Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 51
Found at i:9151410 original size:17 final size:17
Alignment explanation
Indices: 9151385--9151426 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
9151375 CGGTTGGGCC
*
9151385 TGTTGGACTTGAACACT
1 TGTTAGACTTGAACACT
* *
9151402 TGTTAGACTTGGACCCT
1 TGTTAGACTTGAACACT
9151419 TGTTAGAC
1 TGTTAGAC
9151427 CTGGAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (17 bp):
TGTTAGACTTGAACACT
Found at i:9151585 original size:35 final size:38
Alignment explanation
Indices: 9151517--9151679 Score: 119
Period size: 38 Copynumber: 4.4 Consensus size: 38
9151507 AAACATTTTC
9151517 AAACTATATATTATATATATTTAAAAATGTTTTTCAAA
1 AAACTATATATTATATATATTTAAAAATGTTTTTCAAA
* * * **
9151555 AAACTATATATTATAT-T-TTT-TAATTTTTTTTTTAA
1 AAACTATATATTATATATATTTAAAAATGTTTTTCAAA
* * *
9151590 AAACCATATATTATATATATGTTTTCAAAATG-ATTTC--A
1 AAACTATATATTATATATA---TTTAAAAATGTTTTTCAAA
* *
9151628 AATCTATATATTATATA-AGTTTTCAAAATGTTTTT--AA
1 AAACTATATATTATATATA--TTTAAAAATGTTTTTCAAA
*
9151665 AAACCATATATTATA
1 AAACTATATATTATA
9151680 CAAGTTTTCA
Statistics
Matches: 101, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
35 25 0.25
36 16 0.16
37 19 0.19
38 32 0.32
40 6 0.06
41 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (38 bp):
AAACTATATATTATATATATTTAAAAATGTTTTTCAAA
Found at i:9151615 original size:64 final size:62
Alignment explanation
Indices: 9151554--9151814 Score: 217
Period size: 64 Copynumber: 4.0 Consensus size: 62
9151544 TGTTTTTCAA
**
9151554 AAAACTATATATTATAT-TTTTTAATTTTTTTTTTAAAAACCATATATTATATATATGTTTTC
1 AAAACTATATATTATATATTTTTAA-AATTTTTTTAAAAACCATATATTATATATATGTTTTC
* * *
9151616 AAAATGATTTCAAATCTATATATTATATAAGTTTTCAAAATGTTTTTAAAAACCATATATTATAC
1 ------A----AAA-CTATATATTATAT-A-TTTTTAAAATTTTTTTAAAAACCATATATTATAT
9151681 A-A-GTTTTC
53 ATATGTTTTC
* * *
9151689 AAAACTATATATTATATAGGTTTTAAAATATTTTT-AAAACCTATATATTATATATATATTTTTC
1 AAAACTATATATTATATA-TTTTTAAAATTTTTTTAAAAACC-ATATATTATATATAT-GTTTTC
* * *
9151753 AAAACTATATATTATATATATTTTTAAAA-TGTTTTAAAAACTATATATTATATATATATTTT
1 AAAACTATATA-T-TATATATTTTTAAAATTTTTTTAAAAACCATATATTATATATATGTTTT
9151815 TTTCAAAAAT
Statistics
Matches: 163, Mismatches: 15, Indels: 35
0.77 0.07 0.16
Matches are distributed among these distances:
60 6 0.04
61 26 0.16
62 14 0.09
63 7 0.04
64 35 0.21
65 14 0.09
66 6 0.04
67 1 0.01
68 1 0.01
72 3 0.02
73 19 0.12
74 1 0.01
75 24 0.15
76 6 0.04
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.49
Consensus pattern (62 bp):
AAAACTATATATTATATATTTTTAAAATTTTTTTAAAAACCATATATTATATATATGTTTTC
Found at i:9151628 original size:75 final size:73
Alignment explanation
Indices: 9151517--9151692 Score: 182
Period size: 73 Copynumber: 2.4 Consensus size: 73
9151507 AAACATTTTC
* * * *
9151517 AAACTATATATTATATATA--TTTAAAAATGTTTTTCAAAAAACTATATATTATAT-TTTTTAAT
1 AAACCATATATTATATATAGTTTTCAAAATGTATTTC--AAAACTATATATTATATATTTTCAA-
** *
9151579 TTTTTTTTTAA
63 AATGTTTTTAA
*
9151590 AAACCATATATTATATATATGTTTTCAAAATG-ATTTCAAATCTATATATTATATAAGTTTTCAA
1 AAACCATATATTATATATA-GTTTTCAAAATGTATTTCAAAACTATATATTATAT-A-TTTTCAA
9151654 AATGTTTTTAA
63 AATGTTTTTAA
*
9151665 AAACCATATATTATACA-AGTTTTCAAAA
1 AAACCATATATTATATATAGTTTTCAAAA
9151693 CTATATATTA
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
73 44 0.50
74 1 0.01
75 28 0.32
76 15 0.17
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (73 bp):
AAACCATATATTATATATAGTTTTCAAAATGTATTTCAAAACTATATATTATATATTTTCAAAAT
GTTTTTAA
Found at i:9151685 original size:37 final size:37
Alignment explanation
Indices: 9151583--9151692 Score: 150
Period size: 37 Copynumber: 2.9 Consensus size: 37
9151573 TTTAATTTTT
9151583 TTTTTAAAAACCATATATTATATATATGTTTTCAAAATG
1 TTTTTAAAAACCATATATTATATA-A-GTTTTCAAAATG
* * * *
9151622 -ATTTCAAATCTATATATTATATAAGTTTTCAAAATG
1 TTTTTAAAAACCATATATTATATAAGTTTTCAAAATG
*
9151658 TTTTTAAAAACCATATATTATACAAGTTTTCAAAA
1 TTTTTAAAAACCATATATTATATAAGTTTTCAAAA
9151693 CTATATATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
36 12 0.20
37 30 0.49
38 19 0.31
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (37 bp):
TTTTTAAAAACCATATATTATATAAGTTTTCAAAATG
Found at i:9151711 original size:25 final size:24
Alignment explanation
Indices: 9151659--9151716 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
9151649 TTCAAAATGT
9151659 TTTTAAAAACCATATATTATACAAG
1 TTTT-AAAACCATATATTATACAAG
* * *
9151684 TTTTCAAAACTATATATTATATAGG
1 TTTT-AAAACCATATATTATACAAG
9151709 TTTTAAAA
1 TTTTAAAA
9151717 TATTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (24 bp):
TTTTAAAACCATATATTATACAAG
Found at i:9151733 original size:36 final size:33
Alignment explanation
Indices: 9151512--9151807 Score: 127
Period size: 36 Copynumber: 8.7 Consensus size: 33
9151502 TTCAAAAACA
* *
9151512 TTTTCAAACTATATATTATATATATTTAAAAATGT
1 TTTTAAAACTATATATTATATAT-TTT-AAAATAT
* ** *
9151547 TTTTCAAAAAACTATATATTATATTTTTTAATTTTTT
1 TTTT---AAAACTATATATTATATATTTTAA-AATAT
*
9151584 TTTTAAAAACCATATATTATATATATGTTTTCAAAATGA-
1 TTTT-AAAA-C-TATA-TAT-TATATATTTT-AAAAT-AT
* * *
9151623 TTTCAAATCTATATATTATATAAGTTTTCAAAATGT
1 TTTTAAAACTATATATTATAT-A-TTTT-AAAATAT
* * *
9151659 TTTTAAAA--ACCATA-TAT-TA---TACAA-GT
1 TTTTAAAACTA-TATATTATATATTTTAAAATAT
*
9151685 TTTCAAAACTATATATTATATAGGTTTTAAAATAT
1 TTTTAAAACTATATATTATATA--TTTTAAAATAT
9151720 TTTTAAAACCTATATATTATATA---T---ATAT
1 TTTTAAAA-CTATATATTATATATTTTAAAATAT
*
9151748 TTTTCAAAACTATATATTATATATATTTTTAAAATGT
1 TTTT-AAAACTATATA-T-TATATA-TTTTAAAATAT
*
9151785 TTTAAAAACTATATATTATATAT
1 TTTTAAAACTATATATTATATAT
9151808 ATATTTTTTT
Statistics
Matches: 202, Mismatches: 24, Indels: 72
0.68 0.08 0.24
Matches are distributed among these distances:
26 9 0.04
27 6 0.03
28 20 0.10
29 7 0.03
30 6 0.03
31 1 0.00
32 1 0.00
33 2 0.01
34 20 0.10
35 24 0.12
36 48 0.24
37 20 0.10
38 23 0.11
39 13 0.06
40 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (33 bp):
TTTTAAAACTATATATTATATATTTTAAAATAT
Found at i:9151761 original size:26 final size:25
Alignment explanation
Indices: 9151716--9151781 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 25
9151706 AGGTTTTAAA
9151716 ATATTTTTAAAACCTATATATTATATAT
1 ATATTTTTAAAA-CTATATA-T-TATAT
9151744 ATATTTTTCAAAACTATATATTATAT
1 ATATTTTT-AAAACTATATATTATAT
9151770 ATATTTTTAAAA
1 ATATTTTTAAAA
9151782 TGTTTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.11
26 13 0.35
27 1 0.03
28 15 0.41
29 4 0.11
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATTTTTAAAACTATATATTATAT
Found at i:9151815 original size:64 final size:63
Alignment explanation
Indices: 9151623--9151815 Score: 248
Period size: 64 Copynumber: 3.0 Consensus size: 63
9151613 TTCAAAATGA
* * * * *
9151623 TTTCAAATCTATATATTATATAAGTTTTCAAAATGTTTTTAAAAACCATATA-T-TATACA-AGT
1 TTTCAAAACTATATATTATATAA-TTTTTAAAATG-TTTTAAAAACTATATATTATATATATATT
** * *
9151685 TTTCAAAACTATATATTATATAGGTTTTAAAATATTTTTAAAACCTATATATTATATATATATT
1 TTTCAAAACTATATATTATATAATTTTTAAAAT-GTTTTAAAAACTATATATTATATATATATT
9151749 TTTCAAAACTATATATTATATATATTTTTAAAATGTTTTAAAAACTATATATTATATATATATT
1 TTTCAAAACTATATATTATATA-ATTTTTAAAATGTTTTAAAAACTATATATTATATATATATT
9151813 TTT
1 TTT
9151816 TTCAAAAATC
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
61 22 0.19
62 22 0.19
63 5 0.04
64 55 0.49
65 9 0.08
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (63 bp):
TTTCAAAACTATATATTATATAATTTTTAAAATGTTTTAAAAACTATATATTATATATATATT
Found at i:9152482 original size:85 final size:85
Alignment explanation
Indices: 9152344--9152714 Score: 395
Period size: 85 Copynumber: 4.3 Consensus size: 85
9152334 TGTGTCATCA
* * * ** * * * *
9152344 AGCTGAATGAAATCAAACTCGACA-GTTTTCATTGACAGATAACCCTTATCGCCTTGAGTTATAC
1 AGCTGAATGTAATCGAACTCGA-AGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* * *
9152408 TGTAAATTTGATGTGCTTTTG
65 TGTAAATTTAATATGCCTTTG
* * * * * *
9152429 AGGTAAATGGAATCGAACTCGAAGGTCTTGGTTGACAGATAGTCCTCCTCGCCTTAAGCTATGCT
1 AGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
*
9152494 GCAAATTTAATATGCCTTTG
66 GTAAATTTAATATGCCTTTG
** * * * *
9152514 AGCTGAATGTAATCGAACTCGAAGGTCTTTATTGACAGATAACCCTTCTCACCTTGTGTTATGCT
1 AGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
* *
9152579 ATAAATTTGATATGTCC-TTG
66 GTAAATTTAATATG-CCTTTG
* * *
9152599 AGCTGAATGTAATCGAACTCGAAGGTTTTTTGGCTGACAAATAGCCCTTCTCGCCTTGAGCTATG
1 AGCTGAATGTAATCGAACTCGAAGG--TCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* *
9152664 CTGTGAATTCAATATGCCTTTG
64 CTGTAAATTTAATATGCCTTTG
*
9152686 AGCTGAATGTAATCGAACTCGAAGATCTT
1 AGCTGAATGTAATCGAACTCGAAGGTCTT
9152715 TGCTGCAATA
Statistics
Matches: 233, Mismatches: 48, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
84 1 0.00
85 160 0.69
86 4 0.02
87 68 0.29
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (85 bp):
AGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
GTAAATTTAATATGCCTTTG
Found at i:9152559 original size:170 final size:172
Alignment explanation
Indices: 9152344--9152715 Score: 484
Period size: 170 Copynumber: 2.2 Consensus size: 172
9152334 TGTGTCATCA
* * *
9152344 AGCTGAATGAAATCAAACTCGACA-GT-TTTCATTGACAGATAACCCTTATCGCCTTGAGTTATA
1 AGCTGAATGTAATCGAACTCGA-AGGTCTTTCATTGACAGATAACCCTTATCACCTTGAGTTATA
* * * * * *
9152407 CTGTAAATTTGATGTG-CTTTTGAGGTAAATGGAATCGAACTCGAAGG-TCTTGGTTGACAGATA
65 CTATAAATTTGATATGTC-CTTGAGCTAAATGGAATCGAACTCGAAGGTTCTTGGCTGACAAATA
* *
9152470 GTCCTCCTCGCCTTAAGCTATGCTGCAAATTTAATATGCCTTTG
129 GCCCTCCTCGCCTTAAGCTATGCTGCAAATTCAATATGCCTTTG
* * *
9152514 AGCTGAATGTAATCGAACTCGAAGGTCTTT-ATTGACAGATAACCCTTCTCACCTTGTGTTATGC
1 AGCTGAATGTAATCGAACTCGAAGGTCTTTCATTGACAGATAACCCTTATCACCTTGAGTTATAC
* * *
9152578 TATAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGGCTGACAAATAG
66 TATAAATTTGATATGTCCTTGAGCTAAATGGAATCGAACTCGAAGG-TTCTTGGCTGACAAATAG
* * **
9152643 CCCTTCTCGCCTTGAGCTATGCTGTGAATTCAATATGCCTTTG
130 CCCTCCTCGCCTTAAGCTATGCTGCAAATTCAATATGCCTTTG
*
9152686 AGCTGAATGTAATCGAACTCGAAGATCTTT
1 AGCTGAATGTAATCGAACTCGAAGGTCTTT
9152716 GCTGCAATAG
Statistics
Matches: 175, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
169 1 0.01
170 90 0.51
171 4 0.02
172 80 0.46
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (172 bp):
AGCTGAATGTAATCGAACTCGAAGGTCTTTCATTGACAGATAACCCTTATCACCTTGAGTTATAC
TATAAATTTGATATGTCCTTGAGCTAAATGGAATCGAACTCGAAGGTTCTTGGCTGACAAATAGC
CCTCCTCGCCTTAAGCTATGCTGCAAATTCAATATGCCTTTG
Found at i:9153726 original size:14 final size:14
Alignment explanation
Indices: 9153690--9153719 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9153680 GTAAAGCCTC
9153690 ATAATTACATCTAG
1 ATAATTACATCTAG
9153704 ATAATTACATCTAG
