Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 357 of 362
Found at i:117985390 original size:26 final size:26
Alignment explanation
Indices: 117985306--117985441 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
117985296 CTGGAGGCCT
117985306 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
117985330 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
117985355 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
117985381 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
117985407 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
117985433 AGCCCTTTT
1 AGCCCTTTT
117985442 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.33
26 56 0.57
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:117985431 original size:52 final size:51
Alignment explanation
Indices: 117985312--117985441 Score: 221
Period size: 52 Copynumber: 2.6 Consensus size: 51
117985302 GCCTAGCCTC
*
117985312 TTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCC
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCA
117985360 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCA
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCA
117985412 TTTTCAATAAACTGGGGCATAAGCCCTTTT
1 TTTTCAATAAACTGGGGCATAAGCCCTTTT
117985442 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
48 4 0.05
49 3 0.04
50 10 0.13
51 25 0.32
52 35 0.45
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (51 bp):
TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCA
Found at i:117987243 original size:20 final size:20
Alignment explanation
Indices: 117987218--117987289 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
117987208 TGCTCACCCC
117987218 TACATATCATGTGCATTTCA
1 TACATATCATGTGCATTTCA
* *
117987238 TACATATCATGCGCATTTTA
1 TACATATCATGTGCATTTCA
*
117987258 TACATATCATGTGCATATCA
1 TACATATCATGTGCATTTCA
117987278 TATCA-ATCATGT
1 TA-CATATCATGT
117987290 ATATCATATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (20 bp):
TACATATCATGTGCATTTCA
Found at i:117988059 original size:27 final size:27
Alignment explanation
Indices: 117987998--117988061 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
117987988 GGCATATTCA
117987998 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
117988025 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
117988052 TCTTTTTACC
1 TCATTTTACC
117988062 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:117988122 original size:27 final size:27
Alignment explanation
Indices: 117988092--117988225 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
117988082 TTTCATCCTA
* * *
117988092 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
**
117988119 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
117988146 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
117988173 TGAGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
117988199 CCAGTGGTATTTTGGTAATTTTACAAA
1 CAAG-GGTATTTTGGTAATTTTACAAA
117988226 CTAGGGGTGT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.03
27 85 0.96
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:117988170 original size:54 final size:54
Alignment explanation
Indices: 117988095--117988225 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
117988085 CATCCTACAA
* * * * ** *
117988095 GGGTGTTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACCAG
**
117988149 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACCAG
*
117988203 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
117988226 CTAGGGGTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACCAG
Found at i:117988226 original size:27 final size:26
Alignment explanation
Indices: 117988094--117988245 Score: 126
Period size: 27 Copynumber: 5.7 Consensus size: 26
117988084 TCATCCTACA
* * * *
117988094 AGGGTGTTTTGGTAAATCTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAA-CC
** *
117988121 AGGGTATTTCT-GTAATTTTGTAAATC
1 AGGGTATTT-TGGTAATTTTACAAACC
**
117988147 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTACAAA-CC
*
117988175 AGGGTATTTCGGTAATTTTACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
*
117988201 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACC
* *
117988228 AGGGGTGTTATGGTAATT
1 A-GGGTATTTTGGTAATT
117988246 CTACCCTATA
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.04
27 94 0.92
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACC
Found at i:117988264 original size:54 final size:54
Alignment explanation
Indices: 117988095--117988249 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
117988085 CATCCTACAA
* * * * * ** *
117988095 GGGTGTTTTGGTAAATCTACAAATCA-AGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAAT-AGAGGGTATTTCGGTAATTCTACAAACCAG
* *
117988149 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACCAG
* *
117988203 TGGTATTTTGGTAATTTTACAAACTAG-GGGTGTTAT-GGTAATTCTAC
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATT-TCGGTAATTCTAC
117988250 CCTATAGGGG
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
54 83 0.97
55 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACCAG
Found at i:117988307 original size:27 final size:27
Alignment explanation
Indices: 117988277--117988368 Score: 157
Period size: 27 Copynumber: 3.4 Consensus size: 27
117988267 ATAATTTCAC
*
117988277 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
117988304 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
117988331 AATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
117988358 AATCGAGGGTA
1 AATCGAGGGTA
117988369 GAACGCCCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTGTA
Found at i:117988685 original size:27 final size:27
Alignment explanation
Indices: 117988655--117988910 Score: 167
Period size: 27 Copynumber: 9.4 Consensus size: 27
117988645 GTAATTTCAC
* *
117988655 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * * *
117988682 AATCAAGTGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
117988709 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
*** *
117988736 AATCGAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTATA
* ** *
117988762 CAAGTCGAGTGT-ATTTCAGTAATTTTACA
1 -AA-TCGAGGGTAAAAT-AGTAATTTTATA
* *** *
117988791 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAAAATAGTAATTTTATA
* *** *
117988819 AA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATCGA-GGGTAAAATAGTAATTTTATA
**
117988846 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * *
117988873 AATCGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
117988900 AATCGAGGGTA
1 AATCGAGGGTA
117988911 GAACGATAAT
Statistics
Matches: 185, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.01
27 142 0.77
28 37 0.20
29 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTATA
Found at i:117988794 original size:55 final size:54
Alignment explanation
Indices: 117988723--117988856 Score: 144
Period size: 55 Copynumber: 2.4 Consensus size: 54
117988713 GAGGGTAAAA
* * ** *
117988723 CAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTC-GAGTGTATTT
1 CAGTAATTTTATAAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTT
* * *
117988778 CAGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAGTAATTTTATAAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTT
* *
117988833 TAGTAATTTTGTAAATCGAGGGTA
1 CAGTAATTTTATAAATCGAGGGTA
117988857 AAACGGTAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 6 0.09
55 45 0.69
56 14 0.22
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGTAATTTTATAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTT
Found at i:117988920 original size:27 final size:27
Alignment explanation
Indices: 117988835--117988937 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
117988825 GGGTATTTTA
* *
117988835 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
117988862 GTAATTTTATAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
117988889 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
117988916 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
117988938 CTTTGGTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:117988945 original size:54 final size:54
Alignment explanation
Indices: 117988824--117988946 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 54
117988814 TTACAAACCA
* * * * * *
117988824 GGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCG
1 GGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCG
** ** * *
117988878 AAGGTAAAATGGTAATTCTATAAATCGAGGGTAGAACGATAATTCTGTAAATCG
1 GGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCG
*
117988932 GGGGTACTTTGGTAA
