Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 309 of 425
Found at i:96115450 original size:17 final size:16
Alignment explanation
Indices: 96115424--96115462 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
96115414 GCAAATGAAT
* *
96115424 TTAAACTTAAAAAGTAA
1 TTAAAATTAAAAA-AAA
96115441 TTAAAATTAAAAAAAA
1 TTAAAATTAAAAAAAA
96115457 TTAAAA
1 TTAAAA
96115463 CCTCTAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
TTAAAATTAAAAAAAA
Found at i:96120281 original size:159 final size:159
Alignment explanation
Indices: 96120007--96120449 Score: 512
Period size: 159 Copynumber: 2.8 Consensus size: 159
96119997 TGGTTTTTAT
* ** * *
96120007 TTCTCATACTCGTAGTAGAATAAGA--ACAAAAATCAGAACCCCAAATTAGATTTAAATAATTTG
1 TTCTCGTACTCGTACCAGAATAAGACCAAAAAAATCAGAACCCCAAATTAGATTTAAATATTTTG
* *
96120070 GAATTGACATTAAAAAAGTGTT-TACGATATACATATGATCCAGCTGTGTTAGGTTGAATGCATG
66 GAATTGACATTAAAAAAGT-TTATACGATATACATGTGATCCAGTTGTGTTAGGTTGAATGCATG
* *
96120134 GTGTTATGTTATTCTCTTTTT-GGCTTCTAG
130 GTGTTATGTTATTAT-TTTTTGGGCGTCTAG
* * *
96120164 TTCGT-GTACTCGTACC-GAAATAAGACCAAAAAAATTATAACCCCAAATTAGATTAAAATATTT
1 TTC-TCGTACTCGTACCAG-AATAAGACCAAAAAAATCAGAACCCCAAATTAGATTTAAATATTT
* * ** * * *
96120227 TTGAGTTGACATTAAAGTAGTTTATACGATATACCTGTGATCCAGTTGTATTAGGCTGAATG-AT
64 TGGAATTGACATTAAAAAAGTTTATACGATATACATGTGATCCAGTTGTGTTAGGTTGAATGCAT
*
96120291 GGTGTTATGTTGTTATTTTTTGGGCGTCTAG
129 GGTGTTATGTTATTATTTTTTGGGCGTCTAG
* * *
96120322 TTCTCGTACTCGTACCAGACTAAGACCAAAAAAATCAGAA-CCCAAATAAGATTTTAATATTTTG
1 TTCTCGTACTCGTACCAGAATAAGACCAAAAAAATCAGAACCCCAAATTAGATTTAAATATTTTG
* * *
96120386 GAATTGACAATGAAAAAATGTTTAT--GATATACTTGTGTTCTC-GTTGTGTTAGGTTGAATGCA
66 GAATTGAC-ATTAAAAAA-GTTTATACGATATACATGTGATC-CAGTTGTGTTAGGTTGAATGCA
96120448 TG
128 TG
96120450 ATCTTTTGTT
Statistics
Matches: 239, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
156 1 0.00
157 80 0.33
158 70 0.29
159 88 0.37
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (159 bp):
TTCTCGTACTCGTACCAGAATAAGACCAAAAAAATCAGAACCCCAAATTAGATTTAAATATTTTG
GAATTGACATTAAAAAAGTTTATACGATATACATGTGATCCAGTTGTGTTAGGTTGAATGCATGG
TGTTATGTTATTATTTTTTGGGCGTCTAG
Found at i:96128461 original size:20 final size:20
Alignment explanation
Indices: 96128432--96128476 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
96128422 AGCATATGTA
* *
96128432 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAACTT
*
96128452 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
96128472 TTCAT
1 TTCAT
96128477 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:96134981 original size:43 final size:43
Alignment explanation
Indices: 96134920--96135005 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
96134910 ATCACATGTA
*
96134920 TCGCATCCAGTATGAACTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATCCAGTACGAACTCGGACCACTCAACAAGCTCGGATGC
* *
96134963 TCGCATCCA-TAACGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCAGT-ACGAACTCGGACCACTCAACAAGCTCGGATGC
96135006 AACATATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.27, C:0.34, G:0.21, T:0.19
Consensus pattern (43 bp):
TCGCATCCAGTACGAACTCGGACCACTCAACAAGCTCGGATGC
Found at i:96137677 original size:41 final size:41
Alignment explanation
Indices: 96137615--96137708 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
96137605 TACAAATACT
* * *
96137615 CCACAGCTCGTGTGAGCAGCATTGCGTAGCTACGTTTCGAC
1 CCACAGCTCGTGAGAGCAGCATAGCGTAGCTACGTTTCAAC
* * *
96137656 CCACAGCTCGTGAGAGTAGCATAGTGTAGCTATGTTTCAAC
1 CCACAGCTCGTGAGAGCAGCATAGCGTAGCTACGTTTCAAC
*
96137697 ACACAGCTCGTG
1 CCACAGCTCGTG
96137709 TAAGCATACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (41 bp):
CCACAGCTCGTGAGAGCAGCATAGCGTAGCTACGTTTCAAC
Found at i:96146117 original size:43 final size:43
Alignment explanation
Indices: 96146070--96146205 Score: 156
Period size: 43 Copynumber: 3.2 Consensus size: 43
96146060 TCCTAGATTT
*
96146070 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
* * * *
96146113 GGTCTTACACG-AATCAAATA-CAATGTCGA-TGTCCCAGACAT
1 GGTCTTACACGTAATCACATATCGATG-CCACTGTCCCAGACAG
*
96146154 GGTCTTACACGTAATCACATATCGATGCCAAC-ATCCCAGAC-G
1 GGTCTTACACGTAATCACATATCGATGCC-ACTGTCCCAGACAG
96146196 TGGTCTTACA
1 -GGTCTTACA
96146206 TGAGAACACG
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
41 26 0.34
42 19 0.25
43 32 0.42
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:96153277 original size:48 final size:48
Alignment explanation
Indices: 96153130--96153314 Score: 200
Period size: 48 Copynumber: 3.9 Consensus size: 48
96153120 GGTTAAATAC
* * *
96153130 CGATGTCATGTCCCAGACATAGTCTTACACTAGCACACATATCAACG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
* * * * * *
96153177 CCATGCCATGTCCTAGACATGGTCTCACACT-G-GCTCTTAT-AATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
*
96153222 GGCCGATGCCATGTCCCATG-CATGGTCTTAAACTAGCACACATATCAATGT
1 ---CGATGCCATGTCCCA-GACATGGTCTTACACTAGCACACATATCAATGT
*
96153273 CGATGCCATGTCCCAGGCATGGTCTTACACTAGCACACATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
96153315 TAACCAAATG
Statistics
Matches: 112, Mismatches: 17, Indels: 17
0.77 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
45 5 0.04
46 1 0.01
47 27 0.24
48 64 0.57
49 2 0.02
50 5 0.04
51 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
Found at i:96153326 original size:95 final size:95
Alignment explanation
Indices: 96153136--96153329 Score: 214
Period size: 95 Copynumber: 2.0 Consensus size: 95
96153126 ATACCGATGT
* *
96153136 CATGTCCCAGACATAGTCTTACACTAGCACACATATCAACGCCATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACATAGTCTTAAACTAGCACACATATCAACGCCATGCCATGTCCCAGACATGGTC
* * ** ** *
96153201 TCACACTGGCTCTTATAATGTGGCCGATGC
66 TCACACTAGCACACATAATGTAACCAATGC
* * * *
96153231 CATGTCCCATG-CATGGTCTTAAACTAGCACACATATCAATGTCGATGCCATGTCCCAGGCATGG
1 CATGTCCCA-GACATAGTCTTAAACTAGCACACATATCAACG-CCATGCCATGTCCCAGACATGG
*
96153295 TCTTACACTAGCACACAT-AT-TAACCAAATGC
64 TCTCACACTAGCACACATAATGTAACC-AATGC
96153326 CATG
1 CATG
96153330 GCATGGATAC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
94 3 0.04
95 46 0.56
96 33 0.40
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (95 bp):
CATGTCCCAGACATAGTCTTAAACTAGCACACATATCAACGCCATGCCATGTCCCAGACATGGTC
TCACACTAGCACACATAATGTAACCAATGC
Found at i:96157556 original size:46 final size:44
Alignment explanation
Indices: 96157413--96157632 Score: 153
Period size: 46 Copynumber: 4.8 Consensus size: 44
96157403 GGTAGGATGC
* *
96157413 CGATGCCATGTCCCCGACATGGTCTTACACTAGCTCAAC-TCGT-AGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTC-TAAGT
* * ** * * * *
96157459 CAATGCATGTCCTAGACATGTCTTATGCTGGCT-TACATCTCGAGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCT-AAGT
96157504 CTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT
1 C-GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-AA-GT
* *
96157551 CGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCG--TAATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTAA-GT
*
96157596 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCTC
1 --C-GATGCATGTCCCAGACATGTCTTACACTAGCTC
96157633 ACAATAACCC
Statistics
Matches: 143, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 13 0.09
45 20 0.14
46 56 0.39
47 31 0.22
48 21 0.15
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTAAGT
Found at i:96157608 original size:47 final size:48
Alignment explanation
Indices: 96157502--96157632 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 48
96157492 TACATCTCGA
*
96157502 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT
1 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCG-CTCAATGT
*
96157551 --C-GATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCG-T-AATGT
1 GGCTGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGCTCAATGT
96157596 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCTC
1 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCTC
96157633 ACAATAACCC
Statistics
Matches: 74, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
45 5 0.07
46 19 0.26
47 29 0.39
48 21 0.28
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
GGCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGCTCAATGT
Found at i:96160872 original size:20 final size:19
Alignment explanation
Indices: 96160834--96160877 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
96160824 TCTTGAAATC
**
96160834 TGCTCTTTTTGTCTAATTTT
1 TGCTCTTTTTCACTAA-TTT
*
96160854 TGCTCTTTTTCACTTATTT
1 TGCTCTTTTTCACTAATTT
96160873 TGCTC
1 TGCTC
96160878 CCAAATGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.09, C:0.20, G:0.09, T:0.61
Consensus pattern (19 bp):
TGCTCTTTTTCACTAATTT
Found at i:96162018 original size:24 final size:23
Alignment explanation
Indices: 96161989--96162041 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
96161979 ATTTTTGGAA
96161989 ATTTTATATTTTAAAATATTTTAT
1 ATTTTATATTTTAAAA-ATTTTAT
* **
96162013 CTTTTATATTTTTTAAATTTTAT
1 ATTTTATATTTTAAAAATTTTAT
96162036 ATTTTA
1 ATTTTA
96162042 AAGAGTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTTATATTTTAAAAATTTTAT
Found at i:96162033 original size:16 final size:16
Alignment explanation
Indices: 96162014--96162106 Score: 63
Period size: 16 Copynumber: 5.9 Consensus size: 16
96162004 ATATTTTATC
96162014 TTTTATATTTTTTAAA
1 TTTTATATTTTTTAAA
*
96162030 TTTTATA-TTTTAAAGA
1 TTTTATATTTTTTAA-A
*
96162046 GTTTTAT-TTTTTTCTAA
1 -TTTTATATTTTTT-AAA
96162063 TTTTA-ATTTTTTTAAA
1 TTTTATA-TTTTTTAAA
* *
96162079 --ATATATTTTTTTAA
1 TTTTATATTTTTTAAA
96162093 TTTCTA-ATTTTTTA
1 TTT-TATATTTTTTA
96162107 TTTAAAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
14 10 0.17
15 7 0.12
16 22 0.37
17 19 0.32
18 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTATATTTTTTAAA
Found at i:96162040 original size:15 final size:15
Alignment explanation
Indices: 96162014--96162104 Score: 51
Period size: 17 Copynumber: 5.8 Consensus size: 15
96162004 ATATTTTATC
96162014 TTTTATATTTTTTAAA
1 TTTTATA-TTTTTAAA
*
96162030 TTTTATATTTTAAAGA
1 TTTTATATTTTTAA-A
* *
96162046 GTTTTATTTTTTTCTAA
1 -TTTTATATTTTT-AAA
*
96162063 TTTTAATTTTTTTAAA
1 TTTT-ATATTTTTAAA
* * *
96162079 ATATAT-TTTTTTAA
1 TTTTATATTTTTAAA
96162093 TTTCTA-ATTTTT
1 TTT-TATATTTTT
96162105 TATTTAAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
14 8 0.14
15 15 0.25
16 16 0.27
17 19 0.32
18 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTATATTTTTAAA
Found at i:96168834 original size:19 final size:17
Alignment explanation
Indices: 96168807--96168862 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
96168797 AATATTATTG
*
96168807 AAATTTTAAAATTTATAA
1 AAATATTAAAATTT-TAA
96168825 AAATCATTAAAAGTATTTAA
1 AAAT-ATTAAAA-T-TTTAA
96168845 AAATA-TAAAATTATTAA
1 AAATATTAAAATT-TTAA
96168862 A
1 A
96168863 CGTTATAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 9 0.27
19 7 0.21
20 8 0.24
21 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATATTAAAATTTTAA
Found at i:96168859 original size:18 final size:20
Alignment explanation
Indices: 96168812--96168859 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
96168802 TATTGAAATT
*
96168812 TTAAAATT-TATAAAAATCA
1 TTAAAATTATTTAAAAATCA
*
96168831 TTAAAAGTATTTAAAAAT-A
1 TTAAAATTATTTAAAAATCA
96168850 -TAAAATTATT
1 TTAAAATTATT
96168860 AAACGTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 9 0.36
19 8 0.32
20 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAAATTATTTAAAAATCA
Found at i:96168860 original size:27 final size:25
Alignment explanation
Indices: 96168788--96168862 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 25
96168778 TAACAATTAG
*
96168788 AAAATTATAAATATTATTGAAATTTT
1 AAAATTATAAA-ATTATTAAAATTTT
*
96168814 AAAATTTATAAAAATCATTAAAAGTATTT
1 AAAA-TTAT-AAAATTATTAAAA-T-TTT
*
96168843 AAAAATATAAAATTATTAAA
1 AAAATTATAAAATTATTAAA
96168863 CGTTATAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.10
27 23 0.56
28 7 0.17
29 7 0.17
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (25 bp):
AAAATTATAAAATTATTAAAATTTT
Found at i:96171795 original size:93 final size:93
Alignment explanation
Indices: 96171683--96171853 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
96171673 GCCCATAAGT
* *
96171683 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96171748 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
96171776 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96171841 CGAGTTCGGATGC
66 CGAGTTCGGATGC
96171854 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:96171869 original size:46 final size:46
Alignment explanation
Indices: 96171675--96171855 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
96171665 TGTAACCCGC
* * *
96171675 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
96171721 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
96171771 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
96171814 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
96171856 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:96174262 original size:29 final size:29
Alignment explanation
Indices: 96174223--96174310 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
96174213 CAAAGATAAC
*
96174223 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
96174252 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
96174281 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
96174311 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:96174281 original size:15 final size:15
Alignment explanation
Indices: 96174223--96174301 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
96174213 CAAAGATAAC
*
96174223 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
96174237 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
96174252 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
96174266 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
96174281 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
96174296 AAGAAA
1 AAGAAA
96174302 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:96174310 original size:15 final size:15
Alignment explanation
Indices: 96174234--96174310 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
96174224 AGAAAACCGA
96174234 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
96174249 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
96174263 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
96174277 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
96174293 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
96174308 ATA
1 ATA
96174311 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:96177374 original size:93 final size:93
Alignment explanation
Indices: 96177262--96177432 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
96177252 GCCCATAAGT
* *
96177262 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96177327 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
96177355 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96177420 CGAGTTCGGATGC
66 CGAGTTCGGATGC
96177433 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:96177448 original size:46 final size:46
Alignment explanation
Indices: 96177254--96177434 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
96177244 TGTAACCCGC
* * *
96177254 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
96177300 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
96177350 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
96177393 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
96177435 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:96181880 original size:18 final size:17
Alignment explanation
Indices: 96181841--96181883 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
96181831 GTTTAAAACG
*
96181841 ATTTTTATTTTTAATAA
1 ATTTTTAATTTTAATAA
96181858 ATTTTTAATTTT-ATGAA
1 ATTTTTAATTTTAAT-AA
96181875 ATTTTTAAT
1 ATTTTTAAT
96181884 AATTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTTTAATTTTAATAA
Found at i:96183007 original size:2 final size:2
Alignment explanation
Indices: 96183000--96183045 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
96182990 TGATAAAGAA
96183000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96183042 AT AT
1 AT AT
96183046 TGCCTTCGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96183710 original size:20 final size:21
Alignment explanation
Indices: 96183687--96183736 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
96183677 AAATTGATTT
*
96183687 AATTAATTTT-TAATTGGTTC
1 AATTAATTTTATAATGGGTTC
* *
96183707 AATTTATTTTATAATGGGTTG
1 AATTAATTTTATAATGGGTTC
96183728 AATTAATTT
1 AATTAATTT
96183737 ATGTCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (21 bp):
AATTAATTTTATAATGGGTTC
Found at i:96185339 original size:8 final size:8
Alignment explanation
Indices: 96185321--96185351 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
96185311 ATTAGAAATT
96185321 AAATAACTA
1 AAATAA-TA
96185330 AAATAATA
1 AAATAATA
96185338 AAATAATA
1 AAATAATA
96185346 AAATAA
1 AAATAA
96185352 ACAAACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATAATA
Found at i:96200219 original size:40 final size:40
Alignment explanation
Indices: 96200145--96200289 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
96200135 CCGCACCAAG
* * * * * *
96200145 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
96200185 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
96200225 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
96200265 GCCTTC-GGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
96200290 TTTTCAGCAT
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 17 0.19
40 72 0.81
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:96200304 original size:39 final size:40
Alignment explanation
Indices: 96200177--96200327 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
96200167 ATCACGATTT
* * * * *
96200177 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
96200217 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
96200257 GCACAATTGCCTTC-GGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
96200296 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
96200328 CATTCAATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.34
40 59 0.62
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:96203605 original size:29 final size:29
Alignment explanation
Indices: 96203573--96203650 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
96203563 ATACCCTCCG
* *
96203573 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
96203602 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
96203631 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACCCAGTGCCA
96203651 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACCCAGTGCCATATATTTCC
Found at i:96211445 original size:29 final size:29
Alignment explanation
Indices: 96211413--96211490 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
96211403 ATACCCTCCG
* *
96211413 AGCTCGCACACCTAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
96211442 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
96211471 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
96211491 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:96218475 original size:20 final size:20
Alignment explanation
Indices: 96218450--96218513 Score: 87
Period size: 19 Copynumber: 3.2 Consensus size: 20
96218440 TTCATTTTTC
* *
96218450 ATTTTTTTTATTTTCTAATT
1 ATTTTTTTAATTTTTTAATT
96218470 A-TTTTTTAATTTTTTAA-T
1 ATTTTTTTAATTTTTTAATT
96218488 ATTTTTTTGAATTTTTTAATT
1 ATTTTTTT-AATTTTTTAATT
96218509 ATTTT
1 ATTTT
96218514 CTGACATGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.05
19 20 0.51
20 11 0.28
21 6 0.15
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
ATTTTTTTAATTTTTTAATT
Found at i:96219398 original size:31 final size:31
Alignment explanation
Indices: 96219363--96219421 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
96219353 GTCATTGAAC
96219363 TATTCAAAAGTTTTCATTTAAGTCACTAAAA
1 TATTCAAAAGTTTTCATTTAAGTCACTAAAA
* *
96219394 TATTCAAAAGTTTTTATTTAAGTTACTA
1 TATTCAAAAGTTTTCATTTAAGTCACTA
96219422 GATTGTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (31 bp):
TATTCAAAAGTTTTCATTTAAGTCACTAAAA
Found at i:96223197 original size:24 final size:24
Alignment explanation
Indices: 96223169--96223280 Score: 118
Period size: 25 Copynumber: 4.6 Consensus size: 24
96223159 ATACATGTAT
*
96223169 GCTCATACGAGCTGTAAACAGTAT
1 GCTCATACGAGCTGTAAACAGTAA
96223193 GCTCATACGAGCTGTAAACAGTAA
1 GCTCATACGAGCTGTAAACAGTAA
** * * *
96223217 GCTCATGGGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGTA-AACAGTAA
*
96223242 GCTCATACGAGCTGAATAACGAG-AA
1 GCTCATACGAGCTGTA-AAC-AGTAA
*
96223267 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
96223281 AAATCGGTGA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
24 36 0.47
25 39 0.51
