Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold165
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: 1947055
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.31
Warning! 52078 characters in sequence are not A, C, G, or T
File 7 of 11
Found at i:1317504 original size:33 final size:33
Alignment explanation
Indices: 1317462--1317528 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1317452 GCCAAGGAAA
***
1317462 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1317495 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1317528 T
1 T
1317529 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1319993 original size:52 final size:51
Alignment explanation
Indices: 1319871--1320205 Score: 216
Period size: 52 Copynumber: 6.4 Consensus size: 51
1319861 ATCAATTCTC
* * * *
1319871 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
** * *
1319921 CTTTAATCGGGAATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAATTTTT
* * * ** * *
1319974 CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGATTTTAT-TTC--CAAAACACCAA-----TT-TTT
* * * ** * *
1320032 -TCGA--GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
* * * *
1320080 CCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTC
1 -CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAATTTTT
** *
1320132 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAATTTTT
*
1320185 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
1320206 CTCGTTATTT
Statistics
Matches: 214, Mismatches: 49, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 7 0.03
51 35 0.16
52 111 0.52
53 21 0.10
54 6 0.03
55 17 0.08
56 1 0.00
57 8 0.04
58 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
Found at i:1320225 original size:28 final size:28
Alignment explanation
Indices: 1320189--1320265 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1320179 ATTTTTCACA
* * *
1320189 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1320217 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1320245 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1320266 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1320305 original size:211 final size:210
Alignment explanation
Indices: 1319866--1320308 Score: 649
Period size: 211 Copynumber: 2.1 Consensus size: 210
1319856 AGTTTATCAA
* * *
1319866 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTTTAATCGG
1 TTCTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTTTAATCGG
*
1319931 GAATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAACC
66 GAATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACC
* * * *
1319996 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGGTTTTAT
131 CCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
*
1320061 CGCTAAAACACTAAT
196 CGCCAAAACACTAAT
* * *
1320076 TTTTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 TTCTCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTTTAATC
*
1320140 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
64 GGGAATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
* *
1320205 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
129 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
* * *
1320270 TATTC-CCAAAATATTGAT
193 TA-TCGCCAAAACACTAAT
* *
1320288 TTCT-CATAATTGGGGATACTC
1 TTCTCCACAATCGGGGATACTC
1320309 TAACCCCGTT
Statistics
Matches: 208, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
209 3 0.01
210 45 0.22
211 93 0.45
212 65 0.31
213 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (210 bp):
TTCTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTTTAATCGG
GAATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
CGCCAAAACACTAAT
Found at i:1320332 original size:107 final size:107
Alignment explanation
Indices: 1319933--1320344 Score: 302
Period size: 107 Copynumber: 3.9 Consensus size: 107
1319923 TTAATCGGGA
* * * *
1319933 ATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAACCCC
1 ATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCCC
* * * *
1319998 GTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
66 GTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGAGGGG
* * * * * * * * *
1320040 ATACTCCAACTCCG-GTTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAATC
1 ATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCCAACC
* * ***** * * ** * *
1320103 CTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--GGGG
64 CCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGAGGGG
* * * *
1320144 ATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTC
1 ATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCCC
1320209 GTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGG
66 GTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGG
* * *** * * * *
1320252 ATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCTAACCCC
1 ATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCCC
*
1320316 GTTATTT-TCGAAGGGATACTCCAATCCCG
66 GTTATTTATCG--GGGATACTCCAACCCCG
1320345 ATTTTTTTTT
Statistics
Matches: 235, Mismatches: 56, Indels: 28
0.74 0.18 0.09
Matches are distributed among these distances:
104 45 0.19
105 27 0.11
106 41 0.17
107 96 0.41
108 26 0.11
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
ATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCCC
GTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGAGGGG
Found at i:1320368 original size:79 final size:79
Alignment explanation
Indices: 1320219--1320423 Score: 225
Period size: 79 Copynumber: 2.6 Consensus size: 79
1320209 GTTATTTCAT
* * * *
1320219 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
1320284 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * ** *
1320298 TGGGGATACTCTAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
1320362 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* *
1320377 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
1320424 TTATTATCTC
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 8 0.08
79 96 0.92
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:1322308 original size:156 final size:156
Alignment explanation
Indices: 1321965--1322361 Score: 501
Period size: 156 Copynumber: 2.6 Consensus size: 156
1321955 AACTGAATCC
* ** * * *
1321965 TAGGTTGTCACCGGGTTTGCTTTTATGCCAAAGGTAGGTATTTAGGATAGGTTCACCCCAGTTAT
1 TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCATTTAT
* * * * * * *
1322030 AA-CCCTTTTAAGTCTTTTAGGGGTATTAGGTACTTTTATGGCAAAGGTATCCCCTAAGGGGCAT
66 AATCCTTTTTAAGTCCTTTAGGGATATTAGGCACTTCTACGGCAAAGATATCCCCTAAGGGGCAT
* *
1322094 TTTTGTAATTTTTTAGAACCAAGTCT
131 TTTGGTAATTTTTTAGAACCAAGGCT
* * * * *
1322120 TAAGTTATCACCGAGTCCGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTTG
1 TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCA-TTTA
* * * * *
1322185 TAATCATTTTTAAGTCCTTTAGGGATATTGGGCACTTCTACGTCGAAGATATCCCTTAA-GGGCA
65 TAATCCTTTTTAAGTCCTTTAGGGATATTAGGCACTTCTACGGCAAAGATATCCCCTAAGGGGCA
*
1322249 TTTTGGTAATTTTTTAGAACTAAGGCT
130 TTTTGGTAATTTTTTAGAACCAAGGCT
* * * *
1322276 TAGGTTGTCACTGAGTCCGCTTTTATGTCGAAGGTAGGTATTTAGGATAGGTTCGTCCCATCTAT
1 TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCATTTAT
1322341 AATCCTTTTTAAGTCCTTTAG
66 AATCCTTTTTAAGTCCTTTAG
1322362 AGGTACCAGG
Statistics
Matches: 204, Mismatches: 36, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
155 74 0.36
156 87 0.43
157 43 0.21
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (156 bp):
TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCATTTAT
AATCCTTTTTAAGTCCTTTAGGGATATTAGGCACTTCTACGGCAAAGATATCCCCTAAGGGGCAT
TTTGGTAATTTTTTAGAACCAAGGCT
Found at i:1322414 original size:155 final size:153
Alignment explanation
Indices: 1321965--1322417 Score: 514
Period size: 155 Copynumber: 2.9 Consensus size: 153
1321955 AACTGAATCC
* ** * *
1321965 TAGGTTGTCACCGGGTTTGCTTTTATGCCAAAGGTAGGTATTTAGGATAGGTTCACCCCAGTTAT
1 TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCAGTTAT
* * * * * *
1322030 AA-CCCTTTTAAGTCTTTTAGGGGTATTAGGTACTTTTATGGCAAAGGTATCCCCTAAGGGGCAT
66 AATCCTTTTTAAGTCCTTTA-GGGTATTAGGTACTTCTACGTCGAAGGTAT-CCCTAA-GGGCAT
* *
1322094 TTTTGTAATTTTTTAGAACCAAGTCT
128 TTTCGTAATTTTTTAGAACCAAGGCT
* * * * * *
1322120 TAAGTTATCACCGAGTCCGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTTG
1 TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCA-GTTA
* * * *
1322185 TAATCATTTTTAAGTCCTTTAGGGATATTGGGCACTTCTACGTCGAAGATATCCCTTAAGGGCAT
65 TAATCCTTTTTAAGTCCTTTAGGG-TATTAGGTACTTCTACGTCGAAGGTATCCC-TAAGGGCAT
* *
1322250 TTTGGTAATTTTTTAGAACTAAGGCT
128 TTTCGTAATTTTTTAGAACCAAGGCT
* * *
1322276 TAGGTTGTCACTGAGTCCGCTTTTATGTCGAAGGTAGGTATTTAGGATAGGTTCGTCCCA-TCTA
1 TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCAGT-TA
** * * *
1322340 TAATCCTTTTTAAGTCCTTTAGAGGTACCAGGTACTTCTACATCGAAGGTATCCTCTAACGACAT
65 TAATCCTTTTTAAGTCCTTTAG-GGTATTAGGTACTTCTACGTCGAAGGTATCC-CTAAGGGCAT
1322405 TTTCGTAATTTTT
128 TTTCGTAATTTTT
1322418 CTTAAACTTT
Statistics
Matches: 249, Mismatches: 42, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
154 1 0.00
155 115 0.46
156 96 0.39
157 37 0.15
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (153 bp):
TAGGTTGTCACCGAGTCCGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCCAGTTAT
AATCCTTTTTAAGTCCTTTAGGGTATTAGGTACTTCTACGTCGAAGGTATCCCTAAGGGCATTTT
CGTAATTTTTTAGAACCAAGGCT
Found at i:1324515 original size:49 final size:48
Alignment explanation
Indices: 1324458--1325325 Score: 967
Period size: 49 Copynumber: 18.7 Consensus size: 48
1324448 ACGATCCCCT
*
1324458 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
*
1324507 TGCTGATTCAAGGCCAGCGATATTGGACTTGAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
* *
1324556 TGCTGATTCAAGGCCAGCGATATTGAACTT----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* *
1324599 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
* *
1324648 TGCTGATTCAAGGCTAGCGATATTGGACTT----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* * *
1324691 TGCTGATTCAAGGCCAGCTACATTGGATTTAAAGGCA-AAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAA-G-ATAAGGTGCCAATA
* * *
1324740 CGCTGATTCAAGGCCAACGATATTGGACTT----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* * * *
1324783 TGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGAAAGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
*
1324832 TGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* *
1324875 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
* * *
1324924 TGTTGATTCAAGGCCAGCGATATTGGA-TT---TA-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* *
1324967 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
* *
1325016 TGTTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* *
1325059 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA-A
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
1325107 TGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* * *
1325150 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
*
1325199 TG-TCGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATG
1 TGCT-GATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
* * * *
1325242 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCCATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGTGCCAATA
* *
1325291 TGCTGATTCAAGGCCAGCAATATTGGACATAAAGA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1325326 AGATGCCACC
Statistics
Matches: 697, Mismatches: 71, Indels: 102
0.80 0.08 0.12
Matches are distributed among these distances:
42 10 0.01
43 291 0.42
44 4 0.01
45 5 0.01
47 6 0.01
48 31 0.04
49 350 0.50
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGTGCCAATA
Found at i:1324624 original size:92 final size:92
Alignment explanation
Indices: 1324458--1325324 Score: 1414
Period size: 92 Copynumber: 9.4 Consensus size: 92
1324448 ACGATCCCCT
* *
1324458 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCA
* * *
1324523 GCGATATTGGACTTGAAGATGAAGGTGCCAATA
60 GCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1324556 TGCTGATTCAAGGCCAGCGATATTGAACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
*
1324621 TTGGACTTAAAGATAAAGGTGCCAATA
66 TTGGACTTAAAGATGAAGGTGCCAATA
*
1324648 TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
* ***
1324713 TTGGATTTAAAGGCAAAGGTGCCAATA
66 TTGGACTTAAAGATGAAGGTGCCAATA
* * *
1324740 CGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAACTACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
*
1324805 TTGGACTTAAAGATGAAAGTGCCAATA
66 TTGGACTTAAAGATGAAGGTGCCAATA
1324832 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
*
1324897 TTGGACTTAAAGATAAAGGTGCCAATA
66 TTGGACTTAAAGATGAAGGTGCCAATA
* *
1324924 TGTTGATTCAAGGCCAGCGATATTGGATTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
1324989 TTGGACTTAAAGATGAAGGTGCCAATA
66 TTGGACTTAAAGATGAAGGTGCCAATA
*
1325016 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
1325081 TTGGACTTAAAGATGAAGGTGCCAA-A
66 TTGGACTTAAAGATGAAGGTGCCAATA
*
1325107 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
* *
1325172 TTGGACTTAAAGGTAAAGGTGCCAATA
66 TTGGACTTAAAGATGAAGGTGCCAATA
1325199 TG-TCGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
1 TGCT-GATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
* *
1325263 ATTGGACTTAAAGATGAAAGTGCCCATA
65 ATTGGACTTAAAGATGAAGGTGCCAATA
* *
1325291 TGCTGATTCAAGGCCAGCAATATTGGACATAAAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1325325 AAGATGCCAC
Statistics
Matches: 725, Mismatches: 41, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
91 88 0.12
92 607 0.84
93 1 0.00
94 1 0.00
98 28 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
TTGGACTTAAAGATGAAGGTGCCAATA
Found at i:1324703 original size:21 final size:20
Alignment explanation
Indices: 1324636--1324703 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1324626 CTTAAAGATA
1324636 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
1324657 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
1324679 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
1324700 AAGG
1 AAGG
1324704 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:1325400 original size:32 final size:33
Alignment explanation
Indices: 1325329--1325473 Score: 204
Period size: 32 Copynumber: 4.5 Consensus size: 33
