCAACAGTGAACTGAGGCTCAACTCACTTTTCGCAATATGAGTTG
* * *
4969239 ATTTTTTTGAGAAACAGAAATCAAAAGGCTTAATTGAAAATACCTCGGC
116 A-TATTTTGA-AAACAG--------A-----AATTGAAATTACCTC--A
* * ** * *
4969288 GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA--ATTAAAATAC-----C-ACA
1 ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTAAAA-ACAAAAACTAAA
* * * * * **
4969345 G-T--GT-----GT-AATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAA
65 GATACCTCAACAGTGAA-CTGAGGCTCAACTCACTTTTCGCAATATGAGTTGA--TATTTTGAAA
*
4969401 ACAGAAATTGAAAATACCTCA
127 ACAGAAATTGAAATTACCTCA
* * * * *
4969422 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT-TTTGAAAACAGAAATTGAAA
1 ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTAAAAACAAAAACT-AAA
* * ** * *
4969486 -TTACCTCAGC-GTGTCCTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGATTTTTTTTAACA
65 GATACCTCAACAGTGAACTGAGGCTCAACTCACTTT-TCGCAATATGAGTTGA-TATTTTGAA-A
4969548 ACAGAAATTGAAATTACCTCA
127 ACAGAAATTGAAATTACCTCA
** * ** *
4969569 GCGTGTCCTGAGGCTCAACTCACCTCTAC-CAATATGAGTTG-AT-TTTGAAAAACAAAAATTAA
1 ATGTGTCTTGAGGCTCAACTCATTTCT-CGCAATATGAGTTGAATCTTT-AAAAACAAAAACTAA
4969631 A
64 A
4969632 AGGCTTAACT
Statistics
Matches: 535, Mismatches: 67, Indels: 133
0.73 0.09 0.18
Matches are distributed among these distances:
134 39 0.07
135 5 0.01
136 15 0.03
141 4 0.01
143 1 0.00
145 68 0.13
146 30 0.06
147 130 0.24
148 10 0.02
149 94 0.18
150 10 0.02
152 1 0.00
153 1 0.00
154 7 0.01
155 1 0.00
159 1 0.00
160 40 0.07
161 4 0.01
162 6 0.01
163 7 0.01
171 1 0.00
175 4 0.01
176 18 0.03
178 38 0.07
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (147 bp):
ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATCTTTAAAAACAAAAACTAAAG
ATACCTCAACAGTGAACTGAGGCTCAACTCACTTTTCGCAATATGAGTTGATATTTTGAAAACAG
AAATTGAAATTACCTCA
Found at i:4969233 original size:88 final size:87
Alignment explanation
Indices: 4969084--4969329 Score: 289
Period size: 88 Copynumber: 2.8 Consensus size: 87
4969074 AGTTGAATTT
* ** * **
4969084 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
4969149 TGA-TTCTTTCAAAAACATAATAA
66 TGATTTCTTTCAAAAACA-AA-AA
* *
4969172 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
4969237 TGATTTTTTTGAGAAACAGAAA
66 TGATTTCTTTCAAAAACAAAAA
* **
4969259 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
4969323 GAGTTGA
62 GAGTTGA
4969330 AATTAAAATA
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
87 7 0.05
88 75 0.55
89 13 0.10
90 41 0.30
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (87 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTCTTTCAAAAACAAAAA
Found at i:4969452 original size:75 final size:74
Alignment explanation
Indices: 4969354--4969614 Score: 366
Period size: 75 Copynumber: 3.5 Consensus size: 74
4969344 AGTGTGTAAT
* * *
4969354 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTAAAACAGAAATTGAAATTACC
*
4969419 TCAACGTGTC
65 TCAGCGTGTC
* ** * * *
4969429 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
4969492 CAGCGTGTC
66 CAGCGTGTC
**
4969501 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATTGAAATTACC
4969566 TCAGCGTGTC
65 TCAGCGTGTC
4969576 CTGAGGCTCAACTCACCTCTAC-CAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCT-CGCAATATGAGTTGATTTT
4969615 GAAAAACAAA
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
72 65 0.39
74 6 0.04
75 94 0.57
76 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
CAGCGTGTC
Found at i:4982780 original size:16 final size:17
Alignment explanation
Indices: 4982745--4982785 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4982735 GTAAAAAAAA
* *
4982745 TTTATTTTTTTTATTTT
1 TTTATTTCTTGTATTTT
4982762 TTTATTTCTTGTATTTT
1 TTTATTTCTTGTATTTT
4982779 TTATATT
1 TT-TATT
4982786 ATACTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTATTTCTTGTATTTT
Found at i:4984771 original size:13 final size:13
Alignment explanation
Indices: 4984753--4984786 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4984743 TAAGTAAATG
4984753 TTATTATATTATA
1 TTATTATATTATA
4984766 TTATTATATTATA
1 TTATTATATTATA
*
4984779 ATATTATA
1 TTATTATA
4984787 ATGAAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:4988836 original size:6 final size:6
Alignment explanation
Indices: 4988813--4988928 Score: 94
Period size: 6 Copynumber: 18.8 Consensus size: 6
4988803 TATCAAAACT
* * *
4988813 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
4988862 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC
*
4988912 AGAATC AGAATC TGAAT
1 AGAATC AGAATC AGAAT
4988929 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
5 4 0.05
6 73 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:4988854 original size:37 final size:37
Alignment explanation
Indices: 4988813--4988919 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
4988803 TATCAAAACT
* *
4988813 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
*
4988850 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
*
4988887 AGAATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAG
4988920 AATCTGAATG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
37 52 0.83
38 9 0.14
39 2 0.03
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:4988863 original size:31 final size:31
Alignment explanation
Indices: 4988825--4988928 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
4988815 AATCAAAATG
*
4988825 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
4988856 AGAATCAGAATCAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
*
4988887 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
4988918 AGAATCTGAAT
1 AGAATCAGAAT
4988929 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 49 0.82
32 3 0.05
33 3 0.05
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:4988889 original size:25 final size:25
Alignment explanation
Indices: 4988861--4988928 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
4988851 GAATCAGAAT
* *
4988861 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
4988886 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
4988911 CAGAATCAGAATCTGAAT
1 CAGAATCAGAATCAGAAT
4988929 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:4989153 original size:27 final size:27
Alignment explanation
Indices: 4989047--4989153 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
4989037 CATGGCTGCC
* * * *
4989047 AGAA-CAGATATTGTGACAGAGTCACC
1 AGAATCAGATATTGTGGCAAAGCCACT
*
4989073 AG-ATACAGATATTGTGGCAGAGCCACT
1 AGAAT-CAGATATTGTGGCAAAGCCACT
*
4989100 AGAAT-AGATATTTGTGGCATAGCCACT
1 AGAATCAGATA-TTGTGGCAAAGCCACT
*
4989127 AGAATCAGATAATGTGGCAAAGCCACT
1 AGAATCAGATATTGTGGCAAAGCCACT
4989154 TCACAGAATA
