Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_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: 2886609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 16
Found at i:938099 original size:2 final size:2
Alignment explanation
Indices: 938092--938162 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
938082 ATGGTTTTAT
938092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
938134 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 T
938163 GTCTCTGTGC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:938887 original size:6 final size:6
Alignment explanation
Indices: 938851--938886 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
938841 GAGAGTAAAA
*
938851 CATGCC CATGCC CATGCC CATGCC CATGCC AATGCC
1 CATGCC CATGCC CATGCC CATGCC CATGCC CATGCC
938887 ATGAGACTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.19, C:0.47, G:0.17, T:0.17
Consensus pattern (6 bp):
CATGCC
Found at i:940059 original size:2 final size:2
Alignment explanation
Indices: 940047--940077 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
940037 CAAATTCAAA
*
940047 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
940078 AAAACCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:949566 original size:16 final size:17
Alignment explanation
Indices: 949535--949568 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
949525 AAAATTAAGA
949535 AGACCGAAAGCAAAATT
1 AGACCGAAAGCAAAATT
949552 AGACCGAAA-CAAAATT
1 AGACCGAAAGCAAAATT
949568 A
1 A
949569 ATAAAGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.56, C:0.18, G:0.15, T:0.12
Consensus pattern (17 bp):
AGACCGAAAGCAAAATT
Found at i:949897 original size:11 final size:12
Alignment explanation
Indices: 949860--949892 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
949850 ATAAATGTTT
949860 ATAATTTTAAAA
1 ATAATTTTAAAA
949872 ATAATTTTAAAA
1 ATAATTTTAAAA
949884 ATAATTTTA
1 ATAATTTTA
949893 TAATATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATAATTTTAAAA
Found at i:950513 original size:29 final size:29
Alignment explanation
Indices: 950481--950537 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
950471 TTATTTCAAG
*
950481 TTAACTACTAACTTTTATTTTATTGCATA
1 TTAACCACTAACTTTTATTTTATTGCATA
950510 TTAACCACTAACTTTTATTTTATTGCAT
1 TTAACCACTAACTTTTATTTTATTGCAT
950538 TCTTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.51
Consensus pattern (29 bp):
TTAACCACTAACTTTTATTTTATTGCATA
Found at i:956098 original size:32 final size:32
Alignment explanation
Indices: 956057--956163 Score: 123
Period size: 31 Copynumber: 3.4 Consensus size: 32
956047 AGTCGAGGGT
956057 TTACCTATGTTCTACGGAACATATGGACA-TAA
1 TTACCTATGTTCTACGGAACATATGGACAGT-A
* *
956089 TTACCTATG-TCTTTCGGGACATATGGACAGTA
1 TTACCTATGTTC-TACGGAACATATGGACAGTA
* *
956121 -TACCTATGTTCTAAGAAACATATGGACAGT-
1 TTACCTATGTTCTACGGAACATATGGACAGTA
*
956151 TTACCTAGGTTCT
1 TTACCTATGTTCT
956164 TCGGGACCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
31 36 0.56
32 27 0.42
33 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAGTA
Found at i:956128 original size:31 final size:32
Alignment explanation
Indices: 956057--956148 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
956047 AGTCGAGGGT
956057 TTACCTATGTTCTACGGAACATATGGACATAA
1 TTACCTATGTTCTACGGAACATATGGACATAA
* *
956089 TTACCTATG-TCTTTCGGGACATATGGACAGT-A
1 TTACCTATGTTC-TACGGAACATATGGACA-TAA
* *
956121 -TACCTATGTTCTAAGAAACATATGGACA
1 TTACCTATGTTCTACGGAACATATGGACA
956149 GTTTACCTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
31 23 0.45
32 27 0.53
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACATAA
Found at i:957501 original size:14 final size:13
Alignment explanation
Indices: 957482--957529 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 13
957472 AGTTTAAATC
957482 AAAGCAAAGAGAAA
1 AAAGCAAAGA-AAA
957496 AAAGCAAAGAAAAA
1 AAAGCAAAG-AAAA
957510 CAAAGAACAAAGAAAA
1 -AAAG--CAAAGAAAA
957526 AAAG
1 AAAG
957530 GGGAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.40
15 9 0.30
16 4 0.13
17 5 0.17
ACGTcount: A:0.75, C:0.08, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGCAAAGAAAA
Found at i:961914 original size:22 final size:22
Alignment explanation
Indices: 961886--961928 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
961876 GCATCGATGC
*
961886 ACTGTTCATGGTATTATTCATT
1 ACTGTTCACGGTATTATTCATT
*
961908 ACTGTTCACGGTATTGTTCAT
1 ACTGTTCACGGTATTATTCAT
961929 ACCATATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (22 bp):
ACTGTTCACGGTATTATTCATT
Found at i:961940 original size:19 final size:19
Alignment explanation
Indices: 961918--961971 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
961908 ACTGTTCACG
*
961918 GTATTGTTCATACCATATA
1 GTATTGTTCATACAATATA
961937 GTATTGTTCATACAATATA
1 GTATTGTTCATACAATATA
*
961956 ATATTGTTCATA-AATA
1 GTATTGTTCATACAATA
961972 CGTTTTTACC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
18 4 0.12
19 29 0.88
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (19 bp):
GTATTGTTCATACAATATA
Found at i:962236 original size:36 final size:35
Alignment explanation
Indices: 962196--962369 Score: 131
Period size: 36 Copynumber: 5.2 Consensus size: 35
962186 TCTGTCGCCT
*
962196 TTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCTC
1 TTGAGATTGTTTCTCTTGAAACAAA-TTTGTCTCTC
* *
962232 TTGAGAGAT-TTTCTCTTGAAACATAA----AC-CT-
1 TTGAGA-TTGTTTCTCTTGAAACA-AATTTGTCTCTC
*
962262 TTGAGATTGTTTCTCTTGAAACAAATTGTGTCTCGC
1 TTGAGATTGTTTCTCTTGAAACAAATT-TGTCTCTC
* *
962298 TTGAGATAGTTTCTCTTGAAACATAA----AC-CT-
1 TTGAGATTGTTTCTCTTGAAACA-AATTTGTCTCTC
* *
962328 TTGAGATTGTTTCTCTTGAAATAAATGTTGTCTCGC
1 TTGAGATTGTTTCTCTTGAAACAAAT-TTGTCTCTC
962364 TTGAGA
1 TTGAGA
962370 CATTTGCTCT
Statistics
Matches: 107, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
29 5 0.05
30 41 0.38
31 3 0.03
32 2 0.02
34 2 0.02
35 2 0.02
36 47 0.44
37 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.42
Consensus pattern (35 bp):
TTGAGATTGTTTCTCTTGAAACAAATTTGTCTCTC
Found at i:962275 original size:30 final size:30
Alignment explanation
Indices: 962241--962348 Score: 119
Period size: 30 Copynumber: 3.4 Consensus size: 30
962231 CTTGAGAGAT
962241 TTTCTCTTGAAACATAAACCTTTGAGATTG
1 TTTCTCTTGAAACATAAACCTTTGAGATTG
* * *
962271 TTTCTCTTGAAACA-AATTGTGTCTCGCTTGAGATAG
1 TTTCTCTTGAAACATAA-----AC-C-TTTGAGATTG
962307 TTTCTCTTGAAACATAAACCTTTGAGATTG
1 TTTCTCTTGAAACATAAACCTTTGAGATTG
962337 TTTCTCTTGAAA
1 TTTCTCTTGAAA
962349 TAAATGTTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
29 2 0.03
30 34 0.53
31 1 0.02
32 1 0.02
34 1 0.02
35 1 0.02
36 22 0.34
37 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (30 bp):
TTTCTCTTGAAACATAAACCTTTGAGATTG
Found at i:962301 original size:66 final size:66
Alignment explanation
Indices: 962193--962784 Score: 699
Period size: 66 Copynumber: 8.9 Consensus size: 66
962183 CTGTCTGTCG
* * * *
962193 CCTTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAGATTTTCTCTTGAAACATAA
1 CCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAA
962258 A
66 A
* *
962259 CCTTTGAGATTGTTTCTCTTGAAACAAATTGTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAA
1 CCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAA
962324 A
66 A
* * * *
962325 CCTTTGAGATTGTTTCTCTTGAAATAAATGTTGTCTCGCTTGAGACA-TTTGCTCTTGAAATATT
1 CCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTT-CTCTTGAAACATA
962389 AA
65 AA
* * * ** * *
962391 CATTTGAGATTATTAT-TCTTGAAATAAATTTTGTCTCATTTCAGAAAGTTTCTCTTGAAACATA
1 CCTTTGAGATTGTT-TCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
962455 AA
65 AA
*
962457 CCTTTGAGATTGTTTCTCTCGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
1 CCTTTGAGATTGTTTCTCTTGAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
962522 AA
65 AA
** * * ** *
962524 CCTTTGAGATTGTTTCTCTCAAAATAAAGTTTTGTCCCTTTTGAGACAGTTTCTTTTGAAACATA
1 CCTTTGAGATTGTTTCTCTTGAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
962589 AA
65 AA
* * **
962591 CCTTTGAGATTGTATCTCTTGAAACAAATTTTGTCTCGTTTGAGACAACTTCTCTTGAAACATAA
1 CCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAA
962656 A
66 A
* * * * *
962657 CCTTTAAGATTGTTTCTCTTGAAACAAATTTCGTCTCGCTTGAGACAATTTTCCCTTGAAACACA
1 CCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGAC-AGTTTCTCTTGAAACATA
962722 AA
65 AA
* * * * * * * * *
962724 --TTCT-AAAATGTTTCACTCGAAACAAAATTTTATCTCACCTAAGATAGTTTCTCTTGAAACA
1 CCTT-TGAGATTGTTTCTCTTGAAAC-AAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACA
962785 AATTTCTTTC
Statistics
Matches: 455, Mismatches: 63, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
65 35 0.08
66 281 0.62
67 139 0.31
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (66 bp):
CCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAA
A
Found at i:963162 original size:139 final size:139
Alignment explanation
Indices: 962932--963290 Score: 463
Period size: 139 Copynumber: 2.6 Consensus size: 139
962922 AACATTAAGG
* * *
962932 AGCAGTGTCAACCTTAGACAATCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTTC-AAGTTA
1 AGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTCCAAAG-TA
* * * * * *
962996 TCCCTATAGATGGTTTGACGTATTCATCACGTAGGAACAATGTCATCCACCCACCAGATCTCCTC
65 TCCCTAAAGATGGCTAGACATACTCATCACGTAAGAACAATGTCATCCACCCACCAGATCTCCTC
963061 AACACGTAGGA
130 AACACGTA-GA
* * * *
963072 A-TAGTGTCATCCTCAGGCAATCAGACTTCCTCATCACGTAGGAATCGTGTAGTCTCCAAAGTAT
1 AGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTCCAAAGTAT
* * * *
963136 CCCTAAAGACGGCTAGACATCCTCATCACGTAAGAACAATGTCTTCCACCTACCAGATCTCCTCA
66 CCCTAAAGATGGCTAGACATACTCATCACGTAAGAACAATGTCATCCACCCACCAGATCTCCTCA
963201 ACACGTAGA
131 ACACGTAGA
* * * * * *
963210 AGCA-TCGTCATCCTCAGATAACCAGACTTCCTAATCACGTAGGAACCATGTTGCCTCCAAATTA
1 AGCAGT-GTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTCCAAAGTA
963274 TCCCTAAAGATGGCTAG
65 TCCCTAAAGATGGCTAG
963291 TGTAATACCC
Statistics
Matches: 188, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
138 4 0.02
139 180 0.96
140 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (139 bp):
AGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTCCAAAGTAT
CCCTAAAGATGGCTAGACATACTCATCACGTAAGAACAATGTCATCCACCCACCAGATCTCCTCA
ACACGTAGA
Found at i:964116 original size:19 final size:19
Alignment explanation
Indices: 964092--964141 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
964082 TTGATGAACA
* *
964092 GTATCGATACTGAAGTGG-G
1 GTATCGATAC-CAAGAGGAG
964111 GTATCGATACCAAGAGGAG
1 GTATCGATACCAAGAGGAG
964130 GTATCGATACCA
1 GTATCGATACCA
964142 TTATTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (19 bp):
GTATCGATACCAAGAGGAG
Found at i:975556 original size:63 final size:63
Alignment explanation
Indices: 975487--975689 Score: 170
Period size: 63 Copynumber: 3.2 Consensus size: 63
975477 GAGTCAAGGA
** *
975487 AATACCTATGTTC-TACAGAATATATGGACAGAATTACCTATG-TCTTTCGGGACATATGGACAG
1 AATACCTATGTTCTTACAGAATATATGGACAGAA-TACCTATGTTC-AACGGAACATATGGACAG
* * * * *
975550 TATACCTATG-TCTTTCGGGATATATGGACAGTATACCTATGTTCAACGGAACATATGGACAG
1 AATACCTATGTTCTTACAGAATATATGGACAGAATACCTATGTTCAACGGAACATATGGACAG
* *
975612 AATTACCTATG-TCTCT-CGGGACT-TATGGACA-ATATACCTATGTTCTAA-GGAACATATGGA
1 AA-TACCTATGTTCT-TAC-AGAATATATGGACAGA-ATACCTATGTTC-AACGGAACATATGGA
975672 CAG
61 CAG
** *
975675 TTTACCTAGGTTCTT
1 AATACCTATGTTCTT
975690 CAGGACCTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
62 34 0.29
63 77 0.66
64 6 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (63 bp):
AATACCTATGTTCTTACAGAATATATGGACAGAATACCTATGTTCAACGGAACATATGGACAG
Found at i:975559 original size:31 final size:31
Alignment explanation
Indices: 975488--975706 Score: 201
Period size: 31 Copynumber: 7.0 Consensus size: 31
975478 AGTCAAGGAA
* * * * *
975488 ATACCTATGTTCTACAGAATATATGGACAGA
1 ATACCTATGTTCTTCGGGACATATGGACAGT
975519 ATTACCTATG-TCTTTCGGGACATATGGACAGT
1 A-TACCTATGTTC-TTCGGGACATATGGACAGT
*
975551 ATACCTATG-TCTTTCGGGATATATGGACAGT
1 ATACCTATGTTC-TTCGGGACATATGGACAGT
** * *
975582 ATACCTATGTTCAACGGAACATATGGACAGA
1 ATACCTATGTTCTTCGGGACATATGGACAGT
* *
975613 ATTACCTATG-TCTCTCGGGACTTATGGACAAT
1 A-TACCTATGTTCT-TCGGGACATATGGACAGT
** *
975645 ATACCTATGTTCTAAGGAACATATGGACAGT
1 ATACCTATGTTCTTCGGGACATATGGACAGT