1 GGGGTAATTTGGTAA
117988947 ACTAAAATAT
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (54 bp):
GGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCG
Found at i:117992297 original size:27 final size:29
Alignment explanation
Indices: 117992232--117992302 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
117992222 TAATTATTTG
117992232 AAAGTTTTTATTTAAGTCATTGAACTATT
1 AAAGTTTTTATTTAAGTCATTGAACTATT
*
117992261 CAAAAGTTTTTATTTAAGTCACTTG-GCTATT
1 --AAAGTTTTTATTTAAGTCA-TTGAACTATT
117992292 -AA-TTTTTATTT
1 AAAGTTTTTATTT
117992303 TTTTTTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
27 9 0.24
28 2 0.05
31 24 0.63
32 3 0.08
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (29 bp):
AAAGTTTTTATTTAAGTCATTGAACTATT
Found at i:117994183 original size:22 final size:23
Alignment explanation
Indices: 117994148--117994190 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
117994138 AAATTGAGAC
*
117994148 AAAAAAATCACAAGTATCAAACT
1 AAAAAAATCACAAGTACCAAACT
*
117994171 AAAAAAAT-TCAAGTACCAAA
1 AAAAAAATCACAAGTACCAAA
117994191 ATGAATACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.63, C:0.16, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAAAAATCACAAGTACCAAACT
Found at i:117994856 original size:41 final size:41
Alignment explanation
Indices: 117994795--117994878 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
117994785 TTAACCTTCT
* *
117994795 ATTTAAGGATCTAACTCAACTCGACTTCTGATATAATCAAA
1 ATTTAAAGATCTAACCCAACTCGACTTCTGATATAATCAAA
*
117994836 ATTTAAAGATCTAACCCAACTCGTCTTCTGATATAATCAAA
1 ATTTAAAGATCTAACCCAACTCGACTTCTGATATAATCAAA
117994877 AT
1 AT
117994879 CCAATATCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (41 bp):
ATTTAAAGATCTAACCCAACTCGACTTCTGATATAATCAAA
Found at i:118002870 original size:17 final size:17
Alignment explanation
Indices: 118002848--118002880 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
118002838 TTTGGATAGA
118002848 AAATAACAAA-GAAAATC
1 AAATAA-AAAGGAAAATC
118002865 AAATAAAAAGGAAAAT
1 AAATAAAAAGGAAAAT
118002881 AGTGAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
AAATAAAAAGGAAAATC
Found at i:118013470 original size:46 final size:44
Alignment explanation
Indices: 118013373--118013471 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
118013363 ATAAATTATG
*
118013373 ATATAAAACTTAATTCAGTTTATTAAAATTTAATTAAAATATAAA
1 ATAT-AAACTTAATTCAGTTTATTAAAATTTAAATAAAATATAAA
*
118013418 ATTATAAACTTAATTCAGTTT-TT-AAATTATAAAATATAAATAATAGA
1 A-TATAAACTTAATTCAGTTTATTAAAATT-T-AAATA-AAAT-ATAAA
118013465 ATATAAA
1 ATATAAA
118013472 TTGTTCAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
43 5 0.11
44 3 0.06
45 21 0.45
46 13 0.28
47 5 0.11
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (44 bp):
ATATAAACTTAATTCAGTTTATTAAAATTTAAATAAAATATAAA
Found at i:118016922 original size:26 final size:26
Alignment explanation
Indices: 118016876--118016926 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
118016866 TTCGCTCTTT
118016876 TATATAATATAAACAATAATATATTG
1 TATATAATATAAACAATAATATATTG
118016902 TATATAA-ATAAGAC-ATAAATATATT
1 TATATAATATAA-ACAAT-AATATATT
118016927 ATCATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (26 bp):
TATATAATATAAACAATAATATATTG
Found at i:118018983 original size:19 final size:20
Alignment explanation
Indices: 118018948--118018986 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
118018938 AATAAATAAT
118018948 TTAAAAATTATAAAATTTTA
1 TTAAAAATTATAAAATTTTA
118018968 TTAAAAATT-TAAAATTTTA
1 TTAAAAATTATAAAATTTTA
118018987 ACCATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAATTATAAAATTTTA
Found at i:118021754 original size:16 final size:15
Alignment explanation
Indices: 118021724--118021753 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
118021714 ATTTTAAGTA
118021724 ACTTTAGTTTTTTTT
1 ACTTTAGTTTTTTTT
118021739 ACTTTAGTTTTTTTT
1 ACTTTAGTTTTTTTT
118021754 TTGTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
ACTTTAGTTTTTTTT
Found at i:118021962 original size:25 final size:22
Alignment explanation
Indices: 118021910--118021970 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 22
118021900 CATTTTTTAT
*
118021910 TTTATTTTGTTTT-AATATTTG
1 TTTATTATGTTTTAAATATTTG
118021931 TTT-TTATGTTTTAAATGCATTTG
1 TTTATTATGTTTTAAAT--ATTTG
*
118021954 ATTTATTATATTTTAAA
1 -TTTATTATGTTTTAAA
118021971 CTTTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 8 0.24
21 6 0.18
23 5 0.15
24 3 0.09
25 11 0.33
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.64
Consensus pattern (22 bp):
TTTATTATGTTTTAAATATTTG
Found at i:118026491 original size:30 final size:30
Alignment explanation
Indices: 118026457--118026530 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
118026447 ATTTAATAAA
118026457 TTAATAATATAATTAATA--TAATTATTTATT
1 TTAATAATATAATTAATATTTAA-T-TTTATT
*
118026487 TTAATAA-ATTATTTAATATTTCAATTTTATT
1 TTAATAATA-TAATTAATATTT-AATTTTATT
118026518 TTAATAATA-AATT
1 TTAATAATATAATT
118026531 TTAAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
29 1 0.03
30 18 0.49
31 13 0.35
32 3 0.08
33 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (30 bp):
TTAATAATATAATTAATATTTAATTTTATT
Found at i:118026540 original size:15 final size:14
Alignment explanation
Indices: 118026515--118026554 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
118026505 TTTCAATTTT
118026515 ATTTT-AATAATAA
1 ATTTTAAATAATAA
118026528 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
118026542 ATTTTAAATAATA
1 ATTTTAAATAATA
118026555 TTCTTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:118026791 original size:86 final size:86
Alignment explanation
Indices: 118026601--118026843 Score: 267
Period size: 85 Copynumber: 2.7 Consensus size: 86
118026591 TTTTAATAAT
* * *
118026601 AAAAA-ACCCTCAAACTTTTTCAAAAAAAAAAACAATTAAGTCCTTGTTCTTTTTTTGTACTCAA
1 AAAAAGACCCTCAAAC-TTTT---AAAAAAAAACAATTAAGCCCTT-TT-TTTTTTTGCACTTAA
**
118026665 TTAGGTATTTGAACTTTCAAATGCACC
60 TTAGGTATTTGAACTACCAAATGCACC
* *
118026692 AAAAAGACCCTCAAAC-TTTAAAAAAAAACACTTAAGCCCTTTTTTTTTTTGCACTTAATTGGGT
1 AAAAAGACCCTCAAACTTTTAAAAAAAAACAATTAAGCCCTTTTTTTTTTTGCACTTAATTAGGT
*
118026756 ATTTGAACTACCAAAGTGCATC
66 ATTTGAACTACCAAA-TGCACC
** *
118026778 AAAAATG-CCCTCAAACTTTTTCGAAAAAAACAATTAAGTCCCTACTTTTTTTTTGCACTTAATT
1 AAAAA-GACCCTCAAAC-TTTTAAAAAAAAACAATTAAG-CCCT-TTTTTTTTTTGCACTTAATT
118026842 AG
62 AG
118026844 ACACTTTAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 15
0.82 0.08 0.09
Matches are distributed among these distances:
85 31 0.23
86 21 0.16
87 21 0.16
88 17 0.13
89 4 0.03
90 23 0.17
91 5 0.04
92 10 0.08
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (86 bp):
AAAAAGACCCTCAAACTTTTAAAAAAAAACAATTAAGCCCTTTTTTTTTTTGCACTTAATTAGGT
ATTTGAACTACCAAATGCACC
Found at i:118027120 original size:20 final size:21
Alignment explanation
Indices: 118027094--118027144 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
118027084 TGTAAGAAAG
* *
118027094 TTATAAAAAATGTTAAAGAAA
1 TTATAAAAAATGTAAAAAAAA
**
118027115 -TATAAAAGTTGTAAAAAAAA
1 TTATAAAAAATGTAAAAAAAA
118027135 TTATAAAAAA
1 TTATAAAAAA
118027145 CTATTGTACC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (21 bp):
TTATAAAAAATGTAAAAAAAA
Found at i:118027375 original size:19 final size:19
Alignment explanation
Indices: 118027347--118027397 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
118027337 TATAAAATTT
*
118027347 TTTTATGATTTTTATAAAA
1 TTTTACGATTTTTATAAAA
118027366 TTTTACGATTTTTATAAAA
1 TTTTACGATTTTTATAAAA
*
118027385 TTTTACAATTTTT
1 TTTTACGATTTTT
118027398 TTATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTTACGATTTTTATAAAA
Found at i:118027400 original size:21 final size:21
Alignment explanation
Indices: 118027355--118027416 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
118027345 TTTTTTATGA
*
118027355 TTTTTATAAAATTTTACGA--
1 TTTTTATAAAATTTTACAATT
118027374 TTTTTATAAAATTTTACAATT
1 TTTTTATAAAATTTTACAATT
* * *
118027395 TTTTTATATATTTTTACTATT
1 TTTTTATAAAATTTTACAATT
118027416 T
1 T
118027417 ATACATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 18 0.49
21 19 0.51
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTATAAAATTTTACAATT
Found at i:118027451 original size:27 final size:28
Alignment explanation
Indices: 118027421--118027475 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
118027411 CTATTTATAC
*
118027421 ATATTTCTA-ATTTTTAATGAAATTTAA
1 ATATTTCTATATTTTTAATAAAATTTAA
* *
118027448 ATATTTTTATATTTTTATTAAAATTTAA
1 ATATTTCTATATTTTTAATAAAATTTAA
118027476 TAATTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
