Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 217 of 255
Found at i:72486031 original size:8 final size:8
Alignment explanation
Indices: 72486018--72486049 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
72486008 CTAGATCGGC
72486018 AAAAGCCG
1 AAAAGCCG
72486026 AAAAGCCG
1 AAAAGCCG
*
72486034 AAAAGCTG
1 AAAAGCCG
72486042 AAAAGCCG
1 AAAAGCCG
72486050 GCATTTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.22, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:72488643 original size:21 final size:19
Alignment explanation
Indices: 72488605--72488644 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
72488595 CCCCTATTCT
*
72488605 AACTTTTAAAAATCATTAA
1 AACTTTTAAAAATAATTAA
72488624 AACTTTTACAAAACTAATTAA
1 AACTTTTA-AAAA-TAATTAA
72488645 GAAATATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (19 bp):
AACTTTTAAAAATAATTAA
Found at i:72496990 original size:259 final size:259
Alignment explanation
Indices: 72496531--72497048 Score: 955
Period size: 259 Copynumber: 2.0 Consensus size: 259
72496521 CAGAGAATAC
* * **
72496531 TCGAAGACGGCCATCGGAATCAGCTTGGAAGCAGGATCTACTTCAAGACTGGAAACCTCCATTCA
1 TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
72496596 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
66 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
* *
72496661 CCCATCGTTATGAACTGAACTCCCTAAGTACCTAAGGGAGATGAAACCTAAGACAGATCTTATTA
131 CCCATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
*
72496726 TTATTTGAATTATATGATAAGTACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
196 TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
72496790 TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
1 TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
*
72496855 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCTAATTTTGAGATGTTGTCC
66 ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
*
72496920 CCTATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
131 CCCATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
72496985 TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
196 TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
72497049 AATATTTCAG
Statistics
Matches: 250, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
259 250 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (259 bp):
TCGAAGACAGCCATCGGAATCAGCTCGGAAGCAGGATCTACTTCAAGACTAAAAACCTCCATTCA
ATTTCATTAGAAGTTCTTTGGGTTTCTTTATGTTTCGTTGTTTTCCCAATTTTGAGATGTTGTCC
CCCATCGTTATGAACTAAACTCCCTAAGTACCTAAAGGAGATGAAACCTAAGACAGATCTTATTA
TTATTTGAATTATATGATAAATACTTGTTCTTACTCTTAATTATGTGTTCTTAATTCTTGCTTT
Found at i:72501374 original size:10 final size:10
Alignment explanation
Indices: 72501355--72501387 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
72501345 AATATATTTT
72501355 AAAA-ATTCA
1 AAAACATTCA
72501364 AAAACATTCA
1 AAAACATTCA
72501374 AAAACATTCA
1 AAAACATTCA
72501384 AAAA
1 AAAA
72501388 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAACATTCA
Found at i:72501397 original size:20 final size:18
Alignment explanation
Indices: 72501352--72501400 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
72501342 AAAAATATAT
*
72501352 TTTAAAAATTCAAAAACA
1 TTTAAAAATTCAAAAAAA
*
72501370 TTCAAAAACATTCAAAAAAAA
1 TT-TAAAA-ATTC-AAAAAAA
72501391 TTTAAAAATT
1 TTTAAAAATT
72501401 TATCCATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 8 0.32
21 8 0.32
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (18 bp):
TTTAAAAATTCAAAAAAA
Found at i:72504544 original size:31 final size:30
Alignment explanation
Indices: 72504484--72504559 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
72504474 GTAGATTTAG
* *
72504484 TCCTTATACTTT-AATTTGATCAATTTTAA
1 TCCTTATATTTTCAATTTGATCAATGTTAA
* *
72504513 TCCTTATAGTTTTCAATTTGGTTAATGTTAA
1 TCCTTATA-TTTTCAATTTGATCAATGTTAA
*
72504544 TCCTTGTACTTTTCAA
1 TCCTTATA-TTTTCAA
72504560 AATTTGAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 8 0.21
30 3 0.08
31 28 0.72
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (30 bp):
TCCTTATATTTTCAATTTGATCAATGTTAA
Found at i:72507821 original size:18 final size:18
Alignment explanation
Indices: 72507800--72507834 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