1325319 ATAAAGAAGA
* *
1325329 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
**
1325362 TGCCACCGACTTGTGTGGGCTTTAG-AGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
**
1325394 TGCCACCGACTTGTGTGGGCTTTAG-AGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
*
1325426 TGCCACCGACTTGTGTGGGCTTTGGAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
*
1325459 TGCCACTGACTTGTG
1 TGCCACCGACTTGTG
1325474 GACTTAAAAG
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 61 0.59
33 42 0.41
ACGTcount: A:0.16, C:0.19, G:0.36, T:0.29
Consensus pattern (33 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
Found at i:1325515 original size:34 final size:33
Alignment explanation
Indices: 1325469--1325901 Score: 254
Period size: 34 Copynumber: 13.3 Consensus size: 33
1325459 TGCCACTGAC
1325469 TTGTGGAC-TTAAAAGGAACAAGGTGCCACGAG-G
1 TTGTGGACTTTAAAA-GAA-AAGGTGCCACGAGAG
*
1325502 TTGTGGACTTTAAAAGGGAAAAAGAGTGGCAC-AGAG
1 TTGTGGACTTTAAAA--G-AAAAG-GTGCCACGAGAG
*
1325538 TTGTGGGCTTTAAAAG----GGTGCCACG-GAG
1 TTGTGGACTTTAAAAGAAAAGGTGCCACGAGAG
*
1325566 TTGTGGAC-TTAGAAGGAAAAAGAGTGCCAC-AGAG
1 TTGTGGACTTTA-AAAG-AAAAG-GTGCCACGAGAG
* * *
1325600 TTGTGGACTTT-GAAGAAAAGATGCCAC-TGAG
1 TTGTGGACTTTAAAAGAAAAGGTGCCACGAGAG
* * * * *
1325631 TCGTGGACTTTGAGACAAAA--TGCCAC-TGAG
1 TTGTGGACTTTAAAAGAAAAGGTGCCACGAGAG
** *
1325661 TCATGGACTTT-AAAGAAAAGGATGCCAC-TGAG
1 TTGTGGACTTTAAAAGAAAAGG-TGCCACGAGAG
**
1325693 TCATGGACTTTGAAAAGAAAATGGTGCCACG-GAG
1 TTGTGGACTTT-AAAAGAAAA-GGTGCCACGAGAG
*
1325727 TTGTGGACTTTGGAAAG--AAGGTGCCACG-GAG
1 TTGTGGACTTT-AAAAGAAAAGGTGCCACGAGAG
* * *
1325758 TCGTGGACTTAAGAAAGGAAAAAGATGCCAC-AGAG
1 TTGTGGACTTTA-AAA-G-AAAAGGTGCCACGAGAG
* *
1325793 TTGTGGGCTTTGAAA-AAAAGGTGCCACGA-AG
1 TTGTGGACTTTAAAAGAAAAGGTGCCACGAGAG
* *
1325824 TCGTGGACTTTGAAAACAAAAAGGTGCCACG-GAG
1 TTGTGGACTTT-AAAA-GAAAAGGTGCCACGAGAG
* *
1325858 TCGTGGACTTT-AAAGAAAAGAGATGCCAC-TGAG
1 TTGTGGACTTTAAAAGAAAAG-G-TGCCACGAGAG
*
1325891 TCGTGGACTTT
1 TTGTGGACTTT
1325902 GAGAAAGTAT
Statistics
Matches: 331, Mismatches: 32, Indels: 74
0.76 0.07 0.17
Matches are distributed among these distances:
27 3 0.01
28 19 0.06
29 7 0.02
30 20 0.06
31 70 0.21
32 42 0.13
33 31 0.09
34 85 0.26
35 31 0.09
36 23 0.07
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (33 bp):
TTGTGGACTTTAAAAGAAAAGGTGCCACGAGAG
Found at i:1325549 original size:36 final size:35
Alignment explanation
Indices: 1325469--1325555 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 35
1325459 TGCCACTGAC
*
1325469 TTGTGGAC-TTAAAA-GGAACAAGGTGCCACGAGG
1 TTGTGGACTTTAAAAGGGAAAAAGGTGCCACGAGG
*
1325502 TTGTGGACTTTAAAAGGGAAAAAGAGTGGCAC-AGAG
1 TTGTGGACTTTAAAAGGGAAAAAG-GTGCCACGAG-G
*
1325538 TTGTGGGCTTTAAAAGGG
1 TTGTGGACTTTAAAAGGG
1325556 TGCCACGGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
33 8 0.17
34 6 0.13
35 9 0.19
36 24 0.51
ACGTcount: A:0.33, C:0.10, G:0.34, T:0.22
Consensus pattern (35 bp):
TTGTGGACTTTAAAAGGGAAAAAGGTGCCACGAGG
Found at i:1325637 original size:31 final size:31
Alignment explanation
Indices: 1325556--1325907 Score: 289
Period size: 34 Copynumber: 10.9 Consensus size: 31
1325546 TTTAAAAGGG
* *
1325556 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 TGCCACGGAGTCGTGGACTTTGAA-G-AAAAGA
* *
1325589 GTGCCACAGAGTTGTGGACTTTGAAGAAAAGA
1 -TGCCACGGAGTCGTGGACTTTGAAGAAAAGA
*
1325621 TGCCACTGAGTCGTGGACTTTG-AGACAAA-A
1 TGCCACGGAGTCGTGGACTTTGAAGA-AAAGA
* * *
1325651 TGCCACTGAGTCATGGACTTTAAAGAAAAGGA
1 TGCCACGGAGTCGTGGACTTTGAAGAAAA-GA
* * *
1325683 TGCCACTGAGTCATGGACTTTGAAAAGAAAATGG
1 TGCCACGGAGTCGTGGACTTTG--AAGAAAA-GA
* * *
1325717 TGCCACGGAGTTGTGGACTTTGGAA-AGAAGG
1 TGCCACGGAGTCGTGGACTTT-GAAGAAAAGA
*
1325748 TGCCACGGAGTCGTGGACTTAAGAAAGGAAAAAGA
1 TGCCACGGAGTCGTGGACTT-TG-AA-G-AAAAGA
* * * * *
1325783 TGCCACAGAGTTGTGGGCTTTGAAAAAAAGG
1 TGCCACGGAGTCGTGGACTTTGAAGAAAAGA
* * *
1325814 TGCCACGAAGTCGTGGACTTTGAAAACAAAAAGG
1 TGCCACGGAGTCGTGGACTTTG--AA-GAAAAGA
*
1325848 TGCCACGGAGTCGTGGACTTTAAAGAAAAGAGA
1 TGCCACGGAGTCGTGGACTTTGAAG-AAA-AGA
*
1325881 TGCCACTGAGTCGTGGACTTTG-AGAAA
1 TGCCACGGAGTCGTGGACTTTGAAGAAA
1325908 GTATTTGAAG
Statistics
Matches: 268, Mismatches: 33, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
30 27 0.10
31 74 0.28
32 40 0.15
33 29 0.11
34 76 0.28
35 22 0.08
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (31 bp):
TGCCACGGAGTCGTGGACTTTGAAGAAAAGA
Found at i:1325734 original size:66 final size:66
Alignment explanation
Indices: 1325454--1325908 Score: 392
Period size: 65 Copynumber: 7.0 Consensus size: 66
1325444 GCTTTGGAAG
* * * *
1325454 AAGGTTGCCACTGACTTGTGGACTTAAAAGGAACAAGG-TGCCAC-GAGGTTGTGGACTTT-AAA
1 AAGG-TGCCACAGAGTTGTGGACTTTAAA-GAA-AAGGATGCCACTGA-GTCGTGGACTTTGAAA
1325516 AGGGAAA
62 A--GAAA
* * * * * * *
1325523 AAGAGTGGCACAGAGTTGTGGGCTTT----AAAAGGGTGCCACGGAGTTGTGGACTTAG-AAGGA
1 AAG-GTGCCACAGAGTTGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAAAGA
1325583 AA
65 AA
*
1325585 AAGAGTGCCACAGAGTTGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTG---AGA
1 AAG-GTGCCACAGAGTTGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAAAGA
1325646 CAA
65 -AA
* ** *
1325649 AA--TGCCACTGAGTCATGGACTTTAAAGAAAAGGATGCCACTGAGTCATGGACTTTGAAAAGAA
1 AAGGTGCCACAGAGTTGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAAAGAA
1325712 A
66 A
* * * * *
1325713 ATGGTGCCACGGAGTTGTGGACTTTGGAAAG--AAGG-TGCCACGGAGTCGTGGACTTAAGAAAG
1 AAGGTGCCACAGAGTTGTGGACTTT--AAAGAAAAGGATGCCACTGAGTCGTGGACTT-TGAAAA
1325775 GAAA
63 GAAA
* * *
1325779 AAGATGCCACAGAGTTGTGGGCTTTGAAA-AAAAGG-TGCCAC-GAAGTCGTGGACTTTGAAAAC
1 AAGGTGCCACAGAGTTGTGGACTTT-AAAGAAAAGGATGCCACTG-AGTCGTGGACTTTGAAAAG
1325841 AAA
64 AAA
* *
1325844 AAGGTGCCACGGAGTCGTGGACTTTAAAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAG
1 AAGGTGCCACAGAGTTGTGGACTTTAAAGAAAAG-GATGCCACTGAGTCGTGGACTTTGA-AAAG
1325909 TATTTGAAGA
Statistics
Matches: 321, Mismatches: 39, Indels: 53
0.78 0.09 0.13
Matches are distributed among these distances:
61 25 0.08
62 51 0.16
63 6 0.02
64 31 0.10
65 81 0.25
66 78 0.24
67 21 0.07
68 8 0.02
69 19 0.06
70 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.21
Consensus pattern (66 bp):
AAGGTGCCACAGAGTTGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAAAGAA
A
Found at i:1325765 original size:65 final size:63
Alignment explanation
Indices: 1325488--1325908 Score: 347
Period size: 66 Copynumber: 6.5 Consensus size: 63
1325478 TAAAAGGAAC
* * *
1325488 AAGGTGCCAC-GAGGTTGTGGACTTT-AAAAGGGAAAAAGAGTGGCACAGAGTTGTGGGCTTTAA
1 AAGGTGCCACGGA-GTCGTGGACTTTGAAAA--GAAAAAG-GTGCCACAGAGTTGTGGACTTTAA
1325551 A-
62 AG
* * * *
1325552 AGGGTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTGAAGA
1 AAGGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAAG-GTGCCACAGAGTTGTGGACTTT-AA-A
*
1325616 A
63 G
* * * **
1325617 AAGATGCCACTGAGTCGTGGACTTTG---AGACAAAA--TGCCACTGAGTCATGGACTTTAAAG
1 AAGGTGCCACGGAGTCGTGGACTTTGAAAAGA-AAAAGGTGCCACAGAGTTGTGGACTTTAAAG
* * * *
1325676 AAAAGGATGCCACTGAGTCATGGACTTTGAAAAGAAAATGGTGCCACGGAGTTGTGGACTTTGGA
1 --AAGG-TGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTT--A
1325741 AAG
61 AAG
* * * *
1325744 AAGGTGCCACGGAGTCGTGGACTTAAGAAAGGAAAAAGATGCCACAGAGTTGTGGGCTTTGAAAA
1 AAGGTGCCACGGAGTCGTGGACTT-TGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTT--AAA
*
1325809 A
63 G
* * * *
1325810 AAGGTGCCACGAAGTCGTGGACTTTGAAAACAAAAAGGTGCCACGGAGTCGTGGACTTTAAAG
1 AAGGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAG
*
1325873 AAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAG
1 --AAG-G-TGCCACGGAGTCGTGGACTTTGA-AAAG
1325909 TATTTGAAGA
Statistics
Matches: 292, Mismatches: 43, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
59 1 0.00
60 2 0.01
61 21 0.07
62 49 0.17
63 7 0.02
64 30 0.10
65 75 0.26
66 79 0.27
67 21 0.07
68 7 0.02
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (63 bp):
AAGGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAG
Found at i:1327162 original size:15 final size:15
Alignment explanation
Indices: 1327151--1327180 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1327141 ACCTTTTTTC
1327151 TGTGTTTTTTTTTGT
1 TGTGTTTTTTTTTGT
*
1327166 TTTGTTTTTTTTTGT
1 TGTGTTTTTTTTTGT
1327181 GTTTACTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (15 bp):
TGTGTTTTTTTTTGT
Found at i:1329213 original size:30 final size:30
Alignment explanation
Indices: 1329179--1329615 Score: 281
Period size: 30 Copynumber: 14.6 Consensus size: 30
1329169 AAGTAACCTC
*
1329179 TTCAAAGTCCACAACTCAATGGCATCTCTT
1 TTCAAAGTCCACAACTCAGTGGCATCTCTT
*
1329209 TTCAAAGTCCACAACTCAGTGGCATCCCTT
1 TTCAAAGTCCACAACTCAGTGGCATCTCTT
* *
1329239 CTTCAAAGTCCACGACTTAGTGGCATCTCTT
1 -TTCAAAGTCCACAACTCAGTGGCATCTCTT
* * *
1329270 CTTCAAAGTTCACTACTGAGTGGCATCTCTT
1 -TTCAAAGTCCACAACTCAGTGGCATCTCTT
* ** *
1329301 TTCAAAGTCCACGACTTGGTGGCATCCCTT
1 TTCAAAGTCCACAACTCAGTGGCATCTCTT
* * * * * *
1329331 CTTTAATGTCCACTACTCAATGGTATCCCTT
1 -TTCAAAGTCCACAACTCAGTGGCATCTCTT
*
1329362 CTCAAAGTCCACAACTCAGTGGC-TC-CTTT
1 TTCAAAGTCCACAACTCAGTGGCATCTC-TT
* ** *
1329391 TTCTAAAGTCCACAATTCCTTGGCA-CTTTT
1 TTC-AAAGTCCACAACTCAGTGGCATCTCTT
* *
1329421 TTTAAAGTCCATAACTTCA-TGGCA-C-CTT
1 TTCAAAGTCCACAAC-TCAGTGGCATCTCTT
* * * * * *
1329449 TTCTAAAGTTCGCAACGCCGTGGTA-CCCTT
1 TTC-AAAGTCCACAACTCAGTGGCATCTCTT
* * * *
1329479 TTTAAAGTCCATAACTCTA-TGGCACCTTTT
1 TTCAAAGTCCACAACTC-AGTGGCATCTCTT
* *
1329509 TTAAAAGTCCATAACTCCA-TGGCTAT-T-TT
1 TTCAAAGTCCACAACT-CAGTGGC-ATCTCTT
* * *
1329538 TTCTAAAGTCCACAACTC--TAGCACTTTTTT
1 TTC-AAAGTCCACAACTCAGTGGCA-TCTCTT
*
1329568 TCTCTAAAGTCCACAACTCTGTGGCATCT-TT
1 T-TC-AAAGTCCACAACTCAGTGGCATCTCTT
*
1329599 TTTAAAGTCCACAACTC
1 TTCAAAGTCCACAACTC
1329616 CCTGGCACTC
Statistics
Matches: 326, Mismatches: 60, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.00
28 10 0.03
29 70 0.21
30 139 0.43
31 100 0.31
32 2 0.01
33 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (30 bp):
TTCAAAGTCCACAACTCAGTGGCATCTCTT
Found at i:1329303 original size:92 final size:92
Alignment explanation
Indices: 1329177--1329405 Score: 293
Period size: 92 Copynumber: 2.5 Consensus size: 92
1329167 TAAAGTAACC
*
1329177 TCTTCAAAGTCCACAACTCAATGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCCTTCTT
1 TCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCCTTCTT
* * *
1329242 CAAAGTCCACGACTTAGTGGCATCTCT
66 CAAAGTCCACGACTCAATGGCATCCCT
* * * * **
1329269 TCTTCAAAGTTCACTACTGAGTGGCATCTCTTTTCAAAGTCCACGACTTGGTGGCATCCCTTCTT
1 TCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCCTTCTT
* * * *
1329334 TAATGTCCACTACTCAATGGTATCCCT
66 CAAAGTCCACGACTCAATGGCATCCCT
1329361 TC-TCAAAGTCCACAACTCAGTGGC-TC-CTTTTTCTAAAGTCCACAA
1 TCTTCAAAGTCCACAACTCAGTGGCATCTC-TTTTC-AAAGTCCACAA
1329406 TTCCTTGGCA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
89 1 0.01
90 7 0.06
91 29 0.25
92 80 0.68
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (92 bp):
TCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCCTTCTT
CAAAGTCCACGACTCAATGGCATCCCT
Found at i:1329305 original size:61 final size:61
Alignment explanation
Indices: 1329179--1329403 Score: 258
Period size: 61 Copynumber: 3.7 Consensus size: 61
1329169 AAGTAACCTC
* *
1329179 TTCAAAGTCCACAACTCAATGGCATCTCTT-TTCAAAGTCCACAACTCAGTGGCATCCCTT
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACTACTCAGTGGCATCCCTT
* * * * *
1329239 CTTCAAAGTCCACGACTTAGTGGCATCTCTTCTTCAAAGTTCACTACTGAGTGGCATCTCTT
1 -TTCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACTACTCAGTGGCATCCCTT
* ** * * * * *
1329301 TTCAAAGTCCACGACTTGGTGGCATCCCTTCTTTAATGTCCACTACTCAATGGTATCCCTT
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACTACTCAGTGGCATCCCTT
* *
1329362 CTCAAAGTCCACAACTCAGTGGC-TC-CTTTTTCTAAAGTCCAC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTCTTC-AAAGTCCAC
1329404 AATTCCTTGG
Statistics
Matches: 139, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
59 5 0.04
60 10 0.07
61 98 0.71
62 26 0.19
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (61 bp):
TTCAAAGTCCACAACTCAGTGGCATCTCTTCTTCAAAGTCCACTACTCAGTGGCATCCCTT
Found at i:1329429 original size:29 final size:28
Alignment explanation
Indices: 1329365--1329634 Score: 159
Period size: 29 Copynumber: 9.1 Consensus size: 28
1329355 ATCCCTTCTC
* * *
1329365 AAAGTCCACAACTCAGTGGCTCCTTTTTCT
1 AAAGTCCACAACTC-TTGGC-ACTTTTTTT
*
1329395 AAAGTCCACAATTCCTTGGCACTTTTTTT
1 AAAGTCCACAACT-CTTGGCACTTTTTTT
* * * *
1329424 AAAGTCCATAACTTCATGGCACCTTTTCT
1 AAAGTCCACAAC-TCTTGGCACTTTTTTT
* * * * * **
1329453 AAAGTTCGCAACGCCGTGGTACCCTTTTT
1 AAAGTCCACAAC-TCTTGGCACTTTTTTT
* *
1329482 AAAGTCCATAACTCTATGGCACCTTTTTTA
1 AAAGTCCACAACTCT-TGGCA-CTTTTTTT
* *
1329512 AAAGTCCATAACTCCATGGCTA-TTTTTTCT
1 AAAGTCCACAACT-CTTGGC-ACTTTTTT-T
*
1329542 AAAGTCCACAACTC-TAGCACTTTTTTTCTCT
1 AAAGTCCACAACTCTTGGCAC--TTTTT-T-T
1329573 AAAGTCCACAACTCTGTGGCA-TCTTTTTT
1 AAAGTCCACAACTCT-TGGCACT-TTTTTT
* *
1329602 AAAGTCCACAACTCCCTGGCACTCCTTTTT
1 AAAGTCCACAACT-CTTGGCACT-TTTTTT
1329632 AAA
1 AAA
1329635 ACCCACACAA
Statistics
Matches: 190, Mismatches: 34, Indels: 32
0.74 0.13 0.12
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 88 0.46
30 69 0.36
31 24 0.13
33 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (28 bp):
AAAGTCCACAACTCTTGGCACTTTTTTT
Found at i:1329539 original size:58 final size:58
Alignment explanation
Indices: 1329365--1329634 Score: 212
Period size: 58 Copynumber: 4.6 Consensus size: 58
1329355 ATCCCTTCTC
* * *
1329365 AAAGTCCACAACTC-AGTGGCTCCTTTTTCTAAAGTCCACAATTCCTTGGC-ACTTTTTTT
1 AAAGTCCACAACTCTA-TGGCACCTTTTT-TAAAGTCCACAACTCCGTGGCTAC-TTTTTT
* * * * * *
1329424 AAAGTCCATAACT-TCATGGCACCTTTTCTAAAGTTCGCAACGCCGTGG-TACCCTTTTT
1 AAAGTCCACAACTCT-ATGGCACCTTTTTTAAAGTCCACAACTCCGTGGCTA-CTTTTTT
* * * *
1329482 AAAGTCCATAACTCTATGGCACCTTTTTTAAAAGTCCATAACTCCATGGCTATTTTTTCT
1 AAAGTCCACAACTCTATGGCACCTTTTTT-AAAGTCCACAACTCCGTGGCTACTTTTT-T
* *
1329542 AAAGTCCACAACTCTA--GCACTTTTTTTCTCTAAAGTCCACAACTCTGTGGC-ATCTTTTTT
1 AAAGTCCACAACTCTATGGCAC--CTTTT-T-TAAAGTCCACAACTCCGTGGCTA-CTTTTTT
** *
1329602 AAAGTCCACAACTCCCTGGCACTCCTTTTTAAA
1 AAAGTCCACAACTCTATGGCAC-CTTTTTTAAA
1329635 ACCCACACAA
Statistics
Matches: 169, Mismatches: 27, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
58 51 0.30
59 46 0.27
60 40 0.24
