Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 78
Found at i:8772837 original size:20 final size:21
Alignment explanation
Indices: 8772812--8772850 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8772802 AATAAGGAAA
*
8772812 AGATAATTCCTAAA-ATAAAG
1 AGATAAATCCTAAAGATAAAG
8772832 AGATAAATCCTAAAGATAA
1 AGATAAATCCTAAAGATAA
8772851 TTCCTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AGATAAATCCTAAAGATAAAG
Found at i:8783950 original size:20 final size:22
Alignment explanation
Indices: 8783907--8783963 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
8783897 ATAGTCTTCA
*
8783907 AAATCCTAAACATAAGGAAGAT
1 AAATCCTAAACATAAAGAAGAT
*
8783929 AATTCCTAAA-ATAAAG-AGAT
1 AAATCCTAAACATAAAGAAGAT
*
8783949 AAATCCTAAATATAA
1 AAATCCTAAACATAA
8783964 TTCCTAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.42
21 9 0.29
22 9 0.29
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (22 bp):
AAATCCTAAACATAAAGAAGAT
Found at i:8785209 original size:31 final size:31
Alignment explanation
Indices: 8785146--8785211 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
8785136 GATTTCTATC
* * *
8785146 TTTGTTTCCTTTGTTTTTGTTGCAATGGGTT
1 TTTGTTTCCTTTGGTTTTGCTGCAATGAGTT
* **
8785177 TTTGTTTTCTTTGGTTTTGCTGTGATGAGTT
1 TTTGTTTCCTTTGGTTTTGCTGCAATGAGTT
8785208 TTTG
1 TTTG
8785212 GTACGTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.06, C:0.08, G:0.24, T:0.62
Consensus pattern (31 bp):
TTTGTTTCCTTTGGTTTTGCTGCAATGAGTT
Found at i:8785902 original size:18 final size:18
Alignment explanation
Indices: 8785879--8785942 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
8785869 TCTGGCCCAG
8785879 TTCTCCATCAGCAACCAA
1 TTCTCCATCAGCAACCAA
*
8785897 TTCTCCAAT-AGCTGACTCAA
1 TTCTCC-ATCAGC-AAC-CAA
* * *
8785917 TCCTCCGTCAGCACCCAA
1 TTCTCCATCAGCAACCAA
8785935 TTCTCCAT
1 TTCTCCAT
8785943 TAGCTAACTC
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
18 18 0.51
19 6 0.17
20 11 0.31
ACGTcount: A:0.27, C:0.39, G:0.08, T:0.27
Consensus pattern (18 bp):
TTCTCCATCAGCAACCAA
Found at i:8785937 original size:38 final size:38
Alignment explanation
Indices: 8785881--8785956 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
8785871 TGGCCCAGTT
*
8785881 CTCCATCAGCAACCAATTCTCCAATAGCTGACTCAATC
1 CTCCATCAGCAACCAATTCTCCAATAGCTAACTCAATC
* * *
8785919 CTCCGTCAGCACCCAATTCTCCATTAGCTAACTCAATC
1 CTCCATCAGCAACCAATTCTCCAATAGCTAACTCAATC
8785957 ATCACGTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.38, G:0.08, T:0.25
Consensus pattern (38 bp):
CTCCATCAGCAACCAATTCTCCAATAGCTAACTCAATC
Found at i:8788470 original size:21 final size:20
Alignment explanation
Indices: 8788441--8788479 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8788431 TAAGGCATTA
*
8788441 AACATCATAAACAAAACAAAT
1 AACAACATAAA-AAAACAAAT
*
8788462 AACAACATATAAAAACAA
1 AACAACATAAAAAAACAA
8788480 CCATCCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.69, C:0.18, G:0.00, T:0.13
Consensus pattern (20 bp):
AACAACATAAAAAAACAAAT
Found at i:8793930 original size:35 final size:35
Alignment explanation
Indices: 8793846--8794222 Score: 592
Period size: 35 Copynumber: 10.7 Consensus size: 35
8793836 TTGTTCCTGT
* * *
8793846 TTCACTACTCTTTTGTGAAGTCTTGATTTGTATTAC
1 TTCACTACTCTTTTGTGAAGGCTTGA-TTGCATTGC
*
8793882 TCCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
* *
8793917 TTCACTACTCTTTTGTGAAGGCTTGATTACATTGA
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
*
8793952 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTAC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
*
8793987 TTCACTACTCATTTGTGAAGGCTTGATTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
*
8794022 TTCACTACTCTTTTTTGAAGGCTTGATTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
* * *
8794057 TTCACTACTCTTTTATGAAGGCTTAAATGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
**
8794092 TTTGCTACTCTTTTGTGAAGGCTTGATTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
*
8794127 TTCACTACTCTTTTGTGAAGGCTTGACTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
* *
8794162 TTCACTACTCTTTTGTTAAAGCTTGATTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
8794197 TTCACTACTCTTTTGTGAAGGCTTGA
1 TTCACTACTCTTTTGTGAAGGCTTGA
8794223 CTCAAATGAC
Statistics
Matches: 311, Mismatches: 30, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
35 287 0.92
36 24 0.08
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (35 bp):
TTCACTACTCTTTTGTGAAGGCTTGATTGCATTGC
Found at i:8794428 original size:89 final size:89
Alignment explanation
Indices: 8794267--8794437 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
8794257 GATTAGATTA
* * * * * **
8794267 ACTTGAAAAGAATATATTTCACTACTTTTCTGTGACGATTAGATTCAAGGTTGATTTGTTTTTAC
1 ACTTGAAAAAAATATATTTCACTACTCTTCTGTGAAGATCAGATTCAAGGTTGATTTGCTTCCAC
* *
8794332 TACTCTTTTGTGGAGACTGAATTG
66 GACTCTTTCGTGGAGACTGAATTG
* * *
8794356 ACTTTAAAAAAATATGTTTCATTACTCTTCTGTGAAGATCAGATTCAAGGTTGATTTGCTTCCAC
1 ACTTGAAAAAAATATATTTCACTACTCTTCTGTGAAGATCAGATTCAAGGTTGATTTGCTTCCAC
*
8794421 GGCTCTTTCGTGGAGAC
66 GACTCTTTCGTGGAGAC
8794438 CAAATCTACA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (89 bp):
ACTTGAAAAAAATATATTTCACTACTCTTCTGTGAAGATCAGATTCAAGGTTGATTTGCTTCCAC
GACTCTTTCGTGGAGACTGAATTG
Found at i:8799086 original size:15 final size:15
Alignment explanation
Indices: 8799066--8799112 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
8799056 TGCTCTACTA
8799066 ATTCTCTTGAAAATC
1 ATTCTCTTGAAAATC
8799081 ATTCTCTTGAAAATC
1 ATTCTCTTGAAAATC
8799096 ATTCTCTTGAAAATC
1 ATTCTCTTGAAAATC
8799111 AT
1 AT
8799113 GTCCTCCAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (15 bp):
ATTCTCTTGAAAATC
Found at i:8806110 original size:13 final size:14
Alignment explanation
Indices: 8806078--8806115 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
8806068 TAGTAGTGAC
8806078 TAAAATATAAATAAA
1 TAAAAT-TAAATAAA
*
8806093 TAAAATTAAAT-GA
1 TAAAATTAAATAAA
8806106 TAAAATTAAA
1 TAAAATTAAA
8806116 ATGTGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 5 0.23
15 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
TAAAATTAAATAAA
Found at i:8811978 original size:20 final size:21
Alignment explanation
Indices: 8811942--8811983 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8811932 GGCTATTGGG
* *
8811942 TTTAGACTTGTAGTTTGGGCC
1 TTTAGACTTGTAATTTGAGCC
8811963 TTTAGAC-TGTAATTTGAGCC
1 TTTAGACTTGTAATTTGAGCC
8811983 T
1 T
8811984 GTAACCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (21 bp):
TTTAGACTTGTAATTTGAGCC
Found at i:8812030 original size:21 final size:21
Alignment explanation
Indices: 8811990--8812030 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8811980 GCCTGTAACC
* *
8811990 AAAATTATATTTATAAATAAT
1 AAAATTATAATAATAAATAAT
*
8812011 AAAATTATAATAATATATAA
1 AAAATTATAATAATAAATAA
8812031 AACTCAGACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATTATAATAATAAATAAT
Found at i:8815703 original size:14 final size:14
Alignment explanation
Indices: 8815684--8815720 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8815674 AATCAAAATA
8815684 CTCATTTCAGTTTT
1 CTCATTTCAGTTTT
*
8815698 CTCATTTTAGTTTT
1 CTCATTTCAGTTTT
8815712 CTCATTTCA
1 CTCATTTCA
8815721 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.05, T:0.57
Consensus pattern (14 bp):
CTCATTTCAGTTTT
Found at i:8815837 original size:23 final size:24
Alignment explanation
Indices: 8815806--8815855 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
8815796 ATCATTAGAT
*
8815806 CCACGGGACTATCTG-GATTTGAG
1 CCACCGGACTATCTGAGATTTGAG
*
8815829 CCACCGGACTATCTGATATTTGAG
1 CCACCGGACTATCTGAGATTTGAG
8815853 CCA
1 CCA
8815856 GGGAGGAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
CCACCGGACTATCTGAGATTTGAG
Found at i:8822826 original size:24 final size:24
Alignment explanation
Indices: 8822799--8822847 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8822789 TATGAAGACC
8822799 AGAAAGAAAAAGTTATATATATAT
1 AGAAAGAAAAAGTTATATATATAT
8822823 AGAAAGAAAAAGTTATATATATAT
1 AGAAAGAAAAAGTTATATATATAT
8822847 A
1 A
8822848 TATATGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (24 bp):
AGAAAGAAAAAGTTATATATATAT
Found at i:8823165 original size:3 final size:3
Alignment explanation
Indices: 8823157--8823228 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
8823147 CCAGTTCTAA
8823157 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
8823205 ATT ATT ATT ATT A-A ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
8823229 CATTTTTGTA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 1 0.02
3 65 0.98
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8825052 original size:25 final size:25
Alignment explanation
Indices: 8825024--8825080 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
8825014 GTTATTTGTA
8825024 TTATATTAA-ATAAATATTATTATTT
1 TTATATTAATATAAATATT-TTATTT
* *
8825049 TTAT-TTAATGTAGATATTTTATTT
1 TTATATTAATATAAATATTTTATTT
8825073 TGTATATT
1 T-TATATT
8825081 TCCAATTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 11 0.41
25 14 0.52
26 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (25 bp):
TTATATTAATATAAATATTTTATTT
Found at i:8826299 original size:68 final size:70
Alignment explanation
Indices: 8826167--8826307 Score: 223
Period size: 68 Copynumber: 2.0 Consensus size: 70
8826157 TTGTTACTTA
*
8826167 CAGTTTATACTATTAATTTTTAAAAATATATCTATAGAAAATAATATTGTATCCTTATTATAGAA
1 CAGTTTATACTATTAATTTTT-AAAATATA-CTATAGAAAATAATATTGTAACCTTATTATAGAA
8826232 ATATAAT
64 ATATAAT
* *
8826239 CAGTTTATACTATTAATTTTT-TAATATA-TATATAAAATAATATTGTAACCTTATTATAGAAAT
1 CAGTTTATACTATTAATTTTTAAAATATACTATAGAAAATAATATTGTAACCTTATTATAGAAAT
8826302 ATAAT
66 ATAAT
8826307 C
1 C
8826308 TAAATATTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
68 39 0.59
70 6 0.09
72 21 0.32
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (70 bp):
CAGTTTATACTATTAATTTTTAAAATATACTATAGAAAATAATATTGTAACCTTATTATAGAAAT
ATAAT
Found at i:8826468 original size:22 final size:23
Alignment explanation
Indices: 8826436--8826480 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
8826426 TATACAAAGA
8826436 TTTTTTAAAAATAAATCTTTAAC
1 TTTTTTAAAAATAAATCTTTAAC
8826459 TTTTTT-AAAATAAATCTTTAAC
1 TTTTTTAAAAATAAATCTTTAAC
8826481 ATCATTGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTTTAAAAATAAATCTTTAAC
Found at i:8831612 original size:124 final size:125
Alignment explanation
Indices: 8831295--8831653 Score: 454
Period size: 126 Copynumber: 2.9 Consensus size: 125
8831285 ACAAGACTCG
* * **
8831295 TACATAATGAGGAGATCTAGTCAAGTGATGACACTGCTCATCTATTCATGAGTCTTGATCATCTA
1 TACATAAT-AGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTA
* * * * * *
8831360 AGGGTGATAACACGATTCCTAC-GTGATGAGGACGGCTGGTTATCTAAGTTGACACATCTCC
65 AGGGTGATAACACGGTTCC-ACTCTGCTGGGGACAGCTGGTTATCTAAGTTGACACAGCTCC
* * * * *
8831421 TACATAATGAGGAGATTTGATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTAGCTATCTA
1 TACATAAT-AGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTA
* * *
8831486 AGGGTGATAA-ATCGGTTCCACTCTGCTGGGGACAGTTGGTTATGTTAGTTGACACAGCTCC
65 AGGGTGATAACA-CGGTTCCACTCTGCTGGGGACAGCTGGTTATCTAAGTTGACACAGCTCC
** *
8831547 TACATAAT-GGAGATCTGGTCGGGTGATGACACTGCTCATCTGTTCTTGAGTCTTGGCCATCTAA
1 TACATAATAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
**
8831611 GGGTGATAACACGGTTCCACTCTGCTGGGGATGGCTGGTTATC
66 GGGTGATAACACGGTTCCACTCTGCTGGGGACAGCTGGTTATC
8831654 AAGGGTTGAC
Statistics
Matches: 201, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
124 86 0.43
125 4 0.02
126 111 0.55
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (125 bp):
TACATAATAGGAGATCTGGTCAAGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
GGGTGATAACACGGTTCCACTCTGCTGGGGACAGCTGGTTATCTAAGTTGACACAGCTCC
Found at i:8831929 original size:35 final size:35
Alignment explanation
Indices: 8831824--8831930 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
8831814 CAAGGGAATG
* *
8831824 ACTCAAAGATG---GTTTTGTTTCAAGAGAAACAA
1 ACTCAAAGATGTTTGTTTTGTTTCAAGGGAAACAT
** * *
8831856 ACTCAAAGA--TTTAATTCGTTTCAAGGGAAACGGT
1 ACTCAAAGATGTTTGTTTTGTTTCAAGGGAAAC-AT
8831890 -CTCAAAGATGTTTGTTTTGTTTCAAGGGAAACAT
1 ACTCAAAGATGTTTGTTTTGTTTCAAGGGAAACAT
8831924 ACTCAAA
1 ACTCAAA
8831931 TATGGGTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
32 9 0.16
33 23 0.40
34 1 0.02
35 25 0.43
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (35 bp):
ACTCAAAGATGTTTGTTTTGTTTCAAGGGAAACAT
Found at i:8832029 original size:69 final size:69
Alignment explanation
Indices: 8831939--8832125 Score: 173
Period size: 69 Copynumber: 2.7 Consensus size: 69
8831929 AATATGGGTA
* ** * ** *
8831939 TTTCACAAGAAATTGTCTCAAAAGAGACAAAATTCATTTCAAGGAAAACGATTTCAAAG-ATGAT
1 TTTCATAAGAAACAGTCTC-AAAGAGAAAAAATTTGTTTCAAGGAAAACGATCTCAAAGTATGAT
8832003 TATTG
65 TATTG
* *
8832008 TTTCATGAGAAACAGTCTCAAAGA-AAATAAGATTTGTTTCAA-GAGAAACGATCTCAAAGTTTG
1 TTTCATAAGAAACAGTCTCAAAGAGAAA-AA-ATTTGTTTCAAGGA-AAACGATCTCAAAGTATG
* *
