Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 16 of 187
Found at i:4290292 original size:36 final size:36
Alignment explanation
Indices: 4290251--4290405 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
4290241 GGTAGCATTA
4290251 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
4290287 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
4290332 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
4290369 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
4290405 G
1 G
4290406 TTAGCCTTAG
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 65 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:4290323 original size:82 final size:81
Alignment explanation
Indices: 4290206--4290540 Score: 442
Period size: 82 Copynumber: 4.0 Consensus size: 81
4290196 GGTAGCATTA
* *
4290206 GCTACACTTATCTAATC-AGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
4290270 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
*
4290287 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
4290352 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
4290369 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAA
*
4290434 GTGAGAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
* *
4290454 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTGGCTACACTTATCT
1 -G-C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
4290519 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
4290540 G
1 G
4290541 ATCATATGTA
Statistics
Matches: 227, Mismatches: 15, Indels: 20
0.87 0.06 0.08
Matches are distributed among these distances:
81 16 0.07
82 135 0.59
83 1 0.00
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 3 0.01
91 19 0.08
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:4290338 original size:46 final size:45
Alignment explanation
Indices: 4290287--4290540 Score: 332
Period size: 46 Copynumber: 5.8 Consensus size: 45
4290277 AGTGATAAGT
*
4290287 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTA
*
4290333 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTA
*
4290373 --T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTA
*
4290415 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTA
* * *
4290461 GCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTA
*
4290506 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
4290541 ATCATATGTA
Statistics
Matches: 186, Mismatches: 12, Indels: 23
0.84 0.05 0.10
Matches are distributed among these distances:
36 28 0.15
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 14 0.08
44 6 0.03
45 18 0.10
46 110 0.59
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (45 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTA
Found at i:4290533 original size:128 final size:125
Alignment explanation
Indices: 4290170--4290540 Score: 411
Period size: 128 Copynumber: 2.9 Consensus size: 125
4290160 TTTGAGTACT
* * *
4290170 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTAATC-AGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
4290234 GATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
66 GATAAGTGGTAGC-CT-GCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTA
* *
4290297 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
4290362 GAT-A-----AG--TGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTA
66 GATAAGTGGTAGCCTGCTACACTTATCTGATCAAGGGA-AAAGTGAT-A-----AG---T-GCTA
4290419 CACTTA
120 CACTTA
* * * *
4290425 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
4290490 GATAAGTGGTAGCCTGGCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCCT-GCTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
4290541 ATCATATGTA
Statistics
Matches: 207, Mismatches: 16, Indels: 44
0.78 0.06 0.16
Matches are distributed among these distances:
117 1 0.00
118 27 0.13
119 2 0.01
122 2 0.01
124 2 0.01
125 1 0.00
126 1 0.00
127 51 0.25
128 86 0.42
129 3 0.01
134 3 0.01
135 7 0.03
136 5 0.02
137 16 0.08
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (125 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGGTAGCCTGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTA
Found at i:4291661 original size:17 final size:18
Alignment explanation
Indices: 4291641--4291675 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4291631 GGAAAGAATT
4291641 CAAAAT-CAACTGAAAAG
1 CAAAATGCAACTGAAAAG
*
4291658 CAAAATGCACCTGAAAAG
1 CAAAATGCAACTGAAAAG
4291676 GGTAAACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.20, G:0.14, T:0.11
Consensus pattern (18 bp):
CAAAATGCAACTGAAAAG
Found at i:4303991 original size:19 final size:17
Alignment explanation
Indices: 4303969--4304011 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
4303959 TAATTTAACC
*
4303969 ATTTTTATTTTATTTTTA
1 ATTTTTATTTTA-GTTTA
*
4303987 TATTTTTGTTTTAGTTTA
1 -ATTTTTATTTTAGTTTA
4304005 ATTTTTA
1 ATTTTTA
4304012 CATTCTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTTAGTTTA
Found at i:4306819 original size:40 final size:40
Alignment explanation
Indices: 4306764--4306991 Score: 384
Period size: 40 Copynumber: 5.7 Consensus size: 40
4306754 GAGCATTGGA
4306764 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
4306804 ATATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
** *
4306844 ATATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
4306884 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
4306924 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
4306964 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
4306992 ATGTGTTTGC
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:4314754 original size:40 final size:41
Alignment explanation
Indices: 4314699--4314846 Score: 167
Period size: 40 Copynumber: 3.7 Consensus size: 41
4314689 GAGCATTTGA
* *
4314699 ATTTTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TG
1 ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
* *
4314739 ATTTTATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG
1 ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
* **
4314780 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
* * ** *
4314820 -CTATGCCCGGGTTAAGACCCGAAGGCA
1 ATTTTATCCGGGCTAAGACCCGAAGGCA
4314847 ATTGTGCTTG
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 93 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
Found at i:4314836 original size:80 final size:79
Alignment explanation
Indices: 4314703--4314853 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 79
4314693 ATTTGAATTT
* * * ** * *
4314703 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCTGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGT-ATGCTATCCGGGCTAAGACCCGAAGGCAA
4314768 TTGTGCGAGTTGATA
65 TTGTGCGAGTTGATA
* *
4314783 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-TGCTATGCCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTATGCTAT--CCGGGCTAAGACCCGAAGGCA
4314847 ATTGTGC
64 ATTGTGC
4314854 TTGTGGTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
78 4 0.07
80 56 0.93
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTATGCTATCCGGGCTAAGACCCGAAGGCAAT
TGTGCGAGTTGATA
Found at i:4318916 original size:61 final size:62
Alignment explanation
Indices: 4318833--4318956 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 62
4318823 CATTTACATG
*
4318833 TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGGATTGTGTAATGATCTTAC-ATTT
1 TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
*
4318894 TCCATATGGTACGTTTTGTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
1 TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
4318956 T
1 T
4318957 TCAATGTTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 55 0.92
62 5 0.08
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (62 bp):
TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
Found at i:4322668 original size:15 final size:16
Alignment explanation
Indices: 4322643--4322672 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4322633 CCAAGTGGTT
4322643 CACTCGTTTTGAGCGA
1 CACTCGTTTTGAGCGA
4322659 CACT-GTTTTGAGCG
1 CACTCGTTTTGAGCG
4322673 GTTTGACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (16 bp):
CACTCGTTTTGAGCGA
Found at i:4324372 original size:10 final size:10
Alignment explanation
Indices: 4324342--4324375 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4324332 TATCTGCATC
*
4324342 TATCAAAAATA
1 TATC-AAAATT
4324353 TATCAAAATT
1 TATCAAAATT
4324363 TATCAAAATT
1 TATCAAAATT
4324373 TAT
1 TAT
4324376 TATAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (10 bp):
TATCAAAATT
Found at i:4324797 original size:16 final size:16
Alignment explanation
Indices: 4324776--4324814 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
4324766 AACCATGCAA
4324776 TACATTTAGATTTGCC
1 TACATTTAGATTTGCC
4324792 TACATTTAGATTTGCC
1 TACATTTAGATTTGCC
4324808 TACATTT
1 TACATTT
4324815 CTTATATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (16 bp):
TACATTTAGATTTGCC
Found at i:4326493 original size:30 final size:30