61 27 0.16
62 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAGTCCACAACTCTATGGCACCTTTTTTAAAGTCCACAACTCCGTGGCTACTTTTTT
Found at i:1329654 original size:32 final size:30
Alignment explanation
Indices: 1329578--1329666 Score: 90
Period size: 32 Copynumber: 2.9 Consensus size: 30
1329568 TCTCTAAAGT
* * **
1329578 CCACAACTCTGTGGCAT-CTTTTTTAAAGT
1 CCACAACTCTATGGCATCCTTTTTAAAACC
**
1329607 CCACAACTCCCTGGCACTCCTTTTTAAAACC
1 CCACAACTCTATGGCA-TCCTTTTTAAAACC
1329638 CACACAACTCTATGGCATCCCTTTTTAAA
1 C-CACAACTCTATGGCAT-CCTTTTTAAA
1329667 GCTGACATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 14 0.29
30 1 0.02
31 11 0.22
32 23 0.47
ACGTcount: A:0.27, C:0.33, G:0.09, T:0.31
Consensus pattern (30 bp):
CCACAACTCTATGGCATCCTTTTTAAAACC
Found at i:1329686 original size:32 final size:32
Alignment explanation
Indices: 1329625--1329925 Score: 160
Period size: 32 Copynumber: 9.4 Consensus size: 32
1329615 CCCTGGCACT
* * *
1329625 CCTTTTTAAAACCCACACAACTCTA-TGGCATC
1 CCTTTTTAAAGCCCACAAAAGTC-AGTGGCATC
** * *
1329657 CCTTTTTAAAGCTGACATAAGTCGGTGGCATC
1 CCTTTTTAAAGCCCACAAAAGTCAGTGGCATC
* *
1329689 CCTTTTTAAAGCCCACAAAAGTTAGTGGCAAC
1 CCTTTTTAAAGCCCACAAAAGTCAGTGGCATC
* * * * *
1329721 CCTTTTTAAAGCCTACACAAGTTAATGGCAAC
1 CCTTTTTAAAGCCCACAAAAGTCAGTGGCATC
* * *
1329753 CCTTTTCAAAGCCTACAAAAGTTAGTGGCAT-
1 CCTTTTTAAAGCCCACAAAAGTCAGTGGCATC
* * * * *
1329784 TCTTTTTCAAAAGCCCACACAAGTCGGTGGTA-A
1 CCTTTTT--AAAGCCCACAAAAGTCAGTGGCATC
* * * **
1329817 CCTTTTCAAAGCCGACAAAAATTGGTGGCATC
1 CCTTTTTAAAGCCCACAAAAGTCAGTGGCATC
** * * * *
1329849 CTCTTTCAAAAGCCTACACAAGTC-GATGCCAAC
1 C-CTTTTTAAAGCCCACAAAAGTCAG-TGGCATC
* * * * * *
1329882 CCTCTTAAAAGCCCGCATAAGTTAGTGGCAAC
1 CCTTTTTAAAGCCCACAAAAGTCAGTGGCATC
* *
1329914 CCTCTTAAAAGC
1 CCTTTTTAAAGC
1329926 GTACACAAGT
Statistics
Matches: 212, Mismatches: 49, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
31 23 0.11
32 143 0.67
33 46 0.22
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (32 bp):
CCTTTTTAAAGCCCACAAAAGTCAGTGGCATC
Found at i:1329725 original size:96 final size:96
Alignment explanation
Indices: 1329625--1329916 Score: 227
Period size: 96 Copynumber: 3.0 Consensus size: 96
1329615 CCCTGGCACT
* * * *
1329625 CCTTTTTAAAACCCACACAACTCT-ATGGCATCCCTTTTTAAAG-CTGACATAAGTCGGTGGCAT
1 CCTTTTTAAAACCCACACAACT-TAATGGCAACCCTTTTCAAAGCCT-ACAAAAGTCAGTGGCAT
1329688 CCCTTTTT-AAAGCCCACAAAAGTTAGTGGCAAC
64 -CCTTTTTAAAAGCCCACAAAAGTTAGTGGCAAC
* * * * *
1329721 CCTTTTTAAAGCCTACACAAGTTAATGGCAACCCTTTTCAAAGCCTACAAAAGTTAGTGGCATTC
1 CCTTTTTAAAACCCACACAACTTAATGGCAACCCTTTTCAAAGCCTACAAAAGTCAGTGGCATCC
* ** *
1329786 TTTTTCAAAAGCCCACACAAGTCGGTGGTAA-
66 TTTTT-AAAAGCCCACAAAAGTTAGTGGCAAC
* * * * * ** * * *
1329817 CCTTTTCAAAGCCGACAAAAATTGGTGGC-ATCCTCTTTCAAAAGCCTACACAAGTC-GATGCCA
1 CCTTTTTAAAACCCACACAACTTAATGGCAACCCT-TTTC-AAAGCCTACAAAAGTCAG-TGGCA
* * * * *
1329880 ACCCTCTTAAAAGCCCGCATAAGTTAGTGGCAAC
63 TCCTTTTTAAAAGCCCACAAAAGTTAGTGGCAAC
1329914 CCT
1 CCT
1329917 CTTAAAAGCG
Statistics
Matches: 156, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
95 11 0.07
96 98 0.63
97 47 0.30
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (96 bp):
CCTTTTTAAAACCCACACAACTTAATGGCAACCCTTTTCAAAGCCTACAAAAGTCAGTGGCATCC
TTTTTAAAAGCCCACAAAAGTTAGTGGCAAC
Found at i:1329750 original size:64 final size:64
Alignment explanation
Indices: 1329650--1329943 Score: 288
Period size: 64 Copynumber: 4.6 Consensus size: 64
1329640 CACAACTCTA
* * * * *
1329650 TGGCATCCCTTTTTAAAG-CTGACATAAGTCGGTGGCATCCCTTTTTAAAGCCCACAAAAGTTAG
1 TGGCAACCCTTTTTAAAGCCT-ACACAAGTCGATGGCAACCCTTTTCAAAGCCCACAAAAGTTAG
** *
1329714 TGGCAACCCTTTTTAAAGCCTACACAAGTTAATGGCAACCCTTTTCAAAGCCTACAAAAGTTAG
1 TGGCAACCCTTTTTAAAGCCTACACAAGTCGATGGCAACCCTTTTCAAAGCCCACAAAAGTTAG
** * * * * * *
1329778 TGGC-ATTCTTTTTCAAAAGCCCACACAAGTCGGTGGTAA-CCTTTTCAAAGCCGACAAAAATTG
1 TGGCAACCCTTTTT--AAAGCCTACACAAGTCGATGGCAACCCTTTTCAAAGCCCACAAAAGTTA
1329841 G
64 G
* ** * * * * *
1329842 TGGCATCCTCTTTCAAAAGCCTACACAAGTCGATGCCAACCCTCTTAAAAGCCCGCATAAGTTAG
1 TGGCAACC-CTTTTTAAAGCCTACACAAGTCGATGGCAACCCTTTTCAAAGCCCACAAAAGTTAG
* * *
1329907 TGGCAACCCTCTTAAAAGCGTACACAAGTCGATGGCA
1 TGGCAACCCTTTTTAAAGCCTACACAAGTCGATGGCA
1329944 TTTCCTTTTA
Statistics
Matches: 185, Mismatches: 39, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
63 7 0.04
64 128 0.69
65 46 0.25
66 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (64 bp):
TGGCAACCCTTTTTAAAGCCTACACAAGTCGATGGCAACCCTTTTCAAAGCCCACAAAAGTTAG
Found at i:1329883 original size:129 final size:129
Alignment explanation
Indices: 1329675--1329911 Score: 305
Period size: 129 Copynumber: 1.8 Consensus size: 129
1329665 AAGCTGACAT
* * * **
1329675 AAGTCGGTGGCATCCCTTTTTAAAGCCCACAAAAGTTAGTGGCAACCCTTTTTAAAGCCTACACA
1 AAGTCGGTGGCATACCTTTTCAAAGCCCACAAAAATTAGTGGCAACCCTTTCAAAAGCCTACACA
* * * * *
1329740 AGTTAATGGCAACCCTTTTCAAAGCCTACAAAAGTTAGTGGCATTCTTTTTCAAAAGCCCACAC
66 AGTCAATGCCAACCCTCTTAAAAGCCCACAAAAGTTAGTGGCATTCTTTTTCAAAAGCCCACAC
* * * *
1329804 AAGTCGGTGGTA-ACCTTTTCAAAGCCGACAAAAATTGGTGGCATCCTCTTTCAAAAGCCTACAC
1 AAGTCGGTGGCATACCTTTTCAAAGCCCACAAAAATTAGTGGCAACC-CTTTCAAAAGCCTACAC
* * *
1329868 AAGTCGATGCCAACCCTCTTAAAAGCCCGCATAAGTTAGTGGCA
65 AAGTCAATGCCAACCCTCTTAAAAGCCCACAAAAGTTAGTGGCA
1329912 ACCCTCTTAA
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
128 28 0.31
129 62 0.69
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (129 bp):
AAGTCGGTGGCATACCTTTTCAAAGCCCACAAAAATTAGTGGCAACCCTTTCAAAAGCCTACACA
AGTCAATGCCAACCCTCTTAAAAGCCCACAAAAGTTAGTGGCATTCTTTTTCAAAAGCCCACAC
Found at i:1330187 original size:52 final size:52
Alignment explanation
Indices: 1330054--1330456 Score: 373
Period size: 52 Copynumber: 7.7 Consensus size: 52
1330044 TTGGCAACCT
* * * *
1330054 TCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAACATATCAGCAC-CTTC
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACTCTTC
* *
1330105 TATCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTAGCACTCTTC
1 --TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACTCTTC
* * * * *
1330159 TCATCTTTAAGTCCAATGTTGCTAGCCTTGAATTAGCACATTGGCA-TCCTTC
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACT-CTTC
* * ** * * *
1330211 TTATCTTTAAGTGCAATGTCGCTGGCCTTGAATCATTATATTGGTACTCCTC
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACTCTTC
* * * *
1330263 TCATCTTTAAGTCTATTGTCGTTGGCCTTGAATCATCATATT-GACACTCTTC
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAG-CACTCTTC
*** * * * * * * *
1330315 TCATCTTTAAGTTTGATATTGCTGGCTTTGAATCAGTATATTAACACCCTTT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACTCTTC
* *** * * *
1330367 TAATCTTTAAGTTTGATATCGCTGGCTTTGAATCAGCATATTAGCACCCTTAC
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACTCTT-C
*
1330420 -CATCTTTAAGTCCAATGCCGCTGGCCTTGAATCAGCA
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
1330457 CATTGACACT
Statistics
Matches: 293, Mismatches: 51, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
51 2 0.01
52 243 0.83
53 44 0.15
54 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (52 bp):
TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACTCTTC
Found at i:1330462 original size:156 final size:156
Alignment explanation
Indices: 1330028--1330466 Score: 458
Period size: 156 Copynumber: 2.8 Consensus size: 156
1330018 AATGTTATTG
* ** * * *
1330028 GCCTTGAATTAGCACATTGGCAACCTTC--ATCTTTAAGTCCAATATCGTTGGCCTTGAATCAAC
1 GCCTTGAATCAGCACATTAACACCCTTCTTATCTTTAAGTGCAATATCGCTGGCCTTGAATCAAC
* * *
1330091 ATATCAGCACCTTCTATCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATT-AGCACT
66 ATATTAGCACCCT-TACCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGA-CACT
*
1330155 CTTCTCATCTTTAAGTCCAATGTTGCTA
129 CTTCTCATCTTTAAGTCCAATATTGCTA
* ** * * **
1330183 GCCTTGAATTAGCACATTGGCATCCTTCTTATCTTTAAGTGCAATGTCGCTGGCCTTGAATCATT
1 GCCTTGAATCAGCACATTAACACCCTTCTTATCTTTAAGTGCAATATCGCTGGCCTTGAATCAAC
* * * * * *
1330248 ATATTGGTACTCC-T-CTCATCTTTAAGTCTATTGTCGTTGGCCTTGAATCATCATATTGACACT
66 ATATTAGCAC-CCTTAC-CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGACACT
*** *
1330311 CTTCTCATCTTTAAGTTTGATATTGCTG
129 CTTCTCATCTTTAAGTCCAATATTGCTA
* * * *** * *
1330339 GCTTTGAATCAGTATATTAACACCCTT-TTAATCTTTAAGTTTGATATCGCTGGCTTTGAATCAG
1 GCCTTGAATCAGCACATTAACACCCTTCTT-ATCTTTAAGTGCAATATCGCTGGCCTTGAATCAA
* *
1330403 CATATTAGCACCCTTACCATCTTTAAGTCCAATGCCGCTGGCCTTGAATCAGCACATTGACACT
65 CATATTAGCACCCTTACCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGACACT
1330467 TGTCAAAACC
Statistics
Matches: 234, Mismatches: 42, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
155 31 0.13
156 163 0.70
157 39 0.17
158 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (156 bp):
GCCTTGAATCAGCACATTAACACCCTTCTTATCTTTAAGTGCAATATCGCTGGCCTTGAATCAAC
ATATTAGCACCCTTACCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGACACTCT
TCTCATCTTTAAGTCCAATATTGCTA
Found at i:1331194 original size:20 final size:20
Alignment explanation
Indices: 1331151--1331204 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1331141 TTCTACAATT
* * *
1331151 TGTATCTATACAACAAGTGGA
1 TGTATCGATAC-ATAAGTGAA
*
1331172 TGTATGGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
1331192 TGTATCGATACAT
1 TGTATCGATACAT
1331205 GTCTAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:1331320 original size:50 final size:50
Alignment explanation
Indices: 1331261--1331449 Score: 195
Period size: 50 Copynumber: 3.7 Consensus size: 50
1331251 TCTAGAAAGA
* *
1331261 AAATGTATCGATACATTTTTTATTTTATCGATACATTCTTGGTTTAATCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTTGGTTTAATCC
* * *
1331311 AAATGTATCGATACATTTTTCATTGTATCGATATATTCTGGGTTT-TTGACC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTTGGTTTAAT--CC
* * * * *
1331362 TAAATATATCGATACATTATTCATTGTATTGATAAATT-TTAGGTTTTAACCC
1 -AAATGTATCGATACATTTTTCATTGTATCGATACATTCTT-GG-TTTAATCC
* *
1331414 AAATGTATCGATACATTCTTT-AATGTATGGATACAT
1 AAATGTATCGATACATT-TTTCATTGTATCGATACAT
1331450 CTAGTTAAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 1 0.01
50 41 0.36
51 31 0.27
52 39 0.34
53 3 0.03
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (50 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTTGGTTTAATCC
Found at i:1331386 original size:52 final size:50
Alignment explanation
Indices: 1331261--1331430 Score: 198
Period size: 52 Copynumber: 3.3 Consensus size: 50
1331251 TCTAGAAAGA
* * * *
1331261 AAATGTATCGATACATTTTTTATTTTATCGATACATTCTTGG-TTTAATCC
1 AAATGTATCGATACATTTTTCATTGTATCGATAAATTCTAGGTTTTAA-CC
* * *
1331311 AAATGTATCGATACATTTTTCATTGTATCGATATATTCTGGGTTTTTGACC
1 AAATGTATCGATACATTTTTCATTGTATCGATAAATTCTAGG-TTTTAACC
* * * *
1331362 TAAATATATCGATACATTATTCATTGTATTGATAAATTTTAGGTTTTAACCC
1 -AAATGTATCGATACATTTTTCATTGTATCGATAAATTCTAGGTTTTAA-CC
1331414 AAATGTATCGATACATT
1 AAATGTATCGATACATT
1331431 CTTTAATGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
50 38 0.37
51 23 0.22
52 42 0.41
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (50 bp):
AAATGTATCGATACATTTTTCATTGTATCGATAAATTCTAGGTTTTAACC
Found at i:1339675 original size:168 final size:167
Alignment explanation
Indices: 1339406--1339854 Score: 550
Period size: 168 Copynumber: 2.7 Consensus size: 167
1339396 TTTGAAAATT
* * *
1339406 TCATTTCATACCTTAATGGAAATCCAAAAAGATACAAAAAGTTTTTGAAATCTTTTATATCCCTA
1 TCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATA-CCCTA
*
1339471 CGGATGCCCATAGGAATATAAAAGATTAAAAAAATGA-TAAAAGTTT-ATCTCAATTATGAAAGT
65 CGGATGCCCATAGAAATATAAAAGATTAAAAAAATGATTAAAA-TTTAAT-TCAATTATGAAAGT
*
1339534 GTTC-ATTTAATTCAAT-TTTATTTATT-TATTCTTGAAAAAAG
128 G-TCAATTTAATT--ATGTTTATTTATTCAATT-TTGAAAAAAG
* * *
1339575 TCATTTCGTACCTTAATGAAAACCCAAAAAGATACGAAAAG-TTTTGAATTTTTTTATACACCTA
1 TCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATAC-CCTA
* ** ** *
1339639 CGGATTCCCATAGAAATATAAAAGATTAAAAAAATGATTAGTATTTAATTTGATTATGAACGTGT
65 CGGATGCCCATAGAAATATAAAAGATTAAAAAAATGATTAAAATTTAATTCAATTATGAAAGTGT
* *
1339704 CAATTTAATTTTGTTTATTTATTCAATTTTGAAAAATG
130 CAATTTAATTATGTTTATTTATTCAATTTTGAAAAAAG
* * * * *
1339742 TCATTTTGTACATTAATGGAAGCCCGAAAAGATATGAAAAGTTTTTGAAAATCTTTTATACCCCT
1 TCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTG-AAATCTTTTATA-CCCT
*
1339807 ACGGATGCCCATAGAAAGTATAAAAGATTAGAAAAAATAATTAAAATT
64 ACGGATGCCCATAGAAA-TATAAAAGATTA-AAAAAATGATTAAAATT
1339855 GATTTTTATG
Statistics
Matches: 241, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
166 1 0.00
167 57 0.24
168 85 0.35
169 71 0.29
170 13 0.05
171 14 0.06
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (167 bp):
TCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCTAC
GGATGCCCATAGAAATATAAAAGATTAAAAAAATGATTAAAATTTAATTCAATTATGAAAGTGTC
AATTTAATTATGTTTATTTATTCAATTTTGAAAAAAG
Found at i:1340599 original size:9 final size:10
Alignment explanation
Indices: 1340578--1340611 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1340568 TGCTAACAAA
*
1340578 TTTTCCTATT
1 TTTTCTTATT
1340588 TTTTCTTATT
1 TTTTCTTATT
*
1340598 TTTTCTTCTT
1 TTTTCTTATT
1340608 TTTT
1 TTTT
1340612 TTGCTCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCTTATT
Found at i:1340612 original size:13 final size:13
Alignment explanation
Indices: 1340586--1340638 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 13
1340576 AATTTTCCTA
*
1340586 TTTT-TTCTTATT
1 TTTTCTTCTTTTT
1340598 TTTTCTTCTTTTT
1 TTTTCTTCTTTTT
1340611 TTTGCTCTTCTTTTT
1 TTT--TCTTCTTTTT
*
1340626 TTTGCTCTCTTTT
1 TTTTCT-TCTTTT
1340639 GCTGAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 4 0.11
13 12 0.34
14 6 0.17
15 13 0.37
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTCTTCTTTTT
Found at i:1340621 original size:15 final size:15
Alignment explanation
Indices: 1340601--1340638 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1340591 TCTTATTTTT
1340601 TCTTCTTTTTTTTGC
1 TCTTCTTTTTTTTGC
1340616 TCTTCTTTTTTTTGC
1 TCTTCTTTTTTTTGC
1340631 TC-TCTTTT
1 TCTTCTTTT
1340639 GCTGAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (15 bp):
TCTTCTTTTTTTTGC
Found at i:1341824 original size:167 final size:166
Alignment explanation
Indices: 1341270--1341869 Score: 762
Period size: 166 Copynumber: 3.6 Consensus size: 166
1341260 ATTTTTTTCG
* * * * * *
1341270 AAAAAGGAAGATTTCAAAGAAAAATATCCAAAACTCATGAAAATGAATCAATTTTTTAAAACTAA