8832071 GTTGTTG
63 ATTATTG
* * *
8832078 TTTCATAAGAAACTGTCTCGAGAGAGATAAAATTTGTTTCAAGAGAAA
1 TTTCATAAGAAACAGTCTC-AAAGAGAAAAAATTTGTTTCAAG-GAAA
8832126 CAAACTCAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
67 2 0.02
68 9 0.09
69 37 0.39
70 35 0.37
71 8 0.08
72 4 0.04
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.30
Consensus pattern (69 bp):
TTTCATAAGAAACAGTCTCAAAGAGAAAAAATTTGTTTCAAGGAAAACGATCTCAAAGTATGATT
ATTG
Found at i:8832113 original size:70 final size:68
Alignment explanation
Indices: 8831939--8832138 Score: 204
Period size: 70 Copynumber: 2.9 Consensus size: 68
8831929 AATATGGGTA
* * * ** *
8831939 TTTCACAAGAAATTGTCTCAAAAGAGACAAAATTCATTTCAAG-GAAAACGATTTCAAAGATGAT
1 TTTCATAAGAAACTGTCTC-AAAGAGATAAAATTTGTTTCAAGAG-AAACGATCTCAAAGATGAT
8832003 TATTG
64 TATTG
* * * * * *
8832008 TTTCATGAGAAACAGTCTCAAAGAAAATAAGATTTGTTTCAAGAGAAACGATCTCAAAGTTTGGT
1 TTTCATAAGAAACTGTCTCAAAG-AGATAAAATTTGTTTCAAGAGAAACGATCTCAAAG-ATGAT
*
8832073 TGTTG
64 TATTG
* * *
8832078 TTTCATAAGAAACTGTCTCGAGAGAGATAAAATTTGTTTCAAGAGAAACAAACTCAAAGAT
1 TTTCATAAGAAACTGTCTC-AAAGAGATAAAATTTGTTTCAAGAGAAACGATCTCAAAGAT
8832139 TATAAATTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
68 4 0.04
69 43 0.41
70 56 0.53
71 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (68 bp):
TTTCATAAGAAACTGTCTCAAAGAGATAAAATTTGTTTCAAGAGAAACGATCTCAAAGATGATTA
TTG
Found at i:8832135 original size:139 final size:134
Alignment explanation
Indices: 8831837--8832139 Score: 308
Period size: 139 Copynumber: 2.2 Consensus size: 134
8831827 CAAAGATGGT
* * ** *
8831837 TTTGTTTCAAGAGAAACAAACTCAAAGATTTAATTCGTTTCAAGGGAAACGGTCTCAAAGATGTT
1 TTTGTTTCAAGAGAAACAAACTCAAAGATTTAATTCGTTTCAAGAGAAACAGTCTCAAAGAAATA
* * * *
8831902 TGTTTTGTTTCAAGGGAAACATACTCAAATATGGGTATTTCACAAGAAATTGTCTCAAAAGAGAC
66 AGATTTGTTTCAAGAGAAACATACTCAAATATGGGTATTTCACAAGAAACTGTCTCAAAAGAGAC
8831967 AAAA
131 AAAA
** * ** *
8831971 TTCATTTCAAG-GAAAACGATTTCAAAGATGATT-ATT-GTTTCATGAGAAACAGTCTCAAAGAA
1 TTTGTTTCAAGAG-AAACAAACTCAAAGAT--TTAATTCGTTTCAAGAGAAACAGTCTCAAAG-A
* * *
8832033 AATAAGATTTGTTTCAAGAGAAACGAT-CTCAAAGTTTGGTTGTTGTTTCATAAGAAACTGTCTC
62 AATAAGATTTGTTTCAAGAGAAAC-ATACTCAAA-TATGG--G-TATTTCACAAGAAACTGTCTC
* * *
8832097 GAGAGAGATAAAA
122 AAAAGAGACAAAA
8832110 TTTGTTTCAAGAGAAACAAACTCAAAGATT
1 TTTGTTTCAAGAGAAACAAACTCAAAGATT
8832140 ATAAATTTTG
Statistics
Matches: 133, Mismatches: 26, Indels: 17
0.76 0.15 0.10
Matches are distributed among these distances:
133 1 0.01
134 43 0.32
135 28 0.21
136 8 0.06
137 1 0.01
138 1 0.01
139 50 0.38
140 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (134 bp):
TTTGTTTCAAGAGAAACAAACTCAAAGATTTAATTCGTTTCAAGAGAAACAGTCTCAAAGAAATA
AGATTTGTTTCAAGAGAAACATACTCAAATATGGGTATTTCACAAGAAACTGTCTCAAAAGAGAC
AAAA
Found at i:8832265 original size:15 final size:15
Alignment explanation
Indices: 8832245--8832274 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8832235 AAGATGATTT
8832245 TTGTTTCAAAAGAAA
1 TTGTTTCAAAAGAAA
*
8832260 TTGTTTCAAGAGAAA
1 TTGTTTCAAAAGAAA
8832275 CGATCACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (15 bp):
TTGTTTCAAAAGAAA
Found at i:8832508 original size:34 final size:34
Alignment explanation
Indices: 8832470--8832536 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
8832460 AAAAGAAAAA
*
8832470 TATCTCAAGTGAGACGAAATTTATTTTGAGAAAT
1 TATCTCAAGTGAGACAAAATTTATTTTGAGAAAT
* *
8832504 TATCTCAAGTGAGACAAAATTTGTTTTTAGAAA
1 TATCTCAAGTGAGACAAAATTTATTTTGAGAAA
8832537 AACATCATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (34 bp):
TATCTCAAGTGAGACAAAATTTATTTTGAGAAAT
Found at i:8836595 original size:210 final size:209
Alignment explanation
Indices: 8836214--8836598 Score: 459
Period size: 210 Copynumber: 1.8 Consensus size: 209
8836204 TCCTTGAAAA
* *
8836214 TAATGGCCCTCAATGCTCTATAACCTAACTCGGTTAATGCCCCTGTGATGGTAAATTAGGTACGT
1 TAATGCCCCTCAATGCTCTATAACCTAACTCGGTTAATGCCCCTGCGATGGTAAATTAGGTA-GT
* * * * ** * * **
8836279 CTCTCCTTGATAACTAGCGATAAAATGATCGTAGATGAGAATCTACTGTCGGATTACTCTTTGTC
65 CGCTCCTTGATAACTAGCGATAAAATAATAGTAGATAAGAATCTACTGTCGGAAAACTCCTCGGA
* * *
8836344 TCAATGAATAATCGTTTGAGTCTCAAATGTTGCGCGATCTTCGAGTTCACTATTTCGTCTCGTAT
130 TCAATGAATAATCATTTAAGTCTCAAATGTTGCACGATCTTCGAGTTCACTATTTCGTCTCGTAT
8836409 CTTCGCTTTTGGAAT
195 CTTCGCTTTTGGAAT
* *
8836424 TAATGCCCCTCAATGCTCTGTAACCTAACTCGGTTAATGCCCCTGCGATGGTGAATTCAGTGT-G
1 TAATGCCCCTCAATGCTCTATAACCTAACTCGGTTAATGCCCCTGCGATGGTAAATT-AG-GTAG
** * *
8836488 TCGCTCCTTGATAACTAGC-AGTGGAATAATAGTAGATAAGAATCTATTGTTGGAAAACTCCTCG
64 TCGCTCCTTGATAACTAGCGA-TAAAATAATAGTAGATAAGAATCTACTGTCGGAAAACTCCTCG
* ** * * ** *
8836552 GATCATTGGGTCATCATTTAAGTCTCGAATGTTTTATGATCTTCGAG
128 GATCAATGAATAATCATTTAAGTCTCAAATGTTGCACGATCTTCGAG
8836599 CAAGTCTCAT
Statistics
Matches: 143, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
209 1 0.01
210 138 0.97
211 2 0.01
212 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (209 bp):
TAATGCCCCTCAATGCTCTATAACCTAACTCGGTTAATGCCCCTGCGATGGTAAATTAGGTAGTC
GCTCCTTGATAACTAGCGATAAAATAATAGTAGATAAGAATCTACTGTCGGAAAACTCCTCGGAT
CAATGAATAATCATTTAAGTCTCAAATGTTGCACGATCTTCGAGTTCACTATTTCGTCTCGTATC
TTCGCTTTTGGAAT
Found at i:8836830 original size:32 final size:32
Alignment explanation
Indices: 8836785--8836864 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
8836775 GCTACAGTCA
* * *
8836785 AAAGAAATAAGTTAGTGTACATAATCAAAAGG
1 AAAGAAATAAGTTAATGTACACAAACAAAAGG
*
8836817 AAAGAAATGAGTTAATGTACACAAACAAAAGG
1 AAAGAAATAAGTTAATGTACACAAACAAAAGG
*
8836849 AAAGAAATTAGTTAAT
1 AAAGAAATAAGTTAAT
8836865 ACAGGTGAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.21
Consensus pattern (32 bp):
AAAGAAATAAGTTAATGTACACAAACAAAAGG
Found at i:8837919 original size:15 final size:16
Alignment explanation
Indices: 8837901--8837938 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8837891 CCGTCTTTTA
8837901 AAAAAT-AATTTTAAG
1 AAAAATCAATTTTAAG
*
8837916 AAAAATCATTTTTAAG
1 AAAAATCAATTTTAAG
8837932 ACAAAAT
1 A-AAAAT
8837939 TGGTCTGCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 9 0.45
17 5 0.25
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAAATCAATTTTAAG
Found at i:8845125 original size:6 final size:6
Alignment explanation
Indices: 8845119--8845212 Score: 179
Period size: 6 Copynumber: 15.7 Consensus size: 6
8845109 TCCGTCCCCG
*
8845119 TATCCG TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA
1 TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA
8845167 TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA TATC
1 TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA TATCCA TATC
8845213 AGGGCAACAT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 87 1.00
ACGTcount: A:0.32, C:0.33, G:0.01, T:0.34
Consensus pattern (6 bp):
TATCCA
Found at i:8845562 original size:23 final size:23
Alignment explanation
Indices: 8845536--8845584 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8845526 TTTCAGCTGA
8845536 ATAAA-ATACATAACCATATAAAT
1 ATAAATATACA-AACCATATAAAT
* *
8845559 ATAAATATACAAAGCATATACAT
1 ATAAATATACAAACCATATAAAT
8845582 ATA
1 ATA
8845585 TGATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
ATAAATATACAAACCATATAAAT
Found at i:8847073 original size:24 final size:24
Alignment explanation
Indices: 8847046--8847097 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
8847036 AACGACTATT
8847046 ACTACGTAGATGCTTAAAAGATTA
1 ACTACGTAGATGCTTAAAAGATTA
8847070 ACTACGTAGATGCTTAAAAGATTA
1 ACTACGTAGATGCTTAAAAGATTA
8847094 ACTA
1 ACTA
8847098 AGAAAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (24 bp):
ACTACGTAGATGCTTAAAAGATTA
Found at i:8852867 original size:30 final size:30
Alignment explanation
Indices: 8852833--8852901 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
8852823 TATTCTTCTT
*
8852833 ATTTAGGTGTTTAACGTTTCTGATATTATC
1 ATTTAGGTGTCTAACGTTTCTGATATTATC
8852863 ATTTAGGTGTCTAACGTTTCTGATATTATC
1 ATTTAGGTGTCTAACGTTTCTGATATTATC
8852893 ATTTAGGTG
1 ATTTAGGTG
8852902 CATTAACCGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (30 bp):
ATTTAGGTGTCTAACGTTTCTGATATTATC
Found at i:8857003 original size:10 final size:10
Alignment explanation
Indices: 8856988--8857026 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
8856978 TGAATGGATT
8856988 TAAACGAACA
1 TAAACGAACA
*
8856998 TAAACGAACG
1 TAAACGAACA
8857008 TAAACGAACA
1 TAAACGAACA
*
8857018 CAAACGAAC
1 TAAACGAAC
8857027 GAACGTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (10 bp):
TAAACGAACA
Found at i:8857013 original size:20 final size:20
Alignment explanation
Indices: 8856988--8857102 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
8856978 TGAATGGATT
8856988 TAAACGAACATAAACGAACG
1 TAAACGAACATAAACGAACG
*
8857008 TAAACGAACACAAACGAACG
1 TAAACGAACATAAACGAACG
*
8857028 --AACGTAA-ATGAACACAAACG
1 TAAACG-AACAT-AA-ACGAACG
** *
8857048 --AACGAACGCAAACGAACACAA
1 TAAACGAACATAAACG-A-AC-G
*
8857069 TAAATGAACATAAACGAACG
1 TAAACGAACATAAACGAACG
*
8857089 TAAAGGAACATAAA
1 TAAACGAACATAAA
8857103 TGAAAATAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
18 7 0.09
19 9 0.12
20 44 0.59
21 2 0.03
22 1 0.01
23 11 0.15
ACGTcount: A:0.57, C:0.20, G:0.15, T:0.09
Consensus pattern (20 bp):
TAAACGAACATAAACGAACG
Found at i:8857032 original size:24 final size:24
Alignment explanation
Indices: 8857000--8857068 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
8856990 AACGAACATA
8857000 AACGAACGTAAACGAACACAAACG
1 AACGAACGTAAACGAACACAAACG
*
8857024 AACGAACGTAAATGAACACAAACG
1 AACGAACGTAAACGAACACAAACG
*
8857048 AACGAACGCAAACGAACACAA
1 AACGAACGTAAACGAACACAA
8857069 TAAATGAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.55, C:0.25, G:0.16, T:0.04
Consensus pattern (24 bp):
AACGAACGTAAACGAACACAAACG
Found at i:8857050 original size:10 final size:10
Alignment explanation
Indices: 8856989--8857050 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 10
8856979 GAATGGATTT
*
8856989 AAACGAACAT
1 AAACGAACAC
**
8856999 AAACGAACGT
1 AAACGAACAC
8857009 AAACGAACAC
1 AAACGAACAC
8857019 AAACGAACGAAC
1 AAACGAAC--AC
*
8857031 GTAAATGAACAC
1 --AAACGAACAC
8857043 AAACGAAC
1 AAACGAAC
8857051 GAACGCAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
10 32 0.74
12 4 0.09
14 7 0.16
ACGTcount: A:0.56, C:0.23, G:0.15, T:0.06
Consensus pattern (10 bp):
AAACGAACAC
Found at i:8857081 original size:10 final size:10
Alignment explanation
Indices: 8857068--8857106 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
8857058 AACGAACACA
8857068 ATAAATGAAC
1 ATAAATGAAC
*
8857078 ATAAACGAAC
1 ATAAATGAAC
* *
8857088 GTAAAGGAAC
1 ATAAATGAAC
8857098 ATAAATGAA
1 ATAAATGAA
8857107 AATAGATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.15, T:0.15
Consensus pattern (10 bp):
ATAAATGAAC
Found at i:8857310 original size:24 final size:24
Alignment explanation
Indices: 8857273--8857334 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
8857263 AGATTGGGCT
*
8857273 AAACATAAATGAACGCACATAAAC
1 AAACATAAATGAACGAACATAAAC
*
8857297 GAAA-ATAAACGAACGAACATAAAC
1 -AAACATAAATGAACGAACATAAAC
8857321 AAACATAAATGAAC
1 AAACATAAATGAAC
8857335 ATAAATGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.61, C:0.18, G:0.10, T:0.11
Consensus pattern (24 bp):
AAACATAAATGAACGAACATAAAC
Found at i:8861310 original size:32 final size:31
Alignment explanation
Indices: 8861273--8861335 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
8861263 TTAGCGAAAG
*
8861273 TTATAAAT-TTTAATTTTAATTTATTTATTCAA
1 TTATAAATATTTAACTTTAA-TTATTT-TTCAA
* *
8861305 TTATAATTATTTACCTTTAATTATTTTTCAA
1 TTATAAATATTTAACTTTAATTATTTTTCAA
8861336 GTAAATAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 5 0.19
32 13 0.48
33 9 0.33
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (31 bp):
TTATAAATATTTAACTTTAATTATTTTTCAA
Found at i:8866373 original size:164 final size:164
Alignment explanation
Indices: 8865971--8867040 Score: 1276
Period size: 164 Copynumber: 6.5 Consensus size: 164
8865961 CTATTTGCTA
* * *
8865971 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATCTGCAACATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * * * *
8866036 CGATAAGGGCTATCTTCCAAAGACCCCCGAGTTCGATTACACTTAGCTCCGAGGG-TATATCATT
66 CGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCT-CATCATT
* * *
8866100 TGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCC
130 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * *
8866135 AACCAAAAACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATTATTTACAGCATAGCTTAAG
1 -ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
* * *
8866200 TCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTTGATTATACTCAGCTTTGAGGGCTCATCATT
65 TCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCTCATCATT
*
8866265 TACAACATAACTCAAGGCTAGAAGGGTTATCTGTC
130 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * *
8866300 ACCAAAGACCTTCGAGTTCGGCTACGCTCAGCTCTAAGGCGCATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * *
8866365 CCAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACACCATTT
66 CGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCTCATCATTT
* *
8866430 ACAGCATAACTCAAGGTTAGAGGGGTTATCTGTC
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * ** *
8866464 ACCAAAGACCTTCGAGTTCGACTACGCTCAACTCTAAGGCGTATCATTTGCAGCATAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * *
8866529 CGAGAATGGCTATCTGCCAAATACCCTCAAGTTCGATCACACTCAGCTTCGAGGGCAT-ATCATT
66 CGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGC-TCATCATT
8866593 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
130 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * * * *
8866628 ACCAAAAACCTTCGAGTTTGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCACAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * * * * * *
8866693 CTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATC
66 CGAGAAGGGTTATCTGCC----AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCTCATC
* * * * *
8866757 ATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG--
127 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * * * * *
8866793 -CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAG
* * * *
8866857 TCGAAAAGGGCTATCTGCCAAAGGA-CCTCGAGTTCAATTACACTCAG-GTCGAGGGCAT-ATCA
65 TCGAGAAGGGTTATCTGCCAAA-GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGC-TCATCA
* *
8866919 TTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTT
128 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * * *
8866956 ACCAAAGACCTTCGAGTTCGATTACGCTCACCTCCAAGGCACATCATTTGTAGTATAGTTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
*
8867021 CGAGAAGGGTTATATGCCAA
66 CGAGAAGGGTTATCTGCCAA
8867041 CCGAATACCT
Statistics
Matches: 775, Mismatches: 116, Indels: 30
0.84 0.13 0.03
Matches are distributed among these distances:
161 61 0.08
162 2 0.00
163 44 0.06
164 423 0.55
165 182 0.23
166 1 0.00
167 40 0.05
168 22 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (164 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
CGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCTCATCATTT
ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
Found at i:8866471 original size:248 final size:244
Alignment explanation
Indices: 8865971--8867040 Score: 958
Period size: 248 Copynumber: 4.3 Consensus size: 244
8865961 CTATTTGCTA
** * * * *
8865971 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAT-ATCATCTGCAACATAGCTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGC-TCATCATTTACAGCATAACTTAAG
* * * * * * * *
8866035 TCGATAAGGGCTATCTTCCAAAGACCCCCGAGTTC-GATTACACTTAGCTCCGAGGGTATATCAT
65 TCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGGA-TACACTCAGCTTCGAGGGCACATCAT
* * * * * * * * * **
8866099 TTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAAACCTTCGAGTTCGACTATGCT
129 TTACAGCATAGCTTAAGTCCAGAAGGGTTATCTG----CCAAAGACCCTCGAGTTCGATTACACT
* * * * * * *
8866164 CAGCTCCAAGGCACATTATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTG--
190 CAGCTCGAGGGCATATCATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTC
* * * ** * * *
8866217 -CCAAAGACCCTCGAGTTTGATTATACTCAGCTTTGAGGGCTCATCATTTACAACATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTT-AAGGCTCATCATTTACAGCATAACTTAAG
* * * * * * * * * *
8866281 GCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGGCTACGCTCAGC-TCTAAGGCGCATC
65 TCGAGAAGGGCTATCTG---CCAAAGACCCTCAAGTTCGGATACACTCAGCTTCGAGGGCACATC
* *
8866345 ATTTGCAGCATAGCTTAAGTCCAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCA
127 ATTTACAGCATAGCTTAAGTCCAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* * *
8866410 GCTTCGAGGGCACACCATTTACAGCATAACTCAAGGT-TAGAGGGGTTATCTGTC
192 GC-TCGAGGGCATATCATTTACAGCATAACTCAA-GTCTAGAAGGGTTATCTGTC
* * *
8866464 ACCAAAGACCTTCGAGTTCGACTACGCTCAACTCTAAGGCGT-ATCATTTGCAGCATAACTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGC-TCATCATTTACAGCATAACTTAAG
* * *
8866528 TCGAGAATGGCTATCTGCCAAATACCCTCAAGTTC-GATCACACTCAGCTTCGAGGGCATATCAT
65 TCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGGAT-ACACTCAGCTTCGAGGGCACATCAT
* * * * * * * * *
8866592 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAACCTTCGAGTTTGACTACGCTC
129 TTACAGCATAGCTTAAGTCCAGAAGGGTTATCTG---CCAAAGACCCTCGAGTTCGATTACACTC
* * * * * * *
8866657 AGCTCTAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCC
191 AGCTCGAGGGCATATCATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTC
** * * * *
8866711 AATAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTACAGCATAGCTTAA
1 -ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTTAA-GGCTCATCATTTACAGCATAACTTAA
8866775 GTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTC-GATTACACTCAGCTTCGAGGGCACATCA
64 GTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGGA-TACACTCAGCTTCGAGGGCACATCA
* * * *
8866839 TTTACAGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAAAGGA-CCTCGAGTTCAATTACACTCA
128 TTTACAGCATAGCTTAAGTCCAGAAGGGTTATCTGCCAAA-GACCCTCGAGTTCGATTACACTCA
* *
8866903 GGTCGAGGGCATATCATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTT
192 GCTCGAGGGCATATCATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTC
* * ** * ** * **
8866956 ACCAAAGACCTTCGAGTTCGATTACGCTCACCTCCAAGGCACATCATTTGTAGTATAGTTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGCTCATCATTTACAGCATAACTTAAGT
* *
8867021 CGAGAAGGGTTATATGCCAA
66 CGAGAAGGGCTATCTGCCAA
8867041 CCGAATACCT
Statistics
Matches: 663, Mismatches: 137, Indels: 50
0.78 0.16 0.06
Matches are distributed among these distances:
243 2 0.00
244 117 0.18
245 174 0.26
246 39 0.06
247 76 0.11
248 229 0.35
249 25 0.04
250 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (244 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGCTCATCATTTACAGCATAACTTAAGT
CGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGGATACACTCAGCTTCGAGGGCACATCATTT
ACAGCATAGCTTAAGTCCAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTC
GAGGGCATATCATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTC
Found at i:8867073 original size:412 final size:407
Alignment explanation
Indices: 8865972--8867051 Score: 1161
Period size: 412 Copynumber: 2.6 Consensus size: 407
8865962 TATTTGCTAA
* * * * * * * * * *
8865972 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATCTGCAACATAGCTTAAGT
1 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGT
* * * * *
8866036 CGATAAGGGCTATCTTCCAAAGACCCCCGAGTTCGATTACACTTAGCTCCGAGGGTATATCATTT
66 CGAAAAGGGCTATCTGCCAAAGA-CCTCGAGTTCGATTACACTCAGCT-CGAGGGCATATCATTT
* * * *
8866101 GCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAAACCTTCGAGTTCGACTATGCTCA
129 GCAGCATAACTCAAGTCTAGAAGGGTTATCTG---ACCAAAAACCTTCGAGTTCGATTACGCTCA
* * * *
8866166 GCTCCAAGGCACATTATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAA-AG-ACCCTC
191 CCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAACCTC
* * * *
8866229 GAGTTTGATTATACTCAGCTTTGAGGGCTCATCATTTACAACATAACTCAAGGCTAGAAGGGTTA
256 GAGTTTGATTACACTCAGCTCTGAAGGCTCATCATTTACAACACAACTCAAGGCTAGAAGGGTTA
* * * * *
8866294 TCTGTCACCAAAGACCTTCGAGTTCGGCTACGCTCAGCTCTAAGGCGCATCATTTGCAGCATAGC
321 TCTGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAGC
*
8866359 TTAAGTCCAGAAGGGTTATCTG
386 TTAAGTCCAGAAGGGCTATCTG
* * *
8866381 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACACCATTTACAGCATAACTCAAGG
1 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAA-G
* * * * * * * * * *
8866446 T-TAGAGGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAACTCTAAGGCGTATCA
65 TCGAAAAGGGCTATCTG---CCAAAGACC-TCGAGTTCGATTACACTCAGCTCGAGGGCATATCA
* * * * * * * * *
8866510 TTTGCAGCATAACTTAAGTCGAGAATGGCTATCTG-CCAAATACCCTCAAGTTCGATCACACTCA
126 TTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGACCAAAAACCTTCGAGTTCGATTACGCTCA
* * * * * * * * * *
8866574 GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAACC
191 -CCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACC-GAAACC
* * * * * *
8866638 TTCGAGTTTGACTACGCTCAGCTCT-AAGGCAT-ATCATTTGCAGCACAACTTAAGTCTAGAAGG
254 -TCGAGTTTGATTACACTCAGCTCTGAAGGC-TCATCATTTACAACACAACTCAAGGCTAGAAGG
* * *
8866701 GTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCTC-AACGGCACATCATTTACAG
317 GTTATCTGCC-ACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAA-GGCACATCATTTACAG
*
8866765 CATAGCTTAAGTCGAGAAGGGCTATCTG
380 CATAGCTTAAGTCCAGAAGGGCTATCTG
8866793 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGT
1 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGT
* * *
8866858 CGAAAAGGGCTATCTGCCAAAGGACCTCGAGTTCAATTACACTCAGGTCGAGGGCATATCATTTA
66 CGAAAAGGGCTATCTGCCAAA-GACCTCGAGTTCGATTACACTCAGCTCGAGGGCATATCATTTG
*
8866923 CAGCATAACTCAAGTCTAGAAGGGTTATCTGTTACCAAAGACCTTCGAGTTCGATTACGCTCACC
130 CAGCATAACTCAAGTCTAGAAGGGTTATCTG--ACCAAAAACCTTCGAGTTCGATTACGCTCACC
** * * *
8866988 TCCAAGGCACATCATTTGTAGTATAGTTTAAGTCGAGAAGGGTTATATGCCAACCGAATACCTC
193 TCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAA-ACCTC
8867052 CAAGTTCAAT
Statistics
Matches: 536, Mismatches: 114, Indels: 40
0.78 0.17 0.06
Matches are distributed among these distances:
408 23 0.04
409 131 0.24
410 36 0.07
411 90 0.17
412 232 0.43
413 24 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (407 bp):
CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGT
CGAAAAGGGCTATCTGCCAAAGACCTCGAGTTCGATTACACTCAGCTCGAGGGCATATCATTTGC
AGCATAACTCAAGTCTAGAAGGGTTATCTGACCAAAAACCTTCGAGTTCGATTACGCTCACCTCC
AAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAACCTCGAGTT
TGATTACACTCAGCTCTGAAGGCTCATCATTTACAACACAACTCAAGGCTAGAAGGGTTATCTGC
CACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTACAGCATAGCTTAAG
TCCAGAAGGGCTATCTG
Found at i:8867664 original size:2 final size:2
Alignment explanation
Indices: 8867643--8867683 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
8867633 AAATTTTGTC
*
8867643 TA TA TG TA TA TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8867683 T
1 T
8867684 TTTTACTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8868832 original size:15 final size:17
Alignment explanation
Indices: 8868812--8868848 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
8868802 GTCCTTTTAG
8868812 ATTTTTGT-TTAAT-TT
1 ATTTTTGTCTTAATATT
8868827 ATTTTTGTCCTTAATATT
1 ATTTTTGT-CTTAATATT
8868845 ATTT
1 ATTT
8868849 AGGGGTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTTGTCTTAATATT
Found at i:8874467 original size:164 final size:164
Alignment explanation
Indices: 8874054--8875120 Score: 1392
Period size: 164 Copynumber: 6.5 Consensus size: 164
8874044 TTTGCCAACT
* * *
8874054 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATCTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* * *
8874119 GAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTCCGAGGGCATATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* *
8874184 GTATAACTCAAGGCTAGAAGGGTTATCTGCCAACC
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACC
* * * * *
8874219 AAAAACCTTCGAGTTCGACTATGCTCAGCTCTAAGGCACATTATATGCAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* * *
8874284 GAAGGGCTATCTGCCAAAGACCCTCGAGTTTGATTATACTCAGCTTTGAGGGC-TCATCATTTAC
66 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCAT-ATCATTTAC
*
8874348 AACATAACTCAAGGCTAGAAGGGTTATCTGTCACC
130 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* *
8874383 AAAGACCTTCGAGTTCGGCTACGCTCAGCTCTAAGGCGCATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* * * * *
8874448 GAAGGGCTATCTTCCAAAGACCCTCGAGTTCAATTACACTCAACTTCGAGGGCACACCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* *
8874513 GCATAACTCAAGGTTAGAGGGGTTATCTGTCACC
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* * *
8874547 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAACATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* * * *
8874612 GAATGGCTATCTGCCAAAGACCCTCAAGTTCTATCACACTCAGCTTCGAGGGCATATCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
8874677 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* * * * *
8874711 AAAAACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCACAACTTAAGTCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* * * * * * * * *
8874776 GAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATT
66 GAAGGGCTATCTGCC----AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATT
* * * * * *
8874840 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CC
127 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* * * * * * *
8874875 AAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* *
8874940 AAAAGGGCTATCTGCCAAAGGA-CCTCGAGTTCGATTACACTCAG-GTCGAGGGCATATCATTTA
65 AGAAGGGCTATCTGCCAAA-GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTA
*
8875003 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACC
129 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* * * * * *
8875039 AAGGACCTTCAAGTTCGATTACGCTCACCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
8875104 GAAGGGCTATCTGCCAA
66 GAAGGGCTATCTGCCAA
8875121 CCGAATACCT