72507790 TAATATTATA
72507800 AAATAAAATAATTATTTC
1 AAATAAAATAATTATTTC
* *
72507818 AAATATAATTATTATTT
1 AAATAAAATAATTATTT
72507835 TTATATGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAAATAATTATTTC
Found at i:72511082 original size:8 final size:8
Alignment explanation
Indices: 72511069--72511103 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
72511059 TTTTAAAGAT
72511069 TTTTTTAA
1 TTTTTTAA
72511077 TTTTTTAA
1 TTTTTTAA
72511085 TAATTTTTAA
1 T--TTTTTAA
72511095 TTTTTTAA
1 TTTTTTAA
72511103 T
1 T
72511104 AGTTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:72511091 original size:18 final size:18
Alignment explanation
Indices: 72511070--72511114 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
72511060 TTTAAAGATT
72511070 TTTTTAATTTTTTAATAA
1 TTTTTAATTTTTTAATAA
*
72511088 TTTTTAATTTTTTAATAG
1 TTTTTAATTTTTTAATAA
72511106 TTTTATAAT
1 TTTT-TAAT
72511115 ATTTGAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTAATTTTTTAATAA
Found at i:72511109 original size:11 final size:10
Alignment explanation
Indices: 72511044--72511118 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 10
72511034 CTTGGACATG
*
72511044 TATTTTTCAA
1 TATTTTTTAA
72511054 TAATTTTTTAAA
1 T-ATTTTTT-AA
* *
72511066 GATTTTTTTA
1 TATTTTTTAA
72511076 -ATTTTTTAA
1 TATTTTTTAA
*
72511085 TAATTTTT-A
1 TATTTTTTAA
72511094 -ATTTTTTAA
1 TATTTTTTAA
*
72511103 TAGTTTTATAA
1 TA-TTTTTTAA
72511114 TATTT
1 TATTT
72511119 GAAACCACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 6 0.12
9 10 0.19
10 12 0.23
11 22 0.42
12 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:72512247 original size:23 final size:23
Alignment explanation
Indices: 72512213--72512284 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
72512203 TATTTTAACT
72512213 TTTTAAAA-TTTATAATTATATA
1 TTTTAAAATTTTATAATTATATA
** *
72512235 TTTTAAAATTTTATAAAAATTTA
1 TTTTAAAATTTTATAATTATATA
*
72512258 TTTTTTAAATTTATATATATTATATA
1 -TTTTAAAATTT-TATA-ATTATATA
72512284 T
1 T
72512285 GATATTTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 8 0.21
23 11 0.28
24 10 0.26
25 5 0.13
26 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAAATTTTATAATTATATA
Found at i:72521051 original size:26 final size:26
Alignment explanation
Indices: 72521022--72521074 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
72521012 TTTACAATTT
72521022 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTA-GAGATAAATTGACCGAAA
* * *
72521048 TACCCTTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
72521074 T
1 T
72521075 GAATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:72522951 original size:9 final size:9
Alignment explanation
Indices: 72522937--72523012 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
72522927 TAAACAATAT
72522937 TTTTTATAA
1 TTTTTATAA
*
72522946 TTTTTATAC
1 TTTTTATAA
72522955 TTTTTAATAA
1 TTTTT-ATAA
* *
72522965 TTTTAATAC
1 TTTTTATAA
72522974 TTTTT-T-A
1 TTTTTATAA
*
72522981 TTTTTAAATA
1 TTTTTATA-A
*
72522991 TTTTTTTGAA
1 TTTTTAT-AA
72523001 TTTTTA-AA
1 TTTTTATAA
72523009 TTTT
1 TTTT
72523013 AAAAAATTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
7 5 0.10
8 7 0.13
9 20 0.38
10 19 0.37
11 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:72522958 original size:19 final size:19
Alignment explanation
Indices: 72522932--72522981 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
72522922 AAACTTAAAC
72522932 AATA-TTTTTTATAATTTT
1 AATACTTTTTTATAATTTT
* *
72522950 TATACTTTTTAATAATTTT
1 AATACTTTTTTATAATTTT
72522969 AATACTTTTTTAT
1 AATACTTTTTTAT
72522982 TTTTAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
AATACTTTTTTATAATTTT
Found at i:72522977 original size:28 final size:26
Alignment explanation
Indices: 72522932--72522987 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
72522922 AAACTTAAAC
* *
72522932 AATATTTTTTATAATTTTTATACTTTTT
1 AATAATTTTAATAATTTTT-TA-TTTTT
*
72522960 AATAATTTTAATACTTTTTTATTTTT
1 AATAATTTTAATAATTTTTTATTTTT
72522986 AA
1 AA
72522988 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.28
27 2 0.08
28 16 0.64
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
