Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 185 of 325
Found at i:60094020 original size:16 final size:16
Alignment explanation
Indices: 60093999--60094029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60093989 ATAAATTTGA
60093999 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
60094015 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
60094030 AGTGAAGAAG
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:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:60114350 original size:22 final size:22
Alignment explanation
Indices: 60114320--60114379 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
60114310 TTATGTTTAA
*
60114320 CACACTAGTGCTCTCTGATTAG
1 CACATTAGTGCTCTCTGATTAG
* * *
60114342 TACATTAGTGCTCTTTGTTTAG
1 CACATTAGTGCTCTCTGATTAG
**
60114364 CACATCGGTGCTCTCT
1 CACATTAGTGCTCTCT
60114380 ATTCTCTTGT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (22 bp):
CACATTAGTGCTCTCTGATTAG
Found at i:60115991 original size:17 final size:17
Alignment explanation
Indices: 60115961--60116000 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
60115951 ATAATTTTGG
* *
60115961 TAAATAAAATAAATGAA
1 TAAATTAAAGAAATGAA
60115978 TAAATTAAAGAAATGAA
1 TAAATTAAAGAAATGAA
*
60115995 CAAATT
1 TAAATT
60116001 TTGTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (17 bp):
TAAATTAAAGAAATGAA
Found at i:60118026 original size:22 final size:22
Alignment explanation
Indices: 60118012--60118065 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
60118002 ACAACTCAAG
60118012 GCCGTAAACAGGACAACACATA
1 GCCGTAAACAGGACAACACATA
* * *
60118034 GCCGTAAATAGGACAGCATATA
1 GCCGTAAACAGGACAACACATA
*
60118056 GCCATAAACA
1 GCCGTAAACA
60118066 TCGTAGTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.19, T:0.13
Consensus pattern (22 bp):
GCCGTAAACAGGACAACACATA
Found at i:60118297 original size:22 final size:22
Alignment explanation
Indices: 60118269--60118331 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
60118259 CAAATACGTT
60118269 TGGCACAAAGCCATAATCAGGC
1 TGGCACAAAGCCATAATCAGGC
* * *
60118291 TGGCACAGAA-TCAT-ATGTAGGT
1 TGGCACA-AAGCCATAAT-CAGGC
*
60118313 TGGCGCAAAGCCATAATCA
1 TGGCACAAAGCCATAATCA
60118332 AAATAATTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
21 4 0.13
22 23 0.74
23 4 0.13
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAGGC
Found at i:60118864 original size:27 final size:27
Alignment explanation
Indices: 60118796--60119002 Score: 150
Period size: 27 Copynumber: 7.7 Consensus size: 27
60118786 CACCCTACAA
* * * * *
60118796 GGGTATTTTGGTAAATCTACAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCAG
* *
60118823 TGGTATTTCGGTAATTTTCCAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
* ** *
60118850 GGGTATTTTGGTAATTTTATTAGTC-G
1 GGGTATTTCGGTAATTTTACAAATCAG
* *
60118876 AGGGTATCTCGATAATTTTA-AAAGTC-G
1 -GGGTATTTCGGTAATTTTACAAA-TCAG
* * * ** *
60118903 AGGGTAGTTCGATAATTTTATAGGTCGG
1 -GGGTATTTCGGTAATTTTACAAATCAG
* *
60118931 GGGTATTTCGATAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
* *
60118958 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
*
60118985 GGGTATTTTGGTAATTTT
1 GGGTATTTCGGTAATTTT
60119003 GTAAACCAAT
Statistics
Matches: 144, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
26 2 0.01
27 140 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:60118882 original size:54 final size:54
Alignment explanation
Indices: 60118824--60118976 Score: 179
Period size: 54 Copynumber: 2.8 Consensus size: 54
60118814 ACAAACCAAT
*
60118824 GGTATTTCGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTTTATTA-GTCGAG
1 GGTATTTCGATAATTTTCCAAATCAGGGGTATTTTGGTAATTTTA-TAGGTCGAG
* * * * * *
60118878 GGTATCTCGATAATTTT-AAAAGTC-GAGGGTAGTTCGATAATTTTATAGGTCGGG
1 GGTATTTCGATAATTTTCCAAA-TCAG-GGGTATTTTGGTAATTTTATAGGTCGAG
60118932 GGTATTTCGATAA-TTTCACAAATCAGGGGTATTTTGGTAATTTTA
1 GGTATTTCGATAATTTTC-CAAATCAGGGGTATTTTGGTAATTTTA
60118977 CAAACCAGGG
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
53 9 0.11
54 68 0.84
55 4 0.05
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (54 bp):
GGTATTTCGATAATTTTCCAAATCAGGGGTATTTTGGTAATTTTATAGGTCGAG
Found at i:60119008 original size:27 final size:27
Alignment explanation
Indices: 60118958--60119045 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
60118948 CACAAATCAG
** *
60118958 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
60118985 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* ***
60119012 TGGTA-TTCAATAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
60119038 GGGTATTT
1 GGGTATTT
60119046 CAGTAATTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.42
27 30 0.58
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:60119065 original size:27 final size:27
Alignment explanation
Indices: 60119035--60119091 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
60119025 TTTTGTAAAC
* *
60119035 CAAGGGTATTTCAGTAATTCTATCCTA
1 CAAGGGTATTTCAGTAATACTAGCCTA
*
60119062 CAAGGGTATTTCGGTAATACTAGCCTA
1 CAAGGGTATTTCAGTAATACTAGCCTA
60119089 CAA
1 CAA
60119092 ATATGAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATACTAGCCTA
Found at i:60121893 original size:22 final size:22
Alignment explanation
Indices: 60121868--60121920 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
60121858 CAGCTCAAGG
**
60121868 CCGTAAACAGGACAGTACATAA
1 CCGTAAACAGGACAACACATAA
* *
60121890 CCGTAAATAGGACAACACATAG
1 CCGTAAACAGGACAACACATAA
60121912 CCGTAAACA
1 CCGTAAACA
60121921 TCGCAGCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.13
Consensus pattern (22 bp):
CCGTAAACAGGACAACACATAA
Found at i:60122150 original size:22 final size:21
Alignment explanation
Indices: 60122122--60122186 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
60122112 GGCAATACGT
60122122 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
60122144 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
60122166 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
60122187 AATAATTGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:60122393 original size:41 final size:41
Alignment explanation
Indices: 60122329--60122406 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
60122319 TCAAAGCCAC
* * *
60122329 CAGTGGATCCACAGTCGTCAAGCAACCGTGTGATCCTTAAT
1 CAGTGGATCCACAGCCGTCAAGCAACCATGCGATCCTTAAT
*
60122370 CAGTGGATCCACAGCCGTTAAGCAACCATGCGATCCT
1 CAGTGGATCCACAGCCGTCAAGCAACCATGCGATCCT
60122407 CAATTTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
CAGTGGATCCACAGCCGTCAAGCAACCATGCGATCCTTAAT
Found at i:60122765 original size:27 final size:28
Alignment explanation
Indices: 60122680--60122901 Score: 122
Period size: 27 Copynumber: 8.2 Consensus size: 28
60122670 CAAACCAAGT
* * * *
60122680 GTATTTCGATAATTTTGCAAACCCA-TG
1 GTATTTCGGTAATTTTACAAACTCAGGG
* ** * *
60122707 GTATTTCTGTAATTTTTGAAAGTGAGGG
1 GTATTTCGGTAATTTTACAAACTCAGGG
* *
60122735 GTATTTCGGTAATTTTCCAAA-TCAGGA
1 GTATTTCGGTAATTTTACAAACTCAGGG
*
60122762 GTATTTTGGTAATTTTACAAA-T-AGCGG
1 GTATTTCGGTAATTTTACAAACTCAG-GG
* ** *
60122789 GTATTTCGATAATTTTACAAGTTGA-GG
1 GTATTTCGGTAATTTTACAAACTCAGGG
** **
60122816 GTATTTCAATAATTTTAC-AGGTC-GAGG
1 GTATTTCGGTAATTTTACAAACTCAG-GG
* * * *
60122843 GT-TTTTGGTAATTTCATAAA-TCAAGG
1 GTATTTCGGTAATTTTACAAACTCAGGG
* *
60122869 GTATTTTGGTAAATTTACAAAC-CAGGG
1 GTATTTCGGTAATTTTACAAACTCAGGG
60122896 GTATTT
1 GTATTT
60122902 TTTAAATTTT
Statistics
Matches: 152, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
26 21 0.14
27 110 0.72
28 20 0.13
29 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (28 bp):
GTATTTCGGTAATTTTACAAACTCAGGG
Found at i:60122766 original size:55 final size:54
Alignment explanation
Indices: 60122680--60122804 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 54
60122670 CAAACCAAGT
* * **
60122680 GTATTTCGATAATTTTGCAAACCCATGGTATTTCT-GTAATTTTTGAAAGTGAG-GG
1 GTATTTCGATAATTTTCCAAACCCAGGGTATTT-TGGTAATTTTACAAA-T-AGCGG
* *
60122735 GTATTTCGGTAATTTTCCAAA-TCAGGAGTATTTTGGTAATTTTACAAATAGCGG
1 GTATTTCGATAATTTTCCAAACCCAGG-GTATTTTGGTAATTTTACAAATAGCGG
60122789 GTATTTCGATAATTTT
1 GTATTTCGATAATTTT
60122805 ACAAGTTGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
53 2 0.03
54 22 0.37
55 36 0.60
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (54 bp):
GTATTTCGATAATTTTCCAAACCCAGGGTATTTTGGTAATTTTACAAATAGCGG
Found at i:60122902 original size:27 final size:28
Alignment explanation
Indices: 60122840--60122933 Score: 79
Period size: 27 Copynumber: 3.5 Consensus size: 28
60122830 TTACAGGTCG
* *
60122840 AGGGT-TTTTGGT-AATTTCATAAATCA
1 AGGGTATTTTGGTAAATTTCACAAACCA
60122866 AGGGTATTTTGGTAAATTT-ACAAACCA
1 AGGGTATTTTGGTAAATTTCACAAACCA
* * ** * * *
60122893 GGGGTATTTT-TTAAATTTTGCTAATCG
1 AGGGTATTTTGGTAAATTTCACAAACCA
60122920 AGGGTATTTTGGTA
1 AGGGTATTTTGGTA
60122934 GTTTTGTAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
26 12 0.22
27 35 0.65
28 7 0.13
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (28 bp):
AGGGTATTTTGGTAAATTTCACAAACCA
Found at i:60126024 original size:22 final size:22
Alignment explanation
Indices: 60125992--60126051 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
60125982 AAATACGTTC
60125992 GGCACACAGCCATAAT-TAAGTT
1 GGCACA-AGCCATAATGTAAGTT
*
60126014 GGCACAGAGCCAT-ATGTAGGTT
1 GGCACA-AGCCATAATGTAAGTT
60126036 GGCACAATGCCATAAT
1 GGCACAA-GCCATAAT
60126052 CAGAACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
GGCACAAGCCATAATGTAAGTT
Found at i:60126258 original size:41 final size:41
Alignment explanation
Indices: 60126199--60126318 Score: 195
Period size: 41 Copynumber: 2.9 Consensus size: 41
60126189 AAGCCACTGA
* * * *
60126199 TGGATCTACAGTCATCAAGCAACCATGCGATCCTTAATCGG
1 TGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGG
*
60126240 TGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAATCGG
1 TGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGG
60126281 TGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 TGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
60126319 TTCTTCCTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
TGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGG
Found at i:60126696 original size:27 final size:27
Alignment explanation
Indices: 60126613--60126975 Score: 181
Period size: 27 Copynumber: 13.5 Consensus size: 27
60126603 TCAAACTCAT
* *
60126613 GGTATTTCTATAATTTT-TGAAAGTCAAA
1 GGTATTTCTGTAATTTTAT-AAA-TCAAG
* * *
60126641 GGTAATTCTGTAA-TTTATAAATTAGG
1 GGTATTTCTGTAATTTTATAAATCAAG
*
60126667 GGTATTTCTGTAATTTTATAAATTAAG
1 GGTATTTCTGTAATTTTATAAATCAAG
* * ** *
60126694 GGTATTTTTATAATTTTCCAAATCAAA
1 GGTATTTCTGTAATTTTATAAATCAAG
** * *
60126721 GGTATTT-TGGTAATTTTCCAAATTAGG
1 GGTATTTCT-GTAATTTTATAAATCAAG
* ** **
60126748 GGTATTTCGGTAATTTTGCAAATTGAG
1 GGTATTTCTGTAATTTTATAAATCAAG
* * *
60126775 GGTATTT-AGTTAATTTTACAAGTCAAG
1 GGTATTTCTG-TAATTTTATAAATCAAG
* * ** *
60126802 GGTATTTC-GTATTTTTACATGTCGAG
1 GGTATTTCTGTAATTTTATAAATCAAG
* * * * *
60126828 AGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTCTGTAATTTTATAAATCAAG
* *
60126855 GGTATTT-TGGTAATTTTACAAA-CTAG
1 GGTATTTCT-GTAATTTTATAAATCAAG
* *