Statistics
Matches: 781, Mismatches: 109, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
161 61 0.08
162 2 0.00
163 48 0.06
164 424 0.54
165 184 0.24
167 40 0.05
168 22 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (164 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
GCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
Found at i:8874552 original size:248 final size:244
Alignment explanation
Indices: 8874054--8875120 Score: 959
Period size: 248 Copynumber: 4.3 Consensus size: 244
8874044 TTTGCCAACT
** * * *
8874054 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAT-ATCATCTGCAGCATAGCTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGC-TCATCATTTGCAACATAACTTAAGTCG
* * * * * *
8874118 AGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTCCGAGGGCATATCATTTGC
65 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGAATACACTCAGCTTCGAGGGCACATCATTTAC
* * * * * * * * * * ** *
8874183 AGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAAACCTTCGAGTTCGACTATGCTCAGC
130 AGCATAGCTTAAGTCGAGAAGGGCTATCT----TCCAAAGACCCTCGAGTTCGATTACACTCAAC
* * * * * * * * *
8874248 TCTAAGGCACATTATATGCAGCATAACTTAA-GTCGAGAAGGGCTATCTG---CC
191 TCGAGGGCATATCATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTGTCACC
* * * ** * * * * *
8874299 AAAGACCCTCGAGTTTGATTATACTCAGCTTTGAGGGCTCATCATTTACAACATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTTT-AAGGCTCATCATTTGCAACATAACTTAAGTCG
* * * ** * * * *
8874364 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGGCTACGCTCAGC-TCTAAGGCGCATCATT
65 AGAAGGGCTATCTG---CCAAAGACCCTCAAGTTCGAATACACTCAGCTTCGAGGGCACATCATT
* *
8874428 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCAATTACACTCAACT
127 TACAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAAC-
* * *
8874493 TCGAGGGCACACCATTTACAGCATAACTCAAGGTTAGAGGGGTTATCTGTCACC
191 TCGAGGGCATATCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTCACC
*
8874547 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCAT-ATCATTTGCAACATAACTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGC-TCATCATTTGCAACATAACTTAAGTCG
* * *
8874611 AGAATGGCTATCTGCCAAAGACCCTCAAGTTC-TATCACACTCAGCTTCGAGGGCATATCATTTA
65 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGAAT-ACACTCAGCTTCGAGGGCACATCATTTA
* * * * * * * * * *
8874675 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAACCTTCGAGTTCGACTACGCTCAGC
129 CAGCATAGCTTAAGTCGAGAAGGGCTATCT-T--CCAAAGACCCTCGAGTTCGATTACACTCAAC
* * * * * * * **
8874740 TCTAAGGCATATCATTTGCAGCACAACTTAA-GTCTAGAAGGGTTGTCTGCCAATA
191 TCGAGGGCATATCATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTGTC-ACC
* * * * *
8874795 AAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTTTAA-GGCTCATCATTTGCAACATAACTTAAGTCG
*
8874859 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
65 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGAATACACTCAGCTTCGAGGGCACATCATTTAC
* * **
8874924 AGCATAGCTTAAGTCGAAAAGGGCTATCTGCCAAAGGA-CCTCGAGTTCGATTACACTCAGGTCG
130 AGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAA-GACCCTCGAGTTCGATTACACTCAACTCG
* *
8874988 AGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACC
194 AGGGCATATCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTCACC
* * * * ** * ** *
8875039 AAGGACCTTCAAGTTCGATTACGCTCACCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGCTCATCATTTGCAACATAACTTAAGTCGA
8875104 GAAGGGCTATCTGCCAA
66 GAAGGGCTATCTGCCAA
8875121 CCGAATACCT
Statistics
Matches: 662, Mismatches: 136, Indels: 49
0.78 0.16 0.06
Matches are distributed among these distances:
243 1 0.00
244 120 0.18
245 167 0.25
246 41 0.06
247 77 0.12
248 228 0.34
249 28 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (244 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAGGCTCATCATTTGCAACATAACTTAAGTCGA
GAAGGGCTATCTGCCAAAGACCCTCAAGTTCGAATACACTCAGCTTCGAGGGCACATCATTTACA
GCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAACTCGAG
GGCATATCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTCACC
Found at i:8875153 original size:412 final size:407
Alignment explanation
Indices: 8874054--8875153 Score: 1219
Period size: 412 Copynumber: 2.7 Consensus size: 407
8874044 TTTGCCAACT
* * * * * * * *
8874054 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATCTGCAGCATAGCTTAAGTCG
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGTCG
*
8874118 AGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTCCGAGGGCATATCATTTGC
66 AGAAGGGCTATCTGCCAAAGA-CCTCGAGTTCGATTACACTCAGCT-CGAGGGCATATCATTTGC
* * * * * *
8874183 AGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAAACCTTCGAGTTCGACTATGCTCAGC
129 AGCATAACTCAAGGCTAGAAGGGTTATCTG---ACCAAAGACCTTCAAGTTCGATTACGCTCACC
* * * * *
8874248 TCTAAGGCACATTATATGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAA-AG-ACCCTCGA
191 TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCGAAACCTCGA
* * * *
8874311 GTTTGATTATACTCAGCTTTGAGGGCTCATCATTTACAACATAACTCAAGGCTAGAAGGGTTATC
256 GTTCGATTATACTCAGCTCTGAAGGCTCATCATTTACAACACAACTCAAGGCTAGAAGGGTTATC
* * * *
8874376 TGTCACCAAAGACCTTCGAGTTCGGCTACGCTCAGCTCTAAGGCGCATCATTTGCAGCATAGCTT
321 TGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTT
*
8874441 AAGTCGAGAAGGGCTATCTTCC
386 AAGTCGAGAAGGGCTATCTGCC
* * * * *
8874463 AAAGACCCTCGAGTTCAATTACACTCAACTTCGAGGGCACACCATTTACAGCATAACTCAAGGT-
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAA-GTC
* * * * * * *
8874527 TAGAGGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATT
65 GAGAAGGGCTATCTG---CCAAAGACC-TCGAGTTCGATTACACTCAGCTCGAGGGCATATCATT
* * * * * * * * * *
8874592 TGCAACATAACTTAAGTCGAGAATGGCTATCTG-CCAAAGACCCTCAAGTTCTATCACACTCAGC
126 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACCAAAGACCTTCAAGTTCGATTACGCTCA-C
* * * * * * * * * * *
8874656 TTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAACCTT
190 CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACC-GAAACC-T
* ** * * * *
8874720 CGAGTTCGACTACGCTCAGCTCT-AAGGCAT-ATCATTTGCAGCACAACTTAAGTCTAGAAGGGT
253 CGAGTTCGATTATACTCAGCTCTGAAGGC-TCATCATTTACAACACAACTCAAGGCTAGAAGGGT
* * *
8874783 TGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCTC-AACGGCACATCATTTGCAGCA
317 TATCTGCC-ACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAA-GGCACATCATTTGCAGCA
8874847 TAGCTTAAGTCGAGAAGGGCTATCTGCC
380 TAGCTTAAGTCGAGAAGGGCTATCTGCC
*
8874875 AAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGTCG
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGTCG
* * *
8874940 AAAAGGGCTATCTGCCAAAGGACCTCGAGTTCGATTACACTCAGGTCGAGGGCATATCATTTACA
66 AGAAGGGCTATCTGCCAAA-GACCTCGAGTTCGATTACACTCAGCTCGAGGGCATATCATTTGCA
*
8875005 GCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAGGACCTTCAAGTTCGATTACGCTCACCTC
130 GCATAACTCAAGGCTAGAAGGGTTATCTG--ACCAAAGACCTTCAAGTTCGATTACGCTCACCTC
* *
8875070 CAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAATACCTCCGA
193 CAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCGAA-ACCT-CGA
* *
8875135 GTTCAATTATATTCAGCTC
256 GTTCGATTATACTCAGCTC
8875154 AGAGGCAAAC
Statistics
Matches: 553, Mismatches: 116, Indels: 41
0.78 0.16 0.06
Matches are distributed among these distances:
408 22 0.04
409 127 0.23
410 38 0.07
411 91 0.16
412 248 0.45
413 27 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (407 bp):
AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTAAGTCG
AGAAGGGCTATCTGCCAAAGACCTCGAGTTCGATTACACTCAGCTCGAGGGCATATCATTTGCAG
CATAACTCAAGGCTAGAAGGGTTATCTGACCAAAGACCTTCAAGTTCGATTACGCTCACCTCCAA
GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCGAAACCTCGAGTTCG
ATTATACTCAGCTCTGAAGGCTCATCATTTACAACACAACTCAAGGCTAGAAGGGTTATCTGCCA
CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTC
GAGAAGGGCTATCTGCC
Found at i:8881046 original size:13 final size:13
Alignment explanation
Indices: 8880996--8881051 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
8880986 GTCCAGTCGC
8880996 TGAGTCAACTCGAT
1 TGAGTCAACTC-AT
* *
8881010 TAAGTTAACTCAGT
1 TGAGTCAACTCA-T
* *
8881024 TAAATC-ACTCAT
1 TGAGTCAACTCAT
8881036 TGAGTCAACTCAT
1 TGAGTCAACTCAT
8881049 TGA
1 TGA
8881052 CTTTGACCGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 5 0.15
13 15 0.44
14 14 0.41
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (13 bp):
TGAGTCAACTCAT
Found at i:8881084 original size:30 final size:30
Alignment explanation
Indices: 8881048--8881115 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
8881038 AGTCAACTCA
* * *
8881048 TTGACTTTGACCGAGTTAA-CTCGTTGATCG
1 TTGACTTTGACCAAGTCAACCT-GTTGACCG
8881078 TTGACTTTGACCAAGTCAACCTGTTGACCG
1 TTGACTTTGACCAAGTCAACCTGTTGACCG
*
8881108 TTTACTTT
1 TTGACTTT
8881116 TTCTTTGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (30 bp):
TTGACTTTGACCAAGTCAACCTGTTGACCG
Found at i:8885579 original size:10 final size:11
Alignment explanation
Indices: 8885560--8885588 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8885550 TTCAACGCAC
8885560 ATTAAAAAAAT
1 ATTAAAAAAAT
8885571 ATTAAAAAAAT
1 ATTAAAAAAAT
8885582 ATTAAAA
1 ATTAAAA
8885589 TTTATAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATTAAAAAAAT
Found at i:8888057 original size:33 final size:35
Alignment explanation
Indices: 8887975--8888064 Score: 130
Period size: 38 Copynumber: 2.5 Consensus size: 35
8887965 CTAGAAGGTC
*
8887975 TTTGTGTTTCAAGAGAAACATTTTCAAAGGGTTTTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGGG--TTTT
8888012 TTGTGTGTTTCAAGAGAAACAATTTCAAA-GG-TTT
1 TT-TGTGTTTCAAGAGAAACAATTTCAAAGGGTTTT
8888046 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
8888065 TGTCTCCAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
33 17 0.33
34 5 0.10
37 4 0.08
38 25 0.49
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (35 bp):
TTTGTGTTTCAAGAGAAACAATTTCAAAGGGTTTT
Found at i:8888149 original size:66 final size:69
Alignment explanation
Indices: 8888017--8888167 Score: 202
Period size: 66 Copynumber: 2.2 Consensus size: 69
8888007 TTTTTTTGTG
* * * * *
8888017 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCCAGGGAGGCAA
1 TGTTTCAAGAGAAACAATTTCAAAGG-TATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
8888082 AA-TT
65 AACTT
8888086 TGTTTCAAGAGAAACACA-TTCAAA-G-ATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACA-ATTTCAAAGGTATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
8888148 AACTT
65 AACTT
*
8888153 TGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
8888168 TGTTCTCAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
66 34 0.46
67 16 0.22
68 1 0.01
69 22 0.30
70 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (69 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
ACTT
Found at i:8888211 original size:36 final size:36
Alignment explanation
Indices: 8888116--8888404 Score: 308
Period size: 36 Copynumber: 8.1 Consensus size: 36
8888106 CAAAGATTGG
*
8888116 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
8888153 TGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* * *
8888190 TGTTTCAAGAGAAATTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* * ** * * *
8888227 AGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* ** *
8888263 TGTTTCAAGGAAAACACAT-TC-A-A-AG----ATTT
1 TGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT
*
8888292 TGTTTCAAGGGAAACTGTCTTAAGA-AGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
8888327 TGTTTCAAGGGAAACTGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
8888363 TGTTTCAAGGGAAGCTGTCTCAAGAGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
8888400 TGTTT
1 TGTTT
8888405 TGAGTAAGTT
Statistics
Matches: 212, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.00
29 18 0.08
30 1 0.00
31 3 0.01
33 2 0.01
35 29 0.14
36 71 0.33
37 70 0.33
38 17 0.08
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:8888370 original size:100 final size:102
Alignment explanation
Indices: 8888188--8888372 Score: 248
Period size: 100 Copynumber: 1.8 Consensus size: 102
8888178 AGAGACAAAA
* * *
8888188 TTTGTTTCAAGAGAAATTGTCTCAAGAGAGATAAAACTTAGTTCCAAAAGAAAATGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGAG
*
8888253 AGACGAAATTTGTTTCAAGGAAAACACATTCAAAGAT
66 AGACAAAATTTGTTTCAAGGAAAACACATTCAAAGAT
* * * * ** * *
8888290 TTTGTTTCAAGGGAAACTGTCTTAAGA-AGACAAAA-TTTGTTTCAAGGGAAACTGTCTTAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGAG
8888353 AGACAAAATTTGTTTCAAGG
66 AGACAAAATTTGTTTCAAGG
8888373 GAAGCTGTCT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 40 0.56
101 7 0.10
102 24 0.34
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGAG
AGACAAAATTTGTTTCAAGGAAAACACATTCAAAGAT
Found at i:8888423 original size:173 final size:177
Alignment explanation
Indices: 8888059--8888396 Score: 524
Period size: 177 Copynumber: 1.9 Consensus size: 177
8888049 GTGTTTCAAG
* * * *
8888059 AGAAACTGTCTCCAGGGAGGCAAAATTTGTTTCAAGAGAAACACATTCAAAGATTGGTGTTTCAA
1 AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGAGAAACACATTCAAAGATTGGTGTTTCAA