AATAATTTTAATAATTTTTTATTTTT
Found at i:72528867 original size:2 final size:2
Alignment explanation
Indices: 72528860--72528892 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
72528850 CTGTTTCTTT
*
72528860 TC TC TC TC TC -C CC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
72528893 GGGATTGGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:72532288 original size:28 final size:29
Alignment explanation
Indices: 72532247--72532305 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
72532237 AGTAAAAAAC
*
72532247 TTAATAAATAATAGAAATAAAAGAT-GAAA
1 TTAATAAAGAATAGAAATAAAAG-TGGAAA
* *
72532276 TTAA-AAAGAATAGCATTAAAAGTGGAAA
1 TTAATAAAGAATAGAAATAAAAGTGGAAA
72532304 TT
1 TT
72532306 TATTGAGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 21 0.81
29 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (29 bp):
TTAATAAAGAATAGAAATAAAAGTGGAAA
Found at i:72536633 original size:2 final size:2
Alignment explanation
Indices: 72536628--72536654 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
72536618 ATTAAAAATT
72536628 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
72536655 TAAGTCCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72536853 original size:33 final size:34
Alignment explanation
Indices: 72536793--72536859 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
72536783 AATATATGAT
* **
72536793 AAAATTATACTTTAATCCTTCCCAAAT-ATGAAA
1 AAAATTATACTTTAACCCTTCAAAAATAATGAAA
72536826 AAAATTATA-TTTAACCCCTTCAAAAATAATGAAA
1 AAAATTATACTTTAA-CCCTTCAAAAATAATGAAA
72536860 TTATAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 5 0.17
33 18 0.62
34 6 0.21
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.31
Consensus pattern (34 bp):
AAAATTATACTTTAACCCTTCAAAAATAATGAAA
Found at i:72537858 original size:3 final size:3
Alignment explanation
Indices: 72537852--72537880 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
72537842 AAATATACAC
72537852 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
72537881 TTGAAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:72538087 original size:281 final size:282
Alignment explanation
Indices: 72537723--72538253 Score: 672
Period size: 290 Copynumber: 1.9 Consensus size: 282
72537713 ATAATGATGA
* * *
72537723 TAATGATAATAATACTAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATGTTA
1 TAATAATAATAATAATAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATATTA
*
72537788 AAATAAAGTAATT-AAA-AATA-G-T-AT-TATATATA-A-ATATATA-TACGTATATAATAAAA
66 AAATAAAGTAATTAAAATAATACGATAATATATATATATATATATATAGTACATATATAATAAAA
72537844 ATATACACTAATAATAATAATAATAATAATAATAATATTGAAATAC-AAAAAGCAAACGTAATAT
131 ATATACAC---TAATAATAATAATAATAATAATAATATTGAAATACAAAAAAGC--A---AATAT
* *
72537908 AATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATGTATAAATATA-AATACATATACA
188 AATAAAAATATTAAAATAAAGTAATAAAAAAATAATA-TATATATAAATATATAATACATATACA
72537972 TATATAATAAAAAATATACTAATATTAGTAG
252 TATATAATAAAAAATATACTAATATTAGTAG
* * * * * *
72538003 TAATAATAATAATAATAGTAATAATATTGAAATATAAAAAGCAAA-TATAATATCATAATAATAT
1 TAATAATAATAATAATAGCAATAATAATGAAATACAAAAA-AAAAGCA-AATATAATAATAATAT
72538067 TAAAATAAAGTAATTAAAAATAATACTGTATATAAATATATATATATATATATATATGTACATAT
64 TAAAATAAAGTAATT-AAAATAATAC-G---AT-AATATATATATATATATATATA-GTACATAT
* *
72538132 ATAATAAAAATATACACTAATAATAATGATAATAGTAATAATATTGAAATACAAAAAAGCAAATA
122 ATAATAAAAATATACACTAATAATAATAATAATAATAATAATATTGAAATACAAAAAAGCAAATA
* *
72538197 TAATAAAAATATTAAAATAAAGTAATAAAAAAATACTATATATATACATATATAATA
187 TAATAAAAATATTAAAATAAAGTAATAAAAAAATAATATATATATAAATATATAATA
72538254 AAAATATACA
Statistics
Matches: 215, Mismatches: 16, Indels: 30
0.82 0.06 0.11
Matches are distributed among these distances:
280 36 0.17
281 32 0.15
283 3 0.01
284 4 0.02
286 1 0.00
289 12 0.06
290 45 0.21
292 2 0.01
293 9 0.04
294 34 0.16
295 14 0.07
297 23 0.11
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (282 bp):
TAATAATAATAATAATAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATATTA
AAATAAAGTAATTAAAATAATACGATAATATATATATATATATATATAGTACATATATAATAAAA
ATATACACTAATAATAATAATAATAATAATAATATTGAAATACAAAAAAGCAAATATAATAAAAA
TATTAAAATAAAGTAATAAAAAAATAATATATATATAAATATATAATACATATACATATATAATA
