Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 89
Found at i:4884991 original size:22 final size:22
Alignment explanation
Indices: 4884950--4884994 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4884940 TATTGCATAA
4884950 AAATTAAACAGTTATAACTCCTG
1 AAATTAAACAG-TATAACTCCTG
4884973 AAATTAAATCAG-ATAACTCCTG
1 AAATTAAA-CAGTATAACTCCTG
4884995 TAACTCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 8 0.38
24 3 0.14
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATTAAACAGTATAACTCCTG
Found at i:4885714 original size:187 final size:188
Alignment explanation
Indices: 4885442--4885793 Score: 458
Period size: 187 Copynumber: 1.9 Consensus size: 188
4885432 TTTAAAATTT
* * *
4885442 TAGGTTGCGCCTAAAATGTTAAAAGAGATTAAGCTGATGGGGCCTTAGACATTCCAATGAAAACA
1 TAGGTTGCGCCTAAAATGTTAAAAGACATTAAGCTGATGAGACCTTAGACATTCCAATGAAAACA
** * * * * *
4885507 AAATAAGTTAAAAATTGAAAATGTTATGAATATTTA-TAAGAAA-TATGGTTGTGCCAAAAAATG
66 AAATAAGTTAAAAATTGAAAATGTTAAAAATATCTACAAAAAAATTA-AGTTGCGCCAAAAAATG
* *
4885570 TTAAGGTTCACTAAGAAAGTAAGTTGCGATATGGAACGTTAATTTTCTTTGTAATCAAA
130 TTAAGGTTCACTAAGAAAATAAGTTACGATATGGAACGTTAATTTTCTTTGTAATCAAA
* * * ** *
4885629 TAGGTTGCGCCTAAAATGTTACCAA-ACTTTAAGCTGATGAGACTTTAGACATTCTTATGATAAC
1 TAGGTTGCGCCTAAAATGTTA-AAAGACATTAAGCTGATGAGACCTTAGACATTCCAATGAAAAC
* * *
4885693 AAAATAAGTTAAAAGTTGAAAATGTTAAAAATATCTACAAAAAAATTAAGTTGCGCCCAATAATG
65 AAAATAAGTTAAAAATTGAAAATGTTAAAAATATCTACAAAAAAATTAAGTTGCGCCAAAAAATG
* *
4885758 TTATGGTTCACTAAGAAAATAGGTTACGATATGGAA
130 TTAAGGTTCACTAAGAAAATAAGTTACGATATGGAA
4885794 TCTTAATATT
Statistics
Matches: 139, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
187 85 0.61
188 52 0.37
189 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (188 bp):
TAGGTTGCGCCTAAAATGTTAAAAGACATTAAGCTGATGAGACCTTAGACATTCCAATGAAAACA
AAATAAGTTAAAAATTGAAAATGTTAAAAATATCTACAAAAAAATTAAGTTGCGCCAAAAAATGT
TAAGGTTCACTAAGAAAATAAGTTACGATATGGAACGTTAATTTTCTTTGTAATCAAA
Found at i:4885940 original size:70 final size:70
Alignment explanation
Indices: 4885854--4886025 Score: 206
Period size: 70 Copynumber: 2.5 Consensus size: 70
4885844 ATATATAAAA
* *
4885854 ACTTTTGAATTAAAAAAACATGGAAAATGAGAAGACTGCAAGGTATCAATACTTTTCCACAAACA
1 ACTTTCGAATTAAAAAAACATGGAAAATGAGAAGACTGCAAAGTATCAATACTTTTCCACAAACA
4885919 TCAAT
66 TCAAT
** ** * **
4885924 ACTTTCGAATTTAAAAAAA-ATGGAAAATGAGAAGGGTTTAAAGTATCGATACTTTTCCACAAGT
1 ACTTTCGAA-TTAAAAAAACATGGAAAATGAGAAGACTGCAAAGTATCAATACTTTTCCACAAAC
*
4885988 ATCGAT
65 ATCAAT
* *
4885994 ACTTTCAAATTAAAAAAAC-T-GATAATGAGAAG
1 ACTTTCGAATTAAAAAAACATGGAAAATGAGAAG
4886026 CAAAGTATCG
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
68 11 0.12
69 10 0.11
70 58 0.66
71 9 0.10
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (70 bp):
ACTTTCGAATTAAAAAAACATGGAAAATGAGAAGACTGCAAAGTATCAATACTTTTCCACAAACA
TCAAT
Found at i:4897893 original size:138 final size:137
Alignment explanation
Indices: 4897654--4897919 Score: 374
Period size: 138 Copynumber: 1.9 Consensus size: 137
4897644 GAAAATTCAT
* * * *
4897654 AAACTCATTATGAATTCCATGGATGCATACATAGTGCCGAAAGTACATATAGTACTGATACAAAA
1 AAACTCATTATGAATACCATGGATGCACACATAGTGCCAAAAGTACACATAGTACTGATACAAAA
* *
4897719 ATGCACCATTATGCATTAAACAAAATCGATCAATAACTTTTATACATAATTTTATATCAAAATGG
66 ATACACCATTATGCATTAAACAAAATCGATCAATAACTTTTATACACAA-TTTATATCAAAATGG
4897784 TAATTAAC
130 TAATTAAC
4897792 AAACTCATTATGAATACCAT-GATTGCACATC-TAGTGCCAAAAGTACACATAGTACTGATACAA
1 AAACTCATTATGAATACCATGGA-TGCACA-CATAGTGCCAAAAGTACACATAGTACTGATACAA
* * * * * * *
4897855 AACTACACCGTTATGCTTTAAACAAAATTGATCGATAACTTTTATATACAATTTATGTCAAAATG
64 AAATACACCATTATGCATTAAACAAAATCGATCAATAACTTTTATACACAATTTATATCAAAATG
4897920 AACTTTTGAC
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
137 15 0.13
138 97 0.86
139 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (137 bp):
AAACTCATTATGAATACCATGGATGCACACATAGTGCCAAAAGTACACATAGTACTGATACAAAA
ATACACCATTATGCATTAAACAAAATCGATCAATAACTTTTATACACAATTTATATCAAAATGGT
AATTAAC
Found at i:4899469 original size:12 final size:12
Alignment explanation
Indices: 4899452--4899481 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4899442 TATTTAATTT
4899452 TTTTAAATAGTA
1 TTTTAAATAGTA
*
4899464 TTTTAAATATTA
1 TTTTAAATAGTA
4899476 TTTTAA
1 TTTTAA
4899482 TGAAGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TTTTAAATAGTA
Found at i:4903208 original size:26 final size:26
Alignment explanation
Indices: 4903179--4903241 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
4903169 TCATTTTTTT
4903179 TATTTTTCATATTCTTTTCTTTCATA
1 TATTTTTCATATTCTTTTCTTTCATA
4903205 TATTTTTCATATTCTTTTCTTTCATA
1 TATTTTTCATATTCTTTTCTTTCATA
4903231 TATTTTTCATA
1 TATTTTTCATA
4903242 ACTTTCACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTTTTCATATTCTTTTCTTTCATA
Found at i:4903238 original size:15 final size:15
Alignment explanation
Indices: 4903183--4903231 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
4903173 TTTTTTTATT
4903183 TTTCATATTCTTTTC
1 TTTCATATTCTTTTC
*
4903198 TTTCATA---TATT-
1 TTTCATATTCTTTTC
4903209 TTTCATATTCTTTTC
1 TTTCATATTCTTTTC
4903224 TTTCATAT
1 TTTCATAT
4903232 ATTTTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 7 0.25
12 3 0.11
14 3 0.11
15 15 0.54
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTCATATTCTTTTC
Found at i:4903696 original size:14 final size:14
Alignment explanation
Indices: 4903677--4903704 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4903667 TATAATTAAA
4903677 TCATACTTTAAAAT
1 TCATACTTTAAAAT
4903691 TCATACTTTAAAAT
1 TCATACTTTAAAAT
4903705 AATATAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
TCATACTTTAAAAT
Found at i:4908534 original size:29 final size:29
Alignment explanation
Indices: 4908478--4908534 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4908468 ACAATTTAGT
**
4908478 CCTTTAATTTATTTTTATTTTATTTTTAC
1 CCTTTAATTTATTTTTATTTTAAGTTTAC
*
4908507 CCTTT-ATTTTTTTTGTATTTTAAGTTTA
1 CCTTTAATTTATTTT-TATTTTAAGTTTA
4908535 GTACTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.68
Consensus pattern (29 bp):
CCTTTAATTTATTTTTATTTTAAGTTTAC
Found at i:4909667 original size:11 final size:9
Alignment explanation
Indices: 4909647--4909736 Score: 102
Period size: 8 Copynumber: 10.4 Consensus size: 9
4909637 ATTATCTTCC
*
4909647 TTTTTCTTT
1 TTTTTATTT
4909656 TCTTTATATTT
1 T-TTT-TATTT
4909667 TTTTTATTT
1 TTTTTATTT
4909676 TTTTTA--T
1 TTTTTATTT
4909683 TTTTTATTT
1 TTTTTATTT
*
4909692 TTTTT-TAT
1 TTTTTATTT
4909700 TTTTTA-TT
1 TTTTTATTT
4909708 TTTTTA-TT
1 TTTTTATTT
4909716 TTTTTA-TT
1 TTTTTATTT
4909724 TTTTTATTT
1 TTTTTATTT
4909733 TTTT
1 TTTT
4909737 ATTAAAAGAG
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
7 7 0.10
8 30 0.42
9 24 0.33
10 6 0.08
11 5 0.07
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTATTT
Found at i:4909668 original size:1 final size:1
Alignment explanation
Indices: 4909664--4909736 Score: 74
Period size: 1 Copynumber: 73.0 Consensus size: 1
4909654 TTTCTTTATA
* * * * * * *
4909664 TTTTTTTTATTTTTTTTATTTTTTATTTTTTTTTATTTTTTATTTTTTTATTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
4909729 ATTTTTTT
1 TTTTTTTT
4909737 ATTAAAAGAG
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:4909678 original size:8 final size:8
Alignment explanation
Indices: 4909665--4909739 Score: 116
Period size: 8 Copynumber: 9.2 Consensus size: 8
4909655 TTCTTTATAT
4909665 TTTTTTTA
1 TTTTTTTA
4909673 TTTTTTT-
1 TTTTTTTA
4909680 TATTTTTTA
1 T-TTTTTTA
*
4909689 TTTTTTTT
1 TTTTTTTA
4909697 TATTTTTTA
1 T-TTTTTTA
4909706 TTTTTTTA
1 TTTTTTTA
4909714 TTTTTTTA
1 TTTTTTTA
4909722 TTTTTTTA
1 TTTTTTTA
4909730 TTTTTTTA
1 TTTTTTTA
4909738 TT
1 TT
4909740 AAAAGAGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
7 1 0.02
8 53 0.85
9 8 0.13
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:4909910 original size:57 final size:57
Alignment explanation
Indices: 4909819--4910150 Score: 326
Period size: 57 Copynumber: 6.0 Consensus size: 57
4909809 GAATAACTTG
* * * ** * * * *
4909819 TCATCTAGAAACCTTTGAAAATTAAACTTGGCTTATTCAAAAATTCATTTGAAGTAA
1 TCATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAATAA
*
4909876 TCATCAAGAAACCTCTGAAAATCAGGCTTAG---C-TT---AATTCATTTGAAGTAA
1 TCATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAATAA
* * * * *
4909926 TCATCTAGAAACCT-TTAAAATTAGGCTTAGTTTCTTTAAAAAATCATTTGAAATAA
1 TCATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAATAA
* * * * *
4909982 TCATCAAGAAACCCCTGAAAAACATGCTTAACTTCTTTAAAAATCCATTTGAAAT-A
1 TCATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAATAA
* * * *
4910038 TCATCACA-AAACC-CTAGAAAATTAGGTTTAGATTCTTTAAAAATTCATTTAAAATAA
1 TCATCA-AGAAACCTCT-GAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAATAA
* * *
4910095 TCATCAAGAAACCCCTGAAAATCATGCTTAGATTCTTTAAAAATTCATTTGAAATA
1 TCATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAATA
4910151 TGATATATCT
Statistics
Matches: 227, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
49 14 0.06
50 29 0.13
52 1 0.00
53 3 0.01
55 2 0.01
56 70 0.31
57 106 0.47
58 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (57 bp):
TCATCAAGAAACCTCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAATAA
Found at i:4909925 original size:50 final size:49
Alignment explanation
Indices: 4909860--4909955 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 49
4909850 CTTATTCAAA
4909860 AATTCATTTGAAGTAATCATCAAGAAACCTCTGAAAATCAGGCTTAGCTT
1 AATTCATTTGAAGTAATCATCAAGAAACCT-TGAAAATCAGGCTTAGCTT
* * *
4909910 AATTCATTTGAAGTAATCATCTAGAAACCTTTAAAATTAGGCTTAG
1 AATTCATTTGAAGTAATCATCAAGAAACCTTGAAAATCAGGCTTAG
4909956 TTTCTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
49 14 0.33
50 29 0.67
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (49 bp):
AATTCATTTGAAGTAATCATCAAGAAACCTTGAAAATCAGGCTTAGCTT