8888124 GAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAAT
66 GAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAAT
* *
8888189 TTGTTTCAAGAGAAATTGTCTCAAGAGAGATAAAACTTAGTTCCAAA
131 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
*
8888236 AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAG-GAAAACACATTCAAAGATT-TTGTTTCA
1 AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGAG-AAACACATTCAAAGATTGGTGTTTCA
* * *
8888299 AGGGAAACTGTCTTAAGA-AGACAAAA-TTTGTTTCAAGGGAAACTG-TCTTAAGAGAGACAAAA
65 AGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAA
* *
8888361 TTTGTTTCAAGGGAAGCTGTCTCAAGAGAGACAAAA
130 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
8888397 TTTTGTTTTG
Statistics
Matches: 148, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
173 48 0.32
174 19 0.13
175 8 0.05
176 24 0.16
177 49 0.33
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (177 bp):
AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGAGAAACACATTCAAAGATTGGTGTTTCAA
GAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAAT
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
Found at i:8888431 original size:173 final size:177
Alignment explanation
Indices: 8888081--8888396 Score: 507
Period size: 173 Copynumber: 1.8 Consensus size: 177
8888071 CAGGGAGGCA
8888081 AAATTTGTTTCAAGAGAAACACATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 AAATTTGTTTCAAGAGAAACACATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
*
8888146 AAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTC
66 AAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC
* *
8888211 AAGAGAGATAAAACTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACG
131 AAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGCGAGACG
* * *
8888258 AAATTTGTTTCAAG-GAAAACACATTCAAAGATT-TTGTTTCAAGGGAAACTGTCTTAAGA-AGA
1 AAATTTGTTTCAAGAG-AAACACATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGA
* * *
8888320 CAAAA-TTTGTTTCAAGGGAAACTG-TCTTAAGAGAGACAAAATTTGTTTCAAGGGAAGCTGTCT
65 CAAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCT
8888383 CAAGAGAGACAAAA
130 CAAGAGAGACAAAA
8888397 TTTTGTTTTG
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
173 48 0.37
174 19 0.15
175 8 0.06
176 24 0.18
177 31 0.24
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (177 bp):
AAATTTGTTTCAAGAGAAACACATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
AAAACTTTGTTTCAAGGGAAACTGTTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC
AAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGCGAGACG
Found at i:8888881 original size:22 final size:21
Alignment explanation
Indices: 8888856--8888897 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8888846 TCCGTCTTCT
8888856 TGATTCTAGAATCTTGAATTTC
1 TGATTCTAG-ATCTTGAATTTC
* *
8888878 TGATTCTTGATCTTGGATTT
1 TGATTCTAGATCTTGAATTT
8888898 TTCAACATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (21 bp):
TGATTCTAGATCTTGAATTTC
Found at i:8889799 original size:95 final size:95
Alignment explanation
Indices: 8889600--8889862 Score: 350
Period size: 95 Copynumber: 2.7 Consensus size: 95
8889590 GGCTAGCTGA
* * *
8889600 ATCCATAAAGCCGGGG-AGTTTAACCAATTGCTCTAGAGGGAGAACTTAATATCATTGTATAG-A
1 ATCCATAAAGCCGGGGCA-TTTAACCAATTGCTCTAGAGGGACAAC-TAA-AGC-TT-TATTGTA
*
8889663 TATTATAATCACCTTTATCAGGCTAGCTGAATATT
61 TATTATAATCACCTTTACCAGGCTAGCTGAATATT
* *
8889698 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTACATTA
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTAAAGCTTTATTGTATATTA
*
8889763 TAATCACCTTTACCAGGCTAGCTGAATCTT
66 TAATCACCTTTACCAGGCTAGCTGAATATT
* * * * *
8889793 ATCCATAAAGTCGGAGCGTTTAACCAATTGCTTTAGAGGGACATCTAAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTAAAGCTTTATTGTATAT-T
8889858 ATAAT
65 ATAAT
8889863 ATTATAATAT
Statistics
Matches: 148, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
94 4 0.03
95 91 0.61
96 8 0.05
97 2 0.01
98 42 0.28
99 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTAAAGCTTTATTGTATATTA
TAATCACCTTTACCAGGCTAGCTGAATATT
Found at i:8891492 original size:7 final size:7
Alignment explanation
Indices: 8891480--8891524 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
8891470 AACAGTACAC
8891480 GTGAATA
1 GTGAATA
8891487 GTGAATA
1 GTGAATA
8891494 GTGAATA
1 GTGAATA
8891501 GTGAATA
1 GTGAATA
* *
8891508 GTGTACA
1 GTGAATA
*
8891515 GTGAACA
1 GTGAATA
8891522 GTG
1 GTG
8891525 GGGGAATCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (7 bp):
GTGAATA
Found at i:8891504 original size:21 final size:21
Alignment explanation
Indices: 8891468--8891524 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
8891458 TTTTTTATTA
8891468 TGAACAGT--ACACGTGAATAG
1 TGAACAGTGAACA-GTGAATAG
* *
8891488 TGAATAGTGAATAGTGAATAG
1 TGAACAGTGAACAGTGAATAG
*
8891509 TGTACAGTGAACAGTG
1 TGAACAGTGAACAGTG
8891525 GGGGAATCGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 7 0.23
21 21 0.70
22 2 0.07
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.25
Consensus pattern (21 bp):
TGAACAGTGAACAGTGAATAG
Found at i:8892058 original size:46 final size:45
Alignment explanation
Indices: 8891992--8892116 Score: 189
Period size: 46 Copynumber: 2.8 Consensus size: 45
8891982 TATAAAATTT
*
8891992 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAACAATATA
*
8892037 CTTACCATTTAATCCCATAAGCGCGTAAGCTTATTTTAACAATATA
1 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTAACAATATA
* * *
8892083 CTTGCC-GTTATTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTT
8892117 GCATGGTTAC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 23 0.32
45 12 0.16
46 38 0.52
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAACAATATA
Found at i:8892342 original size:40 final size:40
Alignment explanation
Indices: 8892221--8892329 Score: 182
Period size: 40 Copynumber: 2.7 Consensus size: 40
8892211 ACCGTAGTGC
* *
8892221 TACATATAAGGTCATGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
* *
8892261 TACACATAAGATCGTGCCCACTATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
8892301 TACACATAAGGTCGTGCCCACCATATACA
1 TACACATAAGGTCGTGCCCACCATATACA
8892330 TCGAAGAGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:8896183 original size:17 final size:16
Alignment explanation
Indices: 8896161--8896219 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
8896151 AAGTGAAATA
*
8896161 TTTTTTTCATCTCTCAT
1 TTTTTTTCAT-TTTCAT
* *
8896178 TTTTTTCTCTTTTTCTT
1 TTTTTT-TCATTTTCAT
8896195 TTCTTTTTCATTTTCAT
1 TT-TTTTTCATTTTCAT
8896212 TTTTTTTC
1 TTTTTTTC
8896220 TTCGTTTTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.17
17 22 0.63
18 7 0.20
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTTCATTTTCAT
Found at i:8896196 original size:6 final size:6
Alignment explanation
Indices: 8896180--8896302 Score: 85
Period size: 6 Copynumber: 20.3 Consensus size: 6
8896170 TCTCTCATTT
* *
8896180 TTTTCTC TTTTTC -TTTTC TTTTTC ATTTTC ATTTTT- TTTCTTC GTTTTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTT-TTC TTTTTC
* * * *
8896229 GTTTTC ATTTTC GTTTTC ATTTTC TATTTT- TTTCTT- TTTATTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC TTT-TTC TTT-TTC TTTTTC
* *
8896278 TTCTTC TATTTC TTTTT- TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
8896303 ATATATATAT
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
5 15 0.16
6 64 0.67
7 17 0.18
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:8896277 original size:37 final size:34
Alignment explanation
Indices: 8896176--8896298 Score: 86
Period size: 37 Copynumber: 3.2 Consensus size: 34
8896166 TTCATCTCTC
*
8896176 ATTTTTTTCTCTTTTTCTTTTCTTTTTCATTTTCATT
1 ATTTTTTTCTTTTTTTCTTTTC-TTTTCATTTTC--T
*
8896213 TTTTTTCTTCGTTTTCGTTTTCATTTTCGTTTTCATTTTCT
1 ATTTTT-TTC--TTT--TTTTC-TTTTC-TTTTCATTTTCT
8896254 ATTTTTTTCTTTTTATTCTTTTTCTTCTTC-TATTTCT
1 ATTTTTTTCTTTTT-TTC-TTTTCTT-TTCAT-TTTCT
*
8896291 TTTTTTTT
1 ATTTTTTT
8896299 TCTTATATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
36 5 0.07
37 28 0.39
38 6 0.08
40 5 0.07
41 6 0.08
42 5 0.07
43 16 0.23
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (34 bp):
ATTTTTTTCTTTTTTTCTTTTCTTTTCATTTTCT
Found at i:8896277 original size:43 final size:42
Alignment explanation
Indices: 8896185--8896279 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 42
8896175 CATTTTTTTC
*
8896185 TCTTTTTCTTTTCTTTTTCATTTTCATTTTTTTTCTTCGTTT
1 TCTTTTTCTTTTCGTTTTCATTTTCATTTTTTTTCTTCGTTT
* *
8896227 TCGTTTTCATTTTCGTTTTCATTTTC-TATTTTTTTCTT-TTTAT
1 TCTTTTTC-TTTTCGTTTTCATTTTCAT-TTTTTTTCTTCGTT-T
8896270 TCTTTTTCTT
1 TCTTTTTCTT
8896280 CTTCTATTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 12 0.26
43 34 0.74
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (42 bp):
TCTTTTTCTTTTCGTTTTCATTTTCATTTTTTTTCTTCGTTT
Found at i:8896285 original size:31 final size:29
Alignment explanation
Indices: 8896236--8896302 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
8896226 TTCGTTTTCA
* *
8896236 TTTTCGTTTTCATTTTCTATTTTTTTCTTT
1 TTTTCTTTTTCATTTTCTATTTCTTT-TTT
8896266 TTATTCTTTTTC-TTCTTCTATTTCTTTTTT
1 TT-TTCTTTTTCATT-TTCTATTTCTTTTTT
8896296 TTTTCTT
1 TTTTCTT
8896303 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 5 0.15
30 9 0.27
31 19 0.58
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTCTTTTTCATTTTCTATTTCTTTTTT
Found at i:8896307 original size:2 final size:2
Alignment explanation
Indices: 8896302--8896343 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8896292 TTTTTTTTCT
8896302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8896344 GCTCTTATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8898648 original size:20 final size:20
Alignment explanation
Indices: 8898623--8898675 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
8898613 TGAAGAGTGG
8898623 GGGAATCGATTCCTGTAGCA
1 GGGAATCGATTCCTGTAGCA
8898643 GGGAATCGATTCCTGTAGCA
1 GGGAATCGATTCCTGTAGCA
*
8898663 GGGAATCGGTTCC
1 GGGAATCGATTCC
8898676 CTTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (20 bp):
GGGAATCGATTCCTGTAGCA
Found at i:8899251 original size:44 final size:45
Alignment explanation
Indices: 8899130--8899253 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 45
8899120 TATAAAATTT
* * *
8899130 CTTACTATTTATCCCATAAGCTTGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
8899175 CTTACCATTTAATCCATAAGCTCGTAAACTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
8899220 TTTGCCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
8899254 GCATGGTTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 25 0.36
45 45 0.64
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:8905154 original size:51 final size:51
Alignment explanation
Indices: 8905095--8905195 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
8905085 TCAGGGGGAG
* * * *
8905095 AGTTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTATTCAAACCGATAGTTCTTTACAACCTATT
*
8905146 AGTTACAAGGAATTTCAACCTATTCAAATCGATAGTTCTTTACAACCTAT
1 AGTTACAAGGAATTTCAACCTATTCAAACCGATAGTTCTTTACAACCTAT
8905196 CCTTTCCTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTATTCAAACCGATAGTTCTTTACAACCTATT
Found at i:8907447 original size:16 final size:15
Alignment explanation
Indices: 8907409--8907450 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
8907399 TAACAGACTT
8907409 GTCTGTTTTCT-ACA
1 GTCTGTTTTCTAACA
* *
8907423 GTTTATTTTCTACACA
1 GTCTGTTTTCTA-ACA
8907439 GTCTGTTTTCTA
1 GTCTGTTTTCTA
8907451 TACAATTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.52
Consensus pattern (15 bp):
GTCTGTTTTCTAACA
Found at i:8915590 original size:27 final size:27
Alignment explanation
Indices: 8915555--8915615 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
8915545 CATGTTGGAT
*
8915555 TCAGGTTTTAGGTCCGATCATGTCAGG
1 TCAGATTTTAGGTCCGATCATGTCAGG
8915582 TCAGATTTTAGGTCCGATCATGTCAGG
1 TCAGATTTTAGGTCCGATCATGTCAGG
8915609 TCAGATT
1 TCAGATT
8915616 AGGTCAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (27 bp):
TCAGATTTTAGGTCCGATCATGTCAGG
Found at i:8918423 original size:21 final size:21
Alignment explanation
Indices: 8918397--8918444 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8918387 ACGATAGGGG
8918397 AAAAAAGAATAAATAAAAA-AT
1 AAAAAAGAA-AAATAAAAATAT
* *
8918418 AAAAAATAAATATAAAAATAT
1 AAAAAAGAAAAATAAAAATAT
8918439 AAAAAA
1 AAAAAA
8918445 ACATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAAAGAAAAATAAAAATAT
Found at i:8918436 original size:8 final size:7
Alignment explanation
Indices: 8918397--8918444 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
8918387 ACGATAGGGG
*
8918397 AAAAAAG
1 AAAAAAT
*
8918404 AATAAAT
1 AAAAAAT
8918411 AAAAAAT
1 AAAAAAT
8918418 AAAAAAT
1 AAAAAAT
*
8918425 -AAATAT
1 AAAAAAT
8918431 AAAAATAT
1 AAAAA-AT
8918439 AAAAAA
1 AAAAAA
8918445 ACATTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 5 0.15
7 22 0.65
8 7 0.21
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:8918445 original size:11 final size:10
Alignment explanation