AAAAATATACTAATATTAGTAG
Found at i:72538107 original size:2 final size:2
Alignment explanation
Indices: 72538095--72538134 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
72538085 AATAATACTG
* * *
72538095 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TG TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72538135 ATAAAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:72538279 original size:3 final size:3
Alignment explanation
Indices: 72538196--72538332 Score: 59
Period size: 3 Copynumber: 45.0 Consensus size: 3
72538186 AAAAGCAAAT
* * * * *
72538196 ATA ATA AAA ATA TTA A-A ATA A-A GTA ATA A-A AAA ATA CTA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* *
72538239 TATA CATA TATA ATA AAA AT- ATA CACTA ATA TTA ATA ATA ATA ATA
1 -ATA -ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
72538285 GTG ATA ATA GTG ATA ATA TTA ATA ATA TTA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
72538330 ATA
1 ATA
72538333 TTTAATAAAG
Statistics
Matches: 98, Mismatches: 27, Indels: 18
0.69 0.19 0.13
Matches are distributed among these distances:
2 8 0.08
3 74 0.76
4 14 0.14
5 2 0.02
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:72538934 original size:20 final size:20
Alignment explanation
Indices: 72538909--72538949 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
72538899 AAAAGGTATT
*
72538909 TTTTTTAT-TTTATTTTATAA
1 TTTTTTATATGTA-TTTATAA
72538929 TTTTTTATATGTATTTATAA
1 TTTTTTATATGTATTTATAA
72538949 T
1 T
72538950 ATATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTTATATGTATTTATAA
Found at i:72538999 original size:14 final size:14
Alignment explanation
Indices: 72538980--72539006 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72538970 ATAGATTCGA
72538980 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
72538994 AAAAAAATAAAAA
1 AAAAAAATAAAAA
72539007 AAATCACCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:72540138 original size:56 final size:56
Alignment explanation
Indices: 72540047--72540160 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
72540037 GTGTGACCTG
* **
72540047 AGGCTCTACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAACTAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTCAATTTTTTTGAAAAACAGAAACTAAA
* * *** *
72540103 AGGCTCAACTCACTTCTCGCAATATGAGTCAATTTTTTTGGCGAATAGAAACTAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTCAATTTTTTTGAAAAACAGAAACTAAA
72540159 AG
1 AG
72540161 TACCTCAGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (56 bp):
AGGCTCAACTCACCTCTCACAATATGAGTCAATTTTTTTGAAAAACAGAAACTAAA
Found at i:72540370 original size:89 final size:87
Alignment explanation
Indices: 72540219--72540397 Score: 259
Period size: 89 Copynumber: 2.0 Consensus size: 87
72540209 TGATTTTGTG
* * * *
72540219 AAACATAAATTGAAGATACCTCAGCGTGTGACCCAAGGGTCAACTCACCTCTCGCAATATGAGTT
1 AAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
*
72540284 GATTTTTTGAAAAGTAGAAATTAA
66 GA-TTTTTGAAAAATAGAAA-TAA
* * * *
72540308 AAACAAAAATTGAAAATATCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
72540373 GATTTTTGAAAAATAGAAATAA
66 GATTTTTGAAAAATAGAAATAA
72540395 AAA
1 AAA
72540398 TATCAGGATA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 6 0.07
88 16 0.20
89 59 0.73
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (87 bp):
AAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAATAGAAATAA
Found at i:72543616 original size:46 final size:46
Alignment explanation
Indices: 72543549--72543718 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
72543539 TGTAACCCGC
72543549 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
* * ** *
72543595 CCATAAGTAAACTCGGACTCAACTCAACGAGCTTGGATGCC-GAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCCTTCGCAT
* *** * * *
72543641 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
* *
72543688 CCATAAGTGAACTCGAACTCAACCCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
72543719 TTCAGATGCT
Statistics
Matches: 96, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.01
46 61 0.64
47 31 0.32
48 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
Found at i:72543727 original size:93 final size:93