* * * *
975676 TTACCTAGGTTCTTCAGGACCTATGGACAGT
1 ATACCTATGTTCTTCGGGACATATGGACAGT
975707 TGTCGAGGTT
Statistics
Matches: 153, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
31 103 0.67
32 50 0.33
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
ATACCTATGTTCTTCGGGACATATGGACAGT
Found at i:975669 original size:94 final size:94
Alignment explanation
Indices: 975488--975705 Score: 276
Period size: 94 Copynumber: 2.3 Consensus size: 94
975478 AGTCAAGGAA
* * * *
975488 ATACCTATGTTCTACAGAATATATGGACAGAATTACCTATGTCTTTCGGGACATATGGACAGTAT
1 ATACCTATGTTCAACAGAACATATGGACAGAATTACCTATGTCTCTCGGGACATATGGACAATAT
** * *
975553 ACCTATGTCTTTCGGGATATATGGACAGT
66 ACCTATGTCTTAAGGAACATATGGACAGT
* *
975582 ATACCTATGTTCAACGGAACATATGGACAGAATTACCTATGTCTCTCGGGACTTATGGACAATAT
1 ATACCTATGTTCAACAGAACATATGGACAGAATTACCTATGTCTCTCGGGACATATGGACAATAT
975647 ACCTATGT-TCTAAGGAACATATGGACAGT
66 ACCTATGTCT-TAAGGAACATATGGACAGT
* * ** * *
975676 TTACCTAGGTTCTTCAGGACCTATGGACAG
1 ATACCTATGTTCAACAGAACATATGGACAG
975706 TTGTCGAGGT
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
93 1 0.01
94 105 0.99
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (94 bp):
ATACCTATGTTCAACAGAACATATGGACAGAATTACCTATGTCTCTCGGGACATATGGACAATAT
ACCTATGTCTTAAGGAACATATGGACAGT
Found at i:979571 original size:19 final size:18
Alignment explanation
Indices: 979535--979588 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
979525 CCCTATTTAA
*
979535 ATTTTTTT-TCTTTCTTTT
1 ATTTTTTTAT-TTTTTTTT
*
979553 GTTTTTTTATTTGTTTTTT
1 ATTTTTTTATTT-TTTTTT
979572 ATTTTTTTATTTTTTTT
1 ATTTTTTTATTTTTTTT
979589 ACTAACCCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.07, C:0.04, G:0.04, T:0.85
Consensus pattern (18 bp):
ATTTTTTTATTTTTTTTT
Found at i:983718 original size:18 final size:19
Alignment explanation
Indices: 983692--983738 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
983682 TTATATTTAT
983692 ATATATATAAGTACT-ATA
1 ATATATATAAGTACTCATA
* *
983710 ATATTTATATGTACTCATA
1 ATATATATAAGTACTCATA
983729 ATAATATATA
1 AT-ATATATA
983739 CTCTCATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 13 0.54
19 5 0.21
20 6 0.25
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (19 bp):
ATATATATAAGTACTCATA
Found at i:984045 original size:20 final size:20
Alignment explanation
Indices: 984012--984069 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
984002 ATGTGAAATT
* *
984012 TGTCACGAATGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
* *
984032 TGTCCTGAAGGACCTCTGTA
1 TGTCCCGAAGGACCTATGTA
*
984052 TGTCCCGAATGACCTATG
1 TGTCCCGAAGGACCTATG
984070 AACCCTCAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (20 bp):
TGTCCCGAAGGACCTATGTA
Found at i:987036 original size:22 final size:22
Alignment explanation
Indices: 987006--987052 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
986996 AAATAGTGAA
987006 GACTATTTAACGTTCTTATGGT
1 GACTATTTAACGTTCTTATGGT
*
987028 GACTCTTTAACGTTCTTATGGT
1 GACTATTTAACGTTCTTATGGT
987050 GAC
1 GAC
987053 ACTTATTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (22 bp):
GACTATTTAACGTTCTTATGGT
Found at i:988278 original size:20 final size:20
Alignment explanation
Indices: 988255--988305 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
988245 ATTTGTCTCG
988255 AAGGACCTATGTATGTCCCA
1 AAGGACCTATGTATGTCCCA
** * *
988275 AAGGACCCCTGTATGTCTCG
1 AAGGACCTATGTATGTCCCA
*
988295 AAGAACCTATG
1 AAGGACCTATG
988306 AACCCTCGAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (20 bp):
AAGGACCTATGTATGTCCCA
Found at i:988614 original size:2 final size:2
Alignment explanation
Indices: 988607--988689 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
988597 CCTAAACATT
988607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
988649 TA 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 TA T
988690 CACTTATATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:990535 original size:17 final size:17
Alignment explanation
Indices: 990513--990563 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
990503 TAAGAGTTAA
990513 TTTAATAAATGAACTAG
1 TTTAATAAATGAACTAG
* *
990530 TTTAATTAATAAACTA-
1 TTTAATAAATGAACTAG
**
990546 TTTCCCTAAATGAACTAG
1 TTT-AATAAATGAACTAG
990564 ATAATTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 3 0.12
17 23 0.88
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:991110 original size:20 final size:20
Alignment explanation
Indices: 991070--991120 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
991060 GATGCAAGTA
*
991070 GTATCGATA-CTAAAGTGAG
1 GTATCGATACCAAAAGTGAG
991089 GTATCGATACCAAAAG-GAAG
1 GTATCGATACCAAAAGTG-AG
*
991109 GTATCCATACCA
1 GTATCGATACCA
991121 TTACTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (20 bp):
GTATCGATACCAAAAGTGAG
Found at i:991977 original size:137 final size:138
Alignment explanation
Indices: 991726--991979 Score: 354
Period size: 137 Copynumber: 1.8 Consensus size: 138
991716 GTATGTAGTG
* * *
991726 GTTATCGATCGATTTTGTGTAATGCATAACGGTGCATTTTCATATCAGTATTGGGTGTACTTTTG
1 GTTATCGATCGATTTTGTGTAATACAAAACGGTGCATTTTCATATCAGTATTGGGTGTACTTTCG
* *
991791 GCACTAGATGTGCAATCATGGTATTCATAATGAGTTTGTGAATCACCATTTCGTTATACAATTAT
66 GCACTAGATGTGCAATCATGGAATTCATAATGAGTTTGTAAATCACCATTTCGTTATACAATTAT
991856 GTATAAAA
131 GTATAAAA
* * *
991864 GTTATCGATCGATTTT-TTTAATACAAAACGGTGCATTTTCGTATCAGTACTT-TGTGTACTTTC
1 GTTATCGATCGATTTTGTGTAATACAAAACGGTGCATTTTCATATCAGTA-TTGGGTGTACTTTC
* **
991927 GGCACTATG-TGTGC-ATCCATGGAATTCATGATGAGTTTGTAAATTTCCATTTC
65 GGCACTA-GATGTGCAAT-CATGGAATTCATAATGAGTTTGTAAATCACCATTTC
991980 AACACTTAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
136 2 0.02
137 81 0.79
138 19 0.19
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (138 bp):
GTTATCGATCGATTTTGTGTAATACAAAACGGTGCATTTTCATATCAGTATTGGGTGTACTTTCG
GCACTAGATGTGCAATCATGGAATTCATAATGAGTTTGTAAATCACCATTTCGTTATACAATTAT
GTATAAAA
Found at i:992461 original size:3 final size:3
Alignment explanation
Indices: 992453--992481 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
992443 AACGAACGTT
992453 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
992482 AAAATGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:992866 original size:139 final size:139
Alignment explanation
Indices: 992613--992866 Score: 357
Period size: 139 Copynumber: 1.8 Consensus size: 139
992603 AGCTAGATGT
* * * * *
992613 CCTCATCACGTAGGAACAATATCGTCCATCGACCAGATCTCCTCAGCTCGTAGGAGCAGTGTCAT
1 CCTCATCACATAGGAACAATATCATCCACCGACCAAATCTCCTCAACTCGTAGGAGCAGTGTCAT
* * * *
992678 CCTCAGATAACCAAACTTCCTTATCACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTAAAGACG
66 CATCAGACAACCAAACTTCCTCATCACGTAGGAACCGTGTTGTCACCAAAGTATCCCTAAAGACG
992743 GCCAGACGA
131 GCCAGACGA
* *
992752 CCTCATCACATAGGAACAATGTCATCCGCCGACCAAATCTCCTCAACGT-GTAGGAGCAGTGTCA
1 CCTCATCACATAGGAACAATATCATCCACCGACCAAATCTCCTCAAC-TCGTAGGAGCAGTGTCA
* * * *
992816 TCATCAGGCAATCAGACTTCCTCATCATGTAGGAACCGTGTTGTCACCAAA
65 TCATCAGACAACCAAACTTCCTCATCACGTAGGAACCGTGTTGTCACCAAA
992867 TTGTCTCCAG
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
139 98 0.99
140 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (139 bp):
CCTCATCACATAGGAACAATATCATCCACCGACCAAATCTCCTCAACTCGTAGGAGCAGTGTCAT
CATCAGACAACCAAACTTCCTCATCACGTAGGAACCGTGTTGTCACCAAAGTATCCCTAAAGACG
GCCAGACGA
Found at i:993440 original size:29 final size:29
Alignment explanation
Indices: 993419--993474 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
993409 TTATTTCAAG
*
993419 TTAACTACTAACTTTTATTTTATTGCATA
1 TTAACCACTAACTTTTATTTTATTGCATA
*
993448 TTAACCACTAATTTTTATTTTATTGCA
1 TTAACCACTAACTTTTATTTTATTGCA
993475 CTTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (29 bp):
TTAACCACTAACTTTTATTTTATTGCATA
Found at i:993744 original size:135 final size:134
Alignment explanation
Indices: 993476--993722 Score: 397
Period size: 135 Copynumber: 1.8 Consensus size: 134
993466 TTTATTGCAC
993476 TTTATTTATTTATTGTTTCTAATATTCGATTCGATCTTGTGGTGACCCGATCCGGGGTATAATCC
1 TTTATTTATTTATTGTTTCTAATATTCGATTCGATCTTGTGGTGACCCGATCCGGGGTATAATCC
* * * *
993541 ACATTATTATGGTTCGGATTCTGCTAACTATTGACTTTTATTTTATTGCACTCTAACCATTGTTT
66 ACATTATTATGGTTCGGACTCTGCTAACCATTAACTTTTATTTAATTGCACTCTAA-CATTGTTT
993606 ATTTA
130 ATTTA
*
993611 TTTATTTATTTATTGTTTCTAATATTCGATTCGA-CTTTGTGGTGACCCGATCCGGGGTATGATC
1 TTTATTTATTTATTGTTTCTAATATTCGATTCGATC-TTGTGGTGACCCGATCCGGGGTATAATC
* *
993675 CACATTATTATGGTTCGGACTCTTCTTACCATTAACTTTTTATTTAAT
65 CACATTATTATGGTTCGGACTCTGCTAACCATTAAC-TTTTATTTAAT
993723 GTTATTTTAT
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
134 1 0.01
135 92 0.89
136 10 0.10
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.47
Consensus pattern (134 bp):
TTTATTTATTTATTGTTTCTAATATTCGATTCGATCTTGTGGTGACCCGATCCGGGGTATAATCC
ACATTATTATGGTTCGGACTCTGCTAACCATTAACTTTTATTTAATTGCACTCTAACATTGTTTA
TTTA
Found at i:993840 original size:16 final size:16
Alignment explanation
Indices: 993819--993877 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
993809 TCGGACTCTG
993819 CTAACCACTAACTTTT
1 CTAACCACTAACTTTT
*
993835 CTAACCGCTAACTTTT
1 CTAACCACTAACTTTT
*
993851 CTAACAACTAAAC-TTT
1 CTAACCACT-AACTTTT
*
993867 CTAACCGCTAA
1 CTAACCACTAA
993878 TTACTAACTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 2 0.05
16 32 0.86
17 3 0.08
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (16 bp):
CTAACCACTAACTTTT
Found at i:994079 original size:15 final size:16
Alignment explanation
Indices: 994045--994079 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
994035 ATTTCATTTA
*
994045 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
994061 TTTAAATTTATGC-CT
1 TTTAAATTTATGCACT
994076 TTTA
1 TTTA
994080 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:997760 original size:15 final size:15
Alignment explanation
Indices: 997740--997782 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
997730 AAATATTATT
*
997740 ATTTAAATTAGTATA
1 ATTTAAATTAGAATA
997755 ATTTAAATTTCAGAATA
1 ATTTAAA-TT-AGAATA
997772 A-TTAAATTAGA
1 ATTTAAATTAGA
997783 TTTCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 7 0.28
17 6 0.24
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (15 bp):
ATTTAAATTAGAATA
Found at i:997785 original size:21 final size:21
Alignment explanation
Indices: 997752--997800 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
997742 TTAAATTAGT
* * *
997752 ATAATTTAAATTTCAGAATAA
1 ATAAATTAGATTTCAAAATAA
*
997773 TTAAATTAGATTTCAAAATAA
1 ATAAATTAGATTTCAAAATAA
997794 ATAAATT
1 ATAAATT
997801 TAATTATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (21 bp):
ATAAATTAGATTTCAAAATAA
Found at i:1000370 original size:32 final size:31
Alignment explanation
Indices: 1000273--1000397 Score: 162
Period size: 31 Copynumber: 4.0 Consensus size: 31
1000263 ATTTTCAAAA
*
1000273 GTTACAAAAT-AGTCATTAAATTTATCGAAGT
1 GTTACAAAATGA-TCATTAAATTTATCGAACT
** *
1000304 GTTACAAAATGATCATTATCTTTATCGAATT
1 GTTACAAAATGATCATTAAATTTATCGAACT
*
1000335 GTTACAAAATGATCATTAAATTTTATTGAACT
1 GTTACAAAATGATCATTAAA-TTTATCGAACT
* *
1000367 GTTACATAATGGTCATTAAATTTATCGAACT
1 GTTACAAAATGATCATTAAATTTATCGAACT
1000398 TTTAAAGTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
31 54 0.66
32 28 0.34
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (31 bp):
GTTACAAAATGATCATTAAATTTATCGAACT
Found at i:1000391 original size:63 final size:62
Alignment explanation
Indices: 1000273--1000395 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 62
1000263 ATTTTCAAAA
* **
1000273 GTTACAAAATAGTCATTAAATTTATCGAAGTGTTACAAAATGATCATTATCTTTATCGAATT
1 GTTACAAAATAGTCATTAAATTTATCGAACTGTTACAAAATGATCATTAAATTTATCGAATT
* * *
1000335 GTTACAAAAT-GATCATTAAATTTTATTGAACTGTTACATAATGGTCATTAAATTTATCGAA
1 GTTACAAAATAG-TCATTAAA-TTTATCGAACTGTTACAAAATGATCATTAAATTTATCGAA
1000396 CTTTTAAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 1 0.02
62 18 0.34
63 34 0.64
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (62 bp):
GTTACAAAATAGTCATTAAATTTATCGAACTGTTACAAAATGATCATTAAATTTATCGAATT
Found at i:1008632 original size:133 final size:133
Alignment explanation
Indices: 1008482--1008748 Score: 371
Period size: 133 Copynumber: 2.0 Consensus size: 133
1008472 TTATTTTTAT
* * * *