ATATTTCTATATTTTTAATAAAATTTAA
Found at i:118027477 original size:27 final size:27
Alignment explanation
Indices: 118027421--118027493 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
118027411 CTATTTATAC
* *
118027421 ATATTTCTAATTTTTAATGAAATTTAA
1 ATATTTTTAATTTTTAATAAAATTTAA
*
118027448 ATATTTTTATATTTTTATTAAAATTTAATA
1 ATATTTTTA-ATTTTTAATAAAATTT-A-A
* *
118027478 ATTTTTTTAACTTTTA
1 ATATTTTTAATTTTTA
118027494 TTTTTTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 8 0.21
28 14 0.37
29 7 0.18
30 9 0.24
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (27 bp):
ATATTTTTAATTTTTAATAAAATTTAA
Found at i:118027944 original size:22 final size:22
Alignment explanation
Indices: 118027901--118027951 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
118027891 GATTTTATTT
* *
118027901 AAAAATATAATTTTCTAAAACAG
1 AAAAA-ATAATTTTATAAAACAC
**
118027924 AAAAAATAATTTTATTCAACAC
1 AAAAAATAATTTTATAAAACAC
118027946 AAAAAA
1 AAAAAA
118027952 ATTGAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAAATAATTTTATAAAACAC
Found at i:118028772 original size:21 final size:20
Alignment explanation
Indices: 118028738--118028776 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
118028728 ATAATAAAAT
*
118028738 ATTTATATATTTTATAATTAA
1 ATTTATATAATTTA-AATTAA
*
118028759 ATTTATTTAATTTAAATT
1 ATTTATATAATTTAAATT
118028777 GAAGTCCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATATAATTTAAATTAA
Found at i:118029835 original size:26 final size:26
Alignment explanation
Indices: 118029806--118029865 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
118029796 TATTAACTAT
*
118029806 TTAAATTAACTAAT-TATATTATAAAA
1 TTAAAGTAACTAATATATA-TATAAAA
*
118029832 TTAAAGTAACTAATATATATATTAAA
1 TTAAAGTAACTAATATATATATAAAA
*
118029858 TTAGAGTA
1 TTAAAGTA
118029866 TATAAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (26 bp):
TTAAAGTAACTAATATATATATAAAA
Found at i:118045884 original size:31 final size:30
Alignment explanation
Indices: 118045849--118045946 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 30
118045839 TTAATACACC
*
118045849 ATTTGGTACCTGAGTTTGGCTTCAATACTCA
1 ATTTGGTACCTGAATTT-GCTTCAATACTCA
* ** *
118045880 ATTTGGTACATGAATTT--TT-TGT-CCCA
1 ATTTGGTACCTGAATTTGCTTCAATACTCA
* *
118045906 ATTTAGTACCTGAATTTAGCTTCAATATTCA
1 ATTTGGTACCTGAATTT-GCTTCAATACTCA
118045937 ATTTGGTACC
1 ATTTGGTACC
118045947 CAGACTAAAC
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
26 18 0.36
27 1 0.02
28 2 0.04
29 2 0.04
30 1 0.02
31 26 0.52
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (30 bp):
ATTTGGTACCTGAATTTGCTTCAATACTCA
Found at i:118046281 original size:23 final size:22
Alignment explanation
Indices: 118046255--118046297 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
118046245 ACTTAGGTAC
*
118046255 TTAACTGGAAAATAACTCAAGCA
1 TTAAATGGAAAA-AACTCAAGCA
*
118046278 TTAAATTGAAAAAACTCAAG
1 TTAAATGGAAAAAACTCAAG
118046298 TAACACAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (22 bp):
TTAAATGGAAAAAACTCAAGCA
Found at i:118046326 original size:31 final size:31
Alignment explanation
Indices: 118046282--118046352 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
118046272 CAAGCATTAA
* *
118046282 ATTGAAA--AAACTCAAGTAACACAGTGAAC
1 ATTGAAACCAAACTCAAGCAACAAAGTGAAC
* *
118046311 ATTGAAACCAAACTCAAGCACCAAATTGAAC
1 ATTGAAACCAAACTCAAGCAACAAAGTGAAC
118046342 ATTGAAACCAA
1 ATTGAAACCAA
118046353 GCTTAGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 7 0.19
31 29 0.81
ACGTcount: A:0.51, C:0.21, G:0.11, T:0.17
Consensus pattern (31 bp):
ATTGAAACCAAACTCAAGCAACAAAGTGAAC
Found at i:118052040 original size:57 final size:56
Alignment explanation
Indices: 118051973--118052083 Score: 195
Period size: 57 Copynumber: 2.0 Consensus size: 56
118051963 CATGTTTCTG
* *
118051973 TAAAATGTTTAATTTCAATGCATATTAACATCATTTGGTCATTTTCTAATTTATTTC
1 TAAAATGTTTAATTTCAATGCATATTAACAT-AATTAGTCATTTTCTAATTTATTTC
118052030 TAAAATGTTTAATTTCAATGCATATTAACATAATTAGTCATTTTCTAATTTATT
1 TAAAATGTTTAATTTCAATGCATATTAACATAATTAGTCATTTTCTAATTTATT
118052084 GGAAGTACCA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 21 0.40
57 31 0.60
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (56 bp):
TAAAATGTTTAATTTCAATGCATATTAACATAATTAGTCATTTTCTAATTTATTTC
Found at i:118052305 original size:19 final size:20
Alignment explanation
Indices: 118052281--118052318 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118052271 ATTGATATTT
118052281 AAATT-ATATATATTTTTTA
1 AAATTAATATATATTTTTTA
*
118052300 AAATTAATATTTATTTTTT
1 AAATTAATATATATTTTTT
118052319 TTATATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AAATTAATATATATTTTTTA
Found at i:118055133 original size:19 final size:19
Alignment explanation
Indices: 118055105--118055143 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
118055095 CATGAAGTTC
*
118055105 TTTTATTTTTCTTTA-CAA
1 TTTTATTTTTATTTATCAA
118055123 TTTTCATTTTTATTTATCAA
1 TTTT-ATTTTTATTTATCAA
118055143 T
1 T
118055144 AATCGATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATTTTTATTTATCAA
Found at i:118057641 original size:16 final size:17
Alignment explanation
Indices: 118057610--118057642 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
118057600 GATACTCATT
118057610 CCCATGTTCTTCCGATC
1 CCCATGTTCTTCCGATC
118057627 CCCATGTTCTT-CGATC
1 CCCATGTTCTTCCGATC
118057643 TCTTTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.12, C:0.39, G:0.12, T:0.36
Consensus pattern (17 bp):
CCCATGTTCTTCCGATC
Found at i:118060775 original size:16 final size:16
Alignment explanation
Indices: 118060714--118060776 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
118060704 CAATTAATTC
118060714 AATTTTATTTATTTAA
1 AATTTTATTTATTTAA
* *
118060730 TATTATATTATATTATAAA
1 AATTTTATT-TATT-T-AA
*
118060749 AACTTTA--TATTTAA
1 AATTTTATTTATTTAA
118060763 AATTTTATTTATTT
1 AATTTTATTTATTT
118060777 TTAGAAACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
14 8 0.22
15 1 0.03
16 16 0.44
17 4 0.11
18 1 0.03
19 6 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTATTTATTTAA
Found at i:118061755 original size:17 final size:17
Alignment explanation
Indices: 118061729--118061765 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
118061719 ATCGTAACAA
*
118061729 ATATATGGTAAAATATT
1 ATATAAGGTAAAATATT
*
118061746 ATATAAGGTAATATATT
1 ATATAAGGTAAAATATT
118061763 ATA
1 ATA
118061766 ATATATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
ATATAAGGTAAAATATT
Found at i:118070865 original size:4 final size:4
Alignment explanation
Indices: 118070849--118070888 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
118070839 GCAAACGTGG
*
118070849 GAAA GAAA AAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
118070889 TAGAAAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:118071715 original size:47 final size:47
Alignment explanation
Indices: 118071651--118071761 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
118071641 GACATTGAGT
*
118071651 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
118071698 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
118071745 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
118071762 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:118073818 original size:68 final size:68
Alignment explanation
Indices: 118073737--118073890 Score: 290
Period size: 68 Copynumber: 2.2 Consensus size: 68
118073727 TTAGTAAATT
*
118073737 AATACAAAGTAGTATCTATTATCTAAATATAAATTTGATGAAAATAAAGTTAAATAATTACAATA
1 AATATAAA-TAGTATCTATTATCTAAATATAAATTTGATGAAAATAAAGTTAAATAATTACAATA
118073802 TTTA
65 TTTA
118073806 AATATAAATAGTATCTATTATCTAAATATAAATTTGATGAAAATAAAGTTAAATAATTACAATAT
1 AATATAAATAGTATCTATTATCTAAATATAAATTTGATGAAAATAAAGTTAAATAATTACAATAT
118073871 TTA
66 TTA
118073874 AATATAAATAGTATCTA
1 AATATAAATAGTATCTA
118073891 AATTCTAATT
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
68 77 0.92
69 7 0.08
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.37
Consensus pattern (68 bp):
AATATAAATAGTATCTATTATCTAAATATAAATTTGATGAAAATAAAGTTAAATAATTACAATAT
TTA
Found at i:118075204 original size:22 final size:26
Alignment explanation
Indices: 118075179--118075232 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 26
118075169 TTTTCAAGTT
118075179 TATAATATT-T-ATTTTT-TA-AATA
1 TATAATATTATAATTTTTCTAGAATA
*
118075201 TATATTATTATAATTTTTCTAGAATA
1 TATAATATTATAATTTTTCTAGAATA
118075227 TA-AATA
1 TATAATA
118075233 ATACATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 8 0.31
23 1 0.04
24 6 0.23
25 5 0.19
26 6 0.23