1 AAAAAGGGAG-TTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACTGA
* * * *
1341335 ATTAATATG-AATCAAATAATGATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCC
65 ATTAATATGAAAT-AAATGATAATATTTGAAGAATTTTAAAAATTAAAAACCAAGAAAAATCCCC
* *
1341399 TCAAAAAAATTTACGAAGTAG-AAACACCATATTTTGAA
129 TCAAAAAAATTTATGAAGTAGAAAACACCGTA-TTTGAA
1341437 AAAAAGGGAGTTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACTGAA
1 AAAAAGGGAGTTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACTGAA
*
1341502 TTAATATGAAATAAAT-ATAATATTTTATA-AA-TTTAAAAATTAAAAACCAAGAAAAATCCCCT
66 TTAATATGAAATAAATGATAATATTTGA-AGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCT
* *
1341564 CAAAAGAATTTATGAAGTAGAAAACACTGTAATTTAGAA
130 CAAAAAAATTTATGAAGTAGAAAACACCGT-ATTT-GAA
* * * ** * * *
1341603 AAAAATGAAATTTCATGGAAAAAATTCAAAAACTCATGAAGATGAATTAATTTTTGAAAACTGAA
1 AAAAAGGGAGTTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACTGAA
* * * *
1341668 TTAATATTAAATAAATGATAATATTTGAAGAATTTTAAAAGTTGAAAACCAAGAAAAATCCCTTC
66 TTAATATGAAATAAATGATAATATTTGAAGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTC
* *
1341733 GAAAAAAATTTGTGGAGTAGAAAACACCGTATGTTG-A
131 -AAAAAAATTTATGAAGTAGAAAACACCGTAT-TTGAA
* * * *
1341770 AAAAGGGGAGTTTCAAGGAAAAAAATCAAAAACCCGTGAAAATGAATAAATTTTTGAAAACTGAA
1 AAAAAGGGAGTTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACTGAA
** *
1341835 TTCTTATGAAATAAATGATAAAATTTGAAGAATTT
66 TTAATATGAAATAAATGATAATATTTGAAGAATTT
1341870 CGATGTTTGA
Statistics
Matches: 378, Mismatches: 45, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
164 49 0.13
165 20 0.05
166 139 0.37
167 111 0.29
168 32 0.08
169 27 0.07
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (166 bp):
AAAAAGGGAGTTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACTGAA
TTAATATGAAATAAATGATAATATTTGAAGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTC
AAAAAAATTTATGAAGTAGAAAACACCGTATTTGAA
Found at i:1342814 original size:21 final size:20
Alignment explanation
Indices: 1342764--1342816 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1342754 GACATGGTCC
* *
1342764 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCAATAA
1342784 TGTATCGATACATTCAATAA
1 TGTATCGATACATTCAATAA
*
1342804 TTGTATTGATACA
1 -TGTATCGATACA
1342817 AATTATAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTCAATAA
Found at i:1346639 original size:20 final size:20
Alignment explanation
Indices: 1346607--1346659 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1346597 GTTACATGTA
*
1346607 ATGTATC-ATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1346626 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1346646 ATGTATCGATACAA
1 ATGTATCGATACAA
1346660 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 7 0.23
20 23 0.74
21 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1355219 original size:20 final size:20
Alignment explanation
Indices: 1355194--1355332 Score: 88
Period size: 20 Copynumber: 6.9 Consensus size: 20
1355184 GTTACCAGCA
* *
1355194 ATGTATCGATATAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1355214 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
**
1355234 ATGTATCGATACAAATAGTAGT
1 ATGTATCGATAC-AAT-GTACC
* * * * * **
1355256 AGGTAGCTACTGCCA-GTTTC
1 ATGTATCGA-TACAATGTACC
*
1355276 ATGTATCGATATAATTGT-CC
1 ATGTATCGATACAA-TGTACC
*
1355296 ATGTATCGATACAATG-ATC
1 ATGTATCGATACAATGTACC
1355315 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
1355333 TCGATACAAA
Statistics
Matches: 90, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
19 21 0.23
20 51 0.57
21 6 0.07
22 10 0.11
23 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1355319 original size:19 final size:18
Alignment explanation
Indices: 1355274--1355331 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1355264 ACTGCCAGTT
*
1355274 TCATGTATCGATATAATTG
1 TCATGTATCGATACAA-TG
1355293 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
1355312 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
1355331 T
1 T
1355332 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.56
20 15 0.42
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1355333 original size:13 final size:13
Alignment explanation
Indices: 1355315--1355341 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1355305 TACAATGATC
1355315 ATGTATCGATACA
1 ATGTATCGATACA
1355328 ATGTATCGATACA
1 ATGTATCGATACA
1355341 A
1 A
1355342 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1355337 original size:32 final size:33
Alignment explanation
Indices: 1355296--1355357 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
1355286 ATAATTGTCC
* *
1355296 ATGTATCGATACAATG-ATCATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
1355328 ATGTATCGATACAAAGCATAATGTATCGAT
1 ATGTATCGATACAAAGCATAATGTATCGAT
1355358 GCATCTGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:1358176 original size:79 final size:79
Alignment explanation
Indices: 1358018--1358192 Score: 212
Period size: 79 Copynumber: 2.2 Consensus size: 79
1358008 TGAGAAATTT
* * * * *
1358018 AATATTTTGGAGATAATAA-CGGGGTTAGAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCC
1 AATATTTAGGAAATAA-AATCGGGATTGGAGTATCCCCTAGAAAATAACGGGGTTAGAGTATCCC
* *
1358082 CAGTTGTGAAAAATC
65 CAATTATGAAAAATC
1358097 AATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTCAG-AAATAACGGGGTTAGAGTATCC
1 AAT-ATTTAGGAAATAAAATCGGGATTGGAGTATCCCCT-AGAAAATAACGGGGTTAGAGTATCC
* *
1358160 CTAATTATGAGAAATC
64 CCAATTATGAAAAATC
*
1358176 AATATTTTGGAAATAAA
1 AATATTTAGGAAATAAA
1358193 GCTGAAGGTG
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.04
79 77 0.94
80 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (79 bp):
AATATTTAGGAAATAAAATCGGGATTGGAGTATCCCCTAGAAAATAACGGGGTTAGAGTATCCCC
AATTATGAAAAATC
Found at i:1358205 original size:79 final size:79
Alignment explanation
Indices: 1358045--1358240 Score: 209
Period size: 79 Copynumber: 2.5 Consensus size: 79
1358035 AACGGGGTTA
* * * *
1358045 GAGTATCCCCT-TGAAAATAACGGGGTTAGAGTATCCCCAGTTGTGAAAAATCAATGATTAGGAA
1 GAGTATCCCCTCAG-AAATAACGGGGTTAGAGTATCCCTAATTATGAAAAATCAATGATTAGGAA
* * *
1358109 ATAAAATCGGGATTG
65 ATAAAAGCGGAAGTG
* *
1358124 GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCTAATTATGAGAAATCAAT-ATTTTGGAA
1 GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCTAATTATGAAAAATCAATGA-TTAGGAA
*
1358188 AT-AAAGCTGAAGGTG
65 ATAAAAGCGGAA-GTG
* ** * *
1358203 GAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCCCT
1 GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCT
1358241 GATGAAATAA
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
78 7 0.07
79 91 0.92
80 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (79 bp):
GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCTAATTATGAAAAATCAATGATTAGGAAA
TAAAAGCGGAAGTG
Found at i:1358630 original size:51 final size:50
Alignment explanation
Indices: 1358490--1358658 Score: 164
Period size: 51 Copynumber: 3.3 Consensus size: 50
1358480 ATGATTAATG
* *
1358490 GGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTCG-AAATAAAA-TC
1 GGGTTGGAGTATCCT-GATTGTGGAAAATTGGTG-TTTT-GAAAATAAAACTA
**
1358541 GGAGTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACTA
1 GG-GTTGGAGTAT-CCTGATT-GTGGAAAATTGGTGTTTTGAAAATAAAACTA
* * **
1358594 GGGTTGAAGTATCCATGATTGTGGAAAATTAGTGTTTT-AGAAATAAAACCG
1 GGGTTGGAGTATCC-TGATTGTGGAAAATTGGTGTTTTGA-AAATAAAACTA
*
1358645 GGGCTGGAGTATCC
1 GGGTTGGAGTATCC
1358659 CCGATTATGA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 1 0.01
51 41 0.41
52 40 0.40
53 17 0.17
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (50 bp):
GGGTTGGAGTATCCTGATTGTGGAAAATTGGTGTTTTGAAAATAAAACTA
Found at i:1358673 original size:51 final size:50
Alignment explanation
Indices: 1358382--1358675 Score: 196
Period size: 52 Copynumber: 5.6 Consensus size: 50
1358372 CAAGAATAAT
* *
1358382 GGGGTTGGAGTATCCCCGATTATGAAAATTTGATGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAAATAAAACC
** * ** * * * * *
1358433 GGGGGTTGGAGTATCCCCTCGAAAATGACGAGGTTGGAGTATCCTCGATGAT-TAA-T
1 -GGGGTTGGAGTAT-CCC-CGATTATGA-AAAATTGGTGT-T--TTGA-AATAAAACC
* * *
1358489 GGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTCGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTT-GAAATAAAACC
* * * * *
1358541 GGAGTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACT
1 GGGGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTG-AAATAAAACC
* * ** * * *
1358593 AGGGTTGAAGTATCCATGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAAATAAAACC
*
1358644 GGGGCTGGAGTATCCCCGATTATGAAAAATTG
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTG
1358676 AGAAACTTAA
Statistics
Matches: 181, Mismatches: 47, Indels: 29
0.70 0.18 0.11
Matches are distributed among these distances:
50 3 0.02
51 53 0.29
52 68 0.38
53 21 0.12
54 9 0.05
55 19 0.10
56 1 0.01
57 4 0.02
58 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (50 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAATAAAACC
Found at i:1360149 original size:20 final size:19
Alignment explanation
Indices: 1360108--1360187 Score: 128
Period size: 19 Copynumber: 4.3 Consensus size: 19
1360098 AGCAATACAC
*
1360108 TGTATCGATACATTACTTA
1 TGTATCGATACATTACTAA
1360127 TGTATCGATACATTTACTAA
1 TGTATCGATACA-TTACTAA
1360147 TGTATCGATACA-TACT-A
1 TGTATCGATACATTACTAA
1360164 TGTATCGATACATTACTAA
1 TGTATCGATACATTACTAA
1360183 TGTAT
1 TGTAT
1360188 ACAATTATTG
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
17 13 0.23
18 8 0.14
19 18 0.32
20 18 0.32
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATTACTAA
Found at i:1362503 original size:13 final size:13
Alignment explanation
Indices: 1362485--1362510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1362475 ACAAAGATCG
1362485 ATGTATCGATACA
1 ATGTATCGATACA
1362498 ATGTATCGATACA
1 ATGTATCGATACA
1362511 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1364905 original size:20 final size:22
Alignment explanation
Indices: 1364878--1364935 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
1364868 CTGGACATGT
1364878 TAAAAAAAA-CATGAAACATAA
1 TAAAAAAAAGCATGAAACATAA
1364899 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAA-GCATGAAACATAA
*
1364922 TAAAAAAATGCATG
1 TAAAAAAAAGCATG
1364936 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 9 0.26
22 5 0.15
23 20 0.59
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAAAAAAGCATGAAACATAA
Found at i:1364913 original size:23 final size:23
Alignment explanation
Indices: 1364878--1364935 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
1364868 CTGGACATGT
1364878 TAAAAAAAA--CATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
1364899 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
1364922 T-AAAAAAATGCATG
1 TAAAAAAAATGCATG
1364936 GTCAAAGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.26
22 13 0.37
23 13 0.37
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (23 bp):
TAAAAAAAATGCATGAAACATAA
Found at i:1365896 original size:20 final size:20
Alignment explanation
Indices: 1365865--1365919 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
1365855 TACATTGTAG
* *
1365865 AATATATCGATACATTCATA
1 AATATATTGATACATTCAAA
* * * *
1365885 CATGTATTGATATATTGAAA
1 AATATATTGATACATTCAAA
1365905 AATATATTGATACAT
1 AATATATTGATACAT
1365920 CAAGGTAAAA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (20 bp):
AATATATTGATACATTCAAA
Found at i:1365909 original size:40 final size:39
Alignment explanation
Indices: 1365842--1365919 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1365832 GGTAAAAAGA
* *
1365842 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
1365881 CATACATGTATTGATATATTGAAAAATATATTGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1365920 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1367010 original size:45 final size:42
Alignment explanation
Indices: 1366880--1367016 Score: 134
Period size: 42 Copynumber: 3.2 Consensus size: 42
1366870 CGTCTCGTTT
* * * *
1366880 TTTGAGGACACAGGAAAAAGGGAAACGAAA-TATGTCCTGCTC
1 TTTGAGGACAAAAGAAAAA-GGAAAAGAAAGTGTGTCCTGCTC
* * *
1366922 TCTGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTC
1 TTTGAGGACAAAAGAAAAAGGAAAAGAAAGTGTGTCCTGCTC
* *
1366964 TTTGAGGACAAAAGAGAAAA-GAAGGGAAGGAAGTGTGTCCTACTC
1 TTTGAGGACAAAAGA-AAAAGGAA---AAGAAAGTGTGTCCTGCTC
1367009 TTTGAGGA
1 TTTGAGGA
1367017 TTGAAAAGTG
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
41 8 0.10
42 43 0.55
43 4 0.05
45 23 0.29
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (42 bp):
TTTGAGGACAAAAGAAAAAGGAAAAGAAAGTGTGTCCTGCTC
Found at i:1367156 original size:122 final size:121
Alignment explanation
Indices: 1367001--1367229 Score: 334
Period size: 122 Copynumber: 1.9 Consensus size: 121
1366991 AGGAAGTGTG
* * *
1367001 TCCTACTCTTTGAGGATTGAAAAGTGCCACCAACTCGTATGGGCTTTGAAAA-GAAAAGGTGTCC
1 TCCTACTCTTTGAAGACTGAAAAGTGCCACCAACTCGTATGGGCTTT-AAAAGGAAAAGGCGTCC
*
1367065 TGCCCTTTGAGGACTGGAAGGTGCCACCGACTTGTGTGGGCTTTGCAAAAAGAAAGCA
65 TGCCCTTTGAGGA-TGGAAAGTGCCACCGACTTGTGTGGGCTTTGCAAAAAGAAAGCA
* * * *
1367123 TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTACTCTTTGAAGACTGAAAAGTGCCACCAACTCGTATGGGCTTTAAAAGGAAAAGGCGTCCT
* * *
1367188 GCTCTTTGAGGATTGAAAGTGCCACCGGCTTGTGTGGGCTTT
66 GCCCTTTGAGGATGGAAAGTGCCACCGACTTGTGTGGGCTTT
1367230 AAAAGGCATC
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
121 31 0.33
122 64 0.67
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (121 bp):
TCCTACTCTTTGAAGACTGAAAAGTGCCACCAACTCGTATGGGCTTTAAAAGGAAAAGGCGTCCT
GCCCTTTGAGGATGGAAAGTGCCACCGACTTGTGTGGGCTTTGCAAAAAGAAAGCA
Found at i:1367235 original size:60 final size:61
Alignment explanation
Indices: 1367000--1367234 Score: 280
Period size: 61 Copynumber: 3.9 Consensus size: 61
1366990 AAGGAAGTGT
* * * * *
1367000 GTCCTACTCTTTGAGGATTGAAAAGTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAGGT
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
* * * * * *
1367061 GTCCTGCCCTTTGAGGACTGGAAGGTGCCACCGACTTGTGTGGGCTTTGCAAAA-AGAAAGC
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGC
* * *
1367122 ATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGC
**
1367183 GTCCTGCTCTTTGAGGATTG-AAAGTGCCACCGGCTTGTGTGGGCTTT-AAAAG