Alignment explanation
Indices: 72543557--72543727 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
72543547 GCCCATAAGT
* * * *
72543557 GAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGAACTCAACCCAA
*
72543622 CGAGCTTGGATGCCGAGTTACATCTCTC
66 CGAGCTTAGATGCCGAGTTACATCTCTC
* *
72543650 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACCCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGAACTCAACCCAA
72543715 CGAG-TTCAGATGC
66 CGAGCTT-AGATGC
72543728 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGAACTCAACCCAA
CGAGCTTAGATGCCGAGTTACATCTCTC
Found at i:72556337 original size:54 final size:54
Alignment explanation
Indices: 72556217--72556330 Score: 219
Period size: 54 Copynumber: 2.1 Consensus size: 54
72556207 TGGTAAGGGC
72556217 TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
1 TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
*
72556271 TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAAT
1 TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
72556325 TAATTT
1 TAATTT
72556331 GTATTTTATC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (54 bp):
TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
Found at i:72568798 original size:177 final size:178
Alignment explanation
Indices: 72568367--72569068 Score: 924
Period size: 177 Copynumber: 4.0 Consensus size: 178
72568357 AGATAAGGTC
* * * ** * *
72568367 TAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTTTCGGCCTACTCCCTTACTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * * * *
72568432 TAGGAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTGCCTCGGAAAGATAAGATTCGCCGT
66 CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
* * *
72568497 CTTCAATCTGCTCCACTACTATTTTAGGGAGATAAGATCTACAATCTT
131 CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
* ** * * * *
72568545 TAATCTACTTCCTTAATACCACAGGAAGATAAAACTATAATCTTCAACCTGCTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * * * *
72568610 CAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTTGGGAAGATAAGATTCGCCAT
66 CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
* * *
72568675 CTTCGATCTGCTCCACTACT-GCTTAAGGAGATAAGATCTATGATCTT
131 CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
* ** *
72568722 CAGTCTTTTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * * *
72568787 CAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACTTCAGGAAGATAAGATTTGCCAT
66 CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
* *
72568852 CTTCGATCTACTTCACTACT-TCTTAGGGAGATAAGATCTATAATCTT
131 CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
* * **
72568899 TAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTTCAACCTGTTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* *
72568964 CA-AAGAGATAAGGCTGGTGGCTAAAATCTATTCCCCTGCTACCTCGGGAAGATAAGATTCACCA
66 CAGAA-AGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCA
* * * *
72569028 TCTTCGATCTGCTCCATTACTACCTCATGGAGATAAGATCT
130 TCTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCT
72569069 GCGAATTCAC
Statistics
Matches: 450, Mismatches: 72, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
176 2 0.00
177 307 0.68
178 141 0.31
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (178 bp):
TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
CAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCCAT
CTTCGATCTGCTCCACTACTATCTTAGGGAGATAAGATCTATAATCTT
Found at i:72568959 original size:44 final size:45
Alignment explanation
Indices: 72568520--72568963 Score: 123
Period size: 44 Copynumber: 10.0 Consensus size: 45
72568510 CACTACTATT
* * * * **
72568520 TTAGGGAGATAAGATCTACAATCTTTAATCTACTTCCTTAATACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
** * *
72568565 ACAGGAAGATAA-AACTATAATCTTCAACCTGC-TCTCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
* * ** ** * * *
72568609 TCA-GAGAGATAAG-GCTGATGA-CTAAAATCTGCTCCCCTGCTACC
1 TTAGGA-AGATAAGATCT-ACAATCTTCAACCTGCTTCCTTGCTACC
* * * * * *
72568653 TTGGGAAGATAAGAT-TCGCCATCTTCGATCTGC-TCC--ACTACTGC
1 TTAGGAAGATAAGATCT-ACAATCTTCAACCTGCTTCCTTGCTAC--C
** ** ** *
72568697 TTAAGG-AGATAAGATCTATGATCTTCAGTCTTTTTCTTTGCTACC
1 TT-AGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