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.01
26 7 0.10
27 55 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
AGAATCAGATATTGTGGCAAAGCCACT
Found at i:4989358 original size:22 final size:22
Alignment explanation
Indices: 4989310--4989361 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
4989300 GTAAATACGT
*
4989310 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
4989332 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
4989354 TTGGCACA
1 TTGGCACA
4989362 GAGCTATCGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:4989735 original size:27 final size:28
Alignment explanation
Indices: 4989673--4989736 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
4989663 TAGTCACTTG
*
4989673 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
4989701 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
4989727 CCCACAAGGG
1 CCCACAAGGG
4989737 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:4990261 original size:27 final size:27
Alignment explanation
Indices: 4989716--4990254 Score: 756
Period size: 27 Copynumber: 20.0 Consensus size: 27
4989706 AGGGCAAAAT
* * * *
4989716 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4989743 GGT-ATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4989769 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4989796 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4989823 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4989850 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4989877 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4989904 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
4989931 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4989958 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4989985 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4990012 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
4990039 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4990066 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4990093 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4990120 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4990147 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4990174 GGTAATTTTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
4990201 GATAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
4990228 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
4990255 AATAATTTTG
Statistics
Matches: 452, Mismatches: 59, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
26 20 0.04
27 432 0.96
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:4990277 original size:27 final size:27
Alignment explanation
Indices: 4990246--4990584 Score: 260
Period size: 27 Copynumber: 12.6 Consensus size: 27
4990236 TACCCTATAG
* **
4990246 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *** * ** *
4990273 TGGTAAAACGGTAATTTTGTAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
4990300 GGGTACTTT-GGTAATTTTACAAGTCAA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
4990327 AGGTATTTCAATAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
4990354 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
*
4990381 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
4990408 GGGTATTTTAGTAATTTTGCAAAGT-GA
1 GGGTATTTCAGTAATTTTACAAA-TCGA
*
4990435 GGGTATTTCTA-TAATTTTACAAATTGA
1 GGGTATTTC-AGTAATTTTACAAATCGA
*
4990462 GGGTATTTCAGTAATTTTAC-AATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
4990488 CGGTATTTCGGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * * *
4990515 GGGTATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** *
4990542 GGGTACTTT-GGTAATTTTACAGCT-GG
1 GGGTA-TTTCAGTAATTTTACAAATCGA
*
4990568 GGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
4990585 GGTAAACTAA
Statistics
Matches: 254, Mismatches: 47, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.01
26 41 0.16
27 205 0.81
28 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:5001460 original size:193 final size:193
Alignment explanation
Indices: 5001113--5001489 Score: 585
Period size: 193 Copynumber: 2.0 Consensus size: 193
5001103 TTTGCTCCCA
*
5001113 ACAATCTCGGATGGCAAAATCTTAACGAAATTTCATTTTCCTTTTTCCCTATTTCTCCACCCATT
1 ACAATCTCGGATGGCAAAATCTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
* * * *
5001178 CCTCCATTCGTCATCCTAACATTGATGCTTGAACACCACAATGTCCCCTTTATAAGGCCTAGAGC
66 CCTCCATTCATCATCCTAAAATTGATGCTCGAACACCACAATGTCCCCTTTATAAAGCCTAGAGC
** * *
5001243 TTCGTACATCATGGGTGTACTCAGTAACATCGTATGGCGGTATCTAACAGAATCACCCCTTAT
131 TTCACACATCACGGGTGCACTCAGTAACATCGTATGGCGGTATCTAACAGAATCACCCCTTAT
* * * *
5001306 ACAATCTTGGATGGTAGAATTTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
1 ACAATCTCGGATGGCAAAATCTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
*
5001371 CCTCCATTCATTATCCTAAAATTGATGCTCGAACACCACAATGT-CCCTTTCATAAAGCCTAGAG
66 CCTCCATTCATCATCCTAAAATTGATGCTCGAACACCACAATGTCCCCTTT-ATAAAGCCTAGAG
* * *
5001435 TTTCACACATCACGGGTGCACTCAGTAATATCGTATGGCGGTTTCTAACAGAATC
130 CTTCACACATCACGGGTGCACTCAGTAACATCGTATGGCGGTATCTAACAGAATC
5001490 TCTATTTATT
Statistics
Matches: 166, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
192 6 0.04
193 160 0.96
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (193 bp):
ACAATCTCGGATGGCAAAATCTTAACGAAATTCCATTTTCCTTTTTCCCTATTTCTCCACCCATT
CCTCCATTCATCATCCTAAAATTGATGCTCGAACACCACAATGTCCCCTTTATAAAGCCTAGAGC
TTCACACATCACGGGTGCACTCAGTAACATCGTATGGCGGTATCTAACAGAATCACCCCTTAT
Found at i:5004389 original size:28 final size:27
Alignment explanation
Indices: 5004349--5004445 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 27
5004339 AAGCGTCCTG
* *
5004349 GTGGCTATGCCACAAATTATTTGATCTA
1 GTGGCTCTGCCACAAA-TATCTGATCTA
* * *
5004377 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTA
* * *
5004404 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTA
* *
5004432 GTGACTCTGTCACA
1 GTGGCTCTGCCACA
5004446 TTATCTGTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 27 0.48
28 29 0.52
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTA
Found at i:5004410 original size:27 final size:26
Alignment explanation
Indices: 5004346--5004458 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
5004336 AGGAAGCGTC
* * *
5004346 CTGGTGGCTATGCCACAAATTATTTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
5004374 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
5004401 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
5004429 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
5004455 CTGG
1 CTGG
5004459 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 31 0.41