1008482 AAATAAGATATTTATTTACTT-AGAAATATCATAAAATGACTTCTAGATATTTTAAGACAGCTCA
1 AAATAAGATATTTATTTACTTAAG-AATATCAGAAAATGACTTCTAGATACTTTAAGACAACCCA
1008546 TTTCTTAATA-TAAAAAAATAAATAAATATTAATAAAAT-ATTT-CTCTAAAAATAATTATATAA
65 TTTCTTAATATTAAAAAAATAAATAAATATTAA-AAAATGATTTACTCTAAAAATAATT-TA-AA
1008608 TTTATAA
127 TTTATAA
* * * *
1008615 AAATAGGATATTTATTTATTTAAGAATATCAGAAAATGACTTCTAGGTGCTTTAAGACAACCCAT
1 AAATAAGATATTTATTTACTTAAGAATATCAGAAAATGACTTCTAGATACTTTAAGACAACCCAT
* * *
1008680 TTCTTAATATTAAAAAAATAAATAAATATTAAAATATGATTTATTTTAAAAATAATTTAAATTTA
66 TTCTTAATATTAAAAAAATAAATAAATATTAAAAAATGATTTACTCTAAAAATAATTTAAATTTA
1008745 TAA
131 TAA
1008748 A
1 A
1008749 TAGAATTTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
133 77 0.65
134 30 0.25
135 12 0.10
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (133 bp):
AAATAAGATATTTATTTACTTAAGAATATCAGAAAATGACTTCTAGATACTTTAAGACAACCCAT
TTCTTAATATTAAAAAAATAAATAAATATTAAAAAATGATTTACTCTAAAAATAATTTAAATTTA
TAA
Found at i:1008775 original size:9 final size:8
Alignment explanation
Indices: 1008759--1008785 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1008749 TAGAATTTTT
1008759 ATAAAAAA
1 ATAAAAAA
1008767 ATAAAAAA
1 ATAAAAAA
1008775 ATAAAAAA
1 ATAAAAAA
1008783 ATA
1 ATA
1008786 TTATTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:1008784 original size:133 final size:132
Alignment explanation
Indices: 1008514--1008784 Score: 298
Period size: 133 Copynumber: 2.0 Consensus size: 132
1008504 GAAATATCAT
* * *
1008514 AAAATGACTTCTAGATATTTTAAGACAGCTCATTTCTTAATATAAAAAAATAAATAAATATTAAT
1 AAAATGACTTCTAGATACTTTAAGACAACCCATTTCTTAATATAAAAAAATAAATAAATATTAAT
* ** ** * *
1008579 AAAATATTTCTCTAAAAATAATTATATAATTTATAAAAATAGGATATTTATTTATTTAAGAATAT
66 AAAATATTTCTCTAAAAATAATTATATAATTTAT-AAAATAGAATATTTATAAAAATAAAAAAAT
* *
1008644 CAG
130 AAA
* *
1008647 AAAATGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAAATAAATAAATATTAA
1 AAAATGACTTCTAGATACTTTAAGACAACCCATTTCTTAATA-TAAAAAAATAAATAAATATTAA
* * * *
1008712 -AATATGATTTATTTTAAAAATAATT-TA-AATTTAT-AAATAGAATTTTTATAAAAAAATAAAA
65 TAAAAT-ATTT-CTCTAAAAATAATTATATAATTTATAAAATAGAATATTTAT--AAAAATAAAA
1008773 AAATAAA
126 AAATAAA
1008780 AAAAT
1 AAAAT
1008785 ATTATTTATT
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
131 13 0.11
133 62 0.54
134 28 0.24
135 12 0.10
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (132 bp):
AAAATGACTTCTAGATACTTTAAGACAACCCATTTCTTAATATAAAAAAATAAATAAATATTAAT
AAAATATTTCTCTAAAAATAATTATATAATTTATAAAATAGAATATTTATAAAAATAAAAAAATA
AA
Found at i:1008867 original size:21 final size:22
Alignment explanation
Indices: 1008826--1008884 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 22
1008816 TAATAATAAT
1008826 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
1008848 AACATATAA-AATTGAAATATAAATA
1 AACA-ATAATAATT-AAATAT--ATA
1008873 AACAATGAATAA
1 AACAAT-AATAA
1008885 AATAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 8 0.26
23 10 0.32
24 2 0.06
25 9 0.29
26 2 0.06
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:1010128 original size:3 final size:3
Alignment explanation
Indices: 1010120--1010206 Score: 86
Period size: 3 Copynumber: 29.0 Consensus size: 3
1010110 CTGTAATATG
* *
1010120 TAA TAA TAA TAA TATT TAT TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
1010165 TAA TTA TAA CAA TTA TAA TAA TTA TAA TTA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1010207 AACGGGCCAA
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.94
4 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1010734 original size:139 final size:137
Alignment explanation
Indices: 1010431--1010788 Score: 432
Period size: 139 Copynumber: 2.6 Consensus size: 137
1010421 CTAGCAAAAA
* * * * *
1010431 GTTGAACAAATTCTTTTCATTATGGATTTCTTC-TCATTCTTCAGATGAGTTTTTCTCATTATGA
1 GTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTCATTATGA
* * * * * * * * * *
1010495 ACTACTTCTGGAAATGCTGATCTTCAAAAGAGGGGTTGTTGATTCAGCTTCATATGTGATGAATT
65 ACTTCATCTGGAAATGTTGATCATCAAAAGAGGGCTTGTTCATTCAACTCCATAGGTGATGAATC
1010560 AAGGCAAG
130 AAGGCAAG
* * *
1010568 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTATTCAGATGAGTTCTTCTTATTATGAA
1 GTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
1010633 CTTCCTCTGAAAATGTTGATCATCAAGAGAGGTTCTTCTTTCATTCAACTCCATAGGTGATGAAT
66 CTTCATCTGGAAATGTTGATCATCAAAAGAGG-GCTT-GTTCATTCAACTCCATAGGTGATGAAT
1010698 CAA-GCTAAG
129 CAAGGC-AAG
* *
1010707 GTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTCTTTAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
*
1010772 CTTTATCTGGAAATGTT
66 CTTCATCTGGAAATGTT
1010789 AGTGTTGATC
Statistics
Matches: 187, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
137 80 0.43
138 6 0.03
139 101 0.54
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (137 bp):
GTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTCATCTGGAAATGTTGATCATCAAAAGAGGGCTTGTTCATTCAACTCCATAGGTGATGAATCA
AGGCAAG
Found at i:1010852 original size:123 final size:118
Alignment explanation
Indices: 1010689--1011259 Score: 640
Period size: 113 Copynumber: 4.9 Consensus size: 118
1010679 AACTCCATAG
* * *
1010689 GTGATGAA-TCAAGC-TAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTCTTTAGA
1 GTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGA
**
1010752 TAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTAGTGTTGATCTATCTCTTTTT
66 TAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTA-TGTTGATCTA-CTC---GA
*
1010810 GTGAT-AGAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
1 GTGATGA-ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
* * *
1010874 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATGTTGATATATCTCCTTA
65 ATAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTT-ATGTTGATCTA-CT-C-GA
*
1010932 TGTGAT-AGATTCATA-C-AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTC
1 -GTGATGA-ATTCA-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTC
* *
1010994 AGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAA----A-GTTGATGC--GTCGA
63 AGATAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTATGTTGAT-CTACTCGA
* * *
1011044 GTGATGAATTCGAGCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTTTTCTTCCTTCTTCAG
1 GTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAG
* * * * *
1011109 ATGAGTTCTTCTCATTATGAACTCTACCTGG-CA----ATGTTGATCCA-TCGA
65 ATAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTATGTTGATCTACTCGA
* * * *
1011157 ATGATGAATTCGAGCAAAATGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAG
1 GTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAG
*
1011222 ATAAGTTCTTCTCATTATGAACTTTACCTGGAAATGTT
65 ATAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTT
1011260 GATCCATTGA
Statistics
Matches: 402, Mismatches: 28, Indels: 43
0.85 0.06 0.09
Matches are distributed among these distances:
110 1 0.00
111 10 0.02
112 43 0.11
113 134 0.33
114 2 0.00
116 6 0.01
117 1 0.00
120 1 0.00
121 6 0.01
122 89 0.22
123 106 0.26
124 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (118 bp):
GTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGA
TAAGTTCTTCTCATTATGAACTTTATCTGGAAATGTTATGTTGATCTACTCGA
Found at i:1011668 original size:22 final size:22
Alignment explanation
Indices: 1011643--1011718 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
1011633 AATAAAGCTT
1011643 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1011665 TCATCTTTGGAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
1011687 TCAT-TTTTAAAGAGAGAAACTA
1 TCATCTTTGAAA-AGAGAATCTA
1011709 TCATCTTTGA
1 TCATCTTTGA
1011719 GGAATGTAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
21 5 0.11
22 38 0.81
23 4 0.09
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1013110 original size:70 final size:72
Alignment explanation
Indices: 1012997--1013244 Score: 202
Period size: 75 Copynumber: 3.4 Consensus size: 72
1012987 CATAATGATG
* * * *
1012997 TGGGCCTTT-AGCATGCCCCAGCATTTACTGATATGAACGTTCAAAAT-G-TTATTCCAATTTCT
1 TGGG-CTTTCAGCATGCCCCAGCATTTGCTAATAAGAACGTTCAAAATCGCATATTCCAATTTCT
1013059 GATTGAAA
65 GATTGAAA
*
1013067 TGGGCTTTCAGCATGCCCCAGAATTTGCTAATACAG-ACGTTCAAAATGCGCCAATATTCCAATT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCTAATA-AGAACGTTCAAAAT-CG-C-ATATTCCAATT
*
1013131 TCTTATTGAAA
62 TCTGATTGAAA
* * * * *** * *
1013142 TGGGCTTCCAACATACCCCAGCATTTGTTAACGTGAACATTCAAAATACGTCAATATTCC-TTAT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCTAATAAGAACGTTCAAAAT-CG-C-ATATTCCAAT-T
*
1013206 TATGATTGAAA
62 TCTGATTGAAA
* * *
1013217 TGGGTTTTCAGCAT-ACCCAGTATTTGCT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCT
1013245 TCTTGTTGAT
Statistics
Matches: 143, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
69 4 0.03
70 36 0.25
71 1 0.01
72 1 0.01
74 13 0.09
75 88 0.62
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (72 bp):
TGGGCTTTCAGCATGCCCCAGCATTTGCTAATAAGAACGTTCAAAATCGCATATTCCAATTTCTG
ATTGAAA
Found at i:1016212 original size:1 final size:1
Alignment explanation
Indices: 1016201--1016284 Score: 87
Period size: 1 Copynumber: 84.0 Consensus size: 1
1016191 TTTGATTCAA
* * * * * * *
1016201 TTTTTTCTTTTTTTCTTTTTTTTCTTTTTTCTTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1016266 TCTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
1016285 CTTCAAGTAT
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:1016214 original size:8 final size:8
Alignment explanation
Indices: 1016201--1016287 Score: 110
Period size: 8 Copynumber: 11.1 Consensus size: 8
1016191 TTTGATTCAA
1016201 TTTTTTCT
1 TTTTTTCT
1016209 TTTTTTCT
1 TTTTTTCT
1016217 TTTTTT-T
1 TTTTTTCT
1016224 CTTTTTTCT
1 -TTTTTTCT
1016233 TTTTTTCTT
1 TTTTTTC-T
1016242 TTTTTTCT
1 TTTTTTCT
1016250 TTTTTT-T
1 TTTTTTCT
*
1016257 CTTTTT-T
1 TTTTTTCT
*
1016264 TTTCTT-T
1 TTTTTTCT
1016271 TTTTTTCT
1 TTTTTTCT
1016279 TTTTTTCT
1 TTTTTTCT
1016287 T
1 T
1016288 CAAGTATAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
7 18 0.25
8 44 0.62
9 9 0.13
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1016220 original size:9 final size:9
Alignment explanation
Indices: 1016201--1016284 Score: 122
Period size: 9 Copynumber: 9.6 Consensus size: 9
1016191 TTTGATTCAA
1016201 TTTTTTC-T
1 TTTTTTCTT
1016209 TTTTTTCTT
1 TTTTTTCTT
1016218 TTTTTTC--
1 TTTTTTCTT
1016225 TTTTTTC-T
1 TTTTTTCTT
1016233 TTTTTTCTT
1 TTTTTTCTT
1016242 TTTTTTCTT
1 TTTTTTCTT
1016251 TTTTTTCTTT
1 TTTTTTC-TT
1016261 TTTTTTCTTT
1 TTTTTTC-TT
1016271 TTTTTTCTT
1 TTTTTTCTT
1016280 TTTTT
1 TTTTT
1016285 CTTCAAGTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.10
8 14 0.19
9 32 0.44
10 19 0.26
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:1016228 original size:24 final size:24
Alignment explanation
Indices: 1016201--1016287 Score: 135
Period size: 24 Copynumber: 3.7 Consensus size: 24
1016191 TTTGATTCAA
1016201 TTTTTTCTTTTTTTCTTTTTTTTC
1 TTTTTTCTTTTTTTCTTTTTTTTC
1016225 TTTTTTCTTTTTTTCTTTTTTTTC
1 TTTTTTCTTTTTTTCTTTTTTTTC
*
1016249 TTTTTT-TTCTTTTT-TTTTCTTT-
1 TTTTTTCTT-TTTTTCTTTTTTTTC
1016271 TTTTTTCTTTTTTTCTT
1 TTTTTTCTTTTTTTCTT
1016288 CAAGTATAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
22 11 0.19
23 13 0.22
24 35 0.59
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (24 bp):
TTTTTTCTTTTTTTCTTTTTTTTC
Found at i:1019057 original size:20 final size:20
Alignment explanation
Indices: 1019029--1019067 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1019019 GCAAAGATGC
* *
1019029 AAATGCAAAAATGAAAATGT
1 AAATACAAAAATAAAAATGT
*
1019049 AAATACAAACATAAAAATG
1 AAATACAAAAATAAAAATG
1019068 CAAAAATGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (20 bp):
AAATACAAAAATAAAAATGT
Found at i:1021344 original size:33 final size:30
Alignment explanation
Indices: 1021304--1021367 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 30
1021294 AAATAAAAAC
1021304 AATAATAAAGAAGAATATATAAAATATTTTGAA
1 AATAAT-AAGAA-AATATATAAAA-ATTTTGAA
* *
1021337 AATAATAAGTATATATATAAAAATTTTGAA
1 AATAATAAGAAAATATATAAAAATTTTGAA
1021367 A
1 A
1021368 GGAAAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.31
31 10 0.34
32 4 0.14
33 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (30 bp):
AATAATAAGAAAATATATAAAAATTTTGAA