* *
72568742 TCAGGAAGATAAGA-CTACAATCTTCAACCTAC-TCTCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
* * * ***** ** * * *
72568786 TCAGAAAGATAAG-GCTGGTGGCTAAAATCTGCTCCCCTGCTA-C
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
* * * * * * * *
72568829 TTCAGGAAGATAAGATTTGCCATCTTCGATCTACTTCAC-TACT-TC
1 TT-AGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
* * * **
72568874 TTAGGGAGATAAGATCTATAATCTTTAGTCTGCTTCCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
72568919 TTAGGAAGATAAGA-CTACAATCTTCAACCTG-TTCTCTTGCTACC
1 TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTC-CTTGCTACC
72568963 T
1 T
72568964 CAAAGAGATA
Statistics
Matches: 283, Mismatches: 90, Indels: 53
0.66 0.21 0.12
Matches are distributed among these distances:
42 4 0.01
43 12 0.04
44 192 0.68
45 70 0.25
46 1 0.00
47 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (45 bp):
TTAGGAAGATAAGATCTACAATCTTCAACCTGCTTCCTTGCTACC
Found at i:72571970 original size:126 final size:126
Alignment explanation
Indices: 72571723--72571990 Score: 409
Period size: 125 Copynumber: 2.1 Consensus size: 126
72571713 TGCCAAGCAT
* *
72571723 GAACTACTGTAGAAAAAGAGCATTCACATAGGAGCTTTTTTCAGAAATTTTGTTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATTCACATAGGAGCTTTTTTCAGAAAATTTGCTGACATTGCATC
* *
72571788 CTGCTTGAAGCATTTTTGATACTATTTATTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
72571849 GAACTACTGTAGAAAAAGAGCA-TC-CATATGAGAGCTTTTTTCA-AAAATTTGACTGACATTGC
1 GAACTACTGTAGAAAAAGAGCATTCACATA-G-GAGCTTTTTTCAGAAAATTTG-CTGACATTGC
* * *
72571911 AT-CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
63 ATCCTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
*
72571974 GAACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
72571991 CCATAAATCC
Statistics
Matches: 131, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
124 4 0.03
125 82 0.63
126 45 0.34
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATTCACATAGGAGCTTTTTTCAGAAAATTTGCTGACATTGCATC
CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:72572507 original size:41 final size:41
Alignment explanation
Indices: 72572462--72572543 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
72572452 TTTTAAACTC
72572462 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
1 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
*
72572503 GTGTTATCTCTTTTAGTTTTTAAATTTGTATTATTTATCAA
1 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
72572544 ATCATATTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (41 bp):
GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
Found at i:72572652 original size:22 final size:21
Alignment explanation
Indices: 72572627--72572668 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
72572617 ATTTATACAT
72572627 TATTTATT-AATTTTTTAGAATA
1 TATTT-TTAAATTTTTT-GAATA
72572649 TATTTTTAAATTTTTTGAAT
1 TATTTTTAAATTTTTTGAAT
72572669 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TATTTTTAAATTTTTTGAATA
Found at i:72572662 original size:21 final size:22
Alignment explanation
Indices: 72572627--72572668 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
72572617 ATTTATACAT
*
72572627 TATTTATTAATTTTTTAGAATA
1 TATTTATTAAATTTTTAGAATA
*
72572649 TATTT-TTAAATTTTTTGAAT
1 TATTTATTAAATTTTTAGAAT
72572669 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TATTTATTAAATTTTTAGAATA
Found at i:72573036 original size:15 final size:15
Alignment explanation
Indices: 72573016--72573045 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
72573006 TTTAATCATT
72573016 TATAAATTATAAAAA
1 TATAAATTATAAAAA
72573031 TATAAATTATAAAAA
1 TATAAATTATAAAAA
72573046 ATTATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:72583758 original size:17 final size:17
Alignment explanation
Indices: 72583738--72583770 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
72583728 ATTAAGAATG
*
72583738 TTATTAATTTATATTTT
1 TTATTAAATTATATTTT
72583755 TTATTAAATTATATTT
1 TTATTAAATTATATTT
72583771 AATAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:72584034 original size:45 final size:44
Alignment explanation
Indices: 72583944--72584034 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
