Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 161 of 202
Found at i:50390995 original size:35 final size:35
Alignment explanation
Indices: 50390949--50391018 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
50390939 AATTAAACTA
*
50390949 TGGACATGTTACGTTCATCTACTAATATAAGCTTT
1 TGGACATGTTACATTCATCTACTAATATAAGCTTT
50390984 TGGACATGTTACATTCATCTACTAATATAAGCTTT
1 TGGACATGTTACATTCATCTACTAATATAAGCTTT
50391019 CTTTTCGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (35 bp):
TGGACATGTTACATTCATCTACTAATATAAGCTTT
Found at i:50396143 original size:276 final size:276
Alignment explanation
Indices: 50395645--50396203 Score: 1100
Period size: 276 Copynumber: 2.0 Consensus size: 276
50395635 ATTTTGTATA
*
50395645 GGTTTAAATAACAGTTAGATTTTTTAATTTAAGTTGTTCAAGCATGTAATTAAAATAGACACAGA
1 GGTTCAAATAACAGTTAGATTTTTTAATTTAAGTTGTTCAAGCATGTAATTAAAATAGACACAGA
50395710 AGTATCATTAAGGTATTTGGGTTAGTGTAGCATCCGGTACCTGGACTTGGCGATCAGGTTTGGAA
66 AGTATCATTAAGGTATTTGGGTTAGTGTAGCATCCGGTACCTGGACTTGGCGATCAGGTTTGGAA
*
50395775 TAAGGTGTTACGTAATTTAGGTATGGAATGATTATAATTTGTATGCTTTGAAATGTTCAATTTAG
131 TAAGGTGTTACGTAATTTAGGTATGGAATGATTATAATTTGGATGCTTTGAAATGTTCAATTTAG
50395840 GTTATTTTACATATGTCTTGAGACCTTAAGAACAAAAATGATTGTTTCATGCATTTATGGGTAAA
196 GTTATTTTACATATGTCTTGAGACCTTAAGAACAAAAATGATTGTTTCATGCATTTATGGGTAAA
50395905 GGTCTCGAGACATTAT
261 GGTCTCGAGACATTAT
50395921 GGTTCAAATAACAGTTAGATTTTTTAATTTAAGTTGTTCAAGCATGTAATTAAAATAGACACAGA
1 GGTTCAAATAACAGTTAGATTTTTTAATTTAAGTTGTTCAAGCATGTAATTAAAATAGACACAGA
50395986 AGTATCATTAAGGTATTTGGGTTAGTGTAGCATCCGGTACCTGGACTTGGCGATCAGGTTTGGAA
66 AGTATCATTAAGGTATTTGGGTTAGTGTAGCATCCGGTACCTGGACTTGGCGATCAGGTTTGGAA
50396051 TAAGGTGTTACGTAATTTAGGTATGGAATGATTATAATTTGGATGCTTTGAAATGTTCAATTTAG
131 TAAGGTGTTACGTAATTTAGGTATGGAATGATTATAATTTGGATGCTTTGAAATGTTCAATTTAG
50396116 GTTATTTTACATATGTCTTGAGACCTTAAGAACAAAAATGATTGTTTCATGCATTTATGGGTAAA
196 GTTATTTTACATATGTCTTGAGACCTTAAGAACAAAAATGATTGTTTCATGCATTTATGGGTAAA
50396181 GGTCTCGAGACATTAT
261 GGTCTCGAGACATTAT
50396197 GGTTCAA
1 GGTTCAA
50396204 TTCTTGAGAC
Statistics
Matches: 281, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 281 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (276 bp):
GGTTCAAATAACAGTTAGATTTTTTAATTTAAGTTGTTCAAGCATGTAATTAAAATAGACACAGA
AGTATCATTAAGGTATTTGGGTTAGTGTAGCATCCGGTACCTGGACTTGGCGATCAGGTTTGGAA
TAAGGTGTTACGTAATTTAGGTATGGAATGATTATAATTTGGATGCTTTGAAATGTTCAATTTAG
GTTATTTTACATATGTCTTGAGACCTTAAGAACAAAAATGATTGTTTCATGCATTTATGGGTAAA
GGTCTCGAGACATTAT
Found at i:50420772 original size:40 final size:39
Alignment explanation
Indices: 50420735--50420860 Score: 216
Period size: 40 Copynumber: 3.2 Consensus size: 39
50420725 GTTTCTAGTG
50420735 GGCTTATTGTCAGTGAAATTTTCAGACTTAATGTCTAGCA
1 GGCTTATTG-CAGTGAAATTTTCAGACTTAATGTCTAGCA
50420775 GGCTTATTGCCAGTGAAATTTTCAGACTTAATGTCTAGCA
1 GGCTTATTG-CAGTGAAATTTTCAGACTTAATGTCTAGCA
*
50420815 GGCTTATTGCTAGTGAAATTTTCAGACTTAATGTCTAACA
1 GGCTTATTGC-AGTGAAATTTTCAGACTTAATGTCTAGCA
50420855 GGCTTA
1 GGCTTA
50420861 ATGCCGGTGT
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
39 1 0.01
40 82 0.99
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (39 bp):
GGCTTATTGCAGTGAAATTTTCAGACTTAATGTCTAGCA
Found at i:50424551 original size:6 final size:6
Alignment explanation
Indices: 50424549--50424573 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50424539 TTAAAAATAA
50424549 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
50424574 TTTTTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:50428443 original size:3 final size:3
Alignment explanation
Indices: 50428435--50428490 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
50428425 TACAACGATA
50428435 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
50428483 AAG AAG AA
1 AAG AAG AA
50428491 ATAGACGCAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50437694 original size:16 final size:16
Alignment explanation
Indices: 50437673--50437724 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
50437663 AAACAGGGTC
50437673 GTATGACCATAGCTGA
1 GTATGACCATAGCTGA
* * * *
50437689 GTATGAACA-GGGT-C
1 GTATGACCATAGCTGA
50437703 GTATGACCATAGCTGA
1 GTATGACCATAGCTGA
50437719 GTATGA
1 GTATGA
50437725 AAGAGAATTC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 8 0.31
15 4 0.15
16 14 0.54
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (16 bp):
GTATGACCATAGCTGA
Found at i:50437700 original size:30 final size:30
Alignment explanation
Indices: 50437664--50437725 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
50437654 CTAGAATTGA
50437664 AACAGGGTCGTATGACCATAGCTGAGTATG
1 AACAGGGTCGTATGACCATAGCTGAGTATG
50437694 AACAGGGTCGTATGACCATAGCTGAGTATG
1 AACAGGGTCGTATGACCATAGCTGAGTATG
50437724 AA
1 AA
50437726 AGAGAATTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (30 bp):
AACAGGGTCGTATGACCATAGCTGAGTATG
Found at i:50444550 original size:39 final size:39
Alignment explanation
Indices: 50444496--50444573 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
50444486 TTACATGCTT
50444496 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
1 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
*
50444535 AATTGATATATTAGTTGATATGATACTACGAAAATTCTC
1 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
50444574 GACAAGATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (39 bp):
AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
Found at i:50445907 original size:55 final size:55
Alignment explanation
Indices: 50445823--50445953 Score: 174
Period size: 55 Copynumber: 2.4 Consensus size: 55
50445813 TTTAATGAAG
* * * * *
50445823 CCAAGTCAGTGAGTTATATGGGCTAGTCACAC-GAGCGTGTGGTTAGTCGTGTGAC
1 CCAAGTCAGTGAGTTACACGGGCTAGTCACACAG-GCATGTGGGTAGCCGTGTGAC
* * *
50445878 CCAAGTGAGTCAGTTACACGGGCTAGTCACACAGGCATGTGGGTGGCCGTGTGAC
1 CCAAGTCAGTGAGTTACACGGGCTAGTCACACAGGCATGTGGGTAGCCGTGTGAC
50445933 CCAAGTCAGTGAGTTACACGG
1 CCAAGTCAGTGAGTTACACGG
50445954 TGTTGAACAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 64 0.98
56 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (55 bp):
CCAAGTCAGTGAGTTACACGGGCTAGTCACACAGGCATGTGGGTAGCCGTGTGAC
Found at i:50446417 original size:16 final size:16
Alignment explanation
Indices: 50446396--50446431 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
50446386 TTTGGTTTGC
50446396 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50446412 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50446428 TGTA
1 TGTA
50446432 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:50446719 original size:17 final size:17
Alignment explanation
Indices: 50446699--50446732 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
50446689 TTATTATTAA
50446699 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50446716 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50446733 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50446832 original size:16 final size:16
Alignment explanation
Indices: 50446795--50446836 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50446785 TTAATCATAT
*
50446795 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50446811 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50446826 TTAAAATATAT
1 TTAAAATATAT
50446837 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50446843 original size:14 final size:15
Alignment explanation
Indices: 50446804--50446845 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50446794 TTTAAACATA
*
50446804 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50446819 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50446833 A-TATAATTTAATA
1 ATTATAATTAAATA
50446846 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50446963 original size:14 final size:15
Alignment explanation
Indices: 50446914--50446965 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50446904 GTAAAATATA
50446914 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
50446929 TATTAAATATATTAT
1 AATTAAATATATTAT
50446944 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
50446957 AATTTAATA
1 AATTAAATA
50446966 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:50447072 original size:16 final size:16
Alignment explanation
Indices: 50447039--50447089 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 16
50447029 TGAAAATTTG
*
50447039 ATATAATTAATATTAAAT
1 ATATATTTAATA--AAAT
50447057 ATAT-TTTAATTAAAAT
1 ATATATTTAA-TAAAAT
50447073 ATATGATTTAATAAAAT
1 ATAT-ATTTAATAAAAT
50447090 TTAAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 8 0.28
17 10 0.34
18 11 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATATATTTAATAAAAT
Found at i:50447076 original size:18 final size:17
Alignment explanation
Indices: 50447053--50447089 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
50447043 AATTAATATT
50447053 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
50447069 AAATATATGATTTAATA
1 AAATATATGATTTAATA
50447086 AAAT
1 AAAT
50447090 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:50447101 original size:120 final size:118
Alignment explanation
Indices: 50446682--50447090 Score: 614
Period size: 120 Copynumber: 3.4 Consensus size: 118
50446672 AACCATATTA
50446682 AACATAATTATTATTAAATATATT-TAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * * *
50446745 -ATTCTTATATGAATTTACTCAAAT-ATCAATA-ATAAATAATTTAATCATATTT
66 TATTCTTATATGAATTTACTCAAATCAT-AATATAT-GATACTTAAATAAAATTT
50446797 AAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
50446862 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-T-AAATA-AAATTT
50446918 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
50446983 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACT-TAAAT-AAAATTT
* * * * *
50447038 GATATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
50447091 TAAAATAATT
Statistics
Matches: 272, Mismatches: 11, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
116 24 0.09
117 38 0.14
118 1 0.00
119 39 0.14
120 163 0.60
121 5 0.02
122 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (118 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTTAAATAAAATTT
Found at i:50447177 original size:24 final size:25
Alignment explanation
Indices: 50447131--50447178 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
50447121 TATGAATTTG
50447131 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
50447157 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
50447179 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:50447182 original size:92 final size:92
Alignment explanation
Indices: 50447086--50447314 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
50447076 TGATTTAATA
* * *
50447086 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
50447148 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
50447178 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
50447243 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
50447268 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
50447315 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:50451014 original size:66 final size:66
Alignment explanation
Indices: 50450941--50451172 Score: 169
Period size: 66 Copynumber: 3.2 Consensus size: 66
50450931 AAAATAGTCG
50450941 AAAAATAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAAC
1 AAAAATAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAAC
50451006 A
66 A
* * * *