Alignment explanation
Indices: 4326437--4326494 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4326427 ATTTTAGGAT
* *
4326437 CCACACGGGCTGGACACATGCTCATGTGAG
1 CCACACGGGCTAGACACAGGCTCATGTGAG
*
4326467 CCACATGGGCTAGACACACGGC-CATGTG
1 CCACACGGGCTAGACACA-GGCTCATGTG
4326495 CCAGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.16
Consensus pattern (30 bp):
CCACACGGGCTAGACACAGGCTCATGTGAG
Found at i:4331252 original size:5 final size:6
Alignment explanation
Indices: 4331239--4331265 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4331229 AAGCATTTAG
4331239 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
4331266 GCTATCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:4337252 original size:41 final size:41
Alignment explanation
Indices: 4337207--4337409 Score: 268
Period size: 41 Copynumber: 5.0 Consensus size: 41
4337197 GGGGTTATAT
4337207 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
4337248 GACTTTTAGCGGCGTTTTACTAAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* *
4337289 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGATCT
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * * * *
4337330 G-TTTTTAGCGGCGTTTTAACAAAAAACGCCTCTATTGCTCT
1 GACTTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCC
* * *
4337371 G-TTTTTAGCGGCGTGTTAACTAAAA-CGCCGCTATTGCTC
1 GACTTTTAGCGGCGT-TTTACCAAAAGCGCCGCTATTGCTC
4337410 TGTGTTTTAC
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
40 28 0.19
41 118 0.80
42 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
Found at i:4345913 original size:44 final size:42
Alignment explanation
Indices: 4345850--4346058 Score: 196
Period size: 44 Copynumber: 4.9 Consensus size: 42
4345840 TTTTTATATG
4345850 TGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
1 TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
* *
4345891 TGAGATTTACGTGTAAGACCACGTTTAGGACGTTGGCATCAATT
1 T--GATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
* * * *
4345935 TGAAATTTACGTGTAAGACCATGTCTAGGACATCGGCATTGC-ATT
1 TG--ATTTACGTGTAAGACCACGTCTGGGACGTTGGCA-T-CAATT
* *
4345980 TGATTT-CGTATAAGACC-CTGTCTGGGACAG-TGGCATCGATACT
1 TGATTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-A-ATT
* *
4346023 TGA-TTACATGTAAGACCACGTCTGAGACGTTGGCAT
1 TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
4346059 TTTACGAGCT
Statistics
Matches: 138, Mismatches: 15, Indels: 28
0.76 0.08 0.15
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 26 0.19
43 37 0.27
44 65 0.47
45 6 0.04
46 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
Found at i:4352756 original size:45 final size:45
Alignment explanation
Indices: 4352692--4352780 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
4352682 TGAAAATTTG
4352692 GTATAAAATGATTTGGTTTTGATGCTTGTAGGGAGGACCCTTAAA
1 GTATAAAATGATTTGGTTTTGATGCTTGTAGGGAGGACCCTTAAA
4352737 GTATAAAATGATTTGGTTTTGATGCTTGTAGGGAGGACCCTTAA
1 GTATAAAATGATTTGGTTTTGATGCTTGTAGGGAGGACCCTTAA
4352781 TGGGTGGCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.09, G:0.27, T:0.36
Consensus pattern (45 bp):
GTATAAAATGATTTGGTTTTGATGCTTGTAGGGAGGACCCTTAAA
Found at i:4353633 original size:16 final size:16
Alignment explanation
Indices: 4353612--4353659 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
4353602 AAGTTTAATC
4353612 ACATCAAATTATTTTA
1 ACATCAAATTATTTTA
* ** *
4353628 ACATCAAGTT-TAATC
1 ACATCAAATTATTTTA
4353643 ACATCAAATTATTTTA
1 ACATCAAATTATTTTA
4353659 A
1 A
4353660 ACAATCATTT
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (16 bp):
ACATCAAATTATTTTA
Found at i:4353635 original size:31 final size:31
Alignment explanation
Indices: 4353599--4353659 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
4353589 CACACATGTA
4353599 ATCAAGTTTAATCACATCAAATTATTTTAAC
1 ATCAAGTTTAATCACATCAAATTATTTTAAC
4353630 ATCAAGTTTAATCACATCAAATTATTTTAA
1 ATCAAGTTTAATCACATCAAATTATTTTAA
4353660 ACAATCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (31 bp):
ATCAAGTTTAATCACATCAAATTATTTTAAC
Found at i:4353648 original size:15 final size:15
Alignment explanation
Indices: 4353599--4353649 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
4353589 CACACATGTA
4353599 ATCAAGTTTAATCAC
1 ATCAAGTTTAATCAC
* ** *
4353614 ATCAAATTATTTTAAC
1 ATCAAGTT-TAATCAC
4353630 ATCAAGTTTAATCAC
1 ATCAAGTTTAATCAC
4353645 ATCAA
1 ATCAA
4353650 ATTATTTTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (15 bp):
ATCAAGTTTAATCAC
Found at i:4357122 original size:20 final size:20
Alignment explanation
Indices: 4357097--4357134 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4357087 ACCGAGCTCT
4357097 AGCCGCACCACCCGCCCTCC
1 AGCCGCACCACCCGCCCTCC
4357117 AGCCGCACCACCCGCCCT
1 AGCCGCACCACCCGCCCT
4357135 AAGTTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.63, G:0.16, T:0.05
Consensus pattern (20 bp):
AGCCGCACCACCCGCCCTCC
Found at i:4357387 original size:37 final size:37
Alignment explanation
Indices: 4357344--4357426 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 37
4357334 GTCCGACTAT
*
4357344 CCCTACACACCATATA-GGTCATTAAATACATATCCAA
1 CCCTACACACCATATAGGGT-ATTAAATACACATCCAA
*
4357381 CCCTACACACCATATAGGGTATTAAATACCCATCCAA
1 CCCTACACACCATATAGGGTATTAAATACACATCCAA
4357418 CCCTACACA
1 CCCTACACA
4357427 ACTTTTAGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 40 0.93
38 3 0.07
ACGTcount: A:0.39, C:0.34, G:0.06, T:0.22
Consensus pattern (37 bp):
CCCTACACACCATATAGGGTATTAAATACACATCCAA
Found at i:4357694 original size:21 final size:21
Alignment explanation
Indices: 4357670--4357710 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4357660 TAATGAATAG
4357670 CAGATCATACATAACATATTT
1 CAGATCATACATAACATATTT
* *
4357691 CAGATTATACATAACGTATT
1 CAGATCATACATAACATATT
4357711 ACAAATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (21 bp):
CAGATCATACATAACATATTT
Found at i:4357718 original size:21 final size:21
Alignment explanation
Indices: 4357676--4357719 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4357666 ATAGCAGATC
* *
4357676 ATACATAACATATTTCAGATT
1 ATACATAACATATTACAAATT
*
4357697 ATACATAACGTATTACAAATT
1 ATACATAACATATTACAAATT
4357718 AT
1 AT
4357720 GCTTATCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (21 bp):
ATACATAACATATTACAAATT
Found at i:4362400 original size:26 final size:26
Alignment explanation
Indices: 4362361--4362468 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
4362351 CATGGTACAT
4362361 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4362387 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4362413 TGATAATGGGTTAGGTAAAAGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4362439 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4362465 TGAT
1 TGAT
4362469 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4365848 original size:21 final size:20
Alignment explanation
Indices: 4365822--4365860 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4365812 AATGCACATG
*
4365822 ATATTAAACATGATAATAATA
1 ATATTAAACACGA-AATAATA
4365843 ATATTAAACACGAAATAA
1 ATATTAAACACGAAATAA
4365861 AATCATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (20 bp):
ATATTAAACACGAAATAATA
Found at i:4366048 original size:14 final size:13
Alignment explanation
Indices: 4366021--4366090 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
4366011 ATATGTACAT
4366021 AATAT-ATATAAA
1 AATATAATATAAA
4366033 AATATAATATTAAA
1 AATATAATA-TAAA
* *
4366047 AATAT-ATA-CAT
1 AATATAATATAAA
4366058 AATATAA-AGTTAAA
1 AATATAATA--TAAA
4366072 AATA-ATATATAAA
1 AATATA-ATATAAA
4366085 AATATA
1 AATATA
4366091 TACATGATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
11 7 0.16
12 6 0.13
13 15 0.33
14 16 0.36
15 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (13 bp):
AATATAATATAAA
Found at i:4366050 original size:37 final size:36
Alignment explanation
Indices: 4365998--4366109 Score: 134
Period size: 37 Copynumber: 3.0 Consensus size: 36
4365988 AAGGTGCATT
* * * *
4365998 AATAGTATTGAAAATATGTACATAATATATATAAAA
1 AATAATATTAAAAATATATACATAATATATATTAAA
*
4366034 ATATAATATTAAAAATATATACATAATATAAAGTTAAA
1 A-ATAATATTAAAAATATATACATAATATATA-TTAAA
* *
4366072 AATAATATATAAAAATATATACATGATATCTATTAAA
1 AATAATAT-TAAAAATATATACATAATATATATTAAA
4366109 A
1 A
4366110 GAATATACAC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 39 0.60
38 25 0.38
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (36 bp):
AATAATATTAAAAATATATACATAATATATATTAAA
Found at i:4366070 original size:25 final size:24
Alignment explanation
Indices: 4366024--4366090 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 24
4366014 TGTACATAAT
4366024 ATATATAAAAATATAATATTAAAA
1 ATATATAAAAATATAATATTAAAA
*
4366048 ATATATACATAATATAA-AGTTAAAAATA
1 ATATATA-AAAATATAATA-TT--AAA-A
4366076 ATATATAAAAATATA
1 ATATATAAAAATATA
4366091 TACATGATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 8 0.22
25 10 0.28
27 10 0.28
28 8 0.22
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (24 bp):