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TATAATATTATAATTTTTCTAGAATA
Found at i:118075481 original size:25 final size:25
Alignment explanation
Indices: 118075433--118075481 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
118075423 TATGCTATAC
*
118075433 ATATTTAAAATATGTAAAATTGTTT
1 ATATTTAAAATATGTAAAAATGTTT
*
118075458 ATATTTAAAA-ATTTAATAAATGTT
1 ATATTTAAAATATGTAA-AAATGTT
118075482 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
ATATTTAAAATATGTAAAAATGTTT
Found at i:118076547 original size:33 final size:33
Alignment explanation
Indices: 118076510--118076573 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
118076500 ATGTTGACTT
*
118076510 ACAAAGTTATAAATACGAAAAAATTATCAATTA
1 ACAAAATTATAAATACGAAAAAATTATCAATTA
*
118076543 ACAAAATTATAAATACTAAAAAATTATCAAT
1 ACAAAATTATAAATACGAAAAAATTATCAAT
118076574 GATAATAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (33 bp):
ACAAAATTATAAATACGAAAAAATTATCAATTA
Found at i:118076548 original size:17 final size:17
Alignment explanation
Indices: 118076527--118076573 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
118076517 TATAAATACG
118076527 AAAAAATTATCAATTA-
1 AAAAAATTATCAATTAC
* *
118076543 ACAAAATTAT-AAATAC
1 AAAAAATTATCAATTAC
118076559 TAAAAAATTATCAAT
1 -AAAAAATTATCAAT
118076574 GATAATAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 9 0.38
18 2 0.08
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAAATTATCAATTAC
Found at i:118076550 original size:16 final size:16
Alignment explanation
Indices: 118076527--118076578 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
118076517 TATAAATACG
118076527 AAAAAATTATCAAT-T
1 AAAAAATTATCAATAT
*
118076542 AACAAAATTATAAATACT
1 AA-AAAATTATCAATA-T
118076560 AAAAAATTATCAATGAT
1 AAAAAATTATCAAT-AT
118076577 AA
1 AA
118076579 TAACTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 11 0.35
17 14 0.45
18 4 0.13
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAAAATTATCAATAT
Found at i:118077747 original size:3 final size:3
Alignment explanation
Indices: 118077739--118077763 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
118077729 GTAAAAACAA
118077739 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
118077764 CGAGAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:118101440 original size:15 final size:15
Alignment explanation
Indices: 118101420--118101481 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
118101410 TAATATATTT
118101420 TTTTTATATTTAAAA
1 TTTTTATATTTAAAA
*
118101435 TTTTTATTTTTATATAA
1 TTTTTATATTTA-A-AA
*
118101452 TGTTTTATAATTTAAAC
1 T-TTTTAT-ATTTAAAA
*
118101469 TTTTTAAATTTAA
1 TTTTTATATTTAA
118101482 TAACTGGTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 17 0.44
16 6 0.15
17 5 0.13
18 7 0.18
19 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTTTATATTTAAAA
Found at i:118104742 original size:12 final size:12
Alignment explanation
Indices: 118104725--118104762 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
118104715 ATTTTTTAAT
118104725 GTTTACATTATA
1 GTTTACATTATA
118104737 GTTTACATTATA
1 GTTTACATTATA
118104749 GTTTACATTATA
1 GTTTACATTATA
118104761 GT
1 GT
118104763 ATTATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (12 bp):
GTTTACATTATA
Found at i:118104819 original size:18 final size:17
Alignment explanation
Indices: 118104796--118104840 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
118104786 TTTTATGTTC
118104796 TATAAATTACATAATATA
1 TATAAATTACATAAT-TA
*
118104814 TATAAATAACATAATTA
1 TATAAATTACATAATTA
*
118104831 -ATATATTACA
1 TATAAATTACA
118104841 AACTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 14 0.58
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAATTACATAATTA
Found at i:118111542 original size:18 final size:18
Alignment explanation
Indices: 118111519--118111569 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
118111509 GTTCAAGGTG
118111519 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
118111537 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
118111555 TAA-TAA--AAAATTATT
1 TAATTAATTAAAATTATT
118111570 CTCGTCTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 8 0.27
17 10 0.33
18 12 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:118111757 original size:31 final size:29
Alignment explanation
Indices: 118111693--118111757 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
118111683 ACGATAACGT
* *
118111693 AAGTGACTAAAATGTAATATTTCAAACAT
1 AAGTGACTAAAATGTAATATTACAAACAA
118111722 AAGTGACTAAAATGTAAT-TTGAGACAAACAA
1 AAGTGACTAAAATGTAATATT---ACAAACAA
118111753 AAGTG
1 AAGTG
118111758 GCTATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.06
29 18 0.58
31 11 0.35
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGTGACTAAAATGTAATATTACAAACAA
Found at i:118114398 original size:22 final size:22
Alignment explanation
Indices: 118114354--118114399 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
118114344 AGCACGAAAA
*
118114354 TTTTTTTAAAAAATGAAAGTTT
1 TTTTTTTAAAAAACGAAAGTTT
*
118114376 TTTTTTTAAAACACGAGAA-TTT
1 TTTTTTTAAAAAACGA-AAGTTT
118114398 TT
1 TT
118114400 AAACACGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTTTTTAAAAAACGAAAGTTT
Found at i:118114400 original size:17 final size:17
Alignment explanation
Indices: 118114378--118114580 Score: 136
Period size: 17 Copynumber: 12.3 Consensus size: 17
118114368 GAAAGTTTTT
118114378 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
118114395 TTTTT-AAACACGA-AA
1 TTTTTAAAACACGAGAA
* * *
118114410 ATTTCAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
* * *
118114428 ATTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
118114445 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
118114462 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* * ***
118114479 TTTTTGAAACACAATTT
1 TTTTTAAAACACGAGAA
*
118114496 TTTTCTTAAA-A--A-AA
1 TTTT-TAAAACACGAGAA
*
118114510 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
118114525 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
118114542 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
118114559 TTTTTGAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
118114576 TTTTT
1 TTTTT
118114581 TAGAAAACGA
Statistics
Matches: 149, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
11 4 0.03
12 3 0.02
14 1 0.01
15 8 0.05
16 8 0.05
17 114 0.77
18 11 0.07
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:118114685 original size:54 final size:55
Alignment explanation
Indices: 118114626--118114731 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
118114616 AGTTTTTGAA
* *
118114626 AACACGAAAATCTTTGAAACACCG-AAATTTTTTGAAAATACGAAGATTTTTTTT
1 AACACGAAAATCTTTGAAACACCGTAAATTTTTTGAAAACACGAAAATTTTTTTT
* * * * *
118114680 AACACGGAAATTTTTGAAACACGGTCATTTTTTTGAAAACACGAAAATTTTT
1 AACACGAAAATCTTTGAAACACCGTAAATTTTTTGAAAACACGAAAATTTTT
118114732 GAAAGGCATG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 21 0.48
55 23 0.52
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (55 bp):
AACACGAAAATCTTTGAAACACCGTAAATTTTTTGAAAACACGAAAATTTTTTTT
Found at i:118114730 original size:17 final size:17
Alignment explanation
Indices: 118114710--118114865 Score: 75
Period size: 17 Copynumber: 8.8 Consensus size: 17
118114700 ACGGTCATTT
118114710 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* * ***
118114727 TTTTTGAAAGGCATGATTT
1 -TTTTGAAA-ACACGAAAA
* *
118114746 TTTTGAAAATACGGAAA
1 TTTTGAAAACACGAAAA
118114763 TTTAT-AAAACACGAAAA
1 TTT-TGAAAACACGAAAA
**
118114780 TTTTTTCTGAAAACAAAAAAA
1 ---TTT-TGAAAACACGAAAA
* *
118114801 TTTTG-AAACACTAGAA
1 TTTTGAAAACACGAAAA
*
118114817 TTTTGAAAACACGAAGAT
1 TTTTGAAAACACGAA-AA
* *
118114835 TTTTG-AAACATGAGAA
1 TTTTGAAAACACGAAAA
*
118114851 TTTTTAAAAGCACGA
1 TTTTGAAAA-CACGA
118114866 GGATTATTGA
Statistics
Matches: 100, Mismatches: 28, Indels: 20
0.68 0.19 0.14
Matches are distributed among these distances:
16 18 0.18
17 34 0.34
18 30 0.30
19 4 0.04
20 4 0.04
21 10 0.10
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:118114818 original size:16 final size:16
Alignment explanation
Indices: 118114799--118114854 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
118114789 AAAACAAAAA
118114799 AATTTTGAAACACTAG
1 AATTTTGAAACACTAG
*
118114815 AATTTTGAAAACACGAAG
1 AATTTTG-AAACAC-TAG
*
118114833 ATTTTTGAAACA-TGAG
1 AATTTTGAAACACT-AG
118114849 AATTTT
1 AATTTT
118114855 TAAAAGCACG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 14 0.42
17 11 0.33
18 8 0.24
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (16 bp):