Found at i:4910086 original size:113 final size:113
Alignment explanation
Indices: 4909942--4910151 Score: 350
Period size: 113 Copynumber: 1.9 Consensus size: 113
4909932 AGAAACCTTT
* *
4909942 AAAATTAGGCTTAGTTTCTTTAAAAAATCATTTGAAATAATCATCAAGAAACCCCTGAAAAACAT
1 AAAATTAGGCTTAGATTCTTTAAAAAATCATTTAAAATAATCATCAAGAAACCCCTGAAAAACAT
4910007 GCTTA-ACTTCTTTAAAAATCCATTTGAAATATCATCACAAAACCCTAG
66 GCTTAGA-TTCTTTAAAAATCCATTTGAAATATCATCACAAAACCCTAG
* * *
4910055 AAAATTAGGTTTAGATTCTTTAAAAATTCATTTAAAATAATCATCAAGAAACCCCTGAAAATCAT
1 AAAATTAGGCTTAGATTCTTTAAAAAATCATTTAAAATAATCATCAAGAAACCCCTGAAAAACAT
*
4910120 GCTTAGATTCTTTAAAAATTCATTTGAAATAT
66 GCTTAGATTCTTTAAAAATCCATTTGAAATAT
4910152 GATATATCTC
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 89 0.99
114 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (113 bp):
AAAATTAGGCTTAGATTCTTTAAAAAATCATTTAAAATAATCATCAAGAAACCCCTGAAAAACAT
GCTTAGATTCTTTAAAAATCCATTTGAAATATCATCACAAAACCCTAG
Found at i:4911352 original size:13 final size:13
Alignment explanation
Indices: 4911334--4911359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4911324 TTCAAAAATG
4911334 TGAAAAAGTTTTA
1 TGAAAAAGTTTTA
4911347 TGAAAAAGTTTTA
1 TGAAAAAGTTTTA
4911360 AAAATGTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TGAAAAAGTTTTA
Found at i:4911562 original size:28 final size:28
Alignment explanation
Indices: 4911526--4911591 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
4911516 TCGGAATGTG
* *
4911526 GAGTATTTCAGGTCGATTTGGGGAGGTA
1 GAGTGTTTCAGGTCGATTTGAGGAGGTA
* *
4911554 GAGTGTTTCAGGTTGTTTTGAGGAGGTA
1 GAGTGTTTCAGGTCGATTTGAGGAGGTA
4911582 -ATGTGTTTCA
1 GA-GTGTTTCA
4911592 AGTTGGCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.20, C:0.06, G:0.36, T:0.38
Consensus pattern (28 bp):
GAGTGTTTCAGGTCGATTTGAGGAGGTA
Found at i:4912439 original size:25 final size:26
Alignment explanation
Indices: 4912411--4912459 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
4912401 TCGATTTGAA
4912411 CATCATTTATTTCTTGC-ACTTGAGG
1 CATCATTTATTTCTTGCAACTTGAGG
* * *
4912436 CATCTTTTGTTTCTTTCAACTTGA
1 CATCATTTATTTCTTGCAACTTGA
4912460 TTTGCTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.49
Consensus pattern (26 bp):
CATCATTTATTTCTTGCAACTTGAGG
Found at i:4933770 original size:24 final size:24
Alignment explanation
Indices: 4933738--4933789 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4933728 ACTAAACCTT
* * *
4933738 ATTTTGTGTGGGTTTTTATGGATG
1 ATTTAGTGTGGGTTTTAATGAATG
**
4933762 ATTTAGTGTTTGTTTTAATGAATG
1 ATTTAGTGTGGGTTTTAATGAATG
4933786 ATTT
1 ATTT
4933790 GAGTTTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (24 bp):
ATTTAGTGTGGGTTTTAATGAATG
Found at i:4933795 original size:23 final size:24
Alignment explanation
Indices: 4933749--4933795 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4933739 TTTTGTGTGG
* * *
4933749 GTTTTTATGGATGATTTAGTGTTT
1 GTTTTAATGAATGATTTAGAGTTT
4933773 GTTTTAATGAATGATTT-GAGTTT
1 GTTTTAATGAATGATTTAGAGTTT
4933796 TTATGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.55
Consensus pattern (24 bp):
GTTTTAATGAATGATTTAGAGTTT
Found at i:4935924 original size:35 final size:35
Alignment explanation
Indices: 4935860--4935998 Score: 154
Period size: 35 Copynumber: 4.0 Consensus size: 35
4935850 AATCTTTATT
* ** * * *
4935860 TGATAACTGTAAAAT-ATCTTATATTTGTAATTTTT
1 TGATAACTG-AAAATCATCTGATAACTGTAAATATA
* * * *
4935895 TGATAATTGTAAATCAACTGATAACTGTAAATATC
1 TGATAACTGAAAATCATCTGATAACTGTAAATATA
*
4935930 TAATAACTGAAAATCATCTGATAACTGTAAATATA
1 TGATAACTGAAAATCATCTGATAACTGTAAATATA
*
4935965 TGATAACTAAAAATCATCTGATAACTGTAAATAT
1 TGATAACTGAAAATCATCTGATAACTGTAAATAT
4935999 CATACCTGGA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
34 4 0.05
35 83 0.95
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.37
Consensus pattern (35 bp):
TGATAACTGAAAATCATCTGATAACTGTAAATATA
Found at i:4935937 original size:17 final size:17
Alignment explanation
Indices: 4935860--4935999 Score: 127
Period size: 18 Copynumber: 8.0 Consensus size: 17
4935850 AATCTTTATT
4935860 TGATAACTGTAAAATATC
1 TGATAACTGT-AAATATC
* ** * * *
4935878 TTATATTTGTAATTTTT
1 TGATAACTGTAAATATC
* *
4935895 TGATAATTGTAAATCAAC
1 TGATAACTGTAAAT-ATC
4935913 TGATAACTGTAAATATC
1 TGATAACTGTAAATATC
* *
4935930 TAATAACTGAAAATCATC
1 TGATAACTGTAAAT-ATC
*
4935948 TGATAACTGTAAATATA
1 TGATAACTGTAAATATC
**
4935965 TGATAACTAAAAATCATC
1 TGATAACTGTAAAT-ATC
4935983 TGATAACTGTAAATATC
1 TGATAACTGTAAATATC
4936000 ATACCTGGAA
Statistics
Matches: 95, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
17 46 0.48
18 49 0.52
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (17 bp):
TGATAACTGTAAATATC
Found at i:4953700 original size:18 final size:17
Alignment explanation
Indices: 4953673--4953816 Score: 171
Period size: 18 Copynumber: 8.2 Consensus size: 17
4953663 TATTTATATG
*
4953673 TATCTGATAACTATAAAA
1 TATCTGATAACTGT-AAA
*
4953691 TATATGATAACTGTAAA
1 TATCTGATAACTGTAAA
*
4953708 TCATCTAATAACTGTAAA
1 T-ATCTGATAACTGTAAA
*
4953726 TATCTGATAACTGAAAA
1 TATCTGATAACTGTAAA
*
4953743 CCATCTGATAACTGTAAA
1 -TATCTGATAACTGTAAA
* *
4953761 TATATGATAACTGAAAA
1 TATCTGATAACTGTAAA
*
4953778 TCATCTGATAATTGTAAA
1 T-ATCTGATAACTGTAAA
*
4953796 TATTTGATAACTGTAAA
1 TATCTGATAACTGTAAA
4953813 TATC
1 TATC
4953817 ATACTTGGGC
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
17 50 0.47
18 56 0.53
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (17 bp):
TATCTGATAACTGTAAA
Found at i:4953728 original size:35 final size:35
Alignment explanation
Indices: 4953674--4953818 Score: 200
Period size: 35 Copynumber: 4.1 Consensus size: 35
4953664 ATTTATATGT
* *
4953674 ATCTGATAACTATAAAATATATGATAACTGTAAATC
1 ATCTGATAACTGT-AAATATATGATAACTGAAAATC
* * *
4953710 ATCTAATAACTGTAAATATCTGATAACTGAAAACC
1 ATCTGATAACTGTAAATATATGATAACTGAAAATC
4953745 ATCTGATAACTGTAAATATATGATAACTGAAAATC
1 ATCTGATAACTGTAAATATATGATAACTGAAAATC
* *
4953780 ATCTGATAATTGTAAATATTTGATAACTGTAAATATC
1 ATCTGATAACTGTAAATATATGATAACTG-AAA-ATC
4953817 AT
1 AT
4953819 ACTTGGGCAG
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
35 78 0.80
36 14 0.14
37 5 0.05
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
ATCTGATAACTGTAAATATATGATAACTGAAAATC
Found at i:4957911 original size:21 final size:21
Alignment explanation
Indices: 4957874--4957916 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4957864 TTTAGTCCCA
*
4957874 AATTAAATTTCAGCATTCAAT
1 AATTAAATTTCAACATTCAAT
*
4957895 AATTAAATATT-AACATTGAAT
1 AATTAAAT-TTCAACATTCAAT
4957916 A
1 A
4957917 CTCATAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (21 bp):
AATTAAATTTCAACATTCAAT
Found at i:4963100 original size:54 final size:53
Alignment explanation
Indices: 4963042--4963486 Score: 263
Period size: 54 Copynumber: 8.3 Consensus size: 53
4963032 TTCTTTGCAA
* * * **
4963042 TGCACACGTAGTGCATATACAGTCATTCATAAACATATTATGAACTTCGTGGGT
1 TGCACACATAGTGCA-AAACAGTCATTCATAAACATATGATGAACTTCGTGAAT
* * * *
4963096 TGCACACATAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAAT
1 TGCACACATAGTG-CAAAACAGTCATTCATAAACATATGATGAACTTCGTGAAT
* ** * * * * *
4963150 TGCACACCTAGTGCCGAA-TGATTATTCATCAACATATGATGAATTTTGTGAAT
1 TGCACACATAGTGCAAAACAG-TCATTCATAAACATATGATGAACTTCGTGAAT
* ** * * * * *
4963203 TGCACACTTAGTGCCAAAATGGTTATTCATCAACAAATCATGAATTTCGTGAAT
1 TGCACACATAGTG-CAAAACAGTCATTCATAAACATATGATGAACTTCGTGAAT
* * *
4963257 TGCACACTTAGTGCCAAAACGGAT-ATTCATCAACATATGATGAA-TTCTGTGAAT
1 TGCACACATAGTG-CAAAACAG-TCATTCATAAACATATGATGAACTTC-GTGAAT
* * * * * * * *
4963311 TACACACTTAGTGCTGAAACGGTTATTCATCAGCATATGATTAA-TTCTGTGAAT
1 TGCACACATAGTGC-AAAACAGTCATTCATAAACATATGATGAACTTC-GTGAAT
* * * * * * *
4963365 CGCACACTTAGTGCTGAAACAGTTATTTATCAACATATGATGAA-TTCCATGAAT
1 TGCACACATAGTGC-AAAACAGTCATTCATAAACATATGATGAACTT-CGTGAAT
* ** ** * * *
4963419 TGCACACTTAGTGTTGAAATGGTTATTCATCAACATATGATGAA-TTCCATGAAT
1 TGCACACATAGTG-CAAAACAGTCATTCATAAACATATGATGAACTT-CGTGAAT
*
4963473 TGCACACTTAGTGC
1 TGCACACATAGTGC
4963487 CTATTTAGTA
Statistics
Matches: 340, Mismatches: 41, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.00
53 51 0.15
54 283 0.83
55 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (53 bp):
TGCACACATAGTGCAAAACAGTCATTCATAAACATATGATGAACTTCGTGAAT
Found at i:4963162 original size:108 final size:106
Alignment explanation
Indices: 4963042--4963486 Score: 498
Period size: 108 Copynumber: 4.1 Consensus size: 106
4963032 TTCTTTGCAA
* * * * * ** *
4963042 TGCACACGTAGTGCATATACAGTCATTCATAAACATATTATGAACTTCGTGGGTTGCACACATAG
1 TGCACACTTAGTGCA-AAACAGTTATTCATCAACATATGATGAA-TTCGTGAATTGCACACTTAG
4963107 TGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAAT
64 TGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAAT
* ** * *
4963150 TGCACACCTAGTGCCGAA-TGATTATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAG
1 TGCACACTTAGTGCAAAACAG-TTATTCATCAACATATGATGAA-TTCGTGAATTGCACACTTAG
* * *
4963214 TGCCAAAATGGTTATTCATCAACAAATCATGAATTTCGTGAAT
64 TGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAAT
* * *
4963257 TGCACACTTAGTGCCAAAACGGATATTCATCAACATATGATGAATTCTGTGAATTACACACTTAG
1 TGCACACTTAGTG-CAAAACAGTTATTCATCAACATATGATGAATTC-GTGAATTGCACACTTAG
** * *
4963322 TGCTGAAACGGTTATTCATCAGCATATGATTAA-TTCTGTGAAT
64 TGCCAAAACGGTTATTCATCAACATATGATGAATTTC-GTGAAT
* * * *
4963365 CGCACACTTAGTGCTGAAACAGTTATTTATCAACATATGATGAATTCCATGAATTGCACACTTAG
1 TGCACACTTAGTGC-AAAACAGTTATTCATCAACATATGATGAATT-CGTGAATTGCACACTTAG
*** * * *
4963430 TGTTGAAATGGTTATTCATCAACATATGATGAATTCCATGAAT
64 TGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAAT
4963473 TGCACACTTAGTGC
1 TGCACACTTAGTGC
4963487 CTATTTAGTA
Statistics
Matches: 285, Mismatches: 44, Indels: 16
0.83 0.13 0.05
Matches are distributed among these distances:
106 1 0.00
107 94 0.33
108 186 0.65
109 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (106 bp):