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:5004440 original size:55 final size:54
Alignment explanation
Indices: 5004346--5004458 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
5004336 AGGAAGCGTC
* *
5004346 CTGGTGGCTATGCCACAAATTATTTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTT
* * * *
5004401 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTAGTGACTCTGCCACATTATCTGTT
5004455 CTGG
1 CTGG
5004459 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACATTATCTGTT
Found at i:5006321 original size:71 final size:71
Alignment explanation
Indices: 5006224--5006366 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
5006214 AAAGTGTTGA
* * *
5006224 TATTTTTCTCAAATCAGGATGTTTACATACATGAAGTTCATAATGCTTCAACTCATATGGAAGAC
1 TATTTTTCTCAAATCAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGAAGAC
5006289 GTTCTT
66 GTTCTT
* * *
5006295 TATTTTTCTCAAATTAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGGAGAG
1 TATTTTTCTCAAATCAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGAAGAC
5006360 GTTCTT
66 GTTCTT
5006366 T
1 T
5006367 CTCTTGTTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (71 bp):
TATTTTTCTCAAATCAAGATGCTTACATACATCAAGTTCATAATGCTTCAACTCATATGGAAGAC
GTTCTT
Found at i:5008485 original size:18 final size:17
Alignment explanation
Indices: 5008463--5008503 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 17
5008453 TTAAAAGATA
5008463 AAAAAAAATTAATAACTAT
1 AAAAAAAATT-A-AACTAT
5008482 AAAATAAAATTAAACTAT
1 AAAA-AAAATTAAACTAT
5008500 AAAA
1 AAAA
5008504 TTTAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAAATTAAACTAT
Found at i:5008504 original size:18 final size:20
Alignment explanation
Indices: 5008460--5008504 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
5008450 ATCTTAAAAG
*
5008460 ATAAAAAAAAATTAATAACT
1 ATAAAATAAAATTAATAACT
5008480 ATAAAATAAAATT-A-AACT
1 ATAAAATAAAATTAATAACT
5008498 ATAAAAT
1 ATAAAAT
5008505 TTAAAACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 11 0.46
19 1 0.04
20 12 0.50
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAATAAAATTAATAACT
Found at i:5010356 original size:20 final size:20
Alignment explanation
Indices: 5010333--5010371 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5010323 CTCAATTTAC
5010333 TTTTAATTGACAAATAATTT
1 TTTTAATTGACAAATAATTT
*
5010353 TTTTAATTGACATATAATT
1 TTTTAATTGACAAATAATT
5010372 GCAGCACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTAATTGACAAATAATTT
Found at i:5010741 original size:41 final size:41
Alignment explanation
Indices: 5010684--5010765 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
5010674 GAGGTTCAAG
*
5010684 CCCTCTTTCTAGCGTTTCTCACATGTTTTTTATGGTTTAAT
1 CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
5010725 CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
1 CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
5010766 TTGAAACTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.51
Consensus pattern (41 bp):
CCCTCTTTCTAGCGTTTCTCACATATTTTTTATGGTTTAAT
Found at i:5014131 original size:86 final size:86
Alignment explanation
Indices: 5013981--5014157 Score: 309
Period size: 86 Copynumber: 2.1 Consensus size: 86
5013971 GTACGTATGG
*
5013981 TATACGTAACAAAAGGTGTTGGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
1 TATACGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
5014046 GGAACCTCAAGCTTAGGAATC
66 GGAACCTCAAGCTTAGGAATC
* * *
5014067 TATAGGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTTAGGTGTAAGTATT
1 TATACGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
5014132 GGAACCTCAAGCTTAGGAATC
66 GGAACCTCAAGCTTAGGAATC
*
5014153 AATAC
1 TATAC
5014158 CTCTTAGGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (86 bp):
TATACGTAACAAAAGGTGTTAGAATGTGTTAATAATTGAAAATTGCATTTTCAGGTATAAGTATT
GGAACCTCAAGCTTAGGAATC
Found at i:5015446 original size:17 final size:17
Alignment explanation
Indices: 5015424--5015458 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5015414 CCAAAAAAAA
5015424 GACTTACCTATAGGAGG
1 GACTTACCTATAGGAGG
*
5015441 GACTTACCTATAGTAGG
1 GACTTACCTATAGGAGG
5015458 G
1 G
5015459 TGCCAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (17 bp):
GACTTACCTATAGGAGG
Found at i:5029023 original size:22 final size:22
Alignment explanation
Indices: 5028980--5029023 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5028970 AAATGAGATG
* *
5028980 GGGAAAAATTTCGGCAGGGAAA
1 GGGAAAAATTTCGGAAGAGAAA
5029002 GGGAAAAA-TTCGGAAGAAGAAA
1 GGGAAAAATTTCGGAAG-AGAAA
5029024 AAAAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.07, G:0.34, T:0.11
Consensus pattern (22 bp):
GGGAAAAATTTCGGAAGAGAAA
Found at i:5031879 original size:18 final size:18
Alignment explanation
Indices: 5031842--5031903 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
5031832 TCTTTCTAGT
*
5031842 TTATATTTATTT-ATTAAA
1 TTATTTTTATTTAATT-AA
5031860 TTATTTTTATTTAATTAA
1 TTATTTTTATTTAATTAA
*
5031878 TT-TTTATT-TTTAAATTTA
1 TTATTT-TTATTT-AATTAA
5031896 TTATTTTT
1 TTATTTTT
5031904 CATTATCTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 6 0.16
18 26 0.68
19 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTTATTTAATTAA
Found at i:5031880 original size:15 final size:14
Alignment explanation
Indices: 5031851--5031886 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
5031841 TTTATATTTA
*
5031851 TTTATTAAATTATT
1 TTTATTTAATTATT
5031865 TTTATTTAATTAATT
1 TTTATTTAATT-ATT
5031880 TTTATTT
1 TTTATTT
5031887 TTAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTAATTATT
Found at i:5031899 original size:15 final size:14
Alignment explanation
Indices: 5031862--5031903 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
5031852 TTATTAAATT
5031862 ATTTTTATTTAATT-A
1 ATTTTTATTT--TTAA
5031877 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
5031891 ATTTATTATTTTT
1 ATTT-TTATTTTT
5031904 CATTATCTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.08
14 5 0.20
15 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:5033795 original size:49 final size:50
Alignment explanation
Indices: 5033740--5033834 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
5033730 TTTATTTGTT
5033740 TTTAATTAAATTTT-TTATTCTATATT-AAAAATATATTTTAAATATTTAA
1 TTTAATT-AATTTTGTTATTCTATATTAAAAAATATATTTTAAATATTTAA
*
5033789 TTTAATTAATTTTGTTATTCTGTATTAAAAAATATATTTTAAATAT
1 TTTAATTAATTTTGTTATTCTATATTAAAAAATATATTTTAAATAT
5033835 GAAATGTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
48 6 0.14
49 18 0.42
50 19 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (50 bp):
TTTAATTAATTTTGTTATTCTATATTAAAAAATATATTTTAAATATTTAA
Found at i:5034366 original size:27 final size:27