AATTTTGAAACACTAG
Found at i:118114840 original size:18 final size:18
Alignment explanation
Indices: 118114618--118114877 Score: 96
Period size: 18 Copynumber: 14.5 Consensus size: 18
118114608 ATCACCGGAG
*
118114618 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAGA
*
118114636 TCTTTG-AAACACCGAA-A
1 TTTTTGAAAACA-CGAAGA
*
118114653 TTTTTTGAAAATACGAAGA
1 -TTTTTGAAAACACGAAGA
***
118114672 TTTTTTTTAACACGGAA-A
1 TTTTTGAAAACAC-GAAGA
* **
118114690 TTTTTG-AAACACGGTCATT
1 TTTTTGAAAACAC-G-AAGA
*
118114709 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAGA
* * **
118114727 TTTTTGAAAGGCATG-ATT
1 TTTTTGAAA-ACACGAAGA
*
118114745 TTTTTGAAAATACGGAA-A
1 TTTTTGAAAACAC-GAAGA
* *
118114763 TTTAT-AAAACACGAAAA
1 TTTTTGAAAACACGAAGA
* *
118114780 TTTTTTCTGAAAACA-AAAAA
1 --TTTT-TGAAAACACGAAGA
* *
118114800 ATTTTG-AAACAC-TAGA
1 TTTTTGAAAACACGAAGA
*
118114816 ATTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAGA
*
118114834 TTTTTG-AAACATG-AGAA
1 TTTTTGAAAACACGAAG-A
*
118114851 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAAGA
*
118114869 TTATTGAAA
1 TTTTTGAAA
118114878 TTACAATTTT
Statistics
Matches: 183, Mismatches: 35, Indels: 47
0.69 0.13 0.18
Matches are distributed among these distances:
16 18 0.10
17 44 0.24
18 78 0.43
19 26 0.14
20 11 0.06
21 6 0.03
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAGA
Found at i:118114844 original size:34 final size:35
Alignment explanation
Indices: 118114801--118114877 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
118114791 AACAAAAAAA
118114801 TTTTGAAACACT-AGAATTTTGAAAA-CACGAAGAT
1 TTTTGAAACA-TGAGAATTTTGAAAAGCACGAAGAT
* *
118114835 TTTTGAAACATGAGAATTTTTAAAAGCACGAGGAT
1 TTTTGAAACATGAGAATTTTGAAAAGCACGAAGAT
*
118114870 TATTGAAA
1 TTTTGAAA
118114878 TTACAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 1 0.03
34 22 0.58
35 15 0.39
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (35 bp):
TTTTGAAACATGAGAATTTTGAAAAGCACGAAGAT
Found at i:118115052 original size:17 final size:15
Alignment explanation
Indices: 118115019--118115067 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
118115009 AAAATTATTT
118115019 AAAATAAATAAAATA
1 AAAATAAATAAAATA
*
118115034 AAAATCAAATTAAATTA
1 AAAAT-AAA-TAAAATA
118115051 AAAATATAATATAAATA
1 AAAATA-AATA-AAATA
118115068 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 17 0.61
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:118115209 original size:11 final size:11
Alignment explanation
Indices: 118115193--118115262 Score: 79
Period size: 11 Copynumber: 6.3 Consensus size: 11
118115183 GAATTGAACC
*
118115193 TCTTTTTTTTT
1 TCTTTTTTTCT
118115204 TCTTTTTTTCCT
1 TCTTTTTTT-CT
*
118115216 TCTTTTTTCCT
1 TCTTTTTTTCT
*
118115227 TCTCTTTTTCT
1 TCTTTTTTTCT
118115238 TCTTTTTCTT-T
1 TCTTTTT-TTCT
*
118115249 TCTTTTTTTTT
1 TCTTTTTTTCT
118115260 TCT
1 TCT
118115263 CTGCTGGGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
10 2 0.04
11 38 0.75
12 11 0.22
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:118115250 original size:14 final size:13
Alignment explanation
Indices: 118115195--118115260 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 13
118115185 ATTGAACCTC
118115195 TTTTTT-TTTTCT
1 TTTTTTCTTTTCT
*
118115207 TTTTTTC-CTTCT
1 TTTTTTCTTTTCT
* *
118115219 TTTTTCCTTCTCT
1 TTTTTTCTTTTCT
118115232 TTTTCTTC-TTT-T
1 TTTT-TTCTTTTCT
*
118115244 TCTTTTCTTTT-T
1 TTTTTTCTTTTCT
118115256 TTTTT
1 TTTTT
118115261 CTCTGCTGGG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 3 0.07
12 28 0.67
13 9 0.21
14 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:118115523 original size:21 final size:21
Alignment explanation
Indices: 118115499--118115562 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
118115489 AAAAAAAGGA
* * *
118115499 TTTTTCTTTTTTTTTTCTTTC
1 TTTTTCTTCTTTTCTTCTTCC
*
118115520 TTTTTCCTCTTTTCTTCTTCC
1 TTTTTCTTCTTTTCTTCTTCC
*
118115541 TTCTTCTTCCTTCTTCTTCTTC
1 TTTTTCTT-CTT-TTCTTCTTC
118115563 AAAGTCTAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 23 0.66
22 3 0.09
23 9 0.26
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTCTTCTTTTCTTCTTCC
Found at i:118115530 original size:24 final size:24
Alignment explanation
Indices: 118115503--118115562 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
118115493 AAAGGATTTT
* * * *
118115503 TCTTTTTTTTTTCTTTCTTTTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
118115527 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
118115551 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
118115563 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:118115544 original size:10 final size:10
Alignment explanation
Indices: 118115531--118115559 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
118115521 TTTTCCTCTT
118115531 TTCTTCTTCC
1 TTCTTCTTCC
118115541 TTCTTCTTCC
1 TTCTTCTTCC
118115551 TTCTTCTTC
1 TTCTTCTTC
118115560 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:118115547 original size:13 final size:13
Alignment explanation
Indices: 118115517--118115562 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
118115507 TTTTTTTTCT
*
118115517 TTCTTTTTCC-TC
1 TTCTTCTTCCTTC
118115529 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
118115541 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
118115554 TTCTTCTTC
1 TTCTTCTTC
118115563 AAAGTCTAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 1 0.03
11 5 0.17
12 5 0.17
13 15 0.52
14 3 0.10
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:118115963 original size:29 final size:29
Alignment explanation
Indices: 118115930--118116046 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
118115920 TGTAATTTTT
*
118115930 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
118115959 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
118115989 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
118116018 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
118116047 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:118115985 original size:30 final size:30
Alignment explanation
Indices: 118115945--118116046 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
118115935 ATTTAGGATT
*
118115945 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
118115975 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
118116005 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
118116035 AAAATGCAATTT
1 AAAATGAAATTT
118116047 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:118116067 original size:14 final size:15
Alignment explanation
Indices: 118116042--118116076 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
118116032 GTCAAAATGC
*
118116042 AATTTTTATTTTTTA
1 AATTTTTATTTTTGA
118116057 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
118116071 AATTTT
1 AATTTT
118116077 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:118116401 original size:55 final size:53
Alignment explanation
Indices: 118116317--118116532 Score: 298
Period size: 51 Copynumber: 4.1 Consensus size: 53
118116307 CACGTGAGCC
* *
118116317 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-AGAAATTG-AA
* *
118116372 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGA---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGAAATTGAA
*
118116423 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-AGAAATTGAA
118116477 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAAGAAATTGAA
118116530 AAG
1 AAG
118116533 TAGAAATTGA
Statistics
Matches: 147, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
50 6 0.04
51 38 0.26
52 10 0.07
53 15 0.10
54 34 0.23
55 34 0.23
56 10 0.07
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (53 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAAATTGAA
Found at i:118116530 original size:13 final size:14
Alignment explanation
Indices: 118116512--118116545 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
118116502 TGAGTTGATT
118116512 TTGAAAA-AAGAAA
1 TTGAAAAGAAGAAA
*
118116525 TTGAAAAGTAGAAA
1 TTGAAAAGAAGAAA
118116539 TTGAAAA
1 TTGAAAA
118116546 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.21
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:118116779 original size:85 final size:87
Alignment explanation
Indices: 118116635--118116882 Score: 308
Period size: 85 Copynumber: 2.8 Consensus size: 87
118116625 AATAGAAATT
* * *
118116635 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
118116700 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
118116722 TAAATCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