60126881 AGGTATTT-TGGTAATTTTGCT-AATCGAG
1 -GGTATTTCT-GTAATTTT-ATAAATCAAG
* * *
60126909 GGTATTT-TGGAAATTTTGTAAACCAAG
1 GGTATTTCT-GTAATTTTATAAATCAAG
* *
60126936 GGTATTTC-GTAATTTGATAAACCAAG
1 GGTATTTCTGTAATTTTATAAATCAAG
*
60126962 GGTATTTCAGTAAT
1 GGTATTTCTGTAAT
60126976 ACTAGCCTAC
Statistics
Matches: 270, Mismatches: 51, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
26 63 0.23
27 192 0.71
28 15 0.06
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTATAAATCAAG
Found at i:60126744 original size:81 final size:79
Alignment explanation
Indices: 60126613--60126897 Score: 229
Period size: 81 Copynumber: 3.5 Consensus size: 79
60126603 TCAAACTCAT
** * *
60126613 GGTATTTCTATAATTTTTGAAAGTCAAAGGTAATTCTGTAATTTATAAATTAGGGGTATTTCTGT
1 GGTATTTCTATAATTTTACAAA-TCAAAGGT-ATTTTGTAATTTATAAATTAGGGGTATTTCGGT
*
60126678 AATTTTATAAATTAAG
64 AATTTTACAAATTAAG
* *
60126694 GGTATTTTTATAATTTTCCAAATCAAAGGTATTTTGGTAATTT-TCCAAATTAGGGGTATTTCGG
1 GGTATTTCTATAATTTTACAAATCAAAGGTATTTT-GTAATTTAT--AAATTAGGGGTATTTCGG
* *
60126758 TAATTTTGCAAATTGAG
63 TAATTTTACAAATTAAG
* * * * * * * * *
60126775 GGTATTTAGT-TAATTTTACAAGTCAAGGGTATTTCGT-ATTTTTACATGTCGAGAGTATTTCAG
1 GGTATTT-CTATAATTTTACAAATCAAAGGTATTTTGTAATTTATAAAT-TAG-GGGTATTTCGG
* * *
60126838 TAATTTCACAAATCAGG
63 TAATTTTACAAATTAAG
* *
60126855 GGTATTT-TGGTAATTTTACAAA-CTAGAGGTATTTTGGTAATTT
1 GGTATTTCT-ATAATTTTACAAATC-AAAGGTATTTT-GTAATTT
60126898 TGCTAATCGA
Statistics
Matches: 166, Mismatches: 26, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
78 4 0.02
79 12 0.07
80 65 0.39
81 80 0.48
82 5 0.03
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (79 bp):
GGTATTTCTATAATTTTACAAATCAAAGGTATTTTGTAATTTATAAATTAGGGGTATTTCGGTAA
TTTTACAAATTAAG
Found at i:60126858 original size:53 final size:53
Alignment explanation
Indices: 60126704--60126876 Score: 154
Period size: 53 Copynumber: 3.2 Consensus size: 53
60126694 GGTATTTTTA
* * * *
60126704 TAATTTTCCAAATC-AAAGGTATTTTGGTAATTTTC-CAAATTAGGGGTATTTCGG
1 TAATTTTACAAATCGAGA-GTA-TTTAGTAA-TTTCACAAATCAGGGGTATTTCGG
* * * * * *
60126758 TAATTTTGCAAATTGAGGGTATTTAGTTAATTTTACAAGTCAAGGGTATTTC-G
1 TAATTTTACAAATCGAGAGTATTTAG-TAATTTCACAAATCAGGGGTATTTCGG
* ** *
60126811 TATTTTTACATGTCGAGAGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCGAGAGTATTT-AGTAATTTCACAAATCAGGGGTATTTCGG
60126865 TAATTTTACAAA
1 TAATTTTACAAA
60126877 CTAGAGGTAT
Statistics
Matches: 92, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
53 47 0.51
54 44 0.48
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (53 bp):
TAATTTTACAAATCGAGAGTATTTAGTAATTTCACAAATCAGGGGTATTTCGG
Found at i:60126956 original size:26 final size:26
Alignment explanation
Indices: 60126923--60126975 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
60126913 TTTTGGAAAT
60126923 TTTGTAAACCAAGGGTATTTC-GTAA
1 TTTGTAAACCAAGGGTATTTCAGTAA
60126948 TTTGATAAACCAAGGGTATTTCAGTAA
1 TTTG-TAAACCAAGGGTATTTCAGTAA
60126975 T
1 T
60126976 ACTAGCCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 4 0.15
26 17 0.65
27 5 0.19
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTGTAAACCAAGGGTATTTCAGTAA
Found at i:60126967 original size:134 final size:133
Alignment explanation
Indices: 60126666--60126975 Score: 352
Period size: 134 Copynumber: 2.3 Consensus size: 133
60126656 TATAAATTAG
* *
60126666 GGGTATTTCTGTAATTTTATAAATTAAGGGTATTTTTA-TAATTTTCCAAATCAAAGGTATTTTG
1 GGGTATTTC-GTAATTTTATAAATCAAGGGTA-TTTCAGTAA-TTTCCAAATCAAAGGTATTTTG
* * * * **
60126730 GTAATTTTCCAAATTAGGGGTATTTCGGTAATTTTGCAAATTGAGGGTATTTAGTTAATTTTACA
63 GTAATTTTACAAACTAGAGGTATTTCGGTAATTTTGCAAATCGAGGGTATTTAGGAAATTTTACA
**
60126795 AGTCAA
128 AACCAA
* * ** * * **
60126801 GGGTATTTCGTATTTTTACATGTCGAGAGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGT
1 GGGTATTTCGTAATTTTATAAATCAAGGGTATTTCAGTAATTTC-CAAATCAAAGGTATTTTGGT
* * * **
60126866 AATTTTACAAACTAGAGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGAAATTTTGTAAA
65 AATTTTACAAACTAGAGGTATTTCGGTAATTTTGCAAATCGAGGGTATTTAGGAAATTTTACAAA
60126931 CCAA
130 CCAA
* *
60126935 GGGTATTTCGTAATTTGATAAACCAAGGGTATTTCAGTAAT
1 GGGTATTTCGTAATTTTATAAATCAAGGGTATTTCAGTAAT
60126976 ACTAGCCTAC
Statistics
Matches: 142, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
133 8 0.06
134 125 0.88
135 9 0.06
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (133 bp):
GGGTATTTCGTAATTTTATAAATCAAGGGTATTTCAGTAATTTCCAAATCAAAGGTATTTTGGTA
ATTTTACAAACTAGAGGTATTTCGGTAATTTTGCAAATCGAGGGTATTTAGGAAATTTTACAAAC
CAA
Found at i:60128857 original size:2 final size:2
Alignment explanation
Indices: 60128850--60128877 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60128840 AGAAAGAGCC
60128850 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
60128878 TCATGAGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:60130878 original size:75 final size:75
Alignment explanation
Indices: 60130755--60130904 Score: 264
Period size: 75 Copynumber: 2.0 Consensus size: 75
60130745 TTGAACCCAA
* *
60130755 TGCTTCATGCAACTTCTTCCAAAATCGAGACGTAAAGCAAGGATCCATGTGAAATATAATAGAGA
1 TGCTTCATCCAACTTCTTCCAAAATAGAGACGTAAAGCAAGGATCCATGTGAAATATAATAGAGA
60130820 CCGATACCCC
66 CCGATACCCC
* *
60130830 TGCTTCATCCAACTTCTTCCAAAATAGAGACGTAAATCAAGGATCCATGTGAGATATAATAGAGA
1 TGCTTCATCCAACTTCTTCCAAAATAGAGACGTAAAGCAAGGATCCATGTGAAATATAATAGAGA
60130895 CCGATACCCC
66 CCGATACCCC
60130905 ATGTAGTTGG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (75 bp):
TGCTTCATCCAACTTCTTCCAAAATAGAGACGTAAAGCAAGGATCCATGTGAAATATAATAGAGA
CCGATACCCC
Found at i:60137329 original size:27 final size:27
Alignment explanation
Indices: 60137299--60137477 Score: 177
Period size: 27 Copynumber: 6.7 Consensus size: 27
60137289 CTTAGTTCAC
* *
60137299 AAAATTACCAAAATACCCTTGATTAGA
1 AAAATTACCAAAATACCCTTGATTTGT
*
60137326 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGT
* * *
60137353 AAAACTACCAAAAAACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
60137380 AAAACTACCAAAATACCTTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
*
60137407 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
60137434 GAAATTATCGAAAA-A-CCTTCGATTCGT
1 AAAATTA-CCAAAATACCCTT-GATTTGT
*
60137461 AAAA-TACTAAAATACCC
1 AAAATTACCAAAATACCC
60137478 CTGTAGGGTA
Statistics
Matches: 127, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 5 0.04
26 7 0.06
27 110 0.87
28 5 0.04
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:60137433 original size:81 final size:80
Alignment explanation
Indices: 60137299--60137477 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 80
60137289 CTTAGTTCAC
60137299 AAAATTACCAAAATACCCTTGATTAGAAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCAA
1 AAAA-TACCAAAATACCCTTGATTAGAAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCAA
* *
60137364 AAAACCCTT-GGTTTGT
65 AAAA-CCTTCGATTCGT
* * * * * * * *
60137380 AAAACTACCAAAATACCTTTGGTTTGTAAAATTACCAAAATACCCCT-GATTTGTGAAATTATCG
1 AAAA-TACCAAAATACCCTTGATTAGAAAAATTACCAAAATACCCCTAG-TTTGTAAAACTACCA
60137444 AAAAACCTTCGATTCGT
64 AAAAACCTTCGATTCGT
*
60137461 AAAATACTAAAATACCC
1 AAAATACCAAAATACCC
60137478 CTGTAGGGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 16 0.19
81 67 0.81
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATACCAAAATACCCTTGATTAGAAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCAAA
AAACCTTCGATTCGT
Found at i:60137509 original size:27 final size:27
Alignment explanation
Indices: 60137470--60137792 Score: 394
Period size: 27 Copynumber: 12.0 Consensus size: 27
60137460 TAAAATACTA
60137470 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
60137497 AAATACCCTTGTAAGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
60137524 AAATACCCCTATAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
60137551 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
60137578 AAATAACCCTGTAGGGTAGAACTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** * * *
60137605 AAATACCTTTGCAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
60137632 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * **
60137659 AAATACCCCTATAGGGTAAAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
60137686 AAATACCCCTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
60137713 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
60137740 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * * *
60137767 AGATACCCTTATTGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
60137793 ATTTTGCCCC
Statistics
Matches: 250, Mismatches: 46, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 250 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:60138029 original size:25 final size:24
Alignment explanation
Indices: 60137995--60138065 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
60137985 AGGAAGTGCT
* *
60137995 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCC-AGTTAACCA
*
60138020 AAAAGGGCTTTGCCCCAGTTAATCA
1 AAAAGGGCTTTG-CCCAGTTAACCA
60138045 AAAAGGGCTTTGACCCAGTTA
1 AAAAGGGCTTTG-CCCAGTTA
60138066 TTAAAAGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.93
26 3 0.07
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCAGTTAACCA
Found at i:60138077 original size:24 final size:25
Alignment explanation
Indices: 60137995--60138077 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
60137985 AGGAAGTGCT
* *
60137995 AAAAG-GGCTTTG-CCCTAGTTTACC
1 AAAAGAGGCTTTGACCC-AGTTAATC
*
60138019 GAAAAG-GGCTTTGCCCCAGTTAATC
1 -AAAAGAGGCTTTGACCCAGTTAATC
*
60138044 AAAA-AGGGCTTTGACCCAGTT-ATT
1 AAAAGA-GGCTTTGACCCAGTTAATC
60138068 AAAAGAGGCT
1 AAAAGAGGCT
60138078 AGGCCTCTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
24 14 0.28
25 33 0.66
26 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGACCCAGTTAATC
Found at i:60139568 original size:13 final size:13
Alignment explanation
Indices: 60139550--60139574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60139540 AAGGTATTTG
60139550 GAAATGAATTTTT
1 GAAATGAATTTTT
60139563 GAAATGAATTTT
1 GAAATGAATTTT
60139575 AATATAGATA
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
GAAATGAATTTTT
Found at i:60147359 original size:21 final size:21
Alignment explanation
Indices: 60147333--60147379 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
60147323 GATCATATTG
60147333 AGAGAACAAATATTATCTCAA
1 AGAGAACAAATATTATCTCAA
60147354 AGAGAACAAATATTATCTCAA
1 AGAGAACAAATATTATCTCAA
60147375 AGAGA
1 AGAGA
60147380 TCAAGGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (21 bp):
AGAGAACAAATATTATCTCAA
Found at i:60150066 original size:48 final size:48
Alignment explanation
Indices: 60149976--60150068 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
60149966 ATGTCAGTGC
* * *
60149976 TGATGCCATGTCCCAAACATGGTCTTATACTAGCATACATATCATCGT
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCACAAATATCATCGT
*
60150024 TGATGCCATGTCCCAGACATGGTCTTACA-TAGGCACAAATATCAT
1 TGATGCCATGTCCCAAACATGGTCTTACACTA-GCACAAATATCAT
60150069 TAATCATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 2 0.05
48 38 0.95
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (48 bp):
TGATGCCATGTCCCAAACATGGTCTTACACTAGCACAAATATCATCGT