Indices: 8918397--8918445 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
8918387 ACGATAGGGG
*
8918397 AAAAAAGAAT
1 AAAAAAAAAT
8918407 AAATAAAAAAT
1 AAA-AAAAAAT
8918418 AAAAAATAAAT
1 AAAAAA-AAAT
* *
8918429 ATAAAAATAT
1 AAAAAAAAAT
8918439 AAAAAAA
1 AAAAAAA
8918446 CATTTTTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 15 0.45
11 18 0.55
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:8918650 original size:78 final size:76
Alignment explanation
Indices: 8918522--8918938 Score: 416
Period size: 78 Copynumber: 5.5 Consensus size: 76
8918512 TTCAAAAAAA
* * * * * *
8918522 TTTT-AAAATTATATAATATATATATTTTTCAAAAGGTTTTTCAAATTATATATTATATATATAT
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATG-TTTTAAAAATATATA-TATATATATAT
8918586 ATATATTCAAAATG
64 ATAT-TTCAAAATG
*
8918600 TTTTAAAAACTATATATTATATATA-TTTTCAAAATGTTTTAAAAACTATATAT-TATATA-A-G
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATGTTTTAAAAA-TATATATATATATATATA
8918661 T-TTTCAAAAATG
65 TATTTC-AAAATG
8918673 TTTTTTTAAAAACTATATATTATATATAAGTTTTCAAAATGTTTTAAAAAT-TATATAT-TATAT
1 ---TTTTAAAAACTATATATTATATAT-AGTTTTCAAAATGTTTTAAAAATATATATATATATAT
8918736 A-AGT-TTTCAAAAATG
62 ATA-TATTTC-AAAATG
* *
8918751 TTTTTTTAAAAACTATATATTATATATAAGTTTTCAAAATGATTTAAAAA-CTATATAT-TATAT
1 ---TTTTAAAAACTATATATTATATAT-AGTTTTCAAAATGTTTTAAAAATATATATATATATAT
* *
8918814 ATATA-TTAAAAATA
62 ATATATTTCAAAATG
* *
8918828 TTTTAAAATAAATATATATTATATA-AGTTTTCAAAATGATTTAAAAA-ATATATAT-TATATAT
1 TTTT-AAA-AACTATATATTATATATAGTTTTCAAAATGTTTTAAAAATATATATATATATATAT
*
8918890 ATATTTTCAAAACG
64 ATA-TTTCAAAATG
* *
8918904 TTTTATAAACTATATATTATATATATTTTTCAAAA
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAA
8918939 ATTATTTTTT
Statistics
Matches: 302, Mismatches: 18, Indels: 41
0.84 0.05 0.11
Matches are distributed among these distances:
72 3 0.01
73 7 0.02
74 59 0.20
75 16 0.05
76 64 0.21
77 17 0.06
78 117 0.39
79 19 0.06
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (76 bp):
TTTTAAAAACTATATATTATATATAGTTTTCAAAATGTTTTAAAAATATATATATATATATATAT
ATTTCAAAATG
Found at i:8918652 original size:38 final size:37
Alignment explanation
Indices: 8918522--8918938 Score: 450
Period size: 38 Copynumber: 10.9 Consensus size: 37
8918512 TTCAAAAAAA
* * * *
8918522 TTTT-AAAATTATATAATATATATATTTTTCAAAAGG
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATG
** * *
8918558 TTTTTCAAATTATATATTATATATATATATATATTCAAAATG
1 TTTTAAAAACTATATA-T-TATATATA-GT-T-TTCAAAATG
8918600 TTTTAAAAACTATATATTATATATA-TTTTCAAAATG
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATG
8918636 TTTTAAAAACTATATATTATATA-AGTTTTCAAAAATG
1 TTTTAAAAACTATATATTATATATAGTTTTC-AAAATG
8918673 TTTTTTTAAAAACTATATATTATATATAAGTTTTCAAAATG
1 ---TTTTAAAAACTATATATTATATAT-AGTTTTCAAAATG
*
8918714 TTTTAAAAATTATATATTATATA-AGTTTTCAAAAATG
1 TTTTAAAAACTATATATTATATATAGTTTTC-AAAATG
8918751 TTTTTTTAAAAACTATATATTATATATAAGTTTTCAAAATG
1 ---TTTTAAAAACTATATATTATATAT-AGTTTTCAAAATG
* * * *
8918792 ATTTAAAAACTATATATTATATATA-TATTAAAAATA
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATG
*
8918828 TTTTAAAATAAATATATATTATATA-AGTTTTCAAAATG
1 TTTT-AAA-AACTATATATTATATATAGTTTTCAAAATG
* * * *
8918866 ATTTAAAAAATATATATTATATATATATTTTCAAAACG
1 TTTTAAAAACTATATATTATATATA-GTTTTCAAAATG
* *
8918904 TTTTATAAACTATATATTATATATATTTTTCAAAA
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAA
8918939 ATTATTTTTT
Statistics
Matches: 332, Mismatches: 25, Indels: 47
0.82 0.06 0.12
Matches are distributed among these distances:
35 1 0.00
36 75 0.23
37 41 0.12
38 104 0.31
39 8 0.02
40 54 0.16
41 14 0.04
42 35 0.11
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATATATAGTTTTCAAAATG
Found at i:8919115 original size:38 final size:37
Alignment explanation
Indices: 8919064--8919135 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 37
8919054 CGAAAAATGA
8919064 TTTAAAATATATATATTATATATATATTTTCAAAACGT
1 TTTAAAATATATATATTATATATAT-TTTTCAAAACGT
8919102 TTTAAAA-ACTATATATTATATATATTTTTCAAAA
1 TTTAAAATA-TATATATTATATATATTTTTCAAAA
8919136 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (37 bp):
TTTAAAATATATATATTATATATATTTTTCAAAACGT
Found at i:8919228 original size:196 final size:197
Alignment explanation
Indices: 8918860--8919257 Score: 744
Period size: 196 Copynumber: 2.0 Consensus size: 197
8918850 ATAAGTTTTC
*
8918860 AAAATGATTTAAAAAATATATATTATATATATATTTTCAAAACGTTTTATAAACTATATATTATA
1 AAAATGATTTAAAAAATATATATTATATATATATTTTCAAAACGTTTTAAAAACTATATATTATA
*
8918925 TATATTTTTCAAAAATTATTTTTTTTTAAAATACACAAAAAAATCTTTCAAAAGATATTATAAAT
66 TATATTTTTCAAAAATGATTTTTTTTTAAAATACACAAAAAAATCTTTCAAAAGATATTATAAAT
*
8918990 AAATGAAAACCCCGAACAAAAATCAGTGTCTACATCTGCCCCTCTTTATCATTTTTTCGTATAAC
131 AAATGAAAACCCCAAACAAAAATCAGTGTCTACATCTGCCCCTCTTTATCATTTTTTCGTATAAC
8919055 GA
196 GA
*
8919057 AAAATGATTTAAAATATATATATTATATATATATTTTCAAAACGTTTTAAAAACTATATATTATA
1 AAAATGATTTAAAAAATATATATTATATATATATTTTCAAAACGTTTTAAAAACTATATATTATA
8919122 TATATTTTTCAAAAATGA-TTTTTTTTAAAATACACAAAAAAATCTTTCAAAAGATATTATAAAT
66 TATATTTTTCAAAAATGATTTTTTTTTAAAATACACAAAAAAATCTTTCAAAAGATATTATAAAT
*
8919186 AAATGAAAACCCCAAACAAAAATCAGTGTCTACATCTGCCCCTCTTTATCATTTTTTCGTGTAAC
131 AAATGAAAACCCCAAACAAAAATCAGTGTCTACATCTGCCCCTCTTTATCATTTTTTCGTATAAC
8919251 GA
196 GA
8919253 AAAAT
1 AAAAT
8919258 ATGACAAAGA
Statistics
Matches: 196, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
196 116 0.59
197 80 0.41
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (197 bp):
AAAATGATTTAAAAAATATATATTATATATATATTTTCAAAACGTTTTAAAAACTATATATTATA
TATATTTTTCAAAAATGATTTTTTTTTAAAATACACAAAAAAATCTTTCAAAAGATATTATAAAT
AAATGAAAACCCCAAACAAAAATCAGTGTCTACATCTGCCCCTCTTTATCATTTTTTCGTATAAC
GA
Found at i:8920073 original size:85 final size:85
Alignment explanation
Indices: 8919965--8920429 Score: 590
Period size: 85 Copynumber: 5.4 Consensus size: 85
8919955 TTTTTTCTTA
* * * * * *
8919965 ACAGATAGCCCTTCTCACCTTGAGCTATGCTGTAAATTGGACATTCCTTTGAGCTGAATGGAATC
1 ACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATC
*
8920030 AAACTCGAAGGTATTTGTTG
66 AAACTCGAAGGTCTTTGTTG
* * * * * * *
8920050 ACAGATAACCCTTCTCTCCTTGAGTTATACTGTAGATTTAATATGTCC-TTGAGCTAAATGTACT
1 ACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATG-CCTTTGAGCTGAATGTAAT
*
8920114 CGAACTCGAAGGTCTTTGTTG
65 CAAACTCGAAGGTCTTTGTTG
*
8920135 ACATATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATC
1 ACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATC
8920200 AAACTCGAAGGTCTTTGTTG
66 AAACTCGAAGGTCTTTGTTG
* * * * *
8920220 ACAGATAACCCCTCTCGCCATGAACTATGATGTAAATTTAATATGCCTTTGAGCTGAATGTAATC
1 ACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATC
*
8920285 GAACTCGAAGGTCTTTGTTG
66 AAACTCGAAGGTCTTTGTTG
* * * * * * * *
8920305 GCATATAGCCCTTCTCGTCTTGAGCTATACTGTAAACTTGATATGCCCTTGAGCTGAGTGTAATC
1 ACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATC
* *
8920370 AAACTCAAAGGTCTTTTTGCTG
66 AAACTCGAAGGTC--TTTGTTG
* *
8920392 GCAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATT
1 ACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATT
8920430 GTTCCTTTAA
Statistics
Matches: 326, Mismatches: 50, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
84 2 0.01
85 282 0.87
86 2 0.01
87 40 0.12
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (85 bp):
ACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATC
AAACTCGAAGGTCTTTGTTG
Found at i:8920633 original size:85 final size:86
Alignment explanation
Indices: 8920489--8920766 Score: 312
Period size: 85 Copynumber: 3.3 Consensus size: 86
8920479 AATTCTTTAA
* * * * *
8920489 ATGACTCCCCTTCACGGGAAAGCCA-AGTGGTATATTCTTCAGGTGGTT-TCTCTTCGCGGGTCT
1 ATGACTCCCCTTCACGAGAAAGCCATA-AGGTATATTCCTCAAGTGGTTCTC-CTTAGCGGGTCT
* * *
8920552 GAACCAGGTGAAACGATCTTTGG
64 GAACCAAGTGAGATGATCTTTGG
*
8920575 ATGAC-CCCCTTCACGGGAAAGCCATAAGGTATATTCCTCAAGTGGTTCTCCTTAGCGGGTCTGA
1 ATGACTCCCCTTCACGAGAAAGCCATAAGGTATATTCCTCAAGTGGTTCTCCTTAGCGGGTCTGA
* *
8920639 ACCAAGTGAGATGGTTTTTGG
66 ACCAAGTGAGATGATCTTTGG
* * * * * * *
8920660 ACGAATCTCATTCACGAGAAAGCCATGAGGTATATTCCTCAAGTGGTTCCCCTTAG-AGGTCTGA
1 ATGACTCCCCTTCACGAGAAAGCCATAAGGTATATTCCTCAAGTGGTTCTCCTTAGCGGGTCTGA
* * *
8920724 ACTAAGTGAGATAATCTTTGA
66 ACCAAGTGAGATGATCTTTGG
*
8920745 ATGACTCCCCTTTACGAGAAAG
1 ATGACTCCCCTTCACGAGAAAG
8920767 TCATGTGAGA
Statistics
Matches: 162, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
85 109 0.67
86 53 0.33
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (86 bp):
ATGACTCCCCTTCACGAGAAAGCCATAAGGTATATTCCTCAAGTGGTTCTCCTTAGCGGGTCTGA
ACCAAGTGAGATGATCTTTGG
Found at i:8926254 original size:26 final size:27
Alignment explanation
Indices: 8926197--8926254 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
8926187 ACAAGAAAAA
* **
8926197 ATAAAAATAAAAGTGAAATAAAAAGGG
1 ATAAAAATAAAAGTAAAATAAAAAACG
*
8926224 ATAAAAATGAAA-TAAAATAAAAAACG
1 ATAAAAATAAAAGTAAAATAAAAAACG
*
8926250 TTAAA
1 ATAAA
8926255 TTCTGAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (27 bp):
ATAAAAATAAAAGTAAAATAAAAAACG
Found at i:8926381 original size:23 final size:23
Alignment explanation
Indices: 8926352--8926398 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
8926342 GCAAAAAACT
8926352 AAAATAACAGTGGCTAAATCAAA
1 AAAATAACAGTGGCTAAATCAAA
* *
8926375 AAAATAATAGTGGCTAAATTAAA
1 AAAATAACAGTGGCTAAATCAAA
8926398 A
1 A
8926399 CATGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.21
Consensus pattern (23 bp):
AAAATAACAGTGGCTAAATCAAA
Found at i:8926577 original size:7 final size:7
Alignment explanation
Indices: 8926565--8926656 Score: 139
Period size: 7 Copynumber: 13.1 Consensus size: 7
8926555 CCATGCCTCT
8926565 CATTTTC
1 CATTTTC
8926572 CATTTTC
1 CATTTTC
8926579 CATTTTC
1 CATTTTC
8926586 CATTTTC
1 CATTTTC
8926593 CATTTTC
1 CATTTTC
8926600 CATTTTC
1 CATTTTC
8926607 CATTTTC
1 CATTTTC
*
8926614 TATTTTC
1 CATTTTC
*
8926621 TATTTTC
1 CATTTTC
*
8926628 CATTTTT
1 CATTTTC
*
8926635 CATTTTT
1 CATTTTC
*
8926642 CATTTTT
1 CATTTTC
8926649 CATTTTC
1 CATTTTC
8926656 C
1 C
8926657 CTTCTCTCAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 81 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (7 bp):
CATTTTC
Found at i:8927427 original size:14 final size:14
Alignment explanation
Indices: 8927408--8927440 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8927398 TAAAAAAATA
8927408 AATAATAAGTAATC
1 AATAATAAGTAATC
*
8927422 AATAATATGTAATC
1 AATAATAAGTAATC
8927436 AATAA
1 AATAA
8927441 AATAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (14 bp):
AATAATAAGTAATC
Found at i:8927606 original size:75 final size:75
Alignment explanation
Indices: 8927463--8927765 Score: 268
Period size: 75 Copynumber: 4.1 Consensus size: 75
8927453 AAAAAAATAT
* * * *
8927463 TTTTAAAACTATATATTATATATGCTTTTTAAAAATTGTTTTCAAAAAC---ATA-GA-ATATAT
1 TTTTAAAACTATATAATATATAT-ATTTTTCAAAA-TGTTTT-AAAAACTATATATTATATATAT
8927523 GTTTTCAAAAACA
63 GTTTTCAAAAACA
* * *
8927536 TTTTAAAACTATATAATATATATATTTTTCAAAATGTTTTAAAAATTATATGTTATATATATTTT
1 TTTTAAAACTATATAATATATATATTTTTCAAAATGTTTTAAAAACTATATATTATATATATGTT
**
8927601 TTC-AAAATG
66 TTCAAAAACA
* * ***
8927610 TTTTAAAAACTATATATTATATA-AGTTTTCAAAAAAAAAATTT--AAACTATATATTATATATA
1 TTTT-AAAACTATATAATATATATATTTTTC---AAAATGTTTTAAAAACTATATATTATATATA
* **
8927672 AGTTTTCAAAATGA
62 TGTTTTCAAAAACA
* *
8927686 TTTAAAAACTATATATTATATATATATTTTTC-AAACGTTTTAAAAACTATATATTATATATAT-
1 TTTTAAAACTATATA--ATATATATATTTTTCAAAATGTTTTAAAAACTATATATTATATATATG
8927749 TTTTCAAAAACGA
64 TTTTCAAAAAC-A
8927762 TTTT
1 TTTT
8927766 TTTTAAAAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
70 5 0.03
71 6 0.03
72 9 0.05
73 24 0.13
74 21 0.11
75 70 0.38
76 29 0.16
77 13 0.07
78 6 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (75 bp):
TTTTAAAACTATATAATATATATATTTTTCAAAATGTTTTAAAAACTATATATTATATATATGTT
TTCAAAAACA
Found at i:8927760 original size:38 final size:37
Alignment explanation
Indices: 8927456--8927757 Score: 280
Period size: 38 Copynumber: 8.1 Consensus size: 37
8927446 ATATAATAAA
* * * *
8927456 AAAATATTTTTAAAACTATATATTATATATGCTTTTTA
1 AAAATGTTTTAAAAACTATATATTATATAT-ATTTTTC
* *
8927494 AAAATTGTTTTCAAAAAC-ATAGA--ATATAT-GTTTTC
1 AAAA-TGTTTT-AAAAACTATATATTATATATATTTTTC
** *
8927529 AAAAACATTTT-AAAACTATATAATATATATATTTTTC
1 -AAAATGTTTTAAAAACTATATATTATATATATTTTTC
* *
8927566 AAAATGTTTTAAAAATTATATGTTATATATATTTTTTC
1 AAAATGTTTTAAAAACTATATATTATATATA-TTTTTC
*
8927604 AAAATGTTTTAAAAACTATATATTATATA-AGTTTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTTC
*** *
8927640 AAAAAAAAAATTT--AAACTATATATTATATATAAGTTTTC
1 ---AAAATGTTTTAAAAACTATATATTATATAT-ATTTTTC
*
8927679 AAAATGATTTAAAAACTATATATTATATATATATTTTTC
1 AAAATGTTTTAAAAACTATATA-T-TATATATATTTTTC
*
8927718 -AAACGTTTTAAAAACTATATATTATATATATTTTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTTC
8927754 AAAA
1 AAAA
8927758 ACGATTTTTT
Statistics
Matches: 220, Mismatches: 25, Indels: 39
0.77 0.09 0.14