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
1367235 GCATCTTGCT
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
59 5 0.03
60 29 0.20
61 110 0.74
62 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
Found at i:1367334 original size:154 final size:155
Alignment explanation
Indices: 1367123--1367570 Score: 453
Period size: 154 Copynumber: 2.8 Consensus size: 155
1367113 AAAGAAAGCA
* *
1367123 TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCATCCT
* * ** * *
1367188 GCTCTTTGAGGA-TTGAAAGTGCCACCGGCTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAG
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGCATCCTGCTCTTTGAG
1367252 GACAAAAAGGCGAAAGGAGAGAGCG
131 GACAAAAAGGCGAAAGGAGAGAGCG
* *
1367277 TCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCATCC
1 TCCTGCTCTTTGAAGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCATCC
1367341 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGCATCCTGCTCTTTGA
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGCATCCTGCTCTTTGA
* * * * *
1367406 AGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
130 GGAC-A-AAAAGGCGA--AA--------GG---AGAGA-GCG
* * * *
1367448 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT-----AA-AAGGCGTCCT
1 TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCATCCT
* * * * * * *
1367507 TCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAGAGACGTCCTACTCTTTGA
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGCATCCTGCTCTTTGA
1367571 AGACTGGAAA
Statistics
Matches: 249, Mismatches: 26, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
153 1 0.00
154 71 0.29
155 48 0.19
156 1 0.00
157 7 0.03
159 2 0.01
165 66 0.27
166 2 0.01
167 2 0.01
170 3 0.01
171 45 0.18
172 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (155 bp):
TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCATCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGCATCCTGCTCTTTGAG
GACAAAAAGGCGAAAGGAGAGAGCG
Found at i:1367416 original size:55 final size:55
Alignment explanation
Indices: 1367274--1367912 Score: 802
Period size: 55 Copynumber: 11.4 Consensus size: 55
1367264 AAAGGAGAGA
*
1367274 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----AA-AAG
* *
1367335 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
1367390 GCATCCTGCTCTTTGAAGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* *
1367445 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
1367500 GCGTCCTTCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
1367555 ACGTCCTACTCTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGCTGTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
1367610 GCATCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
1367665 GCGTCTTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTTAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
*
1367720 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACCTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * *
1367781 GTGTCCTGCTCTTTGAGGATTAGAAAATTCCACCAA-TTCGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTTAAAAG
* * *
1367836 GAGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAG
1367891 GCGTCCTGCTCTTTGAGGACTG
1 GCGTCCTGCTCTTTGAGGACTG
1367913 AAGGATGAAA
Statistics
Matches: 511, Mismatches: 52, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
54 12 0.02
55 394 0.77
56 12 0.02
60 3 0.01
61 90 0.18
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:1369002 original size:11 final size:10
Alignment explanation
Indices: 1368999--1369044 Score: 65
Period size: 10 Copynumber: 4.3 Consensus size: 10
1368989 TTTTTCTTTG
1368999 TTTTGTTTTTT
1 TTTTG-TTTTT
1369010 TTTTGTTTTT
1 TTTTGTTTTT
1369020 TTTTGCTTTTGT
1 TTTTG-TTTT-T
1369032 TTTTGTTTTT
1 TTTTGTTTTT
1369042 TTT
1 TTT
1369045 ATAGAAGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.42
11 13 0.39
12 6 0.18
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:1369007 original size:16 final size:16
Alignment explanation
Indices: 1368988--1369042 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
1368978 CTTTTCTCTC
1368988 TTTTTTCTTTGTTTTG
1 TTTTTTCTTTGTTTTG
*
1369004 TTTTTTTTTTGTTTT-
1 TTTTTTCTTTGTTTTG
*
1369019 TTTTTGCTTTTGTTTTTG
1 TTTTTTC-TTTG-TTTTG
1369037 TTTTTT
1 TTTTTT
1369043 TTATAGAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 18 0.56
17 4 0.12
18 5 0.16
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTGTTTTG
Found at i:1369018 original size:27 final size:28
Alignment explanation
Indices: 1368988--1369041 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
1368978 CTTTTCTCTC
1368988 TTTTTTCTTTG-TTTTGTTTTT-TTTTTG
1 TTTTTT-TTTGCTTTTGTTTTTGTTTTTG
1369015 TTTTTTTTTGCTTTTGTTTTTGTTTTT
1 TTTTTTTTTGCTTTTGTTTTTGTTTTT
1369042 TTTATAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.16
27 16 0.64
28 5 0.20
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (28 bp):
TTTTTTTTTGCTTTTGTTTTTGTTTTTG
Found at i:1369029 original size:22 final size:21
Alignment explanation
Indices: 1368999--1369044 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
1368989 TTTTTCTTTG
*
1368999 TTTTGTTTTTTTTTTGTTTTT
1 TTTTGTTTTGTTTTTGTTTTT
1369020 TTTTGCTTTTGTTTTTGTTTTT
1 TTTTG-TTTTGTTTTTGTTTTT
1369042 TTT
1 TTT
1369045 ATAGAAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (21 bp):
TTTTGTTTTGTTTTTGTTTTT
Found at i:1381529 original size:79 final size:79
Alignment explanation
Indices: 1381398--1381578 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 79
1381388 TTTTGGAGAT
* * * *
1381398 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTAGGAAATAAAATCGGGATTAG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGGGATTAG
1381463 AGTATCCCCTCAGA
66 AGTATCCCCTCAGA
* * * * *
1381477 AATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGAAATAAAGCCGGGGTTG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTAGGAAATAAAACCGGGATTA
*
1381541 GAGTATCCCCTCGGA
65 GAGTATCCCCTCAGA
**
1381556 GGTAACGGGGTTGGAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
1381579 GATGAAATAA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 1 0.01
79 88 0.99
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGGGATTAG
AGTATCCCCTCAGA
Found at i:1381589 original size:28 final size:28
Alignment explanation
Indices: 1381533--1381609 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1381523 GAAATAAAGC
*** **
1381533 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1381561 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
1381589 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1381610 TGTGAAAAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1381648 original size:107 final size:107
Alignment explanation
Indices: 1381462--1381657 Score: 243
Period size: 107 Copynumber: 1.8 Consensus size: 107
1381452 ATCGGGATTA
* * *
1381462 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAA
1 GAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAA
* * *
1381527 TAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTG
66 TAAAACCGGAGTTGGAATATCCCCTCGGAGGTAACGGGGTTG
* * * * * *
1381569 GAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAA-CTAGTGTTTTAGA
1 GAGTATCCCCTCA-GAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATC-AATATTTTAGA
*
1381632 AATAAAATCGGAGTTGGAATATCCCC
64 AATAAAACCGGAGTTGGAATATCCCC
1381658 GATTGTGGAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
106 2 0.03
107 72 0.97
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (107 bp):
GAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAA
TAAAACCGGAGTTGGAATATCCCCTCGGAGGTAACGGGGTTG
Found at i:1384823 original size:13 final size:13
Alignment explanation
Indices: 1384805--1384830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1384795 CAAAGATCAG
1384805 TGTATCGATACAA
1 TGTATCGATACAA
1384818 TGTATCGATACAA
1 TGTATCGATACAA
1384831 AACGTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1385296 original size:80 final size:79
Alignment explanation
Indices: 1385145--1385338 Score: 221
Period size: 80 Copynumber: 2.5 Consensus size: 79
1385135 GGAGAATTGG
* * * * * *
1385145 TGTTTTAGAAATAAAACTGGGGTTC-GAGTATCCTCTCGAGAATAATGGGTTGGACTATCCCCGA
1 TGTTTTAGAAATAAAACCGGGGGTCGGAGTATCCCCTCGAAAATAAGGGGTTGGACTATCCCCAA
1385209 TTATGAAAAATTAA
66 TTATGAAAAATTAA
* *
1385223 TGTTTTAGAAATAAAACCGGGGGTCGGAGTATCCCCTCGAAAATGACGGGGTTGGAGTATCCCCA
1 TGTTTTAGAAATAAAACCGGGGGTCGGAGTATCCCCTCGAAAAT-AAGGGGTTGGACTATCCCCA
* **
1385288 ATTGTGAAAAATTGG
65 ATTATGAAAAATTAA
* * * *
1385303 TGTTTTTGGAAATAAAATC-GGAGTTGGAGTATCCCC
1 TG-TTTTAGAAATAAAACCGGGGGTCGGAGTATCCCC
1385339 GATTAAAGGA
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 23 0.23
79 16 0.16
80 45 0.46
81 14 0.14
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (79 bp):
TGTTTTAGAAATAAAACCGGGGGTCGGAGTATCCCCTCGAAAATAAGGGGTTGGACTATCCCCAA
TTATGAAAAATTAA
Found at i:1385362 original size:52 final size:51
Alignment explanation
Indices: 1385273--1385456 Score: 217
Period size: 51 Copynumber: 3.6 Consensus size: 51
1385263 AAATGACGGG
* *
1385273 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAATCGGA
** * *
1385325 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACTAGG-
1 GTTGGAGTATCCCCGATT-GTGGAAAATTGGTGTTTTGGAAATAAAA-TCGGA
* * * *
1385377 GTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
1385428 GTTGGAATATCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTGTGGAAAATTG
1385457 AGAAACTTAA
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 2 0.02
51 47 0.43
52 47 0.43
53 14 0.13
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1386644 original size:13 final size:13
Alignment explanation
Indices: 1386626--1386651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1386616 ACATAGATCG
1386626 ATGTATCGATACA
1 ATGTATCGATACA
1386639 ATGTATCGATACA
1 ATGTATCGATACA
1386652 TTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1386728 original size:19 final size:21
Alignment explanation
Indices: 1386704--1386755 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1386694 AGTAATACAC
*
1386704 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTAAA
1386723 TGTATCGATACATTTACTAAA
1 TGTATCGATACATTTACTAAA
1386744 TGTATCGATACA
1 TGTATCGATACA
1386756 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTAAA
Found at i:1387527 original size:20 final size:21
Alignment explanation
Indices: 1387502--1387553 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1387492 CTGCCAAGGA
*
1387502 AATGTATCGATA-CATTATCC
1 AATGTATCGATAGCATCATCC
*
1387522 AATGTATCGA-AGCATCATTC
1 AATGTATCGATAGCATCATCC
1387542 AATGTATCGATA
1 AATGTATCGATA
1387554 TATTGTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
AATGTATCGATAGCATCATCC
Found at i:1390726 original size:52 final size:52
Alignment explanation
Indices: 1390648--1390775 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1390638 CGAAATATGA
*
1390648 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
*
1390700 AAATTTGCCTGAATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1390752 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1390776 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.28
52 47 0.65
53 5 0.07
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1390802 original size:13 final size:13
Alignment explanation
Indices: 1390784--1390808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1390774 CAAAGATCAG
1390784 TGTATCGATACAA
1 TGTATCGATACAA
1390797 TGTATCGATACA
1 TGTATCGATACA
1390809 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1390886 original size:33 final size:33
Alignment explanation
Indices: 1390849--1390915 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1390839 AGTAGCTTAA
1390849 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1390882 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1390915 A
1 A
1390916 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1390889 original size:13 final size:13
Alignment explanation
Indices: 1390871--1390895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1390861 CAAAAAAATA
1390871 TGTATCGATACAT
1 TGTATCGATACAT
1390884 TGTATCGATACA
1 TGTATCGATACA
1390896 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1391932 original size:49 final size:49
Alignment explanation
Indices: 1391814--1391957 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 49
1391804 AAAAAGATGT
*
1391814 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
1391866 CGATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1391915 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACCTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1391958 TGATGAGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 44 0.54
51 1 0.01
52 36 0.44
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1391982 original size:224 final size:224
Alignment explanation
Indices: 1391720--1392179 Score: 893
Period size: 224 Copynumber: 2.1 Consensus size: 224
1391710 AAGGCCAGCA
1391720 GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
1 GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
1391785 TTGGGCTTAAAGATGATGAAAAAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
66 TTGGGCTTAAAGATGATGAAAAAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
1391850 AAGATGGAAAAGGTGCCGATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
131 AAGATGGAAAAGGTGCCGATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1391915 CAATGTGCTGAGTCAAGGCCAGCTACATT
196 CAATGTGCTGAGTCAAGGCCAGCTACATT
*
1391944 GGACCTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
1 GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
*
1392009 TTGGGCTTAAAGATGATGAAAAATGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
66 TTGGGCTTAAAGATGATGAAAAAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
*
1392074 AAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
131 AAGATGGAAAAGGTGCCGATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1392139 CAATGTGCTGAGTCAAGGCCAGCTACATT
196 CAATGTGCTGAGTCAAGGCCAGCTACATT
1392168 GGACTTAAAGAT
1 GGACTTAAAGAT
1392180 AAAGGTGCCA
Statistics
Matches: 232, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
224 232 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (224 bp):
GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
TTGGGCTTAAAGATGATGAAAAAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
AAGATGGAAAAGGTGCCGATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
CAATGTGCTGAGTCAAGGCCAGCTACATT
Found at i:1392155 original size:49 final size:49
Alignment explanation
Indices: 1392038--1392477 Score: 569
Period size: 49 Copynumber: 8.9 Consensus size: 49
1392028 AAAATGATGT
*
1392038 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1392090 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1392139 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1392188 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGC
* * *
1392236 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * * * *
1392285 AAATATGCTGATTCAAGGCTAGTTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1392334 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
1392386 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1392435 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1392478 TGATGAGAAA
Statistics
Matches: 333, Mismatches: 49, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
48 41 0.12
49 209 0.63
50 1 0.00
51 2 0.01
52 80 0.24
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1392175 original size:101 final size:101
Alignment explanation
Indices: 1392038--1393283 Score: 1788
Period size: 101 Copynumber: 12.4 Consensus size: 101
1392028 AAAATGATGT
* * *
1392038 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
* *
1392103 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1392139 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1392201 CAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
*
1392236 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--AAAA-GTGCAAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
* *
1392298 CAAGGCTAGTTATATTGGACTTAATGGTGAAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1392334 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1392399 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1392435 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAGAT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT--A-A--A-GATG-GAAAAG-G-T---G--
* * * * * * * *
1392500 GCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGGATGT
52 CC-AATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGGTG---AAGG-TGC
* * *
1392558 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
* *
1392623 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1392659 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1392721 CAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
1392756 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--AAAA-GTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1392818 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1392854 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1392919 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
*
1392955 CAATGTGCTGAATCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
* *
1393020 CAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGA
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1393056 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1393121 CAAGGCCAGCTATATTGGACTT-A-----AAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * *
1393151 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G---AGGTGCCAATGTGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
* *
1393212 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * * *
1393248 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
1393284 GAAGGGTTGC
Statistics
Matches: 1056, Mismatches: 47, Indels: 88
0.89 0.04 0.07
Matches are distributed among these distances:
91 40 0.04
92 1 0.00
94 1 0.00
95 45 0.04
97 216 0.20
98 196 0.19
100 9 0.01
101 402 0.38
102 4 0.00
103 1 0.00
104 1 0.00
105 5 0.00
106 2 0.00
107 4 0.00
108 34 0.03
109 2 0.00
110 1 0.00
111 1 0.00
113 1 0.00
114 1 0.00
115 2 0.00
116 35 0.03
117 4 0.00
118 2 0.00
119 5 0.00
120 1 0.00
121 1 0.00
122 4 0.00
123 35 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (101 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:1392675 original size:49 final size:49
Alignment explanation
Indices: 1392558--1393283 Score: 957
Period size: 49 Copynumber: 14.7 Consensus size: 49
1392548 AAAAGGATGT
* *
1392558 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* *
1392610 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
1392659 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
1392708 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGC
* * * *
1392756 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
1392805 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
1392854 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* * *
1392906 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
1392955 CAATGTGCTGAATCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* * *
1393007 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
1393056 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
1393108 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
1393151 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1393199 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
1393248 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
1393284 GAAGGGTTGC
Statistics
Matches: 591, Mismatches: 64, Indels: 41
0.85 0.09 0.06
Matches are distributed among these distances:
43 40 0.07
48 88 0.15
49 295 0.50
50 3 0.01
51 3 0.01
52 162 0.27
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:1392795 original size:520 final size:520
Alignment explanation
Indices: 1391814--1393283 Score: 2424
Period size: 520 Copynumber: 2.9 Consensus size: 520
1391804 AAAAAGATGT
* * * *
1391814 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTAATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
* *
1391879 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
*
1391944 GGACCTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
131 GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
*
1392009 TTGGGCTTAAAGATGATGAAAAATGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
196 TTGGGCTTAAAGATGATGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
1392074 AAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
261 AAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1392139 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
326 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1392204 GGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
391 GGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
* *
1392269 TTAAAGATAAAAGTGCAAATATGCTGATTCAAGGCTAGTTATATTGGACTTAATGGTGAAGGTGC
456 TTAAAGATAAAAGTGCAAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1392334 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1392399 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
1392464 GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
131 GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
1392529 TTGGGCTTAAAGATGATGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
196 TTGGGCTTAAAGATGATGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
1392594 AAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
261 AAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1392659 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
326 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1392724 GGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
391 GGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
*
1392789 TTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
456 TTAAAGATAAAAGTGCAAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1392854 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
*
1392919 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAATCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
* * * *
1392984 GGACTT--A-A--A-GATG-GAAAA--G-----G-TGCCAATATGCTGATTCAAGGCCAGCTATA
131 GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
* * * *
1393034 TTGGACTTAAAG--G-TG---AAGG-TGACAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
196 TTGGGCTTAAAGATGATGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
*
1393092 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
261 AAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
1393151 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGCTGATTCAA
326 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* * * * * *
1393215 GGCCAGCTATATTGGACTTAAAGATG-AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGG
391 GGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGG
*
1393279 GCTTA
454 ACTTA
1393284 GAAGGGTTGC
Statistics
Matches: 916, Mismatches: 32, Indels: 32
0.93 0.03 0.03
Matches are distributed among these distances:
491 34 0.04
492 93 0.10
494 1 0.00
498 86 0.09
499 4 0.00
502 2 0.00
503 1 0.00
505 37 0.04
506 1 0.00
511 1 0.00
513 5 0.01
514 4 0.00
515 1 0.00
517 1 0.00
518 1 0.00
520 644 0.70
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (520 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
GGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATA
TTGGGCTTAAAGATGATGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
AAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
TTAAAGATAAAAGTGCAAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:1393161 original size:43 final size:44
Alignment explanation
Indices: 1393099--1393288 Score: 238
Period size: 43 Copynumber: 4.1 Consensus size: 44
1393089 TTAAAGATGG
1393099 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1393143 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1393186 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAA----AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1393234 AAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1393283 AGAAGG
1 AAAAGG
1393289 GTTGCCACCG
Statistics
Matches: 129, Mismatches: 7, Indels: 20
0.83 0.04 0.13
Matches are distributed among these distances:
43 41 0.32
44 6 0.05
47 1 0.01
48 40 0.31
49 38 0.29
50 1 0.01
51 1 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (44 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1393327 original size:33 final size:34
Alignment explanation
Indices: 1393283--1393586 Score: 450
Period size: 33 Copynumber: 9.2 Consensus size: 34
1393273 TATTGGGCTT
1393283 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* *
1393316 AGAATGG-TTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
1393348 GGAAGGG-TTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
1393380 GGACGGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1393414 AAGAA-GG-TTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1393447 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1393481 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1393514 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
1393547 A-AAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1393580 A-AAGGGT
1 AGAAGGGT
1393587 GAAAGATGCC
Statistics
Matches: 254, Mismatches: 11, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
32 42 0.17
33 177 0.70
34 33 0.13
35 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1393525 original size:133 final size:132
Alignment explanation
Indices: 1393276--1393586 Score: 474
Period size: 133 Copynumber: 2.4 Consensus size: 132
1393266 CCAGCTATAT
*
1393276 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTG
* * *
1393337 TGTGGGCTTTGGGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGGACGGGATTGCCACCAACTTG
66 TGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGACAGGATTGCCACCAACTTG
1393402 TG
131 TG
*
1393404 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTG
* * *
1393469 TGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTTAGAGA-AGGTTTGCCACCGACT
66 TGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGACAGGATTGCCACCAACT
1393533 TGTG
129 TGTG
1393537 TGGGCTTTAGAA-AAGGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGGT
1 TGGGCTTTAGAAGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
1393587 GAAAGATGCC
Statistics
Matches: 168, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
128 5 0.03
129 7 0.04
131 34 0.20
132 33 0.20
133 86 0.51
134 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (132 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTG
TGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGACAGGATTGCCACCAACTTG
TG
Found at i:1393698 original size:34 final size:34
Alignment explanation
Indices: 1393588--1393822 Score: 348
Period size: 34 Copynumber: 6.9 Consensus size: 34
1393578 AGAAAGGGTG
* * * *
1393588 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
1393621 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAA-GG-AA
1393657 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1393691 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1393725 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
1393759 AAATAGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
1393793 AAAGAGTGCCACGGAGTTATGGGCTTAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAA
1393823 TTTGTCCCCA
Statistics
Matches: 186, Mismatches: 11, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
33 19 0.10
34 135 0.73
35 3 0.02
36 10 0.05
37 19 0.10
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.19
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
Found at i:1407885 original size:10 final size:10
Alignment explanation
Indices: 1407869--1407935 Score: 70
Period size: 10 Copynumber: 7.1 Consensus size: 10
1407859 CATCTTCCAC
1407869 AAAAAAA-AA
1 AAAAAAACAA
*
1407878 ACAAAAA-AA
1 AAAAAAACAA
*
1407887 CAAAAAACAA
1 AAAAAAACAA
1407897 AAAAAAACAA
1 AAAAAAACAA
*
1407907 ACAAAAAC--
1 AAAAAAACAA
*
1407915 AAACAAACAA
1 AAAAAAACAA
1407925 AAAAAAACAA
1 AAAAAAACAA
1407935 A
1 A
1407936 CAATAAAAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
8 6 0.13
9 13 0.28
10 28 0.60
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:1407891 original size:14 final size:13
Alignment explanation
Indices: 1407869--1407944 Score: 89
Period size: 14 Copynumber: 5.4 Consensus size: 13