Found at i:60150602 original size:17 final size:19
Alignment explanation
Indices: 60150560--60150603 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
60150550 ATGAAATTTT
*
60150560 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
60150579 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
60150597 AA-TATTA
1 AATTATTA
60150604 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:60151689 original size:5 final size:5
Alignment explanation
Indices: 60151673--60151758 Score: 52
Period size: 5 Copynumber: 16.8 Consensus size: 5
60151663 CAGTTTTTTC
* * * * *
60151673 TTCTT TTATT TTCTT TTCTT TTCTCCT CTCTT CATCTAC TTCCT TTC-T
1 TTCTT TTCTT TTCTT TTCTT TTCT--T TTCTT -TTCT-T TTCTT TTCTT
*
60151721 -TCTT CTTCTT TTC-C TTCTT TTCTT TTCTT TTCTT TTCT
1 TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
60151759 CTTCATCTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
3 2 0.03
4 5 0.08
5 43 0.68
6 9 0.14
7 4 0.06
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (5 bp):
TTCTT
Found at i:60151739 original size:15 final size:14
Alignment explanation
Indices: 60151683--60151785 Score: 74
Period size: 14 Copynumber: 7.6 Consensus size: 14
60151673 TTCTTTTATT
60151683 TTCTTTTCTT-TTC
1 TTCTTTTCTTCTTC
* * *
60151696 TCCTCTCTTCATCTAC
1 T--TCTTTTCTTCTTC
*
60151712 TTCCTTTCTTCTTC
1 TTCTTTTCTTCTTC
60151726 TTCTTTTCCTTCTT-
1 TTCTTTT-CTTCTTC
60151740 TTCTTTTCTT-TTC
1 TTCTTTTCTTCTTC
* *
60151753 TT-TTCTCTTCATC
1 TTCTTTTCTTCTTC
*
60151766 TAC-TTTC-TCTTC
1 TTCTTTTCTTCTTC
60151778 TTCTTTTC
1 TTCTTTTC
60151786 CTCCATAGCC
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
12 14 0.21
13 16 0.24
14 22 0.32
15 13 0.19
16 3 0.04
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (14 bp):
TTCTTTTCTTCTTC
Found at i:60151777 original size:52 final size:54
Alignment explanation
Indices: 60151681--60151787 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 54
60151671 TCTTCTTTTA
60151681 TTTTCTTTTCTTTTCTCCTCTCTTCATCTACTTCCTTTCTTCTTCTTCTTTTCCTTC
1 TTTTCTTTTCTTTTCTCCTCTCTTCATCTA---CCTTTCTTCTTCTTCTTTTCCTTC
**
60151738 TTTTCTTTTCTTTTCTTTTCTCTTCATCTA-CTTTC-TCTTCTTCTTTTCCT
1 TTTTCTTTTCTTTTCTCCTCTCTTCATCTACCTTTCTTCTTCTTCTTTTCCT
60151788 CCATAGCCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
52 15 0.31
53 5 0.10
57 28 0.58
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (54 bp):
TTTTCTTTTCTTTTCTCCTCTCTTCATCTACCTTTCTTCTTCTTCTTTTCCTTC
Found at i:60156539 original size:29 final size:28
Alignment explanation
Indices: 60156505--60156604 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 28
60156495 GACTATAGAA
60156505 TATGAAAAGGGATAGCTTCAGCTATCGAT
1 TATGAAAAGGGATAGC-TCAGCTATCGAT
* * * * * * *
60156534 TATGAAACGAGATAG-TGACGACCACCAAC
1 TATGAAAAGGGATAGCTCA-G-CTATCGAT
60156563 TATGAAAAGGGATAGACTCAGCTATCGAT
1 TATGAAAAGGGATAG-CTCAGCTATCGAT
60156592 TATGAAAAGGGAT
1 TATGAAAAGGGAT
60156605 GGTGACGACC
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
27 2 0.04
28 1 0.02
29 47 0.89
30 1 0.02
31 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (28 bp):
TATGAAAAGGGATAGCTCAGCTATCGAT
Found at i:60156595 original size:58 final size:58
Alignment explanation
Indices: 60156505--60156749 Score: 230
Period size: 58 Copynumber: 4.2 Consensus size: 58
60156495 GACTATAGAA
*
60156505 TATGAAAAGGGATAGCTTCAGCTATCGATTATGAAACGAGATAGTGACGACCACCAAC
1 TATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGAGATAGTGACGACCACCAAC
* * **
60156563 TATGAAAAGGGATAGAC-TCAGCTATCGATTATGAAAAGGGATGGTGACGACCATTAAC
1 TATGAAAAGGGATAG-CTTCAGCTATCGATTATGAAAAGAGATAGTGACGACCACCAAC
* * * * * * * * * **
60156621 TATGAAAAGGGAT-G-GTGATGACCATCAACTATAAAAAGGGATGGTGACAACCATTGAA-
1 TATGAAAAGGGATAGCTTCA-G-CTATCGATTATGAAAAGAGATAGTGACGACCA-CCAAC
** * *
60156679 TATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAG-GAATAGTGATGACCATCAAC
1 TATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGAG-ATAGTGACGACCACCAAC
60156737 TATGAAAAGGGAT
1 TATGAAAAGGGAT
60156750 GGTGACGACC
Statistics
Matches: 155, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
56 2 0.01
57 6 0.04
58 140 0.90
59 6 0.04
60 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (58 bp):
TATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGAGATAGTGACGACCACCAAC
Found at i:60156624 original size:29 final size:29
Alignment explanation
Indices: 60156534--60156762 Score: 178
Period size: 29 Copynumber: 7.9 Consensus size: 29
60156524 AGCTATCGAT
* * * *
60156534 TATGAAACGAGATAGTGACGACCACCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * * *
60156563 TATGAAAAGGGAT--AGACTCAGCTATCGAT
1 TATGAAAAGGGATGGTGAC-GA-CCATCAAC
*
60156592 TATGAAAAGGGATGGTGACGACCATTAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
*
60156621 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
60156650 TATAAAAAGGGATGGTGACAACCATTGAA-
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
* ** * * * *
60156679 TATGAAAAGGGATAGCT-TTGGCTATCGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
* * *
60156708 TATGAAAAGGAATAGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
60156737 TATGAAAAGGGATGGTGACGACCATC
1 TATGAAAAGGGATGGTGACGACCATC
60156763 GTGATTCCAC
Statistics
Matches: 152, Mismatches: 40, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
27 3 0.02
28 4 0.03
29 136 0.89
30 6 0.04
31 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:60156683 original size:87 final size:87
Alignment explanation
Indices: 60156502--60156761 Score: 220
Period size: 87 Copynumber: 3.0 Consensus size: 87
60156492 GGTGACTATA
* * * * * * *
60156502 GAATATGAAAAGGGATAGCTTC-AGCTATCGATTATG-AAACGAGATAGTGACGACCACCAACTA
1 GAATATGAAAAGGGATAGCTACGA-CCATCAACTATGAAAAGGA-ATAGTGATGACCATCAACTA
* * *** * * *
60156565 TGAAAAGGGATAGACTCAGCTATC
64 TAAAAAGGGATGGTGACAACCATT
* * * * *
60156589 GATTATGAAAAGGGAT-GGTGACGACCATTAACTATGAAAAGGGATGGTGATGACCATCAACTAT
1 GAATATGAAAAGGGATAGCT-ACGACCATCAACTATGAAAAGGAATAGTGATGACCATCAACTAT
60156653 AAAAAGGGATGGTGACAACCATT
65 AAAAAGGGATGGTGACAACCATT
** * * * * *
60156676 GAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGAATAGTGATGACCATCAACTATG
1 GAATATGAAAAGGGATAGCTACGACCATCAACTATGAAAAGGAATAGTGATGACCATCAACTATA
*
60156741 AAAAGGGATGGTGACGACCAT
66 AAAAGGGATGGTGACAACCAT
60156762 CGTGATTCCA
Statistics
Matches: 136, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
86 2 0.01
87 127 0.93
88 7 0.05
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (87 bp):
GAATATGAAAAGGGATAGCTACGACCATCAACTATGAAAAGGAATAGTGATGACCATCAACTATA
AAAAGGGATGGTGACAACCATT
Found at i:60165446 original size:47 final size:47
Alignment explanation
Indices: 60165394--60165607 Score: 313
Period size: 47 Copynumber: 4.6 Consensus size: 47
60165384 GATAATTGTG
* * *
60165394 ATGTGAATGTATATATATGTGATAAAGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60165441 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60165488 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG-TGGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT-GTGATGA
* * * * * * *
60165535 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60165582 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60165608 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 151 0.99
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:60165782 original size:37 final size:37
Alignment explanation
Indices: 60165726--60165804 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
60165716 CCGAGCTCTA
* * *
60165726 AAGACCCGATGACTACGTGTAGG-GATTTTGTCCGGGT
1 AAGACCAGATAACTACGTGT-GGAGATTATGTCCGGGT
*
60165763 AAGACCAGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCAGATAACTACGTGTGGAGATTATGTCCGGGT
60165800 AAGAC
1 AAGAC
60165805 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 2 0.05
37 35 0.95
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCAGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60166634 original size:47 final size:48
Alignment explanation
Indices: 60166568--60166780 Score: 190
Period size: 49 Copynumber: 4.5 Consensus size: 48
60166558 TGTTACAGCC
* * *
60166568 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAT-GATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATAGATGATAGCT
* * *
60166615 AGTGTAAGACATGTCTGGGACATGCATC-GGCT--AT-GTTTCAT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATAG-ATGATAGCT
* * * * *
60166659 AGTGTAAGACATGTTTGGGACATGCATCAG-CACGTATACACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-ATAGATGATAGCT
* *
60166707 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGA-GATAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGATAGATGATAGCT
**
60166756 AGCATAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
60166781 GCAGCGGCAA
Statistics
Matches: 135, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
44 33 0.24
45 3 0.02
46 3 0.02
47 30 0.22
48 13 0.10
49 41 0.30
50 9 0.07
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATAGATGATAGCT
Found at i:60166678 original size:44 final size:46
Alignment explanation
Indices: 60166564--60166689 Score: 170
Period size: 44 Copynumber: 2.8 Consensus size: 46
60166554 GGGGTGTTAC
60166564 AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGATGATGTT
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTC-ATGATGTT
* *
60166611 AGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCT-ATG-T-TT
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCATGATGTT
*
60166653 CATGCTAGTGTAAGACATGTTTGGGACATGCATCAGC
1 -A-GCCAGTGTAAGACATGTTTGGGACATGCATCAGC
60166690 ACGTATACAC
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 32 0.45
45 1 0.01
46 3 0.04
47 31 0.44
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCATGATGTT
Found at i:60174133 original size:47 final size:46
Alignment explanation
Indices: 60174065--60174324 Score: 188
Period size: 49 Copynumber: 5.5 Consensus size: 46
60174055 ATGATAGCCC
* * *
60174065 GTGTAAGACCACGTTTGGGACATGACATCGGCGTAGAGGTGAGTGCTA
1 GTGTAAGA-CATGTCTGGGACATG-CATCGGCCTAGAGGTGAGTGCTA
* *
60174113 GTGTAAGACATGTCTAGGACATGCATCGGCCTCGA--TGA-TGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGGTGAGTGCTA
* * * **
60174156 GCCAATGTAAGACGTGTCTGGGACATGCATCAG-CTA-AGTTTCGTGCTA
1 G----TGTAAGACATGTCTGGGACATGCATCGGCCTAGAGGTGAGTGCTA
* * *** *
60174204 GTGTAAGACATGTCTGGGACATGCATCAGCACGTATACACGAGAGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGC-C-TAGAGGTGAGTGCTA
* * * *
60174252 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGAGATTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGA-GGTGAGTGCTA
*
60174301 ATGTAAGATCATGTCTGGGACATG
1 GTGTAAGA-CATGTCTGGGACATG
60174325 GCAGCGGCAA
Statistics
Matches: 169, Mismatches: 29, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 6 0.04
44 30 0.18
45 1 0.01
46 13 0.08
47 40 0.24
48 31 0.18
49 41 0.24
50 7 0.04
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGGTGAGTGCTA
Found at i:60174135 original size:94 final size:93
Alignment explanation
Indices: 60173966--60174324 Score: 314
Period size: 94 Copynumber: 3.8 Consensus size: 93
60173956 GTTATGTGAG
* * * * * *