Alignment explanation
Indices: 5034319--5034379 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
5034309 TATATTGAAA
5034319 CTAAATAA-TTTTTTTAAAAGAACAGT
1 CTAAATAATTTTTTTTAAAAGAACAGT
*
5034345 CTAAATAATTTTTTTTATAAGAACAGT
1 CTAAATAATTTTTTTTAAAAGAACAGT
5034372 CT-AATAAT
1 CTAAATAAT
5034380 CTAGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (27 bp):
CTAAATAATTTTTTTTAAAAGAACAGT
Found at i:5034387 original size:27 final size:27
Alignment explanation
Indices: 5034319--5034387 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
5034309 TATATTGAAA
*
5034319 CTAAATAATT-TTTTTAAAAGAACAGT
1 CTAAATAATTAGTTTTAAAAGAACAGT
** *
5034345 CTAAATAATTTTTTTTATAAGAACAGT
1 CTAAATAATTAGTTTTAAAAGAACAGT
5034372 CT-AATAATCTAGTTTT
1 CTAAATAAT-TAGTTTT
5034388 TATTATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.42
27 22 0.58
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (27 bp):
CTAAATAATTAGTTTTAAAAGAACAGT
Found at i:5034451 original size:14 final size:14
Alignment explanation
Indices: 5034429--5034462 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5034419 TTATTAATTA
5034429 GTTTCAAAAAATAT
1 GTTTCAAAAAATAT
* *
5034443 GTTTTAAAACATAT
1 GTTTCAAAAAATAT
5034457 GTTTCA
1 GTTTCA
5034463 TTATTTGTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (14 bp):
GTTTCAAAAAATAT
Found at i:5036383 original size:2 final size:2
Alignment explanation
Indices: 5036376--5036401 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5036366 TGCACTTGTT
5036376 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
5036402 TATATATACA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5037242 original size:41 final size:41
Alignment explanation
Indices: 5037185--5037267 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
5037175 ACGGCCATGT
*
5037185 GACATAGCCCAGCTTGTGTGGCTTAGGGACATGGTCGTGTA
1 GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
5037226 GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
1 GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
5037267 G
1 G
5037268 CCAAACCATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (41 bp):
GACATAGCCCAGCTTGTGTAGCTTAGGGACATGGTCGTGTA
Found at i:5037267 original size:21 final size:21
Alignment explanation
Indices: 5037200--5037268 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
5037190 AGCCCAGCTT
*
5037200 GTGTGGCTTAGGGACATGGTC
1 GTGTAGCTTAGGGACATGGTC
* ** * *
5037221 GTGTAGACATA-GCCCA-GCTT
1 GTGTAG-CTTAGGGACATGGTC
5037241 GTGTAGCTTAGGGACATGGTC
1 GTGTAGCTTAGGGACATGGTC
5037262 GTGTAGC
1 GTGTAGC
5037269 CAAACCATGC
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
19 3 0.09
20 11 0.32
21 17 0.50
22 3 0.09
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (21 bp):
GTGTAGCTTAGGGACATGGTC
Found at i:5049095 original size:11 final size:11
Alignment explanation
Indices: 5049079--5049103 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5049069 TTATATATAC
5049079 TAATAAAATAA
1 TAATAAAATAA
5049090 TAATAAAATAA
1 TAATAAAATAA
5049101 TAA
1 TAA
5049104 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:5051648 original size:18 final size:18
Alignment explanation
Indices: 5051621--5051666 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
5051611 TGTGGCCGTG
5051621 TGGG-CCACACAGGGGTA
1 TGGGCCCACACAGGGGTA
*
5051638 TGGGCCCACACAGGGGTG
1 TGGGCCCACACAGGGGTA
*
5051656 TGAGCCCACAC
1 TGGGCCCACAC
5051667 GGGCACTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.22, C:0.30, G:0.37, T:0.11
Consensus pattern (18 bp):
TGGGCCCACACAGGGGTA
Found at i:5065685 original size:25 final size:25
Alignment explanation
Indices: 5065657--5065714 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
5065647 TATGGATTAT
5065657 GGTTTAAGAGTGGTTTAAGG-GTT-GG
1 GGTTTAAG-GTGGTTT-AGGTGTTAGG
*
5065682 GGTTTAAGGTTGTTTAGGTGTTAGG
1 GGTTTAAGGTGGTTTAGGTGTTAGG
5065707 GG-TTAAGG
1 GGTTTAAGG
5065715 GTTAAGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 15 0.50
25 12 0.40
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (25 bp):
GGTTTAAGGTGGTTTAGGTGTTAGG
Found at i:5065692 original size:21 final size:22
Alignment explanation
Indices: 5065668--5065738 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
5065658 GTTTAAGAGT
5065668 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGGTTTAA
*
5065689 GGTTGTTTAGGTGTTAGGGG-TTAA
1 GG-T-TTAAGG-GTTAGGGGTTTAA
* * *
5065713 GGGTTAAGGGTTAGTGGTTCAA
1 GGTTTAAGGGTTAGGGGTTTAA
5065735 GGTT
1 GGTT
5065739 CAGGGTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 9 0.23
22 12 0.31
23 5 0.13
24 9 0.23
25 4 0.10
ACGTcount: A:0.18, C:0.01, G:0.42, T:0.38
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGGTTTAA
Found at i:5065743 original size:21 final size:21
Alignment explanation
Indices: 5065671--5065745 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 21
5065661 TAAGAGTGGT
5065671 TTAAGGGTT-GGGGTTTAAGGTTG
1 TTAAGGGTTAGGGG-TTAAGG--G
*
5065694 TTTAGGTGTTAGGGGTTAAGGG
1 TTAAGG-GTTAGGGGTTAAGGG
*
5065716 TTAAGGGTTAGTGGTTCAA-GG
1 TTAAGGGTTAGGGGTT-AAGGG
*
5065737 TTCAGGGTT
1 TTAAGGGTT
5065746 TATGTTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 19 0.42
22 8 0.18
23 5 0.11
24 9 0.20
25 4 0.09
ACGTcount: A:0.19, C:0.03, G:0.41, T:0.37
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAAGGG
Found at i:5065906 original size:7 final size:7
Alignment explanation
Indices: 5065891--5065935 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
5065881 TTAATTATCA
*
5065891 TTATAGT
1 TTATGGT
5065898 TTATGGT
1 TTATGGT
5065905 TTATGGT
1 TTATGGT
*
5065912 TTAAGGT
1 TTATGGT
*
5065919 ATATGGT
1 TTATGGT
*
5065926 TTAAGGT
1 TTATGGT
5065933 TTA
1 TTA
5065936 AAGTGTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (7 bp):
TTATGGT
Found at i:5065913 original size:14 final size:14
Alignment explanation
Indices: 5065891--5065935 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
5065881 TTAATTATCA
* *
5065891 TTATAGTTTATGGT
1 TTATGGTTTAAGGT
5065905 TTATGGTTTAAGGT
1 TTATGGTTTAAGGT
*
5065919 ATATGGTTTAAGGT
1 TTATGGTTTAAGGT
5065933 TTA
1 TTA
5065936 AAGTGTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:5065944 original size:21 final size:21
Alignment explanation
Indices: 5065899--5065944 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
5065889 CATTATAGTT
* *
5065899 TATGGTTTATGGTTTAAGGTA
1 TATGGTTTAAGGTTTAAAGTA
*
5065920 TATGGTTTAAGGTTTAAAGTG
1 TATGGTTTAAGGTTTAAAGTA
5065941 TATG
1 TATG
5065945 AGTTACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TATGGTTTAAGGTTTAAAGTA
Found at i:5066337 original size:13 final size:13
Alignment explanation