1407859 CATCTTCCAC
1407869 AAAAAAAAAACAAA
1 AAAAAAAAAAC-AA
1407883 AAAACAAAAAACAA
1 AAAA-AAAAAACAA
1407897 AAAAAAACAAACAA
1 AAAAAAA-AAACAA
*
1407911 AAACAAACAAACAA
1 AAA-AAAAAAACAA
1407925 AAAAAAACAAACAA
1 AAAAAAA-AAACAA
1407939 TAAAAA
1 -AAAAA
1407945 GGGTCCGGAT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.11
14 34 0.62
15 15 0.27
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:1407900 original size:28 final size:30
Alignment explanation
Indices: 1407869--1407944 Score: 115
Period size: 28 Copynumber: 2.6 Consensus size: 30
1407859 CATCTTCCAC
1407869 AAAAAAA-AAACAAAAAAACAAA-AAACAA
1 AAAAAAACAAACAAAAAAACAAACAAACAA
1407897 AAAAAAACAAAC--AAAAACAAACAAACAA
1 AAAAAAACAAACAAAAAAACAAACAAACAA
1407925 AAAAAAACAAACAATAAAAA
1 AAAAAAACAAACAA-AAAAA
1407945 GGGTCCGGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.21
28 25 0.58
29 4 0.09
31 5 0.12
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (30 bp):
AAAAAAACAAACAAAAAAACAAACAAACAA
Found at i:1407944 original size:1 final size:1
Alignment explanation
Indices: 1407869--1407931 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
1407859 CATCTTCCAC
* * * * * * * *
1407869 AAAAAAAAAACAAAAAAACAAAAAACAAAAAAAAACAAACAAAAACAAACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1407932 CAAACAATAA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1409010 original size:37 final size:37
Alignment explanation
Indices: 1408969--1409053 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
1408959 TGCCATAATC
1408969 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1409006 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
*
1409043 ATGTATTTGTG
1 ATGCATTTGTG
1409054 CTTCATCTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:1409486 original size:28 final size:29
Alignment explanation
Indices: 1409407--1409552 Score: 172
Period size: 28 Copynumber: 5.1 Consensus size: 29
1409397 GATTCCTCAC
* * *
1409407 TTTCCAAAGCCCACAAGTTAGTGGCATCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCAAC-T
* *
1409437 TTTCAAAAGCCCACAAGCCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
1409466 TTTCAAAA-CCCACAAGTCAGTGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
* *
1409493 CTTCAAAAGCCCACAAGTTAGTGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
* * *
1409521 CTTCAAAAGCCCATAAGTCAGTGGCACCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
1409550 TTT
1 TTT
1409553 TCTTTTCAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
27 7 0.07
28 60 0.58
29 11 0.11
30 25 0.24
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACT
Found at i:1409580 original size:34 final size:32
Alignment explanation
Indices: 1409541--1409707 Score: 163
Period size: 34 Copynumber: 5.0 Consensus size: 32
1409531 CCATAAGTCA
1409541 GTGGCACCTTTTTCTTTTCAAAGTCCACAACTCC
1 GTGGCACCTTTTTCTTTT--AAGTCCACAACTCC
* *
1409575 GTGGCACCTCTTTCCTTTTAAGTCCACGACTCC
1 GTGGCACCT-TTTTCTTTTAAGTCCACAACTCC
* * *
1409608 GTGGCACCTTTTTCCTTTTAAGACCACGACTCT
1 GTGGCACCTTTTT-CTTTTAAGTCCACAACTCC
* * * *
1409641 GTGGCACCCTTTTCCCTTGTAAGCCCACACCTCC
1 GTGGCA-CCTTTT-TCTTTTAAGTCCACAACTCC
* *
1409675 GTGGCATCCTTTTTTCTTGTAAGTCTACAACTC
1 GTGGCA-CC-TTTTTCTTTTAAGTCCACAACTC
1409708 TGTGTCATCT
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
32 3 0.03
33 45 0.40
34 52 0.46
35 12 0.11
ACGTcount: A:0.17, C:0.34, G:0.14, T:0.35
Consensus pattern (32 bp):
GTGGCACCTTTTTCTTTTAAGTCCACAACTCC
Found at i:1409607 original size:33 final size:33
Alignment explanation
Indices: 1409541--1409699 Score: 153
Period size: 33 Copynumber: 4.7 Consensus size: 33
1409531 CCATAAGTCA
* *
1409541 GTGGCACCT-TTTTCTTTTCAAAGTCCACAACTCC
1 GTGGCACCTCTTTCCTTTT--AAGTCCACGACTCC
1409575 GTGGCACCTCTTTCCTTTTAAGTCCACGACTCC
1 GTGGCACCTCTTTCCTTTTAAGTCCACGACTCC
* * *
1409608 GTGGCACCTTTTTCCTTTTAAGACCACGACTCT
1 GTGGCACCTCTTTCCTTTTAAGTCCACGACTCC
* *
1409641 GTGGCACC-CTTTTCCCTTGTAAGCCCAC-ACCTCC
1 GTGGCACCTC-TTT-CCTTTTAAGTCCACGA-CTCC
* * *
1409675 GTGGCATCCTTTTTTCTTGTAAGTC
1 GTGGCA-CCTCTTTCCTTTTAAGTC
1409700 TACAACTCTG
Statistics
Matches: 107, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
33 55 0.51
34 39 0.36
35 13 0.12
ACGTcount: A:0.16, C:0.33, G:0.15, T:0.35
Consensus pattern (33 bp):
GTGGCACCTCTTTCCTTTTAAGTCCACGACTCC
Found at i:1409619 original size:67 final size:67
Alignment explanation
Indices: 1409541--1409707 Score: 180
Period size: 67 Copynumber: 2.5 Consensus size: 67
1409531 CCATAAGTCA
* * *
1409541 GTGGCACCTTTTT-CTTTTCAAAGTCCACAACTCCGTGGCA-CCTCTTT-CCTTTTAAGTCCACG
1 GTGGCACCTTTTTCCTTTT--AAGACCACAACTCCGTGGCACCCT-TTTCCCTTGTAAGCCCAC-
1409603 A-CTCC
62 ACCTCC
* *
1409608 GTGGCACCTTTTTCCTTTTAAGACCACGACTCTGTGGCACCCTTTTCCCTTGTAAGCCCACACCT
1 GTGGCACCTTTTTCCTTTTAAGACCACAACTCCGTGGCACCCTTTTCCCTTGTAAGCCCACACCT
1409673 CC
66 CC
* * * *
1409675 GTGGCATCCTTTTTTCTTGTAAGTCTACAACTC
1 GTGGCA-CCTTTTTCCTTTTAAGACCACAACTC
1409708 TGTGTCATCT
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
66 21 0.25
67 38 0.45
68 26 0.31
ACGTcount: A:0.17, C:0.34, G:0.14, T:0.35
Consensus pattern (67 bp):
GTGGCACCTTTTTCCTTTTAAGACCACAACTCCGTGGCACCCTTTTCCCTTGTAAGCCCACACCT
CC
Found at i:1409777 original size:43 final size:43
Alignment explanation
Indices: 1409716--1409992 Score: 204
Period size: 43 Copynumber: 6.1 Consensus size: 43
1409706 TCTGTGTCAT
* *
1409716 CTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCAC
1409759 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAATCAACACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCC-T---T--G-AATCAACACATTGGCAC
* *
1409809 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCAC
* * *
1409852 CTTTACCATCTTGAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGC
1 CTTT---A-----AGTCCAATATCGCTGGCCTTGAATCAACACATTGGCA-----C
* * * *
1409908 CTTTAAGACCAATGTCGCTGGCCCTT-AATCAGCACATTAGCA-
1 CTTTAAGTCCAATATCGCTGG-CCTTGAATCAACACATTGGCAC
* * *
1409950 C---GAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCAC
1409990 CTT
1 CTT
1409993 CATCTTTAAG
Statistics
Matches: 194, Mismatches: 15, Indels: 51
0.75 0.06 0.20
Matches are distributed among these distances:
38 4 0.02
39 27 0.14
40 1 0.01
42 1 0.01
43 40 0.21
44 2 0.01
46 2 0.01
47 1 0.01
48 28 0.14
49 6 0.03
50 40 0.21
51 36 0.19
53 1 0.01
56 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCAC
Found at i:1409783 original size:22 final size:22
Alignment explanation
Indices: 1409758--1409833 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
1409748 CACATTGGCA
1409758 CCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATATCGCTGG
* * *
1409780 CCTTGAA-TCAGCAATCAACACATTGG
1 CCTTTAAGTC--CAAT-ATCGC--TGG
1409806 CACCTTTAAGTCCAATATCGCTGG
1 --CCTTTAAGTCCAATATCGCTGG
1409830 CCTT
1 CCTT
1409834 GAATCAGCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
21 2 0.05
22 10 0.25
23 4 0.10
24 6 0.15
26 6 0.15
27 4 0.10
28 6 0.15
29 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (22 bp):
CCTTTAAGTCCAATATCGCTGG
Found at i:1409794 original size:23 final size:23
Alignment explanation
Indices: 1409768--1409842 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 23
1409758 CCTTTAAGTC
1409768 CAATATCGCTGGCCTTGAATCAG
1 CAATATCGCTGGCCTTGAATCAG
* * *
1409791 CAATCAACACATTGGCACCTTTAAGTC--
1 CAAT-ATCGC--TGG--CCTTGAA-TCAG
1409818 CAATATCGCTGGCCTTGAATCAG
1 CAATATCGCTGGCCTTGAATCAG
1409841 CA
1 CA
1409843 TATTGGCACC
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
21 2 0.05
22 6 0.16
23 6 0.16
24 6 0.16
26 6 0.16
27 4 0.11
28 6 0.16
29 2 0.05
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (23 bp):
CAATATCGCTGGCCTTGAATCAG
Found at i:1409817 original size:50 final size:50
Alignment explanation
Indices: 1409742--1409842 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
1409732 GCTGGCCTTG
1409742 AATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 AATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1409792 AATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 AATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1409842 A
1 A
1409843 TATTGGCACC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (50 bp):
AATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
Found at i:1409821 original size:27 final size:27
Alignment explanation
Indices: 1409742--1409821 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
1409732 GCTGGCCTTG
1409742 AATCAACACATTGGCACCTTTAAGTCC
1 AATCAACACATTGGCACCTTTAAGTCC
* * *
1409769 AAT-ATCGC--TGG--CCTTGAA-TCAGC
1 AATCAACACATTGGCACCTTTAAGTC--C
1409792 AATCAACACATTGGCACCTTTAAGTCC
1 AATCAACACATTGGCACCTTTAAGTCC
1409819 AAT
1 AAT
1409822 ATCGCTGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
21 2 0.05
22 6 0.15
23 4 0.10
24 6 0.15
26 6 0.15
27 7 0.18
28 6 0.15
29 2 0.05
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
AATCAACACATTGGCACCTTTAAGTCC
Found at i:1409987 original size:138 final size:136
Alignment explanation
Indices: 1409712--1410083 Score: 355
Period size: 138 Copynumber: 2.7 Consensus size: 136
1409702 CAACTCTGTG
* * * *
1409712 TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGG---C-ACC-TTTAAGTCCAAT
1 TCATCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGCACCTACCTTTTAAGACCAAT
* * * *
1409772 ATCGCTGGCCTTGAATCAGCAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAA
66 GTCGCTGGCCTTGAATCAG-------CACATTAGCA-C---GAGCCCAATATCGCTGGCCTTGAA
*
1409837 TCAGCATATTGGCACCTT
120 TCAACATATTGGCACC-T
* * * *
1409855 TACCATC-TTGAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGCC-TTTAAGACC
1 T--CATCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGCACC-TACCTTTTAAGACC
1409918 AATGTCGCTGGCCCTT-AATCAGCACATTAGCACGAGCCCAATATCGCTGGCCTTGAATCAACAT
63 AATGTCGCTGG-CCTTGAATCAGCACATTAGCACGAGCCCAATATCGCTGGCCTTGAATCAACAT
1409982 ATTGGCACCT
127 ATTGGCACCT
* * * * *
1409992 TCATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTACCATTTTTAAGTCCA
1 TCATCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGCACCTACC--TTTTAAGACCA
*
1410057 ATGTCGCTGGCCTTGAATCAGTACATT
64 ATGTCGCTGGCCTTGAATCAGCACATT
1410084 GGTACGTTCA
Statistics
Matches: 193, Mismatches: 23, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
135 7 0.04
136 35 0.18
137 6 0.03
138 67 0.35
141 1 0.01
142 9 0.05
143 1 0.01
144 32 0.17
145 4 0.02
147 1 0.01
149 26 0.13
150 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (136 bp):
TCATCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGCACCTACCTTTTAAGACCAAT
GTCGCTGGCCTTGAATCAGCACATTAGCACGAGCCCAATATCGCTGGCCTTGAATCAACATATTG
GCACCT
Found at i:1410037 original size:49 final size:49
Alignment explanation
Indices: 1409955--1410185 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 49
1409945 TAGCACGAGC
* * * *
1409955 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGA
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
* * * *
1410004 CCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTACCATTTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCT-TCATCTTTAAGA
* * * * *
1410054 CCAATGTCGCTGGCCTTGAATCAGTACATTGGTACGTTCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
* * * *
1410103 TCGATATCGTTGGCTTTGAATCAGCACATTGGCACCTTCATCTTTAA-A
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
*
1410151 CCCAATGTCGTTGGCCTTGAATTAGCACATTGGCA
1 -CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1410186 TTCTTCTCAT
Statistics
Matches: 151, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 110 0.73
50 41 0.27
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (49 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
Found at i:1410126 original size:99 final size:98
Alignment explanation
Indices: 1409954--1410185 Score: 311
Period size: 99 Copynumber: 2.4 Consensus size: 98
1409944 TTAGCACGAG
* * * *
1409954 CCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCC
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCGATATCGTTGGCC
* *
1410019 TTGAATCAGCACATTGGCACCTACCATTTTTAAG
66 TTGAATCAGCACATTGGCACCT-CCATCTTTAAA
* * * * ** *
1410053 TCCAATGTCGCTGGCCTTGAATCAGTACATTGGTACGTTCATCTTTAAGTTCGATATCGTTGGCT
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCGATATCGTTGGCC
*
1410118 TTGAATCAGCACATTGGCACCTTCATCTTTAAA
66 TTGAATCAGCACATTGGCACCTCCATCTTTAAA
* *
1410151 CCCAATGTCGTTGGCCTTGAATTAGCACATTGGCA
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1410186 TTCTTCTCAT
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
98 38 0.33
99 76 0.67
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (98 bp):
CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCGATATCGTTGGCC
TTGAATCAGCACATTGGCACCTCCATCTTTAAA
Found at i:1410132 original size:187 final size:186
Alignment explanation
Indices: 1409716--1410085 Score: 431
Period size: 187 Copynumber: 2.0 Consensus size: 186
1409706 TCTGTGTCAT
* * * * *
1409716 CTTTAAGACCAATGTCGCTGG-CCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGG
1 CTTTAAGACCAATATCGCTGGCCCTT-AATCAGCACATTAGCA-C---GAGCCCAATATCGCTGG
* * *
1409780 CCTTGAATCAGCAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
61 CCTTGAATCAACAATCAACACATT-GCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACA
* *
1409845 TTGGCACCTTTACCATCTTGAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGC
125 TTGGCACC-TTACCATCTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGGCACCTTGC
*
1409908 CTTTAAGACCAATGTCGCTGGCCCTTAATCAGCACATTAGCACGAGCCCAATATCGCTGGCCTTG
1 CTTTAAGACCAATATCGCTGGCCCTTAATCAGCACATTAGCACGAGCCCAATATCGCTGGCCTTG
*** * * * * *
1409973 AATCAACATATTGGCACCTT-CATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGC
66 AATCAACA-ATCAACACATTGCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGC
* * * *
1410037 ACC-TACCATTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGG
130 ACCTTACCA-TCTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGG
1410086 TACGTTCATC
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
185 5 0.03
186 34 0.22
187 41 0.27
188 27 0.18
189 7 0.05
191 1 0.01
192 35 0.23
193 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (186 bp):
CTTTAAGACCAATATCGCTGGCCCTTAATCAGCACATTAGCACGAGCCCAATATCGCTGGCCTTG
AATCAACAATCAACACATTGCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
CCTTACCATCTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGGCACCTTGC
Found at i:1416386 original size:1 final size:1
Alignment explanation
Indices: 1416380--1416472 Score: 78
Period size: 1 Copynumber: 93.0 Consensus size: 1
1416370 AAATCTTCAC
* * ** * * * *
1416380 TTTTTTTTTTGTTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
1416445 CTTTTTTTTGTTTTGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1416473 CCAATTGCCA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (1 bp):
T
Found at i:1416437 original size:35 final size:35
Alignment explanation
Indices: 1416380--1416473 Score: 165
Period size: 35 Copynumber: 2.7 Consensus size: 35
1416370 AAATCTTCAC
1416380 TTTTTT-TTTTG-TTTTTTTTTTTTCTTTTTCCTT
1 TTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCTT
1416413 TTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCTT
1 TTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCTT
*
1416448 TTTTTTGTTTTGTTTTTTTCTTTTTC
1 TTTTTTGTTTTGTTTTTTTTTTTTTC
1416474 CAATTGCCAT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 6 0.10
34 5 0.09
35 47 0.81
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (35 bp):
TTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCTT
Found at i:1427395 original size:13 final size:13
Alignment explanation
Indices: 1427377--1427403 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1427367 ACATTATGCT
1427377 TTGTATCGATACA
1 TTGTATCGATACA
1427390 TTGTATCGATACA
1 TTGTATCGATACA
1427403 T
1 T
1427404 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1427433 original size:20 final size:19
Alignment explanation
Indices: 1427387--1427443 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1427377 TTGTATCGAT
*
1427387 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1427406 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1427425 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1427444 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1427497 original size:20 final size:20
Alignment explanation
Indices: 1427472--1427525 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1427462 CTATCACTGT
*
1427472 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
1427492 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
1427512 TTGTATCGATACAT
1 TTGTATCGATACAT
1427526 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1432532 original size:13 final size:12
Alignment explanation
Indices: 1432493--1432534 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
1432483 TGTATAAAAC
1432493 AAAGAAAAAGAT
1 AAAGAAAAAGAT
* *
1432505 CAA-AAAAAGAG
1 AAAGAAAAAGAT
1432516 AAAGAAAAAGAAT
1 AAAGAAAAAG-AT
1432529 AAAGAA
1 AAAGAA
1432535 TAAATATAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (12 bp):
AAAGAAAAAGAT
Found at i:1434950 original size:6 final size:6
Alignment explanation
Indices: 1434939--1434963 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1434929 TAAAAACAAA
1434939 CCTAAC CCTAAC CCTAAC CCTAAC C
1 CCTAAC CCTAAC CCTAAC CCTAAC C
1434964 TCTACCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:1437866 original size:167 final size:164
Alignment explanation
Indices: 1437505--1438013 Score: 648
Period size: 168 Copynumber: 3.1 Consensus size: 164
1437495 TAATATCATA
* *
1437505 AATTTAAAAAATTAAAAACCAAGAAAAATCCCCTGAAAAATTTTATGGAGTAGAAAACTCCATAT
1 AATTTAAAAAATTAAAAACCAAGAAAAATCCCC-CAAAAAATTTATGGAGTAGAAAACTCCATAT
* * * *
1437570 TTC-GAAATAG-GAGAATTTCAACGAAAAAATT-TAAAACTAATGAAAATGAAGGAATTTTTTAA
65 TTCAAAAATAGAGA-AATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAA
* * *
1437632 AACTGACTTAATATAAAATAAATAATAATATTTGATG
129 AAAT-AATTAATATGAAATAAATAATAATATTTGATG
*
1437669 AATTTAAAAAATTCAAAAACCAAGAAAAATCCCCCACAAAAATTTATGGAGTAGAAAACTCCGTA
1 AATTTAAAAAATT-AAAAACCAAGAAAAATCCCCCA-AAAAATTTATGGAGTAGAAAACTCCATA
* * * *
1437734 TTTCAAAAATAGAGAAATTTTAAGGAAAAAATTCAAAAACTAATAAAAATAAAGGAACTTTTGAA
64 TTTCAAAAATAGAGAAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAA
* * *
1437799 AAATAATTTAAAATGAAACAAATAATAATATTTTATG
129 AAATAA-TTAATATGAAATAAATAATAATATTTGATG
* * * ** *
1437836 AATTTTAAAAATTAAAAACCAAGAAAAAATCCTTCCAAAAAAATTTA-CGACAAAGAAAACTCTA
1 AATTTAAAAAATTAAAAACCAAG-AAAAATCC--CCCAAAAAATTTATGGA-GTAGAAAACTCCA
* * *
1437900 TATTCCAAAAACATAGAAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTG
62 TATTTCAAAAATAGAGAAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTG
*
1437965 AAAATTGAATTAATATGAAATAAATAATAATATTTGATG
127 AAAAAT-AATTAATATGAAATAAATAATAATATTTGATG
1438004 AATTTAAAAA
1 AATTTAAAAA
1438014 GTAATAAACC
Statistics
Matches: 298, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
164 14 0.05
165 50 0.17
166 33 0.11
167 79 0.27
168 117 0.39
169 5 0.02
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.27
Consensus pattern (164 bp):
AATTTAAAAAATTAAAAACCAAGAAAAATCCCCCAAAAAATTTATGGAGTAGAAAACTCCATATT
TCAAAAATAGAGAAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAA
ATAATTAATATGAAATAAATAATAATATTTGATG
Found at i:1438620 original size:19 final size:19
Alignment explanation
Indices: 1438577--1438649 Score: 101
Period size: 20 Copynumber: 3.7 Consensus size: 19
1438567 CACATCTAGA
* *
1438577 TGTATCGATACATTACGCTT
1 TGTATCGATACA-TACTCAT
*
1438597 TGTATCGATACATGCTCAT
1 TGTATCGATACATACTCAT
1438616 TGTATCGATACATACTCAAT
1 TGTATCGATACATACTC-AT
1438636 TGTATCGATACATA
1 TGTATCGATACATA
1438650 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.42
20 28 0.58
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACTCAT
Found at i:1440043 original size:43 final size:43
Alignment explanation
Indices: 1439973--1440068 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
1439963 GGGAGACTTC
* * *
1439973 TTTATTCTTTGTTTACCCATCTACTCAATCCTAGGAAA-CACCT
1 TTTATCCTTTGTTTACCCATCGACTCAAT-CTAGAAAAGCACCT
* * * * *
1440016 TTTATCCTTTGTTTGCCCGTCGGCTCAATCTCGAAAAGCACTT
1 TTTATCCTTTGTTTACCCATCGACTCAATCTAGAAAAGCACCT
1440059 TTTATCCTTT
1 TTTATCCTTT
1440069 ATCTACCTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 6 0.14
43 38 0.86
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (43 bp):
TTTATCCTTTGTTTACCCATCGACTCAATCTAGAAAAGCACCT
Found at i:1440322 original size:84 final size:85
Alignment explanation
Indices: 1440119--1440401 Score: 209
Period size: 84 Copynumber: 3.4 Consensus size: 85
1440109 TACTGACATG
* * * * * * * *
1440119 TCAGCTCAGTCTCTGATCAACCTTCATCTCTTTATTTACCT-GTCAGCTCAGTCCAC-AGTAAAC
1 TCAGCGCAGTCTCCGATCAACCTTCATCTCCTTGTTTACCTATTGA-CTCAATCCTCGA-TAAAC
* **
1440182 CAATTACACCTAT-GTTGACCGG
64 CCATTACACCTATAG-TGACCTA
* ** * * * * * * **
1440204 TCAACTTAATCTCTGGTCAACCTTCATC-CTTTGTTTACCTGTTGGCTCTGTCCTCGATAAACCC
1 TCAGCGCAGTCTCCGATCAACCTTCATCTCCTTGTTTACCTATTGACTCAATCCTCGATAAACCC
* *
1440268 TTTATC-CCT-TAGTGACTTA
66 ATTA-CACCTATAGTGACCTA
* * *
1440287 TCAGCGCAGTCTCCGATCAACTTTCATCTCCTTGTTTAGCTATTGACTCAATCCTCGGTAAACCC
1 TCAGCGCAGTCTCCGATCAACCTTCATCTCCTTGTTTACCTATTGACTCAATCCTCGATAAACCC
* *
1440352 ATTACACTTATAGTGACCTG
66 ATTACACCTATAGTGACCTA
* *
1440372 TTAGCTCAGTCTCCGATCAACCTTCATCTC
1 TCAGCGCAGTCTCCGATCAACCTTCATCTC
1440402 TGTGCTGTCA
Statistics
Matches: 155, Mismatches: 36, Indels: 14
0.76 0.18 0.07
Matches are distributed among these distances:
83 27 0.17
84 66 0.43
85 62 0.40
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (85 bp):
TCAGCGCAGTCTCCGATCAACCTTCATCTCCTTGTTTACCTATTGACTCAATCCTCGATAAACCC
ATTACACCTATAGTGACCTA
Found at i:1440412 original size:21 final size:21
Alignment explanation
Indices: 1440388--1440450 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
1440378 CAGTCTCCGA
1440388 TCAACCTTCATCTCTGTGCTG
1 TCAACCTTCATCTCTGTGCTG
*
1440409 TCAA-CTT-AGTCTC--T--AG
1 TCAACCTTCA-TCTCTGTGCTG
*
1440425 TCAACCTTCATCTTTGTGCTG
1 TCAACCTTCATCTCTGTGCTG
1440446 TCAAC
1 TCAAC
1440451 TCAATCTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
16 5 0.16
17 6 0.19
18 2 0.06
19 2 0.06
20 7 0.22
21 10 0.31
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (21 bp):
TCAACCTTCATCTCTGTGCTG
Found at i:1440429 original size:37 final size:37
Alignment explanation
Indices: 1440388--1440475 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
1440378 CAGTCTCCGA
* * *
1440388 TCAACCTTCATCTCTGTGCTGTCAACTTAGTCTCTAG
1 TCAACCTTCATCTCTGTGCTGTCAACTCAATCTCCAG
*
1440425 TCAACCTTCATCTTTGTGCTGTCAACTCAATCTCCAG
1 TCAACCTTCATCTCTGTGCTGTCAACTCAATCTCCAG
*
1440462 TCAACCTTTATCTC
1 TCAACCTTCATCTC
1440476 CTTGTTTACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.20, C:0.32, G:0.10, T:0.38
Consensus pattern (37 bp):
TCAACCTTCATCTCTGTGCTGTCAACTCAATCTCCAG
Found at i:1440805 original size:84 final size:85
Alignment explanation
Indices: 1440530--1440889 Score: 286
Period size: 84 Copynumber: 4.3 Consensus size: 85
1440520 TACTGACCCG
* * * * * *
1440530 TCAGCTTAGTCTCC-AGTCAACCTTCTTCT-TTATGTTTACCTGTCGGCTCAGTCCTCGATAAAC
1 TCAGCTCAGTCTCCGA-TCAACCTTCATCTCTT-TGTTTACCTATCAGCTCAGTCCCCGGTAAAC
* * * *
1440593 CTCTTATC-CCT-TAGTGACTTG
64 CCCTTA-CACCTATGGTGACCTA
* * * * * *
1440614 TCAGCTCAGTCTCTGGTTAACCTTCATCTCATTATTTACCTATTAGCTCAGTCCCCGGTAAACCC
1 TCAGCTCAGTCTCCGATCAACCTTCATCTCTTTGTTTACCTATCAGCTCAGTCCCCGGTAAACCC
* * * * **
1440679 ATTAGACCTATGCTAACCCG
66 CTTACACCTATGGTGACCTA
* * * * * *
1440699 TCAGCTTAGTCTTCGGTCAACCTTTATCT-TTTGTTTGCCTATCAACTCAGTCCCCGGTAAACCC
1 TCAGCTCAGTCTCCGATCAACCTTCATCTCTTTGTTTACCTATCAGCTCAGTCCCCGGTAAACCC
*
1440763 CTTACACTTATGGTGACCTA
66 CTTACACCTATGGTGACCTA
* * * * * * ** *
1440783 TCAGTTCAGTCTCCGATTAACCTTCCTCTCTGTGTTTACCTATCGGCTTAGTCCTTGGTAAGCCC
1 TCAGCTCAGTCTCCGATCAACCTTCATCTCTTTGTTTACCTATCAGCTCAGTCCCCGGTAAACCC
1440848 CTTATC-CCT-TGGTGACCTA
66 CTTA-CACCTATGGTGACCTA
1440867 TCA-CTCAGTCTCCGATCAACCTT
1 TCAGCTCAGTCTCCGATCAACCTT
1440890 TACTAGTCGA
Statistics
Matches: 215, Mismatches: 55, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
83 18 0.08
84 133 0.62
85 63 0.29
86 1 0.00
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.35
Consensus pattern (85 bp):
TCAGCTCAGTCTCCGATCAACCTTCATCTCTTTGTTTACCTATCAGCTCAGTCCCCGGTAAACCC
CTTACACCTATGGTGACCTA
Found at i:1441081 original size:84 final size:83
Alignment explanation
Indices: 1440934--1441575 Score: 523
Period size: 84 Copynumber: 7.7 Consensus size: 83
1440924 ACCTATGGTG
* * ** * *
1440934 ACCTTCATCTCTCTGTTTACTTGTTGGCTCAATCCCC-AGTAAACCCCTTAT-CCTTTAGTGACC
1 ACCTTCATCTCTTTGTTTAC-TATCAGCTCAGTCCCCGA-TAAACCCCTTATCCCTTGA-TGACC
* *
1440997 TGTCAGCTGAGTCTCTAGTCA
63 TGTCAGTTTAGTCTCTAGTCA
* * * *
1441018 ATCTTTATCTCTTTGTTTACTTATCAGCTCAATCCTCGATAAACCCCTTATCCCTTGATGACCTG
1 ACCTTCATCTCTTTGTTTAC-TATCAGCTCAGTCCCCGATAAACCCCTTATCCCTTGATGACCTG
** * * *
1441083 TCAACTCAGTCTCCAGTTA
65 TCAGTTTAGTCTCTAGTCA
* * * * * * * *
1441102 ACCTTGATCTCTTTATTTCCCTATCGGCTTAGTCCAC-AGTAAACCCCTTATCCCTTCATGACTT
1 ACCTTCATCTCTTTGTTT-ACTATCAGCTCAGTCCCCGA-TAAACCCCTTATCCCTTGATGACCT
*
1441166 GTCAGTTTAGTCTAT-GATCA
64 GTCAGTTTAGTCTCTAG-TCA
* * * *
1441186 ACCTTCATC-CTTTGTTTAACTGTCAGCTCAGTCCCCGGTAAACACCTTATCCCTTGATGACCTA
1 ACCTTCATCTCTTTGTTT-ACTATCAGCTCAGTCCCCGATAAACCCCTTATCCCTTGATGACCTG
1441250 TCAGTTTAGTCTCTAGTCA
65 TCAGTTTAGTCTCTAGTCA
* * * * * * * *
1441269 ACTTTGATCTCTTTGTTTACCTATCGGCTTAG-CCCACAATAAA-CCCTCTCTCCCTTGGTGACT
1 ACCTTCATCTCTTTGTTTA-CTATCAGCTCAGTCCC-CGATAAACCCCT-TATCCCTTGATGACC
*
1441332 TGTCAGTTTAGTCT-TCGATCA
63 TGTCAGTTTAGTCTCTAG-TCA
* * * *
1441353 ACCTCCATC-CTTTGTTTAACTGTCAGCTCAGTCCCCGGTAAACCCCTTATCCCCTGATGACCTG
1 ACCTTCATCTCTTTGTTT-ACTATCAGCTCAGTCCCCGATAAACCCCTTATCCCTTGATGACCTG
* * *
1441417 TTAGTTCAGTCTCCAGTCA
65 TCAGTTTAGTCTCTAGTCA
* * * * * * * * *
1441436 ACCTTGATCTCTTTGTTTACCTATCGGCTTAGTCCGCAATAAACCCCCTCTCCCTTGGTGACTTG
1 ACCTTCATCTCTTTGTTTA-CTATCAGCTCAGTCCCCGATAAACCCCTTATCCCTTGATGACCTG
*
1441501 TCAGTTTAGTCT-TCGATCA
65 TCAGTTTAGTCTCTAG-TCA
* * * *
1441520 ACCTTCATC-CTTCGTTTAACTGTCAGCTCAGTCCCCGGTAAACCCTTTATCCCTTG
1 ACCTTCATCTCTTTGTTT-ACTATCAGCTCAGTCCCCGATAAACCCCTTATCCCTTG
1441576 TAGACTTATC
Statistics
Matches: 439, Mismatches: 99, Indels: 41
0.76 0.17 0.07
Matches are distributed among these distances:
83 168 0.38
84 264 0.60
85 7 0.02
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (83 bp):
ACCTTCATCTCTTTGTTTACTATCAGCTCAGTCCCCGATAAACCCCTTATCCCTTGATGACCTGT
CAGTTTAGTCTCTAGTCA
Found at i:1441247 original size:167 final size:167
Alignment explanation
Indices: 1440973--1441575 Score: 802
Period size: 167 Copynumber: 3.6 Consensus size: 167
1440963 CAATCCCCAG
* * * * * * *
1440973 TAAACCCCTTAT-CCTTTAGTGACCTGTCAGCTGAGTC-TCTAGTCAATCTTTATCTCTTTGTTT
1 TAAACCCCTTATCCCTTGA-TGACTTGTCAGTTTAGTCTTCGA-TCAACCTTCATC-CTTTGTTT
* * * * **
1441036 -ACTTATCAGCTCAATCCTCGATAAACCCCTTATCCCTTGATGACCTGTCAACTCAGTCTCCAGT
63 AAC-TGTCAGCTCAGTCCCCGGTAAACCCCTTATCCCTTGATGACCTGTCAGTTCAGTCTCCAGT
* * * *
1441100 TAACCTTGATCTCTTTATTTCCCTATCGGCTTAGTCCACAG
127 CAACCTTGATCTCTTTGTTTACCTATCGGCTTAGTCCACAA
*
1441141 TAAACCCCTTATCCCTTCATGACTTGTCAGTTTAGTCTAT-GATCAACCTTCATCCTTTGTTTAA
1 TAAACCCCTTATCCCTTGATGACTTGTCAGTTTAGTCT-TCGATCAACCTTCATCCTTTGTTTAA
* * * *
1441205 CTGTCAGCTCAGTCCCCGGTAAACACCTTATCCCTTGATGACCTATCAGTTTAGTCTCTAGTCAA
65 CTGTCAGCTCAGTCCCCGGTAAACCCCTTATCCCTTGATGACCTGTCAGTTCAGTCTCCAGTCAA
* *
1441270 CTTTGATCTCTTTGTTTACCTATCGGCTTAGCCCACAA
130 CCTTGATCTCTTTGTTTACCTATCGGCTTAGTCCACAA
* * *
1441308 TAAA-CCCTCTCTCCCTTGGTGACTTGTCAGTTTAGTCTTCGATCAACCTCCATCCTTTGTTTAA
1 TAAACCCCT-TATCCCTTGATGACTTGTCAGTTTAGTCTTCGATCAACCTTCATCCTTTGTTTAA
* *
1441372 CTGTCAGCTCAGTCCCCGGTAAACCCCTTATCCCCTGATGACCTGTTAGTTCAGTCTCCAGTCAA
65 CTGTCAGCTCAGTCCCCGGTAAACCCCTTATCCCTTGATGACCTGTCAGTTCAGTCTCCAGTCAA
*
1441437 CCTTGATCTCTTTGTTTACCTATCGGCTTAGTCCGCAA
130 CCTTGATCTCTTTGTTTACCTATCGGCTTAGTCCACAA
* * * *
1441475 TAAACCCCCTCTCCCTTGGTGACTTGTCAGTTTAGTCTTCGATCAACCTTCATCCTTCGTTTAAC
1 TAAACCCCTTATCCCTTGATGACTTGTCAGTTTAGTCTTCGATCAACCTTCATCCTTTGTTTAAC
*
1441540 TGTCAGCTCAGTCCCCGGTAAACCCTTTATCCCTTG
66 TGTCAGCTCAGTCCCCGGTAAACCCCTTATCCCTTG
1441576 TAGACTTATC
Statistics
Matches: 387, Mismatches: 41, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
166 5 0.01
167 333 0.86
168 42 0.11
169 6 0.02
170 1 0.00
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (167 bp):
TAAACCCCTTATCCCTTGATGACTTGTCAGTTTAGTCTTCGATCAACCTTCATCCTTTGTTTAAC
TGTCAGCTCAGTCCCCGGTAAACCCCTTATCCCTTGATGACCTGTCAGTTCAGTCTCCAGTCAAC
CTTGATCTCTTTGTTTACCTATCGGCTTAGTCCACAA
Done.