60173966 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGG-TATTGAGATAAGGGCTAGGGTAAGACGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA--GAGGTGAGTGCTAGTGTAAGACAT
*
60174030 GTTTGGGACATGCATCAGCTGCATCATGAT
64 GTCTGGGACATGCATCAGCTGCATCATGAT
* * * *
60174060 AGCCCGTGTAAGACCACGTTTGGGACATGACATCGGCGTAGAGGTGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTGCTAGTGTAAGACATG
* * * *
60174125 TCTAGGACATGCATCGGCCT-CGATGATGCT
65 TCTGGGACATGCATCAG-CTGC-ATCATGAT
* * * * **
60174155 AGCCAATGTAAGA-CGTGTCTGGGACAT-GCATCAGCTA-AGTTTCGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTGCTAGTGTAAGACATGT
* * * *
60174217 CTGGGACATGCATCAGCACGTATACACGAG
66 CTGGGACATGCATCAGC-TGCAT-CATGAT
* * * * * *
60174247 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGAGATTGCCAATGTAAGATCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTAGA-GGTGAGTGCTAGTGTAAGA-CA
60174312 TGTCTGGGACATG
63 TGTCTGGGACATG
60174325 GCAGCGGCAA
Statistics
Matches: 207, Mismatches: 45, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
90 1 0.00
91 38 0.18
92 15 0.07
93 19 0.09
94 83 0.40
95 21 0.10
96 3 0.01
97 12 0.06
98 15 0.07
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCTGCATCATGAT
Found at i:60174221 original size:44 final size:45
Alignment explanation
Indices: 60174107--60174280 Score: 145
Period size: 44 Copynumber: 3.7 Consensus size: 45
60174097 GTAGAGGTGA
* * *
60174107 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGATGATGC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTC-AAGATGC
* * * * *
60174154 -TAGCCAATGTAAGACGTGTCTGGGACATGCATCAGCT-AAGTTTC
1 GT-GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGC
* * * *
60174198 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATACACGA
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTC--A-AGATGC
*
60174246 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
60174281 GGCCTCGATG
Statistics
Matches: 101, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
44 35 0.35
45 1 0.01
46 3 0.03
47 29 0.29
48 14 0.14
49 14 0.14
50 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (45 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGC
Found at i:60177216 original size:27 final size:27
Alignment explanation
Indices: 60177185--60177362 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
60177175 TAAATTGTAC
* *
60177185 AGCACTAAGTGTGCGATTTGACTATTT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
60177212 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
60177238 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
60177266 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
60177293 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * * *
60177321 GGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
60177348 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60177363 GACTTAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:60177340 original size:55 final size:54
Alignment explanation
Indices: 60177185--60177362 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
60177175 TAAATTGTAC
* * **
60177185 AGCACTAAGTGTGCGATTTGACTATTTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * * *
60177238 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * * *
60177293 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
*
60177348 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60177363 GACTTAATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 59 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
Found at i:60178952 original size:48 final size:48
Alignment explanation
Indices: 60178914--60179059 Score: 204
Period size: 48 Copynumber: 3.0 Consensus size: 48
60178904 TTACACGATG
* * *
60178914 TCTCATATTGATGCCAATGCCATATCCCAAATATGGTCTTATATGGGA
1 TCTCATATTGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
*
60178962 TCAT-ATGTTGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TC-TCATATTGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
** * *
60179010 TCTCATAACGATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 TCTCATATTGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
60179058 TC
1 TC
60179060 ACACATAGCC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.01
48 85 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (48 bp):
TCTCATATTGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
Found at i:60183121 original size:34 final size:33
Alignment explanation
Indices: 60183049--60183121 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
60183039 GTGTGCATCT
* * * *
60183049 CTGATACTGTACTGAATTGGGCTAGGGCCTATA
1 CTGATACTGTACTGAAATGGGCTAAGGCCCACA
*
60183082 TTGATACTGTTACT-ATAATGGGCTAAGGCCCACA
1 CTGATACTG-TACTGA-AATGGGCTAAGGCCCACA
60183116 CTGATA
1 CTGATA
60183122 TTGCCATTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (33 bp):
CTGATACTGTACTGAAATGGGCTAAGGCCCACA
Found at i:60191203 original size:20 final size:20
Alignment explanation
Indices: 60191147--60191203 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
60191137 ACATGGTTGA
*
60191147 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
60191167 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
60191187 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
60191204 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:60191362 original size:24 final size:26
Alignment explanation
Indices: 60191254--60191349 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
60191244 GAGGAAGTGC
60191254 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
60191280 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
60191306 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
60191330 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
60191350 GTTAAAAGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 20 0.29
25 12 0.18
26 36 0.53
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:60193892 original size:34 final size:34
Alignment explanation
Indices: 60193824--60193894 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
60193814 ACTGAATTGA
* **
60193824 GCTAGGGCCCACACTGATACTGTTACTGTAATGG
1 GCTAAGGCCCACACTGATACTGCCACTGTAATGG
*
60193858 GCTAAGGCCCACACTGATATTGCCACTG-ATATGG
1 GCTAAGGCCCACACTGATACTGCCACTGTA-ATGG
60193892 GCT
1 GCT
60193895 TAAGCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
GCTAAGGCCCACACTGATACTGCCACTGTAATGG
Found at i:60196000 original size:10 final size:10
Alignment explanation
Indices: 60195985--60196009 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
60195975 GGGGAAGAAG
60195985 ATGATATAAA
1 ATGATATAAA
60195995 ATGATATAAA
1 ATGATATAAA
60196005 ATGAT
1 ATGAT
60196010 TTTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (10 bp):
ATGATATAAA
Found at i:60201542 original size:46 final size:46
Alignment explanation
Indices: 60201492--60201664 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
60201482 TGGTTGAGCA
*
60201492 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
60201538 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
60201585 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
60201631 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60201665 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.58
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:60201648 original size:93 final size:93
Alignment explanation
Indices: 60201489--60201659 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
60201479 GGATGGTTGA
* * *
60201489 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
*
60201554 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
60201582 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
60201647 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60201660 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60201925 original size:19 final size:20
Alignment explanation
Indices: 60201888--60201925 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60201878 ATAAGGTGGT
60201888 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
60201908 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
60201926 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:60215401 original size:50 final size:47
Alignment explanation
Indices: 60215145--60215460 Score: 451
Period size: 49 Copynumber: 6.5 Consensus size: 47
60215135 GATAGTATGG
60215145 CTAATGGCCGATGTGATG-ATGTGAAAGTGTGATATATGTGAATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGT-ATATATGTG-ATAAGGC
60215193 CTAATGGCCGAT-TGATGAAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATG-AATGTGAAAGTGTATATATGTGATAAGGC
*
60215240 CTAAT-GCCGATGTGATGAATGTGAAAGTGTATATAGGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
60215286 CTAATGGCCGATGTGATGAATTGTGAAAGTGTATATTTAGTGTGATAAGGC
1 CTAATGGCCGATGTGATGAA-TGTGAAAGTGTATA--TA-TGTGATAAGGC
**
60215337 CTAATGGCCGATGTGAATGAATGTGAAAGTGTTATATATTGTGATTGGGC
1 CTAATGGCCGATGTG-ATGAATGTGAAAGTG-TATATA-TGTGATAAGGC
*
60215387 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAG-GC
60215437 CTAATGGCCGA-GTGATGAATGTGA
1 CTAATGGCCGATGTGATGAATGTGA
60215461 TAAGCCCGAA
Statistics
Matches: 249, Mismatches: 7, Indels: 23
0.89 0.03 0.08
Matches are distributed among these distances:
46 39 0.16
47 36 0.14
48 35 0.14
49 48 0.19
50 47 0.19
51 35 0.14
52 9 0.04
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:60215480 original size:101 final size:96
Alignment explanation
Indices: 60215145--60215460 Score: 446
Period size: 94 Copynumber: 3.3 Consensus size: 96
60215135 GATAGTATGG
*
60215145 CTAATGGCCGATGTGATG-ATGTGAAAGTGTGATATATGTGAATAAGGCCTAATGGCCGAT-TGA
1 CTAATGGCCGATGTGATGAATGTGAAAGTGT-ATATTTGTG-ATAAGGCCTAATGGCCGATGTGA
60215208 TGAAATGTGAAAGTG--TATATATGTGATAAGGC
64 TG-AATGTGAAAGTGTATATATATGTGATAAGGC
**
60215240 CTAAT-GCCGATGTGATGAATGTGAAAGTGTATATAGGTGATAAGGCCTAATGGCCGATGTGATG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATTTGTGATAAGGCCTAATGGCCGATGTGATG
*
60215304 AATTGTGAAAGTGTATATTTAGTGTGATAAGGC
66 AA-TGTGAAAGTGTATATATA-TGTGATAAGGC
**
60215337 CTAATGGCCGATGTGAATGAATGTGAAAGTGTTATATATTGTGATTGGGCCTAATGGCCGATGTG
1 CTAATGGCCGATGTG-ATGAATGTGAAAGTG-TATAT-TTGTGATAAGGCCTAATGGCCGATGTG
*
60215402 ATGAATGTGAAAGTGTATATATATGTGATAGGCGC
63 ATGAATGTGAAAGTGTATATATATGTGATAAG-GC
60215437 CTAATGGCCGA-GTGATGAATGTGA
1 CTAATGGCCGATGTGATGAATGTGA
60215461 TAAGCCCGAA
Statistics
Matches: 202, Mismatches: 8, Indels: 19
0.88 0.03 0.08
Matches are distributed among these distances:
93 21 0.10
94 35 0.17
95 17 0.08
96 5 0.02
97 16 0.08
98 19 0.09
99 26 0.13
100 35 0.17
101 28 0.14
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (96 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATTTGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTATATATATGTGATAAGGC
Found at i:60215635 original size:36 final size:38
Alignment explanation
Indices: 60215581--60215658 Score: 99
Period size: 36 Copynumber: 2.1 Consensus size: 38
60215571 CCGAGCTCTA
* * *
60215581 AAGA-CCGATGACTACGTGTGGGGATTTTGT-C-GGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGGT
*
60215616 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGGT
60215654 AAGAC
1 AAGAC
60215659 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.11