ATATATAAAAATATAATATTAAAA
Found at i:4366182 original size:22 final size:20
Alignment explanation
Indices: 4366157--4366201 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
4366147 AATTGAAGCT
*
4366157 AAAACTAATACTAATAATAGTA
1 AAAACTAATAAT-ATAATA-TA
4366179 AAAACTAATAATATAATATA
1 AAAACTAATAATATAATATA
4366199 AAA
1 AAA
4366202 TAAAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
22 11 0.50
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAACTAATAATATAATATA
Found at i:4366190 original size:3 final size:3
Alignment explanation
Indices: 4366162--4366335 Score: 58
Period size: 3 Copynumber: 58.0 Consensus size: 3
4366152 AAGCTAAAAC
* * *
4366162 TAA TAC TAA TAA TAG TAA AAA CTAA TAA T-A TAA T-A TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
4366205 -AA TGAA -AA TAA -AGA -AA TAA TAG TAA TAA TAC GAA GAT TAA TAA
1 TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
4366248 TAG TAA TAG TAA CAA TAA TGA TAA TATA TATG TATA TGAA TAG TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TA-A T-AA TAA TAA TAA
* **
4366297 TAA TAA TAA TAA TAC TAA -AA TAA TTAA TTT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
4366336 AGTAATTAAA
Statistics
Matches: 125, Mismatches: 33, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
2 14 0.11
3 93 0.74
4 17 0.14
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4366324 original size:21 final size:21
Alignment explanation
Indices: 4366295--4366344 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4366285 GAATAGTACT
*
4366295 AATAA-TAATAATAATACTAA
1 AATAATTAATAATAATAATAA
**
4366315 AATAATTAATTTTAATAATAA
1 AATAATTAATAATAATAATAA
*
4366336 AGTAATTAA
1 AATAATTAA
4366345 AAAAGGATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AATAATTAATAATAATAATAA
Found at i:4366869 original size:13 final size:13
Alignment explanation
Indices: 4366851--4366875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4366841 GCAGGTCCAT
4366851 CGCCGGCCACCGA
1 CGCCGGCCACCGA
4366864 CGCCGGCCACCG
1 CGCCGGCCACCG
4366876 CACGTAGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.56, G:0.32, T:0.00
Consensus pattern (13 bp):
CGCCGGCCACCGA
Found at i:4368425 original size:46 final size:45
Alignment explanation
Indices: 4368349--4368509 Score: 175
Period size: 46 Copynumber: 3.5 Consensus size: 45
4368339 AATGTAAAAC
* *
4368349 CATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGA
1 CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGT-CTAGTGTAAGA
* * *
4368396 CATGTCTGGAACATACATCGGCCTCGAGACGTAAGT-TAGTATAAGA
1 CATGTCTGGGACATGCATCGGCCTCGAGACG--AGTCTAGTGTAAGA
*
4368442 CATGTCTGGGACATGCATCGG-CTACGAGACGTGTC-AGTGTAAGA
1 CATGTCTGGGACATGCATCGGCCT-CGAGACGAGTCTAGTGTAAGA
*
4368486 CCATGTCCGGGACATGGCATCGGC
1 -CATGTCTGGGACAT-GCATCGGC
4368510 ACCTTACCCC
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 56 0.58
47 13 0.13
48 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
CATGTCTGGGACATGCATCGGCCTCGAGACGAGTCTAGTGTAAGA
Found at i:4374868 original size:25 final size:26
Alignment explanation
Indices: 4374839--4374893 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
4374829 TGAAATTCCC
4374839 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
4374864 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4374890 ATCA
1 ATCA
4374894 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4375649 original size:34 final size:35
Alignment explanation
Indices: 4375582--4375664 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
4375572 CTGGTCTGAT
*
4375582 ATGACATTCTGATATGATATATATGCTTTTGAAAAA
1 ATGACATTTTGATATGA-ATATATGCTTTTGAAAAA
*
4375618 ATGACATTTTGATATG-ATATATG-TTTATGAAAAT
1 ATGACATTTTGATATGAATATATGCTTT-TGAAAAA
* *
4375652 ATGATACTTTGAT
1 ATGACATTTTGAT
4375665 CCGAAATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 3 0.07
34 24 0.57
36 15 0.36
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.42
Consensus pattern (35 bp):
ATGACATTTTGATATGAATATATGCTTTTGAAAAA
Found at i:4378590 original size:46 final size:46
Alignment explanation
Indices: 4378520--4378829 Score: 415
Period size: 46 Copynumber: 6.9 Consensus size: 46
4378510 TTTGAAGTGA
* * * * * *
4378520 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
4378566 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
4378612 TGCCATGGTATCTTTTAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4378658 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4378703 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4378749 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4378787 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
4378830 AAGAGCACAC
Statistics
Matches: 238, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
38 33 0.14
39 1 0.00
40 2 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 50 0.21
46 147 0.62
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:4378742 original size:91 final size:91
Alignment explanation
Indices: 4378520--4378829 Score: 420
Period size: 91 Copynumber: 3.5 Consensus size: 91
4378510 TTTGAAGTGA
* * * * * *
4378520 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
** * *
4378584 CCATGGTCTTATTCTTTTCATGTCACGT
65 CCATGGTCTTACACATTTCATATCA-GT
* *
4378612 TGCCATGGTATCTTTTAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
4378677 CATGGTCTTACACATTTCATATCAGT
66 CATGGTCTTACACATTTCATATCAGT
4378703 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
4378768 CATGGTCTTACACA---C--A--GGT
66 CATGGTCTTACACATTTCATATCAGT
*
4378787 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
4378830 AAGAGCACAC
Statistics
Matches: 201, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
84 44 0.22
86 1 0.00
88 1 0.00
91 82 0.41
92 73 0.36
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGT
Found at i:4378769 original size:137 final size:130
Alignment explanation
Indices: 4378520--4378829 Score: 417
Period size: 137 Copynumber: 2.3 Consensus size: 130
4378510 TTTGAAGTGA
* * * * *
4378520 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
** * * *
4378584 CCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTTAACCATGGTCTTACACATCTC
65 CCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C
4378649 ATATCAGGT
125 --A-CAGGT
4378658 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
4378722 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
66 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
*
4378787 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
4378830 AAGAGCACAC
Statistics
Matches: 159, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
129 47 0.30
130 1 0.01
132 1 0.01
135 3 0.02
137 74 0.47
138 33 0.21
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (130 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
Found at i:4378795 original size:38 final size:38
Alignment explanation
Indices: 4378744--4378817 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
4378734 CATTTCATAT
4378744 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4378782 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
4378818 TATTTCATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:4380972 original size:11 final size:11
Alignment explanation
Indices: 4380956--4381003 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
4380946 CTTTATATAC
4380956 TAATAAAATAA
1 TAATAAAATAA
*
4380967 TAATAAAATATCT
1 TAATAAAATA--A
* *
4380980 TATTAAAATAT
1 TAATAAAATAA
4380991 TAATAAAATAA
1 TAATAAAATAA
4381002 TA
1 TA
4381004 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:4381979 original size:22 final size:22
Alignment explanation
Indices: 4381934--4381995 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
4381924 CTATAGGCCT
4381934 TAAAT-CTCAAAC-CTTAAACTA
1 TAAATCCT-AAACTCTTAAACTA
4381955 TAAATCCTAAACTCTTAAA-TCA
1 TAAATCCTAAACTCTTAAACT-A
* *
4381977 TAAACCCTAAAATCTTAAA
1 TAAATCCTAAACTCTTAAA
4381996 AATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATCCTAAACTCTTAAACTA
Found at i:4382487 original size:42 final size:42
Alignment explanation
Indices: 4382433--4382532 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
4382423 ATTTAAGTTC
*
4382433 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTTTATAAGGTTT
1 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTATAAGGTTT
* * *
4382475 AAGGTATT-GGGTATTGGGTTTAGAGTTTGGTCTATAGGGTTT
1 AAGGT-TTAGGGTATTGGGTTTAGAATTTAGTCTATAAGGTTT
*
4382517 AGGGTTTAGGGTATTG
1 AAGGTTTAGGGTATTG
4382533 TGTATTTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.04
42 47 0.92
43 2 0.04
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (42 bp):
AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTATAAGGTTT
Found at i:4382519 original size:7 final size:7
Alignment explanation
Indices: 4382509--4382582 Score: 62
Period size: 7 Copynumber: 10.4 Consensus size: 7
4382499 GTTTGGTCTA
4382509 TAGGGTT
1 TAGGGTT
4382516 TAGGGTT
1 TAGGGTT
4382523 TAGGGTAT