TGCACACTTAGTGCAAAACAGTTATTCATCAACATATGATGAATTCGTGAATTGCACACTTAGTG
CCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAAT
Found at i:4963410 original size:162 final size:161
Alignment explanation
Indices: 4963043--4963487 Score: 543
Period size: 162 Copynumber: 2.8 Consensus size: 161
4963033 TCTTTGCAAT
* * * * * * ** *
4963043 GCACACGTAGTG-CATATACAGTCATTCATAAACATATTATGAACTTCGTGGGTTGCACACATAG
1 GCACACTTAGTGCCA-AAACAGTTATTCATCAACATATCATGAATTTCGTGAATTGCACACTTAG
* *
4963107 TGCCAAAACGGTTATTCATCAACATATGATGAATT-TCGTGAATTGCACACCTAGTGCCGAATGA
65 TGCCAAAACGGTTATTCATCAACATATGATGAATTCT-GTGAATTGCACACTTAGTGCCGAACGA
* *
4963171 TTATTCATCAACATATGATGAATTTTGTGAATT
129 TTATTCATCAACATATGATGAATTCTGTGAATC
** *
4963204 GCACACTTAGTGCCAAAATGGTTATTCATCAACAAATCATGAATTTCGTGAATTGCACACTTAGT
1 GCACACTTAGTGCCAAAACAGTTATTCATCAACATATCATGAATTTCGTGAATTGCACACTTAGT
* * * *
4963269 GCCAAAACGGATATTCATCAACATATGATGAATTCTGTGAATTACACACTTAGTGCTGAAACGGT
66 GCCAAAACGGTTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCG-AACGAT
* *
4963334 TATTCATCAGCATATGATTAATTCTGTGAATC
130 TATTCATCAACATATGATGAATTCTGTGAATC
** * * * *
4963366 GCACACTTAGTGCTGAAACAGTTATTTATCAACATATGATGAATTCCATGAATTGCACACTTAGT
1 GCACACTTAGTGCCAAAACAGTTATTCATCAACATATCATGAATTTCGTGAATTGCACACTTAGT
*** * **
4963431 GTTGAAATGGTTATTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCC
66 GCCAAAACGGTTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCC
4963488 TATTTAGTAA
Statistics
Matches: 241, Mismatches: 40, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
161 102 0.42
162 139 0.58
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (161 bp):
GCACACTTAGTGCCAAAACAGTTATTCATCAACATATCATGAATTTCGTGAATTGCACACTTAGT
GCCAAAACGGTTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAACGATT
ATTCATCAACATATGATGAATTCTGTGAATC
Found at i:4965196 original size:20 final size:20
Alignment explanation
Indices: 4965173--4965214 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4965163 CTTTTCTCCT
4965173 AAAACGTAATACCTTCTTCC
1 AAAACGTAATACCTTCTTCC
4965193 AAAACGTAATACCTTCTTCC
1 AAAACGTAATACCTTCTTCC
4965213 AA
1 AA
4965215 GGTGATACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAACGTAATACCTTCTTCC
Found at i:4970074 original size:54 final size:54
Alignment explanation
Indices: 4970016--4970352 Score: 521
Period size: 54 Copynumber: 6.2 Consensus size: 54
4970006 CCTTGGGTTA
* * * *
4970016 CACACATAGTGCCGAAATGGTTATTCATCAACATATGATGAATTCCATGAATTT
1 CACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
* * * *
4970070 CACACTTAGTGTCGAAACGGTTATTCGTGAACATATGATGAATTTCGTGAATTG
1 CACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
* * *
4970124 TACACTTAGTACTGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
1 CACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
*
4970178 CACACTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCGTGAATTG
1 CACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
* * * *
4970232 CACACTTAGTGCCGAAACGATTATTCATCAACATATGATGAGTTCCATGAATTA
1 CACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
*
4970286 CACACTTAGTGCTGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
1 CACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
4970340 CACACTTAGTGCC
1 CACACTTAGTGCC
4970353 TATTTGGTAA
Statistics
Matches: 253, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 253 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (54 bp):
CACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTG
Found at i:4971670 original size:20 final size:22
Alignment explanation
Indices: 4971635--4971675 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
4971625 AACTGCTTTA
4971635 TTTAAAAACCATTTATATCATT
1 TTTAAAAACCATTTATATCATT
4971657 TTTAAAAA-CA-TTATATCAT
1 TTTAAAAACCATTTATATCAT
4971676 GTAAATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTAAAAACCATTTATATCATT
Found at i:4972785 original size:22 final size:22
Alignment explanation
Indices: 4972755--4972796 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4972745 AATACCAAGA
4972755 GGTACCGATACCCCTATGAATG
1 GGTACCGATACCCCTATGAATG
*
4972777 GGTATCGATACCCCTATGAA
1 GGTACCGATACCCCTATGAA
4972797 AGCTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (22 bp):
GGTACCGATACCCCTATGAATG
Found at i:4976023 original size:18 final size:19
Alignment explanation
Indices: 4975996--4976049 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 19
4975986 ATTTTCCAAT
4975996 AATTGGTATCTTTTT-AAC
1 AATTGGTATCTTTTTAAAC
*
4976014 AATTGATATCGTTTTGTAAAC
1 AATTGGTATC-TTTT-TAAAC
4976035 AATTGGTATCTTTTT
1 AATTGGTATCTTTTT
4976050 CATTAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 5 0.16
21 12 0.39
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (19 bp):
AATTGGTATCTTTTTAAAC
Found at i:4976309 original size:21 final size:22
Alignment explanation
Indices: 4976262--4976318 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
4976252 AATACCAAGA
*
4976262 GGTACCGATACCCCTATGAATG
1 GGTATCGATACCCCTATGAATG
4976284 GGTATCGATACCCCT-TGAA-G
1 GGTATCGATACCCCTATGAATG
*
4976304 GAGTATCCATACCCC
1 G-GTATCGATACCCC
4976319 AAGGCTCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 16 0.50
22 14 0.44
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (22 bp):
GGTATCGATACCCCTATGAATG
Found at i:4976746 original size:34 final size:33
Alignment explanation
Indices: 4976689--4976759 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
4976679 TTTTGTAAAG
* *
4976689 GGGAAAGGTTCTAGCTAAGCCCGTTTAAAAGCTA
1 GGGAAAGGTTCTAGCTAAGCCCG-TGAAAAACTA
* * *
4976723 GGGAAAGGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
4976756 GGGA
1 GGGA
4976760 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 12 0.38
34 20 0.62
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
Found at i:4978545 original size:15 final size:16
Alignment explanation
Indices: 4978519--4978548 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4978509 TTACCAATTG
4978519 CCATTGAAAATATCTT
1 CCATTGAAAATATCTT
4978535 CCATT-AAAATATCT
1 CCATTGAAAATATCT
4978549 CATAGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (16 bp):
CCATTGAAAATATCTT
Found at i:4978986 original size:29 final size:29
Alignment explanation
Indices: 4978904--4978993 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 29
4978894 GAAATATATA
*
4978904 ACTTTTAAAAATTATATTTTTGGTTC-CTAA
1 ACTTTTAAAAATTATA-TTTTGG-TCACTAT
*
4978934 ACTTTTCAAAAATTTATACTTTGGTCACTAT
1 ACTTTT-AAAAA-TTATATTTTGGTCACTAT
* *
4978965 ACTTTTAAAACTTACATTTTGGTCACTAT
1 ACTTTTAAAAATTATATTTTGGTCACTAT
4978994 CCATAATTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 16 0.31
30 12 0.23
31 19 0.37
32 5 0.10
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (29 bp):
ACTTTTAAAAATTATATTTTGGTCACTAT
Found at i:4980728 original size:14 final size:14
Alignment explanation
Indices: 4980688--4980729 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
4980678 GGGTTTAAAA
*
4980688 TTTAAGATTTATAG
1 TTTAAGATTTATGG
*
4980702 TTTATGATTTATGG
1 TTTAAGATTTATGG
*
4980716 TTTAAGGTTTATGG
1 TTTAAGATTTATGG
4980730 CAAATTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (14 bp):
TTTAAGATTTATGG
Found at i:4981308 original size:21 final size:21
Alignment explanation
Indices: 4981279--4981321 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4981269 ATATAAATTT
* * *
4981279 TGTATCGATGCAGTGCTACAG
1 TGTACCGATGCACTACTACAG
4981300 TGTACCGATGCACTACTACAG
1 TGTACCGATGCACTACTACAG
4981321 T
1 T
4981322 AACTTCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
TGTACCGATGCACTACTACAG
Found at i:4983385 original size:58 final size:58
Alignment explanation
Indices: 4983295--4983410 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 58
4983285 CAGAAAATTT
*
4983295 AAGAAACTGCTATCCTGGTAAAATGGATACAATTACATTCAACCTAGTATGAGTAGTC
1 AAGAAACTGCTATCCTGGTAAAATGGATACAATTACATTCAACCTAGTATGAATAGTC
* * *
4983353 AAGAAACTGTTATCCTGGTAAAATGGATACAATTACATTCATCGTAGTATGAATAGTC
1 AAGAAACTGCTATCCTGGTAAAATGGATACAATTACATTCAACCTAGTATGAATAGTC
4983411 GTGATACCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (58 bp):
AAGAAACTGCTATCCTGGTAAAATGGATACAATTACATTCAACCTAGTATGAATAGTC
Found at i:4985827 original size:24 final size:24
Alignment explanation
Indices: 4985800--4985859 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
4985790 TTTCCTTTCT
4985800 TTCTTTTTTCTTTCTCTTT-CTCTC
1 TTCTTTTTTCTTTCTCTTTCCTC-C
* * *
4985824 TTCTTCTCTCCTTCTCTTTCCTCC
1 TTCTTTTTTCTTTCTCTTTCCTCC
4985848 TTCCTTTTTTCT
1 TT-CTTTTTTCT
4985860 CTCCTCCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (24 bp):
TTCTTTTTTCTTTCTCTTTCCTCC
Found at i:4985861 original size:29 final size:27
Alignment explanation
Indices: 4985810--4985896 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 27
4985800 TTCTTTTTTC
*
4985810 TTTCTCTTTCTCTCTTCTTCTCTCCTTCT
1 TTTC-CTTTC-CTTTTCTTCTCTCCTTCT
*
4985839 CTTTCCTCCTTCCTTTT-TTCTCTCCTCCT
1 -TTTCCT--TTCCTTTTCTTCTCTCCTTCT
4985868 TTTCCTTTCCTTTTCTTCTCTCTCTTCT
1 TTTCCTTTCCTTTTCTTCTCTC-CTTCT
4985896 T
1 T
4985897 CCTCTTTCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
26 8 0.16
27 7 0.14
28 11 0.22
29 13 0.26
30 8 0.16
31 3 0.06
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTCCTTTCCTTTTCTTCTCTCCTTCT
Found at i:4985869 original size:27 final size:26
Alignment explanation
Indices: 4985809--4985916 Score: 75
Period size: 26 Copynumber: 4.1 Consensus size: 26
4985799 TTTCTTTTTT
* *
4985809 CTTTCTCTTTCTCTCTTCTTCTCTCCTTC
1 CTTTCTCCTTC-CT-TTTTTCTCTCC-TC
4985838 TCTTTCCTCCTTCCTTTTTTCTCTCCTC
1 -CTTT-CTCCTTCCTTTTTTCTCTCCTC
4985866 CTTT-TCCTTTCCTTTTCTTCTCT-CT-
1 CTTTCTCC-TTCCTTTT-TTCTCTCCTC
*
4985891 C-TTCTTCC-T-CTTTCTTCTCTCCTC
1 CTTTC-TCCTTCCTTTTTTCTCTCCTC
4985915 CT
1 CT
4985917 CTCCGAATCG
Statistics