26 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (24 bp):
GCTCATACGAGCTGTAAACAGTAA
Found at i:96224803 original size:19 final size:21
Alignment explanation
Indices: 96224762--96224805 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
96224752 TTTTTTCCAT
96224762 AAAAATATTAACAAATTAGAAA
1 AAAAATATTAACAAATTA-AAA
*
96224784 AAAAATATTAA-ATATTAAAA
1 AAAAATATTAACAAATTAAAA
96224804 AA
1 AA
96224806 TGAAAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 11 0.52
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAATATTAACAAATTAAAA
Found at i:96224859 original size:10 final size:10
Alignment explanation
Indices: 96224844--96224947 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 10
96224834 ATCAAAATAT
*
96224844 AAAAATTCTA
1 AAAAATTATA
*
96224854 ATAAATTATA
1 AAAAATTATA
96224864 AAAAATTATA
1 AAAAATTATA
*
96224874 AAATTAA-TAAA
1 AAA--AATTATA
96224885 AAAAGATT-TA
1 AAAA-ATTATA
*
96224895 AAATATT-TA
1 AAAAATTATA
**
96224904 AAATTTTAT-
1 AAAAATTATA
96224913 AAAAATGTAT-
1 AAAAAT-TATA
*
96224923 TAAAATTATA
1 AAAAATTATA
*
96224933 GAAAAATCATA
1 -AAAAATTATA
96224944 AAAA
1 AAAA
96224948 CTTTAACTAG
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
9 19 0.26
10 38 0.51
11 15 0.20
12 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:96225471 original size:10 final size:9
Alignment explanation
Indices: 96225434--96225539 Score: 69
Period size: 9 Copynumber: 11.7 Consensus size: 9
96225424 AATATTTTAA
96225434 ATAA-TTTT
1 ATAATTTTT
*
96225442 ATCATTTATT
1 ATAATTT-TT
*
96225452 ATAATATTT
1 ATAATTTTT
96225461 ATAAATTTTT
1 AT-AATTTTT
96225471 ATAATTTTAT
1 ATAATTTT-T
96225481 ATCAA-TTTT
1 AT-AATTTTT
*
96225490 ATTATTTTT
1 ATAATTTTT
*
96225499 -TAGATATTT
1 ATA-ATTTTT
96225508 AT-ATTTTAT
1 ATAATTTT-T
*
96225517 ATTATTTTT
1 ATAATTTTT
*
96225526 CT-ATTTTT
1 ATAATTTTT
96225534 ATAATT
1 ATAATT
96225540 ATTTTTACAG
Statistics
Matches: 77, Mismatches: 10, Indels: 21
0.71 0.09 0.19
Matches are distributed among these distances:
8 16 0.21
9 32 0.42
10 27 0.35
11 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:96225489 original size:11 final size:10
Alignment explanation
Indices: 96225418--96225491 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 10
96225408 TACGTTTTTT
*
96225418 ATTTTAAAT-
1 ATTTTATATA
*
96225427 ATTTTAAATA
1 ATTTTATATA
*
96225437 A-TTT-TATC
1 ATTTTATATA
96225445 A-TTTATTATA
1 ATTTTA-TATA
96225455 ATATTTATA-A
1 AT-TTTATATA
96225465 ATTTT-TATA
1 ATTTTATATA
96225474 ATTTTATATCA
1 ATTTTATAT-A
96225485 ATTTTAT
1 ATTTTAT
96225492 TATTTTTTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
8 8 0.15
9 21 0.39
10 11 0.20
11 10 0.19
12 4 0.07
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTATATA
Found at i:96225489 original size:19 final size:18
Alignment explanation
Indices: 96225434--96225537 Score: 70
Period size: 19 Copynumber: 5.7 Consensus size: 18
96225424 AATATTTTAA
*
96225434 ATAATTTTAT-CATTTATT
1 ATAATTTTATAAATTT-TT
96225452 ATAATATTTATAAATTTTT
1 ATAAT-TTTATAAATTTTT
96225471 ATAATTTTATATCAA-TTTT
1 ATAATTTTATA--AATTTTT
* * * *
96225490 ATTATTTTTTAGATATTT
1 ATAATTTTATAAATTTTT
*
96225508 AT-ATTTTATATTATTTTT
1 ATAATTTTATA-AATTTTT
* *
96225526 CTATTTTTATAA
1 ATAATTTTATAA
96225538 TTATTTTTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
17 8 0.12
18 22 0.32
19 32 0.47
20 6 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (18 bp):
ATAATTTTATAAATTTTT
Found at i:96225543 original size:36 final size:38
Alignment explanation
Indices: 96225458--96225543 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 38
96225448 TATTATAATA
96225458 TTTATAAATT-TTTATAATTTTATATCAATTTTATTATT
1 TTTAT-AATTATTTATAATTTTATATCAATTTTATTATT
*
96225496 TTT-TAGA-TATTTAT-ATTTTATAT-TATTTT-TCTATT
1 TTTATA-ATTATTTATAATTTTATATCAATTTTAT-TATT
96225531 TTTATAATTATTT
1 TTTATAATTATTT
96225544 TTACAGGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
34 1 0.02
35 13 0.31
36 18 0.43
37 7 0.17
38 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (38 bp):
TTTATAATTATTTATAATTTTATATCAATTTTATTATT
Found at i:96233111 original size:21 final size:21
Alignment explanation
Indices: 96233086--96233150 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
96233076 TAGCCTTCAG
96233086 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
** * *
96233107 GCTT-CAATTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
96233125 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
96233146 GCTTC
1 GCTTC
96233151 AGTTAGACTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 5 0.15
19 9 0.27
20 9 0.27
21 10 0.30
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:96233118 original size:39 final size:39
Alignment explanation
Indices: 96233068--96233168 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
96233058 GCTCTGCTGA
*
96233068 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
96233107 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
96233146 GCTTCAGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
96233169 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:96233169 original size:18 final size:18
Alignment explanation
Indices: 96233068--96233170 Score: 62
Period size: 18 Copynumber: 5.4 Consensus size: 18
96233058 GCTCTGCTGA
* *
96233068 GCTTCAGTTAGCCTTCAG
1 GCTTCAGTTAGACTTCGG
* * *
96233086 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
* *
96233107 GCTTCAATTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
96233125 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
96233146 GCTTCAGTTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
96233164 GCTTCAG
1 GCTTCAG
96233171 ATCACGATGT
Statistics
Matches: 61, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
18 20 0.33
19 15 0.25
20 14 0.23
21 12 0.20
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:96242477 original size:23 final size:24
Alignment explanation
Indices: 96242416--96242479 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
96242406 ATTTTTATAT
96242416 TTTTAAAATATTTTTTATTTTTGAA
1 TTTT-AAATATTTTTTATTTTTGAA
* * *
96242441 TTTTAAAGAGTTTTTATTTTT-CA
1 TTTTAAATATTTTTTATTTTTGAA
*
96242464 TTTTATATATTTTTTA
1 TTTTAAATATTTTTTA
96242480 CAAATTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 14 0.42
24 15 0.45
25 4 0.12
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (24 bp):
TTTTAAATATTTTTTATTTTTGAA
Found at i:96249627 original size:93 final size:92
Alignment explanation
Indices: 96249413--96249628 Score: 235
Period size: 93 Copynumber: 2.3 Consensus size: 92
96249403 AAAAAAAAAG
* * * * ***
96249413 AAAAGAAAAAGTAATTAAGCCC-CTATTTTTTTTTACATTCAATTGGGTACTTGAACTTTTAAAA
1 AAAAAAAAAAGTAATTAAACCCTCTTTTTTTTTTTACATTCAATTAGGTACTTGAACTGCCAAAA
*
96249477 TGCATAAAAAAATGCCCTTAAACTTTT
66 TGCATAAAAAAATGCCCTCAAACTTTT
** *
96249504 TCAAAAAAAAGTAATTAAACTTCTTCTTTTTTTTTTT-CACTT-AATTAGGTACTTGAACTGCCA
1 AAAAAAAAAAGTAATTAAAC--CCTCTTTTTTTTTTTACA-TTCAATTAGGTACTTGAACTGCCA
*
96249567 AAATGCATAAAAAAA-GAACTCTCAAAC-TTT
63 AAATGCATAAAAAAATG--CCCTCAAACTTTT
96249597 AAAAAAAAAAGTAATTAAACCCTACTTTTTTT
1 AAAAAAAAAAGTAATTAAACCCT-CTTTTTTT
96249629 CACTCAATTG
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
91 18 0.17
92 9 0.09
93 56 0.54
94 20 0.19
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (92 bp):
AAAAAAAAAAGTAATTAAACCCTCTTTTTTTTTTTACATTCAATTAGGTACTTGAACTGCCAAAA
TGCATAAAAAAATGCCCTCAAACTTTT
Found at i:96255365 original size:27 final size:27
Alignment explanation
Indices: 96255327--96255381 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
96255317 ATGGGAACAC
96255327 ACACCTTGAATAATGCATATAGCTCAA
1 ACACCTTGAATAATGCATATAGCTCAA
96255354 ACACCTTGAATAATGCATATAGCTCAA
1 ACACCTTGAATAATGCATATAGCTCAA
96255381 A
1 A
96255382 AGTTGTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (27 bp):
ACACCTTGAATAATGCATATAGCTCAA
Found at i:96255622 original size:26 final size:26
Alignment explanation
Indices: 96255593--96255644 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
96255583 CCAAGTAACC
96255593 CATAAATTTGTTCAAATATTTAGTGT
1 CATAAATTTGTTCAAATATTTAGTGT
96255619 CATAAATTTGTTCAAATATTTAGTGT
1 CATAAATTTGTTCAAATATTTAGTGT
96255645 AAGAGGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (26 bp):
CATAAATTTGTTCAAATATTTAGTGT
Found at i:96257567 original size:33 final size:38
Alignment explanation
Indices: 96257530--96257608 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 38
96257520 ATTGTATTAG
96257530 TTATATTA-TATTT-TT-T-AA-AATATTTATTTATTTT
1 TTATATTATTATTTGTTGTCAATAATATTT-TTTATTTT
96257564 TATATATTATTATTTGTTGTCAATAATATTTTTTATTTT
1 T-TATATTATTATTTGTTGTCAATAATATTTTTTATTTT
96257603 TATATA
1 T-TATA
96257609 AAATTTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
34 1 0.03
35 7 0.18
36 5 0.13
37 2 0.05
38 1 0.03
39 16 0.41
40 7 0.18
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (38 bp):
TTATATTATTATTTGTTGTCAATAATATTTTTTATTTT
Found at i:96257576 original size:20 final size:20
Alignment explanation
Indices: 96257533--96257609 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
96257523 GTATTAGTTA
*
96257533 TATTATATTTTT-TAAAATATT
1 TATT-TATTTTTATATAATA-T
*
96257554 TATTTATTTTTATATATTAT
1 TATTTATTTTTATATAATAT
* * *
96257574 TATTTGTTGTCA-ATAATAT
1 TATTTATTTTTATATAATAT
*
96257593 TTTTTATTTTTATATAA
1 TATTTATTTTTATATAA
96257610 AATTTAAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 14 0.32
20 21 0.48
21 9 0.20
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (20 bp):
TATTTATTTTTATATAATAT
Found at i:96264970 original size:38 final size:38
Alignment explanation
Indices: 96264913--96265075 Score: 245
Period size: 38 Copynumber: 4.2 Consensus size: 38
96264903 TCGAAATATG
96264913 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAAT
* *
96264953 ATAACCGGGTTAAATCCCGCAGGCTTCGTTCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
96264991 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
96265029 ATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
96265067 ATATTCGGG
1 ATATCCGGG
96265076 CCTTTGAGCC
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 105 0.91
39 2 0.02
40 8 0.07
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:96265142 original size:46 final size:44
Alignment explanation
Indices: 96265068--96265177 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
96265058 GCTGGTATTA
* *
96265068 TATTCGGGCCTTT-GAGCCTAGCAGGCTATTATGCCGGTGAGACAT
1 TATTCGGGCCTTTCGAGCCTAGCAAGCTATAATGCCGGTGA-A-AT