1 ATAATTACATCTAG
9153718 AT
1 AT
9153720 GGTTACAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
ATAATTACATCTAG
Found at i:9158543 original size:29 final size:29
Alignment explanation
Indices: 9158502--9158593 Score: 150
Period size: 29 Copynumber: 3.2 Consensus size: 29
9158492 CTGTTGACTC
9158502 AGGG-GTTAGTTTCATAAATATTTTTAAA
1 AGGGTGTTAGTTTCATAAATATTTTTAAA
*
9158530 AGGGTGTTAGTTTCGTAAATATTTTTAAA
1 AGGGTGTTAGTTTCATAAATATTTTTAAA
* *
9158559 AGGGTGTTAGTTTCATAAATTTTTTTGAA
1 AGGGTGTTAGTTTCATAAATATTTTTAAA
9158588 AGGGTG
1 AGGGTG
9158594 ATAATTGTGT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 4 0.07
29 55 0.93
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (29 bp):
AGGGTGTTAGTTTCATAAATATTTTTAAA
Found at i:9163327 original size:15 final size:15
Alignment explanation
Indices: 9163307--9163339 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
9163297 TAGTGTGACT
9163307 AAAATATAAATA-TTA
1 AAAATA-AAATACTTA
9163322 AAAATAAAATACTTA
1 AAAATAAAATACTTA
9163337 AAA
1 AAA
9163340 CAAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATACTTA
Found at i:9164856 original size:3 final size:3
Alignment explanation
Indices: 9164848--9164919 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
9164838 TAAATACACT
9164848 TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
9164895 TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
9164920 TTCTTTAACC
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
2 3 0.05
3 62 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9165460 original size:91 final size:92
Alignment explanation
Indices: 9165294--9165460 Score: 248
Period size: 91 Copynumber: 1.8 Consensus size: 92
9165284 TCGAACAAGC
* *
9165294 TCTTCTCATTATAAACTTATTCTCTCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
1 TCTTCTCATTATAAACTTATTCTCTCTCGTTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
9165359 AAAATGTTGATGCGAAGTTGAACAAAT
66 AAAATGTTGATGCGAAGTTGAACAAAT
* * *
9165386 TCTTCTCATTATGAACTTCTTCT-TCCTCGTT-GGATGAGTTCTTCTCATTATGAACTCTTCACT
1 TCTTCTCATTATAAACTTATTCTCT-CTCGTTCGGATGAGTTCTTCTCATTATGAACTCTCCACT
* *
9165449 GGAAATTTTGAT
65 GAAAATGTTGAT
9165461 TCCTCAAGCG
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
91 41 0.61
92 26 0.39
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (92 bp):
TCTTCTCATTATAAACTTATTCTCTCTCGTTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
AAAATGTTGATGCGAAGTTGAACAAAT
Found at i:9165517 original size:227 final size:221
Alignment explanation
Indices: 9165157--9165594 Score: 637
Period size: 227 Copynumber: 2.0 Consensus size: 221
9165147 GACTTGAAAG
* * *
9165157 GAACAAGTTCTTTTCATTATGAACTTTCTCCTTTAAGATGAGTTCTTCTCATTATGAACTCTTTT
1 GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAAGATGAGTTCTTCTCATTATGAACTCTTCT
9165222 GGAAATGTCAATCCCTCTAACGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGATAGATCG
66 GGAAATGTCAATCCCTCTAACGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGATAGATCG
* *
9165287 AACAAGCTCTTCTCATTATAAACTTATTCTCTCTCTTTCGGATGAGTTCTTCTCATTATGAACTC
131 AACAAGCTCTTCTCATTATAAACTTATTCTCCCTCTCTCGGATGAGTTCTTCTCATTATGAACTC
*
9165352 TCCATTGAAAATGTTGATGCGAAGTT
196 TCCAATGAAAATGTTGATGCGAAGTT
*
9165378 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCGTT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAATTCTTCTCATTATGAAC-T-TTC-TCCT--TTAAGATGAGTTCTTCTCATTATGAACT
* ** * *
9165442 CTTCACTGGAAATTTTGATTCCTC-AAGCGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTG
61 CTT--CTGGAAATGTCAATCCCTCTAA-CGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTG
* * * *
9165506 ATAGGTCGAACAAGCTCTTCTTATTATGAACTTCTTCTCCCTCTCTCGGATGAGTTCTTCTCATT
123 ATAGATCGAACAAGCTCTTCTCATTATAAACTTATTCTCCCTCTCTCGGATGAGTTCTTCTCATT
*
9165571 ATGAACTCTCCAATGGAAATGTTG
188 ATGAACTCTCCAATGAAAATGTTG
9165595 GTTCCTCAAG
Statistics
Matches: 192, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
221 22 0.11
222 1 0.01
223 3 0.02
224 4 0.02
225 27 0.14
226 4 0.02
227 131 0.68
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (221 bp):
GAACAAATTCTTCTCATTATGAACTTTCTCCTTTAAGATGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTCAATCCCTCTAACGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGATAGATCG
AACAAGCTCTTCTCATTATAAACTTATTCTCCCTCTCTCGGATGAGTTCTTCTCATTATGAACTC
TCCAATGAAAATGTTGATGCGAAGTT
Found at i:9165621 original size:136 final size:135
Alignment explanation
Indices: 9165386--9165734 Score: 583
Period size: 136 Copynumber: 2.6 Consensus size: 135
9165376 TTGAACAAAT
* * *
9165386 TCTTCTCATTATGAACTTCTTCTTCCTCGTT-GGATGAGTTCTTCTCATTATGAACTCTTCACTG
1 TCTTCTCATTATGAACTTCTTCTCCCTC-TTCGGATGAGTTCTTCTCATTATGAACTCTCCAATG
* * *
9165450 GAAATTTTGATTCCTCAAGCGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGA
65 GAAATGTTGGTTCCTCAAGCGAGGTATCACTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGA
9165515 ACAAGC
130 ACAAGC
*
9165521 TCTTCTTATTATGAACTTCTTCTCCCTCTCTCGGATGAGTTCTTCTCATTATGAACTCTCCAATG
1 TCTTCTCATTATGAACTTCTTCTCCCTCT-TCGGATGAGTTCTTCTCATTATGAACTCTCCAATG
9165586 GAAATGTTGGTTCCTCAAGCGAGGTATCACTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGA
65 GAAATGTTGGTTCCTCAAGCGAGGTATCACTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGA
9165651 ACAAGC
130 ACAAGC
* *
9165657 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCTATTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCT-TCGGATGAGTTCTTCTCATTATGAACTCTCCAATG
9165722 GAAATGTTGGTTC
65 GAAATGTTGGTTC
9165735 ACCTCCTTCT
Statistics
Matches: 201, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
134 1 0.00
135 27 0.13
136 173 0.86
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (135 bp):
TCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTTCTTCTCATTATGAACTCTCCAATGG
AAATGTTGGTTCCTCAAGCGAGGTATCACTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGAA
CAAGC
Found at i:9166584 original size:22 final size:20
Alignment explanation
Indices: 9166566--9166626 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 20
9166556 CATTTTTCTC
9166566 TTCATTTTTTCTCTTTTTTATTT
1 TTCA-TTTTT-TCTTTTTT-TTT
*
9166589 TTTATTTTTTCATTTTTTATTT
1 TTCATTTTTTC-TTTTTT-TTT
9166611 TTCATTTTTTCTTTTT
1 TTCATTTTTTCTTTTT
9166627 CTTCAAGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 7 0.20
22 25 0.71
23 3 0.09
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTCATTTTTTCTTTTTTTTT
Found at i:9166589 original size:7 final size:7
Alignment explanation
Indices: 9166579--9166626 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
9166569 ATTTTTTCTC
9166579 TTTTTTA
1 TTTTTTA
9166586 TTTTTTA
1 TTTTTTA
9166593 TTTTTTCA
1 TTTTTT-A
9166601 TTTTTTA
1 TTTTTTA
*
9166608 TTTTTCA
1 TTTTTTA
*
9166615 TTTTTTC
1 TTTTTTA
9166622 TTTTT
1 TTTTT
9166627 CTTCAAGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 30 0.81
8 7 0.19
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:9166627 original size:14 final size:14
Alignment explanation
Indices: 9166566--9166627 Score: 70
Period size: 14 Copynumber: 4.2 Consensus size: 14
9166556 CATTTTTCTC
9166566 TTCATTTTTTCTCTTT
1 TTCA-TTTTT-TCTTT
* *
9166582 TTTATTTTTTATTTT
1 TTCATTTTTT-CTTT
*
9166597 TTCATTTTTTATTT
1 TTCATTTTTTCTTT
9166611 TTCATTTTTTCTTT
1 TTCATTTTTTCTTT
9166625 TTC
1 TTC
9166628 TTCAAGCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 20 0.50
15 17 0.43
16 3 0.08
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCATTTTTTCTTT
Found at i:9178789 original size:15 final size:15
Alignment explanation
Indices: 9178769--9178801 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
9178759 TAGTGTGACT
9178769 AAAATATAAATA-TTA
1 AAAATA-AAATACTTA
9178784 AAAATAAAATACTTA
1 AAAATAAAATACTTA
9178799 AAA
1 AAA
9178802 CAAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATACTTA
Found at i:9179052 original size:22 final size:22
Alignment explanation
Indices: 9179027--9179070 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9179017 ATGTTAAAAC
9179027 TCAAAATAAGATAAATAAGACT
1 TCAAAATAAGATAAATAAGACT
*
9179049 TCAAAATAAGATAAATAGGACT
1 TCAAAATAAGATAAATAAGACT
9179071 ATAAGGTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (22 bp):
TCAAAATAAGATAAATAAGACT
Found at i:9180143 original size:3 final size:3
Alignment explanation
Indices: 9180135--9180180 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
9180125 TAAATACACT
*
9180135 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9180181 TTCTTTAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:9184248 original size:29 final size:28
Alignment explanation
Indices: 9184203--9184260 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
9184193 CCGTTGACTC
9184203 GGGTGTTAGTTTCGTAAATATTTTTAAAA
1 GGGTGTTAGTTTCGTAAATA-TTTTAAAA
*
9184232 GGGTGTTAGTTTTGTAAATATTTTAAAA
1 GGGTGTTAGTTTCGTAAATATTTTAAAA
9184260 G
1 G
9184261 AGTGATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (28 bp):
GGGTGTTAGTTTCGTAAATATTTTAAAA
Found at i:9184279 original size:29 final size:29
Alignment explanation
Indices: 9184216--9184277 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
9184206 TGTTAGTTTC
* * * *
9184216 GTAAATATTTTTAAAAGGGTGTTAGTTTT
1 GTAAATATTTTTAAAAGAGTGATAATTGT
9184245 GTAAATA-TTTTAAAAGAGTGATAATTGT
1 GTAAATATTTTTAAAAGAGTGATAATTGT
9184273 GTAAA
1 GTAAA
9184278 ATGGTTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (29 bp):
GTAAATATTTTTAAAAGAGTGATAATTGT
Found at i:9197513 original size:21 final size:21
Alignment explanation
Indices: 9197487--9197566 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
9197477 CAGAACCCCA
*
9197487 GGGGGGTATCGATTCCCCTAT
1 GGGGGGAATCGATTCCCCTAT
* *
9197508 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATTCCCC-T-AT
* *
9197531 AGGGGGAATCGGTT-CCCTCA-
1 GGGGGGAATCGATTCCCCT-AT
9197551 GGGGGG-ATCGATTCCC
1 GGGGGGAATCGATTCCC
9197567 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 6 0.12
20 7 0.14
21 19 0.38
22 4 0.08
23 14 0.28
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTAT
Found at i:9197555 original size:19 final size:20
Alignment explanation
Indices: 9197509--9197568 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
9197499 TTCCCCTATG
9197509 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
9197532 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
9197551 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
9197569 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:9206084 original size:62 final size:63
Alignment explanation
Indices: 9205939--9206088 Score: 182
Period size: 63 Copynumber: 2.4 Consensus size: 63
9205929 TTCCCCTCGC
* * *