Found at i:1021381 original size:31 final size:31
Alignment explanation
Indices: 1021311--1021392 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
1021301 AACAATAATA
1021311 AAGAAG-A-ATATATAAAATATTTTGAAAAT
1 AAGAAGTATATATATAAAATATTTTGAAAAT
*
1021340 AATAAGTATATATATAAAA-ATTTTGAAAGGA-
1 AAGAAGTATATATATAAAATATTTTGAAA--AT
*
1021371 AAGAATTATATAT-TAAATATAT
1 AAGAAGTATATATATAAA-ATAT
1021393 GAATTTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
29 5 0.11
30 14 0.32
31 22 0.50
32 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (31 bp):
AAGAAGTATATATATAAAATATTTTGAAAAT
Found at i:1021872 original size:2 final size:2
Alignment explanation
Indices: 1021867--1021898 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1021857 AAATATATTG
1021867 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
1021899 CTCTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1022161 original size:35 final size:36
Alignment explanation
Indices: 1022118--1022208 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 36
1022108 CATTTATTAA
*
1022118 TATTAAAAAATAAATAAATATTA-AAATATGATTTAT
1 TATTAAAAAATAAATAAATATTATAAATAGGATTT-T
*
1022154 T-TT-AAAAATAATTTAAAT-TTATAAATAGGATTTT
1 TATTAAAAAATAA-ATAAATATTATAAATAGGATTTT
*
1022188 TATAAAAAAAATAAATAAATA
1 TAT-TAAAAAATAAATAAATA
1022209 AATATTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
34 13 0.29
35 18 0.40
36 6 0.13
37 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (36 bp):
TATTAAAAAATAAATAAATATTATAAATAGGATTTT
Found at i:1022297 original size:21 final size:22
Alignment explanation
Indices: 1022255--1022307 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 22
1022245 TAATAATAAT
1022255 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
1022277 AACATATAA-AATTAAACTATAAATA
1 AACA-ATAATAATTAAA-TAT--ATA
1022302 AACAAT
1 AACAAT
1022308 GATTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 11 0.41
23 7 0.26
24 2 0.07
25 7 0.26
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:1023564 original size:3 final size:3
Alignment explanation
Indices: 1023556--1023615 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
1023546 CTATAATATG
* * * *
1023556 TAA TAA TAA TATT TAT TAA TAA TAA TAA TAA TAA AAA T-A TTA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1023601 TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA
1023616 AACGGGCCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1023564 original size:13 final size:13
Alignment explanation
Indices: 1023548--1023608 Score: 61
Period size: 14 Copynumber: 4.5 Consensus size: 13
1023538 TTTTGGGCCT
*
1023548 ATAATATGTAATA
1 ATAATATATAATA
1023561 ATAATATTTATTAATA
1 ATAATA--TA-TAATA
1023577 ATAATA-ATAATA
1 ATAATATATAATA
*
1023589 AAAATATTATAATA
1 ATAATA-TATAATA
1023603 ATAATA
1 ATAATA
1023609 AAAATAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 10 0.25
13 7 0.17
14 11 0.28
15 1 0.03
16 11 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
ATAATATATAATA
Found at i:1023578 original size:26 final size:28
Alignment explanation
Indices: 1023548--1023617 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
1023538 TTTTGGGCCT
* * *
1023548 ATAATAT-GTAATAATAATATT-TATTA
1 ATAATATAATAATAAAAATATTATAATA
1023574 ATAATAATAATAATAAAAATATTATAATA
1 ATAAT-ATAATAATAAAAATATTATAATA
1023603 ATAATA-AA-AATAAAA
1 ATAATATAATAATAAAA
1023618 CGGGCCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 12 0.32
27 4 0.11
28 13 0.34
29 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
ATAATATAATAATAAAAATATTATAATA
Found at i:1023602 original size:20 final size:20
Alignment explanation
Indices: 1023577--1023614 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1023567 TTTATTAATA
1023577 ATAATAATAATAAAAATATT
1 ATAATAATAATAAAAATATT
1023597 ATAATAATAATAAAAATA
1 ATAATAATAATAAAAATA
1023615 AAACGGGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATAATAATAAAAATATT
Found at i:1025005 original size:2 final size:2
Alignment explanation
Indices: 1025000--1025026 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1024990 CTAAAAAATA
1025000 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1025027 AATTAATGAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1026615 original size:27 final size:27
Alignment explanation
Indices: 1026585--1026638 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1026575 TTGTGCACGT
1026585 ACTTAAAATATTAAAAGTTGAAGAATA
1 ACTTAAAATATTAAAAGTTGAAGAATA
*
1026612 ACTTAAAATATTAAAAGTTGCAGAATA
1 ACTTAAAATATTAAAAGTTGAAGAATA
1026639 GAATTCGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.30
Consensus pattern (27 bp):
ACTTAAAATATTAAAAGTTGAAGAATA
Found at i:1044054 original size:19 final size:20
Alignment explanation
Indices: 1044027--1044067 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
1044017 ATAAATTTTT
*
1044027 TTAATAGAAAAA-CTTAAAA
1 TTAAAAGAAAAATCTTAAAA
1044046 TTAAAAGAAAAATCTTAAAA
1 TTAAAAGAAAAATCTTAAAA
1044066 TT
1 TT
1044068 TCCTTAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
TTAAAAGAAAAATCTTAAAA
Found at i:1045134 original size:605 final size:603
Alignment explanation
Indices: 1043945--1045159 Score: 2261
Period size: 605 Copynumber: 2.0 Consensus size: 603
1043935 TAATGTTACA
*
1043945 AACATTACCACTTTATGTGCTTCGATTGTAACGGTCGTTAAAAGTCTGTTAAATAATATATGTCG
1 AACATTACCACTTTATGTGCTTCGATTGTAACGGTCGTTAAAAGTCCGTTAAATAATATATGTCG
*
1044010 CATTTATATAAATTTTTTTAATAGAAAAACTTAAAATTAAAAGAAAAATCTTAAAATTTCCTTAA
66 CATTTATATAAATTTTTTTAATAAAAAAACTTAAAATTAAAAGAAAAATCTTAAAATTTCCTTAA
* *
1044075 ATCTTAAAAAAGTCCAAAAATTTTGAAAATTTTTATTTAAATCTCTGTACTCACGTCGATCGTAA
131 ATCTTAAAAAAGTCCAAAAACTTTGAAAATTCTTATTTAAATCTCTGTACTCACGTCGATCGTAA
* *
1044140 TCCTTTTCTGTTGATCGAACTACCCGATGAGCATCCACCAACGAACCCACCAGTGACCGGTCGTA
196 CCCTTTTCCGTTGATCGAACTACCCGATGAGCATCCACCAACGAACCCACCAGTGACCGGTCGTA
1044205 GCCCTAATCCCCTAAAATTTTAAACTTAAATCCCTGAAATCACAAATATTCAAATTCCTAAAATT
261 GCCCTAATCCCCTAAAATTTTAAACTTAAATCCCTGAAATCACAAATATTCAAATTCCTAAAATT
1044270 TTCTTAAATCCCTATGGCTGACCGTTTTGGAAGTGACAATCGACCAGATGTTTAGACAATGGTAG
326 TTCTTAAATCCCTATGGCTGACCGTTTTGGAAGTGACAATCGACCAGATGTTTAGACAATGGTAG
*
1044335 CTGGGTCGGCCGTTTGGACAGTGACAATCGGCCGACTGTTTGATCTTCTTCAAGTAAATGATGGT
391 CTGGGTCGGCCGTTTGGACAGTGACAATCGGCCGACTGTTTGATCTTCTTCAAGTAAATGATGGC
*
1044400 TGGTGTTGTGTGAGGCGAGAGAAGCAGGATGTGGGTGGGACTCAATGAATTTTTAAAAATTTCAA
456 TGGTGTTGTGTGAGGCGAGAGAAGCAGGATGTGGGTGGGACCCAATGAATTTTTAAAAATTTCAA
* *
1044465 AATTATATAAATGTAACACCTGTCGGTTAACATAATTTTTTATTGACCGTTACGATTGGGCCACT
521 AATTATATAAATGTAACACATGTCGGTTAACAAAATTTTTTATTGACCGTTACGATTGGGCCACT
1044530 TAAAATGATAATATTTAT
586 TAAAATGATAATATTTAT
1044548 AACATTACCACTTTATGTGCTTCGATTGTAACGGTCGTTAAAAAAGTCCGTTAAATAATATATGT
1 AACATTACCACTTTATGTGCTTCGATTGTAACGGTCGTT--AAAAGTCCGTTAAATAATATATGT
1044613 CGCATTTATAT-AATTTTTTTAAATAAAAAAACTTAAAATTAAAAGAAAAATCTTAAAATTTCCT
64 CGCATTTATATAAATTTTTTT-AATAAAAAAACTTAAAATTAAAAGAAAAATCTTAAAATTTCCT
1044677 TAAATCTTAAAAAAGTCCAAAAACTTTGAAAATTCTTATTTAAATCTCTGTACTCACGTCGATCG
128 TAAATCTTAAAAAAGTCCAAAAACTTTGAAAATTCTTATTTAAATCTCTGTACTCACGTCGATCG
*
1044742 TAACCCTTTTCCGTTGATCGAACTACCCGATGAGCATCCACCAACGGACCCACCAGTGACCGGTC
193 TAACCCTTTTCCGTTGATCGAACTACCCGATGAGCATCCACCAACGAACCCACCAGTGACCGGTC
1044807 GTAGCCCTAATCCCCTAAAATTTTAAACTTAAATCCCTGAAATCACAAATATTCAAATTCCTAAA
258 GTAGCCCTAATCCCCTAAAATTTTAAACTTAAATCCCTGAAATCACAAATATTCAAATTCCTAAA
* *
1044872 ATTTTCTTAAATCCCTCTGGCTTACCGTTTTGGAAGTGACAATCGACCAGATGTTTAGACAATGG
323 ATTTTCTTAAATCCCTATGGCTGACCGTTTTGGAAGTGACAATCGACCAGATGTTTAGACAATGG
*
1044937 TAGTTGGGTCGGCCGTTTGGACAGTGACAATCGGCCGACTGTTTGATCTTCTTCAAGTAAATGAT
388 TAGCTGGGTCGGCCGTTTGGACAGTGACAATCGGCCGACTGTTTGATCTTCTTCAAGTAAATGAT
*
1045002 GGCTGGTGTTGTGTGAGGGGAGAGAAGCAGGATGTGGGTGGGACCCAATGAATTTTTAAAAATTT
453 GGCTGGTGTTGTGTGAGGCGAGAGAAGCAGGATGTGGGTGGGACCCAATGAATTTTTAAAAATTT
1045067 CAAAATTATATAAATGTAACACATGTCGGTTAACAAAATTTTTTATTGACCGTTACGATTGGGCC
518 CAAAATTATATAAATGTAACACATGTCGGTTAACAAAATTTTTTATTGACCGTTACGATTGGGCC
1045132 ACTTAAAATGATAATATTTAT
583 ACTTAAAATGATAATATTTAT
1045153 AACATTA
1 AACATTA
1045160 AGTATTTGAA
Statistics
Matches: 594, Mismatches: 15, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
603 39 0.07
604 9 0.02
605 546 0.92
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (603 bp):
AACATTACCACTTTATGTGCTTCGATTGTAACGGTCGTTAAAAGTCCGTTAAATAATATATGTCG
CATTTATATAAATTTTTTTAATAAAAAAACTTAAAATTAAAAGAAAAATCTTAAAATTTCCTTAA
ATCTTAAAAAAGTCCAAAAACTTTGAAAATTCTTATTTAAATCTCTGTACTCACGTCGATCGTAA
CCCTTTTCCGTTGATCGAACTACCCGATGAGCATCCACCAACGAACCCACCAGTGACCGGTCGTA
GCCCTAATCCCCTAAAATTTTAAACTTAAATCCCTGAAATCACAAATATTCAAATTCCTAAAATT
TTCTTAAATCCCTATGGCTGACCGTTTTGGAAGTGACAATCGACCAGATGTTTAGACAATGGTAG
CTGGGTCGGCCGTTTGGACAGTGACAATCGGCCGACTGTTTGATCTTCTTCAAGTAAATGATGGC
TGGTGTTGTGTGAGGCGAGAGAAGCAGGATGTGGGTGGGACCCAATGAATTTTTAAAAATTTCAA
AATTATATAAATGTAACACATGTCGGTTAACAAAATTTTTTATTGACCGTTACGATTGGGCCACT
TAAAATGATAATATTTAT
Found at i:1047045 original size:19 final size:20
Alignment explanation
Indices: 1047017--1047079 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 20
1047007 TGTCATAGCA
*
1047017 TTATTATTTTACTTGTTTAT
1 TTATTATTTTACTTATTTAT
*
1047037 TTATT-TTTTATTTATTTATT
1 TTATTATTTTACTTATTTA-T
*
1047057 TTAAATAGTTTTACTT-TTTAT
1 TT-ATTA-TTTTACTTATTTAT
1047078 TT
1 TT
1047080 TCCTTATCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 11 0.31
20 8 0.23
21 5 0.14
22 4 0.11
23 7 0.20
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTATTATTTTACTTATTTAT
Found at i:1055598 original size:76 final size:74
Alignment explanation
Indices: 1055506--1055748 Score: 310
Period size: 76 Copynumber: 3.2 Consensus size: 74
1055496 TTGTAGTACG
* *
1055506 TATATAATATATAGTTTTTTAAAACATTTTTTGAAAATATATATATTAAATAGTTTTTGAAAACA
1 TATATAATATATAGTTTTTTAAAACA--TTTTGAAAATATATATATTATATAGTTTTTAAAAACA
1055571 TTTTTAAAATA
64 TTTTTAAAATA
* * *
1055582 TATATAATATACAG-TTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAAATC
1 TATATAATATATAGTTTTTTAAAACATTTTG-AAA-ATATATATATTATATAGTTTTTAAAAA-C
* *
1055646 ATTTTGAAAGTA
63 ATTTTTAAAATA
* * *
1055658 TATATAATATATAGTTTTTTAAAACATTTTGAAAATTATATATAATATATAG-TTTAAAAAATAT
1 TATATAATATATAGTTTTTTAAAACATTTTGAAAA-TATATATATTATATAGTTTTTAAAAACAT
*
1055722 TTTTGAAATA
65 TTTTAAAATA
*
1055732 TATATATTATATAGTTT
1 TATATAATATATAGTTT
1055749 ATATCATATT
Statistics
Matches: 145, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
73 5 0.03
74 28 0.19
75 43 0.30
76 54 0.37
77 15 0.10
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (74 bp):
TATATAATATATAGTTTTTTAAAACATTTTGAAAATATATATATTATATAGTTTTTAAAAACATT
TTTAAAATA
Found at i:1055749 original size:36 final size:37
Alignment explanation
Indices: 1055506--1055748 Score: 276
Period size: 38 Copynumber: 6.5 Consensus size: 37
1055496 TTGTAGTACG
*
1055506 TATATAATATATAGTTTTTTAAAACATTTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAACA--TTTTGAAAATA
* * * *
1055545 TATATATTAAATAGTTTTTGAAAACATTTTTAAAATA
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAATA
* * *
1055582 TATATAATATACAG-TTTTGAAAACATTTTGAAAACATT
1 TATATAATATATAGTTTTTAAAAACATTTTG-AAA-ATA
* *
1055620 TATATATTATATAGTTTTTAAAAATCATTTTGAAAGTA
1 TATATAATATATAGTTTTTAAAAA-CATTTTGAAAATA
*
1055658 TATATAATATATAGTTTTTTAAAACATTTTGAAAATTA
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAA-TA
* *
1055696 TATATAATATATAG-TTTAAAAAATATTTTTG-AAATA
1 TATATAATATATAGTTTTTAAAAACA-TTTTGAAAATA
*
1055732 TATATATTATATAGTTT
1 TATATAATATATAGTTT
1055749 ATATCATATT
Statistics
Matches: 176, Mismatches: 21, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
36 30 0.17
37 47 0.27
38 58 0.33
39 34 0.19
40 7 0.04
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAAACATTTTGAAAATA
Found at i:1055769 original size:5 final size:5
Alignment explanation
Indices: 1055761--1055790 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1055751 ATCATATTAA
*
1055761 TTATT TTATT TTATT TTATT TCATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
1055791 AATTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:1055778 original size:29 final size:28
Alignment explanation
Indices: 1055743--1055816 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
1055733 ATATATTATA
* *
1055743 TAGTTTATATCATATTAATTATTTTATTT