Matches: 67, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
22 6 0.09
23 6 0.09
24 4 0.06
25 4 0.06
26 13 0.19
27 10 0.15
28 2 0.03
29 10 0.15
30 6 0.09
31 6 0.09
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (26 bp):
CTTTCTCCTTCCTTTTTTCTCTCCTC
Found at i:4985918 original size:26 final size:26
Alignment explanation
Indices: 4985845--4985918 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
4985835 TTCTCTTTCC
*
4985845 TCCTTCCTTTT-TTCTCTCCTCCTTT
1 TCCTTCCTTTTCTTCTCTCCTCCTCT
*
4985870 TCCTTTCCTTTTCTTCTCT-CTCTTCT
1 TCC-TTCCTTTTCTTCTCTCCTCCTCT
4985896 TCC-T-C-TTTCTTCTCTCCTCCTCT
1 TCCTTCCTTTTCTTCTCTCCTCCTCT
4985919 CCGAATCGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
22 10 0.23
23 7 0.16
24 1 0.02
25 3 0.07
26 16 0.37
27 6 0.14
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (26 bp):
TCCTTCCTTTTCTTCTCTCCTCCTCT
Found at i:4986107 original size:6 final size:6
Alignment explanation
Indices: 4986097--4986141 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
4986087 CTCTGACTCA
*
4986097 GATTTC AATTTC GATTTC GATTTC GATTTC GATTTC GATTTC GAT
1 GATTTC GATTTC GATTTC GATTTC GATTTC GATTTC GATTTC GAT
4986142 GGCGTTCCCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
GATTTC
Found at i:4988807 original size:87 final size:87
Alignment explanation
Indices: 4988661--4989104 Score: 834
Period size: 87 Copynumber: 5.1 Consensus size: 87
4988651 TCACGAAATA
4988661 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
1 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
*
4988726 TTTGGTTGGTTTAGCATGAATG
66 TTTGGTTGGTTTAGCAGGAATG
*
4988748 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGAGAATGTTGTATTTTGTG
1 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
4988813 TTTGGTTGGTTTAGCAGGAATG
66 TTTGGTTGGTTTAGCAGGAATG
4988835 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
1 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
4988900 TTTGGTTGGTTTAGCAGGAATG
66 TTTGGTTGGTTTAGCAGGAATG
*
4988922 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGAGAATGTTGTATTTTGTG
1 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
4988987 TTTGGTTGGTTTAGCAGGAATG
66 TTTGGTTGGTTTAGCAGGAATG
* *
4989009 TAAGATTACTAGTGGGAATAAAATATTACCAGAGAATAGGATTACTGGGAATGTTGTATTTTGTG
1 TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
*
4989074 TTTGGTTGGTTTAGCAAGAATG
66 TTTGGTTGGTTTAGCAGGAATG
4989096 TAAGATTAC
1 TAAGATTAC
4989105 CGTGTTTGGT
Statistics
Matches: 349, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 349 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (87 bp):
TAAGATTACTAGTGGGAATAAAAGATTACCAGGGAATAGGATTACTGGGAATGTTGTATTTTGTG
TTTGGTTGGTTTAGCAGGAATG
Found at i:4990262 original size:21 final size:21
Alignment explanation
Indices: 4990233--4990272 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4990223 CACATTACTA
4990233 TTATAAATTATCATGTAAGTT
1 TTATAAATTATCATGTAAGTT
* *
4990254 TTATGAATTGTCATGTAAG
1 TTATAAATTATCATGTAAG
4990273 CGTGTAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (21 bp):
TTATAAATTATCATGTAAGTT
Found at i:4996968 original size:15 final size:15
Alignment explanation
Indices: 4996948--4997052 Score: 102
Period size: 15 Copynumber: 6.6 Consensus size: 15
4996938 ACAATATCGA
4996948 TATCGATACAAGTAG
1 TATCGATACAAGTAG
*
4996963 TATCGATACAAGCAG
1 TATCGATACAAGTAG
**
4996978 TATCGATACTGTTGTAGG
1 TATCGATAC--AAGTA-G
*
4996996 TATCGATACAAGCAG
1 TATCGATACAAGTAG
**
4997011 TATCGATACTGTTGTAGG
1 TATCGATAC--AAGTA-G
4997029 TATCGATACAAGTAG
1 TATCGATACAAGTAG
4997044 TATCGATAC
1 TATCGATAC
4997053 TGCTGTAGGT
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
15 43 0.60
16 5 0.07
17 4 0.06
18 20 0.28
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (15 bp):
TATCGATACAAGTAG
Found at i:4996998 original size:18 final size:18
Alignment explanation
Indices: 4996977--4997071 Score: 94
Period size: 18 Copynumber: 5.6 Consensus size: 18
4996967 GATACAAGCA
*
4996977 GTATCGATACTGTTGTAG
1 GTATCGATACTGATGTAG
* *
4996995 GTATCGATAC--AAGCA-
1 GTATCGATACTGATGTAG
*
4997010 GTATCGATACTGTTGTAG
1 GTATCGATACTGATGTAG
*
4997028 GTATCGATAC--AAGTA-
1 GTATCGATACTGATGTAG
*
4997043 GTATCGATACTGCTGTAG
1 GTATCGATACTGATGTAG
4997061 GTATCGATACT
1 GTATCGATACT
4997072 AAGAGGAAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
15 20 0.33
16 5 0.08
17 5 0.08
18 31 0.51
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (18 bp):
GTATCGATACTGATGTAG
Found at i:4997003 original size:33 final size:33
Alignment explanation
Indices: 4996962--4997070 Score: 200
Period size: 33 Copynumber: 3.3 Consensus size: 33
4996952 GATACAAGTA
4996962 GTATCGATACAAGCAGTATCGATACTGTTGTAG
1 GTATCGATACAAGCAGTATCGATACTGTTGTAG
4996995 GTATCGATACAAGCAGTATCGATACTGTTGTAG
1 GTATCGATACAAGCAGTATCGATACTGTTGTAG
* *
4997028 GTATCGATACAAGTAGTATCGATACTGCTGTAG
1 GTATCGATACAAGCAGTATCGATACTGTTGTAG
4997061 GTATCGATAC
1 GTATCGATAC
4997071 TAAGAGGAAG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (33 bp):
GTATCGATACAAGCAGTATCGATACTGTTGTAG
Found at i:4997952 original size:54 final size:54
Alignment explanation
Indices: 4997862--4998014 Score: 211
Period size: 54 Copynumber: 2.8 Consensus size: 54
4997852 ATATAGTTTT
4997862 GGCACTATGTGTGCAACCCAT-AGAATTCATAATGAGTTTATGAATGA-TCGTATC
1 GGCACTATGTGTGCAACCCATGA-AATTCATAATGAGTTTATGAATGACT-GTATC
* * *
4997916 GGTACTAAGTGTGCAACCCATGAAATTCATAATGAGTTTATGAATGACTGTATT
1 GGCACTATGTGTGCAACCCATGAAATTCATAATGAGTTTATGAATGACTGTATC
* * * *
4997970 GGCACTATGTGTGCAATCCATGGAATTCATAATAAGTTTGTGAAT
1 GGCACTATGTGTGCAACCCATGAAATTCATAATGAGTTTATGAAT
4998015 TTCCATTTTG
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
54 86 0.98
55 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCCATGAAATTCATAATGAGTTTATGAATGACTGTATC
Found at i:5001532 original size:14 final size:13
Alignment explanation
Indices: 5001511--5001543 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
5001501 AATGTTGCTG
5001511 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
5001524 TTCTTTTTTTTCTT
1 TT-TTTTTTTTCTT
5001538 TTTTTT
1 TTTTTT
5001544 GGAGCATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:5001534 original size:9 final size:9
Alignment explanation
Indices: 5001511--5001543 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
5001501 AATGTTGCTG
5001511 TTTTTTT-T
1 TTTTTTTCT
*
5001519 TTCTTTTCT
1 TTTTTTTCT
5001528 TTTTTTTCT
1 TTTTTTTCT
5001537 TTTTTTT
1 TTTTTTT
5001544 GGAGCATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:5014763 original size:6 final size:6
Alignment explanation
Indices: 5014748--5014804 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
5014738 AACATTTTCT
* * *
5014748 AAAA-A AAAATA AAAATA AAATTA AAATTA AAAATA AAAATA AAAACA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
5014795 AAAACA AAAA
1 AAAATA AAAA
5014805 CCTCCAGCTG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
5 4 0.08
6 44 0.92
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:5016954 original size:57 final size:57
Alignment explanation
Indices: 5016878--5017093 Score: 306
Period size: 57 Copynumber: 3.8 Consensus size: 57
5016868 TTTAAATTCA
* * *
5016878 CAACGCTAATTACCGATATAGGTAAATAATACTATCACAACGCGAATAGGAAAATCG
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGAATAGGAAAATCG
* * *
5016935 CAACACTAATTACCAATATAGGTAAACAGTACTATCGCAACACGAATAGGAAAATCG
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGAATAGGAAAATCG
* *** *
5016992 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTTCAAAGTCG
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGAATAGGAAAATCG
* * *
5017049 CAACGCTAATTACCTACATAGGTAAACACTACTATCGCAACGCGA
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGA
5017094 TTTTTAAATT
Statistics
Matches: 142, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 142 1.00
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (57 bp):
CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGAATAGGAAAATCG
Found at i:5017094 original size:57 final size:57
Alignment explanation
Indices: 5016854--5017097 Score: 290
Period size: 57 Copynumber: 4.3 Consensus size: 57
5016844 GAATAGGAAA
** * * * * *
5016854 ATCGCAACGTAATTTTTAAATTCACAACGCTAATTACCGATATAGGTAAATAATACT
1 ATCGCAACGCGATTTTGAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACT
* * ** * *
5016911 ATCACAACGCGAATAGGAAAATCGCAACACTAATTACCAATATAGGTAAACAGTACT
1 ATCGCAACGCGATTTTGAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACT
* * **
5016968 ATCGCAACACGAATAGGAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACT
1 ATCGCAACGCGATTTTGAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACT
* * * * *
5017025 ATCGCAACGCGATTTTCAAAGTCGCAACGCTAATTACCTACATAGGTAAACACTACT
1 ATCGCAACGCGATTTTGAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACT
5017082 ATCGCAACGCGATTTT
1 ATCGCAACGCGATTTT
5017098 TAAATTCGTA
Statistics
Matches: 161, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 161 1.00
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (57 bp):
ATCGCAACGCGATTTTGAAAATCGCAACGCTAATTACCGATATAGGTAAACAGTACT
Found at i:5017468 original size:20 final size:20
Alignment explanation
Indices: 5017440--5017491 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
5017430 AATTTGAAAA
* *
5017440 TCGCTTTGCGGTTTTACTAT
1 TCGCGTTGCGATTTTACTAT
*
5017460 TCGCGTTGCGATTTTCCTAT
1 TCGCGTTGCGATTTTACTAT
*
5017480 TCTCGTTGCGAT
1 TCGCGTTGCGAT
5017492 AGTACTGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (20 bp):
TCGCGTTGCGATTTTACTAT
Found at i:5017544 original size:20 final size:20
Alignment explanation
Indices: 5017519--5017571 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
5017509 TCGGTAATTA
5017519 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
* * * *
5017539 GCGTTGCGATTTTGGAACTT
1 GCGTTGCGAATTTGAAAATC
*
5017559 GTGTTGCGAATTT
1 GCGTTGCGAATTT