9205939 AGTCTATCATTGACTTCCTTGTGAAGAGAAGTCAACTTTGGTTATTCCTTAACTCCCCAGAGG
1 AGTCAATCATTGACTTCATCGTGAAGAGAAGTCAACTTTGGTTATTCCTTAACTCCCCAGAGG
* * * *
9206002 AGCCAATCCA-TGACTTCATCGTGAAGAGAAGTCAAC-TTGTGTTATTTC-TGACTCCCCATTA-
1 AGTCAAT-CATTGACTTCATCGTGAAGAGAAGTCAACTTTG-GTTATTCCTTAACTCCCCA-GAG
9206063 G
63 G
9206064 AGTCAATCATTGACTTCATCGTGAA
1 AGTCAATCATTGACTTCATCGTGAA
9206089 TATAAGTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
61 2 0.03
62 34 0.45
63 37 0.49
64 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (63 bp):
AGTCAATCATTGACTTCATCGTGAAGAGAAGTCAACTTTGGTTATTCCTTAACTCCCCAGAGG
Found at i:9206293 original size:92 final size:93
Alignment explanation
Indices: 9206100--9206298 Score: 249
Period size: 92 Copynumber: 2.2 Consensus size: 93
9206090 ATAAGTTAAT
* ** * *
9206100 ATTGCAGATTTGGTCTTCCTAGCAAAGGAGCGAATCAAATCAACACAAAATTATGCTCTCCACGA
1 ATTGCAGATTTGGTATTCCTAGCAAAAAAGCGAATCAAATCAACACAAAATTATGATCTCCACAA
* *
9206165 AATAGTAGTGGAACAGGTTTTTCTCAAC
66 AAGAGTAGTGGAACAGGTTCTTCTCAAC
* * * * *
9206193 ATTACAGATGTGGTATTCCTTGCAAAAAAGCGAATCAAATCAAC-CTTAAGTT-TGATCTCCACA
1 ATTGCAGATTTGGTATTCCTAGCAAAAAAGCGAATCAAATCAACAC-AAAATTATGATCTCCACA
* *
9206256 AAAGATTTGTGGAACAGGTTCTTCTCAAC
65 AAAGAGTAGTGGAACAGGTTCTTCTCAAC
9206285 ATTGCAGATTTGGT
1 ATTGCAGATTTGGT
9206299 CTCCACGGAA
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
92 47 0.53
93 42 0.47
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (93 bp):
ATTGCAGATTTGGTATTCCTAGCAAAAAAGCGAATCAAATCAACACAAAATTATGATCTCCACAA
AAGAGTAGTGGAACAGGTTCTTCTCAAC
Found at i:9206472 original size:36 final size:34
Alignment explanation
Indices: 9206432--9207241 Score: 119
Period size: 36 Copynumber: 22.5 Consensus size: 34
9206422 GCCTTCACAA
*
9206432 AAGAGTAGTGAAGTAAATAAATTTTAGCCTTAATAG
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTTAA-AG
*
9206468 AAGAGTAGTGAAGCAAAACAATCTTAGCCTTCACAAG
1 AAGAGTAGTGAAGCAAAA-AATTTTAGCCTT-A-AAG
* * * * *
9206505 AAGAATAGTGAAGCAAAGCAATTTTCGCCTTCACG
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTTAAAG
* ** ***
9206540 AAAGAGTAGTGAAGTGAAGCAATCAAAGCCTTTACAA-
1 -AAGAGTAGTGAAG-CAAAAAATTTTAGCC-TTA-AAG
* ** * * *
9206577 AAGAGTAGTGAAACAATGCAATCTTAGCCTTCACAT
1 AAGAGTAGTGAAGCAA-AAAATTTTAGCCTT-AAAG
* * *** *
9206613 AAGAGTAGTGAAGTAAAGCAATCAAAGCCTTTACAG
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCC-TTAAAG
* * * ** *
9206649 AAGAGTATTAAAGTAATGCAATCTTAGCCTTCACAA-
1 AAGAGTAGTGAAGCAA-AAAATTTTAGCCTT-A-AAG
* * * *** *
9206685 AAGAGTGGTGAAACTAAACAATCAAAGCCTTTACAG
1 AAGAGTAGTGAAGC-AAAAAATTTTAGCC-TTAAAG
* * * **
9206721 AAGAGTAGTAAAG-AAATGCAATCTTAGCCTTCACGG
1 AAGAGTAGTGAAGCAAA--AAATTTTAGCCTT-AAAG
*** * *
9206757 AAGAGTAGTGAAGCAAAACAATCAAAGTCTTTACAG
1 AAGAGTAGTGAAGCAAAA-AATTTTAG-CCTTAAAG
* ** *
9206793 AAGAGTAGTAAAGCAATGTAATCTTAGCCTTCACAA-
1 AAGAGTAGTGAAGCAA-AAAATTTTAGCCTT-A-AAG
* *** *
9206829 AAGAGTAGTGAAGCAAAGCAATCAAAGCCTTTATAG
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCC-TTAAAG
* ** *
9206865 AAGAGTAGTAAAGCAATGCAATCTTAGCCTTCACAA-
1 AAGAGTAGTGAAGCAA-AAAATTTTAGCCTT-A-AAG
* ***
9206901 AAGAGTAGTGAAGCAAAGCAATCAAAGCCTTTACAA-
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCC-TTA-AAG
* * * ** **
9206937 AATAATAGTAAAGCAATGCAA-TCAAGCCTTCACAA-
1 AAGAGTAGTGAAGCAA-AAAATTTTAGCCTT-A-AAG
* *
9206972 AAGAGTAGTGAAGCAAAGAAATCTTAGCCTTCACAAA
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTT-A-AAG
* * * ** * **
9207009 AAGAGTAATAAAGTAAGGCAATTTTTGCCTTCACGG
1 AAGAGTAGTGAAGCAA-AAAATTTTAGCCTT-AAAG
* * * **
9207045 AAGAGTAGTAAAGCAAATCAATCTTAGCCTTCACGG
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTT-AAAG
* * * *
9207081 AAGAGTAGTAAAGCAAAGCAATCTTAGCCTTCACAG
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTT-AAAG
* * *
9207117 AAGAGTAGTTAAGCAAAGCAATCTTAGCCTTCACAA-
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTT-A-AAG
* ** *
9207153 AAGCGTAGTGAAGCAAATCGATCTTAGCCTTCACAA-
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTT-A-AAG
* *** *
9207189 AAGAGTAGTGAAGCAAATCAATCCAAGCCTTCACAAA
1 AAGAGTAGTGAAGCAAA-AAATTTTAGCCTT-A-AAG
9207226 AAGAGTAGTGAAGCAA
1 AAGAGTAGTGAAGCAA
9207242 GAACATGGCA
Statistics
Matches: 611, Mismatches: 118, Indels: 89
0.75 0.14 0.11
Matches are distributed among these distances:
34 5 0.01
35 43 0.07
36 467 0.76
37 94 0.15
38 2 0.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (34 bp):
AAGAGTAGTGAAGCAAAAAATTTTAGCCTTAAAG
Found at i:9206617 original size:72 final size:72
Alignment explanation
Indices: 9206395--9207241 Score: 932
Period size: 72 Copynumber: 11.8 Consensus size: 72
9206385 TAGTCTTTAA
* * * * * *
9206395 AAAAGAGTAGTAAAGCAATGCAATC-AAGCCTTCACAAAAGAGTAGTGAAGTAAAT-AAATTTTA
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAG-CAATGCAATCTTA
* *
9206458 GCCTTAAT
65 GCCTTCAC
* * ** * * * * *
9206466 AGAAGAGTAGTGAAGCAAAACAATCTTAGCCTTCACAAGAAGAATAGTGAAGCAAAGCAATTTTC
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAA-AAGAGTAGTAAAGCAATGCAATCTTA
9206531 GCCTTCAC
65 GCCTTCAC
* ** *
9206539 GAAAGAGTAGTGAAGTGAAGCAATCAAAGCCTTTACAAAAGAGTAGTGAAA-CAATGCAATCTTA
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGT-AAAGCAATGCAATCTTA
9206603 GCCTTCAC
65 GCCTTCAC
* * * * * *
9206611 ATAAGAGTAGTGAAGTAAAGCAATCAAAGCCTTTACAGAAGAGTATTAAAGTAATGCAATCTTAG
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGCAATGCAATCTTAG
9206676 CCTTCAC
66 CCTTCAC
* * * * *
9206683 AAAAGAGTGGTGAAACTAAA-CAATCAAAGCCTTTACAGAAGAGTAGTAAAGAAATGCAATCTTA
1 AAAAGAGTAGTGAAGC-AAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGCAATGCAATCTTA
9206747 GCCTTCAC
65 GCCTTCAC
** * * * * *
9206755 GGAAGAGTAGTGAAGCAAAACAATCAAAGTCTTTACAGAAGAGTAGTAAAGCAATGTAATCTTAG
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGCAATGCAATCTTAG
9206820 CCTTCAC
66 CCTTCAC
* * *
9206827 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTTATAGAAGAGTAGTAAAGCAATGCAATCTTAG
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGCAATGCAATCTTAG
9206892 CCTTCAC
66 CCTTCAC
* * * *
9206899 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTTACAAAATAATAGTAAAGCAATGCAATC-AAG
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGCAATGCAATCTTAG
9206963 CCTTCAC
66 CCTTCAC
* ** * * * * *
9206970 AAAAGAGTAGTGAAGCAAAGAAATCTTAGCCTTCACAAAAAGAGTAATAAAGTAAGGCAATTTTT
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCAC-AAAAGAGTAGTAAAGCAATGCAATCTTA
9207035 GCCTTCAC
65 GCCTTCAC
** * * ** ** *
9207043 GGAAGAGTAGTAAAGCAAATCAATCTTAGCCTTCACGGAAGAGTAGTAAAGCAAAGCAATCTTAG
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGCAATGCAATCTTAG
9207108 CCTTCAC
66 CCTTCAC
* * ** * * *
9207115 AGAAGAGTAGTTAAGCAAAGCAATCTTAGCCTTCACAAAAGCGTAGTGAAGCAAAT-CGATCTTA
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGC-AATGCAATCTTA
9207179 GCCTTCAC
65 GCCTTCAC
* * *
9207187 AAAAGAGTAGTGAAGCAAATCAATCCAAGCCTTCACAAAAAGAGTAGTGAAGCAA
1 AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCAC-AAAAGAGTAGTAAAGCAA
9207242 GAACATGGCA
Statistics
Matches: 671, Mismatches: 94, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
71 68 0.10
72 488 0.73
73 115 0.17
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (72 bp):
AAAAGAGTAGTGAAGCAAAGCAATCAAAGCCTTCACAAAAGAGTAGTAAAGCAATGCAATCTTAG
CCTTCAC
Found at i:9207055 original size:31 final size:33
Alignment explanation
Indices: 9207035--9207204 Score: 133
Period size: 36 Copynumber: 4.8 Consensus size: 33
9207025 GGCAATTTTT
9207035 GCCTTCACGGAAGAGTAGTAAAGCAAATCAATCTTA
1 GCCTTCACGGAAGAGTAGTAAAGC-AAT--ATCTTA
*
9207071 GCCTTCACGGAAGAGTAGTAAAGCAAAGCAATCTTA
1 GCCTTCACGGAAGAGTAGTAAAGC-AA--TATCTTA
* * *
9207107 GCCTTCACAGAAGAGTAGTTAAGCAAAGCAATCTTA
1 GCCTTCACGGAAGAGTAGTAAAGC-AA--TATCTTA
** * *
9207143 GCCTTCACAAAAGCGTAGTGAAGCAAATCGATCTTA
1 GCCTTCACGGAAGAGTAGTAAAGC-AAT--ATCTTA
** *
9207179 GCCTTCACAAAAGAGTAGTGAAGCAA
1 GCCTTCACGGAAGAGTAGTAAAGCAA
9207205 ATCAATCCAA
Statistics
Matches: 122, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
35 2 0.02
36 120 0.98
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (33 bp):
GCCTTCACGGAAGAGTAGTAAAGCAATATCTTA
Found at i:9207438 original size:3 final size:3
Alignment explanation
Indices: 9207419--9207455 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
9207409 TATGTTTTTA
*
9207419 TAT TAT AAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9207456 AAAGTAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9207501 original size:20 final size:20
Alignment explanation
Indices: 9207476--9207526 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
9207466 AATATAAATT
9207476 GAGGCCCAATTACAAGTCTG
1 GAGGCCCAATTACAAGTCTG
*
9207496 GAGGCCCAATTACAAGTTTG
1 GAGGCCCAATTACAAGTCTG
9207516 GAGGCCCAATT
1 GAGGCCCAATT
9207527 GATAACAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (20 bp):
GAGGCCCAATTACAAGTCTG
Found at i:9208822 original size:2 final size:2
Alignment explanation
Indices: 9208811--9208843 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9208801 TATAATTTTA
*
9208811 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9208844 TCAGGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9216026 original size:36 final size:36
Alignment explanation
Indices: 9215985--9216134 Score: 219
Period size: 36 Copynumber: 4.1 Consensus size: 36
9215975 GTGCAAGTTA
* *
9215985 ATCTTAAGCCTTCATGCAAGAGTAGTGAAGCAAGTC
1 ATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAATC
* *
9216021 ATCTTAAGCCTTTATGGAATAGTAGTGAAGCAAATC
1 ATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAATC
* *
9216057 ATCTTAAGCCTTCACGGAAGAGTAGAGAAGCAAATC
1 ATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAATC
* *
9216093 ATCTTAAGCCTTCATGAAAGACTAGTGAAGCAAATC
1 ATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAATC
9216129 AATCTT
1 -ATCTT
9216135 GAGTCTGATC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
36 96 0.95
37 5 0.05
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (36 bp):
ATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAATC
Found at i:9216246 original size:55 final size:55
Alignment explanation
Indices: 9216147--9216415 Score: 288
Period size: 55 Copynumber: 4.9 Consensus size: 55
9216137 GTCTGATCTC
* * ** ** *
9216147 CCCTGAAGGAATAGTGAAGCAGACATATTTTATGAAGATGGTTCGAGTCATATACT
1 CCCTGAAAGAATAG-GGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCATATACT
* *
9216203 CCCTGAAAGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTCGAGTCCTATACT
1 CCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCATATACT
* * * * *
9216258 CCCTGAAAGAATAGGGAGCAAACACGTATGCTAAAGATTGTTCGATTCCTATACT
1 CCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCATATACT
* * * * *
9216313 CCCTGAAAGAATAGGGAGCAGAC-CTATTTGCCGAAGATTATTCGAGTTATATATT
1 CCCTGAAAGAATAGGGAGCAGACAC-GTTTGCTGAAGATTGTTCGAGTCATATACT
** * * * *
9216368 CCCTGAAAGAATAGGGAGTGGACACGTTTTCCGAAGATTTTTCAAGTC
1 CCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTC
9216416 CCACTTATCC
Statistics
Matches: 181, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
54 1 0.01
55 166 0.92
56 14 0.08
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (55 bp):
CCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCATATACT
Found at i:9228100 original size:18 final size:18
Alignment explanation
Indices: 9228077--9228139 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
9228067 GTCGAGGGTT
*
9228077 ATAGTGGTCCTACGAGAC
1 ATAGTGGTCCTACGGGAC
* *
9228095 ATAGTGTTCCTTCGGGAC
1 ATAGTGGTCCTACGGGAC
9228113 AATACAGTGGTCCTACGGGAC
1 -AT--AGTGGTCCTACGGGAC
9228134 ATAGTG
1 ATAGTG
9228140 ATCATTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 19 0.51
19 2 0.05
20 2 0.05
21 14 0.38
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (18 bp):
ATAGTGGTCCTACGGGAC
Found at i:9228135 original size:39 final size:39
Alignment explanation
Indices: 9228079--9228153 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
9228069 CGAGGGTTAT
* *
9228079 AGTGGTCCTACGAGACATAGTGTTCCTTCGGGACAATAC
1 AGTGGTCCTACGAGACATAGTGATCATTCGGGACAATAC
*
9228118 AGTGGTCCTACGGGACATAGTGATCATTCGGGACAA
1 AGTGGTCCTACGAGACATAGTGATCATTCGGGACAA
9228154 ATTTCAGTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
AGTGGTCCTACGAGACATAGTGATCATTCGGGACAATAC
Found at i:9228836 original size:21 final size:22
Alignment explanation
Indices: 9228810--9228853 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9228800 TGTAGCAGTA
*
9228810 CTGTAGCA-GGGTATCGGTTCC
1 CTGTAGCAGGGGAATCGGTTCC
9228831 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGGTTCC
9228853 C
1 C
9228854 CTATGACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.16, C:0.25, G:0.34, T:0.25
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGGTTCC
Found at i:9230017 original size:2 final size:2
Alignment explanation
Indices: 9230010--9230045 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9230000 CTTAATAAAT
9230010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9230046 ACACTTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9230643 original size:42 final size:41
Alignment explanation
Indices: 9230579--9230657 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
9230569 TTATCGTAAG
9230579 AATATTATTAATAATTTATTAATTGTA-TTTTAGTATATAA
1 AATATTATTAATAATTTATTAATTGTATTTTTAGTATATAA
*
9230619 AATATTAATTTAA-AATTGTATTAATTTTATTTTTAGTAT
1 AATATT-A-TTAATAATT-TATTAATTGTATTTTTAGTAT
9230658 TTTATATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
40 6 0.18
41 5 0.15
42 14 0.41
43 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (41 bp):
AATATTATTAATAATTTATTAATTGTATTTTTAGTATATAA
Found at i:9231099 original size:14 final size:15
Alignment explanation
Indices: 9231070--9231102 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9231060 TCAAGTCTTG
*
9231070 TTAAATTTATAAAAT
1 TTAAATTTAAAAAAT
9231085 TTAAA-TTAAAAAAT
1 TTAAATTTAAAAAAT
9231099 TTAA
1 TTAA
9231103 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAATTTAAAAAAT
Found at i:9232972 original size:2 final size:2
Alignment explanation
Indices: 9232965--9232991 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9232955 TTTTAGGTCT
9232965 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9232992 TAGTCCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9233579 original size:14 final size:14
Alignment explanation
Indices: 9233543--9233572 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9233533 GTAAAGCCTC
9233543 ATAATTACATCTAG
1 ATAATTACATCTAG
9233557 ATAATTACATCTAG
1 ATAATTACATCTAG
9233571 AT
1 AT
9233573 GGTTACAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
ATAATTACATCTAG
Found at i:9233935 original size:18 final size:17
Alignment explanation
Indices: 9233902--9233935 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9233892 AACTTTACAA
*
9233902 AAATTTCAGTTTAATCC
1 AAATTTCAGATTAATCC
9233919 AAATTTCAGAATTAATC
1 AAATTTCAG-ATTAATC
9233936 TATTAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATTTCAGATTAATCC
Found at i:9236363 original size:21 final size:21
Alignment explanation
Indices: 9236327--9236378 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
9236317 TTTTCCAGAA
* *
9236327 TGCTACAGGGGTATCGATACCT
1 TGCTACA-GTGTATCGATACCC
9236349 TGCTACAGTGTATCGATACCC
1 TGCTACAGTGTATCGATACCC
9236370 TGCTACAGT
1 TGCTACAGT
9236379 AATTCCGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGTATCGATACCC
Found at i:9239734 original size:12 final size:12
Alignment explanation
Indices: 9239719--9239790 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
9239709 GATACATTAC
9239719 CTGAATTCTGTT
1 CTGAATTCTGTT
*
9239731 CTGATTTCTGATT
1 CTGAATTCTG-TT
*
9239744 -TGGATTCTGTT
1 CTGAATTCTGTT
*
9239755 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
*
9239767 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
9239779 CTGAATTCTGTT
1 CTGAATTCTGTT
9239791 TTGATTTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
11 4 0.08
12 43 0.84
13 4 0.08
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:9239750 original size:24 final size:24
Alignment explanation
Indices: 9239723--9239793 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
9239713 CATTACCTGA
9239723 ATTCTGTTCTGATTTCTGATTTGG
1 ATTCTGTTCTGATTTCTGATTTGG
* *
9239747 ATTCTGTTCTGATATCTGATCT-G
1 ATTCTGTTCTGATTTCTGATTTGG
* * *
9239770 ATATCTGATCTGAATTCTGTTTTG
1 AT-TCTGTTCTGATTTCTGATTTG
9239794 ATTTATGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.08
24 35 0.92
ACGTcount: A:0.17, C:0.14, G:0.18, T:0.51
Consensus pattern (24 bp):
ATTCTGTTCTGATTTCTGATTTGG
Found at i:9239770 original size:36 final size:36
Alignment explanation
Indices: 9239725--9239795 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
9239715 TTACCTGAAT
* * * *
9239725 TCTGTTCTGATTTCTGATTTGGATTCTGTTCTGATA
1 TCTGATCTGATATCTGATCTGAATTCTGTTCTGATA
*
9239761 TCTGATCTGATATCTGATCTGAATTCTGTTTTGAT
1 TCTGATCTGATATCTGATCTGAATTCTGTTCTGAT
9239796 TTATGATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.17, C:0.14, G:0.18, T:0.51
Consensus pattern (36 bp):
TCTGATCTGATATCTGATCTGAATTCTGTTCTGATA
Found at i:9239782 original size:48 final size:48
Alignment explanation
Indices: 9239681--9239794 Score: 115
Period size: 48 Copynumber: 2.4 Consensus size: 48
9239671 TAAATATTTT
* * * *
9239681 ATCTTATTTTTGACTTGAATTCTGTTCTGATACATTACCTGAATTCTG
1 ATCTGATTTCTGATTTGAATTCTGTTCTGATACATGACCTGAATTCTG
* * *
9239729 TTCTGATTTCTGATTTGGATTCTGTTCTGATATC-TGATCTG-ATATCTG
1 ATCTGATTTCTGATTTGAATTCTGTTCTGATA-CATGACCTGAAT-TCTG
* *
9239777 ATCTGAATTCTGTTTTGA
1 ATCTGATTTCTGATTTGA
9239795 TTTATGATAT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.04
48 50 0.94
49 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (48 bp):
ATCTGATTTCTGATTTGAATTCTGTTCTGATACATGACCTGAATTCTG
Found at i:9240807 original size:6 final size:6
Alignment explanation
Indices: 9240798--9240844 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
9240788 CAACACCAAC
* * *
9240798 ATCATT ATCATG ATC-TCT ATCATT ATCAAT ATCAAT ATCATT ATCAT
1 ATCATT ATCATT ATCAT-T ATCATT ATCATT ATCATT ATCATT ATCAT
9240845 GTAATACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 1 0.03
6 33 0.94
7 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (6 bp):
ATCATT
Found at i:9240819 original size:18 final size:18
Alignment explanation
Indices: 9240798--9240845 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9240788 CAACACCAAC
**
9240798 ATCATTATCATGATCTCT
1 ATCATTATCATGATCAAT
9240816 ATCATTATCAAT-ATCAAT
1 ATCATTATC-ATGATCAAT
9240834 ATCATTATCATG
1 ATCATTATCATG
9240846 TAATACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (18 bp):
ATCATTATCATGATCAAT
Found at i:9241057 original size:22 final size:22
Alignment explanation
Indices: 9241024--9241084 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
9241014 TATGAAATTT
* *
9241024 TCCCAAAGGACCTATGTATTTG
1 TCCCGAAGGACCTATGTATATG
* * *
9241046 TCTCGAATGACCTTTGTATATG
1 TCCCGAAGGACCTATGTATATG
9241068 TCCCGAAGGACC-ATGTA
1 TCCCGAAGGACCTATGTA
9241085 GAACCCTCGA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (22 bp):
TCCCGAAGGACCTATGTATATG
Found at i:9241828 original size:21 final size:21
Alignment explanation
Indices: 9241804--9241846 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9241794 TGAATCTACA
9241804 ACTTCTAAATCATCAAGATTT
1 ACTTCTAAATCATCAAGATTT
*
9241825 ACTTTTAAATCATCAAGATTT
1 ACTTCTAAATCATCAAGATTT
9241846 A
1 A
9241847 TTATCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (21 bp):
ACTTCTAAATCATCAAGATTT
Found at i:9245503 original size:3 final size:3
Alignment explanation
Indices: 9245495--9245527 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
9245485 TATATAACTA
*
9245495 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9245528 TAAATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:9245545 original size:40 final size:38
Alignment explanation
Indices: 9245496--9245626 Score: 101
Period size: 40 Copynumber: 3.3 Consensus size: 38
9245486 ATATAACTAA
* *
9245496 ATAATAATAATAATAATAATAATAATATTAATTAAATAT
1 ATAAAAATAATAATAATAA-AATAATAATAATTAAATAT
*
9245535 ATTAAAAATAATCAT-ATAAAATTAAATAATAATTAAATAGT
1 A-TAAAAATAATAATAATAAAA-T-AATAATAATTAAATA-T
* *
9245576 GACT-AAAATAAATAA-AATTAAAATTATAGT-ATTAAA-AT
1 -A-TAAAAAT-AATAATAA-TAAAATAATAATAATTAAATAT
9245614 ATAAAAATAATAA
1 ATAAAAATAATAA
9245627 AGCTTGTAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
36 6 0.08
37 6 0.08
38 3 0.04
39 7 0.09
40 31 0.41
41 10 0.13
42 8 0.11
43 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (38 bp):
ATAAAAATAATAATAATAAAATAATAATAATTAAATAT
Found at i:9246930 original size:3 final size:3
Alignment explanation
Indices: 9246922--9246992 Score: 96
Period size: 3 Copynumber: 24.3 Consensus size: 3
9246912 GGACATGTTT
9246922 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9246967 ATA ATA A-A CA-A ATA A-A ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA A
9246993 AAAAACAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.10
3 54 0.86
4 3 0.05
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9246969 original size:36 final size:36
Alignment explanation
Indices: 9246922--9246991 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
9246912 GGACATGTTT
*
9246922 ATAATAATAATAATAAA-TAATAATAATAATAATATA
1 ATAATAATAATAATAAACAAATAA-AATAATAATATA