1 TAGTTTATATCAT-TTAATTAATTTAATT
* * *
1055772 TATTTTATTTCATTTTATTAATTTAATT
1 TAGTTTATATCATTTAATTAATTTAATT
*
1055800 TAGTTTAATTTCATTTA
1 TAGTTT-ATATCATTTA
1055817 TTTTGTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 17 0.46
29 20 0.54
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.64
Consensus pattern (28 bp):
TAGTTTATATCATTTAATTAATTTAATT
Found at i:1055781 original size:15 final size:15
Alignment explanation
Indices: 1055761--1055820 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
1055751 ATCATATTAA
*
1055761 TTATTTTATTTTATT
1 TTATTTCATTTTATT
1055776 TTATTTCATTTTA-T
1 TTATTTCATTTTATT
* *
1055790 TAATTT-AATTTAGTT
1 TTATTTCATTTTA-TT
*
1055805 TAATTTCA-TTTATT
1 TTATTTCATTTTATT
1055819 TT
1 TT
1055821 GTTTTATGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.13
14 9 0.24
15 23 0.61
16 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (15 bp):
TTATTTCATTTTATT
Found at i:1056968 original size:8 final size:8
Alignment explanation
Indices: 1056957--1056986 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1056947 TTAATATCTC
1056957 TATTTTGT
1 TATTTTGT
1056965 TATTTTGT
1 TATTTTGT
*
1056973 TATTTTTT
1 TATTTTGT
1056981 TATTTT
1 TATTTT
1056987 CTTTTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (8 bp):
TATTTTGT
Found at i:1058492 original size:3 final size:3
Alignment explanation
Indices: 1058484--1058514 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1058474 ACCATTGTTG
*
1058484 ACA ACA ACA ACA ACA ACA ACA AAA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1058515 AACCCTATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:1061757 original size:95 final size:95
Alignment explanation
Indices: 1061581--1061843 Score: 321
Period size: 95 Copynumber: 2.7 Consensus size: 95
1061571 ATATTATAAT
* * * * *
1061581 ATTATATATATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCCCGACTTTA
1 ATTATA-ATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTA
* *
1061646 TGGATAAGATTTAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTCAGCTAACCTGATAAAGGTG
* * *
1061677 ATTATAATATACAATAAAACTTGAGTTGTCCCTCTTGAGCAATTGGTTAAACGCCTTGGCTTTAT
1 ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTAT
*
1061742 GGATAATATTCAGCTAACCTGATAAAGGTG
66 GGATAAGATTCAGCTAACCTGATAAAGGTG
* * * * * *
1061772 AATATAATAT-CTATACAATGATATTAAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCTGACT
1 ATTATAATATACAATA-AA--A-CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGACT
1061836 TTATGGAT
62 TTATGGAT
1061844 TTAGCTAGCC
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
94 4 0.03
95 89 0.62
96 6 0.04
97 1 0.01
98 43 0.30
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTAT
GGATAAGATTCAGCTAACCTGATAAAGGTG
Found at i:1063176 original size:84 final size:82
Alignment explanation
Indices: 1062942--1063978 Score: 937
Period size: 84 Copynumber: 12.5 Consensus size: 82
1062932 CAATTTTTTT
*
1062942 ATTTGCAGCATAACTCAATGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
1063007 CTCAGCTCCAAGGCACATC
64 CTCAGCTCCAAGGCACATC
* * * * * * *
1063026 ATTTGCAGCATAACTTAAGTCGATAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
1063088 TCAGCTTCGAGGGCACATC
65 TCAGC-TCCAAGGCACATC
** * *
1063107 ATTTATAGTATAACTCAATGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACAC
1 ATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
1063172 TCAGCTCCAAGGCACATC
65 TCAGCTCCAAGGCACATC
* * * ** * * *
1063190 ATTTGCAGCATAACTTAAGTCAATAAGGGTTATCTACCAATCAAAGACCTTCGAGTTTGACTATG
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
*
1063255 CTCAGCTCCAAGACACATC
64 CTCAGCTCCAAGGCACATC
* * * * * * * * *
1063274 ATTTACAACATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCCTCGAGTTAGATTACAC
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* ** * *
1063336 TCAACTTTGAGGGCATATC
65 TCAGC-TCCAAGGCACATC
** * * * *
1063355 ATTTATAGCATAACTCAAGGTTAGAAGGGTTATCTGTCACCAAATACCTTTGAGTTTGACTACGC
1 ATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
1063420 TCAGCTCTAAGGCACATA
65 TCAGCTCCAAGGCACATC
* * * * **
1063438 ATTTGCAGCATAGCTCAAGTCTAGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTTGACTATA
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACG
*
1063503 CTCAGCTCCAAGGCATATC
64 CTCAGCTCCAAGGCACATC
* * * * ** * *
1063522 ATTTGCAACATAACTTAAGTTGAGAAGAGTTATCTACCAATCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTCAAGCT-AGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
*
1063587 CTCAGCTCTAAGGCACATC
64 CTCAGCTCCAAGGCACATC
* * * * * * * *
1063606 ATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG---CCAAAGACCCTCAAGTTCGATTACAC
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* * *
1063668 TCAGCTTCGAGGGCGCATC
65 TCAGC-TCCAAGGCACATC
* * * *
1063687 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
1063752 TCAGCTCCAAGGCACATC
65 TCAGCTCCAAGGCACATC
*
1063770 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT-TTTCCACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGT-CACC-AAAGACCTTCGAGTTCGACTAC
*
1063834 GCTTAGCTCCAAGGCACATC
63 GCTCAGCTCCAAGGCACATC
* * * * * * *
1063854 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCT-TCCAACCAAAGACCTTCAAGTTCGATTAC
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTAC
* *
1063918 GCTAAGCT-CAGAGGCAAATC
63 GCTCAGCTCCA-AGGCACATC
* * *
1063938 AAATTTACAGCATAACTCAAGGCAAGAAGGGCTATCTGTCA
1 --ATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTCA
1063979 ATAAAATTGT
Statistics
Matches: 776, Mismatches: 144, Indels: 65
0.79 0.15 0.07
Matches are distributed among these distances:
80 77 0.10
81 111 0.14
82 7 0.01
83 130 0.17
84 413 0.53
85 7 0.01
86 29 0.04
87 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (82 bp):
ATTTGCAGCATAACTCAAGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATC
Found at i:1063382 original size:248 final size:246
Alignment explanation
Indices: 1062942--1063974 Score: 1038
Period size: 248 Copynumber: 4.1 Consensus size: 246
1062932 CAATTTTTTT
*
1062942 ATTTGCAGCATAACTCAA-TGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTCAAGT-CTAGAAGGGTTATCTACC-ACCAAAGACCTTCGAGTTCGACTAC
* * *
1063006 GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGATAAGGGCTATCTGCCAAAGACC
64 GCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACC
* * * *
1063071 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTATAGTATAACTCAATGCTAGAAGGG
129 CTCGAGTTAGATTACACTCAGCTTTGAGGGCACATCATTTATAGCATAACTCAA-GTTAGAAGGG
1063136 TTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
193 TTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * * * *
1063190 ATTTGCAGCATAACTTAAGTCAATAAGGGTTATCTACCAATCAAAGACCTTCGAGTTTGACTATG
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTACC-ACCAAAGACCTTCGAGTTCGACTACG
* * *
1063255 CTCAGCTCCAAGACACATCATTTACAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
65 CTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* *
1063320 TCGAGTTAGATTACACTCAACTTTGAGGGCATATCATTTATAGCATAACTCAAGGTTAGAAGGGT
130 TCGAGTTAGATTACACTCAGCTTTGAGGGCACATCATTTATAGCATAACTCAA-GTTAGAAGGGT
* * * * * *
1063385 TATCTGTCACCAAATACCTTTGAGTTTGACTACGCTCAGCTCTAAGGCACATA
194 TATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * * **
1063438 ATTTGCAGCATAGCTCAAGTCTAGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTTGACTATA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTACCACC-AAAGACCTTCGAGTTCGACTACG
* * * *
1063503 CTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTTGAGAAGAGTTATCTACCAATCAAAG
65 CTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCT-GC---CAAAG
* * * * * * ** * * *
1063568 ACCTTCGAGTTTGACTACGCTCAGCTCT-AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
126 ACCCTCGAGTTAGATTACACTCAGCTTTGAGGGCACATCATTTATAGCATAACTCAAGT-TAGAA
* * * * * * *
1063632 GGGATATCTG---CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCGCATC
190 GGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATC
* * * * *
1063687 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACGC
* * * * **
1063752 TCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTTCCACCAAAAGA
66 TCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTA---TCTGCC-AAAGA
* * * * * ** * * * * *
1063817 CCTTCGAGTTCGACTACGCTTAGC-TCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAG
127 CCCTCGAGTTAGATTACACTCAGCTTTGAGGGCACATCATTTATAGCATAACTCAAGT-TAGAAG
* * * * * *
1063881 GGCTATCT-TCCAACCAAAGACCTTCAAGTTCGATTACGCTAAGCT-CAGAGGCAAATC
191 GGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCA-AGGCACATC
* * * *
1063938 AAATTTACAGCATAACTCAAGGCAAGAAGGGCTATCT
1 --ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCT
1063975 GTCAATAAAA
Statistics
Matches: 662, Mismatches: 102, Indels: 37
0.83 0.13 0.05
Matches are distributed among these distances:
247 3 0.00
248 479 0.72
249 45 0.07
250 4 0.01
251 44 0.07
252 55 0.08
253 32 0.05
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (246 bp):
ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCT
CGAGTTAGATTACACTCAGCTTTGAGGGCACATCATTTATAGCATAACTCAAGTTAGAAGGGTTA
TCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
Found at i:1063570 original size:332 final size:332
Alignment explanation
Indices: 1063062--1063926 Score: 1210
Period size: 332 Copynumber: 2.6 Consensus size: 332
1063052 GGGCTATCTG
* * * * * * * ** * *
1063062 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTATAGTATAACTCAATG
1 CCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATAATTTGCAGCATAACTCAAGG
*
1063127 CTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCA
65 CTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCA
* * *
1063191 TTTGCAGCATAACTTAAGTCAATAAGGGTTATCTACCAATCAAAGACCTTCGAGTTTGACTATGC
130 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAATCAAAGACCTTCGAGTTTGACTACGC
*
1063256 TCAGCTCCAAGACACATCATTTACAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCT
195 TCAGCTCCAAGACACATCATTTACAACATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCT
* * * * * *
1063321 CGAGTTAGATTACACTCAACTTTGAGGGCATATCATTTATAGCATAACTCAAGGTTAGAAGGGTT
260 CAAGTTAGATTACACTCAACTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
*
1063386 ATCTGTCA
325 ATCTATCA
* * * * *
1063394 CCAAATACCTTTGAGTTTGACTACGCTCAGCTCTAAGGCACATAATTTGCAGCATAGCTCAAGTC
1 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTGCAGCATAACTCAAGGC
* * * *
1063459 TAGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTTGACTATACTCAGCTCCAAGGCATATCAT
66 TAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
* * *
1063524 TTGCAACATAACTTAAGTTGAGAAGAGTTATCTACCAATCAAAGACCTTCGAGTTTGACTACGCT
131 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAATCAAAGACCTTCGAGTTTGACTACGCT
* * * *
1063589 CAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTC
196 CAGCTCCAAGACACATCATTTACAACATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTC
* * *
1063654 AAGTTCGATTACACTCAGCTTCGAGGGCGCATCATTTACAACATAACTCAAGGCTAGAAGGGTTA
261 AAGTTAGATTACACTCAACTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTA
1063719 TCTATCA
326 TCTATCA
*
1063726 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGC
1 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTGCAGCATAACTCAAGGC
* * * *
1063791 TAGAAGGGTTATTTTCCACCAAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCAT
66 TAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
* * * * * * * *
1063856 TTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCAAGTTCGATTACGCT
131 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAATCAAAGACCTTCGAGTTTGACTACGCT
*
1063921 AAGCTC
196 CAGCTC
1063927 AGAGGCAAAT
Statistics
Matches: 465, Mismatches: 67, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
331 43 0.09
332 422 0.91
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (332 bp):
CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTGCAGCATAACTCAAGGC
TAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAATCAAAGACCTTCGAGTTTGACTACGCT
CAGCTCCAAGACACATCATTTACAACATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTC
AAGTTAGATTACACTCAACTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTA
TCTATCA
Found at i:1064626 original size:36 final size:36
Alignment explanation