118116785 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
118116811 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
118116875 GTTGATTT
64 GTTGATTT
118116883 TTGAAAAACA
Statistics
Matches: 138, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 31 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:118116828 original size:15 final size:16
Alignment explanation
Indices: 118116795--118116828 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
118116785 TTGATTTTTG
* *
118116795 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
118116811 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
118116827 AA
1 AA
118116829 TACCTCAGCA
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:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:118116870 original size:91 final size:88
Alignment explanation
Indices: 118116635--118116889 Score: 324
Period size: 91 Copynumber: 2.9 Consensus size: 88
118116625 AATAGAAATT
* * *
118116635 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
118116700 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
118116722 TAAATCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
118116785 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
118116811 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
118116875 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
118116890 ACAAAAATTA
Statistics
Matches: 145, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:118117175 original size:192 final size:192
Alignment explanation
Indices: 118116847--118117268 Score: 799
Period size: 192 Copynumber: 2.2 Consensus size: 192
118116837 CATGTGAGCC
** *
118116847 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
118116912 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
118116977 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
118117040 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
118117105 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
118117170 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
118117232 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
118117269 CTTTGGAAAG
Statistics
Matches: 225, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
192 195 0.87
193 30 0.13
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:118129017 original size:21 final size:21
Alignment explanation
Indices: 118128974--118129018 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
118128964 AGCACGAAAA
*
118128974 TTTTTTTAAAAAATGAAAGTT
1 TTTTTTTAAAAAACGAAAGTT
*
118128995 TTTTTTTAAAACACGAGAA-TT
1 TTTTTTTAAAAAACGA-AAGTT
118129016 TTT
1 TTT
118129019 AAACACGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTTTTTAAAAAACGAAAGTT
Found at i:118129019 original size:17 final size:17
Alignment explanation
Indices: 118128997--118129516 Score: 180
Period size: 17 Copynumber: 29.9 Consensus size: 17
118128987 TGAAAGTTTT
118128997 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
118129014 TTTTT-AAACACG-GAA
1 TTTTTAAAACACGAGAA
* * *
118129029 ATTTCAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
* *
118129047 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
118129064 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
118129081 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* * ***
118129098 TTTTTGAAACACAATTT
1 TTTTTAAAACACGAGAA
*
118129115 TTTTCTTAAA-A--A-AA
1 TTTT-TAAAACACGAGAA
*
118129129 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
118129144 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
118129161 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
118129178 TTTTTGAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
***
118129195 TTTTTTAGAAA-ACGATTTT
1 -TTTTTA-AAACACGA-GAA
*
118129214 TTTTTAAAAATCACCG-GAG
1 TTTTT-AAAA-CA-CGAGAA
*
118129233 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* *
118129251 TCTTTGAAACACCGA-AA
1 TTTTTAAAACA-CGAGAA
118129268 TTTTTGAAAACACGA-AGA
1 TTTTT-AAAACACGAGA-A
*
118129286 TTTTTGAAACACGA-AA
1 TTTTTAAAACACGAGAA
* *
118129302 TTTTTTTGAAAATACGAAGAT
1 --TTTTT-AAAACACG-AGAA
**
118129323 TTTTTTTAACACG-GAAA
1 TTTTTAAAACACGAG-AA
* *
118129340 TTTTTGAAACACG-GTCATT
1 TTTTTAAAACACGAG--A-A
*
118129359 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* * **
118129377 TTTTTGAAAGGCATGA-TT
1 TTTTT-AAA-ACACGAGAA
*
118129395 TTTTTGAAAATACG-GAAA
1 TTTTT-AAAACACGAG-AA
* *
118129413 TTTATAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
118129430 TTTTTTCTGAAAACAAGA-AA
1 --TTTT-T-AAAACACGAGAA
* * *
118129450 ATTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
118129467 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
118129484 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
118129501 TTTTTAAAAGCACGAG
1 TTTTTAAAA-CACGAG
118129517 GATTATTGAA
Statistics
Matches: 375, Mismatches: 83, Indels: 89
0.69 0.15 0.16
Matches are distributed among these distances:
11 4 0.01
12 3 0.01
14 1 0.00
15 9 0.02
16 16 0.04
17 193 0.51
18 89 0.24
19 37 0.10
20 12 0.03
21 11 0.03
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:118129171 original size:97 final size:97
Alignment explanation
Indices: 118129040--118129313 Score: 259
Period size: 97 Copynumber: 2.7 Consensus size: 97
118129030 TTTCAGAAAC
* * * * *
118129040 ACGAAAATTTTTAAAACACGACATTTTTTGAAACACGAGAATTTTTAAAACA-AGACATTTTTT-
1 ACGAAAATTTTTAAAACACGAAAATTTTTAAAACACGAAAATTTTTAAAACACAGAAATTTTTTA
118129103 GAAACACAATTTTTTTCTTAAAAAAATTTAAAAT
66 GAAA-ACAATTTTTTT-TTAAAAAAATTTAAAAT
* * *
118129137 ACGAGAATTTTTAAAACACGAAAATTTTTAAAACACGAAAATTTTTGAAACACGGAAATTTTTTA
1 ACGAAAATTTTTAAAACACGAAAATTTTTAAAACACGAAAATTTTTAAAACACAGAAATTTTTTA
* *
118129202 GAAAACGATTTTTTTTTAAAAATCACCGGAGTTTTTGAAAAC
66 GAAAACAATTTTTTTTTAAAAA--A----A---TTT-AAAAT
* * * *
118129244 ACGAAAATCTTTGAAACACCG-AAATTTTTGAAAACACGAAGATTTTTGAAACAC-GAAATTTTT
1 ACGAAAATTTTTAAAACA-CGAAAATTTTT-AAAACACGAAAATTTTTAAAACACAGAAATTTTT
*
118129307 TTGAAAA
64 TAGAAAA
118129314 TACGAAGATT
Statistics
Matches: 148, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
97 53 0.36
98 19 0.13
99 5 0.03
103 1 0.01
106 3 0.02
107 42 0.28
108 25 0.17
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.34
Consensus pattern (97 bp):
ACGAAAATTTTTAAAACACGAAAATTTTTAAAACACGAAAATTTTTAAAACACAGAAATTTTTTA
GAAAACAATTTTTTTTTAAAAAAATTTAAAAT
Found at i:118129343 original size:54 final size:55
Alignment explanation
Indices: 118129144--118129381 Score: 178
Period size: 55 Copynumber: 4.4 Consensus size: 55
118129134 AATACGAGAA
** *
118129144 TTTTT-AAAACACGAAAA-TTTTTAAAACACGAAAATTTTTGAAACACGGAAATT
1 TTTTTGAAAACACGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGGAAATT
* * * *
118129197 TTTTAG-AAA-ACG--ATTTTTTTTTAAAAATCACCGGAG-TTTTTGAAAACAC-GAAA-A
1 TTTTTGAAAACACGAAAATTTTTTTT---AA-CA-CGAAGATTTTTG-AAACACGGAAATT
* ***
118129251 TCTTTG-AAACACCG-AAATTTTTGAAAACACGAAGATTTTTGAAACAC-GAAATT
1 TTTTTGAAAACA-CGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGGAAATT
* * **
118129304 TTTTTGAAAATACGAAGATTTTTTTTAACACGGAA-ATTTTTGAAACACGGTCATT
1 TTTTTGAAAACACGAAAATTTTTTTTAACAC-GAAGATTTTTGAAACACGGAAATT
118129359 TTTTTGAAAACACGAAAATTTTT
1 TTTTTGAAAACACGAAAATTTTT
118129382 GAAAGGCATG
Statistics
Matches: 143, Mismatches: 25, Indels: 32
0.71 0.12 0.16
Matches are distributed among these distances:
50 1 0.01
51 5 0.03
52 17 0.12
53 22 0.15
54 40 0.28
55 41 0.29
56 11 0.08
57 6 0.04
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (55 bp):
TTTTTGAAAACACGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGGAAATT
Found at i:118129452 original size:38 final size:36
Alignment explanation
Indices: 118129356--118129470 Score: 88
Period size: 37 Copynumber: 3.1 Consensus size: 36
118129346 AAACACGGTC
* ** * **
118129356 ATTTTTTTGAAAACACGAAAATTTTTGAA-AGGCATG
1 ATTTTTTTGAAAACAAGAAAATTTTAAAACACG-AAA
* * *
118129392 ATTTTTTTGAAAATACGGAAATTTATAAAACACGAAA
1 ATTTTTTTGAAAACAAGAAAATTT-TAAAACACGAAA
* * *
118129429 ATTTTTTCTGAAAACAAGAAAATTTTGAAACACTAGA
1 ATTTTTT-TGAAAACAAGAAAATTTTAAAACACGAAA
118129466 ATTTT
1 ATTTT
118129471 GAAAACACGA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
36 22 0.35
37 25 0.40
38 16 0.25
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (36 bp):
ATTTTTTTGAAAACAAGAAAATTTTAAAACACGAAA
Found at i:118129460 original size:37 final size:36
Alignment explanation
Indices: 118129144--118129505 Score: 143
Period size: 36 Copynumber: 10.1 Consensus size: 36
118129134 AATACGAGAA
* *
118129144 TTTTT-AAAACACGAAAATTTTTAAAACACGA-AA-A