9246958 ATAATAATAATAATAAACAAATAAAATAATAATA
1 ATAATAATAATAATAAACAAATAAAATAATAATA
9246992 AAAAAACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 27 0.84
37 5 0.16
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (36 bp):
ATAATAATAATAATAAACAAATAAAATAATAATATA
Found at i:9247013 original size:5 final size:5
Alignment explanation
Indices: 9247005--9247093 Score: 178
Period size: 5 Copynumber: 17.8 Consensus size: 5
9246995 AAACAAAAAC
9247005 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
9247055 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAA
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAA
9247094 AATGAAAAAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 84 1.00
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.19
Consensus pattern (5 bp):
GAAAT
Found at i:9247587 original size:122 final size:124
Alignment explanation
Indices: 9247459--9248273 Score: 1066
Period size: 123 Copynumber: 6.7 Consensus size: 124
9247449 GAATCAAATT
**
9247459 AAGGTTGAACAATTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * * *
9247523 TGAAC-ACTTCTAGAAATGTTGATGATGATCTATCTCATTCTATGACAGAGTCGTGCAA
66 TGAACTTCTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATCATGCAA
9247581 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
9247645 TGAACTTCTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATCATGCAA
66 TGAACTTCTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATCATGCAA
* *
9247704 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGGTAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * *
9247768 TGAACTTTTTCATTGGAAAAGTTGATGTTAATATATCTCCTTCTGTGATAGAGTCATGCAA
66 TGAACTTCTTC--TGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATCATGCAA
*
9247829 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
9247893 TGAACTT-TCTCTGGAAATATTGA-GCTGATCTATCTCCTTCTGTGATAGAATCGA-GCAA
66 TGAACTTCT-TCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATC-ATGCAA
** * * *
9247951 AAGGTTGAACAAATTCTTTTCATTATGAATTTCTTCTTCC-TCTTCAGATGAATTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
9248015 TGAACTTCTTCTGGAAATGTTGATGCTGATATATCTCCTTCTGTGATAGAATCATGCAA
66 TGAACTTCTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATCATGCAA
*
9248074 AAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * ** *
9248139 TAAAC-TCTACCTGGAAA---TG-T--TGATCCA--T-C--GAGTGAT-GAATTCAAGCAA
66 TGAACTTCT-TCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAA-TCATGCAA
* * *
9248187 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTT-CTTCTTTAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
9248251 TGAACTTC-TCTGGAAAAGTTGAT
66 TGAACTTCTTCTGGAAATGTTGAT
9248274 CCATTAAATG
Statistics
Matches: 627, Mismatches: 47, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
111 7 0.01
112 32 0.05
113 51 0.08
114 2 0.00
115 2 0.00
116 1 0.00
118 5 0.01
120 1 0.00
121 2 0.00
122 167 0.27
123 208 0.33
124 38 0.06
125 111 0.18
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (124 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTCTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATCATGCAA
Found at i:9248010 original size:370 final size:371
Alignment explanation
Indices: 9247459--9248144 Score: 1133
Period size: 370 Copynumber: 1.9 Consensus size: 371
9247449 GAATCAAATT
** *
9247459 AAGGTTGAACAATTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATAAGTTCTTCTCATTAT
* * *
9247524 GAACACTTCTAGAAATGTTGATGATGATCTATCTCATTCTATGACAGAGTCGTGCAAAAGGTTGA
66 GAACACTTCTAGAAATATTGATGATGATCTATCTCATTCTATGACAGAATCGAGCAAAAGGTTGA
* *
9247589 ACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCT
131 ACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAACTTCT
*
9247654 TCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCT
196 TCTGGAAATGTTGATGATGATATATCTCCTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCT
* *
9247719 CTTCTCATTATGAACTTCTTCTTCC-TCTTCAGGTAAGTTCTTCTCATTATGAACTTTTTCATTG
261 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATAAACTTTTTCATTG
9247783 GAAAAGTTGATGTTAATATATCTCCTTCTGTGATAGAGTCATGCAA
326 GAAAAGTTGATGTTAATATATCTCCTTCTGTGATAGAGTCATGCAA
9247829 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATAAGTTCTTCTCATTAT
** * * * * *
9247894 GAACTTTCTCTGGAAATATTGA-GCTGATCTATCTCCTTCTGTGATAGAATCGAGCAAAAGGTTG
66 GAACACT-TCTAGAAATATTGATGATGATCTATCTCATTCTATGACAGAATCGAGCAAAAGGTTG
* * *
9247958 AACAAATTCTTTTCATTATGAATTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAACTTC
130 AACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAACTTC
*
9248023 TTCTGGAAATGTTGATGCTGATATATCTCCTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGC
195 TTCTGGAAATGTTGATGATGATATATCTCCTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGC
* *
9248088 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATAAACT
260 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATAAACT
9248145 CTACCTGGAA
Statistics
Matches: 290, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
370 251 0.87
371 39 0.13
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (371 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATAAGTTCTTCTCATTAT
GAACACTTCTAGAAATATTGATGATGATCTATCTCATTCTATGACAGAATCGAGCAAAAGGTTGA
ACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTATGAACTTCT
TCTGGAAATGTTGATGATGATATATCTCCTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATAAACTTTTTCATTG
GAAAAGTTGATGTTAATATATCTCCTTCTGTGATAGAGTCATGCAA
Found at i:9248193 original size:113 final size:111
Alignment explanation
Indices: 9248057--9248277 Score: 347
Period size: 113 Copynumber: 2.0 Consensus size: 111
9248047 ATCTCCTTCT
*
9248057 GTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATAGAATCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTT-CTTCTTCAG
*
9248122 ATGAGTTCTTCTCATTATAAAC-TCTACCTGGAAATGTTGATCCATCGA
65 ATGAGTTCTTCTCATTATAAACTTCT--CTGGAAAAGTTGATCCATCGA
* *
9248170 GTGAT-GAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCTTCTTTAG
1 GTGATAGAA-TCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCTTCTTCAG
*
9248234 ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGTTGATCCAT
65 ATGAGTTCTTCTCATTATAAACTTCTCTGGAAAAGTTGATCCAT
9248278 TAAATGATGG
Statistics
Matches: 101, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
111 17 0.17
112 32 0.32
113 52 0.51
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (111 bp):
GTGATAGAATCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGA
TGAGTTCTTCTCATTATAAACTTCTCTGGAAAAGTTGATCCATCGA
Found at i:9248590 original size:22 final size:22
Alignment explanation
Indices: 9248564--9248627 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
9248554 GAAATCCAAT
* *
9248564 AAATCTTTCTTCTTTGAA-AAA
1 AAATCTATCATCTTTGAAGAAA
9248585 AGAATCTATCATCTTTGAAGAAA
1 A-AATCTATCATCTTTGAAGAAA
9248608 AAATCTATCATCTTTGAAGA
1 AAATCTATCATCTTTGAAGA
9248628 GAGATGTAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 1 0.03
22 34 0.87
23 4 0.10
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
AAATCTATCATCTTTGAAGAAA
Found at i:9249624 original size:15 final size:15
Alignment explanation
Indices: 9249600--9249651 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
9249590 TTTACCCTCA
9249600 TTTTCTATTTTCTTT-T
1 TTTTC-ATTTT-TTTCT
9249616 TTTTCATTTTTTTCT
1 TTTTCATTTTTTTCT
9249631 TTTTCATTTTTTTCT
1 TTTTCATTTTTTTCT
*
9249646 TCTTCA
1 TTTTCA
9249652 AGCATAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 3 0.09
15 26 0.76
16 5 0.15
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCATTTTTTTCT
Found at i:9253737 original size:11 final size:11
Alignment explanation
Indices: 9253721--9253769 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 11
9253711 TCCAAGCCCA
9253721 AAACCTTTCCC
1 AAACCTTTCCC
9253732 AAACCTTTCCC
1 AAACCTTTCCC
*
9253743 TGAAGATTCTTTCCC
1 --AA-A-CCTTTCCC
9253758 AAACCTTTCCC
1 AAACCTTTCCC
9253769 A
1 A
9253770 GTTTTAGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 19 0.59
12 1 0.03
13 4 0.12
14 1 0.03
15 7 0.22
ACGTcount: A:0.27, C:0.39, G:0.04, T:0.31
Consensus pattern (11 bp):
AAACCTTTCCC
Found at i:9256986 original size:15 final size:15
Alignment explanation
Indices: 9256966--9256999 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
9256956 TGCAATAAAT
9256966 AATGAATGTATGCAA
1 AATGAATGTATGCAA
9256981 AATGAATGTATGCAA
1 AATGAATGTATGCAA
9256996 AATG
1 AATG
9257000 TATTGATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:9260613 original size:16 final size:17
Alignment explanation
Indices: 9260592--9260626 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9260582 TTTATTAAAA
9260592 ATATATAT-TAATTTAT
1 ATATATATATAATTTAT
*
9260608 ATATATATATATTTTAT
1 ATATATATATAATTTAT
9260625 AT
1 AT
9260627 TTAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATATATATAATTTAT
Found at i:9260639 original size:22 final size:22
Alignment explanation
Indices: 9260592--9260644 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
9260582 TTTATTAAAA
* *
9260592 ATATATATTAATTTATATATAT
1 ATATATATTAATTTAAATATAG
*
9260614 ATATATTTTATATTTAAATA-AG
1 ATATATATTA-ATTTAAATATAG
*
9260636 ATATTTATT
1 ATATATATT
9260645 TACTTAGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATATATTAATTTAAATATAG
Found at i:9260954 original size:2 final size:2
Alignment explanation
Indices: 9260947--9260985 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9260937 AAATAAAAAT
9260947 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9260986 GTGACTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9262425 original size:3 final size:3
Alignment explanation
Indices: 9262417--9262484 Score: 88
Period size: 3 Copynumber: 23.0 Consensus size: 3
9262407 GACTTGTTTG
*
9262417 TAA TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
9262463 TAA TAA -ACA -AA TAA -AA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA
9262485 AAAAAACAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 52 0.88
4 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9262457 original size:28 final size:29
Alignment explanation
Indices: 9262417--9262484 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
9262407 GACTTGTTTG
* *
9262417 TAATAATAATAATATTAATAATAAA-TAA
1 TAATAATAATAATAATAATAATAAACAAA
9262445 TAATAATAATAATAATAATAATAAACAAA
1 TAATAATAATAATAATAATAATAAACAAA
9262474 TAA-AATAATAA
1 TAATAATAATAA
9262485 AAAAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 32 0.86
29 5 0.14
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (29 bp):
TAATAATAATAATAATAATAATAAACAAA
Found at i:9262495 original size:5 final size:5
Alignment explanation