Indices: 5066314--5066353 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
5066304 AAAATCTTCA
5066314 AAAAAATATAAAATT
1 AAAAAATA-AAAA-T
*
5066329 TAAAAATAAAAAT
1 AAAAAATAAAAAT
5066342 AAAAAATAAAAA
1 AAAAAATAAAAA
5066354 ACTTAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:5073362 original size:19 final size:17
Alignment explanation
Indices: 5073340--5073388 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
5073330 TTTCTGTCAC
5073340 TTTATATATTTTTGAATTT
1 TTTATATATTTTT--ATTT
*
5073359 TTTATATACTTTTATTT
1 TTTATATATTTTTATTT
*
5073376 TTTTTATAATTTT
1 TTTATAT-ATTTT
5073389 CTAAAATCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 4 0.15
19 12 0.46
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTATATATTTTTATTT
Found at i:5073375 original size:17 final size:18
Alignment explanation
Indices: 5073340--5073388 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
5073330 TTTCTGTCAC
*
5073340 TTTATATATTTTTGAATTT
1 TTTATATAATTTT-AATTT
*
5073359 TTTATATACTTTT-ATTT
1 TTTATATAATTTTAATTT
*
5073376 TTTTTATAATTTT
1 TTTATATAATTTT
5073389 CTAAAATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
19 12 0.44
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATATAATTTTAATTT
Found at i:5074254 original size:41 final size:41
Alignment explanation
Indices: 5074206--5074289 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
5074196 AAGAATAAAA
5074206 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
1 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
5074247 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
1 AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
5074288 AA
1 AA
5074290 CTAAAGATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.29
Consensus pattern (41 bp):
AATTCATTGATAATAGGCCCTATTCATGCAAGTAAAAAACT
Found at i:5080061 original size:15 final size:15
Alignment explanation
Indices: 5080025--5080053 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5080015 CCACCACCGG
5080025 CCACCACCACCACTT
1 CCACCACCACCACTT
5080040 CCACCACCACCACT
1 CCACCACCACCACT
5080054 ATCACCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.62, G:0.00, T:0.10
Consensus pattern (15 bp):
CCACCACCACCACTT
Found at i:5083831 original size:20 final size:20
Alignment explanation
Indices: 5083806--5083855 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
5083796 AGATGACGTG
5083806 TCAAAGATGCTCGACTAATT
1 TCAAAGATGCTCGACTAATT
5083826 TCAAAGATGCTCGACTAATT
1 TCAAAGATGCTCGACTAATT
5083846 TCAAAGATGC
1 TCAAAGATGC
5083856 CAACCCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (20 bp):
TCAAAGATGCTCGACTAATT
Found at i:5086102 original size:12 final size:12
Alignment explanation
Indices: 5086074--5086139 Score: 84
Period size: 11 Copynumber: 5.8 Consensus size: 12
5086064 ATACAAGTTT
**
5086074 GAAAAAAAAACC
1 GAAAAAAAATTC
5086086 G-AAAAAAATTC
1 GAAAAAAAATTC
*
5086097 GAAAAAAAATTA
1 GAAAAAAAATTC
5086109 GAAAAAAAATTC
1 GAAAAAAAATTC
5086121 -AAAAAAAATT-
1 GAAAAAAAATTC
5086131 GAAAAAAAA
1 GAAAAAAAA
5086140 GTGATTTATG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 27 0.56
12 21 0.44
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (12 bp):
GAAAAAAAATTC
Found at i:5086129 original size:23 final size:23
Alignment explanation
Indices: 5086087--5086139 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
5086077 AAAAAAACCG
5086087 AAAAAAATTCGAAAAAAAATTAGA
1 AAAAAAATTCGAAAAAAAATT-GA
5086111 AAAAAAATTC-AAAAAAAATTGA
1 AAAAAAATTCGAAAAAAAATTGA
5086133 AAAAAAA
1 AAAAAAA
5086140 GTGATTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 9 0.31
23 10 0.34
24 10 0.34
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (23 bp):
AAAAAAATTCGAAAAAAAATTGA
Found at i:5086139 original size:11 final size:12
Alignment explanation
Indices: 5086087--5086139 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
5086077 AAAAAAACCG
*
5086087 AAAAAAATTCGA
1 AAAAAAATTAGA
5086099 AAAAAAATTAGA
1 AAAAAAATTAGA
*
5086111 AAAAAAATT-CA
1 AAAAAAATTAGA
5086122 AAAAAAATT-GA
1 AAAAAAATTAGA
5086133 AAAAAAA
1 AAAAAAA
5086140 GTGATTTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
11 18 0.47
12 20 0.53
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAAAATTAGA
Found at i:5087071 original size:21 final size:21
Alignment explanation
Indices: 5087045--5087094 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
5087035 ACATTCTTGT
5087045 AAAGAAAAAACAAAGAAAAG-A
1 AAAGAAAAAACAAA-AAAAGAA
* *
5087066 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAACAAAAAAAGAA
5087087 AAAGAAAA
1 AAAGAAAA
5087095 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAACAAAAAAAGAA
Found at i:5087080 original size:6 final size:5
Alignment explanation
Indices: 5087045--5087112 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
5087035 ACATTCTTGT
* *
5087045 AAAGA AAAAA CAAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA
5087092 AAATGA AATA-A AAAGA AAAGA
1 AAA-GA AA-AGA AAAGA AAAGA
5087113 GAGGCAAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
4 4 0.08
5 29 0.56
6 18 0.35
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:5087085 original size:15 final size:14
Alignment explanation
Indices: 5087056--5087112 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
5087046 AAGAAAAAAC
5087056 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
5087072 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
5087087 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
5087103 AAAGAAAAGA
1 AAAGAAAAGA
5087113 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:5087192 original size:11 final size:12
Alignment explanation
Indices: 5087160--5087190 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
5087150 TTGAGAGAAC
5087160 TTGAAAAAGCCT
1 TTGAAAAAGCCT
5087172 TTGAAAAAGCCT
1 TTGAAAAAGCCT
5087184 TTGAAAA
1 TTGAAAA
5087191 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:5090815 original size:6 final size:6
Alignment explanation
Indices: 5090776--5090807 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5090766 CCCAAAACCT
5090776 TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TC
1 TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TC
5090808 CTTCTCCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.50, G:0.00, T:0.34
Consensus pattern (6 bp):
TCTCCA
Found at i:5094208 original size:23 final size:22
Alignment explanation
Indices: 5094156--5094208 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
5094146 TCCACGTCTT
*
5094156 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
5094178 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
5094201 TTTCTTTT
1 TTTCTTTT