36 22 0.61
37 1 0.03
38 9 0.25
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGGT
Found at i:60217604 original size:43 final size:43
Alignment explanation
Indices: 60217535--60217682 Score: 251
Period size: 43 Copynumber: 3.4 Consensus size: 43
60217525 TGGTTTCATA
60217535 GCACTAAGTTGTGGCGGGCAATAACTGTTCACGGTTGTGAGATTG
1 GCACTAAG-TGT-GCGGGCAATAACTGTTCACGGTTGTGAGATTG
*
60217580 GCACTAAGTGTGCGGGCAATAACTGTTCACGGTTGTGATATTG
1 GCACTAAGTGTGCGGGCAATAACTGTTCACGGTTGTGAGATTG
*
60217623 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAACTGTTCACGGTTGTGAGATTG
*
60217666 GCACTAAATGTGCGGGC
1 GCACTAAGTGTGCGGGC
60217683 TTGAAATGCA
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
43 88 0.89
44 3 0.03
45 8 0.08
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAACTGTTCACGGTTGTGAGATTG
Found at i:60217706 original size:29 final size:29
Alignment explanation
Indices: 60217664--60217736 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
60217654 GTTGTGAGAT
* * *
60217664 TGGCACTAAATGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
60217693 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
60217722 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
60217737 ATGGTTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:60218239 original size:39 final size:40
Alignment explanation
Indices: 60218125--60218260 Score: 215
Period size: 39 Copynumber: 3.5 Consensus size: 40
60218115 GAGTTACTAA
*
60218125 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGACGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG-TGATGT
60218166 ATCCGGGCTAAGTCCCGAAGAGCATTCATG-TAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
60218205 ATCCGGGCT-AGTTCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
60218244 AT-CGGGCTAAGTCCCGA
1 ATCCGGGCTAAGTCCCGA
60218261 GCAGCCGTAG
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
38 25 0.28
39 31 0.35
40 3 0.03
41 30 0.34
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:60224062 original size:39 final size:39
Alignment explanation
Indices: 60223916--60224248 Score: 329
Period size: 39 Copynumber: 8.5 Consensus size: 39
60223906 AGCATGATTA
* * *
60223916 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAATG
* ** *
60223956 CTCTTTGGGTTTAGCAC-GATATATCACTAGCACGAATG
1 CTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
60223994 CTCTTCGAACTTAG-CCGGATACATCACTAGCACGAATG
1 CTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
60224032 CTCCTCGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
60224071 CTCTTCGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
60224110 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAATG
* * * *
60224150 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTC-GGACTTAGCCCGGATATA-TCACTAGCACGAATG
* * *
60224191 --CTTCGGATCTTAG-TCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAATG
60224229 C-CTTCGGGACTTAGCCCGGA
1 CTCTTC-GGACTTAGCCCGGA
60224249 CATCATTCGA
Statistics
Matches: 247, Mismatches: 36, Indels: 20
0.82 0.12 0.07
Matches are distributed among these distances:
37 1 0.00
38 76 0.31
39 94 0.38
40 66 0.27
41 10 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:60224195 original size:118 final size:116
Alignment explanation
Indices: 60223973--60224248 Score: 301
Period size: 118 Copynumber: 2.4 Consensus size: 116
60223963 GGTTTAGCAC
* *
60223973 GATATATCACTAGCACGAATGCTCTTC-GAACTTAG-CCGGATACATCACTAGCACGAATGCTCC
1 GATACATCACTAGCA-GAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCC
* **
60224036 TCGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTC-GAACTTAGCCCG
65 TCGGACTTAGCCCGGATATATAACTAGCACCAATGC-CTTCGGAACTTAG-CCG
* * *
60224089 GATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCT
1 GATACATCACTAGCA-GAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCC
* * * *
60224154 TCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG-CTTCGGATCTTAGTCG
65 TC-GGACTTAGCCCGGATATA-TAACTAGCACCAATGCCTTCGGAACTTAGCCG
** * *
60224207 GATATGGTCACTTAGCACAAAGC-CTTCGGGACTTAGCCCGGA
1 GATA-CATCAC-TAGCAGAATGCTCTTCGGGACTTAGCCCGGA
60224249 CATCATTCGA
Statistics
Matches: 136, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
116 25 0.18
117 7 0.05
118 56 0.41
119 32 0.24
120 16 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (116 bp):
GATACATCACTAGCAGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCCT
CGGACTTAGCCCGGATATATAACTAGCACCAATGCCTTCGGAACTTAGCCG
Found at i:60224196 original size:79 final size:77
Alignment explanation
Indices: 60223928--60224171 Score: 298
Period size: 77 Copynumber: 3.1 Consensus size: 77
60223918 CTTCGGGACC
* * * * * * *
60223928 TAGCCCGGATATAACACCAGCACGAATGCTCTTTGGG-TTTAGCAC-GATATATCACTAGCACGA
1 TAGCCCGGATACATCACTAGCACGAATG--CTTCGGGACTTAGCCCGGATATATCACTAGCATGA
60223991 ATGCTCTTCGAACT
64 ATGCTCTTCGAACT
60224005 TAG-CCGGATACATCACTAGCACGAATGCTCCTC-GGACTTAGCCCGGATATATCACTAGCATGA
1 TAGCCCGGATACATCACTAGCACGAATGCT--TCGGGACTTAGCCCGGATATATCACTAGCATGA
60224068 ATGCTCTTCGAACT
64 ATGCTCTTCGAACT
* * *
60224082 TAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGA
1 TAGCCCGGATACATCACTAGCACGAATG--CTTCGGGACTTAGCCCGGATATATCACTAGCATGA
*
60224147 ATGCTCTTCGGGACT
64 ATGCTCTTC-GAACT
60224162 TAGCCCGGAT
1 TAGCCCGGAT
60224172 TTAGTAACTC
Statistics
Matches: 147, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
74 2 0.01
75 2 0.01
76 28 0.19
77 37 0.25
78 25 0.17
79 37 0.25
80 16 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (77 bp):
TAGCCCGGATACATCACTAGCACGAATGCTTCGGGACTTAGCCCGGATATATCACTAGCATGAAT
GCTCTTCGAACT
Found at i:60224203 original size:79 final size:76
Alignment explanation
Indices: 60223928--60224211 Score: 295
Period size: 79 Copynumber: 3.6 Consensus size: 76
60223918 CTTCGGGACC
* * * * ** * *
60223928 TAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGTTTAGCAC-GATATATCACTAGCACGAA
1 TAGCCCGGATACATCACTAGCACGAATG--CTTCGGACTTAGCCCGGATATATCACTAGCATGAA
60223992 TGCTCTTCGAACT
64 TGCTCTTCGAACT
60224005 TAG-CCGGATACATCACTAGCACGAATGCTCCTCGGACTTAGCCCGGATATATCACTAGCATGAA
1 TAGCCCGGATACATCACTAGCACGAATGCT--TCGGACTTAGCCCGGATATATCACTAGCATGAA
60224069 TGCTCTTCGAACT
64 TGCTCTTCGAACT
* * *
60224082 TAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGA
1 TAGCCCGGATACATCACTAGCACGAATG--CTTC-GGACTTAGCCCGGATATATCACTAGCATGA
*
60224147 ATGCTCTTCGGGACT
63 ATGCTCTTC-GAACT
** * * * *
60224162 TAGCCCGGATTTAGTAACTCGCACCAATGCTTCGGATCTTAG-TCGGATAT
1 TAGCCCGGATACA-TCACTAGCACGAATGCTTCGGA-CTTAGCCCGGATAT
60224212 GGTCACTTAG
Statistics
Matches: 177, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
74 2 0.01
76 30 0.17
77 37 0.21
78 34 0.19
79 46 0.26
80 17 0.10
81 11 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (76 bp):
TAGCCCGGATACATCACTAGCACGAATGCTTCGGACTTAGCCCGGATATATCACTAGCATGAATG
CTCTTCGAACT
Found at i:60224619 original size:29 final size:29
Alignment explanation
Indices: 60224553--60224620 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
60224543 CTTAATAATC
*
60224553 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
*
60224583 AACTCGCACACTTAGTGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
*
60224612 AGCCCGCAC
1 AACCCGCAC
60224621 TTATGCAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.09
29 27 0.82
30 3 0.09
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:60224748 original size:43 final size:43
Alignment explanation
Indices: 60224618--60224751 Score: 233
Period size: 40 Copynumber: 3.2 Consensus size: 43
60224608 TTCAAGCCCG
60224618 CACTTA-TG-CAATCTCACAACCGTGAACACTTATTGCCCGCA
1 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
60224659 CACTTAGTGCCAA--TCACAACCGTGAACA-TTATTGCCCGCA
1 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
60224699 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
1 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
60224742 CACTTAGTGC
1 CACTTAGTGC
60224752 TGAAAACCAA
Statistics
Matches: 88, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
40 25 0.28
41 21 0.24
42 17 0.19
43 25 0.28
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (43 bp):
CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
Found at i:60226656 original size:37 final size:37
Alignment explanation
Indices: 60226606--60226681 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
60226596 TTATTACGAA
* * *
60226606 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60226643 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60226680 GT
1 GT
60226682 TTAGAGCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60226888 original size:47 final size:47
Alignment explanation
Indices: 60226797--60227111 Score: 530
Period size: 47 Copynumber: 6.7 Consensus size: 47
60226787 GCCCTTCGGG
60226797 ACTTATCACATTCATCACATC-GCCATTAGGCC-TATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
**
60226845 ACTTTCACATTCATCACATCGGCCATTAGGCCCAATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
60226894 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
60226941 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTATA-AC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
60226987 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA-CACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
60227033 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
60227080 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
60227112 ATACTATCAT
Statistics
Matches: 258, Mismatches: 5, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
45 7 0.03
46 74 0.29
47 110 0.43
48 15 0.06
49 52 0.20
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:60227058 original size:139 final size:142
Alignment explanation
Indices: 60226797--60227111 Score: 532
Period size: 139 Copynumber: 2.2 Consensus size: 142
60226787 GCCCTTCGGG
60226797 ACTTATCACATTCATCACATC-GCCATTAGGCCTATCACATATATATACACTTTCACATTCATCA
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTATCACA-ATATATACACTTTCACATTCATCA
*
60226861 CATCGGCCATTAGGCCCAATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
64 CATCGGCCATTAGGCCC-ATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
60226926 TTATCACATATATAC
128 TTATCACATATATAC
*
60226941 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-CTATA-ACACTTTCACATTCATCAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACAATATATACACTTTCACATTCATCAC
*
60227004 ATCGGCCATTAGG-CC-TTACACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
65 ATCGGCCATTAGGCCCATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
60227067 ATCACATATATAC
130 ATCACATATATAC
60227080 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
60227112 ATACTATCAT
Statistics
Matches: 166, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
139 91 0.55
141 2 0.01
142 32 0.19
143 20 0.12
144 15 0.09
145 6 0.04
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (142 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACAATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCCATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATAC
Found at i:60249376 original size:14 final size:14