Indices: 9262494--9262571 Score: 102
Period size: 5 Copynumber: 15.6 Consensus size: 5
9262484 AAAAAAACAA
*
9262494 AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAATG
1 AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG
* * * * *
9262544 AAATG AAATG AAATG AAATG AAATG AAA
1 AAACG AAACG AAACG AAACG AAACG AAA
9262572 AATGAAAAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 72 1.00
ACGTcount: A:0.62, C:0.12, G:0.19, T:0.08
Consensus pattern (5 bp):
AAACG
Found at i:9264283 original size:14 final size:14
Alignment explanation
Indices: 9264264--9264291 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9264254 ATAAAGTTGC
9264264 TAACATGTCATTTA
1 TAACATGTCATTTA
9264278 TAACATGTCATTTA
1 TAACATGTCATTTA
9264292 CCAAACGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TAACATGTCATTTA
Found at i:9265331 original size:21 final size:21
Alignment explanation
Indices: 9265305--9265374 Score: 131
Period size: 21 Copynumber: 3.3 Consensus size: 21
9265295 ATATCTTATA
9265305 GGCACTAAGAATGAAATAATG
1 GGCACTAAGAATGAAATAATG
9265326 GGCACTAAGAATGAAATAATG
1 GGCACTAAGAATGAAATAATG
*
9265347 GGCACTAAGAATTAAATAATG
1 GGCACTAAGAATGAAATAATG
9265368 GGCACTA
1 GGCACTA
9265375 TAAATATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (21 bp):
GGCACTAAGAATGAAATAATG
Found at i:9265385 original size:21 final size:21
Alignment explanation
Indices: 9265305--9265389 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 21
9265295 ATATCTTATA
9265305 GGCACTAAGAATGA-AATAATG
1 GGCACTAAGAAT-ATAATAATG
9265326 GGCACTAAGAATGA-AATAATG
1 GGCACTAAGAAT-ATAATAATG
9265347 GGCACTAAGAAT-TAAATAATG
1 GGCACTAAGAATAT-AATAATG
9265368 GGCACTATA-AATATAATAATG
1 GGCACTA-AGAATATAATAATG
9265389 G
1 G
9265390 AGTGGCAGAC
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
21 58 0.97
22 2 0.03
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.22
Consensus pattern (21 bp):
GGCACTAAGAATATAATAATG
Found at i:9266001 original size:59 final size:59
Alignment explanation
Indices: 9265919--9266206 Score: 407
Period size: 59 Copynumber: 4.9 Consensus size: 59
9265909 TAGATTGTTG
** * *
9265919 ATATTTTTAAAAGGGTGTATAATACGTAATTAATTTTTGTTAAGGTGTTATTTTTGTAA
1 ATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAA
* *
9265978 ATATTTTTAAAAGGGTGCCTAATATGTAATTAATTTCTGTTAAGGTGCTATTTTTGTAA
1 ATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAA
* * * *
9266037 ATATTTTTAAGAGGGTGACTAATGCGTAATTAATTTATGTTAATGTGCTATTTTTGTAA
1 ATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAA
* * *
9266096 ATATTTTT-AAATGGTGCCTAATACGTAACTAATTTATGTTAAGGTGTTATTTTTGTAA
1 ATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAA
* * * * *
9266154 ATATTTTTAAAAGAGTGCCTAATACGTCATTAATTTCTGTTAGGGTGATATTT
1 ATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGCTATTT
9266207 GCGTACAAGT
Statistics
Matches: 203, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
58 51 0.25
59 152 0.75
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (59 bp):
ATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAA
Found at i:9266036 original size:30 final size:29
Alignment explanation
Indices: 9265944--9266153 Score: 87
Period size: 30 Copynumber: 7.1 Consensus size: 29
9265934 TGTATAATAC
*
9265944 GTAATTAATTTTTGTTAAGGTGTTATTTTT
1 GTAATTAA-TTTTGTTAAGGTGCTATTTTT
* * * *
9265974 GTAAAT-ATTTT-TAAAAGGGTGCCTA-ATAT
1 GTAATTAATTTTGT-TAA-GGTG-CTATTTTT
9266003 GTAATTAATTTCTGTTAAGGTGCTATTTTT
1 GTAATTAATTT-TGTTAAGGTGCTATTTTT
* * * **
9266033 GTAAAT-ATTTT-TAAGAGGGTGACTA-ATGC
1 GTAATTAATTTTGTTA-A-GGTG-CTATTTTT
*
9266062 GTAATTAATTTATGTTAATGTGCTATTTTT
1 GTAATTAATTT-TGTTAAGGTGCTATTTTT
* * * **
9266092 GTAAAT-ATTTT-TAAATGGTGCCTA-ATAC
1 GTAATTAATTTTGTTAA-GGTG-CTATTTTT
* *
9266120 GTAACTAATTTATGTTAAGGTGTTATTTTT
1 GTAATTAATTT-TGTTAAGGTGCTATTTTT
9266150 GTAA
1 GTAA
9266154 ATATTTTTAA
Statistics
Matches: 128, Mismatches: 32, Indels: 40
0.64 0.16 0.20
Matches are distributed among these distances:
27 6 0.05
28 18 0.14
29 45 0.35
30 48 0.38
31 8 0.06
32 3 0.02
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (29 bp):
GTAATTAATTTTGTTAAGGTGCTATTTTT
Found at i:9266176 original size:117 final size:118
Alignment explanation
Indices: 9265919--9266206 Score: 409
Period size: 117 Copynumber: 2.4 Consensus size: 118
9265909 TAGATTGTTG
* *
9265919 ATATTTTTAAAAGGGTGTA-TAATACGTAATTAATTTTTGTTAAGGTGTTATTTTTGTAAATATT
1 ATATTTTTAAAAGGGTG-ACTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAAATATT
* * *
9265983 TTTAAAAGGGTGCCTAATATGTAATTAATTTCTGTTAAGGTGCTATTTTTGTAA
65 TTTAAAAGGGTGCCTAATACGTAACTAATTTATGTTAAGGTGCTATTTTTGTAA
* * *
9266037 ATATTTTTAAGAGGGTGACTAATGCGTAATTAATTTATGTTAATGTGCTATTTTTGTAAATATTT
1 ATATTTTTAAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAAATATTT
* *
9266102 TT-AAATGGTGCCTAATACGTAACTAATTTATGTTAAGGTGTTATTTTTGTAA
66 TTAAAAGGGTGCCTAATACGTAACTAATTTATGTTAAGGTGCTATTTTTGTAA
* * * * * *
9266154 ATATTTTTAAAAGAGTGCCTAATACGTCATTAATTTCTGTTAGGGTGATATTT
1 ATATTTTTAAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTT
9266207 GCGTACAAGT
Statistics
Matches: 150, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
117 90 0.60
118 60 0.40
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (118 bp):
ATATTTTTAAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAAATATTT
TTAAAAGGGTGCCTAATACGTAACTAATTTATGTTAAGGTGCTATTTTTGTAA
Found at i:9267920 original size:12 final size:12
Alignment explanation
Indices: 9267903--9267936 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9267893 GCACATTCGA
9267903 AAAAACAAAAAG
1 AAAAACAAAAAG
*
9267915 AAAAACACAAAG
1 AAAAACAAAAAG
*
9267927 CAAAACAAAA
1 AAAAACAAAA
9267937 CACGAAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.15, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAG
Found at i:9268760 original size:2 final size:2
Alignment explanation
Indices: 9268753--9268818 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
9268743 ATTACTATTC
9268753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9268795 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
9268819 CTTAGGATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9268925 original size:18 final size:18
Alignment explanation
Indices: 9268902--9268959 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
9268892 TGATATTTTT
9268902 TATTTTGGTTCTTTTACA
1 TATTTTGGTTCTTTTACA
** * *
9268920 TATTTTAATATATATT---
1 TATTTTGGT-TCTTTTACA
9268936 TATTTTGGTTCTTTTACA
1 TATTTTGGTTCTTTTACA
9268954 TATTTT
1 TATTTT
9268960 AATATTTAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
15 4 0.14
16 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.64
Consensus pattern (18 bp):
TATTTTGGTTCTTTTACA
Found at i:9268943 original size:34 final size:35
Alignment explanation
Indices: 9268877--9268964 Score: 133
Period size: 34 Copynumber: 2.5 Consensus size: 35
9268867 ATGATTTTTA
* *
9268877 TTTATATATTTTAATTGATATTTTTTATTTTGGTTCT
1 TTTACATATTTTAA-T-ATATTATTTATTTTGGTTCT
9268914 TTTACATATTTTAATATA-TATTTATTTTGGTTCT
1 TTTACATATTTTAATATATTATTTATTTTGGTTCT
9268948 TTTACATATTTTAATAT
1 TTTACATATTTTAATAT
9268965 TTAAATAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
34 32 0.65
35 3 0.06
36 1 0.02
37 13 0.27
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.64
Consensus pattern (35 bp):
TTTACATATTTTAATATATTATTTATTTTGGTTCT
Found at i:9269180 original size:17 final size:18
Alignment explanation
Indices: 9269150--9269183 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9269140 GACGCAGACC
*
9269150 GATTTTTGTCTAAAAAAT
1 GATTTTTCTCTAAAAAAT
9269168 GATTTTTCT-TAAAAAA
1 GATTTTTCTCTAAAAAA
9269184 ATTTAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (18 bp):
GATTTTTCTCTAAAAAAT
Found at i:9271775 original size:44 final size:45
Alignment explanation
Indices: 9271696--9271784 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
9271686 GCGGGAATCG
* *
9271696 ATACCCCCCAGGGGGTATGTGTACCCCCTGTATAATCTGGAATTT
1 ATACCCCCCAGGGGGTATCTGTACCCCCTGCATAATCTGGAATTT
9271741 ATACCCCCCAGGGGGTATCTGTA-CCCCTGCATAATCTGGAATTT
1 ATACCCCCCAGGGGGTATCTGTACCCCCTGCATAATCTGGAATTT
9271785 TTCGTTTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 20 0.48
45 22 0.52
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (45 bp):
ATACCCCCCAGGGGGTATCTGTACCCCCTGCATAATCTGGAATTT
Found at i:9273802 original size:12 final size:12
Alignment explanation
Indices: 9273785--9273811 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9273775 CGGTTCCAAC
9273785 CCGACCCGTTGA
1 CCGACCCGTTGA
9273797 CCGACCCGTTGA
1 CCGACCCGTTGA
9273809 CCG
1 CCG
9273812 TTGACCGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.44, G:0.26, T:0.15
Consensus pattern (12 bp):
CCGACCCGTTGA
Found at i:9276438 original size:57 final size:57
Alignment explanation
Indices: 9276349--9276520 Score: 220
Period size: 57 Copynumber: 3.0 Consensus size: 57
9276339 GTTGGAGGAA
* * *
9276349 GAATACTTGCAGGTTCCTCAGCTTTGTTCTGAGAACCTTAATGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTAATGTTCGTGACGGGGTT
9276406 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACA-GTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTA-ATGTTCGTGACGGGGTT
* * * * * * * * *
9276463 GATTACTTGTAGGTTCATTGGCTTTGTGCTCAGGGCCTTATTTTTCGTGACGAGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTAATGTTCGTGACGGGGTT
9276520 G
1 G
9276521 TATAGTTATG
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
57 100 0.99
58 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.36
Consensus pattern (57 bp):
GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTAATGTTCGTGACGGGGTT
Found at i:9278603 original size:2 final size:2
Alignment explanation
Indices: 9278596--9278651 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
9278586 CAAGCTATCC
9278596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9278638 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
9278652 TCTTTCCAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9281369 original size:2 final size:2
Alignment explanation
Indices: 9281356--9281417 Score: 115
Period size: 2 Copynumber: 30.5 Consensus size: 2
9281346 GTCTTATTCT
9281356 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9281399 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
9281418 CATTTATGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 57 0.97
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9285802 original size:22 final size:22
Alignment explanation
Indices: 9285757--9285855 Score: 134
Period size: 22 Copynumber: 4.7 Consensus size: 22
9285747 TGAATATTTA
9285757 TCCCGAATGACCAC----TATG