50451007 AAAAATAGAAGCTAGCATACAAGTATTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAG
1 AAAAATAGAAGCTAG--TTCAA--A-TT-TTA--TGAA-GT--TAGA-AAATT-TT--CAG--A-
* ***** * *
50451072 TT-TGTAATGAAAAATAGTCG
48 TTGAGTAAT-TTCTGTA-ACA
50451092 AAAAATAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAAC
1 AAAAATAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAAC
50451157 A
66 A
50451158 AAAAATAGAAGCTAG
1 AAAAATAGAAGCTAG
50451173 CATACAAGTA
Statistics
Matches: 121, Mismatches: 24, Indels: 42
0.65 0.13 0.22
Matches are distributed among these distances:
66 31 0.26
67 4 0.03
68 10 0.08
70 4 0.03
71 2 0.02
72 5 0.04
73 4 0.03
74 6 0.05
75 2 0.02
76 2 0.02
77 6 0.05
78 4 0.03
79 5 0.04
80 2 0.02
81 4 0.03
83 10 0.08
84 4 0.03
85 16 0.13
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (66 bp):
AAAAATAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAAC
A
Found at i:50451088 original size:74 final size:74
Alignment explanation
Indices: 50451007--50451239 Score: 194
Period size: 74 Copynumber: 3.1 Consensus size: 74
50450997 TTCTGTAACA
50451007 AAAAATAGAAGCTAGCATACAAGTATTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAG
1 AAAAATAGAAGCTAGCATACAAGTATTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAG
50451072 TTTGTAATG
66 TTTGTAATG
* * *** * * * * *
50451081 AAAAAT---AG-TCG-A-A-AAATAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATT-TTCAG
1 AAAAATAGAAGCTAGCATACAAGTATTTGTTAGTTC-AATGTCATG--G--AG-GAATTCTTCAC
* **
50451138 ATTGAGTAATTTCTGTAACA
60 A--GA--AAGTT-TGTAATG
50451158 AAAAATAGAAGCTAGCATACAAGTATTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAG
1 AAAAATAGAAGCTAGCATACAAGTATTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAG
50451223 TTTGTAATG
66 TTTGTAATG
50451232 AAAAATAG
1 AAAAATAG
50451240 TCGAAAAATA
Statistics
Matches: 114, Mismatches: 26, Indels: 38
0.64 0.15 0.21
Matches are distributed among these distances:
67 11 0.10
68 8 0.07
69 1 0.01
70 3 0.03
71 2 0.02
72 7 0.06
73 4 0.04
74 21 0.18
75 4 0.04
76 4 0.04
77 13 0.11
78 4 0.04
79 7 0.06
80 2 0.02
81 3 0.03
82 1 0.01
83 8 0.07
84 11 0.10
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (74 bp):
AAAAATAGAAGCTAGCATACAAGTATTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAG
TTTGTAATG
Found at i:50451155 original size:151 final size:151
Alignment explanation
Indices: 50450881--50451318 Score: 867
Period size: 151 Copynumber: 2.9 Consensus size: 151
50450871 AACGAGGCAG
50450881 TTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAGTTTGTAATGAAAAATAGTCGAAAAA
1 TTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAGTTTGTAATGAAAAATAGTCGAAAAA
50450946 TAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAACAAAAA
66 TAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAACAAAAA
50451011 ATAGAAGCTAGCATACAAGTA
131 ATAGAAGCTAGCATACAAGTA
50451032 TTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAGTTTGTAATGAAAAATAGTCGAAAAA
1 TTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAGTTTGTAATGAAAAATAGTCGAAAAA
50451097 TAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAACAAAAA
66 TAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAACAAAAA
50451162 ATAGAAGCTAGCATACAAGTA
131 ATAGAAGCTAGCATACAAGTA
50451183 TTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAGTTTGTAATGAAAAATAGTCGAAAAA
1 TTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAGTTTGTAATGAAAAATAGTCGAAAAA
50451248 TAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAACAAAAA
66 TAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAACAAAAA
*
50451313 AGAGAA
131 ATAGAA
50451319 TTCCTAGATT
Statistics
Matches: 286, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 286 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (151 bp):
TTTGTTAGTTCAATGTCATGGAGGAATTCTTCACAGAAAGTTTGTAATGAAAAATAGTCGAAAAA
TAGAAGCTAGTTCAAATTTTATGAAGTTAGAAAATTTTCAGATTGAGTAATTTCTGTAACAAAAA
ATAGAAGCTAGCATACAAGTA
Found at i:50452098 original size:23 final size:21
Alignment explanation
Indices: 50452038--50452126 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 21
50452028 TGTACTGACT
50452038 AACAAATCAAGAACAATTTCCA
1 AACAAATCAA-AACAATTTCCA
*
50452060 ACATACAATCAAAACAATTTCCA
1 A-ACA-AATCAAAACAATTTCCA
* *
50452083 GAACAAATCAATAACAATATCAA
1 -AACAAATCAA-AACAATTTCCA
***
50452106 AACAAATTGCAACAATTTCCA
1 AACAAATCAAAACAATTTCCA
50452127 GTTTCATCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
21 9 0.17
22 14 0.26
23 24 0.44
24 7 0.13
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.20
Consensus pattern (21 bp):
AACAAATCAAAACAATTTCCA
Found at i:50453845 original size:29 final size:27
Alignment explanation
Indices: 50453813--50453880 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
50453803 CAGAGAAAAA
50453813 GAAAAGAAAAAGGTCGACTGGTTG-AGAAG
1 GAAAAGAAAAA-GT-GACTGGTTGTA-AAG
*
50453842 GAAAATCGAAAGAGTGACTGGTTGTAAAG
1 GAAAA--GAAAAAGTGACTGGTTGTAAAG
*
50453871 AAAAAGAAAA
1 GAAAAGAAAA
50453881 GAAAAGGTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
27 4 0.12
29 21 0.64
30 3 0.09
31 5 0.15
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.15
Consensus pattern (27 bp):
GAAAAGAAAAAGTGACTGGTTGTAAAG
Found at i:50453952 original size:11 final size:11
Alignment explanation
Indices: 50453936--50453963 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
50453926 AATCGGGAGG
50453936 CGAAGGTAGAA
1 CGAAGGTAGAA
50453947 CGAAGGTAGAA
1 CGAAGGTAGAA
50453958 CGAAGG
1 CGAAGG
50453964 AAGAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:50472014 original size:22 final size:22
Alignment explanation
Indices: 50471981--50472122 Score: 162
Period size: 22 Copynumber: 6.3 Consensus size: 22
50471971 CAAAAATATT
*
50471981 GATACTTAACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
50472003 GATACATGACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
50472025 AATACTTGACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
50472047 GATACTTAGCTAAATCAAAAA--TATC
1 GATACTT-G----ACCAAAAAGGTATC
*
50472072 GATACTTAACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
* *
50472094 GATACTTGACTAAAAAGGTATT
1 GATACTTGACCAAAAAGGTATC
50472116 GATACTT
1 GATACTT
50472123 TTGACCTGGA
Statistics
Matches: 102, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
20 7 0.07
22 76 0.75
23 1 0.01
25 11 0.11
27 7 0.07
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.25
Consensus pattern (22 bp):
GATACTTGACCAAAAAGGTATC
Found at i:50472107 original size:47 final size:47
Alignment explanation
Indices: 50471970--50472107 Score: 176
Period size: 47 Copynumber: 3.0 Consensus size: 47
50471960 AATTGATATT
* * *
50471970 TCAAAAATATTGATACTTAACCAAAAAGGTATCGATACATGAC-CAA
1 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTGACTAAA
** * *
50472016 --AAAGGTATCAATACTTGACCAAAAAGGTATCGATACTT-AGCTAAA
1 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTGA-CTAAA
50472061 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTGACTAAA
1 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTGACTAAA
50472108 AAGGTATTGA
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 33 0.43
45 2 0.03
47 39 0.51
48 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (47 bp):
TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTGACTAAA
Found at i:50472504 original size:19 final size:20
Alignment explanation
Indices: 50472479--50472517 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50472469 GGCCTAAATA
*
50472479 AAAAATTGACATACATTTTC
1 AAAATTTGACATACATTTTC
*
50472499 AAAATTTGACATTCATTTT
1 AAAATTTGACATACATTTT
50472518 TACTTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTTGACATACATTTTC
Found at i:50477573 original size:12 final size:12
Alignment explanation
Indices: 50477556--50477582 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50477546 TTTCCTCTCA
50477556 TCTATTGTAAGC
1 TCTATTGTAAGC
50477568 TCTATTGTAAGC
1 TCTATTGTAAGC
50477580 TCT
1 TCT
50477583 TTTAGAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (12 bp):
TCTATTGTAAGC
Found at i:50480531 original size:22 final size:22
Alignment explanation
Indices: 50480506--50480548 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50480496 CGATGAGATC
50480506 ATTGACTTGTATAAACAACATT
1 ATTGACTTGTATAAACAACATT
* *
50480528 ATTGGCTTGTATGAACAACAT
1 ATTGACTTGTATAAACAACAT
50480549 CATTCTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTGACTTGTATAAACAACATT
Found at i:50493277 original size:18 final size:18
Alignment explanation
Indices: 50493256--50493294 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50493246 TGATGTTACA
*
50493256 GAAGCGAAAGTTGTTGCT
1 GAAGAGAAAGTTGTTGCT
* *
50493274 GAAGAGGAAGTTGTTGTT
1 GAAGAGAAAGTTGTTGCT
50493292 GAA
1 GAA
50493295 AATGAGAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.28
Consensus pattern (18 bp):
GAAGAGAAAGTTGTTGCT
Found at i:50497484 original size:19 final size:19
Alignment explanation
Indices: 50497437--50497472 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
50497427 GAACACAACT
50497437 TCTTTGTTTCTTCATTTTA
1 TCTTTGTTTCTTCATTTTA
50497456 TCTTTGTTTCTTC-TTTT
1 TCTTTGTTTCTTCATTTT
50497473 TCATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (19 bp):
TCTTTGTTTCTTCATTTTA
Found at i:50503700 original size:33 final size:32
Alignment explanation
Indices: 50503652--50503773 Score: 127
Period size: 33 Copynumber: 3.7 Consensus size: 32
50503642 AATAATTCAT
* *
50503652 TAGGATAGTAAACACATAATAGAGATAGTCCGA
1 TAGGACAGTAAACACA-AATAGAGATAGTCCGC
* * * *
50503685 TGGGACAGTAAACACAAAACAAAGATAGTCTGC
1 TAGGACAGTAAACAC-AAATAGAGATAGTCCGC
* * *
50503718 TAAGACAGTAAACACAACATAGAGAAAGTGCGC
1 TAGGACAGTAAACACAA-ATAGAGATAGTCCGC
*
50503751 TAGGACAGTAAACACAGATAGAG
1 TAGGACAGTAAACACAAATAGAG
50503774 TTCGTCAGGA
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
32 8 0.11
33 63 0.88
34 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (32 bp):
TAGGACAGTAAACACAAATAGAGATAGTCCGC
Found at i:50507985 original size:14 final size:13
Alignment explanation
Indices: 50507965--50508003 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
50507955 ATTTTAAAAA
*
50507965 ATAAAATTATTTC
1 ATAAAATAATTTC
*
50507978 ATTAAAATAATGTC
1 A-TAAAATAATTTC
50507992 ATAAAATAATTT
1 ATAAAATAATTT
50508004 TTTTATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (13 bp):
ATAAAATAATTTC
Found at i:50520626 original size:18 final size:18
Alignment explanation
Indices: 50520603--50520645 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50520593 GAATAGATTT
*
50520603 TTAATTAAAAAAATTCAA
1 TTAATTAAAAAAATTAAA
**
50520621 TTAATTAAAAACTTTAAA
1 TTAATTAAAAAAATTAAA
50520639 TTAATTA
1 TTAATTA
50520646 CACCTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:50524798 original size:26 final size:26
Alignment explanation
Indices: 50524727--50524795 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
50524717 TTCTCATCCT
* * *
50524727 AATTTTACTCC-AATAATATTTTAAC
1 AATTTTACCCCGAGTAAAATTTTAAC
* *
50524752 AATTTTACCCCTAGTAAAATTTTGAC
1 AATTTTACCCCGAGTAAAATTTTAAC
*
50524778 GATTTTACCCCGA-TAAAA
1 AATTTTACCCCGAGTAAAA
50524796 ATTCGATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (26 bp):
AATTTTACCCCGAGTAAAATTTTAAC
Found at i:50534089 original size:414 final size:409
Alignment explanation
Indices: 50533038--50534261 Score: 2150
Period size: 414 Copynumber: 3.0 Consensus size: 409
50533028 TTGTGTGATA
* *