Alignment explanation
Indices: 60249359--60249388 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60249349 TTAAATCACG
*
60249359 AAAATTTCACACAT
1 AAAAATTCACACAT
60249373 AAAAATTCACACAT
1 AAAAATTCACACAT
60249387 AA
1 AA
60249389 TAAACATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATTCACACAT
Found at i:60250450 original size:77 final size:77
Alignment explanation
Indices: 60250323--60250475 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
60250313 TTAGCATAAC
* *
60250323 TTAGGGATTTTCATAGATTAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAATAA
1 TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
60250388 ATGAAGTCTAGT
66 ATGAAGTCTAGT
* *
60250400 TTAGGGATTTTCATGGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAT
1 TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
60250465 ATGAAGTCTAG
66 ATGAAGTCTAG
60250476 GTGGATTCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (77 bp):
TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
ATGAAGTCTAGT
Found at i:60255702 original size:45 final size:45
Alignment explanation
Indices: 60255606--60255756 Score: 144
Period size: 45 Copynumber: 3.4 Consensus size: 45
60255596 ATAAACTTGA
* * ** * *
60255606 ACCAATTCAACAAGCTCAGATGC-TCGCATCCATGATGAACTCAG
1 ACCAACTCAACAAGCTCAGATGCTTCACATATATCATGAACTCGG
* * *
60255650 ACCAACTCAACGAGCTCGGATGCTTCACATATATCATGAACTTGG
1 ACCAACTCAACAAGCTCAGATGCTTCACATATATCATGAACTCGG
* * * * *
60255695 ACCAACTCAACAAGTTCAGAT-TTCTCACACATATTACGAACTCGG
1 ACCAACTCAACAAGCTCAGATGCT-TCACATATATCATGAACTCGG
*
60255740 ACCAACTCAACGAGCTC
1 ACCAACTCAACAAGCTC
60255757 GGATATCTAA
Statistics
Matches: 86, Mismatches: 19, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
44 21 0.24
45 65 0.76
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.22
Consensus pattern (45 bp):
ACCAACTCAACAAGCTCAGATGCTTCACATATATCATGAACTCGG
Found at i:60258726 original size:135 final size:134
Alignment explanation
Indices: 60258485--60258757 Score: 451
Period size: 135 Copynumber: 2.0 Consensus size: 134
60258475 ATATGCCAAC
* * *
60258485 ACCATAAAGAAACAAAAGTCCTAGTGATTATCTTAAGTGATAGAGAAGATGAAAGTGAGTAGTAG
1 ACCATAAAGAAACAAAAGTCATAGTGATTATATTAAATGATAGAGAAGATGAAAGTGAGTAGTAG
60258550 ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
66 ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
*
60258615 GATA
131 GACA
* *
60258619 ACCATAAAGAAACAAAAGTCTATAGTGGTTATATTAAATGAT-GAAGAAGATGAAAGTGAGTACT
1 ACCATAAAGAAACAAAAGTC-ATAGTGATTATATTAAATGATAG-AGAAGATGAAAGTGAGTA-G
60258683 TAGACTCAGAT-AAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAG
63 TAGACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAG
60258747 ACAGACA
128 ACAGACA
60258754 ACCA
1 ACCA
60258758 AAAAATCTGT
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
134 21 0.16
135 98 0.75
136 11 0.08
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (134 bp):
ACCATAAAGAAACAAAAGTCATAGTGATTATATTAAATGATAGAGAAGATGAAAGTGAGTAGTAG
ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
GACA
Found at i:60287226 original size:16 final size:16
Alignment explanation
Indices: 60287205--60287249 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
60287195 ATGTATCGGC
*
60287205 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
60287221 AAAAGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
60287237 AAATA-CCGAAAAG
1 AAA-AGCCGAAAAG
60287250 TCGAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.56, C:0.22, G:0.18, T:0.04
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:60287234 original size:8 final size:8
Alignment explanation
Indices: 60287205--60287255 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
60287195 ATGTATCGGC
60287205 AAAAGCCG
1 AAAAGCCG
* *
60287213 AAATGCCA
1 AAAAGCCG
60287221 AAAAGCCG
1 AAAAGCCG
60287229 AAAAGCC-
1 AAAAGCCG
*
60287236 AAAATACCG
1 AAAA-GCCG
*
60287245 AAAAGTCG
1 AAAAGCCG
60287253 AAA
1 AAA
60287256 GTTTGGCTAC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
7 4 0.12
8 26 0.76
9 4 0.12
ACGTcount: A:0.55, C:0.22, G:0.18, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:60287240 original size:24 final size:24
Alignment explanation
Indices: 60287205--60287255 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
60287195 ATGTATCGGC
* *
60287205 AAAAGCCGAAATGCCAAAAAGCCG
1 AAAAGCCAAAATACCAAAAAGCCG
* *
60287229 AAAAGCCAAAATACCGAAAAGTCG
1 AAAAGCCAAAATACCAAAAAGCCG
60287253 AAA
1 AAA
60287256 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.22, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAAGCCAAAATACCAAAAAGCCG
Found at i:60296846 original size:58 final size:57
Alignment explanation
Indices: 60296774--60296883 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 57
60296764 TGAATGTGAC
* *
60296774 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
60296832 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCTAGATACAGG
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGG
60296884 CATGTGAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:60296871 original size:28 final size:29
Alignment explanation
Indices: 60296761--60296873 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 29
60296751 GTGAGCATGA
* *
60296761 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
60296789 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
60296818 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
60296847 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATGAATGTGATTTGGGCCTAATGGGC
60296874 TAGATACAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:60307915 original size:21 final size:21
Alignment explanation
Indices: 60307890--60307929 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60307880 TGGATAATCC
* *
60307890 ACCACATATTTGCCAATAATG
1 ACCACATAATTGCAAATAATG
60307911 ACCACATAATTGCAAATAA
1 ACCACATAATTGCAAATAA
60307930 ACTGTCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (21 bp):
ACCACATAATTGCAAATAATG
Found at i:60310370 original size:23 final size:23
Alignment explanation
Indices: 60310340--60310385 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60310330 CCTAAGGGGG
*
60310340 AGAGAGTTGTAACAGCTCGTTTT
1 AGAGAGTTATAACAGCTCGTTTT
60310363 AGAGAGTTATAACAGCTCGTTTT
1 AGAGAGTTATAACAGCTCGTTTT
60310386 TAGTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (23 bp):
AGAGAGTTATAACAGCTCGTTTT
Found at i:60321434 original size:15 final size:14
Alignment explanation
Indices: 60321390--60321441 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
60321380 TCGTATATAG
60321390 GGTTTGCACATACA
1 GGTTTGCACATACA
* **
60321404 GGTTCGCATTTACA
1 GGTTTGCACATACA
60321418 GGATTTGCACATACA
1 GG-TTTGCACATACA
60321433 GGGTTTGCA
1 -GGTTTGCA
60321442 TGTAGGGTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 13 0.43
15 15 0.50
16 2 0.07
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (14 bp):
GGTTTGCACATACA
Found at i:60321495 original size:23 final size:24
Alignment explanation
Indices: 60321445--60321508 Score: 103
Period size: 23 Copynumber: 2.7 Consensus size: 24
60321435 GTTTGCATGT
60321445 AGGGTTCGCATAATAAATCACATA
1 AGGGTTCGCATAATAAATCACATA
*
60321469 AGGGTTCGCATATTAAATC-CATA
1 AGGGTTCGCATAATAAATCACATA
*
60321492 AGGGTTTGCATAATAAA
1 AGGGTTCGCATAATAAA
60321509 ACATATAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (24 bp):
AGGGTTCGCATAATAAATCACATA
Found at i:60321580 original size:24 final size:24
Alignment explanation
Indices: 60321541--60321624 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
60321531 AAATTCAAAA
* *
60321541 AGGTTTGCAGAATAAAACATATGG
1 AGGTTTGCATACTAAAACATATGG
* *
60321565 AGGTTTGCATACTAAATCATAT-T
1 AGGTTTGCATACTAAAACATATGG
* * *
60321588 AGAGTTTTCATATTAAAACATAAGG
1 AG-GTTTGCATACTAAAACATATGG
*
60321613 GGGTTTGCATAC
1 AGGTTTGCATAC
60321625 CAAATCCATA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
23 2 0.04
24 43 0.93
25 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (24 bp):
AGGTTTGCATACTAAAACATATGG
Found at i:60322149 original size:17 final size:17
Alignment explanation
Indices: 60322111--60322155 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
60322101 AAGATTAGGA
*
60322111 ATTAATTTAGAATTAGAG
1 ATTAATTTA-AATTAAAG
60322129 -TTAATTTAAATTAAAG
1 ATTAATTTAAATTAAAG
*
60322145 ATTAAATTAAA
1 ATTAATTTAAA
60322156 AAATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (17 bp):
ATTAATTTAAATTAAAG
Found at i:60325077 original size:18 final size:18
Alignment explanation
Indices: 60325054--60325089 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60325044 AAATTACTTT
60325054 TCAAAAACACTTTCGGAG
1 TCAAAAACACTTTCGGAG
* *
60325072 TCAAAAGCACTTTTGGAG
1 TCAAAAACACTTTCGGAG
60325090 CTATAAAAAT
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:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (18 bp):
TCAAAAACACTTTCGGAG
Found at i:60326372 original size:19 final size:19
Alignment explanation
Indices: 60326345--60326471 Score: 167
Period size: 18 Copynumber: 6.9 Consensus size: 19
60326335 ATAATCTTCA
60326345 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
60326364 GTCATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
60326383 ATGATA--CAATCTTTAGAT
1 ATGATATGCAATC-TTAGAT
*
60326401 ATGAT-TGCAATCTTTGAT
1 ATGATATGCAATCTTAGAT
60326419 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
60326436 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
60326454 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
60326472 AGATATGATT
Statistics
Matches: 94, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
17 20 0.21
18 37 0.39
19 37 0.39
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:60326429 original size:53 final size:55
Alignment explanation
Indices: 60326345--60326471 Score: 170
Period size: 53 Copynumber: 2.3 Consensus size: 55
60326335 ATAATCTTCA
*
60326345 ATGATATGCAATCTTAGATGTCATATGCAATCTTAGATATGA-TACAATCTTTAGAT
1 ATGATATGCAATCTTAGATATCATA-GCAATCTTAGATATGATTACAATC-TTAGAT
* * *
60326401 ATGAT-TGCAATCTTTGATATGATA-CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATCATAGCAATCTTAGATATGATTACAATCTTAGAT
*
60326454 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
60326472 AGATATGATT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 26 0.41
54 16 0.25
55 16 0.25
56 5 0.08
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (55 bp):
ATGATATGCAATCTTAGATATCATAGCAATCTTAGATATGATTACAATCTTAGAT
Found at i:60328617 original size:93 final size:93
Alignment explanation
Indices: 60328458--60328629 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
60328448 CGCCCATAAG
* *
60328458 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTAAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTAAACTCAGACTCAACTCA
60328523 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * * *
60328551 CGAACTCGGACTGAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTAAACTCAGACTCAACTCA
60328616 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
60328630 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTAAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60328626 original size:46 final size:46