Matches are distributed among these distances:
33 5 0.02
34 4 0.02
35 8 0.04
36 45 0.20
37 50 0.23
38 66 0.30
39 30 0.14
40 12 0.05
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
AAAATGTTTTAAAAACTATATATTATATATATTTTTC
Found at i:8927795 original size:113 final size:112
Alignment explanation
Indices: 8927467--8927758 Score: 292
Period size: 113 Copynumber: 2.6 Consensus size: 112
8927457 AAATATTTTT
** * * * *
8927467 AAAACTATATATTATATATGCTTTTTAAAAATTGTTTTCAAAAAC-ATAGA--ATATATGTTTTC
1 AAAACTATATATTATATATATTTTTTCAAAA-CGTTTT-AAAAACTATATATTATATAAGTTTTC
* * * * * *
8927529 --AAAAACATTTTAAAACTATATAATAT-ATATATTTTTCAAAATGTTTTA
64 AAAAAAAAAATTT-AAAC-ATATAATATAAAAAAATTTTCAAAATGATTTA
* * *
8927577 AAAATTATATGTTATATATATTTTTTCAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAA
1 AAAACTATATATTATATATATTTTTTCAAAACGTTTTAAAAACTATATATTATATAAGTTTTCAA
* * * *
8927642 AAAAAAAATTTAAACTATATATTATATATAAGTTTTCAAAATGATTTA
66 AAAAAAAATTTAAAC-ATATAATATAAAAAAATTTTCAAAATGATTTA
*
8927690 AAAACTATATATTATATATATATTTTTC-AAACGTTTTAAAAACTATATATTATATATATTTTTC
1 AAAACTATATATTATATATAT-TTTTTCAAAACGTTTTAAAAACTATATATTATATA-AGTTTTC
8927754 AAAAA
64 AAAAA
8927759 CGATTTTTTT
Statistics
Matches: 154, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
108 6 0.04
109 10 0.06
110 26 0.17
111 11 0.07
112 13 0.08
113 71 0.46
114 17 0.11
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (112 bp):
AAAACTATATATTATATATATTTTTTCAAAACGTTTTAAAAACTATATATTATATAAGTTTTCAA
AAAAAAAATTTAAACATATAATATAAAAAAATTTTCAAAATGATTTA
Found at i:8928228 original size:21 final size:20
Alignment explanation
Indices: 8928202--8928280 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 20
8928192 GCATGAATAT
8928202 GAAAATAATAAAATAAAAAAG
1 GAAAAT-ATAAAATAAAAAAG
*
8928223 GAAAATAATAAAAT---AAAT
1 GAAAAT-ATAAAATAAAAAAG
*
8928241 GAAAATATAAAATATAAAATG
1 GAAAATATAAAATA-AAAAAG
8928262 GTAAAATA-AAAATAAAAAA
1 G-AAAATATAAAATAAAAAA
8928281 TAGGAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
17 7 0.14
18 9 0.18
20 4 0.08
21 23 0.47
22 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (20 bp):
GAAAATATAAAATAAAAAAG
Found at i:8928274 original size:38 final size:39
Alignment explanation
Indices: 8928200--8928277 Score: 108
Period size: 38 Copynumber: 2.0 Consensus size: 39
8928190 TTGCATGAAT
8928200 ATGAAAATAATAAAATAAAAAAGGAAAATAATAAAATAA
1 ATGAAAATAATAAAATAAAAAAGGAAAATAATAAAATAA
*
8928239 ATGAAAAT-ATAAAATATAAAATGGTAAAAT-A-AAAATAA
1 ATGAAAATAATAAAATA-AAAAAGG-AAAATAATAAAATAA
8928277 A
1 A
8928278 AAATAGGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
38 16 0.44
39 15 0.42
40 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (39 bp):
ATGAAAATAATAAAATAAAAAAGGAAAATAATAAAATAA
Found at i:8928357 original size:3 final size:3
Alignment explanation
Indices: 8928351--8928404 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
8928341 AAGAAGAAAG
* * *
8928351 ATA ATA ATA ATA ATA AAA ATA ATA ATA ATA ATA A-A ATA ATT ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8928398 ATA ATA A
1 ATA ATA A
8928405 AAATGACTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8928501 original size:2 final size:2
Alignment explanation
Indices: 8928494--8928527 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8928484 TAATAAAATA
8928494 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
8928528 TAAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8928691 original size:24 final size:23
Alignment explanation
Indices: 8928638--8928695 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
8928628 AAAATGCCTT
*
8928638 TTTTTAAAAACTATATATTATAA
1 TTTTTCAAAACTATATATTATAA
*
8928661 TGATTTCAAAACTATATATTATAA
1 T-TTTTCAAAACTATATATTATAA
8928685 GTTTTTCAAAA
1 -TTTTTCAAAA
8928696 TGTTTTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (23 bp):
TTTTTCAAAACTATATATTATAA
Found at i:8928713 original size:59 final size:57
Alignment explanation
Indices: 8928552--8928718 Score: 153
Period size: 65 Copynumber: 2.8 Consensus size: 57
8928542 AACTATATAT
* * * *
8928552 TATATA-TATAATTTTT-AAAAAGTTTT-CAAACTATACATTATAAATGTTTTAAAAA
1 TATATATTATAATTTTTCAAAATGTTTTACAAAATATATATTAT-AATGTTTCAAAAA
8928607 TCATATATTATATATATTTTCAAAATGCCTTTTTTTA-AAAACTATATATTATAATGATTTCAAA
1 T-ATATATTATA-AT-TTTTCAAAATG-----TTTTACAAAA-TATATATTATAATG-TTTCAAA
*
8928671 AC
56 AA
8928673 TATATATTATAAGTTTTTCAAAATGTTTTACAAAATATATATTATA
1 TATATATTATAA-TTTTTCAAAATGTTTTACAAAATATATATTATA
8928719 TAAGTTTTCA
Statistics
Matches: 92, Mismatches: 5, Indels: 26
0.75 0.04 0.21
Matches are distributed among these distances:
55 1 0.01
56 5 0.05
57 4 0.04
58 2 0.02
59 20 0.22
60 9 0.10
64 12 0.13
65 22 0.24
66 17 0.18
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (57 bp):
TATATATTATAATTTTTCAAAATGTTTTACAAAATATATATTATAATGTTTCAAAAA
Found at i:8928727 original size:36 final size:36
Alignment explanation
Indices: 8928659--8928927 Score: 312
Period size: 36 Copynumber: 7.2 Consensus size: 36
8928649 TATATATTAT
* *
8928659 AATGATTTCAAAACTATATA-T-TATAAGTTTTTCAA
1 AATGTTTTAAAAACTATATATTATATAAG-TTTTCAA
8928694 AATGTTTTACAAAA-TATATATTATATAAGTTTTCAA
1 AATGTTTTA-AAAACTATATATTATATAAGTTTTCAA
*
8928730 AATGTTTTAAAAACTATATATTATATATATATTTTCAA
1 AATGTTTTAAAAACTATATATTATATA-A-GTTTTCAA
*
8928768 AATGTTTTAAAAACTATATATTATATAAATTTTCAA
1 AATGTTTTAAAAACTATATATTATATAAGTTTTCAA
* * * *
8928804 AATGTTTTAAGAACTATAGATTATATAAATTTTTAAA
1 AATGTTTTAAAAACTATATATTATAT-AAGTTTTCAA
8928841 AATGTTTTAAAAACTATATAATATATATATATATATGTTTTCAA
1 AATGTTTTAAAAAC----T-ATATAT-TATATA-A-GTTTTCAA
*
8928885 AATGTTTTAAAAACTATATATTATATAAGTTTT-GA
1 AATGTTTTAAAAACTATATATTATATAAGTTTTCAA
8928920 AATGTTTT
1 AATGTTTT
8928928 TTTTAAACCA
Statistics
Matches: 207, Mismatches: 12, Indels: 30
0.83 0.05 0.12
Matches are distributed among these distances:
35 26 0.13
36 71 0.34
37 30 0.14
38 40 0.19
39 6 0.03
40 1 0.00
41 1 0.00
42 6 0.03
43 6 0.03
44 20 0.10
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (36 bp):
AATGTTTTAAAAACTATATATTATATAAGTTTTCAA
Found at i:8928776 original size:74 final size:72
Alignment explanation
Indices: 8928659--8928927 Score: 319
Period size: 74 Copynumber: 3.6 Consensus size: 72
8928649 TATATATTAT
* * *
8928659 AATGATTTCAAAACTATATATTATA-AGTTTTTCAAAATGTTTTACAAAATATATATTATATAAG
1 AATGTTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTTACAAAATATATATTATATAAG
8928723 TTTTCAA
66 TTTTCAA
8928730 AATGTTTTAAAAACTATATATTATATATATATTTTCAAAATGTTTTA-AAAACTATATATTATAT
1 AATGTTTTAAAAACTATATATTATATA-AT-TTTTCAAAATGTTTTACAAAA-TATATATTATAT
*
8928794 AAATTTTCAA
63 AAGTTTTCAA
* * *
8928804 AATGTTTTAAGAACTATAGATTATATAAATTTTTAAAAATGTTTTAAAAACTATATAATATATAT
1 AATGTTTTAAAAACTATATATTATAT-AATTTTTCAAAATGTTTT----AC-A-A-AATATATAT
*
8928869 ATATATATGTTTTCAA
58 -TATATAAGTTTTCAA
* *
8928885 AATGTTTTAAAAACTATATATTATATAAGTTTT-GAAATGTTTT
1 AATGTTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTT
8928928 TTTTAAACCA
Statistics
Matches: 171, Mismatches: 13, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
71 23 0.13
72 1 0.01
73 19 0.11
74 63 0.37
75 1 0.01
77 1 0.01
79 10 0.06
80 14 0.08
81 39 0.23
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (72 bp):
AATGTTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTTACAAAATATATATTATATAAG
TTTTCAA
Found at i:8931565 original size:85 final size:85
Alignment explanation
Indices: 8931418--8931874 Score: 567
Period size: 85 Copynumber: 5.4 Consensus size: 85
8931408 CTAAATATAG
* * * * * *
8931418 CCCTTCTCACCTTGAGCTATGCTGTAAATTGGACATTCCTTTGAGCTGAATGGAATCAAACTCGA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGA
*
8931483 AGGTATTTGTTGACAGATAA
66 AGGTCTTTGTTGACAGATAA
* * * * * * *
8931503 CCCTTCTCTCCTTGAGTTATACTGTAGATTTAATATGTCC-TTGAGCTAAATGTACTCGAACTCG
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATG-CCTTTGAGCTGAATGTAATCAAACTCG
*
8931567 AAGGTCTTTGTTGACATATAA
65 AAGGTCTTTGTTGACAGATAA
*
8931588 CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGA
8931653 AGGTCTTTGTTGACAGATAA
66 AGGTCTTTGTTGACAGATAA
* * * * *
8931673 CCCCTCTCGCCATGAACTATGA-TGTAAATTTAATATGCCTTTGAGCTGAATGTAATCGAACTCG
1 CCCTTCTCGCCTTGAGCTAT-ACTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCG
* * *
8931737 AAGGTCTTTGTTGGCATATAG
65 AAGGTCTTTGTTGACAGATAA
* * * * *
8931758 CCCTTCTCGTCTTGAGCTATACTGTAAACTTGATATGCCCTTGAGCTGAGTGTAATCAAACTCAA
1 CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGA
* * *
8931823 AGGTCTTTTTGCTGGCAGATAG
66 AGGTC--TTTGTTGACAGATAA
*
8931845 CCCTTCTCGCCTTGAGCTATGCTGTAAATT
1 CCCTTCTCGCCTTGAGCTATACTGTAAATT
8931875 GTTCCTTTAA
Statistics
Matches: 319, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
84 3 0.01
85 274 0.86
86 2 0.01
87 40 0.13
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (85 bp):
CCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGA
AGGTCTTTGTTGACAGATAA
Found at i:8931706 original size:170 final size:170
Alignment explanation
Indices: 8931412--8931874 Score: 642
Period size: 170 Copynumber: 2.7 Consensus size: 170
8931402 CAAAAACTAA
* * * * *
8931412 ATATAGCCCTTCTCACCTTGAGCTATGCTGTAAATTGGACATTCCTTTGAGCTGAATGGAATCAA
1 ATATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAA
* * * *
8931477 ACTCGAAGGTATTTGTTGACAGATAACCCTTCTCTCCTTGAGTTAT-ACTGTAGATTTAATATGT
66 ACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGA-TGTAAATTTAATATG-
*
8931541 CC-TTGAGCTAAATGTACTCGAACTCGAAGGTCTTTGTTGAC
129 CCTTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGTTGAC
*
8931582 ATATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAA
1 ATATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAA
* * *
8931647 ACTCGAAGGTCTTTGTTGACAGATAACCCCTCTCGCCATGAACTATGATGTAAATTTAATATGCC
66 ACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGATGTAAATTTAATATGCC
* *
8931712 TTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGGC
131 TTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGTTGAC
* * * * *
8931752 ATATAGCCCTTCTCGTCTTGAGCTATACTGTAAACTTGATATGCCCTTGAGCTGAGTGTAATCAA
1 ATATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAA
* * * * *
8931817 ACTCAAAGGTCTTTTTGCTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATT
66 ACTCGAAGGTC--TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGATGTAAATT
8931875 GTTCCTTTAA
Statistics
Matches: 259, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
169 2 0.01
170 218 0.84
171 1 0.00
172 38 0.15
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (170 bp):
ATATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAA
ACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGATGTAAATTTAATATGCC
TTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGTTGAC
Found at i:8932078 original size:85 final size:85
Alignment explanation
Indices: 8931934--8932211 Score: 310
Period size: 85 Copynumber: 3.3 Consensus size: 85
8931924 AATTCTTTAA
* * * * *
8931934 ATGACTCCCCTTCACGGGAAAGCCA-AGTGGTATATTCTTCAGGTGGTTCCTCTTCGCGGGTCTG
1 ATGACTCCCCTTCACGAGAAAGCCATA-AGGTATATTCCTCAAGTGGTTCC-CTTAGCGGGTCTG
* * *
8931998 AACCAGGTGAAACGATCTTTGG
64 AACCAAGTGAGATGATCTTTGG
*
8932020 ATGAC-CCCCTTCACGGGAAAGCCATAAGGTATATTCCTCAAGTGGTTCTCCTTAGCGGGTCTGA
1 ATGACTCCCCTTCACGAGAAAGCCATAAGGTATATTCCTCAAGTGGTTC-CCTTAGCGGGTCTGA
* *
8932084 ACCAAGTGAGATGGTTTTTGG
65 ACCAAGTGAGATGATCTTTGG
* * * * * *
8932105 ACGAATCTCATTCACGAGAAAGCCATGAGGTATATTCCTCAAGTGGTTCCCCTTAG-AGGTCTGA
1 ATGACTCCCCTTCACGAGAAAGCCATAAGGTATATTCCTCAAGTGGTT-CCCTTAGCGGGTCTGA
* * *
8932169 ACTAAGTGAGATAATCTTTGA
65 ACCAAGTGAGATGATCTTTGG
*
8932190 ATGACTCCCCTTTACGAGAAAG
1 ATGACTCCCCTTCACGAGAAAG
8932212 TCATGTGAGA
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
85 110 0.68
86 51 0.31
87 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (85 bp):
ATGACTCCCCTTCACGAGAAAGCCATAAGGTATATTCCTCAAGTGGTTCCCTTAGCGGGTCTGAA
CCAAGTGAGATGATCTTTGG
Found at i:8937694 original size:26 final size:27
Alignment explanation
Indices: 8937637--8937694 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
8937627 ACAAGAAAAA
* **
8937637 ATAAAAATAAAAGTGAAATAAAAAGGG
1 ATAAAAATAAAAGTAAAATAAAAAACG
*
8937664 ATAAAAATGAAA-TAAAATAAAAAACG
1 ATAAAAATAAAAGTAAAATAAAAAACG
*
8937690 TTAAA
1 ATAAA
8937695 TTCTGAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.17
Consensus pattern (27 bp):
ATAAAAATAAAAGTAAAATAAAAAACG
Found at i:8937817 original size:22 final size:22
Alignment explanation
Indices: 8937792--8937837 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
8937782 GCAAAAAACT
8937792 AAAATAACAGTGGCTAAATCAA
1 AAAATAACAGTGGCTAAATCAA
* *
8937814 AAAATAATAGTGGCTAAATTAA
1 AAAATAACAGTGGCTAAATCAA
8937836 AA
1 AA
8937838 CATGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.22
Consensus pattern (22 bp):
AAAATAACAGTGGCTAAATCAA
Found at i:8938016 original size:7 final size:7
Alignment explanation
Indices: 8938004--8938094 Score: 139
Period size: 7 Copynumber: 13.1 Consensus size: 7
8937994 CCATGCCTCT
8938004 CATTTTC
1 CATTTTC
8938011 CATTTTC