50533038 ATTTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGTTTGTTTGTTTTTTTAGTGAAAGGCTAGA
1 ATTTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGTTTGTTTTTTTTTTTAGTGAAAGGCTGGA
* * * * * *
50533103 TTATATTAAGGAAATATGCAATAACCTATTTTCAATGGTTTTGAACACTATGATTACTTCACCAC
66 TTATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCAC
50533168 AATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGGAA-TGTAGT
131 AATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTT-GAAGTGTAGT
* *
50533232 ATTAAAATTTGGTCTGTAACTTTAAAGTTTGAATAGTTAATTAAGTAAAAAGGACTAAATCGTAA
195 ATTAAAATTTGGTCTGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAA
*
50533297 AAGCTACAAAAGTTAACCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATG
260 AAGCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATG
*
50533362 GTTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTTTTTATGAAA
325 GTTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAA
50533427 TTTTAGTTAATATTGTTATG
390 TTTTAGTTAATATTGTTATG
50533447 ATTTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGTTTG---TTTTTTTTAGTGAAAGGCTGGA
1 ATTTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGTTTGTTTTTTTTTTTAGTGAAAGGCTGGA
50533509 TTATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCAC
66 TTATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCAC
*
50533574 AATTCTGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTA
131 AATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTA
*
50533639 TTAAAATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAA
196 TTAAAATTTGGTCT-GTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAA
*
50533704 AAGCTACAAAATTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATG
260 AAGCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATG
50533769 GTTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAA
325 GTTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAA
50533834 TTTTAGTTAATATTGTTATG
390 TTTTAGTTAATATTGTTATG
* *
50533854 ATTTGTTTTTTTTTTCATAGAGAAGGACTTGACTTTAAGTTTGTTTTTTTTTTTTAGTGAAAGGC
1 A--T-TTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGTTTG-TTTTTTTTTTTAGTGAAAGGC
50533919 TGGATTATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGA
62 TGGATTATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGA
*
50533984 CCACAATTCCGACCAATGAGTTAGAAAATTTTATTTATTTGATATTTATAAAGTTGTTGAAGTGT
127 CCACAATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGT
50534049 AGTATTAAAATTTGGTCTGGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATC
192 AGTATTAAAATTTGGTCT-GTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATC
* *
50534114 GTAAAAGCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTGTAAACATGAAAT
256 GTAAAAGCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGT
* * *
50534179 GATGGTTTTAAAAGTTAATTAGACCTTATTACTTTATAGTGGACGGTTAAGATGTAGTTATTTAT
321 GATGGTTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTAT
50534244 GAAATTTTAGTTAATATT
386 GAAATTTTAGTTAATATT
50534262 AAATGGCAAA
Statistics
Matches: 779, Mismatches: 27, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
405 3 0.00
406 153 0.20
407 195 0.25
409 41 0.05
410 36 0.05
414 351 0.45
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (409 bp):
ATTTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGTTTGTTTTTTTTTTTAGTGAAAGGCTGGA
TTATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCAC
AATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTA
TTAAAATTTGGTCTGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAAA
AGCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGG
TTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAAT
TTTAGTTAATATTGTTATG
Found at i:50537129 original size:81 final size:81
Alignment explanation
Indices: 50537035--50537203 Score: 275
Period size: 81 Copynumber: 2.1 Consensus size: 81
50537025 TTAACGAATT
* * * *
50537035 GATATTTGCTTATGATATGGACTAAATCATAAAGAAACGATAAATTCATTTATAAATTGAATATG
1 GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
50537100 ATAAATTATAATTTGA
66 ATAAATTATAATTTGA
* *
50537116 GATATTTGATTATGGCATGGAATAAATCATAAAGAAACGATAAAATGATTTATAAATTGAATATG
1 GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
50537181 ATAAATTATAATTTGA
66 ATAAATTATAATTTGA
*
50537197 TATATTT
1 GATATTT
50537204 AATGAATTGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (81 bp):
GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
ATAAATTATAATTTGA
Found at i:50537891 original size:13 final size:13
Alignment explanation
Indices: 50537873--50537900 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50537863 CTGTTTTAAA
50537873 TGAATTTTAATGT
1 TGAATTTTAATGT
50537886 TGAATTTTAATGT
1 TGAATTTTAATGT
50537899 TG
1 TG
50537901 TTCGAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.54
Consensus pattern (13 bp):
TGAATTTTAATGT
Found at i:50538183 original size:91 final size:90
Alignment explanation
Indices: 50537916--50538216 Score: 311
Period size: 91 Copynumber: 3.3 Consensus size: 90
50537906 AATGTGTTGT
* * *
50537916 TTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATTACAATTTTAATTGCTGAAAATTATGG
1 TTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATGG
* *
50537981 TGTTTGATTGTATGCTTTAATGATAC
66 TG-TTGATTGTATGCTTTGATGATGC
* * * * * *** * *
50538007 TCAAA-GATGATTTAAATGACG-TCTAAAAGATGTTAATTGGTCATTTTAATTGCCGTAAATTAT
1 TTAAATG-TGATTTAAATGATGTTC-GAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTAT
*
50538070 GGTGTTCGAATGTATG-TGTTGATGATGC
64 GGTGTT-GATTGTATGCT-TTGATGATGC
*
50538098 TTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATAG
1 TTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATGG
* *
50538163 TGTCTGATTGTAGGCTTTGATGATGT
66 TGT-TGATTGTATGCTTTGATGATGC
* * * * *
50538189 TTAAAGGCGCTTAAAATGATGTTTGAAA
1 TTAAATGTGATTTAAATGATGTTCGAAA
50538217 ATGGTAAACT
Statistics
Matches: 168, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
90 6 0.04
91 157 0.93
92 5 0.03
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (90 bp):
TTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATGG
TGTTGATTGTATGCTTTGATGATGC
Found at i:50539230 original size:15 final size:16
Alignment explanation
Indices: 50539212--50539244 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
50539202 ATCGTACAAC
50539212 AAAACAAAAATA-AAA
1 AAAACAAAAATAGAAA
50539227 AAAACAAAAATAGAAA
1 AAAACAAAAATAGAAA
50539243 AA
1 AA
50539245 TGAAACAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAACAAAAATAGAAA
Found at i:50543785 original size:4 final size:4
Alignment explanation
Indices: 50543776--50543846 Score: 70
Period size: 4 Copynumber: 16.8 Consensus size: 4
50543766 AAAGGAATAA
* *
50543776 AAAT AAAT AAAT AACAT AAAT AAAT AAAT AAAT AAAT AATGAG AAAT AAAG
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AA--AT AAAT AAAT
* *
50543827 AAACG AACT AAAT AAAT AAA
1 AAA-T AAAT AAAT AAAT AAA
50543847 CCAATAAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
4 47 0.82
5 7 0.12
6 3 0.05
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:50553374 original size:2 final size:2
Alignment explanation
Indices: 50553367--50553409 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
50553357 TGAAGCAAAC
50553367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50553409 A
1 A
50553410 CACTCAGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50558125 original size:21 final size:21
Alignment explanation
Indices: 50558099--50558141 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50558089 AGGCGAAAGG
50558099 TTTCCATTATTAACATTTTTT
1 TTTCCATTATTAACATTTTTT
50558120 TTTCCATTATTAACATTTTTT
1 TTTCCATTATTAACATTTTTT
50558141 T
1 T
50558142 AGACTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCCATTATTAACATTTTTT
Found at i:50558963 original size:10 final size:9
Alignment explanation
Indices: 50558952--50558994 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
50558942 TTAAAATTAT
50558952 ATTTTTTT-
1 ATTTTTTTA
50558960 ATATTTTTTA
1 AT-TTTTTTA
*
50558970 ATTATTTTA
1 ATTTTTTTA
50558979 ATTCTTTTTA
1 ATT-TTTTTA
50558989 ATTTTT
1 ATTTTT
50558995 AAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 2 0.07
9 18 0.60
10 10 0.33
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:50559007 original size:30 final size:29
Alignment explanation
Indices: 50558973--50559035 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
50558963 TTTTTTAATT
*
50558973 ATTT-TAATTCTTTTTAATTTTTAAAAATAA
1 ATTTATAATT-TTTTT-ATTTTCAAAAATAA
*
50559003 ATTTTATAATTTTTTTATTTTCAAAAATTA
1 A-TTTATAATTTTTTTATTTTCAAAAATAA
50559033 ATT
1 ATT
50559036 AAATACTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
29 2 0.07
30 14 0.48
31 8 0.28
32 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTTATAATTTTTTTATTTTCAAAAATAA
Found at i:50560546 original size:22 final size:21
Alignment explanation
Indices: 50560516--50560556 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
50560506 TAAGTAATAA
50560516 TTTTAAAATAAATTATAATTAT
1 TTTTAAAATAAA-TATAATTAT
* *
50560538 TTTTTAAATATATATAATT
1 TTTTAAAATAAATATAATT
50560557 CTAACTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTAAAATAAATATAATTAT
Found at i:50566612 original size:25 final size:26
Alignment explanation
Indices: 50566578--50566630 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
50566568 ATAAAAATAT
*
50566578 TTATTATATTTAT-TTGTGTTTTTTA
1 TTATTATATTTATGTAGTGTTTTTTA
50566603 TTATTATATTTATGGTAGTGTTTTTTA
1 TTATTATATTTAT-GTAGTGTTTTTTA
50566630 T
1 T
50566631 ATATAAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 13 0.52
27 12 0.48
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (26 bp):
TTATTATATTTATGTAGTGTTTTTTA
Found at i:50566635 original size:25 final size:23
Alignment explanation
Indices: 50566577--50566635 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
50566567 AATAAAAATA
*
50566577 TTTAT-TATATTTATTTGTGTTT
1 TTTATATATATTTATTAGTGTTT
50566599 TTTATTATTATATTTATGGTAGTGTTT
1 TTTA-TA-TATATTTAT--TAGTGTTT
50566626 TTTATATATA
1 TTTATATATA
50566636 AATACTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.13
23 1 0.03
25 13 0.42
26 2 0.06
27 11 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (23 bp):
TTTATATATATTTATTAGTGTTT
Found at i:50571545 original size:15 final size:15
Alignment explanation
Indices: 50571525--50571556 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50571515 CTAGGGTTGG
50571525 AAGTTTTAAACTTTC
1 AAGTTTTAAACTTTC
50571540 AAGTTTTAAACTTTC
1 AAGTTTTAAACTTTC
50571555 AA
1 AA
50571557 TTGGTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AAGTTTTAAACTTTC
Found at i:50578677 original size:7 final size:7
Alignment explanation
Indices: 50578665--50578697 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
50578655 ATTCGTAATA
50578665 AAAAAAT
1 AAAAAAT
50578672 AAAAAAT
1 AAAAAAT
50578679 AAAAAAT
1 AAAAAAT
50578686 AAAAAAT
1 AAAAAAT
50578693 AAAAA
1 AAAAA
50578698 GAGATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:50581927 original size:20 final size:20
Alignment explanation
Indices: 50581902--50581944 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
50581892 AGAATAAGGG
50581902 TGAGAGAGATTTGGAGTGTT
1 TGAGAGAGATTTGGAGTGTT
50581922 TGAGAGAGATTTGGAGTGTT
1 TGAGAGAGATTTGGAGTGTT
50581942 TGA
1 TGA
50581945 AAACAGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.35
Consensus pattern (20 bp):
TGAGAGAGATTTGGAGTGTT
Found at i:50592255 original size:31 final size:31