Alignment explanation
Indices: 60328451--60328626 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
60328441 TGTAACCCGC
* * *
60328451 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
** *
60328497 CCATAAGTAAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
60328547 -C-TCA-CGAACTCGGACTGAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* *
60328590 CCATAAGTGAACTCTGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60328627 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:60335791 original size:84 final size:86
Alignment explanation
Indices: 60335591--60335796 Score: 262
Period size: 87 Copynumber: 2.4 Consensus size: 86
60335581 AAATTCAGAA
*
60335591 CCTTAATCGCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
60335655 GGGAACAGATCAACGACGACTCG
66 GGGAACAGATCAAC-AC-ACTCG
*** *
60335678 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTC-AAAATTGTGGATCTTATCTCCCTAAGTAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
60335742 TGGAGCAGATCGAA-A-A-TGCG
66 GGGAACAGATC-AACACACT-CG
*
60335762 CCTTAACCCCCTAAGCAGTAGGGTAACAGGT-TAAA
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAA
60335797 GTATAGCAAA
Statistics
Matches: 107, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
83 1 0.01
84 36 0.34
86 1 0.01
87 66 0.62
88 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (86 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
GGGAACAGATCAACACACTCG
Found at i:60336602 original size:206 final size:207
Alignment explanation
Indices: 60335921--60336617 Score: 1112
Period size: 207 Copynumber: 3.4 Consensus size: 207
60335911 CGGAGAGCAG
* *
60335921 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGA-TGAAGCAAATCTAAGATGATTTGGC
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA-CATTGAAGCAAATCTAAGATGATTTGGC
* * * *
60335985 ATATCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACA
65 ATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGGTAGACACA
* *
60336050 TAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTCGCATCCTTATGC
130 TAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGC
*
60336115 TTATAAGGAACAA
195 TTACAAGGAACAA
*
60336128 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
60336193 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCA-TCTCCATATTCGACGGAGGGTAGACACA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG-AGTCTCCATATTCGACGGAGGGTAGACACA
* ** *
60336257 TAGCAAATCTGGCCTTCAGATGTTTATACTGCAGCAAGATCCAAGATGGTTTGGCATCCTTGTGC
130 TAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGC
60336322 TTACAAGGAACAA
195 TTACAAGGAACAA
* * *
60336335 ATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
* *
60336400 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGATAGACATAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGGTAGACACAT
* * * *
60336465 AACAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCT
131 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
60336529 TACAAGGAGCAA
196 TACAAGGAACAA
* * *
60336541 ATCGAAGACATAGCTGATTGGGCTTTCGCGTGTTTACACTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
60336606 TCTCTGTATTGT
66 TCTCTGTATTGT
60336618 TAGGGACCAA
Statistics
Matches: 454, Mismatches: 33, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
206 113 0.25
207 341 0.75
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGGTAGACACAT
AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:60336978 original size:18 final size:18
Alignment explanation
Indices: 60336930--60337073 Score: 193
Period size: 18 Copynumber: 7.9 Consensus size: 18
60336920 ATAATCTTCA
60336930 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
60336949 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
60336968 ATGATTGCAATATTAGAT
1 ATGATTGCAATCTTAGAT
* *
60336986 ATGA-TACAATCATAGAT
1 ATGATTGCAATCTTAGAT
60337003 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
60337021 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
60337038 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
60337056 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
60337074 AGATATGATT
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
17 30 0.27
18 48 0.43
19 33 0.30
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:60337003 original size:35 final size:35
Alignment explanation
Indices: 60336930--60337073 Score: 216
Period size: 35 Copynumber: 4.0 Consensus size: 35
60336920 ATAATCTTCA
*
60336930 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATA--CAATCTTAGAT
* *
60336968 ATGATTGCAATATTAGATATGATACAATCATAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
60337003 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
60337038 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
60337074 AGATATGATT
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
35 64 0.65
37 30 0.30
38 5 0.05
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:60339329 original size:36 final size:36
Alignment explanation
Indices: 60339260--60339332 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
60339250 AATAATTTTC
*
60339260 TATATTATAGGAAATAGAAGGTAAATAGAAGTAGTT
1 TATATTATAGGAAATAGAAGGCAAATAGAAGTAGTT
* *
60339296 TATATTATAGGAAGTAGAAGGCAACTA-AGAGTAGTT
1 TATATTATAGGAAATAGAAGGCAAATAGA-AGTAGTT
60339332 T
1 T
60339333 TCCTATGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (36 bp):
TATATTATAGGAAATAGAAGGCAAATAGAAGTAGTT
Found at i:60339358 original size:23 final size:23
Alignment explanation
Indices: 60339328--60339373 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60339318 AACTAAGAGT
60339328 AGTTTTCCTATGTCAATTCTAAG
1 AGTTTTCCTATGTCAATTCTAAG
*
60339351 AGTTTTCCTATTTCAATTCTAAG
1 AGTTTTCCTATGTCAATTCTAAG
60339374 TACGATTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (23 bp):
AGTTTTCCTATGTCAATTCTAAG
Found at i:60350872 original size:15 final size:15
Alignment explanation
Indices: 60350845--60350884 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
60350835 CACAAATGAC
60350845 TAAATTATAAAATTTT
1 TAAATT-TAAAATTTT
60350861 TAAATTTAAAATTTT
1 TAAATTTAAAATTTT
60350876 TAAATTTAA
1 TAAATTTAA
60350885 GTGATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATTTAAAATTTT
Found at i:60350923 original size:18 final size:19
Alignment explanation
Indices: 60350898--60350935 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
60350888 ATATAAATAA
*
60350898 ATTTTTTAAAAAATATTTT
1 ATTTTTAAAAAAATATTTT
60350917 ATTTTTAAAAAAATATTTT
1 ATTTTTAAAAAAATATTTT
60350936 CCTTCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTAAAAAAATATTTT
Found at i:60350944 original size:19 final size:19
Alignment explanation
Indices: 60350905--60350952 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
60350895 TAAATTTTTT
* *
60350905 AAAAAATATTTTATTTTTA
1 AAAAAATATTTTACTTCTA
*
60350924 AAAAAATATTTTCCTTCTA
1 AAAAAATATTTTACTTCTA
60350943 AAAATAATAT
1 AAAA-AATAT
60350953 CATAATACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAAATATTTTACTTCTA
Found at i:60351519 original size:17 final size:17
Alignment explanation
Indices: 60351490--60351522 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60351480 ACTCTTTTTG
60351490 TTAAATAATTTGGAACC
1 TTAAATAATTTGGAACC
60351507 TTAAA-AATGTTGGAAC
1 TTAAATAAT-TTGGAAC
60351523 ATTTTTAAAA
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:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (17 bp):
TTAAATAATTTGGAACC
Found at i:60352472 original size:4 final size:4
Alignment explanation
Indices: 60352463--60352494 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
60352453 TATATCATGC
*
60352463 AAGA AAGA AAGA AAGA AAGA AATA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
60352495 GGATGGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:60358683 original size:38 final size:38
Alignment explanation
Indices: 60358632--60358708 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
60358622 CATAACAGGT
*
60358632 TATACTATAAAGAATGACGTTGGGTATGTCACAGTCTA
1 TATACTATAAAGAATGACGTTGGGTATGTCACAATCTA
*
60358670 TATACTATAAAGAATGATGTTGGGTATGTCACAATCTA
1 TATACTATAAAGAATGACGTTGGGTATGTCACAATCTA
60358708 T
1 T
60358709 GTAGTGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (38 bp):
TATACTATAAAGAATGACGTTGGGTATGTCACAATCTA
Found at i:60363985 original size:28 final size:27
Alignment explanation
Indices: 60363926--60363981 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
60363916 AGATTAAAAT
*
60363926 ATAAATTGTTAAAAATTAGTTTTTAAC
1 ATAAATTGTTAAAAAATAGTTTTTAAC
60363953 ATAAATTGTTAAAAAATAGTTTTTAAC
1 ATAAATTGTTAAAAAATAGTTTTTAAC
60363980 AT
1 AT
60363982 TAAAGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
ATAAATTGTTAAAAAATAGTTTTTAAC
Found at i:60363996 original size:27 final size:26
Alignment explanation
Indices: 60363926--60363996 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
60363916 AGATTAAAAT
* *
60363926 ATAAATTGTTAAAAATTAGTTTTTAAC
1 ATAAA-TGTAAAAAAATAGTTTTTAAC
*
60363953 ATAAATTGTTAAAAAATAGTTTTTAAC
1 ATAAA-TGTAAAAAAATAGTTTTTAAC
60363980 ATTAAA-GTAAAAGAAAT
1 A-TAAATGTAAAA-AAAT
60363997 TAAATTAGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 5 0.12
27 31 0.77
28 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (26 bp):
ATAAATGTAAAAAAATAGTTTTTAAC
Found at i:60364454 original size:9 final size:9
Alignment explanation
Indices: 60364440--60364522 Score: 71
Period size: 9 Copynumber: 9.0 Consensus size: 9
60364430 ACACCGCTCA
*
60364440 AAATCATTT
1 AAATAATTT
*
60364449 AAATCATTTT
1 AAAT-AATTT
*
60364459 AATTAATTT
1 AAATAATTT
60364468 AAATAATTTT
1 AAATAA-TTT
* *
60364478 AATTAGCTTT
1 AAATA-ATTT
60364488 --ATAATTT
1 AAATAATTT
60364495 AAATAATTT
1 AAATAATTT
60364504 AAATAATTT
1 AAATAATTT
60364513 AAATTAATTT
1 AAA-TAATTT
60364523 TCTTGTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
7 3 0.05
8 2 0.03
9 32 0.54
10 22 0.37
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (9 bp):
AAATAATTT
Found at i:60369984 original size:40 final size:40
Alignment explanation
Indices: 60369924--60370107 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
60369914 TATTCGAATG
*
60369924 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
60369964 ATATCCGGACCAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
60370004 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
60370044 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
60370084 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
60370108 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 117 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:60370064 original size:80 final size:79
Alignment explanation
Indices: 60369924--60370143 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 79
60369914 TATTCGAATG
* * * * *
60369924 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACCAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCAAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGC
* *
60369988 ATTTGTGCGAGTTG-CT
64 ATTTATGCGAG-TGACC
*
60370004 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
60370069 TTTATGCTAGTGACC
65 TTTATGCGAGTGACC
* * ** *