5017572 ATTGGTCATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:5017784 original size:23 final size:23
Alignment explanation
Indices: 5017733--5017789 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
5017723 TAATTTTTAT
* *
5017733 TTTAA-AAATGAA-TTATAAAAT
1 TTTAAGAAATAAATTTATAAAAG
5017754 TTTAAGAAGATAAATTTATAAAAG
1 TTTAAGAA-ATAAATTTATAAAAG
5017778 TTT-AGAAATAAA
1 TTTAAGAAATAAA
5017790 AATCTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 5 0.16
22 7 0.23
23 8 0.26
24 11 0.35
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (23 bp):
TTTAAGAAATAAATTTATAAAAG
Found at i:5017803 original size:15 final size:16
Alignment explanation
Indices: 5017785--5017822 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
5017775 AAGTTTAGAA
*
5017785 ATAAAAATCTAT-TAT
1 ATAAAAATATATATAT
5017800 ATAAAAA-ATATATAT
1 ATAAAAATATATATAT
5017815 ATAAAAAT
1 ATAAAAAT
5017823 TTGAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAAAATATATATAT
Found at i:5018104 original size:42 final size:42
Alignment explanation
Indices: 5018042--5018161 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
5018032 TTTTTCTGAA
* *
5018042 TTCTCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTT
1 TTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
5018084 TTCTCGTGTTTGTTTTACGTAATTCGTTTTCCGGAAAACGTT
1 TTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
5018126 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
5018162 TGTAATTCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.16, C:0.17, G:0.19, T:0.47
Consensus pattern (42 bp):
TTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:5018455 original size:26 final size:27
Alignment explanation
Indices: 5018369--5018493 Score: 93
Period size: 26 Copynumber: 4.6 Consensus size: 27
5018359 TAAATAAAAA
* * * *
5018369 TTTATTTTTAATATTATATAAAATAAT
1 TTTATATTTAATAATATATAATATTAT
*
5018396 TAATTATA-TAAATAATATA-AGATA-TAT
1 T--TTATATTTAATAATATATA-ATATTAT
5018423 TTT-TATTTAATATATATATAA-ATT-T
1 TTTATATTTAATA-ATATATAATATTAT
5018448 TTTATATTTAATAATGA-ATAATATTAT
1 TTTATATTTAATAAT-ATATAATATTAT
5018475 TTATATATTTCAATAATAT
1 TT-TATATTT-AATAATAT
5018494 TTTAGTAAAG
Statistics
Matches: 78, Mismatches: 6, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
24 2 0.03
25 18 0.23
26 20 0.26
27 9 0.12
28 19 0.24
29 10 0.13
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTATATTTAATAATATATAATATTAT
Found at i:5018717 original size:20 final size:20
Alignment explanation
Indices: 5018659--5018708 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
5018649 TTTCCAGATG
5018659 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
5018679 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
5018699 TTTTCCAGAA
1 TTTTCCAGAA
5018709 TTCAAATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:5018727 original size:15 final size:15
Alignment explanation
Indices: 5018691--5018772 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
5018681 TTCCAGAAAT
**
5018691 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
5018706 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
5018720 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
5018735 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
5018750 GTAATTCAAATTTCA
1 GTAATTCAAATTCCA
5018765 GTAATTCA
1 GTAATTCA
5018773 TTTTCTGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:5018743 original size:30 final size:30
Alignment explanation
Indices: 5018691--5018772 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
5018681 TTCCAGAAAT
5018691 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
5018720 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
5018750 GTAATTCAAATTT-CAGTAATTCA
1 GTAATTC-ATTTTCCAGTAATTCA
5018773 TTTTCTGGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
29 16 0.32
30 30 0.60
31 4 0.08
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:5018768 original size:45 final size:44
Alignment explanation
Indices: 5018691--5018777 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
5018681 TTCCAGAAAT
**
5018691 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
*
5018735 GTAATTCAAATTCCAGTAATTCAAATTTCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
5018778 TGGAAAACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.41
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:5021616 original size:197 final size:200
Alignment explanation
Indices: 5021292--5021830 Score: 635
Period size: 200 Copynumber: 2.7 Consensus size: 200
5021282 GCACGTTTGA
* *
5021292 GAGGTATTTTCAAGTAGTTAATTTAATTTTTTTCGTAATTTATAAGATTAGAGGCGTAGTATTGA
1 GAGGTATTTTCAAGTAGTTAATCTAATTTTTTT-GTAATTTATAAGATTAGAGGCGTAGTATTGT
* * * * **
5021357 AATTTATCTTTCATTTGA-GACCAATATCGACACATACGAGATATTGTAAGCGGGTTAAAAATCG
65 AACTTATCTTTCAATTGAGGA-TAATATCGACACATACGAGATATTGTAAGTGGAATAAAAATCG
* * * *
5021421 CGTTGAAAATGGTTCCAAAGCTT-GTTTTGCGCATGAAGAAAAAGCTAAAATGGTTTGATAGGCA
129 CGTTAAAAATGGTTCCAAAGCTTGGTTTTGCGCATGAAGAAAAAGCTAAAATGGCTTAATAGACA
5021485 TATTCGAG
194 TATTCG-G
* * *
5021493 G-GGTATTTTCCAGTAGTTAATCTAA-TTTTTTATAATTTATAA-ATTAGAGTCGTAGTATTGTA
1 GAGGTATTTTCAAGTAGTTAATCTAATTTTTTTGTAATTTATAAGATTAGAGGCGTAGTATTGTA
5021555 ACTTATCTTTCAATTGAGGATAATATC-ATCACATACGAGATATTGTAAGTGGAATAAAAATCGC
66 ACTTATCTTTCAATTGAGGATAATATCGA-CACATACGAGATATTGTAAGTGGAATAAAAATCGC
* * *
5021619 GTTCAAAATGGTTCCAAAGCTTGGTTTTGTGCATGAAGAATAAGCTAAAATGGCTTAATAGACAT
130 GTTAAAAATGGTTCCAAAGCTTGGTTTTGCGCATGAAGAAAAAGCTAAAATGGCTTAATAGACAT
* *
5021684 GTTTGG
195 ATTCGG
* * ** * * *
5021690 GAAGCATGTTT-GGGAAGTTAATCTAATTTTTTTGTAATTTATAAGATTGGAGGCGTAGTACTAG
1 GAGGTAT-TTTCAAGTAGTTAATCTAATTTTTTTGTAATTTATAAGATTAGAGGCGTAGTA-TTG
* * * * * * *** *
5021754 T-ACTTATGTTTCAATCGAGGCTAGTATCGACACATACGAGACATTCTAAGTGGTGCAAATATCG
64 TAACTTATCTTTCAATTGAGGATAATATCGACACATACGAGATATTGTAAGTGGAATAAAAATCG
5021818 CGTTAAAAATGGT
129 CGTTAAAAATGGT
5021831 CCGAAACAAA
Statistics
Matches: 290, Mismatches: 39, Indels: 19
0.83 0.11 0.05
Matches are distributed among these distances:
196 1 0.00
197 94 0.32
198 67 0.23
199 25 0.09
200 98 0.34
201 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (200 bp):
GAGGTATTTTCAAGTAGTTAATCTAATTTTTTTGTAATTTATAAGATTAGAGGCGTAGTATTGTA
ACTTATCTTTCAATTGAGGATAATATCGACACATACGAGATATTGTAAGTGGAATAAAAATCGCG
TTAAAAATGGTTCCAAAGCTTGGTTTTGCGCATGAAGAAAAAGCTAAAATGGCTTAATAGACATA
TTCGG
Found at i:5021699 original size:13 final size:13
Alignment explanation
Indices: 5021681--5021706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5021671 GCTTAATAGA
5021681 CATGTTTGGGAAG
1 CATGTTTGGGAAG
5021694 CATGTTTGGGAAG
1 CATGTTTGGGAAG
5021707 TTAATCTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.31
Consensus pattern (13 bp):
CATGTTTGGGAAG
Found at i:5024757 original size:84 final size:84
Alignment explanation
Indices: 5024660--5024836 Score: 318
Period size: 84 Copynumber: 2.1 Consensus size: 84
5024650 GGAAGAATAT
* * *
5024660 TATCGATACTATAGGTTCAAATTTGAAGAATTGCAATGAACAGTATCGATACTGATGCAATTATT
1 TATCGATACTATAGGTTCAAATTTGAAGAATTGCAATGAAAAATATCGATACTGATGCAATTAGT
5024725 ATCGATACTAAGAGAAAGG
66 ATCGATACTAAGAGAAAGG
*
5024744 TATCGATACTATAGGTTTAAATTTGAAGAATTGCAATGAAAAATATCGATACTGATGCAATTAGT
1 TATCGATACTATAGGTTCAAATTTGAAGAATTGCAATGAAAAATATCGATACTGATGCAATTAGT
5024809 ATCGATACTAAGAGAAAGG
66 ATCGATACTAAGAGAAAGG
5024828 TATCGATAC
1 TATCGATAC
5024837 CATGGATTCC
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (84 bp):
TATCGATACTATAGGTTCAAATTTGAAGAATTGCAATGAAAAATATCGATACTGATGCAATTAGT
ATCGATACTAAGAGAAAGG
Found at i:5025434 original size:46 final size:46
Alignment explanation
Indices: 5025338--5025650 Score: 504
Period size: 46 Copynumber: 6.8 Consensus size: 46
5025328 ATGAATGAAC
*
5025338 AAATGAAAATGCATAATGGTGCATTATCG-CATGAAAGGATGCCAT
1 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
* *
5025383 AAATGAAAATGCATAACAGTGCATTATCGACATGAAAGAATGCCAT
1 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
* *
5025429 AAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCAC
1 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
5025475 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
1 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
* *
5025521 AAATAAAAATGCATAACGGTGCATTATCGTCATGAAAGGATGCCAT
1 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
*
5025567 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAC
1 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
* * * *
5025613 AAATG-AAATGCTTAACGGTGCAGTAACGACATAAAAGG
1 AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGG
5025651 TGTCACTCAT
Statistics
Matches: 249, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 56 0.22
46 193 0.78
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (46 bp):
AAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCAT
Found at i:5031960 original size:18 final size:18
Alignment explanation
Indices: 5031933--5031992 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 18
5031923 AATATAAAAT
5031933 ATAA-ATATTAAATCAAC
1 ATAATATATTAAATCAAC
5031950 A-AATCATATTAAA-CAAC
1 ATAAT-ATATTAAATCAAC
5031967 ATAATA-ATTAAAT-AA-
1 ATAATATATTAAATCAAC
5031982 ATGAATATATT
1 AT-AATATATT
5031993 TAACTACCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.05
16 14 0.38
17 10 0.27
18 11 0.30
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAATATATTAAATCAAC
Found at i:5032257 original size:25 final size:25
Alignment explanation
Indices: 5032202--5032250 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
5032192 CCAAAGAGTA
*
5032202 AACTCAAACAAAAAACATTATACAG
1 AACTTAAACAAAAAACATTATACAG
5032227 AACTTAAACAAAAAACATTATACA
1 AACTTAAACAAAAAACATTATACA
5032251 AACCTTACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.61, C:0.18, G:0.02, T:0.18
Consensus pattern (25 bp):
AACTTAAACAAAAAACATTATACAG