96265113 TATTCGGGCCTTTCGAGCCTAGCAAGCTATAATGCCGGTGAAAT
1 TATTCGGGCCTTTCGAGCCTAGCAAGCTATAATGCCGGTGAAAT
*
96265157 GATATCGGGCC--TCGAGCCTAG
1 TAT-TCGGGCCTTTCGAGCCTAG
96265178 TAGGTGAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
43 10 0.17
44 4 0.07
45 21 0.35
46 25 0.42
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTTTCGAGCCTAGCAAGCTATAATGCCGGTGAAAT
Found at i:96267008 original size:54 final size:54
Alignment explanation
Indices: 96266931--96267039 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
96266921 GGGTATTCAA
*
96266931 ATCATTTCATTTTGATATAGAAACAGTAACAATTTCCATCATTTCATTTATCAT
1 ATCATTTCATTTTGATACAGAAACAGTAACAATTTCCATCATTTCATTTATCAT
*
96266985 ATCATTTCATTTTGATACAGAAACAGTAACAATTTTCATCATTTCATTTATCAT
1 ATCATTTCATTTTGATACAGAAACAGTAACAATTTCCATCATTTCATTTATCAT
96267039 A
1 A
96267040 CATGCTAACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (54 bp):
ATCATTTCATTTTGATACAGAAACAGTAACAATTTCCATCATTTCATTTATCAT
Found at i:96267705 original size:9 final size:9
Alignment explanation
Indices: 96267691--96267729 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
96267681 TGCCTTCTAT
96267691 TTTCTTTTA
1 TTTCTTTTA
96267700 TTTCTTTCT-
1 TTTCTTT-TA
96267709 TTTCTTTTA
1 TTTCTTTTA
*
96267718 TTTGTTTTA
1 TTTCTTTTA
96267727 TTT
1 TTT
96267730 AATTACTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:96270438 original size:69 final size:69
Alignment explanation
Indices: 96270309--96270590 Score: 246
Period size: 69 Copynumber: 4.1 Consensus size: 69
96270299 AGCTCCAATA
* * * * * * * ** *
96270309 GTCATACTAAGTCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAAACAAAGCTCCC
1 GTCATACTAAGGCTCACAGGCAAAGAGCCACAGCCTCCAACACAATTAGCGAGAGTAAAGCTCAC
96270374 AGCT
66 AGCT
* * ** * * * *
96270378 GTCAAACTAAGGTTTGCAGGCAAAGAGCCACAGCCTCTATCACAATTAGTGAGAGTAAAGCTCAT
1 GTCATACTAAGGCTCACAGGCAAAGAGCCACAGCCTCCAACACAATTAGCGAGAGTAAAGCTCAC
*
96270443 AACT
66 AGCT
* * *
96270447 GTCATACTAAGGCTCACAGGCGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGTAAAGCTCTC
1 GTCATACTAAGGCTCACAGGCAAAGAGCCACAGCCTCCAACACAATTAGCGAGAGTAAAGCTCAC
96270512 AGCT
66 AGCT
* * * ** *
96270516 GTCATACTAAAGCTTAC-GAG-AGAAGAGCCGCAGTATCCAACACAATTAGC-AGGAGCAAAGCT
1 GTCATACTAAGGCTCACAG-GCA-AAGAGCCACAGCCTCCAACACAATTAGCGA-GAGTAAAGCT
*
96270578 CCCAGCT
63 CACAGCT
*
96270585 GCCATA
1 GTCATA
96270591 TTAAAACTAG
Statistics
Matches: 171, Mismatches: 39, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
68 2 0.01
69 169 0.99
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.17
Consensus pattern (69 bp):
GTCATACTAAGGCTCACAGGCAAAGAGCCACAGCCTCCAACACAATTAGCGAGAGTAAAGCTCAC
AGCT
Found at i:96270560 original size:138 final size:137
Alignment explanation
Indices: 96270309--96270564 Score: 307
Period size: 138 Copynumber: 1.9 Consensus size: 137
96270299 AGCTCCAATA
*
96270309 GTCATACTAAGTCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAAACAAAGCTCCC
1 GTCATACTAAGGCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAAACAAAGCTCCC
* * * * * *
96270374 AGCTGTCAAACTAAGGTTTGCAGGCAAAGAGCCACAGCCTCTATCACAATTAGTGAGAGTAAAGC
66 AGCTGTCAAACTAAAGCTTACAGG-AAAGAGCCACAGCATCCAACACAATTAGTGAGAGTAAAGC
96270439 TCATAACT
130 TCATAACT
* ** * * * ** *
96270447 GTCATACTAAGGCTCACAGGCGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGTAAAGCTCTC
1 GTCATACTAAGGCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAAACAAAGCTCCC
* * *
96270512 AGCTGTCATACTAAAGCTTAC-GAGAGAAGAGCCGCAGTATCCAACACAATTAG
66 AGCTGTCAAACTAAAGCTTACAG-GA-AAGAGCCACAGCATCCAACACAATTAG
96270565 CAGGAGCAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
137 2 0.02
138 95 0.98
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.18
Consensus pattern (137 bp):
GTCATACTAAGGCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAAACAAAGCTCCC
AGCTGTCAAACTAAAGCTTACAGGAAAGAGCCACAGCATCCAACACAATTAGTGAGAGTAAAGCT
CATAACT
Found at i:96270796 original size:57 final size:57
Alignment explanation
Indices: 96270667--96270811 Score: 164
Period size: 57 Copynumber: 2.5 Consensus size: 57
96270657 TACAATCCTC
* * * *
96270667 TAAAATTTTCTAAGAATAAAAAAGTCCGCAGAGTTACATTCCCAACTTGTTACTTTA
1 TAAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTA
* ** * * *
96270724 GAAAAACTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAGCTTATTATTTTT
1 TAAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTA
* * * *
96270781 TAAAGTTTTCCAAGTATAAAATAGCTCGCAG
1 TAAAATTTTCTAAGTATAAAAAAGTTCGCAG
96270812 GTCCAAATTT
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
57 71 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (57 bp):
TAAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTA
Found at i:96279766 original size:5 final size:5
Alignment explanation
Indices: 96279756--96279789 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
96279746 GGAAAAAAGC
*
96279756 ATATA ATATA ATATA ATATA ATATA ATATC ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
96279790 TTGCTTGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:96286793 original size:27 final size:28
Alignment explanation
Indices: 96286759--96286812 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
96286749 GAAATAAAAA
*
96286759 TTTT-GGGGGAAAACAAAAGTAAAAATG
1 TTTTGGGGGGAAAACAAAAGAAAAAATG
**
96286786 TTTTGGGGGGAAATTAAAAGAAAAAAT
1 TTTTGGGGGGAAAACAAAAGAAAAAAT
96286813 AAATGTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (28 bp):
TTTTGGGGGGAAAACAAAAGAAAAAATG
Found at i:96287889 original size:50 final size:50
Alignment explanation
Indices: 96287820--96287917 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 50
96287810 AACACAACAA
* * *
96287820 AGGCTTTAGCCTCAGCATAAATAGAGCATTATGACACGTTAACAATTGGT
1 AGGCTTTAGACTCAGCATAAATAGAACATTACGACACGTTAACAATTGGT
* * *
96287870 AGGCTTTAGACTTATCATAAATAGAACATTACGACATGTTAACAATTG
1 AGGCTTTAGACTCAGCATAAATAGAACATTACGACACGTTAACAATTG
96287918 ACATTGTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (50 bp):
AGGCTTTAGACTCAGCATAAATAGAACATTACGACACGTTAACAATTGGT
Found at i:96290021 original size:2 final size:2
Alignment explanation
Indices: 96290010--96290039 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
96290000 TTTAGAATAA
96290010 AT AT -T 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
96290040 ATAGTGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96291873 original size:44 final size:43
Alignment explanation
Indices: 96291807--96292218 Score: 179
Period size: 44 Copynumber: 9.5 Consensus size: 43
96291797 TCAGTCTGCT
*
96291807 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCC
1 CCACTGCAACTTCAGGG-GATAAGACTTGTAGCTTCAACTTGCC
* * * *
96291851 CCACTGCAACTTTAGAGGGATAAGGACTCGTAGCTTCAACCTACC
1 CCACTGCAACTTCAG-GGGATAA-GACTTGTAGCTTCAACTTGCC
* * * * *
96291896 CCACTACAACTTCAGGGGATAAGATTTATAGCTTTAACTCTGCT
1 CCACTGCAACTTCAGGGGATAAGACTTGTAGCTTCAACT-TGCC
* * * * * * * *
96291940 CTACTGCAATTTCAGAGAGATAAGATTTGCTATCTTCGA-TCCGCT
1 CCACTGCAACTTCAG-GGGATAAGACTTG-TAGCTTCAACT-TGCC
* *
96291985 CCACTGCAA--T-A---G----GACTCGTAACTTCAACCTT-CC
1 CCACTGCAACTTCAGGGGATAAGACTTGTAGCTTCAA-CTTGCC
* * * * * * *
96292018 CTACTGCAACTTCAGGGAGGTGAGATTTGCTATCTTCAA-TCCGCT
1 CCACTGCAACTTCAGGG-GATAAGACTTG-TAGCTTCAACT-TGCC
* * * * *
96292063 CCACTACAACTTCAGGGAGATAGGACTCGTAACTTCAACTTGTC
1 CCACTGCAACTTCAGGG-GATAAGACTTGTAGCTTCAACTTGCC
* * * *
96292107 CCACTGCAACTTCAAGGGGATAAGA-TTGTTATCTTC-AGTCTACT
1 CCACTGCAACTTC-AGGGGATAAGACTTG-TAGCTTCAACT-TGCC
* * * ** * *
96292151 CTACTGTAACTTCAGGAAGATAAGACTTGTAATTTCAACCTGCT
1 CCACTGCAACTTCAGG-GGATAAGACTTGTAGCTTCAACTTGCC
96292195 CCACTGCAACTTCAGGGAGATAAG
1 CCACTGCAACTTCAGGG-GATAAG
96292219 GTTTGTTTTG
Statistics
Matches: 273, Mismatches: 66, Indels: 58
0.69 0.17 0.15
Matches are distributed among these distances:
33 16 0.06
34 4 0.01
35 2 0.01
36 1 0.00
38 1 0.00
40 1 0.00
42 1 0.00
43 21 0.08
44 124 0.45
45 96 0.35
46 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGGATAAGACTTGTAGCTTCAACTTGCC
Found at i:96291906 original size:45 final size:44
Alignment explanation
Indices: 96291807--96291918 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 44
96291797 TCAGTCTGCT
* * *
96291807 CCACTGCAACTTCAGGGAGATAA-GACTTGTAACTTCAACTTGCC
1 CCACTGCAACTTCAGGG-GATAAGGACTCGTAACTTCAACCTACC
* *
96291851 CCACTGCAACTTTAGAGGGATAAGGACTCGTAGCTTCAACCTACC
1 CCACTGCAACTTCAG-GGGATAAGGACTCGTAACTTCAACCTACC
*
96291896 CCACTACAACTTCAGGGGATAAG
1 CCACTGCAACTTCAGGGGATAAG
96291919 ATTTATAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 27 0.46
45 32 0.54
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGGATAAGGACTCGTAACTTCAACCTACC
Found at i:96292267 original size:85 final size:88
Alignment explanation
Indices: 96292148--96292310 Score: 192
Period size: 92 Copynumber: 1.8 Consensus size: 88
96292138 TCTTCAGTCT
* *
96292148 ACTCTACTGTAACTTCAGGAAGATAAGACTTGT-A-AT-TTCAACCTGCTCCACTGCAACTTCAG
1 ACTCTACTGCAACTTCAAGAAGATAAGACTTGTAATATATTCAACCTGCTCCACTGCAACTTCAG
96292210 GGAGATAAGGTTTGTTTTGATCC
66 GGAGATAAGGTTTGTTTTGATCC
* *
96292233 ACTCTACTGCAACTTCAA-AGAGATAAG-GTCTGTAATTCATAGCTTCAATCTGCTCCACTGCAA
1 ACTCTACTGCAACTTCAAGA-AGATAAGACT-TGTAA-T-ATA--TTCAACCTGCTCCACTGCAA
*
96292296 CTTTAGGGAGATAAG
60 CTTCAGGGAGATAAG
96292311 ACTTTTGGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
84 2 0.03
85 26 0.41
86 1 0.02
89 2 0.03
92 33 0.52
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (88 bp):
ACTCTACTGCAACTTCAAGAAGATAAGACTTGTAATATATTCAACCTGCTCCACTGCAACTTCAG
GGAGATAAGGTTTGTTTTGATCC
Found at i:96292585 original size:88 final size:87
Alignment explanation
Indices: 96292458--96292762 Score: 396
Period size: 88 Copynumber: 3.5 Consensus size: 87
96292448 GATTAGCTTT
* * * * * * *
96292458 CTTCAATCTACTCCGCTGCAACTTTAGGGAGATA-AAATTGTCGCTTCGAGCCGCTCCAATGCCA
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAACCGCTCCAATGCCA
*
96292522 TTTCATGGAAAAGGGATTTGTAG
66 TTTCA-GGAAAAGAGATTTGTAG
* * *
96292545 CTTCGATCTATTCCGCTGGAACTTCAATGAAATACGAATTGTGGCTTCGAACCGCTCCAATGCCA
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAACCGCTCCAATGCCA
*
96292610 TTTCAGGAAGAAGAAATTTGTAG
66 TTTCAGGAA-AAGAGATTTGTAG
* ** * *
96292633 CTTCGATCTACTCCACTAAAACTTCAAGGAGATACAAATTGTGGCTTCGAACCACTCCAATGCCA
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAACCGCTCCAATGCCA
96292698 TTTCAGGGAAAAGAGATTTGTAG
66 TTTCA-GGAAAAGAGATTTGTAG
* * *
96292721 CTTCGATCTACTCTGCTGGAACTTTAAGGAGATAAGAATTGT