Indices: 1064565--1064760 Score: 153
Period size: 38 Copynumber: 5.6 Consensus size: 36
1064555 TGAAAATACG
* * *
1064565 TATATATTATATA-ATTTTTGAAAACATTTTTAAAA
1 TATATATAATATATAGTTTTAAAAACATTTTTAAAA
* *
1064600 TACATATAATATATAGTTTTGAAAACA---TT----
1 TATATATAATATATAGTTTTAAAAACATTTTTAAAA
* *
1064629 TATATAT--TATATAGTTTTTAAAAATCATTTTGAAAG
1 TATATATAATATATAG-TTTTAAAAA-CATTTTTAAAA
* *
1064665 TATATATAATATATAGTTTTTTAAAACATTTTGAAAA
1 TATATATAATATATAG-TTTTAAAAACATTTTTAAAA
* *
1064702 CTATATATAATATATAGTTTAAAAAATATTTTTGAAATA
1 -TATATATAATATATAGTTTTAAAAACATTTTT-AAA-A
*
1064741 TATATATATTATATA-TTTTA
1 TATATATAATATATAGTTTTA
1064761 TATCATATTA
Statistics
Matches: 132, Mismatches: 14, Indels: 28
0.76 0.08 0.16
Matches are distributed among these distances:
27 7 0.05
28 8 0.06
29 8 0.06
32 1 0.01
33 2 0.02
35 11 0.08
36 19 0.14
37 26 0.20
38 49 0.37
39 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATATAATATATAGTTTTAAAAACATTTTTAAAA
Found at i:1064642 original size:103 final size:104
Alignment explanation
Indices: 1064524--1064721 Score: 242
Period size: 102 Copynumber: 1.9 Consensus size: 104
1064514 TATATATATA
** ** *
1064524 TATATATATATTATAG-TTTGCAAATGGTTTTTGAAAATACGTATATATTATATAATTTTTGAAA
1 TATATATATATTATAGTTTTAAAAAT-CATTTTGAAAATA--TATATAATATATAATTTTTGAAA
*
1064588 ACATTTTTAAAA-TACATATAATATATAGTTTTGAAAACATT
63 ACATTTTGAAAACTACATATAATATATAGTTTTGAAAACATT
* * *
1064629 TATATAT-TA-TATAGTTTTTAAAAATCATTTTGAAAGTATATATAATATATAGTTTTTTAAAAC
1 TATATATATATTATAG-TTTTAAAAATCATTTTGAAAATATATATAATATATAATTTTTGAAAAC
*
1064692 ATTTTGAAAACTATATATAATATATAGTTT
65 ATTTTGAAAACTACATATAATATATAGTTT
1064722 AAAAAATATT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
102 31 0.39
103 23 0.29
104 12 0.15
105 14 0.17
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (104 bp):
TATATATATATTATAGTTTTAAAAATCATTTTGAAAATATATATAATATATAATTTTTGAAAACA
TTTTGAAAACTACATATAATATATAGTTTTGAAAACATT
Found at i:1064657 original size:29 final size:27
Alignment explanation
Indices: 1064603--1064658 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
1064593 TTTAAAATAC
*
1064603 ATATAATATATAGTTTTGAAAACATTT
1 ATATAATATATAGTTTTAAAAACATTT
*
1064630 ATATATTATATAGTTTTTAAAAATCATTT
1 ATATAATATATAG-TTTTAAAAA-CATTT
1064659 TGAAAGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.48
28 8 0.32
29 5 0.20
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (27 bp):
ATATAATATATAGTTTTAAAAACATTT
Found at i:1064678 original size:65 final size:65
Alignment explanation
Indices: 1064550--1064695 Score: 195
Period size: 64 Copynumber: 2.2 Consensus size: 65
1064540 TTTGCAAATG
* ** * *
1064550 GTTTTTGAAAATACGTATATATTATATAATTTTTGAAAACATTTTTAAAATACATATAATATATA
1 GTTTTTGAAAACATTTATATATTATATAATTTTTAAAAACATTTTGAAAATACATATAATATATA
* * *
1064615 G-TTTTGAAAACATTTATATATTATATAGTTTTTAAAAATCATTTTGAAAGTATATATAATATAT
1 GTTTTTGAAAACATTTATATATTATATAATTTTTAAAAA-CATTTTGAAAATACATATAATATAT
1064679 A
65 A
*
1064680 GTTTTTTAAAACATTT
1 GTTTTTGAAAACATTT
1064696 TGAAAACTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 32 0.46
65 25 0.36
66 13 0.19
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (65 bp):
GTTTTTGAAAACATTTATATATTATATAATTTTTAAAAACATTTTGAAAATACATATAATATATA
Found at i:1064716 original size:76 final size:76
Alignment explanation
Indices: 1064616--1064759 Score: 197
Period size: 75 Copynumber: 1.9 Consensus size: 76
1064606 TAATATATAG
* * *
1064616 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAATCA-TTTTGAAAGTATATATA-A-TATA
1 TTTTGAAAACATATATATAATATATAG-TTTAAAAAAT-ATTTTTGAAA-TATATATATATTATA
1064678 TAGTTTTTTAAAACA
63 TA-TTTTTTAAAACA
1064693 TTTTGAAAAC-TATATATAATATATAGTTTAAAAAATATTTTTGAAATATATATATATTATATAT
1 TTTTGAAAACATATATATAATATATAGTTTAAAAAATATTTTTGAAATATATATATATTATATAT
1064757 TTT
66 TTT
1064760 ATATCATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
74 9 0.15
75 22 0.36
76 20 0.33
77 10 0.16
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (76 bp):
TTTTGAAAACATATATATAATATATAGTTTAAAAAATATTTTTGAAATATATATATATTATATAT
TTTTTAAAACA
Found at i:1064787 original size:10 final size:10
Alignment explanation
Indices: 1064755--1064820 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
1064745 TATATTATAT
*
1064755 ATTTTATATC
1 ATTTTATTTC
*
1064765 ATATTATTT-
1 ATTTTATTTC
1064774 ATTTTATTTC
1 ATTTTATTTC
*
1064784 ATTTTA-TTA
1 ATTTTATTTC
*
1064793 ATTTAATTT-
1 ATTTTATTTC
*
1064802 AGTTTAATTTC
1 A-TTTTATTTC
1064813 A-TTTATTT
1 ATTTTATTT
1064821 TGTTTTGTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 22 0.48
10 23 0.50
11 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:1064789 original size:15 final size:14
Alignment explanation
Indices: 1064770--1064820 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
1064760 ATATCATATT
*
1064770 ATTTATTTTATTTC
1 ATTTATTTAATTTC
*
1064784 ATTT-TATTAATTTA
1 ATTTAT-TTAATTTC
1064798 ATTTAGTTTAATTTC
1 ATTTA-TTTAATTTC
1064813 ATTTATTT
1 ATTTATTT
1064821 TGTTTTGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.03
14 17 0.55
15 12 0.39
16 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (14 bp):
ATTTATTTAATTTC
Found at i:1064791 original size:19 final size:19
Alignment explanation
Indices: 1064746--1064801 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1064736 AAATATATAT
* *
1064746 ATATTATATATTTTATATC
1 ATATTATTTATTTTATTTC
1064765 ATATTATTTATTTTATTTC
1 ATATTATTTATTTTATTTC
* * *
1064784 ATTTTATTAATTTAATTT
1 ATATTATTTATTTTATTT
1064802 AGTTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTATTTATTTTATTTC
Found at i:1067258 original size:46 final size:46
Alignment explanation
Indices: 1067167--1067383 Score: 359
Period size: 46 Copynumber: 4.8 Consensus size: 46
1067157 ATAAACTGGC
* * * *
1067167 AAATAAACTTACGAGATTAT-GGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
1067211 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
1067257 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
*
1067303 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
*
1067349 AAATAAGCTTACGAGCTTATGAGA-TAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAG
1067384 AGAATTTATC
Statistics
Matches: 164, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
44 18 0.11
45 15 0.09
46 131 0.80
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATTGGTA
Found at i:1069075 original size:31 final size:31
Alignment explanation
Indices: 1069037--1069116 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
1069027 ATTGATTTTG
1069037 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
1069068 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
** * *
1069099 TTAAATTTTCTCCCCCTT
1 AAAAACTTACTCCCCCTT
1069117 TTGTTAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.35, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAACTTACTCCCCCTTACTATAGCACATC
Found at i:1072316 original size:31 final size:31
Alignment explanation
Indices: 1072278--1072357 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
1072268 ATTGATTTTG
1072278 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
1072309 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
** * *
1072340 TTAAATTTTCTCCCCCTT
1 AAAAACTTACTCCCCCTT
1072358 TTTGTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.35, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAACTTACTCCCCCTTACTATAGCACATC
Found at i:1077944 original size:22 final size:21
Alignment explanation
Indices: 1077918--1077964 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
1077908 AAGGTCAAAA
*
1077918 ATCAAATTGTTTGAAAATTG-AT
1 ATCAAATGGTTT-AAAA-TGAAT
1077940 ATC-AATGGTTTAAAATGAAT
1 ATCAAATGGTTTAAAATGAAT
1077960 ATCAA
1 ATCAA
1077965 TTACGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 8 0.36
22 3 0.14
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (21 bp):
ATCAAATGGTTTAAAATGAAT
Found at i:1080471 original size:31 final size:31
Alignment explanation
Indices: 1080433--1080512 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
1080423 ATTGATTTTG
1080433 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
1080464 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
** * *
1080495 TTAAATTTTCTCCCCCTT
1 AAAAACTTACTCCCCCTT
1080513 TTTGTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.35, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAACTTACTCCCCCTTACTATAGCACATC
Found at i:1085048 original size:23 final size:23
Alignment explanation
Indices: 1085000--1085053 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
1084990 ATTTCTATTT
*
1085000 TTTATTTATTTATTTTTTCCTAA
1 TTTATTTATTTATTTTTTCATAA
1085023 TTTATTTTATTTTATTTTTT-AT-A
1 TTTA-TTTA-TTTATTTTTTCATAA
1085046 TTT-TTTAT
1 TTTATTTAT
1085054 ACTATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 4 0.14
23 8 0.29
24 5 0.18
25 10 0.36
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTATTTATTTATTTTTTCATAA
Found at i:1092851 original size:18 final size:18
Alignment explanation
Indices: 1092828--1092900 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
1092818 ACTGAATATT
1092828 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1092846 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* **
1092865 TTGTTCCGAAAAACCACTA
1 -TGTCCCGAAGGACCACTA
1092884 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1092901 GATAATCCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 31 0.66
19 2 0.04
20 14 0.30
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1093562 original size:64 final size:64
Alignment explanation
Indices: 1093472--1093611 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 64
1093462 ATCTCATGAC
* * * *
1093472 GGGTTCATCGATGCACAATCGATGCATCGGTACA-TAAATCTCATTTGATGTTTGTATTTTAAAG
1 GGGTGCATCGATGCACAATCGATGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAAAG
* * * * *
1093536 GGGTGCATCGATGCACTACTTG-TGCATCTATACACTAATGACATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCAC-AATCGATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
*
1093600 GAGTGCATCGAT
1 GGGTGCATCGAT
1093612 ACACCTTATG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 60 0.94
65 4 0.06
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (64 bp):
GGGTGCATCGATGCACAATCGATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
Found at i:1093624 original size:64 final size:63
Alignment explanation
Indices: 1093513--1093634 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 63
1093503 ACATAAATCT
* * *
1093513 CATTTGATGTTTGTATTTTAAAGGGGTGCATCGATGCACTACTTGTGCATCT-ATACACTAATGA
1 CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACACTAC-TGTGCAT-TGATACACTAATGA
*
1093577 CATTCGATGTTTTTATTTTAAAGGAGTGCATCGATACACCTTA-TGTGCATTGATACAC
1 CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACA-C-TACTGTGCATTGATACAC
1093635 CTTGAACAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
63 1 0.02
64 47 0.92
65 1 0.02
66 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (63 bp):
CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATACACTACTGTGCATTGATACACTAATGA
Found at i:1101464 original size:23 final size:23
Alignment explanation
Indices: 1101395--1101464 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
1101385 CAATCTTATA
* *
1101395 TGGCACTACGGTGCAAATTCTACA
1 TGGCACTTCGGTGC-AATTCTACG
* *
1101419 CGGCACTTCGGTACAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
1101442 TGGCACTTCGGTGCAATTATACG
1 TGGCACTTCGGTGCAATTCTACG
1101465 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1101686 original size:3 final size:3
Alignment explanation
Indices: 1101678--1101702 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1101668 TGATATTTCC
1101678 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
1101703 ATTGCCTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1102716 original size:63 final size:64
Alignment explanation
Indices: 1102648--1102809 Score: 177
Period size: 63 Copynumber: 2.5 Consensus size: 64
1102638 ATCTCTTGAC
*
1102648 GGGTGCATCGATGCACAATC-TATGCATCGGTACA-TAAATCACATTCGATGTTTGTATTTT-AA
1 GGGTGCATCGATGCACAA-CATATGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAAA
1102710 G
64 G
* * * * * *
1102711 GGGTGCATCGATGCACTACATGTGTATTGATACACTAATGACATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCACAACATATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