Alignment explanation
Indices: 50592220--50592290 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
50592210 AGAATGCACC
50592220 AAGTCTAAAGGTTGAAATATCGGAGAAGGAA
1 AAGTCTAAAGGTTGAAATATCGGAGAAGGAA
50592251 AAGTCTAAAGGTTGAAATATCGGAGAAGGAA
1 AAGTCTAAAGGTTGAAATATCGGAGAAGGAA
50592282 AAGTCTAAA
1 AAGTCTAAA
50592291 TTAAGACTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.20
Consensus pattern (31 bp):
AAGTCTAAAGGTTGAAATATCGGAGAAGGAA
Found at i:50593238 original size:131 final size:131
Alignment explanation
Indices: 50592932--50593347 Score: 597
Period size: 131 Copynumber: 3.2 Consensus size: 131
50592922 TGGATTGAAG
*
50592932 AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAACCACCAATCCTATCTCC
1 AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGA-TTAAACCACCAGTCCTATCTCC
* * * *
50592997 CTGAGCAGTAGTAGAGTAGGTTGAAGAGTGTAGATCCCGTCTCCCTAAGCAATAGTGGAGCAGAT
65 CTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCCCCTCTCCCTAAGCAATAGTGGAGCAGAT
50593062 CA
130 CA
* * * *
50593064 AATG-CGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTCAAACCACCAGTTCTATCTT
1 AA-GACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATT-AAACCACCAGTCCTATCTC
50593128 CCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGA-CCCCTCTCCCTAAGCAATAGTGGAGCAGA
64 CCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCCCCTCTCCCTAAGCAATAGTGGAGCAGA
50593192 TCA
129 TCA
* *
50593195 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAACCACCAGTCCTATCTCCC
1 AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTAAACCACCAGTCCTATCTCCC
* *** * * *
50593260 TGAGCAGCAATGGAGTAGGTTGAAGAATGTAGATCGTTTTTCCCTGAGCAGTAGTGGAGCAGATC
66 TGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCCCCTCTCCCTAAGCAATAGTGGAGCAGATC
50593325 GA
131 -A
*
50593327 AA-ACAGTGAATTTTA-CTTCCC
1 AAGACAGTGAATCTTATCTTCCC
50593348 TGGTGTTGCG
Statistics
Matches: 257, Mismatches: 22, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
130 57 0.22
131 110 0.43
132 89 0.35
133 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
AAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTAAACCACCAGTCCTATCTCCC
TGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCCCCTCTCCCTAAGCAATAGTGGAGCAGATC
A
Found at i:50593388 original size:21 final size:21
Alignment explanation
Indices: 50593358--50593399 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
50593348 TGGTGTTGCG
50593358 GTGGAATGGATTAAAGCTGAA
1 GTGGAATGGATTAAAGCTGAA
*
50593379 GTGGAGTGGATTAAAGCTGAA
1 GTGGAATGGATTAAAGCTGAA
50593400 TACAGCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.24
Consensus pattern (21 bp):
GTGGAATGGATTAAAGCTGAA
Found at i:50595134 original size:12 final size:12
Alignment explanation
Indices: 50595119--50595151 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
50595109 TTTTTTACTG
50595119 TTTTATTTAATA
1 TTTTATTTAATA
50595131 TTTTATTTAATA
1 TTTTATTTAATA
*
50595143 TTTCATTTA
1 TTTTATTTA
50595152 TTTATTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:50597932 original size:12 final size:12
Alignment explanation
Indices: 50597917--50597941 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50597907 GGTTCTTTAA
50597917 AATGATAAATTT
1 AATGATAAATTT
50597929 AATGATAAATTT
1 AATGATAAATTT
50597941 A
1 A
50597942 GATAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATGATAAATTT
Found at i:50599692 original size:15 final size:16
Alignment explanation
Indices: 50599658--50599692 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
50599648 AGAGGAAATT
50599658 GGAAAGAAAGGAAAAA
1 GGAAAGAAAGGAAAAA
50599674 -GAAAGAAA-GAAAAA
1 GGAAAGAAAGGAAAAA
50599688 GGAAA
1 GGAAA
50599693 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
GGAAAGAAAGGAAAAA
Found at i:50606478 original size:33 final size:32
Alignment explanation
Indices: 50606433--50606504 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
50606423 AATGATTTAC
** *
50606433 TTTTCTGGTGTTTGGATGAATTT-GTGTAAAATA
1 TTTTCTGGTGTTT-GACAAATTTCTTG-AAAATA
*
50606466 TTTTCTGTTGTTTGACAAATTTCTTGAAAATA
1 TTTTCTGGTGTTTGACAAATTTCTTGAAAATA
50606498 TTTTCTG
1 TTTTCTG
50606505 AAAAAGCTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (32 bp):
TTTTCTGGTGTTTGACAAATTTCTTGAAAATA
Found at i:50608508 original size:17 final size:17
Alignment explanation
Indices: 50608486--50608535 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
50608476 TCTTCAACAG
50608486 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
*
50608503 ACAGAT--TAAA--CAA
1 ACAGATGCAAAATCCAA
50608516 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
50608533 ACA
1 ACA
50608536 AATTCTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 9 0.33
15 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.22, G:0.10, T:0.12
Consensus pattern (17 bp):
ACAGATGCAAAATCCAA
Found at i:50610813 original size:2 final size:2
Alignment explanation
Indices: 50610806--50610840 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
50610796 TCATATTTAG
50610806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50610841 CCTTACATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50611685 original size:25 final size:25
Alignment explanation
Indices: 50611656--50611714 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
50611646 TAAACTCCTC
50611656 CGAGCTGAATAACAGTAAGCTCATA
1 CGAGCTGAATAACAGTAAGCTCATA
* ***
50611681 CGAGCTGAGTATTGGTAAGCTCATA
1 CGAGCTGAATAACAGTAAGCTCATA
*
50611706 CGTGCTGAA
1 CGAGCTGAA
50611715 ATTGGTAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
CGAGCTGAATAACAGTAAGCTCATA
Found at i:50612175 original size:13 final size:13
Alignment explanation
Indices: 50612157--50612182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50612147 GTCCATATAT
50612157 TTCACAAATTTAC
1 TTCACAAATTTAC
50612170 TTCACAAATTTAC
1 TTCACAAATTTAC
50612183 AAATTTTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCACAAATTTAC
Found at i:50619516 original size:43 final size:41
Alignment explanation
Indices: 50619415--50619542 Score: 121
Period size: 43 Copynumber: 3.0 Consensus size: 41
50619405 TTACTGAGAG
* * *
50619415 GTGATAACATGTAAGACCATGTTTGGAACATTGGCATCGTTAT
1 GTGATAACATGTAAGACCATGTCTGGGACA-TGGCATTG-TAT
* ** * * *
50619458 ATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATTGATAT
1 GTGATAACATGTAAGACCATGTCTGGGACA-TGGCATTG-TAT
* *
50619501 GTGATAACATGTAAGACCATATCTGGGATATGGCATTGTAT
1 GTGATAACATGTAAGACCATGTCTGGGACATGGCATTGTAT
50619542 G
1 G
50619543 AGCTATTATG
Statistics
Matches: 66, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
41 4 0.06
42 8 0.12
43 54 0.82
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (41 bp):
GTGATAACATGTAAGACCATGTCTGGGACATGGCATTGTAT
Found at i:50626378 original size:14 final size:14
Alignment explanation
Indices: 50626359--50626398 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50626349 TTAAAAACCA
*
50626359 TTTATAATTAAATG
1 TTTATAATTAAAAG
*
50626373 TTTATATTTAAAAG
1 TTTATAATTAAAAG
*
50626387 TTTTTAATTAAA
1 TTTATAATTAAA
50626399 CTCATAACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
TTTATAATTAAAAG
Found at i:50650425 original size:38 final size:38
Alignment explanation
Indices: 50650372--50650445 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
50650362 AACTTAGGCC
*
50650372 TTTTTTTCTGATTTGTTTTATTCATATTTTTTTTCCAA
1 TTTTTTTCCGATTTGTTTTATTCATATTTTTTTTCCAA
*
50650410 TTTTTTTCCGGTTTGTTTTATTCATATTTTTTTTCC
1 TTTTTTTCCGATTTGTTTTATTCATATTTTTTTTCC
50650446 GGTTTGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.69
Consensus pattern (38 bp):
TTTTTTTCCGATTTGTTTTATTCATATTTTTTTTCCAA
Found at i:50652327 original size:2 final size:2
Alignment explanation
Indices: 50652320--50652349 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50652310 CCCGGTAAGA
50652320 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
50652350 CTCAAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50671887 original size:23 final size:23
Alignment explanation
Indices: 50671855--50672768 Score: 658
Period size: 23 Copynumber: 38.5 Consensus size: 23
50671845 AGTTAAGGGT
*
50671855 TTAGGTTTTTTAAGTT-AATTAGG
1 TTAGGGTTTTTAA-TTAAATTAGG
* *
50671878 CTAGAGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50671901 TTAGGGTTTTTAAGTT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG
* *
50671922 TTTAGAGTTTTTAATTGAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
50671946 TTAGGGTTAGGGTTT--TT-AATTGAGGG
1 TTAGGGTT----TTTAATTAAATT-A-GG
*
50671972 TTTAGAGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
* *
50671996 CTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
50672019 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
**
50672042 CCAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50672065 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* *
50672088 TTAGGGTTTTTAATT-TA-TGGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50672109 TTTATGGTTTTTAATTGAATTAGGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
*
50672139 TTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATTAAATTAGG
50672159 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
50672183 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
50672206 TTAGGCTAGGGTTTTTAATTAAATTAGG
1 -T----TAGGGTTTTTAATTAAATTAGG
*
50672234 TTACGGTTTTTAAGTT-AA-T-GG
1 TTAGGGTTTTTAA-TTAAATTAGG
50672255 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
**
50672279 TTAGCATTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50672302 TTAGGGTTTTTAAGTTAAGGTT---
1 TTAGGGTTTTTAA-TTAA-ATTAGG
50672324 TTAGGGTTTTTAATTGAATTAGGTTAGGG
1 TTAGGGTTTTTAATT-AA--A--TTA-GG
*
50672353 TTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50672373 TTTAAGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
*
50672397 TTAGGCTAGGGTTTTTAATT-AA--GGG
1 -T----TAGGGTTTTTAATTAAATTAGG
50672422 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
50672446 TTAGGCTAGGGTTTTTAATTAAATTAGG
1 -T----TAGGGTTTTTAATTAAATTAGG
*
50672474 TTAGGGTTTTTAAGTT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG
*
50672495 TTTAGGGTTTTTAATT-AA--GGG
1 -TTAGGGTTTTTAATTAAATTAGG
50672516 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
*
50672540 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50672563 TTAGGGTTTTTAAGTT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG
50672584 TTTAGGGTTTTTAATTGAATTAGGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
*
50672614 TTAGGGTTTTTAATT-AA--GGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50672634 TTTAGGTTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
*
50672658 TTAGGATTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
50672681 CTAGGGTTTTTAATTAAATTAGCTCATGG
1 TTAGGGTTTTTAATTAAA-T---T-A-GG
* **
50672710 TTTTGGGTTTTTAATTATTTTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
****
50672734 TTAGGGTTTAGGGTTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
50672757 TTAGGGTTTTTA
1 TTAGGGTTTTTA
50672769 TTACATCAAA
Statistics
Matches: 732, Mismatches: 68, Indels: 182
0.75 0.07 0.19
Matches are distributed among these distances:
20 6 0.01
21 99 0.14
22 97 0.13
23 321 0.44
24 40 0.05
25 19 0.03
26 8 0.01
27 18 0.02
28 58 0.08
29 48 0.07
30 18 0.02
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.47
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:50671972 original size:50 final size:49
Alignment explanation