Found at i:5032949 original size:37 final size:37
Alignment explanation
Indices: 5032908--5032983 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
5032898 TACTTTAAAA
5032908 TTTTATTATGAAATTAATTATAGTAGAAATTACAATT
1 TTTTATTATGAAATTAATTATAGTAGAAATTACAATT
*
5032945 TTTTATTATGAATTTAATTATAGTAGAAATTACAATT
1 TTTTATTATGAAATTAATTATAGTAGAAATTACAATT
5032982 TT
1 TT
5032984 GGTTGTACCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (37 bp):
TTTTATTATGAAATTAATTATAGTAGAAATTACAATT
Found at i:5033963 original size:9 final size:9
Alignment explanation
Indices: 5033951--5033998 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
5033941 AAAATATAAG
5033951 AAATTATTA
1 AAATTATTA
5033960 AAATT-TTA
1 AAATTATTA
*
5033968 AAAATATTTA
1 AAATTA-TTA
*
5033978 AAAATATTA
1 AAATTATTA
*
5033987 AAATTAGTA
1 AAATTATTA
5033996 AAA
1 AAA
5033999 AAAATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.21
9 18 0.53
10 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
AAATTATTA
Found at i:5033974 original size:27 final size:26
Alignment explanation
Indices: 5033936--5034014 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
5033926 TTGTCCGGTG
5033936 TTTTAAAAATA-TAAGAAATTATTAAAA
1 TTTTAAAAATATTAA-AAA-TATTAAAA
5033963 TTTTAAAAATATTTAAAAATATTAAAA
1 TTTTAAAAATA-TTAAAAATATTAAAA
* * *
5033990 TTAGTAAAAAAAATTATAAATATTA
1 TT--TTAAAAATATTAAAAATATTA
5034015 TTGAAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 21 0.47
28 14 0.31
29 10 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (26 bp):
TTTTAAAAATATTAAAAATATTAAAA
Found at i:5034365 original size:3 final size:3
Alignment explanation
Indices: 5034357--5034398 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
5034347 TGTTAGATGG
5034357 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5034399 GAAAAAGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5034740 original size:17 final size:19
Alignment explanation
Indices: 5034708--5034742 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
5034698 AGTTTAACTC
5034708 TTAATATTTATATTTATTA
1 TTAATATTTATATTTATTA
5034727 TTAAT-TTTAT-TTTATT
1 TTAATATTTATATTTATT
5034743 TTTATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTAATATTTATATTTATTA
Found at i:5041860 original size:15 final size:15
Alignment explanation
Indices: 5041840--5041878 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
5041830 AAAAATCAAG
5041840 AATAAAGATTAAGAC
1 AATAAAGATTAAGAC
* *
5041855 AATAAAGACTAAGAT
1 AATAAAGATTAAGAC
*
5041870 AACAAAGAT
1 AATAAAGAT
5041879 AAATAAAGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.18
Consensus pattern (15 bp):
AATAAAGATTAAGAC
Found at i:5042315 original size:3 final size:3
Alignment explanation
Indices: 5042302--5042374 Score: 128
Period size: 3 Copynumber: 24.0 Consensus size: 3
5042292 CCTAAACATC
*
5042302 TAA TGAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5042348 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
5042375 ACTAAACATG
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5045641 original size:34 final size:34
Alignment explanation
Indices: 5045594--5045678 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
5045584 CCCGAACCCG
* *
5045594 AAAATATTTTATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
5045628 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
5045662 AAAATATTATATATATA
1 AAAATATTATATATATA
5045679 TATAATCGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:5046691 original size:28 final size:30
Alignment explanation
Indices: 5046624--5046701 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
5046614 ACTACTAATA
* * *
5046624 ATATACTATATATATAAATTTTTAAAAGCT
1 ATATACTATATATATATATTTTCAAAAGAT
*
5046654 ATATAATATATAT-TATATTTTCAAAA-AT
1 ATATACTATATATATATATTTTCAAAAGAT
*
5046682 ATCTACTATAATATATATAT
1 ATATACTAT-ATATATATAT
5046702 ATATATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 8 0.20
29 15 0.38
30 17 0.43
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (30 bp):
ATATACTATATATATATATTTTCAAAAGAT
Found at i:5046699 original size:2 final size:2
Alignment explanation
Indices: 5046688--5046744 Score: 52
Period size: 2 Copynumber: 30.0 Consensus size: 2
5046678 AAATATCTAC
*
5046688 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TGA -A AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA
5046729 TA T- TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
5046745 CTCTATGTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
1 5 0.11
2 40 0.85
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:5046715 original size:44 final size:42
Alignment explanation
Indices: 5046653--5046744 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 42
5046643 TTTTAAAAGC
* *
5046653 TATATAATATATATTATATTTTCAAAAATATCTACTATAATA
1 TATATAATATATATTATATTATCAAAAATATATACTATAATA
* * *
5046695 TATATATATATATATATATATTATGAAAACTATATATTATAATA
1 TATATA-ATATATAT-TATATTATCAAAAATATATACTATAATA
5046739 TATATA
1 TATATA
5046745 CTCTATGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 6 0.14
43 8 0.19
44 29 0.67
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (42 bp):
TATATAATATATATTATATTATCAAAAATATATACTATAATA
Found at i:5046996 original size:69 final size:68
Alignment explanation
Indices: 5046856--5047182 Score: 236
Period size: 69 Copynumber: 4.7 Consensus size: 68
5046846 CTACAGAGTC
* * * * * * * * *
5046856 GAGACAAAATTTTTCAAGAGAACATTTTAAGTGAAATGAACATTT-GTTTTGAGAGAAACTGCCT
1 GAGACGAAA-TTTTCAAGGGAATATCTCAAGTGAAATGAA-ATTTAGTTTCGAGTGAAATTGTCT
5046920 CGT-GT
64 C-TAGT
* *
5046925 GAGACGAAAATTTTCAAGGGGATATCTCAAGTGAAATGAAATTTAGTTTCGAGTGAAATTGTATC
1 GAGACG-AAATTTTCAAGGGAATATCTCAAGTGAAATGAAATTTAGTTTCGAGTGAAATTGTCTC
5046990 TAGT
65 TAGT
* * *
5046994 GAGATTGAAATTTTTAAGGGAAAATATCTCAAGTGAGATGAAATTTTA-TTTCGAGTGAAATTGT
1 GAGA-CGAAATTTTCAAGGG--AATATCTCAAGTGAAATGAAA-TTTAGTTTCGAGTGAAATTGT
*
5047058 CTCGAGT
62 CTCTAGT
** * * *
5047065 GAGAC-AAATTTTCAACGTAAAATATCTCAAGT-AAGATAAAATTTTG-AT-GAGTGAAATTGTC
1 GAGACGAAATTTTCAA-G-GGAATATCTCAAGTGAA-ATGAAATTTAGTTTCGAGTGAAATTGTC
*
5047126 TCCAGT
63 TCTAGT
* * *** * *
5047132 GAGACGAAAGTTTCCAAGGAAAATATCTTGTGTGAGATGAAATTTTGTTTC
1 GAGACGAAA-TTTTCAAGG-GAATATCTCAAGTGAAATGAAATTTAGTTTC
5047183 AATTGAGACG
Statistics
Matches: 207, Mismatches: 34, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
67 23 0.11
68 34 0.16
69 97 0.47
70 5 0.02
71 44 0.21
72 4 0.02
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (68 bp):
GAGACGAAATTTTCAAGGGAATATCTCAAGTGAAATGAAATTTAGTTTCGAGTGAAATTGTCTCT
AGT
Found at i:5047035 original size:71 final size:68
Alignment explanation
Indices: 5046923--5047182 Score: 249
Period size: 69 Copynumber: 3.8 Consensus size: 68
5046913 ACTGCCTCGT
** *
5046923 GTGAGACGAAAATTTTCAAGG-GGATATCTCAAGTGAAATGAAATTTAGTTTCGAGTGAAATTGT
1 GTGAGA-G-AAATTTTCAAGGAAAATATCTCAAGTGAGATGAAATTTAGTTTCGAGTGAAATTGT
* *
5046987 ATCTA
64 CTCCA
*
5046992 GTGAGATTGAAATTTTTAAGGGAAAATATCTCAAGTGAGATGAAATTTTA-TTTCGAGTGAAATT
1 GTGAGA--GAAATTTTCAA-GGAAAATATCTCAAGTGAGATGAAA-TTTAGTTTCGAGTGAAATT
*
5047056 GTCTCGA
62 GTCTCCA
* * * * * *
5047063 GTGAGACAAATTTTCAACGTAAAATATCTCAAGTAAGATAAAATTTTG-AT-GAGTGAAATTGTC
1 GTGAGAGAAATTTTCAA-GGAAAATATCTCAAGTGAGATGAAATTTAGTTTCGAGTGAAATTGTC
5047126 TCCA
65 TCCA
* *** *
5047130 GTGAGACGAAAGTTTCCAAGGAAAATATCTTGTGTGAGATGAAATTTTGTTTC
1 GTGAGA-GAAA-TTTTCAAGGAAAATATCTCAAGTGAGATGAAATTTAGTTTC
5047183 AATTGAGACG
Statistics
Matches: 157, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
67 22 0.14
68 31 0.20
69 53 0.34
70 3 0.02
71 44 0.28
72 4 0.03
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (68 bp):
GTGAGAGAAATTTTCAAGGAAAATATCTCAAGTGAGATGAAATTTAGTTTCGAGTGAAATTGTCT
CCA
Found at i:5047205 original size:55 final size:56
Alignment explanation
Indices: 5047131--5047238 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
5047121 TTGTCTCCAG
* ****
5047131 TGAGACGAAAGTTTCCAA-GGAAAATATCTTGTGTGAGATGAAATTTTGTTTCAAT
1 TGAGACGAAAATTTCCAAGGGAAAATATCTCAACTGAGATGAAATTTTGTTTCAAT
*
5047186 TGAGACGAAAATTTTCAAGGGAAAATATCTCAACTGAGATGAAATTTTGTTTC
1 TGAGACGAAAATTTCCAAGGGAAAATATCTCAACTGAGATGAAATTTTGTTTC
5047239 GAGTGAAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 16 0.35
56 30 0.65
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.33
Consensus pattern (56 bp):
TGAGACGAAAATTTCCAAGGGAAAATATCTCAACTGAGATGAAATTTTGTTTCAAT
Found at i:5047311 original size:37 final size:36
Alignment explanation
Indices: 5047198--5047311 Score: 90
Period size: 37 Copynumber: 3.2 Consensus size: 36
5047188 AGACGAAAAT
* *
5047198 TTTCAAGGGAAAATATCTCAACTGAGATGAAATTTTG
1 TTTCAAGGGAAAATATCTCAAGTGA-ATGCAATTTTG
* * * * * ***
5047235 TTTCGAGTGAAACTATCTCCAGT-AAGGCGAA--AAC
1 TTTCAAGGGAAAATATCTCAAGTGAATGC-AATTTTG
5047269 TTTCAAGGGAAAATATCTCAAGTGATATGCAATTTTG
1 TTTCAAGGGAAAATATCTCAAGTGA-ATGCAATTTTG
5047306 TTTCAA
1 TTTCAA
5047312 TTAGATTGTC
Statistics
Matches: 54, Mismatches: 18, Indels: 10
0.66 0.22 0.12
Matches are distributed among these distances:
34 19 0.35
35 5 0.09
36 6 0.11
37 24 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (36 bp):
TTTCAAGGGAAAATATCTCAAGTGAATGCAATTTTG
Found at i:5061026 original size:32 final size:32
Alignment explanation
Indices: 5060997--5061058 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
5060987 TATCAATGAA
5060997 TAAAATGCAAAGC-GAAAA-GTAAATGCAATG
1 TAAAATGCAAAGCAGAAAATGTAAATGCAATG
* *
5061027 TGAAATGCAATGCAGAAAATGTAAATGCAATG
1 TAAAATGCAAAGCAGAAAATGTAAATGCAATG
5061059 CAAGGTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 11 0.39
31 5 0.18
32 12 0.43
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (32 bp):
TAAAATGCAAAGCAGAAAATGTAAATGCAATG
Found at i:5065430 original size:23 final size:23
Alignment explanation
Indices: 5065404--5065472 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