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGT
96292763 TGATTTCAAC
Statistics
Matches: 187, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
87 31 0.17
88 152 0.81
89 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (87 bp):
CTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAACCGCTCCAATGCCA
TTTCAGGAAAAGAGATTTGTAG
Found at i:96292636 original size:44 final size:44
Alignment explanation
Indices: 96292583--96292726 Score: 132
Period size: 44 Copynumber: 3.3 Consensus size: 44
96292573 GAAATACGAA
* *
96292583 TTGTGGCTTCGAACCGCTCCAATGCCATTTCAGGAAGAAGAAAT
1 TTGTAGCTTCGAACCACTCCAATGCCATTTCAGGAAGAAGAAAT
* * * *** * *
96292627 TTGTAGCTTCGATCTACTCCACTAAAACTTCAAGG-AGATACAAA-
1 TTGTAGCTTCGAACCACTCCAATGCCATTTC-AGGAAGA-AGAAAT
* *
96292671 TTGTGGCTTCGAACCACTCCAATGCCATTTCAGGGAA-AAGAGAT
1 TTGTAGCTTCGAACCACTCCAATGCCATTTCA-GGAAGAAGAAAT
96292715 TTGTAGCTTCGA
1 TTGTAGCTTCGA
96292727 TCTACTCTGC
Statistics
Matches: 74, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
43 4 0.05
44 62 0.84
45 8 0.11
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
TTGTAGCTTCGAACCACTCCAATGCCATTTCAGGAAGAAGAAAT
Found at i:96292869 original size:44 final size:43
Alignment explanation
Indices: 96292812--96293234 Score: 230
Period size: 44 Copynumber: 9.8 Consensus size: 43
96292802 GGTAGCTTAA
* * * *
96292812 ATCTGTTCTACTACTGCTTAGGGAGACAAGATTTGTTATATTT
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTTT
* * ** **
96292855 GATCTGCTCCACTACTGCTTAAGGAGACAGGACCTACAATCTTT
1 -ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTTT
* * * * * ** *
96292899 AGCCTACTCCACTACTGCTTAGGGAGATAGGA-TGGT-GGCTTAA
1 A-TCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTT-T
* * *** *
96292942 ATCTACTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTT-T
* * * *
96292986 ATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATATTT
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTTT
* * * * * *
96293029 AGTCTACTCCACTACTGCTTAGGGAGATAGGA-TGGTGA-CTTAA
1 A-TCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTT-T
***** *
96293072 AT-TCGCTCCACTACTGCTTAGGGAGACAAGATTCACCGTCTTCG
1 ATCT-GCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTT-T
* * **
96293116 ATCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTAATCTTT
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTTT
* * * * * ** *
96293159 AGCCTACTCCACTACTGCTTAGGGAGATAGGA-TGGT-GGCTTAA
1 A-TCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTT-T
*
96293202 ATCTGCTCCACTACTACTTAGGGAGACAAGATT
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATT
96293235 CACCGTCTTC
Statistics
Matches: 285, Mismatches: 81, Indels: 27
0.73 0.21 0.07
Matches are distributed among these distances:
41 1 0.00
42 85 0.30
43 15 0.05
44 183 0.64
45 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTAATCTTT
Found at i:96292940 original size:130 final size:130
Alignment explanation
Indices: 96292788--96293599 Score: 964
Period size: 130 Copynumber: 6.2 Consensus size: 130
96292778 CCATTACTAC
* * * ***** *
96292788 TAGGGAGATAGGATGGTAGCTTAAATCTGTTCTACTACTGCTTAGGGAGACAAGATTTGTTATAT
1 TAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCACCGTCT
* * * * *
96292853 TTGATCTGCTCCACTACTGCTTAAGGAGACAGGACCTACAATCTTTAGCCTACTCCACTACTGCT
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCCACTACTGCT
* *
96292918 TAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCT
1 TAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCACCGTCT
* ** * *
96292983 TCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATATTTAGTCTACTCCACTACTGCT
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCCACTACTGCT
*
96293048 TAGGGAGATAGGATGGTGACTTAAAT-TCGCTCCACTACTGCTTAGGGAGACAAGATTCACCGTC
1 TAGGGAGATAGGATGGTGGCTTAAATCT-GCTCCACTACTGCTTAGGGAGACAAGATTCACCGTC
* * **
96293112 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTAATCTTTAGCCTACTCCACTACTGC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCCACTACTGC
96293177 T
130 T
*
96293178 TAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCT
1 TAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCACCGTCT
* * * * * * *
96293243 TCGATCTGCTCTACTATTGCTTAGGGAGATAAGATCTACAATTTTTAGCTTGCTCTACTGCTGCT
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCCACTACTGCT
* * * * * * * * *
96293308 CAGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCC-CTATTACCTCT-GGAAGATAAGATTCGCC
1 TAGGGAGA-TAGGATGGTGGCTTAAATCTGC-TCCACTACT-GCT-TAGGGAGACAAGATTCACC
* * * * ** *
96293371 ATCTTCGATCTGCTTCACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTACTCCACTAC
62 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCCACTAC
*
96293436 TACT
127 TGCT
* *
96293440 TAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACTGTCT
1 TAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCACCGTCT
* ** * * * * *
96293505 TCGATTTGCTTTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCTTGCTCTACTGCTGCT
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCCACTACTGCT
* * * *
96293570 CAGGGAGACAAGGCTAGTGGCTTAAATCTG
1 TAGGGAGA-TAGGATGGTGGCTTAAATCTG
96293600 TTTCCCTACT
Statistics
Matches: 587, Mismatches: 86, Indels: 17
0.85 0.12 0.02
Matches are distributed among these distances:
129 2 0.00
130 437 0.74
131 65 0.11
132 82 0.14
133 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (130 bp):
TAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCACCGTCT
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCCACTACTGCT
Found at i:96292958 original size:86 final size:86
Alignment explanation
Indices: 96292856--96293278 Score: 282
Period size: 86 Copynumber: 4.9 Consensus size: 86
96292846 GTTATATTTG
* * *
96292856 ATCTGCTCCACTACTGCTTAAGGAGACAGGAC-CTACAATCTTTAGCCTACTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGACTC-GCAATC-TTAGCCTACTCCACTACTGCTTA
*
96292920 GGGAGATAGGAT-GGTGGCTTAA
64 GGGAGATAAGATCGGTGGCTTAA
* * ** * * *
96292942 ATCTACTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGACTCGCAATCTTAG-CCTACTCCACTACTGCTTAG
* * *** *
96293007 AGAGATAAGATCTGTAATATTTA
65 GGAGATAAGATCGGT-GGCTTAA
* * * * * ** *** *
96293030 GTCTACTCCACTACTGCTTAGGGAGATAGGA-TGGTGA-CTTAAATTCGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGACTCGCAATCTTAGCCT-ACTCCACTACTGCTTAG
* *** * **
96293093 GGAGACAAGATTCACCGTCTTCG
65 GGAGATAAGA-TCGGTGGCTTAA
* * *
96293116 ATCTGCTCCACTATTGCTTAGGGAGATAAGAC-CTGTAATCTTTAGCCTACTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGACTC-GCAATC-TTAGCCTACTCCACTACTGCTTA
*
96293180 GGGAGATAGGAT-GGTGGCTTAA
64 GGGAGATAAGATCGGTGGCTTAA
* * * ** * * * * *
96293202 ATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTCGATCTGCTCTACTATTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGACTCGCAATCTTAG-CCTACTCCACTACTGCTTAG
96293267 GGAGATAAGATC
65 GGAGATAAGATC
96293279 TACAATTTTT
Statistics
Matches: 255, Mismatches: 69, Indels: 25
0.73 0.20 0.07
Matches are distributed among these distances:
85 7 0.03
86 176 0.69
87 12 0.05
88 56 0.22
89 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (86 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGACTCGCAATCTTAGCCTACTCCACTACTGCTTAGG
GAGATAAGATCGGTGGCTTAA
Found at i:96293266 original size:44 final size:44
Alignment explanation
Indices: 96292905--96293539 Score: 261
Period size: 44 Copynumber: 14.6 Consensus size: 44
96292895 CTTTAGCCTA
* *** * * *
96292905 CTCCACTACTGCTTAGGGAGATAGGA-T-GGTGGCTTAAATCTA
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
* * *
96292947 CTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
* * *** *
96292991 CTCCACTACTGCTTAGAGAGATAAGATCTGTAATAT-TTAG-TCTA
1 CTCCACTACTGCTTAGGGAGATAAGAT-T-CACCGTCTTAGATCTG
* *** * *
96293035 CTCCACTACTGCTTAGGGAGATAGGA-T-GGTGACTTAAAT-TCG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCT-G
* *
96293077 CTCCACTACTGCTTAGGGAGACAAGATTCACCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
* * * * *
96293121 CTCCACTATTGCTTAGGGAGATAAGACCTGTAATC-T-TTAG-CCTA
1 CTCCACTACTGCTTAGGGAGATAAGA--T-TCACCGTCTTAGATCTG
* *** * *
96293165 CTCCACTACTGCTTAGGGAGATAGGA-T-GGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
* * *
96293207 CTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
* * ** * *
96293251 CTCTACTATTGCTTAGGGAGATAAGA-TCTACAATTTTTAGCT-TG
1 CTCCACTACTGCTTAGGGAGATAAGATTC-AC-CGTCTTAGATCTG
* * * * ** ** * *
96293295 CTCTACTGCTGCTCAGGGAGACAAGGCT-AGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
* * * * * *
96293338 CTTCC-CTATTACCTCT-GGAAGATAAGATTCGCCATCTTCGATCTG
1 C-TCCACTACT-GCT-TAGGGAGATAAGATTCACCGTCTTAGATCTG
* * * * * * *
96293383 CTTCACTATTACTTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTA
1 CTCCACTACTGCTTAGGGAGATAAGAT-T-CACCGTCTT-AGATCTG
* * *** * *
96293427 CTCCACTACTACTTAGGGAGATAGGA-T-GGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
* * * * *
96293469 CTCCACTACTACTTAGGGAGACAAGATTCACTGTCTTCGATTTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
**
96293513 CTTTACTACTGCTTAGGGAGATAAGAT
1 CTCCACTACTGCTTAGGGAGATAAGAT
96293540 CTACAATCTT
Statistics
Matches: 433, Mismatches: 124, Indels: 70
0.69 0.20 0.11
Matches are distributed among these distances:
40 2 0.00
41 8 0.02
42 109 0.25
43 14 0.03
44 264 0.61
45 30 0.07
46 3 0.01
47 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATTCACCGTCTTAGATCTG
Found at i:96293465 original size:262 final size:262
Alignment explanation
Indices: 96292855--96293678 Score: 1122
Period size: 262 Copynumber: 3.1 Consensus size: 262
96292845 TGTTATATTT
* * * * * * **
96292855 GATCTGCTCCACTACTGCTTAAGGAGACAGGACCTACAATCTTTAGCCTACTCCACTACTGCTTA
1 GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
* * *
96292920 GGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTC
66 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
* * ** * * * *
96292985 GATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATATTTAG-TCTACTCCACTACTGCTT
131 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCT-TGCTCTACTGCTGCTC
* * * * * * * *
96293049 AGGGAGA-TAGGATGGTGACTTAAAT-TCGC-TCCACTACT-GCT-TAGGGAGACAAGATTCACC
195 AGGGAGACAAGGCTAGTGGCTTAAATCT-GCTTCC-CTACTACCTCT-GGAAGATAAGATTCGCC
96293109 GTCTTC
257 GTCTTC
* *
96293115 GATCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTAATCTTTAGCCTACTCCACTACTGCTTA
1 GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
96293180 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
66 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
* *