1 CATTTTC
8938018 CATTTTC
1 CATTTTC
8938025 CATTTTC
1 CATTTTC
8938032 CATTTTC
1 CATTTTC
8938039 CATTTTC
1 CATTTTC
8938046 CATTTTC
1 CATTTTC
*
8938053 TATTTTC
1 CATTTTC
*
8938060 TATTTTC
1 CATTTTC
8938067 CATTTT-
1 CATTTTC
*
8938073 CATTTTT
1 CATTTTC
*
8938080 CATTTTT
1 CATTTTC
8938087 CATTTTC
1 CATTTTC
8938094 C
1 C
8938095 CTTCTCTCAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
6 6 0.08
7 74 0.93
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (7 bp):
CATTTTC
Found at i:8938864 original size:14 final size:14
Alignment explanation
Indices: 8938847--8938879 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8938837 AAAAAGAATA
8938847 AATAATAAGTAATC
1 AATAATAAGTAATC
*
8938861 AATAATATGTAATC
1 AATAATAAGTAATC
8938875 AATAA
1 AATAA
8938880 AAATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (14 bp):
AATAATAAGTAATC
Found at i:8939190 original size:38 final size:39
Alignment explanation
Indices: 8938957--8939203 Score: 228
Period size: 39 Copynumber: 6.4 Consensus size: 39
8938947 AAAACATAGA
** *
8938957 ATATATGTTTTCAAAAACATTTT-AAAACTATATAATAATAT
1 ATATAT-TTTTC-AAAATGTTTTAAAAACTATAT-ATTATAT
* *
8938998 ATATATTTTTCAAAATGTTTTAAAAATTATATGTTATAT
1 ATATATTTTTCAAAATGTTTTAAAAACTATATATTATAT
8939037 ATAT-TTTTTCAAAATGTTTTAAAAACTATATA-T-TAT
1 ATATATTTTTCAAAATGTTTTAAAAACTATATATTATAT
* ***
8939073 ATA-AGTTTTCAAAAAAAAAATTT--AAACTATATATTATAT
1 ATATATTTTTC---AAAATGTTTTAAAAACTATATATTATAT
* *
8939112 ATA-AGTTTTCAAAATGATTTAAAAACTATATATTATTATAT
1 ATATATTTTTCAAAATGTTTTAAAAAC--TATA-TATTATAT
*
8939153 ATATATTTTTC-AAACGTTTTAAAAACTATATA-T-TAT
1 ATATATTTTTCAAAATGTTTTAAAAACTATATATTATAT
8939189 ATATATTTTTCAAAA
1 ATATATTTTTCAAAA
8939204 ACGATTTTTT
Statistics
Matches: 176, Mismatches: 16, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
36 33 0.19
37 15 0.09
38 33 0.19
39 41 0.23
40 18 0.10
41 30 0.17
42 6 0.03
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (39 bp):
ATATATTTTTCAAAATGTTTTAAAAACTATATATTATAT
Found at i:8939206 original size:38 final size:38
Alignment explanation
Indices: 8938895--8939204 Score: 248
Period size: 38 Copynumber: 8.1 Consensus size: 38
8938885 AATATAATAA
* * *
8938895 AAAAATATTTTTAAAACTATATATTATATATGCTTTTT-
1 AAAAATGTTTTAAAAACTATATATTATATAT-ATTTTTC
* *
8938933 AAAAATTGTTTTCAAAAAC-ATAGA--ATATAT-GTTTTC
1 AAAAA-TGTTTT-AAAAACTATATATTATATATATTTTTC
**
8938969 AAAAACATTTT-AAAACTATATAATAATATATATATTTTTC
1 AAAAATGTTTTAAAAACTATAT-AT--TATATATATTTTTC
* *
8939009 -AAAATGTTTTAAAAATTATATGTTATATATATTTTTTC
1 AAAAATGTTTTAAAAACTATATATTATATATA-TTTTTC
*
8939047 -AAAATGTTTTAAAAACTATATATTATATA-AGTTTTC
1 AAAAATGTTTTAAAAACTATATATTATATATATTTTTC
*** *
8939083 AAAAAAAAAATTT--AAACTATATATTATATATAAGTTTTC
1 --AAAAATGTTTTAAAAACTATATATTATATAT-ATTTTTC
* *
8939122 -AAAATGATTTAAAAACTATATATTATTATATATATATTTT
1 AAAAATGTTTTAAAAACTATATATTA-TATATAT-T-TTTC
** *
8939162 TCAAACGTTTTAAAAACTATATATTATATATATTTTTC
1 AAAAATGTTTTAAAAACTATATATTATATATATTTTTC
8939200 AAAAA
1 AAAAA
8939205 CGATTTTTTT
Statistics
Matches: 221, Mismatches: 28, Indels: 46
0.75 0.09 0.16
Matches are distributed among these distances:
33 5 0.02
34 3 0.01
35 9 0.04
36 18 0.08
37 32 0.14
38 58 0.26
39 45 0.20
40 29 0.13
41 22 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (38 bp):
AAAAATGTTTTAAAAACTATATATTATATATATTTTTC
Found at i:8939673 original size:21 final size:20
Alignment explanation
Indices: 8939647--8939725 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 20
8939637 GCATGAATAT
8939647 GAAAATAATAAAATAAAAAAG
1 GAAAAT-ATAAAATAAAAAAG
*
8939668 GAAAATAATAAAAT---AAAT
1 GAAAAT-ATAAAATAAAAAAG
*
8939686 GAAAATATAAAATATAAAATG
1 GAAAATATAAAATA-AAAAAG
8939707 GTAAAATA-AAAATAAAAAA
1 G-AAAATATAAAATAAAAAA
8939726 TAGGAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
17 7 0.14
18 9 0.18
20 4 0.08
21 23 0.47
22 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (20 bp):
GAAAATATAAAATAAAAAAG
Found at i:8939719 original size:38 final size:39
Alignment explanation
Indices: 8939645--8939722 Score: 108
Period size: 38 Copynumber: 2.0 Consensus size: 39
8939635 TTGCATGAAT
8939645 ATGAAAATAATAAAATAAAAAAGGAAAATAATAAAATAA
1 ATGAAAATAATAAAATAAAAAAGGAAAATAATAAAATAA
*
8939684 ATGAAAAT-ATAAAATATAAAATGGTAAAAT-A-AAAATAA
1 ATGAAAATAATAAAATA-AAAAAGG-AAAATAATAAAATAA
8939722 A
1 A
8939723 AAATAGGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
38 16 0.44
39 15 0.42
40 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (39 bp):
ATGAAAATAATAAAATAAAAAAGGAAAATAATAAAATAA
Found at i:8939750 original size:3 final size:3
Alignment explanation
Indices: 8939742--8939855 Score: 83
Period size: 3 Copynumber: 38.3 Consensus size: 3
8939732 AAATATGATT
* ** *
8939742 ATA ATA ATA ATA ATA ATA ATA ACT- ATA ATA ATA AGA A-A CCA AAA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * * *
8939786 CAGA AGA AGA A-A GATA ATA ATA ATA ATA ATA AAA ATA ATA ATA ATA
1 -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
8939832 ATA A-A ATA ATT ATA TTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
8939856 AAATGACTAG
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
2 5 0.05
3 84 0.90
4 4 0.04
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:8940127 original size:24 final size:23
Alignment explanation
Indices: 8940074--8940131 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
8940064 AAAATGCCTT
*
8940074 TTTTTAAAAACTATATATTATAA
1 TTTTTCAAAACTATATATTATAA
*
8940097 TGATTTCAAAACTATATATTATAA
1 T-TTTTCAAAACTATATATTATAA
8940121 GTTTTTCAAAA
1 -TTTTTCAAAA
8940132 TGTTTTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (23 bp):
TTTTTCAAAACTATATATTATAA
Found at i:8940149 original size:59 final size:57
Alignment explanation
Indices: 8939988--8940154 Score: 153
Period size: 65 Copynumber: 2.8 Consensus size: 57
8939978 AACTATATAT
* * * *
8939988 TATATA-TATAATTTTT-AAAAAGTTTT-CAAACTATACATTATAAATGTTTTAAAAA
1 TATATATTATAATTTTTCAAAATGTTTTACAAAATATATATTAT-AATGTTTCAAAAA
8940043 TCATATATTATATATATTTTCAAAATGCCTTTTTTTA-AAAACTATATATTATAATGATTTCAAA
1 T-ATATATTATA-AT-TTTTCAAAATG-----TTTTACAAAA-TATATATTATAATG-TTTCAAA
*
8940107 AC
56 AA
8940109 TATATATTATAAGTTTTTCAAAATGTTTTACAAAATATATATTATA
1 TATATATTATAA-TTTTTCAAAATGTTTTACAAAATATATATTATA
8940155 TAAGTTTTCA
Statistics
Matches: 92, Mismatches: 5, Indels: 26
0.75 0.04 0.21
Matches are distributed among these distances:
55 1 0.01
56 5 0.05
57 4 0.04
58 2 0.02
59 20 0.22
60 9 0.10
64 12 0.13
65 22 0.24
66 17 0.18
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (57 bp):
TATATATTATAATTTTTCAAAATGTTTTACAAAATATATATTATAATGTTTCAAAAA
Found at i:8940163 original size:36 final size:36
Alignment explanation
Indices: 8940095--8940359 Score: 340
Period size: 36 Copynumber: 7.2 Consensus size: 36
8940085 TATATATTAT
* *
8940095 AATGATTTCAAAACTATATA-T-TATAAGTTTTTCAA
1 AATGTTTTAAAAACTATATATTATATAAG-TTTTCAA
8940130 AATGTTTTACAAAA-TATATATTATATAAGTTTTCAA
1 AATGTTTTA-AAAACTATATATTATATAAGTTTTCAA
*
8940166 AATGTTTTAAAAACTATATATTATATATATATTTTCAA
1 AATGTTTTAAAAACTATATATTATATA-A-GTTTTCAA
*
8940204 AATGTTTTAAAAACTATATATTATATAAATTTTCAA
1 AATGTTTTAAAAACTATATATTATATAAGTTTTCAA
* * * *
8940240 AATGTTTTAAGAACTATAGATTATATAAATTTTTAAA
1 AATGTTTTAAAAACTATATATTATAT-AAGTTTTCAA
8940277 AATGTTTTAAAAACTATATAATATATATATATGTTTTCAA
1 AATGTTTTAAAAACTATAT-AT-TATATA-A-GTTTTCAA
*
8940317 AATGTTTTAAAAACTATATATTATATAAGTTTT-GA
1 AATGTTTTAAAAACTATATATTATATAAGTTTTCAA
8940352 AATGTTTT
1 AATGTTTT
8940360 TTTTAAACCA
Statistics
Matches: 207, Mismatches: 12, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
35 26 0.13
36 71 0.34
37 34 0.16
38 43 0.21
39 8 0.04
40 25 0.12
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (36 bp):
AATGTTTTAAAAACTATATATTATATAAGTTTTCAA
Found at i:8940212 original size:74 final size:72
Alignment explanation
Indices: 8940095--8940359 Score: 356
Period size: 74 Copynumber: 3.6 Consensus size: 72
8940085 TATATATTAT
* * *
8940095 AATGATTTCAAAACTATATATTATA-AGTTTTTCAAAATGTTTTACAAAA-TATATATTATATAA
1 AATGTTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTTA-AAAACTATATATTATATAA
8940158 GTTTTCAA
65 GTTTTCAA
8940166 AATGTTTTAAAAACTATATATTATATATATATTTTCAAAATGTTTTAAAAACTATATATTATATA
1 AATGTTTTAAAAACTATATATTATATA-AT-TTTTCAAAATGTTTTAAAAACTATATATTATATA
*
8940231 AATTTTCAA
64 AGTTTTCAA
* * *
8940240 AATGTTTTAAGAACTATAGATTATATAAATTTTTAAAAATGTTTTAAAAACTATATAATATATAT
1 AATGTTTTAAAAACTATATATTATAT-AATTTTTCAAAATGTTTTAAAAACTATAT-AT-TATAT
8940305 ATATGTTTTCAA
63 A-A-GTTTTCAA
* *
8940317 AATGTTTTAAAAACTATATATTATATAAGTTTT-GAAATGTTTT
1 AATGTTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTT
8940360 TTTTAAACCA
Statistics
Matches: 173, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
71 23 0.13
72 1 0.01
73 30 0.17
74 65 0.38
75 16 0.09
76 7 0.04
77 31 0.18
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (72 bp):
AATGTTTTAAAAACTATATATTATATAATTTTTCAAAATGTTTTAAAAACTATATATTATATAAG
TTTTCAA
Found at i:8944910 original size:21 final size:22
Alignment explanation
Indices: 8944884--8944927 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8944874 GCTTCTCATT
8944884 AAAAAAAAT-CAAAGT-CAACAG
1 AAAAAAAATACAAA-TCCAACAG
8944905 AAAAAAAATACAAATCCAACAG
1 AAAAAAAATACAAATCCAACAG
8944927 A
1 A
8944928 TCTGAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.68, C:0.16, G:0.07, T:0.09
Consensus pattern (22 bp):
AAAAAAAATACAAATCCAACAG
Found at i:8945412 original size:60 final size:61
Alignment explanation
Indices: 8945336--8945461 Score: 184
Period size: 60 Copynumber: 2.1 Consensus size: 61
8945326 CCCTTTTTAA
* ** * * *
8945336 ATTGG-TCCTCAAACTTTTGAACATTCCAAATTTGTCCCCAAATTATTACCCTCATTCTAG
1 ATTGGTTCCTCAAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
8945396 ATTGGTTCCT-AAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
1 ATTGGTTCCTCAAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
8945456 ATTGGT
1 ATTGGT
8945462 CCCAAAACCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 55 0.93
61 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (61 bp):
ATTGGTTCCTCAAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
Found at i:8945475 original size:60 final size:59
Alignment explanation
Indices: 8945336--8945476 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 59
8945326 CCCTTTTTAA
* ** * * *
8945336 ATTGGTCCTCAAACTTTTGAACATTCCAAATTTGTCCCCAAATTATTACCCTCATTCTAG
1 ATTGGTCC-CAAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
*
8945396 ATTGGTTCCTAAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
1 ATTGG-TCCCAAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
*
8945456 ATTGGTCCCAAAACCTTTAAA
1 ATTGGTCCC-AAACTTTTAAA
8945477 TTCTCTATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 3 0.04
60 64 0.91
61 3 0.04
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (59 bp):
ATTGGTCCCAAACTTTTAAACATTCCAAATTCATCCCCAAACTAATACCCTCATTCTAC
Found at i:8945683 original size:59 final size:60
Alignment explanation
Indices: 8945539--8945688 Score: 203
Period size: 59 Copynumber: 2.5 Consensus size: 60
8945529 TATAGGAACT
* * *
8945539 AATTTAGAATGGGAGTCATAGTTTGAGTATGAAATTAGAATGTTTAAAAGTTTAGGGATA
1 AATTTAGAATGAGAGTCATAGTTTGAGGATGAAATTAGAATATTTAAAAGTTTAGGGATA
* * * * * *
8945599 AATTTAGAATGTGAATCATAATTTGAGGATGAAATTGGAATATTT-AAATTTTAGGGATC
1 AATTTAGAATGAGAGTCATAGTTTGAGGATGAAATTAGAATATTTAAAAGTTTAGGGATA
*
8945658 AATTTAGAATGAGAGTTATAGTTTGAGGATG
1 AATTTAGAATGAGAGTCATAGTTTGAGGATG
8945689 TATGGTACAA
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 39 0.50
60 39 0.50
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (60 bp):
AATTTAGAATGAGAGTCATAGTTTGAGGATGAAATTAGAATATTTAAAAGTTTAGGGATA
Found at i:8948781 original size:21 final size:21
Alignment explanation
Indices: 8948746--8948828 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 21
8948736 AGAACCCGTG
*
8948746 GGGGGTATCGATTCCC-TCAA
1 GGGGGAATCGATTCCCTTCAA
*
8948766 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TTC-AA
* *
8948790 GGGGGAATTGGTTCCCCTTCAA
1 GGGGGAATCGATT-CCCTTCAA
*
8948812 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
8948829 CTGCACTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.04
21 16 0.31
22 12 0.23
23 15 0.29
24 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTTCAA
Found at i:8948816 original size:22 final size:22
Alignment explanation
Indices: 8948746--8948827 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 22
8948736 AGAACCCGTG
* *
8948746 GGGGGTATCGATTCCC--TCAA
1 GGGGGAATCGGTTCCCATTCAA
8948766 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGGTTCCCATTC-AA
* *
8948790 GGGGGAATTGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCATTCAA
* *
8948812 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
8948828 TCTGCACTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.04
21 12 0.24
22 15 0.29
23 18 0.35
24 4 0.08
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCATTCAA
Done.