5065394 CACCACAGCT
*
5065404 CGTATAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCAAAGTGCCA
* * *
5065427 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCAAAGTGCCA
5065450 CGTAGAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCAAAGTGCCA
5065473 TATAAAATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (23 bp):
CGTAGAAATGCACCAAAGTGCCA
Found at i:5067360 original size:11 final size:11
Alignment explanation
Indices: 5067344--5067368 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5067334 TTTTAAGCAA
5067344 TCTTAAGCTTT
1 TCTTAAGCTTT
5067355 TCTTAAGCTTT
1 TCTTAAGCTTT
5067366 TCT
1 TCT
5067369 ATCACCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (11 bp):
TCTTAAGCTTT
Found at i:5067965 original size:131 final size:131
Alignment explanation
Indices: 5067729--5068011 Score: 368
Period size: 131 Copynumber: 2.2 Consensus size: 131
5067719 ACTCCGATCA
* * * ** *
5067729 AAATGAAGAGATATCATTATTTCATTTTAAAATTCAATATTGATTCGAGAGAAAATGAAAATATC
1 AAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTAGAGAGAAAACCAAAATATA
* * * * * *
5067794 TAATTATTTCCAATCGAGAATAAATGACTTATCATACCTTAAAGCATTCATTTATTAGTCCAATC
66 TAATAATTTCCAATCGAGAATAAATAACCTATCATACCTTAAAGCAGTCATTTATTACTCCAACC
5067859 G
131 G
* * *
5067860 AAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGTTTAGAGATAAAACCACAATATA
1 AAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTAGAGAGAAAACCAAAATATA
* * * *
5067925 TAATAATTTCCAATCGGGAATAAATAACCTCTCGTGCCTTAAAGCAGTCATTTATTACTCCAACC
66 TAATAATTTCCAATCGAGAATAAATAACCTATCATACCTTAAAGCAGTCATTTATTACTCCAACC
5067990 G
131 G
* * *
5067991 AAATGAAAAGATGTTACTATT
1 AAATGAAGAGATATCACTATT
5068012 CTCAATATTG
Statistics
Matches: 130, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (131 bp):
AAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTAGAGAGAAAACCAAAATATA
TAATAATTTCCAATCGAGAATAAATAACCTATCATACCTTAAAGCAGTCATTTATTACTCCAACC
G
Found at i:5069013 original size:23 final size:23
Alignment explanation
Indices: 5068916--5069005 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
5068906 GAGGTGCCAG
* *
5068916 ATAGAATTGTCTCGAAGGACCAC
1 ATAGAATTGTCCCAAAGGACCAC
* * *
5068939 ATAGTATTATCCCAAAGGACCGC
1 ATAGAATTGTCCCAAAGGACCAC
* * *
5068962 ATAAAAATGTCCCAAAGGACCAT
1 ATAGAATTGTCCCAAAGGACCAC
*
5068985 GTAGAATTGTCCCAAAGGACC
1 ATAGAATTGTCCCAAAGGACC
5069006 GCGTAGAAAC
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (23 bp):
ATAGAATTGTCCCAAAGGACCAC
Found at i:5075902 original size:24 final size:24
Alignment explanation
Indices: 5075875--5075922 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5075865 CACCACAGCT
* *
5075875 CGTATAAATTTCACCGAA-GTGCCA
1 CGTAGAAATTGCACC-AAGGTGCCA
5075899 CGTAGAAATTGCACCAAGGTGCCA
1 CGTAGAAATTGCACCAAGGTGCCA
5075923 GATATAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (24 bp):
CGTAGAAATTGCACCAAGGTGCCA
Found at i:5075997 original size:23 final size:23
Alignment explanation
Indices: 5075954--5076021 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
5075944 CATATAGTAT
* * *
5075954 TATCCCGAAGAACCGCATAGAAA
1 TATCCCGAAGGACCACGTAGAAA
* ** *
5075977 TGTCTTGAAGGACCACGTAGAAT
1 TATCCCGAAGGACCACGTAGAAA
*
5076000 TATCCCGAAGGACCGCGTAGAA
1 TATCCCGAAGGACCACGTAGAA
5076022 CCCTCAACTC
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (23 bp):
TATCCCGAAGGACCACGTAGAAA
Found at i:5082143 original size:55 final size:55
Alignment explanation
Indices: 5082030--5082414 Score: 505
Period size: 55 Copynumber: 7.1 Consensus size: 55
5082020 TATATGTTGC
* *
5082030 AATTTTCGTATTGGCACTATG-GTGCAACCCCACAAAATTCATAATGAGTTTATG
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATG
* * *
5082084 AATTTTTGTATTGGCACTATGTGTGAAACCTCACGAAATCCATAATGAGTTTATG
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATG
* * *
5082139 AATTTTCATATTGGCACTATGTGTGCAACCTCGCAAAATTCATAATGAGTTTATG
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATG
* *
5082194 AATTTTCGCATTGGCACTATGTGTGCAACAC-CATGAAATTCATAATGAGTTTATG
1 AATTTTCGTATTGGCACTATGTGTGCAAC-CTCACGAAATTCATAATGAGTTTATG
* **
5082249 AATTTAT-GTATTGACACTATGTGTGCAACCTCACGAAATTTGTAATGAGTTTATG
1 AATTT-TCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATG
* *
5082304 AATTTCCGTATTGGCACTATGTGTGCAACC-CAC-ATAATTCATAATGAGTTTTTG
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACGA-AATTCATAATGAGTTTATG
** * * *
5082358 AATTAGCGTATTGGCATTATGTGTGCAACCT-AC-ATAATTCACAATGAGTTTCTG
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACGA-AATTCATAATGAGTTTATG
5082412 AAT
1 AAT
5082415 GAACGTATCA
Statistics
Matches: 293, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.00
54 91 0.31
55 199 0.68
56 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (55 bp):
AATTTTCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATG
Found at i:5082188 original size:110 final size:109
Alignment explanation
Indices: 5082030--5082479 Score: 530
Period size: 110 Copynumber: 4.1 Consensus size: 109
5082020 TATATGTTGC
* *
5082030 AATTTTCGTATTGGCACTATG-GTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTTTGTA
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATGAATTTTCGTA
* *
5082094 TTGGCACTATGTGTGAAACCTCACGAAATCCATAATGAGTTTATG
66 TTGGCACTATGTGTGCAACC-CACGAAATTCATAATGAGTTTATG
* * *
5082139 AATTTTCATATTGGCACTATGTGTGCAACCTCGCAAAATTCATAATGAGTTTATGAATTTTCGCA
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATGAATTTTCGTA
*
5082204 TTGGCACTATGTGTGCAACACCATGAAATTCATAATGAGTTTATG
66 TTGGCACTATGTGTGCAAC-CCACGAAATTCATAATGAGTTTATG
* * ** *
5082249 AATTTAT-GTATTGACACTATGTGTGCAACCTCACGAAATTTGTAATGAGTTTATGAATTTCCGT
1 AATTT-TCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATGAATTTTCGT
*
5082313 ATTGGCACTATGTGTGCAACCCAC-ATAATTCATAATGAGTTTTTG
65 ATTGGCACTATGTGTGCAACCCACGA-AATTCATAATGAGTTTATG
** * * * * ***
5082358 AATTAGCGTATTGGCATTATGTGTGCAACCT-ACATAATTCACAATGAGTTTCTGAATGAACGTA
1 AATTTTCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATGAATTTTCGTA
** * * * * * * *
5082422 TCAGCACTATATGTGCACCCCAAGGATTTCAAAATGAGGTTATG
66 TTGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATG
* *
5082466 AATTTCCATATTGG
1 AATTTTCGTATTGG
5082480 TACTTAGGTG
Statistics
Matches: 291, Mismatches: 44, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
108 69 0.24
109 67 0.23
110 153 0.53
111 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (109 bp):
AATTTTCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATGAATTTTCGTA
TTGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATG
Found at i:5083291 original size:2 final size:2
Alignment explanation
Indices: 5083284--5083312 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5083274 TACTGATAGT
5083284 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
5083313 TGAGATGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 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):
TA
Found at i:5088207 original size:2 final size:2
Alignment explanation
Indices: 5088200--5088233 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5088190 TAGATATGCC
5088200 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
5088234 GAAGTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5092597 original size:19 final size:19
Alignment explanation
Indices: 5092573--5092624 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
5092563 GAATGCAATT
5092573 AGTGCATCGATGCATGAGG
1 AGTGCATCGATGCATGAGG
5092592 AGTGCATCGATGCATGAGG
1 AGTGCATCGATGCATGAGG
5092611 AGTGCATCGATGCA
1 AGTGCATCGATGCA
5092625 CCCCTTGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATGAGG
Found at i:5093075 original size:2 final size:2
Alignment explanation
Indices: 5093068--5093102 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5093058 TAGATATGCC
5093068 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 T
5093103 CTTGAAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5097730 original size:6 final size:6
Alignment explanation
Indices: 5097719--5097743 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5097709 GCGCGTTCCA
5097719 GAATAT GAATAT GAATAT GAATAT G
1 GAATAT GAATAT GAATAT GAATAT G
5097744 CGTTAGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (6 bp):
GAATAT
Found at i:5099599 original size:2 final size:2
Alignment explanation
Indices: 5099592--5099623 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5099582 TCTAACCATA
5099592 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
5099624 TATGATTTTA
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:5100209 original size:157 final size:158
Alignment explanation
Indices: 5099874--5100236 Score: 469
Period size: 157 Copynumber: 2.3 Consensus size: 158
5099864 CATATGATTT
* * * * *
5099874 AAATTTGATAAAAACGAACTTAAAATAAATAACAAATTGAAGGAATAAAAAGATTATGAAAAATT
1 AAATTTGGTAAAAACGGACTTAAAATAAATGACGAATTGAAGAAATAAAAAGATTATGAAAAATT
* * *
5099939 GAAGAACTAAATTAAAAAATAAAAAAAATTGTTATAAAAAATAGGAACTGAAAGTATACATGTAT
66 GAAGAACTAAATTAAAAAATAAAAAAAATTGTTATAAAAAAGAGAAACTGAAAGTACACATGTAT
*
5100004 TCTACTATGGTTTAGGAGCATACGGCTC
131 TCTACTATGGTTTAGGACCATACGGCTC
* ** *
5100032 AAATTTGGTAAAAACAGACTTAAAATAAATGACGAATTGAAGAAATAAGGAGATTATGAAAATTT
1 AAATTTGGTAAAAACGGACTTAAAATAAATGACGAATTGAAGAAATAAAAAGATTATGAAAAATT
* * * ** * *
5100097 GAAGGACTAAATTGAAAAAT-AAACATTTTGTTATCAAAAAGAGAAATTGAAAGTACACATGTAT
66 GAAGAACTAAATTAAAAAATAAAAAAAATTGTTATAAAAAAGAGAAACTGAAAGTACACATGTAT
** *
5100161 T-TGACTATGGTTTAGGACCATGTGGTTC
131 TCT-ACTATGGTTTAGGACCATACGGCTC
* * *
5100189 AAATTTGGTAAAAACGGACTTAAAATGAAGGAGGAATTGAAGAAATAA
1 AAATTTGGTAAAAACGGACTTAAAATAAATGACGAATTGAAGAAATAA
5100237 TGAAATAAAA
Statistics
Matches: 177, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
156 1 0.01
157 102 0.58
158 74 0.42
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.26
Consensus pattern (158 bp):