5094209 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:5105138 original size:28 final size:29
Alignment explanation
Indices: 5105061--5105132 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
5105051 TATATATGCG
5105061 TATATAAAACATATTTGTTTTTATTCGCA
1 TATATAAAACATATTTGTTTTTATTCGCA
*
5105090 TATATAAAACATATTTGTTTTTATTCGGA
1 TATATAAAACATATTTGTTTTTATTCGCA
*
5105119 -ATATAAATCATATT
1 TATATAAAACATATT
5105133 GATTTTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 13 0.32
29 28 0.68
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (29 bp):
TATATAAAACATATTTGTTTTTATTCGCA
Found at i:5105551 original size:65 final size:65
Alignment explanation
Indices: 5105479--5105608 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
5105469 TAATAACATA
*
5105479 TATTTATATTTGTAACTTGAATTTACCATCTTAATAAGAACATCCAATATATTTTGGAGGACTAG
1 TATTTATATTTGTAACTTGAATTTACCATCTTAATAAGAACATACAATATATTTTGGAGGACTAG
5105544 TATTTATATTTGTAACTTGAATTTACCATCTTAATAAGAACATACAATATATTTTGGAGGACTAG
1 TATTTATATTTGTAACTTGAATTTACCATCTTAATAAGAACATACAATATATTTTGGAGGACTAG
5105609 ACCGGTCATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (65 bp):
TATTTATATTTGTAACTTGAATTTACCATCTTAATAAGAACATACAATATATTTTGGAGGACTAG
Found at i:5110199 original size:9 final size:9
Alignment explanation
Indices: 5110185--5110227 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
5110175 TTTGGTTAAA
5110185 AATTACCCG
1 AATTACCCG
5110194 AATTACCCG
1 AATTACCCG
*
5110203 AATTAACCG
1 AATTACCCG
*
5110212 AATTAACCG
1 AATTACCCG
5110221 AATTACC
1 AATTACC
5110228 GAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:5113978 original size:21 final size:21
Alignment explanation
Indices: 5113954--5113999 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5113944 TAACCACTCA
5113954 AAAATTTAATTCAA-TTAATAT
1 AAAATTTAATTCAATTTAAT-T
*
5113975 AAAATTTAATTTAATTTAATT
1 AAAATTTAATTCAATTTAATT
5113996 AAAA
1 AAAA
5114000 GAACTTGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATTTAATTCAATTTAATT
Found at i:5117186 original size:21 final size:21
Alignment explanation
Indices: 5117160--5117200 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5117150 AGACGAGCAA
*
5117160 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5117181 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5117201 TTAAGCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5123674 original size:16 final size:16
Alignment explanation
Indices: 5123655--5123685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5123645 ATAAAAAATA
5123655 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
5123671 ATATAACATTTATAA
1 ATATAAAATTTATAA
5123686 ATAAGGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:5123789 original size:18 final size:17
Alignment explanation
Indices: 5123762--5123795 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5123752 TAAATTCATA
5123762 AAGTTATTTTTTATGAAC
1 AAGTTATTTTTT-TGAAC
*
5123780 AAGTTTTTTTTTTGAA
1 AAGTTATTTTTTTGAA
5123796 TATAGAGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (17 bp):
AAGTTATTTTTTTGAAC
Found at i:5123790 original size:17 final size:18
Alignment explanation
Indices: 5123762--5123795 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5123752 TAAATTCATA
5123762 AAGTTATTTTTTATGAAC
1 AAGTTATTTTTTATGAAC
*
5123780 AAGTT-TTTTTTTTGAA
1 AAGTTATTTTTTATGAA
5123796 TATAGAGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (18 bp):
AAGTTATTTTTTATGAAC
Found at i:5126755 original size:26 final size:27
Alignment explanation
Indices: 5126726--5126788 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 27
5126716 GCCACAACTT
5126726 TAAAAATTTTTAAG-A-TTTAAATA-A
1 TAAAAATTTTTAAGTATTTTAAATATA
* *
5126750 TATAAATTTTTTTAGTATTTTAAATATA
1 TA-AAAATTTTTAAGTATTTTAAATATA
*
5126778 -AGAAATTTTTA
1 TAAAAATTTTTA
5126789 GCCATAACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
24 2 0.07
25 10 0.33
26 8 0.27
27 9 0.30
28 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (27 bp):
TAAAAATTTTTAAGTATTTTAAATATA
Found at i:5132536 original size:95 final size:96
Alignment explanation
Indices: 5132425--5132816 Score: 529
Period size: 96 Copynumber: 4.1 Consensus size: 96
5132415 TTTAGAGAGG
* * * * * * * *
5132425 TAAGATTTATAGCTTGTAGCTTTAGTCTATTCCACTCCAACTTCAAGCAAATAATATTCGC-ATC
1 TAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATC
* *
5132489 TTCAATCTGCTTCACTACAACTTTAGGAAGA
66 TTCAATCTGCTCCACTACAACTTCAGGAAGA
* * * *
5132520 TAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTATAACTTTAGGAAAATAAGATTCGCTATC
1 TAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATC
* *
5132585 TTCAATTTGCTCCACTGCAACTTCAAGG-AGA
66 TTCAATCTGCTCCACTACAACTTC-AGGAAGA
* *
5132616 TAAGATTTGTAACTTGTAGCTTTAATCTGTCCCACTACAACTTTAGGGAAATAAGATTCGCTATC
1 TAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATC
*
5132681 TTCAATCTGCTCCACTACAACTTCAGGGAGA
66 TTCAATCTGCTCCACTACAACTTCAGGAAGA
* *
5132712 TAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTATAACTTTAGGGAAAAAAGATTCGC-ATC
1 TAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATC
* * * *
5132776 TTCAATCTACTTCACTGCAACTTCAGGGAGA
66 TTCAATCTGCTCCACTACAACTTCAGGAAGA
5132807 TAAGATTTGT
1 TAAGATTTGT
5132817 GGTTTTAATC
Statistics
Matches: 266, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
95 94 0.35
96 169 0.64
97 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (96 bp):
TAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATC
TTCAATCTGCTCCACTACAACTTCAGGAAGA
Found at i:5132622 original size:45 final size:45
Alignment explanation
Indices: 5132455--5132858 Score: 197
Period size: 51 Copynumber: 8.6 Consensus size: 45
5132445 TTTAGTCTAT
* * * * *
5132455 TCCACTCCAACTTCAAGCAAATAATATTCGC-ATCTTCAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTCAATCTGC
* * * * * * *
5132499 TTCACTACAACTTTAGGAAGATAAGATTTGTAACTTGTAGCTTTAATCTGT
1 TCCACTACAACTTCAGGGAGATAAGATTCG---C---TATCTTCAATCTGC
* * * * * *
5132550 TCTACTATAACTTTAGGAAAATAAGATTCGCTATCTTCAATTTGC
1 TCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTCAATCTGC
* * * * *
5132595 TCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTG-
1 TCCACTACAACTTCAGGGAGATAAGATTCG---C---TATCTTCAATCTGC
* *
5132645 TCCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTGC
1 T-CCACTACAACTTCAGGGAGATAAGATTCGCTATCTTCAATCTGC
* * * **
5132691 TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
1 TCCACTACAACTTCAGGGAGATAAGATTCG---C---TATCTTCAATCTGC
* * * * *
5132742 TCCACTATAACTTTAGGGAAAAAAGATTCGC-ATCTTCAATCTAC
1 TCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTCAATCTGC
* * * * *
5132786 TTCACTGCAACTTCAGGGAGATAAGATTTG-TGGT-TTTAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTCGCT-ATCTTCAATCTGC