96293245 GATCTGCTCTACTATTGCTTAGGGAGATAAGATCTACAATTTTTAGCTTGCTCTACTGCTGCTCA
131 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCTTGCTCTACTGCTGCTCA
* *
96293310 GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTATTACCTCTGGAAGATAAGATTCGCCATCT
196 GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGGAAGATAAGATTCGCCGTCT
96293375 TC
261 TC
* * *
96293377 GATCTGCTTCACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTACTCCACTACTACTTA
1 GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
*
96293442 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACTGTCTTC
66 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
* * * *
96293507 GATTTGCTTTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCTTGCTCTACTGCTGCTCA
131 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCTTGCTCTACTGCTGCTCA
* *
96293572 GGGAGACAAGGCTAGTGGCTTAAATCTGTTTCCCTACTACCTCTGAAAGATAAGATTCGCCGTCT
196 GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGGAAGATAAGATTCGCCGTCT
96293637 TC
261 TC
* * * *
96293639 GATTTGCTCCATTGA-TACCTCATGGAGATAAGATCTGTAA
1 GATCTGCTCCACT-ATTA-CTTAGGGAGATAAGATCTGTAA
96293679 ATTTACCGAT
Statistics
Matches: 507, Mismatches: 49, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
260 180 0.36
261 21 0.04
262 284 0.56
263 22 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (262 bp):
GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCTTGCTCTACTGCTGCTCA
GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGGAAGATAAGATTCGCCGTCT
TC
Found at i:96293550 original size:44 final size:44
Alignment explanation
Indices: 96293467--96293581 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
96293457 GGCTTAAATC
* * ** *
96293467 TGCTCCACTACTACTTAGGGAGACAAGATTCACTGTCTTC-GATT
1 TGCTCTACTACTGCTTAGGGAGACAAGATTCACAATCTTCAG-CT
* *
96293511 TGCTTTACTACTGCTTAGGGAGATAAGA-TCTACAATCTTCAGCT
1 TGCTCTACTACTGCTTAGGGAGACAAGATTC-ACAATCTTCAGCT
* *
96293555 TGCTCTACTGCTGCTCAGGGAGACAAG
1 TGCTCTACTACTGCTTAGGGAGACAAG
96293582 GCTAGTGGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
43 2 0.03
44 55 0.95
45 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TGCTCTACTACTGCTTAGGGAGACAAGATTCACAATCTTCAGCT
Found at i:96302593 original size:2 final size:2
Alignment explanation
Indices: 96302586--96302640 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
96302576 AAAGAATGAA
96302586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96302628 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
96302641 AAAGCAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96303702 original size:20 final size:19
Alignment explanation
Indices: 96303679--96303738 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 19
96303669 AAATTATAAA
96303679 AAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAA-ATTTAT
*
96303699 -AAAAATTCCAAAATTTAT
1 AAAAAATTCAAAAATTTAT
***
96303717 --ATTTTTCAAAAATTTAT
1 AAAAAATTCAAAAATTTAT
96303734 AAAAA
1 AAAAA
96303739 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 13 0.42
18 6 0.19
19 12 0.39
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAAATTCAAAAATTTAT
Found at i:96303748 original size:12 final size:12
Alignment explanation
Indices: 96303715--96303752 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
96303705 TCCAAAATTT
*
96303715 ATATTTTTCAAA
1 ATATTTTTAAAA
*
96303727 A-ATTTATAAAA
1 ATATTTTTAAAA
96303738 ATATTTTTAAAA
1 ATATTTTTAAAA
96303750 ATA
1 ATA
96303753 AAGAAAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:96307972 original size:46 final size:46
Alignment explanation
Indices: 96307777--96308084 Score: 224
Period size: 46 Copynumber: 6.6 Consensus size: 46
96307767 GGCCAACGCG
*
96307777 ATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-TGCCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCT--CATAT-CGAGGCCGATG-C
* * **
96307827 ATGTCCTAGACATGGTCTTACACT-GACACCTC-TATACG-TTCCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTAG-C-TCTCATAT-CGAGGCCGATG-C
* *
96307875 ATGT-CCAGACATGGTCTTACACTGGCACATC-TCAT--A-GCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTC-TCAT-ATCGAGGCCGATGC
*
96307919 ATGTCCCAGACATGTCTTACACTGGCT-TACATATCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCT-CATATCGAGGCCGATGC
* * * * * *
96307965 ATATCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCAGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATATCGAGGCCGATG-C
* * * *
96308012 ATGTCCTAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCTGATGT
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-ATCGAGGCCGATGC
96308059 ATGTCCCAGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
96308085 ACACAAATAA
Statistics
Matches: 217, Mismatches: 25, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 19 0.09
45 15 0.07
46 58 0.27
47 47 0.22
48 45 0.21
49 3 0.01
50 24 0.11
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCATATCGAGGCCGATGC
Found at i:96308033 original size:48 final size:48
Alignment explanation
Indices: 96307668--96308084 Score: 234
Period size: 47 Copynumber: 8.8 Consensus size: 48
96307658 ACATAGGGTA
* *
96307668 CAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCCAT
1 CAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-T
* * * **
96307716 CAA-GTTC-ATGCCATATCCC-GAACATGGTCTTACACT-GACTATCGAAAT
1 CAATG-CCGATGCCATGTCCCAG-ACATGGTCTTACACTAG-CTCTC-ATCT
** * * * * *
96307764 TGAGGCCAACGCGATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT
1 CAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCT
** * *
96307814 CCGTGCCGATGCCATGTCCTAGACATGGTCTTACACT-GACAC-C-TCT
1 CAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATCT
* * *
96307860 -ATACGTTCCGATGCCATGT-CCAGACATGGTCTTACACT-G-GCACATCT
1 CA-A--TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT
* *
96307907 C-ATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATAT
1 CAAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCT
* * * *
96307953 CGAGGCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCT
1 CAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT
* *
96307999 CAATGCAGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCA--T
1 CAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT
* *
96308045 -AATGTGGCTGATG-TATGTCCCAGACAT-GTCTTACACTAGC
1 CAA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
96308085 ACACAAATAA
Statistics
Matches: 294, Mismatches: 44, Indels: 64
0.73 0.11 0.16
Matches are distributed among these distances:
44 16 0.05
45 18 0.06
46 69 0.23
47 79 0.27
48 45 0.15
49 29 0.10
50 37 0.13
51 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
CAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT
Found at i:96311119 original size:11 final size:11
Alignment explanation
Indices: 96311103--96311132 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
96311093 TGATTAGTAT
96311103 AGATTATTTTA
1 AGATTATTTTA
96311114 AGATTA-TTTA
1 AGATTATTTTA
96311124 AGATTATTT
1 AGATTATTT
96311133 GACCTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (11 bp):
AGATTATTTTA
Found at i:96315097 original size:2 final size:2
Alignment explanation
Indices: 96315090--96315114 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96315080 AACATTTATT
96315090 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 T
96315115 TAATTTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96323655 original size:16 final size:16
Alignment explanation
Indices: 96323634--96323676 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
96323624 AAACAGTTTG
*
96323634 TATTTTTAGAAAACCT
1 TATTTTTAGAAAACCA
96323650 TA-TTTTAGTAAAACCA
1 TATTTTTAG-AAAACCA
96323666 TAGTTTTTAGA
1 TA-TTTTTAGA
96323677 GATCAGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 6 0.26
16 10 0.43
17 1 0.04
18 6 0.26
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (16 bp):
TATTTTTAGAAAACCA
Found at i:96330267 original size:41 final size:41
Alignment explanation
Indices: 96330210--96330287 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
96330200 ATAGTGATAT
96330210 TCGGGCTTTAAGCCTAGCAAGCATT-GTGCTGGTGAATGTAA
1 TCGGGCTTTAAGCCTAGCAAGC-TTAGTGCTGGTGAATGTAA
* * *
96330251 TCGGGCTTTATGCCTAGCAGGCTTATTGCTGGTGAAT
1 TCGGGCTTTAAGCCTAGCAAGCTTAGTGCTGGTGAAT
96330288 ATAAAATCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.06
41 31 0.94
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTAAGCCTAGCAAGCTTAGTGCTGGTGAATGTAA
Found at i:96336842 original size:41 final size:40
Alignment explanation
Indices: 96336770--96336926 Score: 113
Period size: 41 Copynumber: 3.8 Consensus size: 40
96336760 GTGATATTCG
* * * *
96336770 GGCTTTAAGCCTAGCAAGCATTGTGCTGGTGAATGTAATCG
1 GGCTTTAAGCCTAGCAGGC-TTTTGCCGGTGAATGTAATCA
* *
96336811 GGCTTTATGCCTAGCAGGCTTATTGCCGGTGAATATAAAATCA
1 GGCTTTAAGCCTAGCAGGCTT-TTGCCGGTGAATGT--AATCA
* * **
96336854 GACTTTAAGTCTAGCAGGCCTTAAGCCGGTG--TGTAATTCA
1 GGCTTTAAGCCTAGCAGG-CTTTTGCCGGTGAATGTAA-TCA
** *
96336894 GGC-TTATTCCTAGCAGGCTTTATGCCAGTGAAT
1 GGCTTTAAGCCTAGCAGGCTTT-TGCCGGTGAAT
96336927 TATTAAAAGT
Statistics
Matches: 89, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
38 3 0.03
39 19 0.21
40 7 0.08
41 31 0.35
43 26 0.29
44 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (40 bp):
GGCTTTAAGCCTAGCAGGCTTTTGCCGGTGAATGTAATCA
Found at i:96339379 original size:19 final size:18
Alignment explanation
Indices: 96339352--96339409 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
96339342 TTTTTTAAAT
96339352 AATTTTAACTTGATTGAA
1 AATTTTAACTTGATTGAA
*
96339370 AATGTTTAACTCGATTGAA
1 AAT-TTTAACTTGATTGAA
96339389 ATCATTTTAACTTGATT-AA
1 A--ATTTTAACTTGATTGAA
96339408 AA
1 AA
96339410 GTTGATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 3 0.09
19 18 0.51
20 11 0.31
21 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (18 bp):
AATTTTAACTTGATTGAA
Found at i:96339840 original size:31 final size:32
Alignment explanation
Indices: 96339802--96339935 Score: 120
Period size: 31 Copynumber: 4.4 Consensus size: 32
96339792 AATATATAGT
*
96339802 TTGGGTGACCAAAATGAAAGTGA-CTTAAAAG
1 TTGGGTGACCAAAATGAAAGTGACCCTAAAAG
*
96339833 TTGGGTGACCAAAATGAAAGT-ACCCTAAAAT
1 TTGGGTGACCAAAATGAAAGTGACCCTAAAAG
* * * **
96339864 TTAGGTGACCAAAATG--AG-AACACCT-TATT
1 TTGGGTGACCAAAATGAAAGTGAC-CCTAAAAG
* * *
96339893 TTGGGTGACCAGAATGAAAGCG-TCCTAAAAG
1 TTGGGTGACCAAAATGAAAGTGACCCTAAAAG
96339924 TTGGGTGACCAA
1 TTGGGTGACCAA
96339936 CTAAGTAGTT
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
29 20 0.24