1 TAGGGT-T
*
4382531 T-GTGTAT
1 TAGGGT-T
*
4382538 T-TGGTT
1 TAGGGTT
4382544 TAGGGTT
1 TAGGGTT
** *
4382551 TAGTCTA
1 TAGGGTT
4382558 TAGGGTT
1 TAGGGTT
4382565 TAGGGTAT
1 TAGGGT-T
4382573 TAGGGTT
1 TAGGGTT
4382580 TAG
1 TAG
4382583 TGTATTGGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
6 2 0.04
7 43 0.80
8 9 0.17
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:4382543 original size:21 final size:22
Alignment explanation
Indices: 4382516--4382575 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
4382506 CTATAGGGTT
*
4382516 TAGGGTTTAGGGTATT-GTGTA
1 TAGGGTTTAGGGTATTAGTCTA
**
4382537 TTTGGTTTAGGGT-TTAGTCTA
1 TAGGGTTTAGGGTATTAGTCTA
4382558 TAGGGTTTAGGGTATTAG
1 TAGGGTTTAGGGTATTAG
4382576 GGTTTAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (22 bp):
TAGGGTTTAGGGTATTAGTCTA
Found at i:4382591 original size:49 final size:48
Alignment explanation
Indices: 4382470--4382593 Score: 169
Period size: 49 Copynumber: 2.5 Consensus size: 48
4382460 TAGTTTATAA
* * *
4382470 GGTTTAAGGTATTGGGTATTGGGTTTAGAGTTTGGTCTATAGGGTTTAG
1 GGTTTAGGGTATTGTGTATT-GGTTTAGAGTTTAGTCTATAGGGTTTAG
*
4382519 GGTTTAGGGTATTGTGTATTTGGTTTAGGGTTTAGTCTATAGGGTTTAG
1 GGTTTAGGGTATTGTGTA-TTGGTTTAGAGTTTAGTCTATAGGGTTTAG
4382568 GGTATTAGGGT-TTAGTGTATTGGTTT
1 GGT-TTAGGGTATT-GTGTATTGGTTT
4382594 TGGGATTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
49 54 0.79
50 14 0.21
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (48 bp):
GGTTTAGGGTATTGTGTATTGGTTTAGAGTTTAGTCTATAGGGTTTAG
Found at i:4382973 original size:83 final size:84
Alignment explanation
Indices: 4382886--4383113 Score: 273
Period size: 84 Copynumber: 2.7 Consensus size: 84
4382876 ATTGAAATGT
* *
4382886 CGTCGTTTTATTTCGCG-GGTAGT-GG-ATTTAGTGGCGCTATCTTATAAACGCCACTAATAATA
1 CGTCGTTTTATGTCGCGCGGT-GTAGGTA-TTAGTGGCGCTATCTTATAAACGCCACTAAGAATA
*
4382948 TGAAAAATCGAATGAAAACTA
64 TGAAAAACCGAATGAAAACTA
* * * *
4382969 CGTCGTTTTATGTGGCGCGGTTTAGGTATTAGTGGCGTTATCTTATAAGCGCCACTAAGAATATG
1 CGTCGTTTTATGTCGCGCGGTGTAGGTATTAGTGGCGCTATCTTATAAACGCCACTAAGAATATG
*
4383034 AGAAACCGAATGAAAACTA
66 AAAAACCGAATGAAAACTA
* * * * * * * *
4383053 CGTCGTTTTATGTGGCACGGTTTAGGAATTAGTGGCGCTATCCTAAAAACACCACAAAGAA
1 CGTCGTTTTATGTCGCGCGGTGTAGGTATTAGTGGCGCTATCTTATAAACGCCACTAAGAA
4383114 ACTGAGTTAC
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
83 16 0.13
84 109 0.87
85 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (84 bp):
CGTCGTTTTATGTCGCGCGGTGTAGGTATTAGTGGCGCTATCTTATAAACGCCACTAAGAATATG
AAAAACCGAATGAAAACTA
Found at i:4383022 original size:84 final size:84
Alignment explanation
Indices: 4382913--4383113 Score: 303
Period size: 84 Copynumber: 2.4 Consensus size: 84
4382903 GGTAGTGGAT
* *
4382913 TTAGTGGCGCTATCTTATAAACGCCACTAATAATATGAAAAATCGAATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAACTACGTCGTTTT
* *
4382978 ATGTGGCGCGGTTTAGGTA
66 ATGTGGCACGGTTTAGGAA
* * *
4382997 TTAGTGGCGTTATCTTATAAGCGCCACTAAGAATATGAGAAACCGAATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAACTACGTCGTTTT
4383062 ATGTGGCACGGTTTAGGAA
66 ATGTGGCACGGTTTAGGAA
* * * *
4383081 TTAGTGGCGCTATCCTAAAAACACCACAAAGAA
1 TTAGTGGCGCTATCTTATAAACGCCACTAAGAA
4383114 ACTGAGTTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 104 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (84 bp):
TTAGTGGCGCTATCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAACTACGTCGTTTT
ATGTGGCACGGTTTAGGAA
Found at i:4383498 original size:16 final size:16
Alignment explanation
Indices: 4383473--4383505 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4383463 GGAATGCATA
4383473 TTTCTATTGTTAATGC
1 TTTCTATTGTTAATGC
*
4383489 TTTCTGTTGTTAATGC
1 TTTCTATTGTTAATGC
4383505 T
1 T
4383506 CAGCACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (16 bp):
TTTCTATTGTTAATGC
Found at i:4385530 original size:50 final size:51
Alignment explanation
Indices: 4385463--4385569 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 51
4385453 AGATGTTAAG
* * *
4385463 TTTATATATTCTATCAATTT-GATCTTGATTTAACAAA-TTAAATCGTAATA
1 TTTATATATTCTATCAATTTAG-TCATAATTTAACAAATTTAAATCGTAACA
* * **
4385513 TTTATATATTTTGTCAATTTAGTCATAATTTAACAAATTTAGCTCGTAACA
1 TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAACA
4385564 TTTATA
1 TTTATA
4385570 CGTTATGTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 31 0.65
51 17 0.35
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (51 bp):
TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAACA
Found at i:4385995 original size:3 final size:3
Alignment explanation
Indices: 4385989--4386031 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
4385979 ATTATTATTA
4385989 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG -TTG TTG
4386032 ATTCGAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:4386474 original size:13 final size:13
Alignment explanation
Indices: 4386456--4386485 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4386446 CCACATAATA
4386456 CATAAATATATAT
1 CATAAATATATAT
4386469 CATAAATATATAT
1 CATAAATATATAT
4386482 CATA
1 CATA
4386486 TCATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:4386499 original size:9 final size:9
Alignment explanation
Indices: 4386487--4386551 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 9
4386477 TATATCATAT
*
4386487 CATAAGTTA
1 CATAACTTA
4386496 CATAACTTA
1 CATAACTTA
*
4386505 CATACCTTA
1 CATAACTTA
*
4386514 CATAAATGTA
1 CATAACT-TA
* * *
4386524 TATCA-TAA
1 CATAACTTA
4386532 CATAACTTA
1 CATAACTTA
4386541 CATAACTTA
1 CATAACTTA
4386550 CA
1 CA
4386552 AAGTTTACTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
8 4 0.09
9 35 0.80
10 5 0.11
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:4391713 original size:13 final size:14
Alignment explanation
Indices: 4391697--4391725 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4391687 TTCTAAATAT
4391697 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
4391710 TTATAATTGTTTAA
1 TTATAATTGTTTAA
4391724 TT
1 TT
4391726 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:4392476 original size:33 final size:33
Alignment explanation
Indices: 4392426--4392507 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
4392416 TTAGAATTAA
* *
4392426 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
4392459 TGTTTTTGGCTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
4392490 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
4392508 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
Found at i:4394598 original size:15 final size:14
Alignment explanation
Indices: 4394572--4394607 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4394562 GTTTGCTTCC
4394572 GTACCAATTTTGTA
1 GTACCAATTTTGTA
4394586 GTACCATATTTTGTA
1 GTACCA-ATTTTGTA
*
4394601 ATACCAA
1 GTACCAA
4394608 ATATTGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (14 bp):
GTACCAATTTTGTA
Found at i:4397795 original size:10 final size:10
Alignment explanation
Indices: 4397780--4397856 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 10
4397770 TTATTAAATT
4397780 ATTTTTTATA
1 ATTTTTTATA
4397790 A-TTTTTATA
1 ATTTTTTATA
* *
4397799 AATTATTA-A
1 ATTTTTTATA
*
4397808 TATTTTTT-GA
1 -ATTTTTTATA
*
4397818 ATTTTTTACA
1 ATTTTTTATA
4397828 TATTTTTTATA
1 -ATTTTTTATA
4397839 TATTTTTT-TA
1 -ATTTTTTATA
*
4397849 AATTTTTA
1 ATTTTTTA
4397857 GCGGAAAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 23 0.42
10 15 0.27
11 17 0.31
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:4397844 original size:20 final size:19
Alignment explanation
Indices: 4397791--4397844 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
4397781 TTTTTTATAA
*
4397791 TTTTTATAAATTATTAATAT
1 TTTTTATATATT-TTAATAT
*
4397811 TTTTTGA-ATTTTTTACATAT
1 TTTTT-ATATATTTTA-ATAT
4397831 TTTTTATATATTTT
1 TTTTTATATATTTT
4397845 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTATATATTTTAATAT
Found at i:4398403 original size:25 final size:26
Alignment explanation
Indices: 4398369--4398417 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4398359 CCGACCCGAG
*
4398369 CAAACAAAACCA-AAAACCAAAAAAA
1 CAAACAAAACAAGAAAACCAAAAAAA
*
4398394 CAAACAAAACAAGAAAATCAAAAA
1 CAAACAAAACAAGAAAACCAAAAA
4398418 TATTATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.76, C:0.20, G:0.02, T:0.02
Consensus pattern (26 bp):
CAAACAAAACAAGAAAACCAAAAAAA
Found at i:4399598 original size:21 final size:21
Alignment explanation
Indices: 4399574--4399618 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
4399564 GCTACCGAGG
4399574 GTCATAATCCAAAGACCTACA
1 GTCATAATCCAAAGACCTACA
4399595 GTCATAATCCAAAGACCTACA
1 GTCATAATCCAAAGACCTACA
4399616 GTC
1 GTC
4399619 TTCCCCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (21 bp):
GTCATAATCCAAAGACCTACA
Found at i:4405956 original size:132 final size:132
Alignment explanation
Indices: 4405746--4406789 Score: 1674
Period size: 132 Copynumber: 7.9 Consensus size: 132
4405736 ATCCTACAGA