* * ** *
1102775 GAGTGCATCGATACACCTCATGTGCATCGATACAC
1 GGGTGCATCGATGCACAACATATGCATCGATACAC
1102810 CTTGAACAAT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
62 1 0.01
63 49 0.59
64 33 0.40
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
GGGTGCATCGATGCACAACATATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
Found at i:1102807 original size:64 final size:64
Alignment explanation
Indices: 1102670--1102809 Score: 178
Period size: 64 Copynumber: 2.2 Consensus size: 64
1102660 GCACAATCTA
* * *
1102670 TGCATCGGTACA-TAAATCACATTCGATGTTTGTATTTTAAGGGGTGCATCGATGCACTACATG
1 TGCATCGATACACTAAATCACATTCGATGTTTGTATTTTAAGGAGTGCATCGATACACTACATG
* * * *
1102733 TGTATTGATACACT-AATGACATTCGATGTTTTTATTTTAAAGGAGTGCATCGATACACCT-CAT
1 TGCATCGATACACTAAATCACATTCGATGTTTGTATTTT-AAGGAGTGCATCGATACA-CTACAT
1102796 G
64 G
1102797 TGCATCGATACAC
1 TGCATCGATACAC
1102810 CTTGAACAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
63 31 0.48
64 32 0.49
65 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (64 bp):
TGCATCGATACACTAAATCACATTCGATGTTTGTATTTTAAGGAGTGCATCGATACACTACATG
Found at i:1104526 original size:26 final size:26
Alignment explanation
Indices: 1104497--1104589 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
1104487 AACCCTTGAT
* *
1104497 CACTCTCACTTTAAAAAAACCTAAAC
1 CACTTTCACCTTAAAAAAACCTAAAC
* * *
1104523 CACTTTCACCTTAAAGAACCCTATAC
1 CACTTTCACCTTAAAAAAACCTAAAC
* * *
1104549 CACTTTCACCTTAAAGAATCCTATAC
1 CACTTTCACCTTAAAAAAACCTAAAC
* *
1104575 CAATTTAACC-TAAAA
1 CACTTTCACCTTAAAA
1104590 TCACTCCAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
25 4 0.07
26 54 0.93
ACGTcount: A:0.41, C:0.30, G:0.02, T:0.27
Consensus pattern (26 bp):
CACTTTCACCTTAAAAAAACCTAAAC
Found at i:1107662 original size:16 final size:16
Alignment explanation
Indices: 1107641--1107726 Score: 154
Period size: 16 Copynumber: 5.4 Consensus size: 16
1107631 AAAGCGCGCC
1107641 AGAGGCGCAGAAGCGT
1 AGAGGCGCAGAAGCGT
1107657 AGAGGCGCAGAAGCGT
1 AGAGGCGCAGAAGCGT
1107673 AGAGGCGCAGAAGCGT
1 AGAGGCGCAGAAGCGT
*
1107689 AGAGGCGCAGAAGCGC
1 AGAGGCGCAGAAGCGT
*
1107705 AGAGGCGCAGAAGCGC
1 AGAGGCGCAGAAGCGT
1107721 AGAGGC
1 AGAGGC
1107727 TCACTGGACG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
16 69 1.00
ACGTcount: A:0.31, C:0.21, G:0.44, T:0.03
Consensus pattern (16 bp):
AGAGGCGCAGAAGCGT
Found at i:1107706 original size:8 final size:8
Alignment explanation
Indices: 1107640--1107723 Score: 96
Period size: 8 Copynumber: 10.5 Consensus size: 8
1107630 AAAAGCGCGC
*
1107640 CAGAGGCG
1 CAGAAGCG
1107648 CAGAAGCG
1 CAGAAGCG
* *
1107656 TAGAGGCG
1 CAGAAGCG
1107664 CAGAAGCG
1 CAGAAGCG
* *
1107672 TAGAGGCG
1 CAGAAGCG
1107680 CAGAAGCG
1 CAGAAGCG
* *
1107688 TAGAGGCG
1 CAGAAGCG
1107696 CAGAAGCG
1 CAGAAGCG
*
1107704 CAGAGGCG
1 CAGAAGCG
1107712 CAGAAGCG
1 CAGAAGCG
1107720 CAGA
1 CAGA
1107724 GGCTCACTGG
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.43, T:0.04
Consensus pattern (8 bp):
CAGAAGCG
Found at i:1108260 original size:21 final size:21
Alignment explanation
Indices: 1108234--1108273 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1108224 AAAATAATTA
*
1108234 AATTTATTTATTTTGAAATCT
1 AATTTAATTATTTTGAAATCT
1108255 AATTTAATTATTTTGAAAT
1 AATTTAATTATTTTGAAAT
1108274 TTACATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
AATTTAATTATTTTGAAATCT
Found at i:1108805 original size:62 final size:55
Alignment explanation
Indices: 1108737--1108873 Score: 157
Period size: 55 Copynumber: 2.4 Consensus size: 55
1108727 CCACAATTCG
* * *
1108737 TGTGTATGTGTTTGTTCTTGTTTTTTTTTCCTTTCTTTTCTAAGTATACAGTTATTCGTAAT
1 TGTGTATGTGTCTGTTCTTG-TTTGTTTTCC---ATTTT-TAAGTATACAGTTATTCGT--T
* *
1108799 TTTGTATGTGTCTGTTCTTGTTTGTTTTCCATTTTTAAGTATGCAGTTATTCGTT
1 TGTGTATGTGTCTGTTCTTGTTTGTTTTCCATTTTTAAGTATACAGTTATTCGTT
*
1108854 TGCGTATGTGTCTGTTCTTG
1 TGTGTATGTGTCTGTTCTTG
1108874 ATAATCACAG
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
55 19 0.28
57 18 0.26
58 4 0.06
61 9 0.13
62 18 0.26
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (55 bp):
TGTGTATGTGTCTGTTCTTGTTTGTTTTCCATTTTTAAGTATACAGTTATTCGTT
Found at i:1114533 original size:13 final size:13
Alignment explanation
Indices: 1114517--1114541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1114507 AATTAGTAAA
1114517 TAATAATAATAAT
1 TAATAATAATAAT
1114530 TAATAATAATAA
1 TAATAATAATAA
1114542 GATCTGGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:1115410 original size:137 final size:137
Alignment explanation
Indices: 1114723--1115402 Score: 833
Period size: 137 Copynumber: 4.9 Consensus size: 137
1114713 TAGGTAAATT
* * * * * *
1114723 TAGAGATAACACGATTCCTACGTGATGAGGAAATCTGGCTATCTAATGATGACACTG-CTCCTAC
1 TAGAGATAACACGGTTCCTACGTGATGAGGAAGTCTGACTATCTAAGGGTGACGC-GACTCCTAC
* * * * * *
1114787 GTGATTAGGAGTTCTGGTCGGTGAATGACACTATTCCTATGTGATGAGGATGTCTGGCCATCTTT
65 GTGATGAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTT
*
1114852 AGGGGTAAA
130 AGGGAT-AA
* * * * *
1114861 TAGAGATAACACTGTTCCTACGCGATGAGGAAGTCTGTCTATCTAAGGGTGACGCGGCTCCTACA
1 TAGAGATAACACGGTTCCTACGTGATGAGGAAGTCTGACTATCTAAGGGTGACGCGACTCCTACG
* *
1114926 TGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGACATCTGGCCATCTTTT
66 TGATGAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATC-TTT
1114991 AGGGATAA
130 AGGGATAA
* * * * *
1114999 TGGAGATAACACGGTTCCTACGTCATGAGGAAGTCTGGCTATCTAAGGGTAACGCGTCTCCTACG
1 TAGAGATAACACGGTTCCTACGTGATGAGGAAGTCTGACTATCTAAGGGTGACGCGACTCCTACG
* * * *
1115064 TGATGAGGAGATATGGTCGGTGGATGACACTGTTCCTACATGATGATGACGTCTAGCCATCTTTA
66 TGATGAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTA
*
1115129 GGGATAC
131 GGGATAA
* * *
1115136 TAAAGATAACACGGTTCCTACGTGATGAGGAAGTTTGACTATCTAAGGGTGACACGACTCCTACG
1 TAGAGATAACACGGTTCCTACGTGATGAGGAAGTCTGACTATCTAAGGGTGACGCGACTCCTACG
* * * *
1115201 TGATGAGGAGATCTGGTTGGTGGAT-AGCACTGTTTCTACATGATGAGGATGTCTGGCCATCTTT
66 TGATGAGGAGATCTGGTCGGTGGATGA-CACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTT
1115265 AGGGATAA
130 AGGGATAA
* * * * * * * * * *
1115273 TGGAGATAAAACAGTTCCTACGTGATGAGAAAGTTTAACTTTTTAAGAGTGATGCGACTCCTACG
1 TAGAGATAACACGGTTCCTACGTGATGAGGAAGTCTGACTATCTAAGGGTGACGCGACTCCTACG
* * * * * *
1115338 TGATAAGGAGATATGGTCGGTGGATGATACTGTTCCTATGTGATGAGGACGTTTGGCAATCTTTA
66 TGATGAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTA
1115403 AAGATAATTT
Statistics
Matches: 469, Mismatches: 69, Indels: 9
0.86 0.13 0.02
Matches are distributed among these distances:
136 1 0.00
137 238 0.51
138 222 0.47
139 8 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (137 bp):
TAGAGATAACACGGTTCCTACGTGATGAGGAAGTCTGACTATCTAAGGGTGACGCGACTCCTACG
TGATGAGGAGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTA
GGGATAA
Found at i:1115454 original size:36 final size:35
Alignment explanation
Indices: 1115414--1115530 Score: 87
Period size: 36 Copynumber: 3.4 Consensus size: 35
1115404 AGATAATTTC
1115414 TTTCAAGAGAAACTGTCTCAAGAGATACAAAACTTG
1 TTTCAAGAGAAACTGTCTCAAGAGATACAAAA-TTG
* ** * *****
1115450 TTTCAAGGGAAACAATCTCAA-TG-TTTTTTA-TG
1 TTTCAAGAGAAACTGTCTCAAGAGATACAAAATTG
* *
1115482 TTTCGAGAGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGATACAAAA-TTG
*
1115518 TTTCAACAGAAAC
1 TTTCAAGAGAAAC
1115531 AATCTTAAAA
Statistics
Matches: 55, Mismatches: 22, Indels: 8
0.65 0.26 0.09
Matches are distributed among these distances:
32 19 0.35
33 1 0.02
34 3 0.05
35 1 0.02
36 31 0.56
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (35 bp):
TTTCAAGAGAAACTGTCTCAAGAGATACAAAATTG
Found at i:1115503 original size:68 final size:66
Alignment explanation
Indices: 1115414--1115606 Score: 242
Period size: 68 Copynumber: 2.9 Consensus size: 66
1115404 AGATAATTTC
* * * *
1115414 TTTCAAGAGAAACTGTCTCAAGAGATACAAAACTTGTTTCAAGGGAAACAATCTCAATGTTTTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAG--TTGT
1115479 ATG
64 ATG
* * * *
1115482 TTTCGAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAACAGAAACAATCTTAAAAGTTGTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATC-TCAAAGTTGTA
1115547 TG
65 TG
** * *
1115549 TTTCAAGAGAAACACTCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGAGAAACAATCTCAA
1115607 CGGTTTATCA
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
67 37 0.35
68 66 0.62
69 4 0.04
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (66 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGTTGTAT
G
Found at i:1115766 original size:103 final size:102
Alignment explanation
Indices: 1115564--1115781 Score: 239
Period size: 103 Copynumber: 2.1 Consensus size: 102
1115554 AGAGAAACAC
**
1115564 TCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAACGGTTTATCAATTTTGTTTCAA
1 TCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAACGGTAGATCAATTTTGTTTCAA
* * * **
1115629 GTGAAACAATTTCAGAATTTTGTGTTTTGAGGAAAAACTG
66 GTAAAACAATTT-AGAAATTTGTGCTCCGAGG--AAACTG
* * *
1115669 TCTCCAGCGAGACAAAAC-TTGTTTTGA-ATGAAACAATCTCAA--GTGAGATTAATTTTGTTTC
1 TCTCAAGCGAGACAAAACTTTGTTTCGAGA-GAAACAATCTCAACGGT-AGATCAATTTTGTTTC
1115730 AAGTAAAACAACTTT-GAAATTTGTGCTCCGAGGGAAACTG
64 AAGTAAAACAA-TTTAGAAATTTGTGCTCCGA-GGAAACTG
*
1115770 TCTCAAGTGAGA
1 TCTCAAGCGAGA
1115782 TGAAATTTGC
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
101 16 0.16
102 14 0.14
103 26 0.27
104 24 0.25
105 17 0.18
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (102 bp):
TCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAACGGTAGATCAATTTTGTTTCAA
GTAAAACAATTTAGAAATTTGTGCTCCGAGGAAACTG
Found at i:1116015 original size:34 final size:34
Alignment explanation
Indices: 1115933--1116015 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
1115923 CATCTCAAAG
*
1115933 GAAAAATGTCTCAAGCGAGATGAATTTGTTTTGA
1 GAAAAATGTCTCAAGCGAGATCAATTTGTTTTGA
* * *
1115967 GAGAGATTGT-TCAAGCGAGA-CAATTTTTTTTAGA
1 GA-AAAATGTCTCAAGCGAGATCAATTTGTTTT-GA
*
1116001 GAAAACTGTCTCAAG
1 GAAAAATGTCTCAAG
1116016 AAAGATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
33 14 0.35
34 21 0.52
35 5 0.12
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (34 bp):
GAAAAATGTCTCAAGCGAGATCAATTTGTTTTGA
Found at i:1132500 original size:30 final size:30
Alignment explanation
Indices: 1132464--1132549 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 30
1132454 TTGACCTTTG
* * *
1132464 AATTTTAGATAGAATATTAATTTGATAT-TA
1 AATTTTATATAAAATATTAATTT-AAATCTA
1132494 AATTTTATATAAAATATTAATTTAAATCCTA
1 AATTTTATATAAAATATTAATTTAAAT-CTA
1132525 AATTTTATATAAAATATTAATTTAA
1 AATTTTATATAAAATATTAATTTAA
1132550 GCGCACGTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.06
30 21 0.41
31 27 0.53
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
AATTTTATATAAAATATTAATTTAAATCTA
Found at i:1141827 original size:8 final size:8
Alignment explanation
Indices: 1141811--1142321 Score: 101
Period size: 8 Copynumber: 59.1 Consensus size: 8
1141801 TCCCTTCGTG
1141811 TTTTATTT
1 TTTTATTT
*
1141819 TTTTGTTT
1 TTTTATTT
* *
1141827 TATTCTTGT
1 TTTTATT-T
1141836 TTTTATTT
1 TTTTATTT
*
1141844 ATTTATTT
1 TTTTATTT
*
1141852 ATTTATTAT
1 TTTTATT-T
1141861 ATATATTAATTT
1 -T-T-TT-ATTT
1141873 TACTATTATTT
1 T--T-TTATTT
1141884 TTTTA-TT
1 TTTTATTT
*
1141891 TATTATTT
1 TTTTATTT
*
1141899 ATTTATTT
1 TTTTATTT
*
1141907 ATTTATTT
1 TTTTATTT
*
1141915 ATTTATTT
1 TTTTATTT
*
1141923 ATTTATTAT
1 TTTTATT-T
*
1141932 CTTTATCTTT
1 -TTT-TATTT
1141942 TTTTATTAT
1 TTTTATT-T
*
1141951 TTTT-TAT
1 TTTTATTT
*
1141958 ATTTATTT
1 TTTTATTT
1141966 TATTTATTT
1 T-TTTATTT
1141975 TCTTTATCTT
1 T-TTTAT-TT
1141985 TATTGTATTT
1 T-TT-TATTT
*
1141995 ATCTTATTT
1 -TTTTATTT
* *
1142004 ATCTTA-AT
1 -TTTTATTT
*
1142012 CTTTA-TT
1 TTTTATTT
1142019 TTTTA-TT
1 TTTTATTT
*
1142026 TTCTATTT
1 TTTTATTT
*
1142034 TTTATCTTT
1 TTT-TATTT
1142043 ATCTTTATCTT
1 -T-TTTAT-TT
*
1142054 ATTTATTT
1 TTTTATTT
*
1142062 ATTTATTT
1 TTTTATTT
1142070 ATTTTATTT
1 -TTTTATTT
1142079 TTATT-TATT
1 TT-TTAT-TT
*
1142088 ATTTATTT
1 TTTTATTT
*
1142096 TCTTTATCT
1 T-TTTATTT
* *
1142105 TTATCTTT
1 TTTTATTT
*
1142113 ATCTTT-TAT
1 -T-TTTATTT
1142122 TTTTATTT
1 TTTTATTT
* *
1142130 TATT-CTT
1 TTTTATTT
1142137 TTTTATTT
1 TTTTATTT
*
1142145 ATTATATATAT