* ** *
5132830 TCCGCTGTAACTTCAGAGAGATAAGATTC
1 TCCACTACAACTTCAGGGAGATAAGATTC
5132859 ACCACGATGA
Statistics
Matches: 269, Mismatches: 68, Indels: 46
0.70 0.18 0.12
Matches are distributed among these distances:
44 87 0.32
45 70 0.26
46 1 0.00
47 1 0.00
48 5 0.02
50 1 0.00
51 104 0.39
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (45 bp):
TCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTCAATCTGC
Found at i:5132751 original size:192 final size:190
Alignment explanation
Indices: 5132394--5132816 Score: 589
Period size: 191 Copynumber: 2.2 Consensus size: 190
5132384 GAGTTGTAGT
* * * * * * * *
5132394 TTCAATCTACTCCGCTGTAACTT-TAGAGAGGTAAGATTTATAGCTTGTAGCTTTAGTCTATTCC
1 TTCAATCTACTCCACTGCAACTTCAAG-GAGATAAGATTTGTAACTTGTAGCTTTAATCTATCCC
* * * *
5132458 ACTCCAACTTCAAGCAAATAATATTCGCATCTTCAATCTGCTTCACTACAACTTTAGGAAGATAA
65 ACTACAACTTCAAGCAAATAAGATTCGCATCTTCAATCTGCTCCACTACAACTTCAGGAAGATAA
* *
5132523 GATTTGTAACTTGTAGCTTTAATCTGTTCTACTATAACTTTA-GGAAAATAAGATTCGCTATC
130 GATTTGTAACTTGTAGCTTTAATCTATTCCACTATAACTTTAGGGAAAA-AAGATTCGC-ATC
* * *
5132585 TTCAATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTCCCA
1 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATCCCA
* * * *
5132650 CTACAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
66 CTACAACTTCAAGCAAATAAGATTCGC-ATCTTCAATCTGCTCCACTACAACTTCAGGAAGATAA
5132715 GATTTGTAACTTGTAGCTTTAATCTATTCCACTATAACTTTAGGGAAAAAAGATTCGCATC
130 GATTTGTAACTTGTAGCTTTAATCTATTCCACTATAACTTTAGGGAAAAAAGATTCGCATC
* *
5132776 TTCAATCTACTTCACTGCAACTTCAGGGAGATAAGATTTGT
1 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGT
5132817 GGTTTTAATC
Statistics
Matches: 204, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
191 113 0.55
192 85 0.42
193 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (190 bp):
TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATCCCA
CTACAACTTCAAGCAAATAAGATTCGCATCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAG
ATTTGTAACTTGTAGCTTTAATCTATTCCACTATAACTTTAGGGAAAAAAGATTCGCATC
Found at i:5132760 original size:51 final size:51
Alignment explanation
Indices: 5132492--5132769 Score: 242
Period size: 51 Copynumber: 5.7 Consensus size: 51
5132482 TCGCATCTTC
5132492 AATCTGCTT-CACTACAACTTTA-GGAAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTG-TTCCACTACAACTTTAGGGAA-ATAAGATTTGTAACTTGTAGCTTT
* * * * * *
5132543 AATCTGTTCTACTATAACTTTAGGAAAATAAGATTCG---C---TATCTTC
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTT
* * * * * *
5132588 AATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTT
* * * *
5132639 AATCTGTCCCACTACAACTTTAGGGAAATAAGATTCG---C---TATCTTC
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTT
* * *
5132684 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTT
* * *
5132735 AATCTATTCCACTATAACTTTAGGGAAAAAAGATT
1 AATCTGTTCCACTACAACTTTAGGGAAATAAGATT
5132770 CGCATCTTCA
Statistics
Matches: 172, Mismatches: 41, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
45 69 0.40
48 4 0.02
50 2 0.01
51 94 0.55
52 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (51 bp):
AATCTGTTCCACTACAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTT
Found at i:5153702 original size:15 final size:15
Alignment explanation
Indices: 5153682--5153720 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
5153672 ATAACCTTTA
*
5153682 TTAATAAATTTAATT
1 TTAATAAATATAATT
*
5153697 TTAATAAATATATTT
1 TTAATAAATATAATT
5153712 TTAAGTAAA
1 TTAA-TAAA
5153721 AAATAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TTAATAAATATAATT
Found at i:5161315 original size:16 final size:16
Alignment explanation
Indices: 5161294--5161345 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
5161284 TTTGGTTCGC
5161294 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
5161310 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
5161326 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
5161342 TGTA
1 TGTA
5161346 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:5166081 original size:29 final size:30
Alignment explanation
Indices: 5166040--5166107 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
5166030 AAATTGTGTA
*
5166040 TTTAGTCTCTGTAC-TTGA-ATTTGATCAAT
1 TTTAGTCTCTGTACTTTCACA-TTGATCAAT
5166069 TTTAGTCAT-TGTACTTTTCACATTGATCAAT
1 TTTAGTC-TCTGTAC-TTTCACATTGATCAAT
5166100 TTTAGTCT
1 TTTAGTCT
5166108 TTTTTAGTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 12 0.35
30 2 0.06
31 19 0.56
32 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (30 bp):
TTTAGTCTCTGTACTTTCACATTGATCAAT
Found at i:5166774 original size:17 final size:17
Alignment explanation
Indices: 5166754--5166787 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5166744 TATATTTATT
*
5166754 TTTATTAATTTAAATTA
1 TTTATTAAATTAAATTA
5166771 TTTATTAAATTAAATTA
1 TTTATTAAATTAAATTA
5166788 AATAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTAAATTAAATTA
Found at i:5166786 original size:23 final size:24
Alignment explanation
Indices: 5166738--5166806 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 24
5166728 AATTAGATTT
**
5166738 TTTAAATATATTTATTTTTATT-AA
1 TTTAAATATATTTA-TTAAATTAAA
5166762 TTTAAAT-TATTTATTAAATTAAA
1 TTTAAATATATTTATTAAATTAAA
*
5166785 -TTAAATAAATTTATTAAATTAA
1 TTTAAATATATTTATTAAATTAA
5166807 TTGAATCAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 11 0.28
23 22 0.55
24 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTAAATATATTTATTAAATTAAA
Found at i:5167154 original size:28 final size:28
Alignment explanation
Indices: 5167119--5167173 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
5167109 CATATTAATG
5167119 GGGTATAGAAAAAGTCTCATAACTTATT
1 GGGTATAGAAAAAGTCTCATAACTTATT
* * * *
5167147 GGGTATAGGAAGAGTTTTATAACTTAT
1 GGGTATAGAAAAAGTCTCATAACTTAT
5167174 GGAGTTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (28 bp):
GGGTATAGAAAAAGTCTCATAACTTATT
Found at i:5172452 original size:43 final size:43
Alignment explanation
Indices: 5172387--5172470 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
5172377 AGAAGAAAGT
* * *
5172387 GTGTAGAGAGAATGTAGGAGAGAGAGTGTATCTTCTTTTTAGA
1 GTGTAGAGAGAATATAGAAGAGAGAGTGTAGCTTCTTTTTAGA
*
5172430 GTGTAGAGAGAATATAGAAGAGAGTGTGTAGCTTCTTTTTA
1 GTGTAGAGAGAATATAGAAGAGAGAGTGTAGCTTCTTTTTA
5172471 TATATTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.33
Consensus pattern (43 bp):
GTGTAGAGAGAATATAGAAGAGAGAGTGTAGCTTCTTTTTAGA
Found at i:5172607 original size:28 final size:28
Alignment explanation
Indices: 5172576--5172638 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
5172566 TCCCATATTA