30 7 0.08
31 56 0.67
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (32 bp):
TTGGGTGACCAAAATGAAAGTGACCCTAAAAG
Found at i:96341482 original size:191 final size:193
Alignment explanation
Indices: 96341148--96341534 Score: 724
Period size: 193 Copynumber: 2.0 Consensus size: 193
96341138 GCAGTTTCAG
96341148 TACTCATATGAGATACATCTTCCTTTCTATGTTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
1 TACTCATATGAGATACATCTTCCTTTCTATGTTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
*
96341213 TGACTAGATGACAGTTCCTATAATATAGTATAAAAAATATTATTTAGTAGAAAATAATTAATATT
66 TGACCAGATGACAGTTCCTATAATATAGTAT-AAAAATATTATTTAGTAGAAAATAATTAATATT
*
96341278 TGACACAATTAATAAATTCAAAATACTTCGTCATCAGCTACACAAGCAAAC-TTTCGACCTAGC
130 TGACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
*
96341341 TACTCATATGAGATACATCTTTCTTTCTATGTTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
1 TACTCATATGAGATACATCTTCCTTTCTATGTTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
96341406 TGACCAGATGACAGTTCCTATAATATAGTAT-AAAATATTATTTAGTAGAAAATAATTAATATTT
66 TGACCAGATGACAGTTCCTATAATATAGTATAAAAATATTATTTAGTAGAAAATAATTAATATTT
96341470 GACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
131 GACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
96341533 TA
1 TA
96341535 TCTGTGTGAA
Statistics
Matches: 190, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
191 82 0.43
192 14 0.07
193 94 0.49
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (193 bp):
TACTCATATGAGATACATCTTCCTTTCTATGTTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
TGACCAGATGACAGTTCCTATAATATAGTATAAAAATATTATTTAGTAGAAAATAATTAATATTT
GACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
Found at i:96347644 original size:68 final size:70
Alignment explanation
Indices: 96347572--96347769 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
96347562 ACACCCTGTA
* * * *
96347572 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
96347634 ATAAAT
65 ATAAAT
*
96347640 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
96347705 ATAAAT
65 ATAAAT
*
96347711 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
96347770 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:96347683 original size:41 final size:41
Alignment explanation
Indices: 96347638--96347755 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
96347628 TGAAAGATAA
96347638 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
96347679 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96347709 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96347750 ATGTAG
1 ATGTAG
96347756 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:96347695 original size:71 final size:71
Alignment explanation
Indices: 96347606--96347769 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
96347596 GAGATGTATC
96347606 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96347671 AGGACA
66 AGGACA
96347677 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96347742 AGGACA
66 AGGACA
96347748 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
96347770 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:96355213 original size:68 final size:70
Alignment explanation
Indices: 96355141--96355338 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
96355131 ACACCCTGTA
* * * *
96355141 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
96355203 ATAAAT
65 ATAAAT
*
96355209 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
96355274 ATAAAT
65 ATAAAT
*
96355280 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
96355339 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:96355252 original size:41 final size:41
Alignment explanation
Indices: 96355207--96355324 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
96355197 TGAAAGATAA
96355207 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
96355248 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96355278 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
96355319 ATGTAG
1 ATGTAG
96355325 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:96355264 original size:71 final size:71
Alignment explanation
Indices: 96355175--96355338 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
96355165 GAGATGTATC
96355175 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96355240 AGGACA
66 AGGACA
96355246 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
96355311 AGGACA
66 AGGACA
96355317 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
96355339 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:96357488 original size:39 final size:39
Alignment explanation
Indices: 96357432--96357596 Score: 208
Period size: 39 Copynumber: 4.3 Consensus size: 39
96357422 GTATGAGATT
* * *
96357432 GAAAATATATCCAGACATGAGGTCTGCAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTA
96357472 GAAAAATATCCGGACATGA--TCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* * *
96357509 GAAATATATCTGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* * ** *
96357548 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
96357587 GAAAAATATC
1 GAAAAATATC
96357597 TGGGTTAAAG
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
37 33 0.30
39 73 0.66
40 5 0.05
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
Found at i:96357527 original size:76 final size:77
Alignment explanation
Indices: 96357434--96357599 Score: 217
Period size: 76 Copynumber: 2.2 Consensus size: 77
96357424 ATGAGATTGA
** * * *
96357434 AAATATATCCAGACATGAGGTCTGCAGGCTATATGCTGGAAAAATATCCGGACATGA-TCCGCAG
1 AAATATATCTGGACATGAGATCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGTCCGCAG
*
96357498 GCTATATGCTAG
66 GCTACATGCTAG
* *
96357510 AAATATATCTGGACATGAGATCCGCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGCA
1 AAATATATCTGGACATGAGATCCGCAGGCTATATGCTAGAAAAATATCCGGACATGA-GTCCGCA
* *
96357575 GGCTACGTGCTGG
65 GGCTACATGCTAG
*
96357588 AAAAATATCTGG
1 AAATATATCTGG
96357600 GTTAAAGACC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 50 0.65
78 27 0.35
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (77 bp):
AAATATATCTGGACATGAGATCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGTCCGCAG
GCTACATGCTAG
Found at i:96357617 original size:78 final size:76
Alignment explanation
Indices: 96357457--96357625 Score: 189
Period size: 78 Copynumber: 2.2 Consensus size: 76
96357447 CATGAGGTCT
* * *
96357457 GCAGGCTATATGCTGGAAAAATATCCGGACATGATCCGCAGGCTATATGCTAGAAATATATCTGG
1 GCAGGCTATATGCTAGAAAAATATCCGGACATGATCCGCAGGCTACATGCTAGAAAAATATCTGG
* *
96357522 ACATGAGATCC
66 ACATAAGACCC
* * * *
96357533 GCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCT
1 GCAGGCTATATGCTAGAAAAATATCCGGACATGA--TCCGCAGGCTACATGCTAGAAAAATATCT
**
96357598 GG-GTTAAAGACCC
64 GGACAT-AAGACCC
*
96357611 GTAGGCT-TATGCTAG
1 GCAGGCTATATGCTAG
96357626 TAATGTATTC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
76 31 0.40
77 9 0.12
78 38 0.49
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (76 bp):
GCAGGCTATATGCTAGAAAAATATCCGGACATGATCCGCAGGCTACATGCTAGAAAAATATCTGG
ACATAAGACCC
Found at i:96360951 original size:27 final size:29
Alignment explanation
Indices: 96360891--96360974 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 29
96360881 GTAAGCATTT
*
96360891 AATTTATA-GATTTTATACTTTTTAAATA
1 AATTTATATGATTTTATAATTTTTAAATA
96360919 AATTTA-ATGATTTT-TAATTTTTAAA-A
1 AATTTATATGATTTTATAATTTTTAAATA
*
96360945 AATTTTATAT-ATATTTCTAAATTTTTAAAT
1 AA-TTTATATGAT-TTTAT-AATTTTTAAAT
96360975 TTTTAAAATT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
26 3 0.06
27 17 0.35
28 17 0.35
29 1 0.02
30 10 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
AATTTATATGATTTTATAATTTTTAAATA
Found at i:96362787 original size:14 final size:14
Alignment explanation
Indices: 96362734--96362788 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
96362724 GAAAATTACG
*
96362734 TATTTAATATAT-A
1 TATTTAATAAATAA
* *
96362747 TATAT-ATATATATA
1 TATTTAATAAATA-A
96362761 TATTTAA-AAATAA
1 TATTTAATAAATAA
96362774 TATTTAATAAATAA
1 TATTTAATAAATAA
96362788 T
1 T
96362789 GAAACATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 6 0.17
13 12 0.34
14 16 0.46
15 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTTAATAAATAA
Found at i:96363636 original size:31 final size:29
Alignment explanation
Indices: 96363601--96363669 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
96363591 CATAGTGAGT
* * *
96363601 AAAATATTACAAATTAATAATGTTAGTGACC
1 AAAATATAACAAATTAA-AAT-TGAATGACC
*
96363632 AAAATATAATAAATTAAAATTGAATGACC
1 AAAATATAACAAATTAAAATTGAATGACC
*
96363661 AAAACATAA
1 AAAATATAA
96363670 TTTAAACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 15 0.45
30 3 0.09
31 15 0.45
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (29 bp):
AAAATATAACAAATTAAAATTGAATGACC
Found at i:96364140 original size:17 final size:17
Alignment explanation
Indices: 96364118--96364150 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96364108 TATTAAAGAT
96364118 TATTTT-TAATATTAATA
1 TATTTTATAAT-TTAATA
96364135 TATTTTATAATTTAAT
1 TATTTTATAATTTAAT
96364151 CAGTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTATAATTTAATA
Found at i:96374498 original size:46 final size:46
Alignment explanation
Indices: 96374448--96374620 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
96374438 TGGTTGAGCA
*
96374448 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
96374494 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
96374541 TCCGAACTCGTTGAGCTGAGTCCAAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
96374587 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
96374621 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:96374604 original size:93 final size:93
Alignment explanation
Indices: 96374445--96374615 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
96374435 GGATGGTTGA
* * * *
96374445 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
96374510 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
96374538 GCATCCGAACTCGTTGAGCTGAGTCCAAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
96374603 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96374616 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGCTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96374882 original size:19 final size:20
Alignment explanation
Indices: 96374845--96374882 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