1 -TT-T-TATTT
*
1142156 TATTATTT
1 TTTTATTT
1142164 TCTTTA-TT
1 T-TTTATTT
*
1142172 TTATATCTT
1 TTTTAT-TT
*
1142181 TATCTT-TAT
1 T-T-TTATTT
1142190 TTTTATTT
1 TTTTATTT
1142198 CTTTTA-TT
1 -TTTTATTT
* *
1142206 TTATATCT
1 TTTTATTT
* *
1142214 TTATCTTT
1 TTTTATTT
*
1142222 ATTTATTT
1 TTTTATTT
1142230 TATTTACTTT
1 T-TTTA-TTT
*
1142240 TTTT-TAT
1 TTTTATTT
*
1142247 CTTTACTTT
1 TTTTA-TTT
1142256 ATCTTTATTT
1 -T-TTTATTT
*
1142266 TTTCTCTTTAT
1 TTT-T-ATT-T
1142277 TTTTATTT
1 TTTTATTT
*
1142285 ATTTTCTTT
1 -TTTTATTT
* *
1142294 ATCTCATTT
1 -TTTTATTT
1142303 TCTTTATTT
1 T-TTTATTT
1142312 TATTTATTT
1 T-TTTATTT
1142321 T
1 T
1142322 CATTACCTTT
Statistics
Matches: 376, Mismatches: 74, Indels: 105
0.68 0.13 0.19
Matches are distributed among these distances:
7 46 0.12
8 130 0.35
9 129 0.34
10 30 0.08
11 31 0.08
12 7 0.02
13 3 0.01
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.73
Consensus pattern (8 bp):
TTTTATTT
Found at i:1141846 original size:4 final size:4
Alignment explanation
Indices: 1141837--1142095 Score: 182
Period size: 4 Copynumber: 63.8 Consensus size: 4
1141827 TATTCTTGTT
* * *
1141837 TTTA TTTA TTTA TTTA TTTA TTATA TATA TTAA TTTTA CTATTA TTTT
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA -TTTA -T-TTA TTTA
*
1141885 TTTA TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTATC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA
* * *
1141933 TTTA TCT- TTT- TTTA -TTA TTTT TTATA TTTA TTTTA TTTA TTTTC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA -TTTA TTTA -TTTA TTTA
* *
1141981 TCTTTA TTGTA TTTA TCTTA TTTA TCTTA -ATC TTTA TTT- TTTA TTT-
1 --TTTA TT-TA TTTA T-TTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
* * *
1142027 TCTA TTT- TTTA TCTT- TATC TTTA TCTTA TTTA TTTA TTTA TTTA TTT-
1 TTTA TTTA TTTA T-TTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
1142074 TATT- TTTA TTTA -TTA TTTA TTT
1 T-TTA TTTA TTTA TTTA TTTA TTT
1142096 TCTTTATCTT
Statistics
Matches: 206, Mismatches: 24, Indels: 50
0.74 0.09 0.18
Matches are distributed among these distances:
3 27 0.13
4 134 0.65
5 38 0.18
6 7 0.03
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:1141900 original size:19 final size:19
Alignment explanation
Indices: 1141838--1142295 Score: 162
Period size: 19 Copynumber: 23.8 Consensus size: 19
1141828 ATTCTTGTTT
*
1141838 TTATTTATTTATTTATTTA
1 TTATTTATTTTTTTATTTA
* * **
1141857 TTATATATATTAAT-TTTA
1 TTATTTATTTTTTTATTTA
*
1141875 CTA-TTATTTTTTTATTTA
1 TTATTTATTTTTTTATTTA
*
1141893 TTATTTATTTATTTATTTA
1 TTATTTATTTTTTTATTTA
*
1141912 TTTATTTATTTATTTA-TTA
1 -TTATTTATTTTTTTATTTA
* *
1141931 -TCTTTA-TCTTTT-TTTA
1 TTATTTATTTTTTTATTTA
1141947 TTATTT-TTTATATTTA-TT-
1 TTATTTATTT-T-TTTATTTA
1141965 TTATTTATTTTCTTTATCTTTA
1 TTATTTATTTT-TTTA--TTTA
*
1141987 TTGTATTTATCTTATTTATCTTA
1 -T-TATTTAT-TTTTTTAT-TTA
* *
1142010 ATCTTTA-TTTTTTATTT-
1 TTATTTATTTTTTTATTTA
*
1142027 TCTATTT-TTTATCTTTATCT-
1 T-TATTTATTT-T-TTTATTTA
*
1142047 TTATCTTATTTATTTATTTA
1 TTAT-TTATTTTTTTATTTA
*
1142067 TTTATTT-TATTTTTATTTA
1 -TTATTTATTTTTTTATTTA
*
1142086 TTATTTATTTTCTTTATCT-
1 TTATTTATTTT-TTTATTTA
*
1142105 TTATCTT-TATCTTTTATTT-
1 TTAT-TTAT-TTTTTTATTTA
1142124 TTATTTTATTCTTTTTTATTTA
1 TTA-TTTA-T-TTTTTTATTTA
* * *
1142146 TTATATATATTATTA-TT-
1 TTATTTATTTTTTTATTTA
* * *
1142163 TTCTTTATTTTATATCTTTA
1 TTATTTATTTT-TTTATTTA
*
1142183 -TCTTTATTTTTATT-TCTT-
1 TTATTTATTTTT-TTAT-TTA
* * *
1142201 TTATTTTATATCTTTATCT-
1 TTA-TTTATTTTTTTATTTA
1142220 TTATTTATTTTATTTACTTT-
1 TTATTTATTTT-TTTA-TTTA
*
1142240 TT-TTTATCTTTACTTTATCT-
1 TTATTTAT-TTT--TTTATTTA
1142260 TTATTT-TTTCTCTTTATTT-
1 TTATTTATTT-T-TTTATTTA
1142279 TTATTTATTTTCTTTAT
1 TTATTTATTTT-TTTAT
1142296 CTCATTTTCT
Statistics
Matches: 335, Mismatches: 55, Indels: 98
0.69 0.11 0.20
Matches are distributed among these distances:
16 7 0.02
17 24 0.07
18 49 0.15
19 138 0.41
20 62 0.19
21 34 0.10
22 4 0.01
23 4 0.01
24 11 0.03
25 2 0.01
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTATTTTTTTATTTA
Found at i:1141939 original size:6 final size:6
Alignment explanation
Indices: 1141928--1142297 Score: 104
Period size: 6 Copynumber: 62.0 Consensus size: 6
1141918 TATTTATTTA
* *
1141928 TTATCT TTATCT TT-T-T TTAT-T ATT-T-T TTATAT TTAT-T TTATTT
1 TTATCT TTATCT TTATCT TTATCT -TTATCT TTATCT TTATCT TTATCT
* * *
1141971 ATTTTCT TTATCT TTAT-T GTA--T TTATC- TTA--T TTATCT TAATCT
1 -TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT
* * * * * *
1142014 TTATTTT TTATTT TCTATTTT TTATCT TTATCT TTATCT TATTTAT TTATTTAT
1 TTA-TCT TTATCT T-TA-TCT TTATCT TTATCT TTATCT T-TATCT TTA--TCT
* * * *
1142068 TTAT-T TTATTT TTATTT ATTATTT ATTTTCT TTATCT TTATCT TTATCTT
1 TTATCT TTATCT TTATCT -TTATCT -TTATCT TTATCT TTATCT TTATC-T
* * * * * *
1142118 TTATTT TTAT-T TTATTCTT TTTTAT TTAT-T ATATAT ATTAT-T ATTTTCT
1 TTATCT TTATCT TTA-TC-T TTATCT TTATCT TTATCT -TTATCT -TTATCT
* * *
1142167 TTATTT TATATCT TTATCT TTATTT TTATTTCTT TTATTT TATATCT TTATCT
1 TTATCT T-TATCT TTATCT TTATCT TTA--TC-T TTATCT T-TATCT TTATCT
*
1142220 TTA--T TTAT-T TTA--T TTA-CT TT-TTT TTATCT TTA-CT TTATCT
1 TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT
* * * * *
1142260 TTATTTT TTCTCT TTATTT TTATTT ATTTTCT TTATCT
1 TTA-TCT TTATCT TTATCT TTATCT -TTATCT TTATCT
1142298 CATTTTCTTT
Statistics
Matches: 287, Mismatches: 39, Indels: 76
0.71 0.10 0.19
Matches are distributed among these distances:
4 19 0.07
5 45 0.16
6 148 0.52
7 57 0.20
8 14 0.05
9 4 0.01
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (6 bp):
TTATCT
Found at i:1142183 original size:246 final size:247
Alignment explanation
Indices: 1141878--1142321 Score: 543
Period size: 246 Copynumber: 1.8 Consensus size: 247
1141868 AATTTTACTA
* *
1141878 TTATTTTTTTATTTATTATTTATTTATTTATTTATTTATTTATTTATTTATTATCTTTATC-TT-
1 TTATTTTATTATTTATTATTTATTTATATATTTATTTATTTATTTATTTATTATCTTTATCTTTA
* * *
1141941 TTTTTATTATTTTTTATATTTATTTTATTTAT-TTTCTTTATCTTTATTGTA-TTTATCTTA--T
66 TTTTTATT-TCTTTTAT-TTTA-TATATTTATCTTTATTTAT-TTTATT-TACTTTATCTTATCT
* *
1142002 TTATCTTAATCTTTATTTTTTATTTTCTATTTTTTATCT-TTATCTTTATCTTA-TTTATTTA-T
126 TTA-CTTAATCTTTATTTTTTATCTT-TA-TTTTTATCTATTATCTTTATCTCATTTTATTTATT
1142064 TTATTTATTTTATTTTTATTTATTATTTATTTTCTTTATCTTTATCTTTATCTTTTATTT
188 TTATTTATTTTATTTTTATTTATTATTTATTTTCTTTATCTTTATCTTTATCTTTTATTT
* * *
1142124 TTATTTTATTCTTTTTTATTTA-TTATATATATTA-TTATTTTCTTTATTT-TATATCTTTATCT
1 TTATTTTATTATTTATTATTTATTTATATAT-TTATTTA-TTTATTTATTTAT-TATCTTTATCT
* * *
1142186 TTATTTTTATTTCTTTTATTTTATATCTTTATCTTTATTTATTTTATTTACTTTTTTTTATCTTT
63 TTATTTTTATTTCTTTTATTTTATATATTTATCTTTATTTATTTTATTTACTTTATCTTATCTTT
* * * * *
1142251 ACTTTATCTTTATTTTTTCTCTTTATTTTTATTTATTTTCTTTATCTCATTTTCTTTATTTTATT
128 ACTTAATCTTTATTTTTTATCTTTATTTTTATCTATTATCTTTATCTCATTTTATTTATTTTATT
1142316 TATTTT
193 TATTTT
1142322 CATTACCTTT
Statistics
Matches: 168, Mismatches: 18, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
244 10 0.06
245 45 0.27
246 80 0.48
247 25 0.15
248 8 0.05
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.73
Consensus pattern (247 bp):
TTATTTTATTATTTATTATTTATTTATATATTTATTTATTTATTTATTTATTATCTTTATCTTTA
TTTTTATTTCTTTTATTTTATATATTTATCTTTATTTATTTTATTTACTTTATCTTATCTTTACT
TAATCTTTATTTTTTATCTTTATTTTTATCTATTATCTTTATCTCATTTTATTTATTTTATTTAT
TTTATTTTTATTTATTATTTATTTTCTTTATCTTTATCTTTATCTTTTATTT
Found at i:1142275 original size:24 final size:23
Alignment explanation
Indices: 1141878--1142230 Score: 156
Period size: 23 Copynumber: 15.3 Consensus size: 23
1141868 AATTTTACTA
* *
1141878 TTATTTTTT-TATTTATTATTTAT
1 TTATTTTTTATCTTTATT-TATAT
1141901 TTATTTATTTA--TTTATTTATTTAT
1 TTATTT-TTTATCTTTATTTA--TAT
1141925 TTATTATCTTTATCTTT-TTT-TA-
1 TTATT-T-TTTATCTTTATTTATAT
*
1141947 TTATTTTTTATATTTATTT-TAT
1 TTATTTTTTATCTTTATTTATAT
*
1141969 TTATTTTCTTTATCTTTA-TTGTAT
1 TTA-TTT-TTTATCTTTATTTATAT
*
1141993 TTATCTTATTTATCTTAATCTT-TAT
1 TTAT-TT-TTTATCTTTAT-TTATAT
* *
1142018 TT-TTTATTT-TCTATTTTTTATCT
1 TTATTT-TTTATCT-TTATTTATAT
*
1142041 TTA-TCTTTATC-TTA-TT-TAT
1 TTATTTTTTATCTTTATTTATAT
*
1142060 TTATTTATTTAT-TTTATTTTTAT
1 TTATTT-TTTATCTTTATTTATAT
* * *
1142083 TTATTATTTAT-TTTCTTTATCT
1 TTATTTTTTATCTTTATTTATAT
* *
1142105 TTA-TCTTTATCTTTTATTTTTATT
1 TTATTTTTTATC-TTTATTTATA-T
* *
1142129 TTATTCTTTTTTATTTATTATATAT
1 TTATT-TTTTATCTTTATT-TATAT
*
1142154 ATTATTATTT-TCTTTATTTTATAT
1 -TTATTTTTTATCTTTA-TTTATAT
* * *
1142178 CTT-TATCTTTATTTTTATTTCT-T
1 -TTAT-TTTTTATCTTTATTTATAT
*
1142201 TTATTTTATATCTTTATCTT-TAT
1 TTATTTTTTATCTTTAT-TTATAT
1142224 TTATTTT
1 TTATTTT
1142231 ATTTACTTTT
Statistics
Matches: 259, Mismatches: 34, Indels: 74
0.71 0.09 0.20
Matches are distributed among these distances:
19 5 0.02
20 11 0.04
21 22 0.08
22 48 0.19
23 63 0.24
24 62 0.24
25 28 0.11
26 17 0.07
27 3 0.01
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATTTTTTATCTTTATTTATAT
Found at i:1142336 original size:32 final size:32
Alignment explanation
Indices: 1142263--1142345 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
1142253 TTTATCTTTA
* *
1142263 TTTTTTCTCTTTATTTTTATTTATTTTCTTTATC
1 TTTTTT-TCTTTA-TTTTATTTATTTTCATTACC
**
1142297 TCATTTTCTTTATTTTATTTATTTTCATTACC
1 TTTTTTTCTTTATTTTATTTATTTTCATTACC
*
1142329 TTTTTTTCCTTTTTTTT
1 TTTTTTT-CTTTATTTT
1142346 CTATCTACCA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 23 0.56
33 14 0.34
34 4 0.10
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTTTTCTTTATTTTATTTATTTTCATTACC
Found at i:1153359 original size:2 final size:2
Alignment explanation
Indices: 1153352--1153394 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1153342 ATCCATACAT
1153352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1153394 T
1 T
1153395 TTTATACTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1154502 original size:12 final size:11
Alignment explanation
Indices: 1154483--1154876 Score: 149
Period size: 11 Copynumber: 36.0 Consensus size: 11
1154473 ATTCTTGTTT
1154483 TTATTTATTTA
1 TTATTTATTTA
1154494 TTATATTATTT-
1 TTAT-TTATTTA
*
1154505 TTACTATTATTTT
1 TTA-T-TTATTTA
* *
1154518 TTCTTTTTTTA
1 TTATTTATTTA
1154529 TTATTTA-TT-
1 TTATTTATTTA
*
1154538 TT-TTTCTTTA
1 TTATTTATTTA
*
1154548 TTTTTTA-TT-
1 TTATTTATTTA
* * *
1154557 TTCTCTATCT-
1 TTATTTATTTA
1154567 TTATTT-TTT-
1 TTATTTATTTA
*
1154576 TTATTTTCTTTA
1 TTA-TTTATTTA
*
1154588 -TATTTATTTTCT
1 TTATTTA-TTT-A
1154600 TTATTT-TTTA
1 TTATTTATTTA
1154610 TT-TTTA-TT-
1 TTATTTATTTA
* *
1154618 TTCTTTATCT-
1 TTATTTATTTA
1154628 TTATTGTATTTA
1 TTATT-TATTTA
1154640 TCTTATTTATCTTTA
1 --TTATTTA--TTTA
1154655 TTTATTT-TTT-
1 -TTATTTATTTA
* *
1154665 TTCTTTATCTA
1 TTATTTATTTA
*
1154676 TAATTTATTTA
1 TTATTTATTTA
1154687 TTTATTTATTT-
1 -TTATTTATTTA
* *
1154698 TTATTTTTTTC
1 TTATTTATTTA
*
1154709 TTCTTTATTTA
1 TTATTTATTTA
**
1154720 TTTATTTCCTTA
1 -TTATTTATTTA
1154732 -TATTTA-TT-
1 TTATTTATTTA
*
1154740 TTATTTCTTTA
1 TTATTTATTTA
*
1154751 TTTTTTTATTTTA
1 -TTATTTA-TTTA
* *
1154764 TT-CTTGTTTA
1 TTATTTATTTA
1154774 TTTATTTATTTA
1 -TTATTTATTTA
1154786 TTA--TATTATA
1 TTATTTATT-TA
1154796 TTATTTATTTA
1 TTATTTATTTA
1154807 TTTATTTATTTA
1 -TTATTTATTTA
1154819 TTATCTTTATTT-
1 TTA--TTTATTTA
1154831 TTATTTATTTTA
1 TTATTTA-TTTA
*
1154843 TTTTATTTA-TCA
1 --TTATTTATTTA
1154855 TTATTTTATTTA
1 TTA-TTTATTTA
1154867 TT-TTTATTTA
1 TTATTTATTTA
1154877 CTTTTTTTTA
Statistics
Matches: 294, Mismatches: 43, Indels: 93
0.68 0.10 0.22
Matches are distributed among these distances:
8 5 0.02
9 39 0.13
10 66 0.22
11 73 0.25
12 69 0.23
13 20 0.07
14 18 0.06
15 4 0.01
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.74
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:1154526 original size:21 final size:23
Alignment explanation
Indices: 1154484--1154551 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
1154474 TTCTTGTTTT
* *
1154484 TATTTATTTATTATATTATTTTTAC
1 TATTTATTT-TTTTCTT-TTTTTAC
*
1154509 TA-TTA-TTTTTTCTTTTTTTAT
1 TATTTATTTTTTTCTTTTTTTAC
1154530 TATTTATTTTTTTCTTTATTTT
1 TATTTATTTTTTTCTTT-TTTT
1154552 TTATTTTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.22
22 8 0.22
23 12 0.32
24 7 0.19
25 2 0.05
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (23 bp):
TATTTATTTTTTTCTTTTTTTAC
Done.