1 TTTTTGAAAACACGAAAA-TTTTGAAACACGATAATT
* *
118129178 TTTTTG-AAACACGGAAATTTTTTAGAAA-ACGAT-TTT
1 TTTTTGAAAACAC-GAAA-ATTTT-GAAACACGATAATT
* * ** *
118129214 TTTTTAAAAATCACCGGAGTTTTTGAAAACACGA-AA-A
1 TTTTTGAAAA-CA-CGAAAATTTTG-AAACACGATAATT
* *
118129251 TCTTTG-AAACACCGAAATTTTTGAAAACACGA-AGA--
1 TTTTTGAAAACA-CGAAAATTTTG-AAACACGATA-ATT
* *
118129286 TTTTTG-AAACACGAAATTTTTTTGAAAATACGA-AGATT
1 TTTTTGAAAACACGAAA--ATTTTG-AAACACGATA-ATT
* * * *
118129324 TTTTT--TAACACGGAAATTTTTGAAACACGGTCATT
1 TTTTTGAAAACAC-GAAAATTTTGAAACACGATAATT
** *
118129359 TTTTTGAAAACACGAAAATTTTTGAAAGGC-ATGATT
1 TTTTTGAAAACACGAAAA-TTTTGAAACACGATAATT
* * * *
118129395 TTTTTGAAAATACGGAAATTTATAAAACACGAAAATT
1 TTTTTGAAAACACGAAAATTT-TGAAACACGATAATT
* * *
118129432 TTTTCTGAAAACAAGAAAATTTTGAAACACTAGAA--
1 TTTT-TGAAAACACGAAAATTTTGAAACACGATAATT
* * *
118129467 -TTTTGAAAACACGAAGATTTTTGAAACATGAGAATT
1 TTTTTGAAAACACGAA-AATTTTGAAACACGATAATT
118129503 TTT
1 TTT
118129506 AAAAGCACGA
Statistics
Matches: 257, Mismatches: 42, Indels: 55
0.73 0.12 0.16
Matches are distributed among these distances:
33 11 0.04
34 34 0.13
35 61 0.24
36 65 0.25
37 54 0.21
38 31 0.12
39 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTTGAAACACGATAATT
Found at i:118129699 original size:17 final size:17
Alignment explanation
Indices: 118129670--118129718 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
118129660 AAAATTATTT
*
118129670 AAAA-TAAAATAAAATA
1 AAAATTAAATTAAAATA
*
118129686 AAAATTAAATTAAATTA
1 AAAATTAAATTAAAATA
118129703 AAAATATAAATATAAA
1 AAAAT-TAAAT-TAAA
118129719 TATGCATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 4 0.14
17 15 0.54
18 5 0.18
19 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTAAATTAAAATA
Found at i:118129863 original size:11 final size:11
Alignment explanation
Indices: 118129847--118129914 Score: 77
Period size: 11 Copynumber: 6.3 Consensus size: 11
118129837 GAATTGAACC
*
118129847 TCTTTTTTTTT
1 TCTTTTTTTCT
*
118129858 TCTTTTTTCCT
1 TCTTTTTTTCT
*
118129869 TCTTTTTTCCT
1 TCTTTTTTTCT
*
118129880 TCTCTTTTTCT
1 TCTTTTTTTCT
118129891 TCTTTTTCTT-T
1 TCTTTTT-TTCT
118129902 TCTTTTTTT-T
1 TCTTTTTTTCT
118129912 TCT
1 TCT
118129915 CTGCTGGGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
10 6 0.12
11 43 0.84
12 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:118130091 original size:15 final size:15
Alignment explanation
Indices: 118130063--118130101 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
118130053 TTTTTTGGGC
* *
118130063 TTGTTTCTTTTTTTTT
1 TTGTTT-TTGTTTTTG
118130079 TTGTTTTTGTTTTTG
1 TTGTTTTTGTTTTTG
118130094 TTGTTTTT
1 TTGTTTTT
118130102 TTCTTGGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (15 bp):
TTGTTTTTGTTTTTG
Found at i:118130210 original size:3 final size:3
Alignment explanation
Indices: 118130204--118130249 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
118130194 TTTTTTTTCT
*
118130204 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
118130250 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:118130217 original size:24 final size:24
Alignment explanation
Indices: 118130190--118130249 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
118130180 AAAGGATTTT
* * *
118130190 TCTTTTTTTTTTCTTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
118130214 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
118130238 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
118130250 AAAGTCTAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:118130233 original size:10 final size:10
Alignment explanation
Indices: 118130218--118130246 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
118130208 TCTTCCTCTT
118130218 TTCTTCTTCC
1 TTCTTCTTCC
118130228 TTCTTCTTCC
1 TTCTTCTTCC
118130238 TTCTTCTTC
1 TTCTTCTTC
118130247 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:118130234 original size:13 final size:13
Alignment explanation
Indices: 118130204--118130249 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
118130194 TTTTTTTTCT
118130204 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
118130216 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
118130228 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
118130241 TTCTTCTTC
1 TTCTTCTTC
118130250 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:118130651 original size:29 final size:29
Alignment explanation
Indices: 118130618--118130734 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
118130608 TGTAATTTTT
*
118130618 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
118130647 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
118130677 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
118130706 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
118130735 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:118130673 original size:30 final size:30
Alignment explanation
Indices: 118130633--118130734 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
118130623 ATTTAGGATT
*
118130633 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
118130663 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
118130693 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
118130723 AAAATGCAATTT
1 AAAATGAAATTT
118130735 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:118130755 original size:14 final size:15
Alignment explanation
Indices: 118130730--118130764 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
118130720 GTCAAAATGC
118130730 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
118130745 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
118130759 AATTTT
1 AATTTT
118130765 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:118147862 original size:18 final size:18
Alignment explanation
Indices: 118147839--118147874 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
118147829 AAAGCCTTCG
*
118147839 AAGTATGGTCACCGTATT
1 AAGTATGGCCACCGTATT
*
118147857 AAGTATGGCCACTGTATT
1 AAGTATGGCCACCGTATT
118147875 GGGGTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
AAGTATGGCCACCGTATT
Found at i:118161998 original size:23 final size:23
Alignment explanation
Indices: 118161966--118162055 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 23
118161956 TAGAAGAGTG
*
118161966 AAGAGGCTTGAATATGAAAAGTA
1 AAGAGACTTGAATATGAAAAGTA
* * * *
118161989 AAAAAACTTGAATATGAATAGTG
1 AAGAGACTTGAATATGAAAAGTA
* *
118162012 AAGAGACTTGAAGATGAAAAGTT
1 AAGAGACTTGAATATGAAAAGTA
*
118162035 AAGAGGCTTGAATATGAAAAG
1 AAGAGACTTGAATATGAAAAG
118162056 ATACACACAT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AAGAGACTTGAATATGAAAAGTA
Found at i:118162029 original size:46 final size:46
Alignment explanation
Indices: 118161962--118162052 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
118161952 AAGTTAGAAG
* *
118161962 AGTGAAGAGGCTTGAATATGAAAAGTAAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAAGATGAAAAGTAAAAAAACTTGAATATGAAT
* * **
118162008 AGTGAAGAGACTTGAAGATGAAAAGTTAAGAGGCTTGAATATGAA
1 AGTGAAGAGACTTGAAGATGAAAAGTAAAAAAACTTGAATATGAA
118162053 AAGATACACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.23
Consensus pattern (46 bp):
AGTGAAGAGACTTGAAGATGAAAAGTAAAAAAACTTGAATATGAAT
Found at i:118166491 original size:23 final size:23
Alignment explanation
Indices: 118166465--118166558 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
118166455 AAGTTAGAAG
118166465 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
118166488 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
118166511 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
118166534 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
118166557 AG
1 AG
118166559 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:118171152 original size:21 final size:22
Alignment explanation
Indices: 118171126--118171184 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
118171116 GTTTTAAGAA
*
118171126 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
118171147 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
118171169 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
118171185 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:118171199 original size:26 final size:24
Alignment explanation
Indices: 118171155--118171202 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
118171145 ATTTGTTTTA
*
118171155 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
118171179 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
118171203 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:118175761 original size:31 final size:31