Indices: 50671899--50672282 Score: 268
Period size: 50 Copynumber: 8.0 Consensus size: 49
50671889 AATTAAATTA
* *
50671899 GGTTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAATTGAATTAGGTTAG
1 GGTTAGGGTTTTTAA-TT-AGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
50671950 GGTTAGGGTTTTTAATTGAGGGTTTAGAGTTTTTAATTAAATTAGGCTAA
1 GGTTAGGGTTTTTAATT-AGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
**
50672000 GGTT----TTTAATTAAATTA-GG-TTAGGGTTTTTAATTAAATTAGGCCAG
1 GGTTAGGGTTT--TT-AATTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
*
50672046 GGTT----TTTAATTAAATTA-GG-CTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTT--TT-AATTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
* *
50672086 GGTTAGGGTTTTTAATTTATGGGTTTATGGTTTTTAATTGAATTAGGTTAG
1 GGTTAGGGTTTTTAA-TTA-GGGTTTAGGGTTTTTAATTAAATTAGGTTAG
50672137 GGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATT-AGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
50672187 GGTT----TTTAATTAAATTA-GGTTAGGCTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTT--TT-AATTAGGGTT----TAGGGTTTTTAATTAAATTAGGTTAG
* *
50672232 GGTTACGGTTTTTAAGTTAATGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAA-TT-AGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
50672283 CATTTTTAAT
Statistics
Matches: 281, Mismatches: 14, Indels: 76
0.76 0.04 0.20
Matches are distributed among these distances:
40 4 0.01
41 3 0.01
42 5 0.02
43 1 0.00
44 5 0.02
45 33 0.12
46 72 0.26
47 10 0.04
48 10 0.04
49 15 0.05
50 78 0.28
51 45 0.16
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (49 bp):
GGTTAGGGTTTTTAATTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:50671973 original size:20 final size:21
Alignment explanation
Indices: 50671948--50671987 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50671938 GAATTAGGTT
*
50671948 AGGG-TTAGGGTTTTTAATTG
1 AGGGTTTAGAGTTTTTAATTG
50671968 AGGGTTTAGAGTTTTTAATT
1 AGGGTTTAGAGTTTTTAATT
50671988 AAATTAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
AGGGTTTAGAGTTTTTAATTG
Found at i:50671993 original size:118 final size:119
Alignment explanation
Indices: 50671820--50672035 Score: 334
Period size: 118 Copynumber: 1.8 Consensus size: 119
50671810 CAAATCTAAC
50671820 ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAGGTTTTTTAAGTTAATTAGGCT-AGAG
1 ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAGGTTTTTTAAGTTAATTAGGCTAAG-G
50671884 TTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAATTGA
65 TTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAGGGTTTAGAGTTTTTAATTGA
* * *
50671940 ATTAGGTTAGGGTTAGGGTTTTT-AA-TTGAGGGTTTAGAG-TTTTTAA-TTAAATTAGGCTAAG
1 ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAG-GTTTTTTAAGTT-AATTAGGCTAAG
50672001 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAA
64 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAA
50672036 ATTAGGCCAG
Statistics
Matches: 90, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
117 6 0.07
118 58 0.64
119 5 0.06
120 21 0.23
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (119 bp):
ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAGGTTTTTTAAGTTAATTAGGCTAAGGT
TTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGAGTTTTTAATTGA
Found at i:50672144 original size:187 final size:189
Alignment explanation
Indices: 50671855--50672674 Score: 748
Period size: 187 Copynumber: 4.3 Consensus size: 189
50671845 AGTTAAGGGT
* *
50671855 TTAGGTTTTTTAAGTTAATTAGGCTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAAGTTAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
* *
50671920 GGTTTAGAGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTGAGGGTTTAGAGTTTTTA
66 GGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTGAGGGTTTAGGGTTTTTA
*
50671985 ATTAAATTAGGCTAAGGTTTTTAATTAAATTAGG-T-TAGGGTTTTTAATTAAATTAGG
131 ATTAAATTAGGTTAAGGTTTTTAATTAAATTAGGTTGTAGGGTTTTTAATTAAATTAGG
** * *
50672042 CCAGGGTTTTTAA-TTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAT
1 TTAGGGTTTTTAAGTT-AATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAA
* *
50672106 GGGTTTATGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTT
65 GGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTGAGGGTTTAGGGTTTTT
*
50672171 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGCTAGGGTTTTTAATTAAATTAGG
130 AATTAAATTAGGTTAAGGTTTTTAATTAAATTAGGTT--G-TAGGGTTTTTAATTAAATTAGG
* * **
50672234 TTACGGTTTTTAAGTTAA-T-GGTTTAGGGTTTTTAATTAAATTAGGTTAGCATTTTTAA-TTAA
1 TTAGGGTTTTTAAGTTAATTAGG-CTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-A
*
50672296 ATTAGG-TTAGGGTTTTTAA--G--TTAAGGTT----TTAGGGTTTTTAATTGAATTAGGTTAGG
64 A--GGGTTTAGGGTTTTTAATTGAATT-AGGTTAGGGTTAGGGTTTTTAATTG----A-G---GG
* *
50672352 GTTAGGGTTTTTAATT-AA--GGGTTTAAGGTTTTTAATTAAATTAGGTTAGGCTAGGGTTTTTA
118 TTTAGGGTTTTTAATTAAATTAGG-TTAAGGTTTTTAATTAAATTAGGTT--G-TAGGGTTTTTA
*
50672414 ATT-AA--GGG
179 ATTAAATTAGG
50672422 TTTAGGGTTTTTAA-TTAAATTAGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
1 -TTAGGGTTTTTAAGTT--A--A--TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
* *
50672486 AGTTAAGGGTTTAGGGTTTTTAATT-AA--GGGTTTAGGGTT----TTTAATTAAATT-A-GG-C
59 AGTTAAGGGTTTAGGGTTTTTAATTGAATTAGG-TTAGGGTTAGGGTTT--TT-AATTGAGGGTT
* *
50672541 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-AA--GGGTT-TAGGGTTTTTAATTGA
120 TAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAA-TTAAATTAGGTTGTAGGGTTTTTAATT-A
50672602 ATTAGGTTAGGG
183 A--A--TTA-GG
* * * *
50672614 TTAGGGTTTTTAA-TTAA--GGGTTTAGGTTTTTTAATTAAATTAGGTTAGGATTTTTAA-TTAA
1 TTAGGGTTTTTAAGTTAATTAGG-CTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAA
50672675 ATTAGGCTAG
Statistics
Matches: 534, Mismatches: 41, Indels: 120
0.77 0.06 0.17
Matches are distributed among these distances:
183 20 0.04
184 33 0.06
185 16 0.03
186 2 0.00
187 169 0.32
188 11 0.02
189 33 0.06
190 15 0.03
191 92 0.17
192 51 0.10
193 24 0.04
194 15 0.03
195 41 0.08
196 4 0.01
197 2 0.00
198 4 0.01
199 2 0.00
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (189 bp):
TTAGGGTTTTTAAGTTAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
GGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTGAGGGTTTAGGGTTTTTA
ATTAAATTAGGTTAAGGTTTTTAATTAAATTAGGTTGTAGGGTTTTTAATTAAATTAGG
Found at i:50672188 original size:118 final size:115
Alignment explanation
Indices: 50671855--50672702 Score: 698
Period size: 118 Copynumber: 7.2 Consensus size: 115
50671845 AGTTAAGGGT
* * * *
50671855 TTAGGTTTTTTAAGTT-AATTAGGCTAGAGTTTTTAATTAAAT-TA-GGTTAGGGTTTTTAAGTT
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTAATTATAGGGTTAGGGTTTTTAA-TT
* *
50671917 AAGGGTTTAGAGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTT--TT-AATTGAGGG
64 AAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT----TTTAATTAAATT-A-GG
* * * *
50671972 TTTAGAGTTTTTAATTAAATTAGGCTAAGGTTTTTAATTAAAT-TA-GGTTAGGGTTTTTAATTA
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAATTATAGGGTTAGGGTTTTTAATT-
* ** *
50672035 AATTAGG-CCAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
64 AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
* * *
50672088 TTAGGGTTTTTAATT-TA-TGGGTTTATGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTA
1 TTAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAATT-AATTA---TAGGGTTAGGGTTTTTA
50672151 ATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
61 ATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
* *
50672206 TTAGGCTAGGGTTTTTAATTAAATTAGGTTACGGTTTTTAAGTT-A--AT-GGTTTAGGGTTTTT
1 -T----TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAATTATAGGGTTAGGGTTTTT
* ** *
50672267 AATTAAATTAGG-TTAGCATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGTT---
60 AATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAA-ATTAGG
* *
50672324 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTT--TTAATTA-AGGGTTTAAGGTTTTTA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTT----TTTAATTAATTATAGGG-TTAGGGTTTTTA
* *
50672386 ATTAAATTAGGTTAGGCTAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGG
61 ATT-AA--GGGTT----TAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAATTAAATTAGG
*
50672446 TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT-A--AGTTA-AGGGTTTAGGGTTTTT
1 -T----TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAATTATAGGG-TTAGGGTTTTT
*
50672507 AATTAAGGGTTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGG
60 AATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
*
50672563 TTAGGGTTTTTAAGTT-AA--GGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTT
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTTTTAATT-AATTA---TAGGGTTAGGGTTTTT
* *
50672625 AATTAAGGGTTTAGGTTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAATTAGG
60 AATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
*
50672681 CTAGGGTTTTTAATTAAATTAG
1 TTAGGGTTTTTAATTAAATTAG
50672703 CTCATGGTTT
Statistics
Matches: 613, Mismatches: 49, Indels: 134
0.77 0.06 0.17
Matches are distributed among these distances:
110 2 0.00
111 11 0.02
112 15 0.02
113 33 0.05
114 16 0.03
115 39 0.06
116 5 0.01
117 57 0.09
118 206 0.34
119 76 0.12
120 32 0.05
121 18 0.03
122 25 0.04
123 31 0.05
124 13 0.02
125 5 0.01
127 29 0.05
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (115 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAATTATAGGGTTAGGGTTTTTAATTAA
GGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
Found at i:50672209 original size:28 final size:28
Alignment explanation
Indices: 50672160--50672241 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
50672150 AATTAAGGGT
50672160 TTAGGGTTTTTAATT-AA--A--TTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
50672183 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
*
50672211 CTAGGGTTTTTAATTAAATTAGGTTACGG
1 TTAGGGTTTTTAATTAAATTAGGTTA-GG
50672240 TT
1 TT
50672242 TTTAAGTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
23 15 0.29
24 2 0.04
26 1 0.02
28 30 0.59
29 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.46
Consensus pattern (28 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:50672251 original size:28 final size:26
Alignment explanation
Indices: 50672169--50672252 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 26
50672159 TTTAGGGTTT
50672169 TTAATTAAATTAGGTTAGGGTTTTTAA
1 TTAATTAAATTAGGTTA-GGTTTTTAA
** * *
50672196 TTAAATTAGGTTAGGCTAGG-GTTT--
1 TT-AATTAAATTAGGTTAGGTTTTTAA
50672220 TTAATTAAATTAGGTTACGGTTTTTAA
1 TTAATTAAATTAGGTTA-GGTTTTTAA
50672247 GTTAAT
1 -TTAAT
50672253 GGTTTAGGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
23 12 0.28
24 4 0.09
25 3 0.07
26 3 0.07
27 4 0.09
28 17 0.40
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (26 bp):
TTAATTAAATTAGGTTAGGTTTTTAA
Found at i:50672425 original size:49 final size:49
Alignment explanation
Indices: 50672297--50672544 Score: 314
Period size: 49 Copynumber: 5.1 Consensus size: 49
50672287 TTTAATTAAA
* * *
50672297 TTAGGTTAGGGTTTTTAAGTTAAGGTTTTAGGGTTTTTAATTGAATTAGG
1 TTAGGCTAGGGTTTTTAA-TTAAGGGTTTAGGGTTTTTAATTAAATTAGG
* *
50672347 TTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTA-GGCTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
50672397 TTAGGCTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
* *
50672446 TTAGGCTAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAAGTT-AA--GGG