** * * *
4405746 TCTTGTTTCCCTAAAGTTACAGTGAAGCAGATCAAAGACGGCGAATCTTGGCTTCCTGAAGTTGT
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
*
4405811 AGTGAAGCAGATTTAAGCCACAAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
4405876 AG
131 GG
* * *
4405878 TCTTGTTTCCCTGGAGTTGCAGTGAAACAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGT
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
4405943 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
4406008 GG
131 GG
* * *
4406010 TCTTGTTTCCCTAGAGTTGCAATGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGT
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
*
4406075 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCAGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
4406140 GG
131 GG
* * * *
4406142 TCTTGTTTCCCTGAAGTTGTAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGT
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* * * * *
4406207 AGTGAAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTTTAGTAGAGTAGACTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
4406272 GG
131 GG
*
4406274 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* *
4406339 AGTGAAGCAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
4406404 GA
131 GG
*
4406406 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* *
4406471 AGTGAAGAAGATTTAAGCCACCAACCTAGCTTCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
4406536 GG
131 GG
* * * * *
4406538 TCTTGTTTCCCTGCAGTTGTAGTGAAGCAAATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* * *
4406603 AGTGAAGTAGATTTAAGCTACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGATGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
4406668 GG
131 GG
* * * *
4406670 TCTTGTTTCCCTGGAGTTGTAGTGAAGCAGATCGAAGACAGCGAATCTTGGCTTCTTGAAGTTAC
1 TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
* * * *
4406735 AGTGAAGCAGATTTAAGCCACTAACCTAGCTTCCTAAAGTTATAATGGAGTAGGC
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
4406790 CGAAGATTGC
Statistics
Matches: 849, Mismatches: 63, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 849 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (132 bp):
TCTTGTTTCCCTGGAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGC
AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
GG
Found at i:4406081 original size:45 final size:45
Alignment explanation
Indices: 4406032--4406482 Score: 153
Period size: 45 Copynumber: 10.2 Consensus size: 45
4406022 AGAGTTGCAA
*
4406032 TGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
** ** * * * *
4406077 TGAAGCAGATTTAAG-CCACCAA-CCTAGCTCCCTAAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
* * * **** * *
4406120 TGGAGTAG-GCAGAA-A-TTTTAGGTCTT-GTTTCCCTGAAGTTGTAG
1 TGAAGCAGATC-GAAGACGGCGA-ATCTTAGCTT-CCTGAAGTTGTAG
* *
4406164 TGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
** * ** * * * *
4406209 TGAAGCAGATTTAAGCCATC-AA-CCTAGCTCCCTAAAGTTTTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
* * ***** * * * *
4406252 T-AGAGTAGA-CTAA-AATTTTAGGTCTT-GTTTCCCTGGAGTTGCAG
1 TGA-AGCAGATCGAAGACGGCGA-ATCTTAGCTT-CCTGAAGTTGTAG
*
4406296 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGCAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
** ** * * *
4406341 TGAAGCAGATTTAAG-CCACCAA-CCTAGCTTCCTAAAGTTGTAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
* * * * ***** * *
4406384 TGGAGTAG-GCTAA-AATTTTAGATCTT-GTTTCCCTGAAGTTGCAG
1 TGAAGCAGATCGAAGACGGCGA-ATCTTAGCTT-CCTGAAGTTGTAG
* *
4406428 TGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAG
1 TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
*
4406473 TGAAGAAGAT
1 TGAAGCAGAT
4406483 TTAAGCCACC
Statistics
Matches: 283, Mismatches: 98, Indels: 50
0.66 0.23 0.12
Matches are distributed among these distances:
41 1 0.00
42 10 0.04
43 79 0.28
44 69 0.24
45 109 0.39
46 15 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAAGCAGATCGAAGACGGCGAATCTTAGCTTCCTGAAGTTGTAG
Found at i:4407185 original size:24 final size:25
Alignment explanation
Indices: 4407158--4407205 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
4407148 CCGACCCGAG
*
4407158 CAAACAAAACCA-AAAACCAAAAAA
1 CAAACAAAACAAGAAAACCAAAAAA
*
4407182 CAAACAAAACAAGAAAATCAAAAA
1 CAAACAAAACAAGAAAACCAAAAA
4407206 TATTATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.75, C:0.21, G:0.02, T:0.02
Consensus pattern (25 bp):
CAAACAAAACAAGAAAACCAAAAAA
Found at i:4410120 original size:131 final size:131
Alignment explanation
Indices: 4409656--4410109 Score: 626
Period size: 131 Copynumber: 3.5 Consensus size: 131
4409646 AGATTTAATG
*
4409656 TTTGGCAATTAGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
* *
4409721 CAAATATCACTTCAAAATTTCATTCATGTCTTTTAAAAATCCCTTAAACGAAGGCGATATGCGAT
66 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
4409786 A
131 A
*
4409787 TTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
4409852 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
66 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
4409917 A
131 A
* * ** * *
4409918 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCACTTGTTTAAAATAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
* * * * * *
4409983 CAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACAAAGGTAATACTTG-
66 CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTT-AAACGAAGGCAATA--TGC
*
4410047 G-TG
128 GATA
* * * * * ** * *
4410050 TTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAA
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
4410110 CAATTGAATA
Statistics
Matches: 291, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
131 264 0.91
132 24 0.08
133 1 0.00
134 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
CAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATATGCGAT
A
Found at i:4422410 original size:130 final size:129
Alignment explanation
Indices: 4422178--4422437 Score: 457
Period size: 130 Copynumber: 2.0 Consensus size: 129
4422168 TTTTTGGAAT
4422178 CCCGGTAGCTCGATTAAGCTTATGTTAGCAATAATTCAACCCAAGTTTATATTTGGAAAAATACC
1 CCCGGTAGCTCGATTAAGCTTATGTTAGCAATAATTCAACCCAAGTTTATATTTGGAAAAATACC
* *
4422243 AATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTTAGA
66 AATAGGTAAAATTTGTGTATTTTGATGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGA
* *
4422307 CCCGGTAGCTCGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTATATTTGGAAAAATAC
1 CCCGGTAGCTCGATTAAGCTTATGTTAGCAATAATTCAACCCA-AGTTTATATTTGGAAAAATAC
* *
4422372 CCATAGGTAAAATTTGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGA
65 CAATAGGTAAAATTTGTGTATTTTGATGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGA
4422437 C
1 C
4422438 AACTTGTACT
Statistics
Matches: 124, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
129 42 0.34
130 82 0.66
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (129 bp):
CCCGGTAGCTCGATTAAGCTTATGTTAGCAATAATTCAACCCAAGTTTATATTTGGAAAAATACC
AATAGGTAAAATTTGTGTATTTTGATGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGA
Found at i:4426015 original size:21 final size:19
Alignment explanation
Indices: 4425991--4426039 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
4425981 TTAATTAAAA
4425991 TTAATTAATAATATTTTTATC
1 TTAATTAATAATA-TTTTA-C
**
4426012 TTAATTAATCTTATTTTAC
1 TTAATTAATAATATTTTAC
4426031 TTAATTAAT
1 TTAATTAAT
4426040 CAACATGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 5 0.19
21 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATTAATAATATTTTAC
Found at i:4426035 original size:19 final size:21
Alignment explanation
Indices: 4425991--4426041 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
4425981 TTAATTAAAA
*
4425991 TTAATTAATAATATTTTTATC
1 TTAATTAATCATATTTTTATC
*
4426012 TTAATTAATCTTA-TTTTA-C
1 TTAATTAATCATATTTTTATC
4426031 TTAATTAATCA
1 TTAATTAATCA
4426042 ACATGACCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
20 5 0.19
21 11 0.41
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTAATCATATTTTTATC
Found at i:4429583 original size:5 final size:5
Alignment explanation
Indices: 4429575--4429601 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4429565 TAGTTTACTC
4429575 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
4429602 TCCTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:4431397 original size:151 final size:150
Alignment explanation
Indices: 4431201--4431504 Score: 556
Period size: 151 Copynumber: 2.0 Consensus size: 150
4431191 TTCAAATTTA
4431201 TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
1 TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
*
4431266 TTGAATGCCTATAAAAGCCTAAAAAATA-CTGCAGAATTCTTTAAAAGACAAACAACGAATTTAT
66 TTGAATGCCTATAAAAGCCTAAAAAATACCT-CAGAATTCTTT-AAAGACAAACAACAAATTTAT
4431330 TTCACTCTCAAAAATTCTTTTC
129 TTCACTCTCAAAAATTCTTTTC
*
4431352 TTTAAAGGCTCCTTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
1 TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
*
4431417 TTGAATGCCTATAAAAGCCTAAAAAATACCTCAGAATTCTTTAAAGACAAATAACAAATTTATTT