5172576 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
5172604 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
5172632 ATGGGGT
1 ATGGGGT
5172639 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:5173541 original size:23 final size:22
Alignment explanation
Indices: 5173515--5173560 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
5173505 TCTCTAATTA
5173515 TTTTTCATAATAGATATTTTATT
1 TTTTTCATAATAG-TATTTTATT
**
5173538 TTTTTGGTAATAGTATTTTATT
1 TTTTTCATAATAGTATTTTATT
5173560 T
1 T
5173561 AAATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (22 bp):
TTTTTCATAATAGTATTTTATT
Found at i:5180504 original size:22 final size:22
Alignment explanation
Indices: 5180476--5180517 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5180466 AAAGCATCGA
5180476 TGAAGCTTGGTTCAATCTTGAG
1 TGAAGCTTGGTTCAATCTTGAG
*
5180498 TGAAGCTTGGTTCGATCTTG
1 TGAAGCTTGGTTCAATCTTG
5180518 GGTTTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (22 bp):
TGAAGCTTGGTTCAATCTTGAG
Found at i:5186007 original size:29 final size:29
Alignment explanation
Indices: 5185965--5186022 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
5185955 AACCTACAAA
5185965 TAAAGATCAAACTCTAAACTTTTATCAAT
1 TAAAGATCAAACTCTAAACTTTTATCAAT
5185994 TAAAGATCAAACTCTAAACTTTTATCAAT
1 TAAAGATCAAACTCTAAACTTTTATCAAT
5186023 CAACTTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (29 bp):
TAAAGATCAAACTCTAAACTTTTATCAAT
Found at i:5189789 original size:21 final size:21
Alignment explanation
Indices: 5189763--5189802 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
5189753 TACTGGACTG
5189763 GGTCTTACAAGGTCAAGAAAA
1 GGTCTTACAAGGTCAAGAAAA
5189784 GGTCTTACAAGGTCAAGAA
1 GGTCTTACAAGGTCAAGAA
5189803 GATTAATATT
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:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (21 bp):
GGTCTTACAAGGTCAAGAAAA
Found at i:5195942 original size:25 final size:25
Alignment explanation
Indices: 5195889--5195988 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
5195879 ACCACAACTT
** * * *
5195889 GTATGAGCTTCCCAATTTACAACTT
1 GTATGAGCTTCCTGATTTATAGCTC
*
5195914 GTATGAGCTT-CTCGATTTATGGCTC
1 GTATGAGCTTCCT-GATTTATAGCTC
*
5195939 GTATGAGCTTCCTGATTTGTAGCTC
1 GTATGAGCTTCCTGATTTATAGCTC
* *
5195964 GTTTGAGCTTCCTGATTCATAGCTC
1 GTATGAGCTTCCTGATTTATAGCTC
5195989 ATGATAGCAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.02
25 59 0.95
26 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (25 bp):
GTATGAGCTTCCTGATTTATAGCTC
Found at i:5202490 original size:51 final size:51
Alignment explanation
Indices: 5202414--5202518 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
5202404 TAGGCTTCGG
5202414 GGAAGGCATTTTTGGTCAGAGCCTGGGCCGGCCCGGTCTGAATTCACTAAA
1 GGAAGGCATTTTTGGTCAGAGCCTGGGCCGGCCCGGTCTGAATTCACTAAA
* *
5202465 GGAAGGCATTTTTGGTCGGGGCCTGGGCCGGCCCGGTCTGAATTCACTAAA
1 GGAAGGCATTTTTGGTCAGAGCCTGGGCCGGCCCGGTCTGAATTCACTAAA
5202516 GGA
1 GGA
5202519 CAAAAAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (51 bp):
GGAAGGCATTTTTGGTCAGAGCCTGGGCCGGCCCGGTCTGAATTCACTAAA
Found at i:5205232 original size:21 final size:20
Alignment explanation
Indices: 5205208--5205272 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
5205198 TAATTAGTAC
*
5205208 TAATATTGGAAATATACTATA
1 TAATATTAGAAATATAC-ATA
*
5205229 TAATATTAGAGATATACATA
1 TAATATTAGAAATATACATA
* * * *
5205249 GAATAGTAAAAAATATATATA
1 TAATA-TTAGAAATATACATA
5205270 TAA
1 TAA
5205273 CTAGTAGAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 7 0.20
21 28 0.80
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (20 bp):
TAATATTAGAAATATACATA
Found at i:5205264 original size:30 final size:31
Alignment explanation
Indices: 5205230--5205308 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 31
5205220 TATACTATAT
5205230 AATATTAGAGATATAC-A-TAGAATAGTAAAA
1 AATATTAGAGATA-ACTAGTAGAATAGTAAAA
* *
5205260 AATA-TATATATAACTAGTAGAATAGTAAAA
1 AATATTAGAGATAACTAGTAGAATAGTAAAA
* * *
5205290 GATA-TATATATAACTAGTA
1 AATATTAGAGATAACTAGTA
5205309 ATGTTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 2 0.05
29 7 0.16
30 35 0.80
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.30
Consensus pattern (31 bp):
AATATTAGAGATAACTAGTAGAATAGTAAAA
Found at i:5205323 original size:28 final size:29
Alignment explanation
Indices: 5205250--5205309 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
5205240 ATATACATAG
*
5205250 AATAGTAAAAAATATATATATAACTAGTA
1 AATAGTAAAAGATATATATATAACTAGTA
5205279 GAATAGTAAAAGATATATATATAACTAGTA
1 -AATAGTAAAAGATATATATATAACTAGTA
5205309 A
1 A
5205310 TGTTAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (29 bp):
AATAGTAAAAGATATATATATAACTAGTA
Found at i:5207006 original size:73 final size:74
Alignment explanation
Indices: 5206833--5207026 Score: 228
Period size: 73 Copynumber: 2.6 Consensus size: 74
5206823 CTATGCGCCA
* ** * * ***
5206833 AGACTCAACTCACCTCTCGCAATATGAGTTGGTCTTAATTTAAAAGTAGATTTTGAAAATACCTC
1 AGACTCAACTCACCTCTCGCAATATGAGTTGAT-TT--TCGAAAAATAAAAACTGAAAATACCTC
5206898 ATTATGTGACTCG
63 A-TATGTGACTCG
* *
5206911 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTCGAAAAATAAAAACTGAAAATACCTCA-A
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAATAAAAACTGAAAATACCTCATA
*
5206975 TGTGTCTCG
66 TGTGACTCG
* *
5206984 AGACTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAA
5207027 CAGAAATTAA
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
73 48 0.48
75 21 0.21
77 2 0.02
78 30 0.30
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (74 bp):
AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAATAAAAACTGAAAATACCTCATA
TGTGACTCG
Found at i:5207048 original size:54 final size:55
Alignment explanation
Indices: 5206984--5207192 Score: 327
Period size: 54 Copynumber: 3.8 Consensus size: 55
5206974 ATGTGTCTCG
*
5206984 AGACTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGAAAAACA-GAAATTAAA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATG-AATTAAA
*
5207038 AGACTCAACTCACCTCTCGCAATATGAGTTG-TTTTTTGAAAAACATGAATCAAA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATGAATTAAA
*
5207092 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATGAATTAAA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATGAATTAAA
* *
5207146 AGGCTCAACTCACCTCTCGCAATATGAATTGACTTTTTTGAAAAACA
1 AGACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACA
5207193 GAAATTGAAA
Statistics
Matches: 145, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
54 124 0.86
55 15 0.10
56 6 0.04
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (55 bp):
AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATGAATTAAA
Done.