1 TTAGGCTAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAA-TTAAATTAGG
50672495 TT----TAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
*
50672540 CTAGG
1 TTAGG
50672545 GTTTTTAATT
Statistics
Matches: 176, Mismatches: 10, Indels: 26
0.83 0.05 0.12
Matches are distributed among these distances:
42 4 0.02
43 15 0.09
44 2 0.01
45 17 0.10
49 68 0.39
50 36 0.20
51 30 0.17
52 4 0.02
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (49 bp):
TTAGGCTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG
Found at i:50672456 original size:28 final size:28
Alignment explanation
Indices: 50672424--50672478 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
50672414 ATTAAGGGTT
50672424 TAGGGTTTTTAATTAAATTAGGTTAGGC
1 TAGGGTTTTTAATTAAATTAGGTTAGGC
50672452 TAGGGTTTTTAATTAAATTAGGTTAGG
1 TAGGGTTTTTAATTAAATTAGGTTAGG
50672479 GTTTTTAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGC
Found at i:50672579 original size:261 final size:256
Alignment explanation
Indices: 50672000--50672742 Score: 865
Period size: 261 Copynumber: 2.8 Consensus size: 256
50671990 ATTAGGCTAA
* ** ** *
50672000 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGCCAGGGTTTTTAA-TTAAATTAG
1 GGTTTTTAATTAAATTAGGCTAGCATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-AA--GG
* *
50672064 G-CTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTTATGGGTTTATGG-TTTTT
63 GTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAGGGTTTA-GGTTTTTT
*
50672121 AATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGG-T-
126 AATT-AA--A--TTA-GGTTAGGATTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTA
50672184 --TAGGGTTTTTAATTAAATTAGGTTAGGCTAGGGTTTTTAATTAAATTAGGTTACGGTTTTTAA
185 GGTAGGGTTTTTAATTAAATTAGG-T----TAGGGTTTTTAATTAAA-TAGGTTACGGTTTTTAA
*
50672247 GTTAATGGTTTAG
244 GTTAAGGGTTTAG
* *
50672260 GGTTTTTAATTAAATTAGGTTAGCATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGTTT
1 GGTTTTTAATTAAATTAGGCTAGCATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTT
50672325 TAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGG-TTTTTAATT
66 TAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTT-AGGTTTTTTAATT
50672389 AAATTAGGTTAGGCTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGCTA
130 AAATTAGGTTAGG--A---TTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGG-TA
* *
50672454 GGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAGGG
189 GGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAATAGG-TTACGGTTTTTAAGTTAAGGG
50672516 TTTAG
252 TTTAG
**
50672521 GGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTT
1 GGTTTTTAATTAAATTAGGCTAGCATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTT
50672586 TAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGTTTTTTAATTA
66 TAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGTTTTTTAATTA
* * * * *
50672651 AATTAGGTTAGGATTTTTAATTAAATTAGG-CTAGGGTTTTTAATTAAATTAGCTCATGGTTTTG
131 AATTAGGTTAGGATTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTA-GG--TAG
**
50672715 GGTTTTTAATTATTTTAGGTTAGGGTTT
190 GGTTTTTAATTAAATTAGGTTAGGGTTT
50672743 AGGGTTAAAT
Statistics
Matches: 432, Mismatches: 24, Indels: 54
0.85 0.05 0.11
Matches are distributed among these distances:
256 9 0.02
257 2 0.00
258 31 0.07
259 22 0.05
260 86 0.20
261 150 0.35
262 13 0.03
263 54 0.12
264 26 0.06
265 16 0.04
267 1 0.00
268 22 0.05
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (256 bp):
GGTTTTTAATTAAATTAGGCTAGCATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTT
TAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGTTTTTTAATTA
AATTAGGTTAGGATTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGTAGGGTTTT
TAATTAAATTAGGTTAGGGTTTTTAATTAAATAGGTTACGGTTTTTAAGTTAAGGGTTTAG
Found at i:50672605 original size:50 final size:44
Alignment explanation
Indices: 50672452--50672674 Score: 238
Period size: 44 Copynumber: 4.9 Consensus size: 44
50672442 TAGGTTAGGC
*
50672452 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTT
1 TAGGTTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAGGGTT
* * * *
50672497 TAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGG-C
1 TAGGTTTTTTAATTAAATTAGG-TTAGGGTTTTTAATT-AA--GGGTT
*
50672541 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTT
1 TAGGTTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAGGGTT
*
50672586 TAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTT
1 TAGGTTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTAAGGGTT
*
50672636 TAGGTTTTTTAATTAAATTAGGTTAGGATTTTTAATTAA
1 TAGGTTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAA
50672675 ATTAGGCTAG
Statistics
Matches: 155, Mismatches: 8, Indels: 31
0.80 0.04 0.16
Matches are distributed among these distances:
42 4 0.03
43 15 0.10
44 36 0.23
45 35 0.23
46 17 0.11
47 5 0.03
48 1 0.01
49 2 0.01
50 25 0.16
51 15 0.10
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (44 bp):
TAGGTTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTT
Found at i:50672742 original size:30 final size:30
Alignment explanation
Indices: 50672682--50672748 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
50672672 TAAATTAGGC
*
50672682 TAGGGTTTTTAATTAAATTAGCTCATGGTT
1 TAGGGTTTTTAATTAAATTAGCTCAGGGTT
* ** * *
50672712 TTGGGTTTTTAATTATTTTAGGTTAGGGTT
1 TAGGGTTTTTAATTAAATTAGCTCAGGGTT
50672742 TAGGGTT
1 TAGGGTT
50672749 AAATTAGGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (30 bp):
TAGGGTTTTTAATTAAATTAGCTCAGGGTT
Found at i:50672842 original size:44 final size:45
Alignment explanation
Indices: 50672774--50672860 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
50672764 TTTTATTACA
*
50672774 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
50672819 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
50672861 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:50674780 original size:7 final size:7
Alignment explanation
Indices: 50674770--50674794 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50674760 ATACATACAT
50674770 AATACTA
1 AATACTA
50674777 AATACTA
1 AATACTA
50674784 AATACTA
1 AATACTA
50674791 AATA
1 AATA
50674795 TCAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:50675993 original size:51 final size:52
Alignment explanation
Indices: 50675938--50676052 Score: 198
Period size: 51 Copynumber: 2.2 Consensus size: 52
50675928 TATTTTAAAA
* *
50675938 AAGGAAATTGAGAA-GAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
50675989 AAGGAAATTGA-AAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
50676040 AAGGAAATTGAGA
1 AAGGAAATTGAGA
50676053 GAATTTTGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
50 2 0.03
51 57 0.95
52 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (52 bp):
AAGGAAATTGAGAAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
Found at i:50676050 original size:22 final size:22
Alignment explanation
Indices: 50676025--50676075 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
50676015 AAATATAGAT
50676025 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
50676047 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
50676069 TTGAGAG
1 TTGAGAG
50676076 GAAATATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:50676466 original size:17 final size:16
Alignment explanation
Indices: 50676433--50676471 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50676423 TTTAGCATAA
*
50676433 AAAATTGATTAATTAT
1 AAAATTGATTAAGTAT
*
50676449 AAAATTGATTCAGGTAT
1 AAAATTGATT-AAGTAT
50676466 AAAATT
1 AAAATT
50676472 TTGTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (16 bp):
AAAATTGATTAAGTAT
Found at i:50684002 original size:23 final size:22
Alignment explanation
Indices: 50683963--50684007 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
50683953 AATTATTTTG
*
50683963 GATGTTCATGACTTTGGTATAAT
1 GATGTTAATGACTTTGG-ATAAT
50683986 GATGTTAATGA-TGTTGGATAAT
1 GATGTTAATGACT-TTGGATAAT
50684008 TTGGCATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.42
Consensus pattern (22 bp):
GATGTTAATGACTTTGGATAAT
Found at i:50691506 original size:27 final size:26
Alignment explanation
Indices: 50691464--50691850 Score: 220
Period size: 27 Copynumber: 14.4 Consensus size: 26
50691454 CCCTAAAATA
*
50691464 GGTATAATGACCGTAATACCTCTATAG
1 GGTA-AATGACCGTAATACCCCTATAG
* * *
50691491 GGTGAAGTGATCGTAATGCCCCTATAG
1 GGT-AAATGACCGTAATACCCCTATAG
*
50691518 GGTAAAATGACCGTAATGCCCCTATAG
1 GGT-AAATGACCGTAATACCCCTATAG
* * *
50691545 GATAAAATGATCGTAATACCCCTGTAG
1 GGT-AAATGACCGTAATACCCCTATAG
*
50691572 GGTAAATGACCGTAATGA-CCCTGTAG
1 GGTAAATGACCGTAAT-ACCCCTATAG
** * *
50691598 GGTAAATGACCGTAATGTCGCTATAA
1 GGTAAATGACCGTAATACCCCTATAG
** * * * *
50691624 GGTAAAATGACTATAATGCCCTTGTAT
1 GGT-AAATGACCGTAATACCCCTATAG
* *
50691651 GGTAAAATGATCGTAATGCCCCTATAG
1 GGT-AAATGACCGTAATACCCCTATAG
* * * *
50691678 GGTAAAATGATCGTAATGCCCTTGTAG
1 GGT-AAATGACCGTAATACCCCTATAG
* * ** *
50691705 GTTAAAATGACTGTAACGCCCCTGTAG
1 GGT-AAATGACCGTAATACCCCTATAG
** * *
50691732 GGTAAAATGACCGTAACGCCGCTGTAG
1 GGT-AAATGACCGTAATACCCCTATAG
** * *
50691759 GGTAAAATGACTTTAATGCCCCTGTAG
1 GGT-AAATGACCGTAATACCCCTATAG
* * * **
50691786 GGTAAAATAACCTTAATGCCCCCGTAG
1 GGT-AAATGACCGTAATACCCCTATAG
* *
50691813 GGTAAAATGATCGTAA-AGCCCCTGTAG
1 GGT-AAATGACCGTAATA-CCCCTATAG
50691840 GGTAAAATGAC
1 GGT-AAATGAC
50691851 TATTTTACCC
Statistics
Matches: 302, Mismatches: 53, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
26 44 0.15
27 257 0.85
28 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (26 bp):
GGTAAATGACCGTAATACCCCTATAG
Found at i:50691543 original size:54 final size:54
Alignment explanation
Indices: 50691464--50691850 Score: 440
Period size: 54 Copynumber: 7.2 Consensus size: 54
50691454 CCCTAAAATA
* * * * * * *
50691464 GGTATAATGACCGTAATACCTCTATAGGGTGAAGTGATCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
* * *
50691518 GGTAAAATGACCGTAATGCCCCTATAGGATAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
* * * * * *
50691572 GGT-AAATGACCGTAATGACCCTGTAGGGT-AAATGACCGTAATGTCGCTATAA
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
** * * *
50691624 GGTAAAATGACTATAATGCCCTTGTATGGTAAAATGATCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
* * * *
50691678 GGTAAAATGATCGTAATGCCCTTGTAGGTTAAAATGA-CTGTAACGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATC-GTAATGCCCCTGTAG
* * *
50691732 GGTAAAATGACCGTAACGCCGCTGTAGGGTAAAATGA-CTTTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATC-GTAATGCCCCTGTAG
* * * *
50691786 GGTAAAATAACCTTAATGCCCCCGTAGGGTAAAATGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
50691840 GGTAAAATGAC
1 GGTAAAATGAC
50691851 TATTTTACCC
Statistics
Matches: 281, Mismatches: 48, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
52 20 0.07
53 45 0.16
54 215 0.77
55 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (54 bp):
GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
Found at i:50691715 original size:81 final size:80
Alignment explanation
Indices: 50691462--50691850 Score: 426
Period size: 81 Copynumber: 4.8 Consensus size: 80
50691452 AACCCTAAAA
* * * * * * * *
50691462 TAGGTATAATGACCGTAATACCTCTATAGGGTGAAGTGATCGTAATGCCCCTATAGGGTAAAATG
1 TAGGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATG
*
50691527 ACCGTAATGCCCCTA
66 ACCGTAATGCCCCTG
* * *
50691542 TAGGATAAAATGA-TCGTAATACCCCTGTAGGGT-AAATGACCGTAATGACCCTGTAGGGT-AAA
1 TAGG-TAAAATGACT-GTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAA
* * *
50691604 TGACCGTAATGTCGCTA
64 TGACCGTAATGCCCCTG
* * * *
50691621 TAAGGTAAAATGACTATAATGCCCTTGTATGGTAAAATGATCGTAATGCCCCTATAGGGTAAAAT
1 T-AGGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAAT
* *
50691686 GATCGTAATGCCCTTG
65 GACCGTAATGCCCCTG
* * * *
50691702 TAGGTTAAAATGACTGTAACGCCCCTGTAGGGTAAAATGACCGTAACGCCGCTGTAGGGTAAAAT
1 TAGG-TAAAATGACTGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAAT
**
50691767 GACTTTAATGCCCCTG
65 GACCGTAATGCCCCTG
* * *
50691783 TAGGGTAAAATAACCT-TAATGCCCCCGTAGGGTAAAATGATCGTAAAGCCCCTGTAGGGTAAAA
1 TA-GGTAAAATGA-CTGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAA
50691847 TGAC
64 TGAC
50691851 TATTTTACCC
Statistics
Matches: 260, Mismatches: 40, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
79 41 0.16
80 56 0.22
81 159 0.61
82 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (80 bp):
TAGGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATG
ACCGTAATGCCCCTG
Found at i:50691944 original size:24 final size:24
Alignment explanation
Indices: 50691868--50692001 Score: 124
Period size: 24 Copynumber: 5.6 Consensus size: 24
50691858 CCCTTTAGGG
* **
50691868 TTAAATGATTGATTTACCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
** * *
50691892 GCAAATGAATGATTTGTCTGAGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * *
50691916 GTAAAAGACTGATTTGTCAGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* *
50691940 TTAAATGACTAATTTTTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* *
50691964 TTAAATGATTGATTTTTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
**
50691988 TTGTATGACTGATT
1 TTAAATGACTGATT
50692002 CTGTGCATGG
Statistics
Matches: 89, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.44
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:50692194 original size:32 final size:32
Alignment explanation
Indices: 50692149--50692348 Score: 240
Period size: 32 Copynumber: 6.3 Consensus size: 32
50692139 GCGATGCTAT
* *
50692149 TGATGGCTTTGTGCCGATCATATTACCATTAT
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
50692181 TGATGGGTGTGTGCCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
50692213 TGATGGCTATGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * * *
50692245 TAATGGCTTTGTGTCAATCATACTACTATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
50692277 TGATGGCTGTGTACCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
50692309 TGATGGCTTTGTGCCAATCATATTACT-GTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
50692340 TTATGGCTT
1 TGATGGCTT
50692349 GTAGCCATTT
Statistics
Matches: 143, Mismatches: 25, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
31 11 0.08
32 132 0.92
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTATTAC
Found at i:50692315 original size:96 final size:95
Alignment explanation
Indices: 50692151--50692348 Score: 270
Period size: 96 Copynumber: 2.1 Consensus size: 95
50692141 GATGCTATTG
* * * * * *
50692151 ATGGCTTTGTGCCGATCATATTACCATTATTGATGGGTGTGTGCCGATCATATTACCATTACTGA
1 ATGGCTTTGTGCCAATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGA
*
50692216 TGGCTATGTGCCGATCATATTACTACTACTA
66 TGGCTATGTGCCAATCATATTACT-CTACTA
* * *
50692247 ATGGCTTTGTGTCAATCATACTACTATTACTGATGGCTGTGTACCGATCATATTACTACTACTGA
1 ATGGCTTTGTGCCAATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGA
* * *
50692312 TGGCTTTGTGCCAATCATATTACTGTACTT
66 TGGCTATGTGCCAATCATATTACTCTACTA
50692342 ATGGCTT
1 ATGGCTT
50692349 GTAGCCATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 11 0.12
96 78 0.88
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (95 bp):
ATGGCTTTGTGCCAATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGA
TGGCTATGTGCCAATCATATTACTCTACTA
Found at i:50694468 original size:34 final size:36
Alignment explanation
Indices: 50694389--50694511 Score: 144
Period size: 34 Copynumber: 3.5 Consensus size: 36
50694379 TGATATTCTT
* ** *
50694389 ATTCGCATGTTAAGCATGCTATTA-AGCTGACTTTG
1 ATTCGCATGTTAAGCATGCCATTATTTCTGATTTTG
* * *
50694424 ACTCGCATGTTAAGCATGCC-TT-TTTTTTATTTTG
1 ATTCGCATGTTAAGCATGCCATTATTTCTGATTTTG
* *
50694458 ATTCGTATGTTAAGCATGCCATTATTTCTGATTATG
1 ATTCGCATGTTAAGCATGCCATTATTTCTGATTTTG
50694494 ATTCGCATGTTAAGCATG
1 ATTCGCATGTTAAGCATG
50694512 TCACTCTGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
34 26 0.36
35 20 0.28
36 26 0.36
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (36 bp):
ATTCGCATGTTAAGCATGCCATTATTTCTGATTTTG
Found at i:50706116 original size:27 final size:27
Alignment explanation
Indices: 50706085--50706196 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 27
50706075 GAGTTCACCG
*
50706085 CAAAGGCTATTCTTTTAGAGTTTGCCG
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
* *
50706112 TAAAGGCTATTCTTTCAGAGTTTGCCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
*
50706139 CAAAGGCTATTCTTTTAGAGTTTTCCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
* * * * **
50706166 TAATGACTATT-TTTCAGAGTTCACCA
1 CAAAGGCTATTCTTTTAGAGTTTGCCA
50706192 CAAAG
1 CAAAG
50706197 AAATTTTTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 15 0.21
27 56 0.79
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
CAAAGGCTATTCTTTTAGAGTTTGCCA
Found at i:50706154 original size:54 final size:53
Alignment explanation
Indices: 50706072--50706196 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 53
50706062 GGTAGTCCAC
* * *
50706072 TCAGAGTTCACCGCAAAGGCTATTCTTTTAGAGTTTGCCGTAAAGGCTATTCTT
1 TCAGAGTTCACCACAAAGGCTATTCTTTTAGAGTTTGCCATAAAGACTATT-TT
** * *
50706126 TCAGAGTTTGCCACAAAGGCTATTCTTTTAGAGTTTTCCATAATGACTATTTT
1 TCAGAGTTCACCACAAAGGCTATTCTTTTAGAGTTTGCCATAAAGACTATTTT
50706179 TCAGAGTTCACCACAAAG
1 TCAGAGTTCACCACAAAG
50706197 AAATTTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
53 18 0.29
54 44 0.71
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (53 bp):
TCAGAGTTCACCACAAAGGCTATTCTTTTAGAGTTTGCCATAAAGACTATTTT
Found at i:50706208 original size:53 final size:54
Alignment explanation
Indices: 50706072--50706250 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
50706062 GGTAGTCCAC
* * ** * * * *
50706072 TCAGAGTTCACCGCAAAGGCTATTCTTTTAGAGTTTGCCGTAAAGGCTATTCTT
1 TCAGAGTTCGCCACAAAGAATATTCTTTTAGAGTTTACCATAATGACTATTCTT
* ** *
50706126 TCAGAGTTTGCCACAAAGGCTATTCTTTTAGAGTTTTCCATAATGACTATT-TT
1 TCAGAGTTCGCCACAAAGAATATTCTTTTAGAGTTTACCATAATGACTATTCTT
* * * * *
50706179 TCAGAGTTCACCACAAAGAA-ATTTTTTTTAGAGTTCACCACAATGAATATTCTT
1 TCAGAGTTCGCCACAAAGAATA-TTCTTTTAGAGTTTACCATAATGACTATTCTT
* *
50706233 TCAAAGTTCGCCAAAAAG
1 TCAGAGTTCGCCACAAAG
50706251 GCTTACAAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
52 1 0.01
53 42 0.40
54 61 0.59
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (54 bp):
TCAGAGTTCGCCACAAAGAATATTCTTTTAGAGTTTACCATAATGACTATTCTT
Found at i:50706240 original size:27 final size:26
Alignment explanation
Indices: 50706167--50706241 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
50706157 AGTTTTCCAT
*
50706167 AATGACTATTTTTCAGAGTTCACCAC
1 AATGAATATTTTTCAGAGTTCACCAC
* * *
50706193 AAAGAAATTTTTTTTAGAGTTCACCAC
1 AATG-AATATTTTTCAGAGTTCACCAC
*
50706220 AATGAATATTCTTTCAAAGTTC
1 AATGAATATT-TTTCAGAGTTC
50706242 GCCAAAAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 8 0.21
27 31 0.79
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (26 bp):
AATGAATATTTTTCAGAGTTCACCAC
Found at i:50708627 original size:27 final size:27
Alignment explanation
Indices: 50708597--50708700 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 27
50708587 AAGGTTTATT
* *
50708597 ATACTTACCATTCCTTCAGAGTTCACC
1 ATACATACTATTCCTTCAGAGTTCACC
* * * *
50708624 ATACATAGTATCCCTTTAGTGTTCACC
1 ATACATACTATTCCTTCAGAGTTCACC
* * **
50708651 ACACATACTATTCCTTCAGTGTTTGCC
1 ATACATACTATTCCTTCAGAGTTCACC
* * *
50708678 ACACATACTATACCTTTAGAGTT
1 ATACATACTATTCCTTCAGAGTT
50708701 ATTCGAGAAC
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.36
Consensus pattern (27 bp):
ATACATACTATTCCTTCAGAGTTCACC
Found at i:50708906 original size:54 final size:54
Alignment explanation
Indices: 50708811--50708967 Score: 178
Period size: 54 Copynumber: 2.9 Consensus size: 54
50708801 CTATTTTCAT
* * * *
50708811 TTGCCACAAGGGTTTTCC-TTTCCTTAGATCACCACAAAGGCTTCTAGTTT-ATAGA
1 TTGCCACAAAGG-TTTCCATTT-CATAGATCGCCACAAAGGCTTCCA-TTTAATAGA
* *
50708866 TTGCCACAAAGGCTTT-CAGTTT-GTAGATCGCCACAAAGGCTTCCATTTAATAGG
1 TTGCCACAAAGG-TTTCCA-TTTCATAGATCGCCACAAAGGCTTCCATTTAATAGA
*
50708920 TTGCCACAAAGGTTTCCATTTCATAGATTGCCACAAAGGCTTCCATTT
1 TTGCCACAAAGGTTTCCATTTCATAGATCGCCACAAAGGCTTCCATTT
50708968 CCTGGCGTGT
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
53 9 0.10
54 63 0.71
55 14 0.16
56 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (54 bp):
TTGCCACAAAGGTTTCCATTTCATAGATCGCCACAAAGGCTTCCATTTAATAGA
Found at i:50708968 original size:27 final size:26
Alignment explanation
Indices: 50708842--50708967 Score: 162
Period size: 27 Copynumber: 4.7 Consensus size: 26
50708832 CCTTAGATCA
*
50708842 CCACAAAGGCTTCTAGTTTATAGATTG
1 CCACAAAGGCTTCCA-TTTATAGATTG
* * *
50708869 CCACAAAGGCTTTCAGTTTGTAGATCG
1 CCACAAAGGCTTCCA-TTTATAGATTG
*
50708896 CCACAAAGGCTTCCATTTAATAGGTTG
1 CCACAAAGGCTTCCATTT-ATAGATTG
*
50708923 CCACAAAGGTTTCCATTTCATAGATTG
1 CCACAAAGGCTTCCATTT-ATAGATTG
50708950 CCACAAAGGCTTCCATTT
1 CCACAAAGGCTTCCATTT
50708968 CCTGGCGTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.03
27 83 0.97
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (26 bp):
CCACAAAGGCTTCCATTTATAGATTG
Found at i:50721456 original size:51 final size:51
Alignment explanation
Indices: 50721278--50721616 Score: 262
Period size: 51 Copynumber: 6.7 Consensus size: 51
50721268 TATCATTCGA
* * * *
50721278 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTAT-CGG
* * * *
50721327 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTGTACGG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTAT-CGG
* * *
50721377 CT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGG
1 -TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTATCGG
* * * * * ** * * *
50721428 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAGATTACCGA
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTATCGG
* * * *
50721479 TACACGTAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTTCTCGG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTATCGG
* * * * * *
50721530 TACATATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGA
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTATCGG
* * * *
50721581 TACACGTAGTAGCCTCCACACAGTACTACTCACGTG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTG
50721617 TTCATCGACA
Statistics
Matches: 232, Mismatches: 50, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
49 38 0.16
50 45 0.19
51 144 0.62
52 5 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTATCGG
Found at i:50721514 original size:102 final size:101
Alignment explanation
Indices: 50721275--50721616 Score: 381
Period size: 102 Copynumber: 3.4 Consensus size: 101
50721265 TTCTATCATT
* * * * *
50721275 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * * *
50721337 AGCCTTCACATAGTACTACACACGTGATCAAGTTGTAC
65 AGCCTTCACTTAGTACTACACATGTGACCTAGTT-TAC
* * * * * *
50721375 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
* *
50721439 GCCTTCACTTAGTACTACACATGTAACCGTAGATTAC
66 GCCTTCACTTAGTACTACACATGTGACC-TAGTTTAC
* * *