1 TCCCGAATGACCACTGTATATG
*
9285775 TTCCGAATGACCACTGTATATG
1 TCCCGAATGACCACTGTATATG
9285797 TCCCGAATGACCACTGTATATG
1 TCCCGAATGACCACTGTATATG
*
9285819 TCCCGAAGGACCACTGTATATG
1 TCCCGAATGACCACTGTATATG
* *
9285841 TCTCGAAGGACCACT
1 TCCCGAATGACCACT
9285856 CCTTAAGAAC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.18
22 60 0.82
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (22 bp):
TCCCGAATGACCACTGTATATG
Found at i:9290267 original size:8 final size:8
Alignment explanation
Indices: 9290254--9290282 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9290244 AGAAAGCAAA
9290254 GATTGATG
1 GATTGATG
9290262 GATTGATG
1 GATTGATG
9290270 GATTGATG
1 GATTGATG
9290278 GATTG
1 GATTG
9290283 CTGTGTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (8 bp):
GATTGATG
Found at i:9291993 original size:2 final size:2
Alignment explanation
Indices: 9291986--9292019 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9291976 CTTAATAAAT
9291986 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9292020 ACACTTTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9292446 original size:40 final size:40
Alignment explanation
Indices: 9292402--9292477 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
9292392 TTATCGTAAG
9292402 AATATT-A-TTAATAATT-TATTAATTGTATTTTAGTATATAA
1 AATATTAATTTAA-AATTGTATTAATT-T-TTTTAGTATATAA
9292442 AATATTAATTTAAAATTGTATTAATTTTTTTAGTAT
1 AATATTAATTTAAAATTGTATTAATTTTTTTAGTAT
9292478 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
40 15 0.45
41 6 0.18
42 12 0.36
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (40 bp):
AATATTAATTTAAAATTGTATTAATTTTTTTAGTATATAA
Found at i:9292769 original size:20 final size:20
Alignment explanation
Indices: 9292746--9292784 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9292736 TCCAATTTAA
9292746 ACGAATTTCTATAACATTAG
1 ACGAATTTCTATAACATTAG
9292766 ACGAATTTCTATAACATTA
1 ACGAATTTCTATAACATTA
9292785 TACAATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (20 bp):
ACGAATTTCTATAACATTAG
Found at i:9294898 original size:2 final size:2
Alignment explanation
Indices: 9294891--9294930 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9294881 TTTTAGGTCT
9294891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9294931 GTCCAAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9295516 original size:14 final size:14
Alignment explanation
Indices: 9295480--9295509 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9295470 GTAAAGCCTC
9295480 ATAATTACATCTAG
1 ATAATTACATCTAG
9295494 ATAATTACATCTAG
1 ATAATTACATCTAG
9295508 AT
1 AT
9295510 GGTTACAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
ATAATTACATCTAG
Found at i:9299282 original size:24 final size:24
Alignment explanation
Indices: 9299255--9299338 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
9299245 ATTGAACGAC
*
9299255 CGGTTTTTTTACCGGATTAAAAAT
1 CGGTTTTTTTACCGGATAAAAAAT
* *
9299279 CGGTTTTTTCAAACCGGATAAAAAAC
1 CGGTTTTTT--TACCGGATAAAAAAT
9299305 CGG-TTTTTTATCC-GA-AAAAAAT
1 CGGTTTTTTTA-CCGGATAAAAAAT
9299327 CCGGTTTTTTTA
1 -CGGTTTTTTTA
9299339 AAAAACTGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
22 6 0.12
23 6 0.12
24 18 0.36
25 5 0.10
26 15 0.30
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (24 bp):
CGGTTTTTTTACCGGATAAAAAAT
Found at i:9299379 original size:40 final size:40
Alignment explanation
Indices: 9299297--9299376 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
9299287 TCAAACCGGA
*
9299297 TAAAAAACCGGTTTTTTATCCGAAAAAAATCCGGTTTTTT
1 TAAAAAACCGGATTTTTATCCGAAAAAAATCCGGTTTTTT
* *
9299337 TAAAAAACTGGATTTTTATCCG-AAAAAATCCGTTTTTTT
1 TAAAAAACCGGATTTTTATCCGAAAAAAATCCGGTTTTTT
9299376 T
1 T
9299377 TAACCGGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 17 0.46
40 20 0.54
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (40 bp):
TAAAAAACCGGATTTTTATCCGAAAAAAATCCGGTTTTTT
Found at i:9302020 original size:24 final size:24
Alignment explanation
Indices: 9301962--9302056 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
9301952 ATTTTCGACT
* * * *
9301962 TGAATTCTGTTCTGATATATTACC
1 TGAATTCTGTTCTGATTTCTGATC
* *
9301986 TGAATTTTGTTCTGATTTCTGATT
1 TGAATTCTGTTCTGATTTCTGATC
* * *
9302010 TGGATTCTGTTCTGATATCTAATC
1 TGAATTCTGTTCTGATTTCTGATC
* *
9302034 TGAATTCTGTTTTGATTTATGAT
1 TGAATTCTGTTCTGATTTCTGAT
9302057 ATCTCCGTTT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.52
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:9302020 original size:48 final size:48
Alignment explanation
Indices: 9301965--9302056 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
9301955 TTCGACTTGA
* * *
9301965 ATTCTGTTCTGATATATTACCTGAATTTTGTTCTGATTTCTGATTTGG
1 ATTCTGTTCTGATATATAACCTGAATTCTGTTCTGATTTATGATTTGG
* * *
9302013 ATTCTGTTCTGATATCTAATCTGAATTCTGTTTTGATTTATGAT
1 ATTCTGTTCTGATATATAACCTGAATTCTGTTCTGATTTATGAT
9302057 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (48 bp):
ATTCTGTTCTGATATATAACCTGAATTCTGTTCTGATTTATGATTTGG
Found at i:9303057 original size:6 final size:6
Alignment explanation
Indices: 9303048--9303094 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
9303038 CAACACCAAC
* * *
9303048 ATCATT ATCATG ATC-TCT ATCATT ATCAAT ATCAAT ATCATT ATCAT
1 ATCATT ATCATT ATCAT-T ATCATT ATCATT ATCATT ATCATT ATCAT
9303095 GTAATACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 1 0.03
6 33 0.94
7 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (6 bp):
ATCATT
Found at i:9303069 original size:18 final size:18
Alignment explanation
Indices: 9303048--9303095 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9303038 CAACACCAAC
**
9303048 ATCATTATCATGATCTCT
1 ATCATTATCATGATCAAT
9303066 ATCATTATCAAT-ATCAAT
1 ATCATTATC-ATGATCAAT
9303084 ATCATTATCATG
1 ATCATTATCATG
9303096 TAATACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (18 bp):
ATCATTATCATGATCAAT
Found at i:9303296 original size:22 final size:22
Alignment explanation
Indices: 9303270--9303322 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
9303260 GGCATATGAA
9303270 ATTTGTCCCGAATGACCTATGT
1 ATTTGTCCCGAATGACCTATGT
* *
9303292 ATTTGTCTCGAATGACCTTTGT
1 ATTTGTCCCGAATGACCTATGT
*
9303314 ATATGTCCC
1 ATTTGTCCC
9303323 AAAGGACCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (22 bp):
ATTTGTCCCGAATGACCTATGT
Found at i:9304079 original size:21 final size:21
Alignment explanation
Indices: 9304055--9304097 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9304045 TGAATCTACA
9304055 ACTTCTAAATCATCAAGATTT
1 ACTTCTAAATCATCAAGATTT
9304076 ACTTCTAAATCATCAAGATTT
1 ACTTCTAAATCATCAAGATTT
9304097 A
1 A
9304098 TTATCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (21 bp):
ACTTCTAAATCATCAAGATTT
Found at i:9307721 original size:156 final size:148
Alignment explanation
Indices: 9307399--9307721 Score: 375
Period size: 146 Copynumber: 2.1 Consensus size: 148
9307389 TTTTTATATT
* * * *
9307399 TAAATAAGATATTTATTTACTTAAAAATATCATAAAAGGGCTTCTAGGTGCTTTAAGACAACTCA
1 TAAATAA-ATA-TTATTTATTTAAAAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAACCCA
*
9307464 TTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAATTAAAT
64 TTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAATAAAAT
*
9307529 TAATATATAATTTATAAAAA
129 TAATATAGAATTTATAAAAA
* * * *
9307549 TAGGAT--AT-TTATTTATTTAAGAATATCAGAAAATGACTTCTAGGTGCTTTAAGACAGCCCAT
1 TA-AATAAATATTATTTATTTAAAAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAACCCAT
* * * *
9307611 TTCTTAATATTAAAAAATAAATAAATATTAA-AATATGATTATTTTTCCTAAAAGTAATTTATAT
65 TTCTTAATATTAAAAAATAAATAAATATTAATAA-A--A-CATTTCT-CTAAAAATAA-TTAAAT
*
9307675 AAAATTAAATTTATAGAATTTTTAAAAA
124 AAAATT-AA--TATAGAATTTATAAAAA
9307703 TAAATAAATATTATTTATT
1 TAAATAAATATTATTTATT
9307722 ATATATATTT
Statistics
Matches: 144, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
145 2 0.01
146 79 0.55
148 3 0.02
149 5 0.03
150 11 0.08
151 12 0.08
152 2 0.01
153 2 0.01
154 17 0.12
155 2 0.01
156 9 0.06
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (148 bp):
TAAATAAATATTATTTATTTAAAAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAACCCATT
TCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAATAAAATTA
ATATAGAATTTATAAAAA
Found at i:9307798 original size:11 final size:11
Alignment explanation
Indices: 9307747--9307801 Score: 64
Period size: 10 Copynumber: 5.4 Consensus size: 11
9307737 ACTAAATAAT
9307747 AATAATAATTA
1 AATAATAATTA
9307758 AAT-AT-ATTA
1 AATAATAATTA
*
9307767 AA-AATAATCA
1 AATAATAATTA
*
9307777 TATAA-AATTA
1 AATAATAATTA
9307787 AATAATAATTA
1 AATAATAATTA
9307798 AATA
1 AATA
9307802 GTGACTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 8 0.22
10 14 0.39
11 14 0.39
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAATTA
Found at i:9308804 original size:12 final size:12
Alignment explanation
Indices: 9308787--9308823 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
9308777 AATTATTTGT
9308787 TTAAATAAATTA
1 TTAAATAAATTA
9308799 TTAAAT-AA--A
1 TTAAATAAATTA
9308808 TTAAATAAATTA
1 TTAAATAAATTA
9308820 TTAA
1 TTAA
9308824 TGACTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 2 0.09
12 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAATAAATTA
Found at i:9308948 original size:29 final size:29
Alignment explanation
Indices: 9308896--9308972 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
9308886 TTCAGTTCGG
* *
9308896 TTAATCGAACCAAATTTTATTTGAAAATTA
1 TTAACCGAACCAAA-TTAATTTGAAAATTA
*
9308926 TTAACCGAACCGAATTAATTTGAAAATTA
1 TTAACCGAACCAAATTAATTTGAAAATTA
*
9308955 TTAACCAAACCAAATTAA
1 TTAACCGAACCAAATTAA
9308973 CCGAATTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 30 0.71
30 12 0.29
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.32
Consensus pattern (29 bp):
TTAACCGAACCAAATTAATTTGAAAATTA
Found at i:9308998 original size:117 final size:117
Alignment explanation
Indices: 9308872--9309090 Score: 350
Period size: 117 Copynumber: 1.9 Consensus size: 117
9308862 GGTTAAAGAA
* * *
9308872 AAAAATTTGGTTAATTCAGTTCGGTTAATCGAACCAAATTTTATTTGAAAATTATTAACCGAACC
1 AAAAATTTGGCTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACC
9308937 GAATTAATTTGAAAATTATTAACCA-AACCAAATTAACCGAATTAATCGAAGC
66 GAATTAATTTGAAAATTATTAA-CATAACCAAATTAACCGAATTAATCGAAGC
** * *
9308989 AAAAATTTGGCTAATTTGGTTTGGTTAATCGAACCAAAATTTATTTGAAAATTATTAATCAAACC
1 AAAAATTTGGCTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACC
*
9309054 GAATTAATTTGAAAATTATTAACATAACCTAATTAAC
66 GAATTAATTTGAAAATTATTAACATAACCAAATTAAC
9309091 TGATATTTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 2 0.02
117 91 0.98