AAATTTGGTAAAAACGGACTTAAAATAAATGACGAATTGAAGAAATAAAAAGATTATGAAAAATT
GAAGAACTAAATTAAAAAATAAAAAAAATTGTTATAAAAAAGAGAAACTGAAAGTACACATGTAT
TCTACTATGGTTTAGGACCATACGGCTC
Found at i:5101650 original size:18 final size:20
Alignment explanation
Indices: 5101624--5101665 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
5101614 GCCCAAAACT
*
5101624 TCACGT-GGG-TATTGATAC
1 TCACGTGGGGATATCGATAC
*
5101642 TCACTTGGGGATATCGATAC
1 TCACGTGGGGATATCGATAC
5101662 TCAC
1 TCAC
5101666 CCTCCTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 12 0.60
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (20 bp):
TCACGTGGGGATATCGATAC
Found at i:5104305 original size:23 final size:23
Alignment explanation
Indices: 5104272--5104338 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
5104262 GTCGAGAGTT
* *
5104272 CTATGTGGTCCTTCGGGACAAAT
1 CTATATGGTCCTTCGGGACAAAC
* *
5104295 TTATATGGTCCTTCGAGACAAAC
1 CTATATGGTCCTTCGGGACAAAC
* *
5104318 CTATTTAGTCCTTCGGGACAA
1 CTATATGGTCCTTCGGGACAA
5104339 TTATGTGGCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (23 bp):
CTATATGGTCCTTCGGGACAAAC
Found at i:5117199 original size:14 final size:14
Alignment explanation
Indices: 5117180--5117210 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5117170 AACAATTCAA
5117180 TCGTTAAAACATCT
1 TCGTTAAAACATCT
*
5117194 TCGTTAAATCATCT
1 TCGTTAAAACATCT
5117208 TCG
1 TCG
5117211 CCATGATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (14 bp):
TCGTTAAAACATCT
Found at i:5117675 original size:3 final size:3
Alignment explanation
Indices: 5117667--5117729 Score: 72
Period size: 3 Copynumber: 20.0 Consensus size: 3
5117657 TTTTTTCATT
** *
5117667 TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TATA TTA TATA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA T-TA
5117715 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
5117730 AAAAATAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
3 42 0.81
4 10 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:5118991 original size:3 final size:3
Alignment explanation
Indices: 5118983--5119022 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
5118973 ATTGTTTTAT
5118983 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5119023 GTATAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5119066 original size:10 final size:10
Alignment explanation
Indices: 5119051--5119075 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5119041 TAAATAATAT
5119051 TTTTTATTTA
1 TTTTTATTTA
5119061 TTTTTATTTA
1 TTTTTATTTA
5119071 TTTTT
1 TTTTT
5119076 TTATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:5125150 original size:17 final size:17
Alignment explanation
Indices: 5125130--5125183 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
5125120 AAAAAAGATG
5125130 AAAAAGGAAAAATGAGA
1 AAAAAGGAAAAATGAGA
* *
5125147 AAAAAAGAAAAA-GCAAA
1 AAAAAGGAAAAATG-AGA
5125164 AAAAAGGAAAAATGGAGA
1 AAAAAGGAAAAAT-GAGA
5125182 AA
1 AA
5125184 TTGAATCAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.03
17 24 0.80
18 4 0.13
19 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (17 bp):
AAAAAGGAAAAATGAGA
Found at i:5125174 original size:24 final size:24
Alignment explanation
Indices: 5125100--5125175 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
5125090 TCAAGCAAAG
* *
5125100 AAAGAAGAAGGAAAAAGAAA-AAAA
1 AAAGAAAAAGCAAAAA-AAAGAAAA
* **
5125124 AAGATGAAAAAGGAAAAATGAGAAAA
1 AA-A-GAAAAAGCAAAAAAAAGAAAA
*
5125150 AAAGAAAAAGCAAAAAAAAGGAAA
1 AAAGAAAAAGCAAAAAAAAGAAAA
5125174 AA
1 AA
5125176 TGGAGAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 21 0.50
25 3 0.07
26 18 0.43
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (24 bp):
AAAGAAAAAGCAAAAAAAAGAAAA
Found at i:5127570 original size:31 final size:31
Alignment explanation
Indices: 5127527--5127589 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
5127517 ACACATATAA
*
5127527 AATCTGTCAACTCTGCAATTGATGAATTCAG
1 AATCCGTCAACTCTGCAATTGATGAATTCAG
5127558 AATCCGTCAACTCTGCAATTGATGAATTCAG
1 AATCCGTCAACTCTGCAATTGATGAATTCAG
5127589 A
1 A
5127590 CCACATTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (31 bp):
AATCCGTCAACTCTGCAATTGATGAATTCAG
Found at i:5129804 original size:22 final size:22
Alignment explanation
Indices: 5129775--5129829 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
5129765 ATCTACACTC
5129775 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
5129797 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
5129819 TTCAAAGATGA
1 TTCAAAGATGA
5129830 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:5130618 original size:167 final size:165
Alignment explanation
Indices: 5130342--5130669 Score: 532
Period size: 167 Copynumber: 2.0 Consensus size: 165
5130332 CACAAGAATG
*
5130342 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
**
5130407 CGATTTCCATAGTTTCTCATTTTATCTTTTCAAAATATGAAATTGTTGAAAAGTAAGAAAACAAT
66 CGATTTCCATAGTTTCTCATTCAATCTTTTCAAAATATGAAATTGTTGAAAAGTAAGAAAACAAT
* * * *
5130472 TTTCTTAGTTTTTTTTACTTAGTAAACTATTTCTAAC
131 TTCCATAG--TATCTTACTTAGTAAACTATTTCTAAC
*
5130509 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
* *
5130574 CGATTTTCATAGTTTCTCATTCAATCTTTTCTAAAA-ATGAAATTGTTGAAAAGTAAGAAAACGA
66 CGATTTCCATAGTTTCTCATTCAATCTTTTC-AAAATATGAAATTGTTGAAAAGTAAGAAAACAA
5130638 TTTCCATAGTATCTTACTTAGTAAACTATTTC
130 TTTCCATAGTATCTTACTTAGTAAACTATTTC
5130670 CCACATCCAT
Statistics
Matches: 150, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
165 21 0.14
167 125 0.83
168 4 0.03
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (165 bp):
AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
CGATTTCCATAGTTTCTCATTCAATCTTTTCAAAATATGAAATTGTTGAAAAGTAAGAAAACAAT
TTCCATAGTATCTTACTTAGTAAACTATTTCTAAC
Found at i:5130831 original size:73 final size:73
Alignment explanation
Indices: 5130712--5131280 Score: 1021
Period size: 73 Copynumber: 7.8 Consensus size: 73
5130702 TTCACATAAA
5130712 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
5130777 AACAGAAC
66 AACAGAAC
*
5130785 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGATAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
5130850 AACAGAAC
66 AACAGAAC
5130858 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
5130923 AACAGAAC
66 AACAGAAC
*
5130931 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTATCTCGCTTGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
*
5130996 AACATAAC
66 AACAGAAC
5131004 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
5131069 AACAGAAC
66 AACAGAAC
* * *
5131077 ATTATCTCACTTGAGATTATTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAATTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
*
5131142 AACAAAAC
66 AACAGAAC
* *
5131150 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGTTTCACTTGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
* *
5131215 AACAAAAA
66 AACAGAAC
*
5131223 TTTATCTCACTTGAGATTATTTTTCTTAAAACAAAGATTTGTCTCGCTTGAGACAGTT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTGTCTCGCTTGAGACAGTT
5131281 ATTTCGAGTT
Statistics
Matches: 477, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
73 456 0.96
74 21 0.04
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (73 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTCGA
AACAGAAC
Found at i:5132982 original size:27 final size:28
Alignment explanation
Indices: 5132952--5133014 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
5132942 AATTACTAGT
5132952 TTTTTATTTATAGTTTTA-ATTTCATTA
1 TTTTTATTTATAGTTTTATATTTCATTA
* * *
5132979 TTTTTAGTTATTGTTTTATATTTTATTA
1 TTTTTATTTATAGTTTTATATTTCATTA
*
5133007 TTATTATT
1 TTTTTATT
5133015 ATTATTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.70
Consensus pattern (28 bp):
TTTTTATTTATAGTTTTATATTTCATTA
Found at i:5133009 original size:3 final size:3
Alignment explanation
Indices: 5132975--5133031 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
5132965 TTTTAATTTC
* *
5132975 ATT ATT TTT AGTT ATT GTT -TT A-T ATT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5133018 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
5133032 GTATAAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 6 0.13
3 38 0.81
4 3 0.06
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:5136972 original size:23 final size:23
Alignment explanation
Indices: 5136946--5136990 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5136936 CACCACAGCT
*
5136946 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
5136969 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
5136991 ATATAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:5137228 original size:149 final size:149
Alignment explanation
Indices: 5136958--5137272 Score: 578
Period size: 149 Copynumber: 2.1 Consensus size: 149
5136948 TATAATTGCA
5136958 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
5137022 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
*
5137087 CCAAAGAATATATATATATC
130 CCAAAGAATATACATATATC
* *
5137107 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACGTATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
5137172 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
5137237 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
5137256 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
5137273 CCCTCGAATC
Statistics
Matches: 161, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
148 1 0.01
149 160 0.99
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:5141909 original size:23 final size:23
Alignment explanation
Indices: 5141883--5141927 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5141873 CACCACAGCT
*
5141883 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
5141906 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
5141928 ATATAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Done.