66 TTGAATGCCTATAAAAGCCTAAAAAATACCTCAGAATTCTTTAAAGACAAACAACAAATTTATTT
4431482 CACTCTCAAAAATTCTTTTC
131 CACTCTCAAAAATTCTTTTC
4431502 TTT
1 TTT
4431505 TCCTCTCCAA
Statistics
Matches: 149, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
150 44 0.30
151 103 0.69
152 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (150 bp):
TTTAAAGGCTCATTTAATGCAAATTTGTATCTTTATTCATGGAAATTTCAAAAAATTCCTCCATT
TTGAATGCCTATAAAAGCCTAAAAAATACCTCAGAATTCTTTAAAGACAAACAACAAATTTATTT
CACTCTCAAAAATTCTTTTC
Found at i:4438390 original size:2 final size:2
Alignment explanation
Indices: 4438383--4438426 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4438373 TTATATTAAA
4438383 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4438425 AG
1 AG
4438427 TACTACATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4442940 original size:15 final size:15
Alignment explanation
Indices: 4442920--4442958 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4442910 TAACGTCAAA
4442920 TTTCTTTTCCATTCT
1 TTTCTTTTCCATTCT
**
4442935 TTTCTTTGACATTCT
1 TTTCTTTTCCATTCT
*
4442950 TCTCTTTTC
1 TTTCTTTTC
4442959 GGTAAACCTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.26, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTCTTTTCCATTCT
Found at i:4462468 original size:15 final size:14
Alignment explanation
Indices: 4462419--4462484 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
4462409 CACACATTCT
4462419 TTTCTTCTCTTTTTC
1 TTTCTT-TCTTTTTC
*
4462434 TTTATTTCTTTTTAC
1 TTTCTTTCTTTTT-C
* *
4462449 GTTCTTTCTTCTTC
1 TTTCTTTCTTTTTC
* *
4462463 TTTTCTTATCATTTTA
1 -TTTCTT-TCTTTTTC
4462479 TTTCTT
1 TTTCTT
4462485 GTTTTGCTGC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
14 8 0.20
15 27 0.68
16 5 0.12
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:4468592 original size:30 final size:30
Alignment explanation
Indices: 4468556--4468617 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
4468546 TGATTCATCC
4468556 TTGGAAAAT-AAAATAAAGAAAAGGATGA-AA
1 TTGGAAAATGAAAA-AAAGAAAA-GATGATAA
* *
4468586 TTGGAAAGTGAAAAAAATAAAAGATGATAA
1 TTGGAAAATGAAAAAAAGAAAAGATGATAA
4468616 TT
1 TT
4468618 AATTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.18
30 19 0.68
31 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (30 bp):
TTGGAAAATGAAAAAAAGAAAAGATGATAA
Found at i:4475277 original size:21 final size:19
Alignment explanation
Indices: 4475232--4475286 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
4475222 AATTAATTTT
4475232 TTAAAAATTTAAAAA-ATTC
1 TTAAAAA-TTAAAAATATTC
**
4475251 AAAAAAATATAAAAATTATTC
1 TTAAAAAT-TAAAAA-TATTC
4475272 TTAAAAATTAAAAAT
1 TTAAAAATTAAAAAT
4475287 CATTAGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 6 0.21
21 10 0.34
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAATTAAAAATATTC
Found at i:4478985 original size:10 final size:11
Alignment explanation
Indices: 4478960--4478985 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4478950 TGATCCAATT
4478960 TTTTTACTTGA
1 TTTTTACTTGA
4478971 TTTTTACTTGA
1 TTTTTACTTGA
4478982 TTTT
1 TTTT
4478986 GACAATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTTACTTGA
Found at i:4480925 original size:17 final size:17
Alignment explanation
Indices: 4480898--4480930 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4480888 TGTACTTTTA
4480898 TGAATTGTG-AATAAAG
1 TGAATTGTGAAATAAAG
4480914 TGAATATGTGAAATAAA
1 TGAAT-TGTGAAATAAA
4480931 AATGTAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
TGAATTGTGAAATAAAG
Found at i:4483116 original size:39 final size:40
Alignment explanation
Indices: 4483016--4483200 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
4483006 TTGAATGATG
* * * * *
4483016 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** * *
4483056 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
4483096 TCCGGGCTAA-CCCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
4483135 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
4483176 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCCGAAGGCATTTG
4483201 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 32 0.27
40 78 0.66
41 9 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:4491143 original size:79 final size:80
Alignment explanation
Indices: 4491008--4491231 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 80
4490998 TTGAATGATG
* * * * * *
4491008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAG-ACCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
*
4491071 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
* *
4491087 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
4491151 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* *
4491166 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
4491230 TG
65 TG
4491232 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 25 0.20
79 52 0.41
80 48 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:4491155 original size:40 final size:40
Alignment explanation
Indices: 4491008--4491231 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 40
4490998 TTGAATGATG
* * * *
4491008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
4491048 TCCGGACTAAG-ACCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4491087 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4491126 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
4491166 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
4491207 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4491232 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 57 0.35
40 105 0.64
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:4493395 original size:22 final size:24
Alignment explanation
Indices: 4493352--4493395 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
4493342 TGATAAAATG
4493352 TTTTGATATAACAAATTAAAGTAT
1 TTTTGATATAACAAATTAAAGTAT
*
4493376 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
4493396 TTAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTAT
Found at i:4498715 original size:17 final size:17
Alignment explanation
Indices: 4498693--4498745 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
4498683 ATGTTAGTTC
4498693 AAACATATGATAAATAA
1 AAACATATGATAAATAA
* **
4498710 AAACAT-T--T-ACTGT
1 AAACATATGATAAATAA
4498723 AAACATATGATAAATAA
1 AAACATATGATAAATAA
4498740 AAACAT
1 AAACAT
4498746 TTACTGTACA
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
16 2 0.08
17 14 0.54
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.26
Consensus pattern (17 bp):
AAACATATGATAAATAA
Found at i:4498729 original size:30 final size:30
Alignment explanation
Indices: 4498693--4498753 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4498683 ATGTTAGTTC
4498693 AAACATATGATAAATAAAAACATTTACTGT
1 AAACATATGATAAATAAAAACATTTACTGT
4498723 AAACATATGATAAATAAAAACATTTACTGT
1 AAACATATGATAAATAAAAACATTTACTGT
4498753 A
1 A
4498754 CAAACTACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.30
Consensus pattern (30 bp):
AAACATATGATAAATAAAAACATTTACTGT
Found at i:4500454 original size:24 final size:25
Alignment explanation
Indices: 4500422--4500474 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
4500412 CTTTGGCCAA
4500422 CAACGCTTAGGATCCCTAGCTT-AT
1 CAACGCTTAGGATCCCTAGCTTGAT
*
4500446 CAACGCTTAGGATCCTTAGCTTGAT
1 CAACGCTTAGGATCCCTAGCTTGAT
4500471 CAAC
1 CAAC
4500475 TTTCTTTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (25 bp):
CAACGCTTAGGATCCCTAGCTTGAT
Found at i:4510671 original size:40 final size:40
Alignment explanation
Indices: 4510573--4510835 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
4510563 TCCTCGTTCA
* * * ** *
4510573 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
4510612 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
4510652 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
4510692 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
4510732 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
4510772 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
4510812 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
4510836 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:4517260 original size:16 final size:16
Alignment explanation
Indices: 4517236--4517269 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4517226 CTGTGGATTA
* *
4517236 TGGGTTTTATAAAAAT
1 TGGGCTTTAAAAAAAT
4517252 TGGGCTTTAAAAAAAT
1 TGGGCTTTAAAAAAAT
4517268 TG
1 TG
4517270 ATTGATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (16 bp):
TGGGCTTTAAAAAAAT
Found at i:4522923 original size:17 final size:18
Alignment explanation
Indices: 4522901--4522934 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4522891 ATTTGGGTCA
4522901 TGTGGG-CCACACGGGCG
1 TGTGGGCCCACACGGGCG
4522918 TGTGGGCCCACACGGGC
1 TGTGGGCCCACACGGGC
4522935 AAACATCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.12, C:0.32, G:0.44, T:0.12
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCG
Found at i:4526940 original size:11 final size:11
Alignment explanation
Indices: 4526924--4526966 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4526914 CCCAAGAGAG
4526924 AAAAAGAAAAT
1 AAAAAGAAAAT
* *
4526935 AAAAAGGAAAG
1 AAAAAGAAAAT
4526946 AAAAAGAAAAT
1 AAAAAGAAAAT
* *
4526957 TAAAACAAAA
1 AAAAAGAAAA
4526967 GCCTACATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:4526967 original size:22 final size:22
Alignment explanation
Indices: 4526922--4526967 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4526912 GGCCCAAGAG
**
4526922 AGAAAAAGAAAATAAAAAGGAA
1 AGAAAAAGAAAATAAAAACAAA
*
4526944 AGAAAAAGAAAATTAAAACAAA
1 AGAAAAAGAAAATAAAAACAAA
4526966 AG
1 AG
4526968 CCTACATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (22 bp):
AGAAAAAGAAAATAAAAACAAA
Found at i:4527517 original size:42 final size:42
Alignment explanation
Indices: 4527355--4527657 Score: 389
Period size: 42 Copynumber: 7.3 Consensus size: 42
4527345 CTTCATATAC
* * **
4527355 AATGCAATGAAAAGTAAATAGACCT-CACAGTTGGGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
*
4527396 AATGCAATGAAAGGTAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
4527438 AATG-ATTGAAACGTAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
* *
4527479 AATGCAATTG-AAGGTACATGGACCTCCACACCTAGGCCTCTA
1 AATGCAA-TGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
* *
4527521 AATGCAATGAAACGTAAATAGG-CCTCCACACCTGAGCCTCTA
1 AATGCAATGAAAGGTAAAT-GGACCTCCACACCTGGGCCTCTA
* * *
4527563 AATGCAATGAAAGATAAATGGACCTCAACACCTGGGACTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
4527605 AATGCAATGAAAAGTAAATGGACCTCCACACCTTGGCCTATA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
*
4527647 ACTGCAATGAA
1 AATGCAATGAA
4527658 TGTTTTCCTT
Statistics
Matches: 230, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
41 66 0.29
42 160 0.70
43 4 0.02
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:4528080 original size:7 final size:8
Alignment explanation
Indices: 4528060--4528136 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 8
4528050 TGCTCTCTCC
4528060 CTTTTTCT
1 CTTTTTCT
4528068 CTTTTTCT
1 CTTTTTCT
4528076 CTTTTT-T
1 CTTTTTCT
4528083 -TTTGTT-T
1 CTTT-TTCT
*
4528090 CTTTTTGT
1 CTTTTTCT
*
4528098 -TTTGT-T
1 CTTTTTCT
*
4528104 GTTTTTCT
1 CTTTTTCT
4528112 -TTTTTCT
1 CTTTTTCT
4528119 -TTTTTCT
1 CTTTTTCT
* *
4528126 TTTTTTTT
1 CTTTTTCT
4528134 CTT
1 CTT
4528137 CTTTTTTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
6 4 0.07
7 28 0.47
8 27 0.46
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (8 bp):
CTTTTTCT
Found at i:4528084 original size:20 final size:19
Alignment explanation
Indices: 4528061--4528145 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
4528051 GCTCTCTCCC
*
4528061 TTTTTCTCTTTTTCTCTTTTT
1 TTTTTTTCTTTTTCTC--TTT
*
4528082 TTTTGTTTCTTTTTGT-TTT
1 TTTT-TTTCTTTTTCTCTTT
4528101 GTTGTTTTTCTTTTT-TCTTT
1 -TT-TTTTTCTTTTTCTCTTT
4528121 TTTCTTTT-TTTTTCTTCTTT
1 TTT-TTTTCTTTTTC-TCTTT
4528141 TTTTT
1 TTTTT
4528146 ATGTAGGCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
18 6 0.11
19 12 0.22
20 22 0.40
21 6 0.11
22 9 0.16
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTTTTCTTTTTCTCTTT
Found at i:4528094 original size:14 final size:14
Alignment explanation
Indices: 4528075--4528144 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 14
4528065 TCTCTTTTTC
4528075 TCTTTTTTTTTGTT
1 TCTTTTTTTTTGTT
4528089 TCTTTTTGTTTTGTT
1 TCTTTTT-TTTTGTT
* *
4528104 GTTTTTCTTTTTTCTT
1 -TCTTT-TTTTTTGTT
4528120 T-TTTCTTTTTT-TT
1 TCTTT-TTTTTTGTT
4528133 TCTTCTTTTTTT
1 TCTT-TTTTTTT
4528145 TATGTAGGCA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
13 3 0.06
14 25 0.51
15 9 0.18
16 10 0.20
17 2 0.04
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (14 bp):
TCTTTTTTTTTGTT
Found at i:4531902 original size:20 final size:18
Alignment explanation
Indices: 4531877--4531928 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
4531867 ACCTGAAAAT
4531877 AAATCAAAGTTTTCTTTAAA
1 AAATCAAAGTTTTC-TT-AA
* *
4531897 AAATCACTATTTTTCTTAA
1 AAATCA-AAGTTTTCTTAA
4531916 AAATCAAAGTTTT
1 AAATCAAAGTTTT
4531929 ATTTCGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 8 0.30
20 8 0.30
21 6 0.22
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (18 bp):
AAATCAAAGTTTTCTTAA
Found at i:4532273 original size:3 final size:3
Alignment explanation
Indices: 4532265--4532308 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4532255 ACTAGAATGC
4532265 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
4532309 TTACCTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:4532429 original size:25 final size:23
Alignment explanation
Indices: 4532408--4532450 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4532398 TTCATTTATA
4532408 AAAAAAGATAATAATAATA-TTT
1 AAAAAAGATAATAATAATATTTT
* *
4532430 AATAAAGATAATAATACTATT
1 AAAAAAGATAATAATAATATT
4532451 CATTGCAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (23 bp):
AAAAAAGATAATAATAATATTTT
Found at i:4540125 original size:32 final size:30
Alignment explanation
Indices: 4540089--4540199 Score: 95
Period size: 32 Copynumber: 3.7 Consensus size: 30
4540079 TAATTACTTT
4540089 AATATTAAATTAATATAATACTTATCAAGATA
1 AATATTAAATTAATATAATAC-TAT-AAGATA
* *
4540121 AATATTAGATTAAATTTAATA-T-TAA-AT-
1 AATATTAAATT-AATATAATACTATAAGATA
* *
4540148 ATTATTAAATTAATAAAATACTATTAAGATA
1 AATATTAAATTAATATAATACTA-TAAGATA
* *
4540179 AGTATTAAATTTAATTTAATA
1 AATATTAAA-TTAATATAATA
4540200 TTAAAACTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
26 7 0.11
27 10 0.16
28 2 0.03
29 5 0.08
30 3 0.05
31 9 0.14
32 19 0.30
33 8 0.13
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (30 bp):
AATATTAAATTAATATAATACTATAAGATA
Found at i:4540166 original size:19 final size:21
Alignment explanation
Indices: 4540129--4540174 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
4540119 TAAATATTAG
*
4540129 ATTAAATTTAATATTAAATATT
1 ATTAAATTTAATA-TAAATACT
4540151 ATTAAA-TTAATA-AAATACT
1 ATTAAATTTAATATAAATACT
4540170 ATTAA
1 ATTAA
4540175 GATAAGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAAATTTAATATAAATACT
Found at i:4540178 original size:58 final size:58
Alignment explanation
Indices: 4540091--4540217 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 58
4540081 ATTACTTTAA
* * *
4540091 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATAT
1 TATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAA-AC
* * *
4540150 TATTAAATTAATAAAATAC-TATTAAGATAAGTATTAAATTTAATTTAATATTAAAAC
1 TATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAAC
4540207 TATTAAATTAA
1 TATTAAATTAA
4540218 CATTATTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
57 12 0.19
58 32 0.52
59 18 0.29
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (58 bp):
TATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAAC
Found at i:4540529 original size:19 final size:20
Alignment explanation
Indices: 4540505--4540547 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4540495 TTCAACCAGT
*
4540505 TTTTGGGTT-TCGGTCTCAA
1 TTTTGGGTTCTCGGGCTCAA
4540524 TTTTGGGTTCTCGGGCTCAA
1 TTTTGGGTTCTCGGGCTCAA
4540544 TTTT
1 TTTT
4540548 CGATATCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.49
Consensus pattern (20 bp):
TTTTGGGTTCTCGGGCTCAA
Found at i:4543711 original size:46 final size:46
Alignment explanation
Indices: 4543642--4543734 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
4543632 AGACGACACA
* * *
4543642 ATTAGAGTTTTAGTTTTAGTTATTTTCTTTATTGTATCAGATTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGATTTTT
* *
4543688 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGATTTTT
4543734 A
1 A
4543735 ATTCCTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (46 bp):
ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGATTTTT
Found at i:4545245 original size:46 final size:46
Alignment explanation
Indices: 4545154--4545248 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
4545144 GGAGACGACA
* * *
4545154 ATTAGAGTTTTAGTTTTATATATTTTCTTTATTAAATCATATTTTT
1 ATTAGAGTTTTAGTTTTATATATTTCCTCTATTAAATCAGATTTTT
* * *
4545200 ATTAGAGTTTTAGTTTTACT-TATTTCCTCTATTATATTAGGTTTTT
1 ATTAGAGTTTTAGTTTTA-TATATTTCCTCTATTAAATCAGATTTTT
4545246 ATT
1 ATT
4545249 TCTTTTATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 41 0.98
47 1 0.02
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.60
Consensus pattern (46 bp):
ATTAGAGTTTTAGTTTTATATATTTCCTCTATTAAATCAGATTTTT
Found at i:4554739 original size:16 final size:16
Alignment explanation
Indices: 4554697--4554745 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
4554687 AGTTTTTTTA
4554697 AAATATAATATA--AT
1 AAATATAATATATTAT
*
4554711 AAATTTGAA-ATATTAT
1 AAATAT-AATATATTAT
4554727 AAATATAATATATTTAT
1 AAATATAATATA-TTAT
4554744 AA
1 AA
4554746 TGTTATGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 8 0.29
15 4 0.14
16 10 0.36