96374835 ATAAGGTGGT
96374845 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
96374865 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
96374883 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:96392881 original size:30 final size:30
Alignment explanation
Indices: 96392826--96392889 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
96392816 CACTAAGCAA
96392826 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
96392855 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
96392886 GTTT
1 GTTT
96392890 TTCCATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.16
30 10 0.32
31 14 0.45
32 2 0.06
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:96392907 original size:9 final size:10
Alignment explanation
Indices: 96392878--96392910 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
96392868 ATGTAATATC
96392878 ATTTCCATGT
1 ATTTCCATGT
*
96392888 TTTTCCATGT
1 ATTTCCATGT
96392898 ATTT-CATGT
1 ATTTCCATGT
96392907 ATTT
1 ATTT
96392911 ACCTGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.58
Consensus pattern (10 bp):
ATTTCCATGT
Found at i:96393135 original size:24 final size:25
Alignment explanation
Indices: 96393099--96393163 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 25
96393089 GAATTGGTAA
*
96393099 AAGCTCATTCGAGCTG-AGAATC-GT
1 AAGCTCATACGAGCTGCA-AATCTGT
96393123 AAGCTC-TCACGAGCTGCAAATCTGT
1 AAGCTCAT-ACGAGCTGCAAATCTGT
96393148 AAGCTCATACGAGCTG
1 AAGCTCATACGAGCTG
96393164 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 1 0.03
24 17 0.47
25 17 0.47
26 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (25 bp):
AAGCTCATACGAGCTGCAAATCTGT
Found at i:96397091 original size:4 final size:4
Alignment explanation
Indices: 96397082--96397193 Score: 50
Period size: 4 Copynumber: 28.2 Consensus size: 4
96397072 TTGATTCTGA
* * * **
96397082 TATT TATT TATT CATT TACT TGTT TATT TA-T TCCT TATT CTATT TACTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT -TATT TA-TT
* * * * * * * * * *
96397131 TATT CATT TATC TGTT CATT TACT CA-T TATT TCTA T-TT TAGT CATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
96397177 TATT TATT TATT TATT T
1 TATT TATT TATT TATT T
96397194 TTGTTTCAAT
Statistics
Matches: 76, Mismatches: 27, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
3 6 0.08
4 62 0.82
5 8 0.11
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (4 bp):
TATT
Found at i:96397135 original size:41 final size:41
Alignment explanation
Indices: 96397082--96397168 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
96397072 TTGATTCTGA
* * *
96397082 TATTTATTTATTCATTTA-CTTGTTTATTTATTCCTTA-TTC
1 TATTTATTTATTCATTTATC-TGTTCATTTACTCATTATTTC
96397122 TATTTACTTTATTCATTTATCTGTTCATTTACTCATTATTTC
1 TATTTA-TTTATTCATTTATCTGTTCATTTACTCATTATTTC
96397164 TATTT
1 TATTT
96397169 TAGTCATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
40 6 0.15
41 26 0.63
42 9 0.22
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (41 bp):
TATTTATTTATTCATTTATCTGTTCATTTACTCATTATTTC
Found at i:96397516 original size:6 final size:6
Alignment explanation
Indices: 96397505--96397538 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
96397495 GGCATCTAGC
96397505 ATTTTT ATTTTT ACTTTTT ATTTTTT ATTTTT AT
1 ATTTTT ATTTTT A-TTTTT A-TTTTT ATTTTT AT
96397539 CACTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:96397524 original size:13 final size:12
Alignment explanation
Indices: 96397505--96397538 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
96397495 GGCATCTAGC
96397505 ATTTTTATTTTT
1 ATTTTTATTTTT
96397517 ACTTTTTATTTTTT
1 A-TTTTTA-TTTTT
96397531 ATTTTTAT
1 ATTTTTAT
96397539 CACTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 12 0.60
14 6 0.30
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:96404159 original size:19 final size:19
Alignment explanation
Indices: 96404126--96404171 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
96404116 TGAGGAGTTG
* * *
96404126 AAGAGGAAAAGAAAATGAA
1 AAGAAGAAAAAAAAAAGAA
*
96404145 ATGAAGAAAAAAAAAAGAA
1 AAGAAGAAAAAAAAAAGAA
96404164 AAGAAGAA
1 AAGAAGAA
96404172 GGGAGAGCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (19 bp):
AAGAAGAAAAAAAAAAGAA
Found at i:96408705 original size:30 final size:30
Alignment explanation
Indices: 96408671--96408728 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
96408661 CAAGGCCATG
96408671 ACACACGGGCATGT-GATCTACCCGTGTGTC
1 ACACACGGGCATGTGGATC-ACCCGTGTGTC
96408701 ACACACGGGCATGTGGATCACCCGTGTG
1 ACACACGGGCATGTGGATCACCCGTGTG
96408729 GAAGTGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGGATCACCCGTGTGTC
Found at i:96410514 original size:19 final size:19
Alignment explanation
Indices: 96410473--96410514 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
96410463 TGCCTCTTTT
* *
96410473 TGCATTCATTTCATGCATT
1 TGCATTCATTGCATGCATA
96410492 TGCATTACATTGCAT-CATA
1 TGCATT-CATTGCATGCATA
96410511 TGCA
1 TGCA
96410515 ATAAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (19 bp):
TGCATTCATTGCATGCATA
Found at i:96412737 original size:43 final size:42
Alignment explanation
Indices: 96412660--96412777 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
96412650 CACATAGTAC
* * * *
96412660 CATACCAATGCCATATCCTAGATATGGTCGTACAT-AGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGA-AATCT
* *
96412702 CATATCAATGCCATTAGCCCAGCTATGGTCTTACATGAAATCT
1 CATATCAATGCCA-TATCCCAGATATGGTCTTACATGAAATCT
* *
96412745 CATATCGATGCCATATCTCAGATATGGTCTTAC
1 CATATCAATGCCATATCCCAGATATGGTCTTAC
96412778 TCAAAAATAG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.45
43 34 0.53
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
Found at i:96422087 original size:40 final size:40
Alignment explanation
Indices: 96422009--96422232 Score: 247
Period size: 40 Copynumber: 5.5 Consensus size: 40
96421999 ACACAAGTAT
* * * *
96422009 CTTCGGGATTTAG-CCAGATATAG-CAACTCGCAGAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
96422048 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
96422088 CTCCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
96422128 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
96422171 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
96422211 CATCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
96422233 CATCCGAATA
Statistics
Matches: 157, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 12 0.08
40 109 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:96422205 original size:83 final size:80
Alignment explanation
Indices: 96422009--96422232 Score: 256
Period size: 83 Copynumber: 2.8 Consensus size: 80
96421999 ACACAAGTAT
* * * * * *
96422009 CTTCGGGATTTAG-CCAGATATAGCAACTCGCAGAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
96422073 CACTAGCATGAATGC
66 CACTAGCATAAATGC
* * * *
96422088 CTCCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
96422152 CAACTACTCGC-TCAAATGC
66 C-ACTA---GCAT-AAATGC
* * *
96422171 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCATCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
96422233 CATCCGAATA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 11 0.09
80 47 0.39
82 1 0.01
83 62 0.51
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:96425298 original size:40 final size:40
Alignment explanation
Indices: 96425202--96425380 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
96425192 CGAATGGTAT
* * * *
96425202 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
96425243 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
96425283 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
96425323 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
96425363 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
96425381 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
40 93 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:96425343 original size:80 final size:81
Alignment explanation
Indices: 96425202--96425380 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
96425192 CGAATGGTAT
* *
96425202 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
96425267 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
96425283 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
96425346 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
96425363 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
96425381 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:96425393 original size:80 final size:80
Alignment explanation
Indices: 96425236--96425420 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
96425226 GTGCTAAGTG
* * * *
96425236 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
96425301 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * *
96425316 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
96425380 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
96425396 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
96425421 TACGTGATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 8 0.09
80 79 0.91
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTT
Found at i:96425401 original size:40 final size:40
Alignment explanation
Indices: 96425323--96425406 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
96425313 GTTACTAAAT
* * *
96425323 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
96425363 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
96425403 CCGG
1 CCGG
96425407 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:96432559 original size:2 final size:2
Alignment explanation
Indices: 96432552--96432577 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
96432542 CGGCTCTAGC
96432552 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
96432578 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96433382 original size:40 final size:40
Alignment explanation
Indices: 96433284--96433460 Score: 205
Period size: 40 Copynumber: 4.4 Consensus size: 40
96433274 TTCGAATGGT
* * *
96433284 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
96433325 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
96433365 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
96433405 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
96433446 A-CCGGGCTATGTCCC
1 ATCCGGGCTAAGTCCC
96433461 AAGACAATCG
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 88 0.75
41 29 0.25
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Done.