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (117 bp):
AAAAATTTGGCTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACC
GAATTAATTTGAAAATTATTAACATAACCAAATTAACCGAATTAATCGAAGC
Found at i:9309047 original size:30 final size:29
Alignment explanation
Indices: 9309013--9309089 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
9309003 TTTGGTTTGG
* *
9309013 TTAATCGAACCAAAATTTATTTGAAAATTA
1 TTAATCAAACC-AAATTAATTTGAAAATTA
*
9309043 TTAATCAAACCGAATTAATTTGAAAATTA
1 TTAATCAAACCAAATTAATTTGAAAATTA
*
9309072 TTAA-CATAACCTAATTAA
1 TTAATCA-AACCAAATTAA
9309090 CTGATATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 2 0.05
29 30 0.71
30 10 0.24
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (29 bp):
TTAATCAAACCAAATTAATTTGAAAATTA
Found at i:9309082 original size:29 final size:29
Alignment explanation
Indices: 9309026--9309089 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
9309016 ATCGAACCAA
*
9309026 AATTTATTTGAAAATTATTAATCAAACCG
1 AATTAATTTGAAAATTATTAATCAAACCG
*
9309055 AATTAATTTGAAAATTATTAA-CATAACCT
1 AATTAATTTGAAAATTATTAATCA-AACCG
9309084 AATTAA
1 AATTAA
9309090 CTGATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAATCAAACCG
Found at i:9314972 original size:48 final size:47
Alignment explanation
Indices: 9314920--9315013 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
9314910 CACGGTGATA
**
9314920 TTAGCAGCCCAGCATTCAAAGCATGTTTTTTAATGAAGAAGAATGTTT
1 TTAGCAGCCCAGCATTCAAAGC-TCCTTTTTAATGAAGAAGAATGTTT
* * **
9314968 TTAGCAGTCGAGCATTCAATTCTCCTTTTTAATGAAGAAGAATGTT
1 TTAGCAGCCCAGCATTCAAAGCTCCTTTTTAATGAAGAAGAATGTT
9315014 GTTGGACCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 22 0.55
48 18 0.45
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (47 bp):
TTAGCAGCCCAGCATTCAAAGCTCCTTTTTAATGAAGAAGAATGTTT
Found at i:9321517 original size:220 final size:217
Alignment explanation
Indices: 9320910--9321680 Score: 1159
Period size: 220 Copynumber: 3.5 Consensus size: 217
9320900 AATTATCCAA
* * ** *
9320910 AAAAAAAATAGGCGCTACCTATTATATTAAACTATATATCGGTTTTTTTTAAGGTTGTTAATAAT
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGG-TTTTTTTAAGGTTGTTAATAAT
* * * *
9320975 GCAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTAAAGATT
65 GTAAACGGT-AAAAAAATAGGCGCTACCTATTACATTAAAATACCTACC-GTTTTTTTTAAGGTT
* * * *
9321040 GCTAATAATGTAAACGATAAAATAAAATAGGCGCTACGTATTATATTAAAATACCTACTGGTTTT
128 GTTAATAATGTAAACGGTAAAA-AAAATAGGCGCTACCTATTACATTAAAATACCTACT-G-TTT
*
9321105 TTTTAAGGTTGTTAATAATATAAACGGT
190 TTTTAAGGTTGTTAATAATGTAAACGGT
* * * *
9321133 -AAAAAAACAGGCGTTACCTATTACATTAAAATACCTACCTGTTTTTTAAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAGGTTGTTAATAATG
* *
9321197 TAAACGGTAAAAAAATAGGCACTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTT
66 TAAACGGTAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGTTTTTTTTAAGGTTGTT
*
9321262 AATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTATTGATTTTTTTG
131 AATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACTG-TTTTTTT-
9321327 AAGGTTGTTAATAATGTAAACGGT
194 AAGGTTGTTAATAATGTAAACGGT
*
9321351 AAAAAAAATAGGCGCTACCTATTACATTAAAATACTTACCGGTTTTTTTAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAGGTTGTTAATAATG
* *
9321416 TAAACGGTAAAAAAAATAGGCGCTACCAATTATATTAAAATACCTACCGTTTTTTTTAAGGTTGT
66 TAAACGGT-AAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGTTTTTTTTAAGGTTGT
* * * *
9321481 TAATAATGTAAACGGTAAAACAAATAGACACTACCTATTACATTAAAATACTTACTGTTTTTTTA
130 TAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACTGTTTTTTTA
9321546 AGGTTGTTAATAATGTAAAC-GT
195 AGGTTGTTAATAATGTAAACGGT
* ** *
9321568 AAAAAAAATAGGCGTTGTCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAGGTTGTTAATAATG
9321633 TAAACGGTAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCG
66 TAAACGGTAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCG
9321681 GGTTCATTAT
Statistics
Matches: 502, Mismatches: 43, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
216 38 0.08
217 78 0.16
218 77 0.15
219 105 0.21
220 142 0.28
221 29 0.06
222 33 0.07
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (217 bp):
AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAGGTTGTTAATAATG
TAAACGGTAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGTTTTTTTTAAGGTTGTT
AATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACTGTTTTTTTAA
GGTTGTTAATAATGTAAACGGT
Found at i:9321680 original size:72 final size:73
Alignment explanation
Indices: 9320910--9321680 Score: 1122
Period size: 73 Copynumber: 10.6 Consensus size: 73
9320900 AATTATCCAA
* * ** * *
9320910 AAAAAAAATAGGCGCTACCTATTATATTAAACTATATATCGGTTTTTTTTAAGGTTGTTAATAAT
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTA-CCGATTTTTTTAAGGTTGTTAATAAT
*
9320975 GCAAACGGT
65 GTAAACGGT
* * * *
9320984 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTAAAGATTGCTAATAAT
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTT-TTTTAAGGTTGTTAATAAT
*
9321049 GTAAACGAT
65 GTAAACGGT
* * * *
9321058 AAAATAAAATAGGCGCTACGTATTATATTAAAATACCTACTGGTTTTTTTTAAGGTTGTTAATAA
1 AAAA-AAAATAGGCGCTACCTATTACATTAAAATACCTAC-CGATTTTTTTAAGGTTGTTAATAA
*
9321123 TATAAACGGT
64 TGTAAACGGT
* * *
9321133 -AAAAAAACAGGCGTTACCTATTACATTAAAATACCTACCTG-TTTTTTAAAGGTTGTTAATAAT
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACC-GATTTTTTTAAGGTTGTTAATAAT
9321196 GTAAACGGT
65 GTAAACGGT
*
9321205 -AAAAAAATAGGCACTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
9321269 TAAACGGT
66 TAAACGGT
**
9321277 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTATTGATTTTTTTGAAGGTTGTTAATAAT
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTT-AAGGTTGTTAATAAT
9321342 GTAAACGGT
65 GTAAACGGT
* *
9321351 AAAAAAAATAGGCGCTACCTATTACATTAAAATACTTACCGGTTTTTTTAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
9321416 TAAACGGT
66 TAAACGGT
* * *
9321424 AAAAAAAATAGGCGCTACCAATTATATTAAAATACCTACCGTTTTTTTTAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
9321489 TAAACGGT
66 TAAACGGT
* * * * *
9321497 AAAACAAATAGACACTACCTATTACATTAAAATACTTACTG-TTTTTTTAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
9321561 TAAAC-GT
66 TAAACGGT
* **
9321568 AAAAAAAATAGGCGTTGTCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
9321633 TAAACGGT
66 TAAACGGT
9321641 -AAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCG
1 AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCG
9321681 GGTTCATTAT
Statistics
Matches: 628, Mismatches: 60, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
71 36 0.06
72 188 0.30
73 211 0.34
74 133 0.21
75 56 0.09
76 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (73 bp):
AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAGGTTGTTAATAATG
TAAACGGT
Found at i:9321819 original size:111 final size:112
Alignment explanation
Indices: 9321683--9321959 Score: 416
Period size: 111 Copynumber: 2.5 Consensus size: 112
9321673 ACCTACCGGG
* *
9321683 TTCATTATGACAAAACCGGTAAAGAGCTACTGAATATGTTGAAAGTGTTGTTACTTTATAAAAAT
1 TTCATTATGACAAAACCGGTAAAGAGCTACTGAATATGTTGAAAGTGTCGATACTTTATAAAAAT
* * * *
9321748 GTATTGATACATAATAATATAACAGGT-AAAAAATGATAAAATCAGT
66 GTATCGATACATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
* *
9321794 TTCATTATGACAAAACCGGTAAAGAGCTAC-CAGATATGTTGAAAGTGTCGATACTTTTTAAAAA
1 TTCATTATGACAAAACCGGTAAAGAGCTACTGA-ATATGTTGAAAGTGTCGATACTTTATAAAAA
9321858 TGTATCGATACATAACAATATAACAGGTAAAAAAAATGACAAAACCAGT
65 TGTATCGATACATAACAATATAACAGGT-AAAAAAATGACAAAACCAGT
* *
9321907 TTCATTATGACAAAACCGGCAAAGAACTACCTG-ATATGTTGAAAGTGTCGATA
1 TTCATTATGACAAAACCGGTAAAGAGCTA-CTGAATATGTTGAAAGTGTCGATA
9321960 ATTTTTGTAC
Statistics
Matches: 150, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
110 1 0.01
111 84 0.56
113 64 0.43
114 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (112 bp):
TTCATTATGACAAAACCGGTAAAGAGCTACTGAATATGTTGAAAGTGTCGATACTTTATAAAAAT
GTATCGATACATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
Found at i:9321952 original size:113 final size:111
Alignment explanation
Indices: 9321683--9321981 Score: 438
Period size: 113 Copynumber: 2.7 Consensus size: 111
9321673 ACCTACCGGG
* * *
9321683 TTCATTATGACAAAACCGGTAAAGAGCTA-CTGAATATGTTGAAAGTGTTGTTACTTTATAAAAA
1 TTCATTATGACAAAACCGGTAAAGAGCTACCTG-ATATGTTGAAAGTGTCGATACTTTTTAAAAA
* * * *
9321747 TGTATTGATACATAATAATATAACAGGTAAAAAATGATAAAATCAGT
65 TGTATCGATACATAACAATATAACAGGTAAAAAATGACAAAACCAGT
*
9321794 TTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTTTAAAAAT
1 TTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTGTCGATACTTTTTAAAAAT
9321859 GTATCGATACATAACAATATAACAGGTAAAAAAAATGACAAAACCAGT
66 GTATCGATACATAACAATATAACAGGT--AAAAAATGACAAAACCAGT
* * * ** *
9321907 TTCATTATGACAAAACCGGCAAAGAACTACCTGATATGTTGAAAGTGTCGATAATTTTTGTACAT
1 TTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTGTCGATACTTTTTAAAAAT
9321972 GTATCGATAC
66 GTATCGATAC
9321982 TTTGTTGAAA
Statistics
Matches: 170, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
111 83 0.49
112 2 0.01
113 85 0.50
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (111 bp):
TTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTGTCGATACTTTTTAAAAAT
GTATCGATACATAACAATATAACAGGTAAAAAATGACAAAACCAGT
Found at i:9323496 original size:5 final size:5
Alignment explanation
Indices: 9323477--9323537 Score: 50
Period size: 5 Copynumber: 10.8 Consensus size: 5
9323467 AGCATGCTTA
*
9323477 AAAAT AAAACTT AAAAT AAAAT AAAAAT GACAACTT GAAAAT AAAAT AAAAT
1 AAAAT AAAA--T AAAAT AAAAT -AAAAT -A-AA-AT -AAAAT AAAAT AAAAT
9323529 AAAAT AAAA
1 AAAAT AAAA
9323538 CAAAGAACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
5 29 0.60
6 7 0.15
7 9 0.19
8 3 0.06
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:9323511 original size:24 final size:24
Alignment explanation
Indices: 9323475--9323532 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
9323465 TTAGCATGCT
9323475 TAAAAATAAAACTT-AAAATAAAA
1 TAAAAATAAAACTTGAAAATAAAA
*
9323498 TAAAAATGACAACTTGAAAATAAAA
1 TAAAAAT-AAAACTTGAAAATAAAA
9323523 T-AAAATAAAA
1 TAAAAATAAAA
9323533 TAAAACAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 10 0.32
24 11 0.35
25 10 0.32
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (24 bp):
TAAAAATAAAACTTGAAAATAAAA
Found at i:9329569 original size:21 final size:21
Alignment explanation
Indices: 9329543--9329593 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
9329533 ACAACAGTTG
9329543 GCTCAAATGGATGAAAATTTT
1 GCTCAAATGGATGAAAATTTT
9329564 GCTCAAATGGATGAAAATTTT
1 GCTCAAATGGATGAAAATTTT
9329585 GCTCAAATG
1 GCTCAAATG
9329594 AAAGTCGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
GCTCAAATGGATGAAAATTTT
Done.