17 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATATAATATATTAT
Found at i:4555107 original size:24 final size:24
Alignment explanation
Indices: 4555056--4555108 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4555046 TTCAGTATTT
* *
4555056 ATTAGTATAATACATTTAGCATTT
1 ATTAGCATAATACATTTAGCATTG
*
4555080 ATTAGCATAATATATTT-GACATTG
1 ATTAGCATAATACATTTAG-CATTG
4555104 ATTAG
1 ATTAG
4555109 AATTATGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (24 bp):
ATTAGCATAATACATTTAGCATTG
Found at i:4558584 original size:43 final size:43
Alignment explanation
Indices: 4558510--4558594 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
4558500 CATTGGCGTC
* ** * *
4558510 GTATATGATTACGTGTAAGACCTTGTCTGGGATAGTGGCATTT
1 GTATATGATTACATGTAAGACCACGTATGGGACAGTGGCATTT
* *
4558553 GTATTTGATTACATGTAAGACCACGTATGGGACATTGGCATT
1 GTATATGATTACATGTAAGACCACGTATGGGACAGTGGCATT
4558595 GTACAAGCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (43 bp):
GTATATGATTACATGTAAGACCACGTATGGGACAGTGGCATTT
Found at i:4558941 original size:19 final size:19
Alignment explanation
Indices: 4558917--4558970 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
4558907 AATCTTCAAG
4558917 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
4558936 GATATGTAACCTTAGATAT
1 GATATGCAATCTTAGATAT
4558955 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
4558971 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4558996 original size:22 final size:22
Alignment explanation
Indices: 4558917--4558993 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 22
4558907 AATCTTCAAG
4558917 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
* *
4558936 GATATGTAACCTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
4558955 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
4558977 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
4558994 GATTTAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 28 0.61
22 6 0.13
23 12 0.26
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:4564947 original size:39 final size:40
Alignment explanation
Indices: 4564852--4565113 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
4564842 TTGAATGATG
*
4564852 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
4564890 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
4564931 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
4564970 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
4565009 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
4565048 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
4565087 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
4565114 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:4575579 original size:24 final size:24
Alignment explanation
Indices: 4575522--4575573 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4575512 TTTTTAGAAG
* **
4575522 ATTTAGTATTTATTATTATAATAT
1 ATTTAGCATTTATTAGAATAATAT
4575546 ATTTAGCATTTATTAGAATAATAT
1 ATTTAGCATTTATTAGAATAATAT
4575570 ATTT
1 ATTT
4575574 GACATTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGAATAATAT
Found at i:4575584 original size:24 final size:24
Alignment explanation
Indices: 4575539--4575585 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4575529 ATTTATTATT
*
4575539 ATAATATATTTAGCATTTATTAGA
1 ATAATATATTTAGCATTGATTAGA
4575563 ATAATATATTT-GACATTGATTAG
1 ATAATATATTTAG-CATTGATTAG
4575586 TGTTAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGA
Found at i:4575809 original size:24 final size:24
Alignment explanation
Indices: 4575782--4575831 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
4575772 TTCAGTTTTC
4575782 AACAAATTTCTAAATAATTTTAGA
1 AACAAATTTCTAAATAATTTTAGA
* *
4575806 AACATATTTTTAAATAATTTTAGA
1 AACAAATTTCTAAATAATTTTAGA
4575830 AA
1 AA
4575832 TAATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AACAAATTTCTAAATAATTTTAGA
Found at i:4575834 original size:12 final size:12
Alignment explanation
Indices: 4575793--4575835 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4575783 ACAAATTTCT
4575793 AAATAATTTTAG
1 AAATAATTTTAG
* *
4575805 AAACATATTTT-T
1 AAATA-ATTTTAG
4575817 AAATAATTTTAG
1 AAATAATTTTAG
4575829 AAATAAT
1 AAATAAT
4575836 ATATATGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.20
12 15 0.60
13 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (12 bp):
AAATAATTTTAG
Found at i:4576241 original size:27 final size:27
Alignment explanation
Indices: 4576209--4576267 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
4576199 AAATAATAAA
4576209 ATTTAA-TTTAATATTAAGATAAATATT
1 ATTTAACTTT-ATATTAAGATAAATATT
* **
4576236 ATTTAACTTTATTTTAATTTAAATATT
1 ATTTAACTTTATATTAAGATAAATATT
4576263 ATTTA
1 ATTTA
4576268 TTTTTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTTAACTTTATATTAAGATAAATATT
Found at i:4576497 original size:15 final size:15
Alignment explanation
Indices: 4576474--4576504 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4576464 AATGTTACAC
*
4576474 ACAATAATATTTAAT
1 ACAAAAATATTTAAT
4576489 ACAAAAATATTTAAT
1 ACAAAAATATTTAAT
4576504 A
1 A
4576505 ATTGATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
ACAAAAATATTTAAT
Found at i:4576677 original size:22 final size:21
Alignment explanation
Indices: 4576639--4576679 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4576629 TATTATTTGT
*
4576639 ACATTTTTGTAATTTAAATGG
1 ACATTTTTGTAAATTAAATGG
4576660 ACATTTTTGTAAAATTAAAT
1 ACATTTTTGT-AAATTAAAT
4576680 TACTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (21 bp):
ACATTTTTGTAAATTAAATGG
Found at i:4580037 original size:131 final size:129
Alignment explanation
Indices: 4579874--4580218 Score: 406
Period size: 129 Copynumber: 2.7 Consensus size: 129
4579864 GCTGTCATCA
* * * * *
4579874 TAAATCAACGAGCCTTAATAATACTAGTTGTGAACTTAAATCAATGAGCTGTTCAAAATAGCGAT
1 TAAATCAGCGAGCCTTAATAATATTAGTTGTGAACTTAAATCAATGAGCTGTTTAGAGTAGCGAT
* * ** *
4579939 AGAAAATTAGCTAACTCATAAAAGATTTTTCATGATATTAAAT-AAATTGAACTTAGGTTGTGAT
66 AGAAAATCAGCTAACTCAGAAAA-A-AATTCATGATAGTAAATCAAA-TGAACTTAGGTTGTGAT
4580003 CG
128 CG
* * * *
4580005 TAAATCAGCGAGCCTTAATAATATTAGTTGTGATCTTAAATCAGTGAGCTGTTTAGTGTACCGAT
1 TAAATCAGCGAGCCTTAATAATATTAGTTGTGAACTTAAATCAATGAGCTGTTTAGAGTAGCGAT
** * *
4580070 AGTGAATCAGCTAACTCAGAAAAAAATTCATGATAGTAAATCAAATGATCTTTGGTTGTGATCG
66 AGAAAATCAGCTAACTCAGAAAAAAATTCATGATAGTAAATCAAATGAACTTAGGTTGTGATCG
* * * * * * *
4580134 TAAATTAGTGAGCCTTAATAATATCAATTGT-AATCTTAAATAAATGAGCTATTTGGAGTAGCGA
1 TAAATCAGCGAGCCTTAATAATATTAGTTGTGAA-CTTAAATCAATGAGCTGTTTAGAGTAGCGA
*
4580198 TAGAAAATCAACTAACTCAGA
65 TAGAAAATCAGCTAACTCAGA
4580219 CAAGGTCGTT
Statistics
Matches: 180, Mismatches: 32, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
128 1 0.01
129 100 0.56
130 4 0.02
131 75 0.42
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (129 bp):
TAAATCAGCGAGCCTTAATAATATTAGTTGTGAACTTAAATCAATGAGCTGTTTAGAGTAGCGAT
AGAAAATCAGCTAACTCAGAAAAAAATTCATGATAGTAAATCAAATGAACTTAGGTTGTGATCG
Found at i:4581715 original size:18 final size:18
Alignment explanation
Indices: 4581692--4581728 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4581682 GATAGTTTGA
*
4581692 TATTCGATTTATTCAAAT
1 TATTCGAGTTATTCAAAT
*
4581710 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCAAAT
4581728 T
1 T
4581729 TGATAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:4588643 original size:23 final size:23
Alignment explanation
Indices: 4588601--4588722 Score: 156
Period size: 23 Copynumber: 5.3 Consensus size: 23
4588591 AGTGTAATTG
* *
4588601 ATCAGTTGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
4588624 TTTAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4588647 ATCAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
4588670 TTCAGTGGTAGCTAT-GGCTACGT
1 ATCAGTGGTAGCT-TCGGCTACAT
4588693 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4588716 ATCAGTG
1 ATCAGTG
4588723 TGGCACTTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
22 1 0.01
23 81 0.98
24 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4588669 original size:46 final size:46
Alignment explanation
Indices: 4588601--4588722 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
4588591 AGTGTAATTG
* * *
4588601 ATCAGTTGTAGCTTCAGCTACATTTTAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * *
4588647 ATCAGTGGTAGTTTCGGCTACATTTCAGTGGTAGCTATGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
*
4588693 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
4588723 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:4592413 original size:30 final size:30
Alignment explanation
Indices: 4592377--4592436 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4592367 TACAAGATTG
4592377 CCCTAATTCACCACTATATAAACCCCTCTC
1 CCCTAATTCACCACTATATAAACCCCTCTC
4592407 CCCTAATTCACCACTATATAAACCCCTCTC
1 CCCTAATTCACCACTATATAAACCCCTCTC
4592437 TACTATCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.27
Consensus pattern (30 bp):
CCCTAATTCACCACTATATAAACCCCTCTC
Done.