Alignment explanation
Indices: 118175723--118175785 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
118175713 AGAAAAACTT
*
118175723 AGGATTTGCCATTAGGAACTGAAGATGGGAA
1 AGGATTTGCCATTAGGAACTGAAGATGAGAA
118175754 AGGATTTGCCATTAGGAACTGAAGATGAGAA
1 AGGATTTGCCATTAGGAACTGAAGATGAGAA
118175785 A
1 A
118175786 TGGGTAGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.22
Consensus pattern (31 bp):
AGGATTTGCCATTAGGAACTGAAGATGAGAA
Found at i:118187537 original size:38 final size:38
Alignment explanation
Indices: 118187478--118187583 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
118187468 CATTTTTAAG
*
118187478 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
118187515 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
118187553 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
118187584 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:118187685 original size:23 final size:22
Alignment explanation
Indices: 118187659--118187702 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
118187649 AAATATGAAA
118187659 TATAAAAATATAAAAAGTATATT
1 TATAAAAA-ATAAAAAGTATATT
* *
118187682 TATAATAAATGAAAAGTATAT
1 TATAAAAAATAAAAAGTATAT
118187703 ACGTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (22 bp):
TATAAAAAATAAAAAGTATATT
Found at i:118188271 original size:3 final size:3
Alignment explanation
Indices: 118188263--118188292 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
118188253 AAGCATAAAC
*
118188263 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
118188293 CATTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:118188415 original size:23 final size:22
Alignment explanation
Indices: 118188389--118188442 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
118188379 TGTATACGCG
118188389 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
118188412 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
118188434 TAC-TAATAA
1 TACATAATAA
118188443 TACTAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:118188423 original size:3 final size:3
Alignment explanation
Indices: 118188392--118188451 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
118188382 ATACGCGTAC
* * * *
118188392 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
118188439 ATA ATA CTA ATA A
1 ATA ATA ATA ATA A
118188452 AAATGACAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:118190628 original size:28 final size:29
Alignment explanation
Indices: 118190596--118190658 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
118190586 TTTAAATTCA
* *
118190596 AAAAATAATAAAGTTAAATTCTTAAA-A-AT
1 AAAAA-AATAAAATAAAATT-TTAAATATAT
118190625 AAAAAAATAAAATAAAATTTTAAATATAT
1 AAAAAAATAAAATAAAATTTTAAATATAT
118190654 AAAAA
1 AAAAA
118190659 GCGTAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 13 0.43
29 12 0.40
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAAAAATAAAATAAAATTTTAAATATAT
Found at i:118190635 original size:22 final size:22
Alignment explanation
Indices: 118190588--118190635 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
118190578 CTTAAAAATT
**
118190588 TAAATTCAAAAAATAATAAAGT
1 TAAATTCAAAAAATAATAAAAA
*
118190610 TAAATTCTTAAAAATAA-AAAAA
1 TAAATTC-AAAAAATAATAAAAA
118190632 TAAA
1 TAAA
118190636 ATAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATTCAAAAAATAATAAAAA
Found at i:118190648 original size:27 final size:28
Alignment explanation
Indices: 118190596--118190658 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
118190586 TTTAAATTCA
* *
118190596 AAAAATAATAAAGTTAAATTCTTAAAAAT
1 AAAAA-AATAAAATAAAATTCTTAAAAAT
*
118190625 AAAAAAATAAAATAAAATT-TTAAATAT
1 AAAAAAATAAAATAAAATTCTTAAAAAT
*
118190652 ATAAAAA
1 AAAAAAA
118190659 GCGTAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 13 0.43
28 12 0.40
29 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAAAATAAAATAAAATTCTTAAAAAT
Found at i:118197153 original size:18 final size:18
Alignment explanation
Indices: 118197130--118197167 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
118197120 TAATGTGTTT
*
118197130 TAAATTGCATAATATATA
1 TAAATTACATAATATATA
118197148 TAAATTACATAATATATA
1 TAAATTACATAATATATA
118197166 TA
1 TA
118197168 CAAATGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (18 bp):
TAAATTACATAATATATA
Found at i:118197166 original size:20 final size:20
Alignment explanation
Indices: 118197137--118197183 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
118197127 TTTTAAATTG
*
118197137 CATAATATATAT--AAATTA
1 CATAATATATATACAAATGA
118197155 CATAATATATATACAAATGA
1 CATAATATATATACAAATGA
*
118197175 TATAATATA
1 CATAATATA
118197184 AAGTATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
20 13 0.52
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
CATAATATATATACAAATGA
Found at i:118198823 original size:16 final size:16
Alignment explanation
Indices: 118198802--118198835 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
118198792 GTATTTAACA
118198802 AAATAAATCCAAAATT
1 AAATAAATCCAAAATT
* *
118198818 AAATAAATTCATAATT
1 AAATAAATCCAAAATT
118198834 AA
1 AA
118198836 CATTAAATTT
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:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAATCCAAAATT
Found at i:118198849 original size:22 final size:20
Alignment explanation
Indices: 118198815--118198857 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
118198805 TAAATCCAAA
118198815 ATTAAATAAATTCATAATTAAC
1 ATTAAATAAATTC-T-ATTAAC
**
118198837 ATTAAATTTATTCTATTAAC
1 ATTAAATAAATTCTATTAAC
118198857 A
1 A
118198858 AAATAACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAAATAAATTCTATTAAC
Found at i:118201359 original size:64 final size:64
Alignment explanation
Indices: 118201280--118201410 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
118201270 GAGAAAAATT
118201280 AAAGGAGGTTTGAAAATTGAGATTTATCTTAATATTTATATATAAAAAAATTATCACAATATTG
1 AAAGGAGGTTTGAAAATTGAGATTTATCTTAATATTTATATATAAAAAAATTATCACAATATTG
*
118201344 AAAGGAGGTTTGAAAATTGAGATTTATCTTAATATTTATATATAAAAAATTTATCACAATATTG
1 AAAGGAGGTTTGAAAATTGAGATTTATCTTAATATTTATATATAAAAAAATTATCACAATATTG
118201408 AAA
1 AAA
118201411 TTTTATATAT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (64 bp):
AAAGGAGGTTTGAAAATTGAGATTTATCTTAATATTTATATATAAAAAAATTATCACAATATTG
Found at i:118201714 original size:16 final size:16
Alignment explanation
Indices: 118201693--118201723 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
118201683 ATAAAAAAAA
118201693 TTCCATGAAGACAAAG
1 TTCCATGAAGACAAAG
*
118201709 TTCCATGCAGACAAA
1 TTCCATGAAGACAAA
118201724 AGTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (16 bp):
TTCCATGAAGACAAAG
Found at i:118207555 original size:43 final size:39
Alignment explanation
Indices: 118207480--118207560 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 39
118207470 ATTAAAATAA
118207480 ATAATATTTATTTTTTTATAATAATTAAATAATATTTATG
1 ATAATATTTATTTTTTTATAATAATTAAATAAT-TTTATG
* *
118207520 ATAATA-TTATTTATCTTTATGATAATTTTATATAATTTTAT
1 ATAATATTTATTT-T-TTTATAATAA--TTAAATAATTTTAT
118207561 TTTCTTACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
39 6 0.17
40 7 0.20
41 9 0.26
42 5 0.14
43 8 0.23
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (39 bp):
ATAATATTTATTTTTTTATAATAATTAAATAATTTTATG
Found at i:118207559 original size:21 final size:22
Alignment explanation
Indices: 118207497--118207560 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
118207487 TTATTTTTTT
*
118207497 ATAATAATTAAATAATATTTATG
1 ATAAT-ATTATATAATATTTATG
* *
118207520 ATAATATTAT-TTATCTTTATG
1 ATAATATTATATAATATTTATG
*
118207541 ATAATTTTATATAAT-TTTAT
1 ATAATATTATATAATATTTAT
118207561 TTTCTTACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 23 0.66
22 7 0.20
23 5 0.14
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (22 bp):
ATAATATTATATAATATTTATG
Found at i:118207660 original size:11 final size:11
Alignment explanation
Indices: 118207644--118207668 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
118207634 ATATATATTT
118207644 AAAAAAAATAA
1 AAAAAAAATAA
118207655 AAAAAAAATAA
1 AAAAAAAATAA
118207666 AAA
1 AAA
118207669 CATACTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:118208669 original size:3 final size:3
Alignment explanation
Indices: 118208661--118208690 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
118208651 TTGATCTTTG
*
118208661 CTT CTT CTT CTT CTT CTT CTT CTT ATT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
118208691 TTTTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Done.