50721476 CGATACACGTAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTTCTCGGTACATATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACATAGT
*
50721540 AGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
65 AGCCTTCACTTAGTACTACACATGTGACC--TAGTTTAC
* *
50721578 CGATACACGTAGTAGCCTCCACACAGTACTACTCACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
50721617 TTCATCGACA
Statistics
Matches: 204, Mismatches: 31, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 41 0.20
102 124 0.61
103 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCTAGTTTAC
Found at i:50721593 original size:153 final size:149
Alignment explanation
Indices: 50721273--50721615 Score: 361
Period size: 153 Copynumber: 2.3 Consensus size: 149
50721263 ATTTCTATCA
* * * *
50721273 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTTCACGTAGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGTATTACAGTACACGTAGTA
* * * *
50721338 GCCTTCACATAGTACTACACACGTGATCAAGTTGTACGGCTCACGTAGTAGCCTTCACATAGTAC
66 GCATTCACACAGTACTACACACGTGATCAAGTTCTACGGCTCACATAGTAGCCTTCACATAGTAC
*
50721403 TACATACGTGACCAAAGCTT
131 TACACACGTGACCAAA-CTT
* * * * * * *
50721423 TTCGGTACCCATTGTAGCCTTCACTTAGTACTACACATGTAACC-GTAGATTACCGATACACGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGT--ATTACAG-TACACGTA
* * *
50721487 GTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCT-CGG-TACATATAGTAGCCTTCACT
63 GTAGCATTCACACAGTACTACACACGTGATC-AAG-TTCTACGGCT-CACATAGTAGCCTTCACA
* *
50721550 TAGTACTACACATGTGACCATTA-TT
125 TAGTACTACACACGTGACCA-AACTT
* * *
50721575 TATCGATACACGTAGTAGCCTCCACACAGTACTACTCACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
50721616 GTTCATCGAC
Statistics
Matches: 155, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
149 2 0.01
150 36 0.23
151 5 0.03
152 39 0.25
153 69 0.45
154 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (149 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGTATTACAGTACACGTAGTA
GCATTCACACAGTACTACACACGTGATCAAGTTCTACGGCTCACATAGTAGCCTTCACATAGTAC
TACACACGTGACCAAACTT
Found at i:50728967 original size:49 final size:50
Alignment explanation
Indices: 50728904--50729037 Score: 216
Period size: 50 Copynumber: 2.7 Consensus size: 50
50728894 TCATTCGATA
*
50728904 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGCT
* * *
50728953 TACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGCT
*
50729003 CACGTAGTAGCCTTCACATAGTACTACATACGTGA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA
50729038 CCAAAGCTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 35 0.45
50 42 0.55
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGCT
Found at i:50729016 original size:50 final size:49
Alignment explanation
Indices: 50728904--50729240 Score: 234
Period size: 51 Copynumber: 6.7 Consensus size: 49
50728894 TCATTCGATA
*
50728904 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTAC-GGT
* *
50728953 TACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG-T
* *
50729003 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGGT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGT
* * * * * * * * * *
50729053 ACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAG-ATTACCGAT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTA-CGGT
* * * * *
50729104 ACACATAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCT-CGGT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGT
* * * * * * * *
50729155 ACACATAGTATCCTTCACTTAGTACTATACATGTGA-CCATTATTTATCGAT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGT
* * *
50729206 ACACGTAGTAGCCTCCACACAGTACTACTCACGTG
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTG
50729241 TTCATCGACA
Statistics
Matches: 225, Mismatches: 51, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.00
49 41 0.18
50 44 0.20
51 134 0.60
52 4 0.02
53 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGT
Found at i:50729138 original size:102 final size:101
Alignment explanation
Indices: 50728899--50729240 Score: 363
Period size: 102 Copynumber: 3.4 Consensus size: 101
50728889 TTTTATCATT
* * * ** *
50728899 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTTTACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * *
50728961 AGCCTTCACATAGTACTACACATGTGATCAAGTTTTAC
65 AGCCTTCACTTAGTACTACACATGTGACCTAG-TTTAC
* * * * * *
50728999 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
* *
50729063 GCCTTCACTTAGTACTACACATGTAACCGTAGATTAC
66 GCCTTCACTTAGTACTACACATGTGACC-TAGTTTAC
* * *
50729100 CGATACACATAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTTCTCGGTACACATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACATAGT
* * *
50729164 ATCCTTCACTTAGTACTATACATGTGACCATTA-TTTAT
65 AGCCTTCACTTAGTACTACACATGTGACC--TAGTTTAC
* *
50729202 CGATACACGTAGTAGCCTCCACACAGTACTACTCACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
50729241 TTCATCGACA
Statistics
Matches: 201, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 42 0.21
102 120 0.60
103 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCTAGTTTAC
Found at i:50731880 original size:20 final size:20
Alignment explanation
Indices: 50731852--50731890 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50731842 AGAATGTCTT
50731852 AATTAGAATCTCTAAAAATC
1 AATTAGAATCTCTAAAAATC
* *
50731872 AATTGGAATCTCTTAAAAT
1 AATTAGAATCTCTAAAAAT
50731891 ACTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTAGAATCTCTAAAAATC
Found at i:50734613 original size:18 final size:18
Alignment explanation
Indices: 50734575--50734614 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50734565 AACTGCTGCG
*
50734575 GCTGCAATTGCAATTGCT
1 GCTGCAATTGCAAATGCT
* *
50734593 GCTGCAGTTGCAAATGTT
1 GCTGCAATTGCAAATGCT
50734611 GCTG
1 GCTG
50734615 TTGCTGGGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (18 bp):
GCTGCAATTGCAAATGCT
Found at i:50752742 original size:28 final size:27
Alignment explanation
Indices: 50752710--50752764 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
50752700 AAAAATAATT
*
50752710 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
50752738 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
50752765 TGAATTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:50753414 original size:13 final size:13
Alignment explanation
Indices: 50753396--50753421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50753386 CGAAACCATA
50753396 ATTATAATAATTT
1 ATTATAATAATTT
50753409 ATTATAATAATTT
1 ATTATAATAATTT
50753422 CGATAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:50764581 original size:15 final size:15
Alignment explanation
Indices: 50764563--50764618 Score: 94
Period size: 15 Copynumber: 3.7 Consensus size: 15
50764553 ATTATCGGAG
*
50764563 GTGGTGCATACGTTA
1 GTGGTGGATACGTTA
50764578 GTGGTGGATACGTTA
1 GTGGTGGATACGTTA
*
50764593 GTGGCGGATACGTTA
1 GTGGTGGATACGTTA
50764608 GTGGTGGATAC
1 GTGGTGGATAC
50764619 ATCGGTGTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.20, C:0.11, G:0.39, T:0.30
Consensus pattern (15 bp):
GTGGTGGATACGTTA
Found at i:50768051 original size:18 final size:19
Alignment explanation
Indices: 50768028--50768063 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
50768018 ATTATTTTTC
50768028 TAATAAATATCT-TTTAAA
1 TAATAAATATCTATTTAAA
50768046 TAATAAATATCTATTTAA
1 TAATAAATATCTATTTAA
50768064 TATACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATAAATATCTATTTAAA
Found at i:50768072 original size:19 final size:18
Alignment explanation
Indices: 50768032--50768074 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
50768022 TTTTTCTAAT
*
50768032 AAATATCTTTTAAATAAT
1 AAATATCTTTTAAATAAC
50768050 AAATATCTATTT-AATATAC
1 AAATATCT-TTTAAATA-AC
50768069 AAATAT
1 AAATAT
50768075 AAATATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATCTTTTAAATAAC
Found at i:50770226 original size:27 final size:27
Alignment explanation
Indices: 50770196--50770250 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
50770186 GAGCTTCACT
* * *
50770196 AGTTGGTTTAGCTAGTTGGGGTATGCC
1 AGTTAGTTTAGCGAGCTGGGGTATGCC
* *
50770223 AGTTAGTTTGGCGAGCTGGGGTTTGCC
1 AGTTAGTTTAGCGAGCTGGGGTATGCC
50770250 A
1 A
50770251 TTATAAGTCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.13, G:0.38, T:0.35
Consensus pattern (27 bp):
AGTTAGTTTAGCGAGCTGGGGTATGCC
Found at i:50782080 original size:27 final size:26
Alignment explanation
Indices: 50782050--50782137 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 26
50782040 ATTTGGAAAA
50782050 CTGGGATTTGCCAGTTAATTTGGTGAG
1 CTGGG-TTTGCCAGTTAATTTGGTGAG
* *
50782077 CTGGGTTTCACCAATTAATTTGGTGAG
1 CTGGGTTT-GCCAGTTAATTTGGTGAG
* * **
50782104 CTAGGCTTCGCCAGTTTGTTTGGTGAG
1 CT-GGGTTTGCCAGTTAATTTGGTGAG
50782131 CTAGGGT
1 CT-GGGT
50782138 CTACTAATGA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
26 3 0.06
27 43 0.86
28 4 0.08
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.36
Consensus pattern (26 bp):
CTGGGTTTGCCAGTTAATTTGGTGAG
Found at i:50782151 original size:54 final size:54
Alignment explanation
Indices: 50782059--50782180 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 54
50782049 ACTGGGATTT
* * * **
50782059 GCCAGTTAATTTGGTGAGCTGGGTTTCACCAATTAATTTGGTGAGCTAGGCTTC
1 GCCAGTTAGTTTGGTGAGCTGGGTCTCACCAATGAATTTGGCAAGCTAGGCTTC
* * * *
50782113 GCCAGTTTGTTTGGTGAGCTAGGGTCT-ACTAATGAATTTGGCAAGCTGGGGTTC
1 GCCAGTTAGTTTGGTGAGCT-GGGTCTCACCAATGAATTTGGCAAGCTAGGCTTC
* *
50782167 GCTAGTTGGTTTGG
1 GCCAGTTAGTTTGG
50782181 CGAGTTATGG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 51 0.91
55 5 0.09
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.35
Consensus pattern (54 bp):
GCCAGTTAGTTTGGTGAGCTGGGTCTCACCAATGAATTTGGCAAGCTAGGCTTC
Found at i:50782253 original size:27 final size:27
Alignment explanation
Indices: 50782189--50782253 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
50782179 GGCGAGTTAT
*
50782189 GGTTCACCAGATAGCTTAGCAAGCTAG
1 GGTTCACCAGTTAGCTTAGCAAGCTAG
*
50782216 GGTTCACCAGTTGGCTTAGCGAA-CTAG
1 GGTTCACCAGTTAGCTTAGC-AAGCTAG
50782243 GGTTCACCAGT
1 GGTTCACCAGT
50782254 ATAAAACGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (27 bp):
GGTTCACCAGTTAGCTTAGCAAGCTAG
Found at i:50787727 original size:23 final size:26
Alignment explanation
Indices: 50787677--50787735 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
50787667 AAAATTCTAC
50787677 GACAAA-AAATATAAATTATAATGTAAA
1 GACAAATAAATATAAATTATAA--TAAA
50787704 GA-AAATAAATATAAA-TATAA-AAA
1 GACAAATAAATATAAATTATAATAAA
50787727 GACAAATAA
1 GACAAATAA
50787736 GTGTTGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 5 0.17
24 6 0.20
26 8 0.27
27 11 0.37
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (26 bp):
GACAAATAAATATAAATTATAATAAA
Found at i:50792114 original size:6 final size:6
Alignment explanation
Indices: 50792103--50792143 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
50792093 CATGTCTCAA
* * *
50792103 AAAATG AAAATG AAAATG AAAATG GAAATG GAAATG GAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
50792144 TTACAATCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:50800665 original size:13 final size:13
Alignment explanation
Indices: 50800647--50800677 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
50800637 CTGTTTTGTG
50800647 TTTTATTTATTTA
1 TTTTATTTATTTA
50800660 TTTTATTTATTTA
1 TTTTATTTATTTA
50800673 TTTTA
1 TTTTA
50800678 AACTATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTATTTA
Done.