60370084 ATATCCGGGCTAAGACCCAAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCAAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
60370144 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 14 0.11
79 19 0.16
80 89 0.73
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCAAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCGAGTGACC
Found at i:60384474 original size:42 final size:43
Alignment explanation
Indices: 60384365--60384478 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 43
60384355 AAGTAAATAC
* * * * * *
60384365 AATGCCAACGTCCCAGACGTGGTCTTACATGTAATTAAACATT
1 AATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACATG
* * * * * *
60384408 AATGCCACTGTCCTAGATAGGGTCTTACACGAAATCATATATG
1 AATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACATG
60384451 AA-GCCAATGTCCCAGACATGGTCTTACA
1 AATGCCAATGTCCCAGACATGGTCTTACA
60384479 TGTAAAACAG
Statistics
Matches: 55, Mismatches: 16, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
42 22 0.40
43 33 0.60
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACATG
Found at i:60390800 original size:49 final size:49
Alignment explanation
Indices: 60390685--60390858 Score: 258
Period size: 49 Copynumber: 3.5 Consensus size: 49
60390675 TGAGGTCGCA
* *** **
60390685 TGTGTAGTACTAAGTGCAGGCAACTACGTGTATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
60390735 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
60390784 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
60390833 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
60390859 TGCGTACCAG
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 79 0.69
50 36 0.31
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:60392079 original size:47 final size:47
Alignment explanation
Indices: 60392001--60392997 Score: 1627
Period size: 47 Copynumber: 20.7 Consensus size: 47
60391991 CCCTTCGGGA
* * * * * *
60392001 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60392048 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392095 CTTATCACATATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392142 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392189 CTTATCACATATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392238 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392336 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392385 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392432 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392479 CTTATCTCATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
60392528 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392577 CTTATCACATATATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392624 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392671 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392722 CTTAGCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392771 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392820 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392916 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60392963 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
60392998 AGAATCCTAA
Statistics
Matches: 914, Mismatches: 25, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 440 0.48
49 424 0.46
51 49 0.05
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60392222 original size:49 final size:49
Alignment explanation
Indices: 60392001--60392976 Score: 1659
Period size: 49 Copynumber: 20.3 Consensus size: 49
60391991 CCCTTCGGGA
* * * * *
60392001 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60392048 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392095 CTTATCAC--ATATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392142 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392189 CTTATCACATATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392238 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392336 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392385 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392432 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60392479 CTTATCTCATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392528 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392577 CTTATCAC--ATATATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392624 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392671 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392722 CTTAGCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392771 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392820 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392869 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392916 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392963 CTTATCTCATATAT
1 CTTATCACATATAT
60392977 GCATGTTCAC
Statistics
Matches: 893, Mismatches: 24, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 412 0.46
49 434 0.49
51 46 0.05
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60392446 original size:192 final size:192
Alignment explanation
Indices: 60392001--60392997 Score: 1670
Period size: 192 Copynumber: 5.2 Consensus size: 192
60391991 CCCTTCGGGA
* * * * * * * *
60392001 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
60392066 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTAACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
60392129 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392189 CTTATCACATATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
60392254 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
*
60392319 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGG
127 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
60392384 C
192 C
60392385 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
60392450 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATGTATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
60392515 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60392577 CTTATCACATATATACACTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
60392642 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCATCA
*
60392707 CATCGGCCATTAGGCCTTAGCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60392771 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
60392836 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
60392899 CACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGG
127 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
60392962 C
192 C
* * *
60392963 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
60392998 AGAATCCTAA
Statistics
Matches: 771, Mismatches: 23, Indels: 28
0.94 0.03 0.03
Matches are distributed among these distances:
188 8 0.01
189 1 0.00
190 62 0.08
192 327 0.42
194 234 0.30
196 92 0.12
198 47 0.06
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (192 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60397066 original size:40 final size:39
Alignment explanation
Indices: 60397034--60397465 Score: 549
Period size: 40 Copynumber: 10.8 Consensus size: 39
60397024 CCAGCATGAT
* * *
60397034 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCG-GACTTAGCCCGGATATATCACTAGCACGAA
** *
60397074 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
60397114 TGCTCTTCGTAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCG-GACTTAGCCCGGATATATCACTAGCACGAA
* * *
60397154 TGCTCTTCAGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
*
60397194 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAA
*
60397234 TGCTCTTTGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTC-TTCGGACTTAGCCCGGATATATCACTAGCACGAA
60397274 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
* *
60397314 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAA
* *
60397354 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAA
* *
60397394 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAA
* * *
60397434 TGCTCTTCGGGATTTAGCCCGGACATTTCACT
1 TGCTCTTC-GGACTTAGCCCGGATATATCACT
60397466 CTCAATTCTC
Statistics
Matches: 352, Mismatches: 32, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
39 7 0.02
40 337 0.96
41 8 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
TGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:60399014 original size:49 final size:49
Alignment explanation
Indices: 60398851--60399431 Score: 993
Period size: 49 Copynumber: 12.0 Consensus size: 49
60398841 TTACCACATT
* * * * * * *
60398851 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60398898 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60398945 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60398994 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60399043 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60399092 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60399139 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
*
60399190 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAGCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60399239 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60399288 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60399335 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
60399382 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
60399431 T
1 T
60399432 GCATGTTCTC
Statistics
Matches: 516, Mismatches: 10, Indels: 14
0.96 0.02 0.03
Matches are distributed among these distances:
47 224 0.43
49 246 0.48
51 46 0.09
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:60404294 original size:26 final size:25
Alignment explanation
Indices: 60404265--60404313 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
60404255 CCCTAGTCGG
* *
60404265 GAAGTGGTTTCGGGACCGCTAAACGC
1 GAAGTCGTATCGGGA-CGCTAAACGC
60404291 GAAGTCGTATCGGGACGCTAAAC
1 GAAGTCGTATCGGGACGCTAAAC
60404314 CGAGTCACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (25 bp):
GAAGTCGTATCGGGACGCTAAACGC
Found at i:60406423 original size:27 final size:27
Alignment explanation
Indices: 60406392--60406569 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60406382 TAAATTGTAC
60406392 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60406419 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60406445 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60406473 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60406501 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60406528 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60406555 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60406570 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60406506 original size:82 final size:81
Alignment explanation
Indices: 60406393--60406548 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60406383 AAATTGTACA
* *
60406393 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60406457 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60406474 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60406539 TGCGAGTTGA
65 TGCGAATTGA
60406549 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Done.