72583934 TACAACGTCG
**
72583944 TTCCATTCAACCAAACACAAGAATACTATTACATTTCTATTCCA
1 TTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCA
*** *
72583988 TTCCATTCAACCAAACAGTTGATTACTGATTACAGCTCTATTCCA
1 TTCCATTCAACCAAACACAAGAATACT-ATTACAGCTCTATTCCA
72584033 TT
1 TT
72584035 ACAACTCTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 23 0.57
45 17 0.43
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
TTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCA
Found at i:72584037 original size:16 final size:16
Alignment explanation
Indices: 72584016--72584082 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
72584006 TTGATTACTG
72584016 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
72584032 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCC
*
72584048 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
72584064 ATTACAGC-CTATTCC
1 ATTACAGCTCTATTCC
72584079 ATTA
1 ATTA
72584083 TAGTGAACCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 10 0.22
16 36 0.78
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:72584330 original size:17 final size:18
Alignment explanation
Indices: 72584310--72584343 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72584300 ATTTTTTAGA
72584310 AAAT-AATTTTTTTGTTC
1 AAATAAATTTTTTTGTTC
72584327 AAATAAATTTTTTTGTT
1 AAATAAATTTTTTTGTT
72584344 TAAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (18 bp):
AAATAAATTTTTTTGTTC
Found at i:72586324 original size:16 final size:18
Alignment explanation
Indices: 72586285--72586318 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
72586275 TAAGTTTATA
72586285 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
72586302 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
72586319 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:72588396 original size:17 final size:17
Alignment explanation
Indices: 72588374--72588410 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
72588364 ACCGATCCAC
72588374 TTTGAATGGAGAGGATT
1 TTTGAATGGAGAGGATT
72588391 TTTGAATGGAGAGGATT
1 TTTGAATGGAGAGGATT
72588408 TTT
1 TTT
72588411 TTTCTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (17 bp):
TTTGAATGGAGAGGATT
Found at i:72589330 original size:31 final size:29
Alignment explanation
Indices: 72589266--72589334 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
72589256 GCTACAACGT
* * *
72589266 AAGTGACTAAAATGTAACATTTTAAACAT
1 AAGTGACTAAAATGTAACATGTCAAACAA
*
72589295 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAATGTAACAT--GTCAAACAA
72589326 AAGTGACTA
1 AAGTGACTA
72589335 TTTTAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGTCAAACAA
Found at i:72590692 original size:32 final size:32
Alignment explanation
Indices: 72590655--72590717 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
72590645 TAATAAATTT
* *
72590655 ATAAATTGATTACTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* * *
72590687 ATAAATTAATTAATTTAATTTGATAATTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
72590718 ACCAATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:72591521 original size:2 final size:2
Alignment explanation
Indices: 72591514--72591546 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
72591504 ACAAGCCAAA
72591514 AC AC AC AC AC AC AC AC AC AC AC AC AC AC TAC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC -AC AC
72591547 TAGGAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.48, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:72596461 original size:2 final size:2
Alignment explanation
Indices: 72596456--72596480 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72596446 ATTTAACCAG
72596456 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
72596481 CCACAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72598859 original size:21 final size:19
Alignment explanation
Indices: 72598835--72598874 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
72598825 CACTCTACAT
72598835 CTATTTCATGCTGATATGTCA
1 CTATTT-AT-CTGATATGTCA
*
72598856 CTATTTATCTTATATGTCA
1 CTATTTATCTGATATGTCA
72598875 AGTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (19 bp):
CTATTTATCTGATATGTCA
Found at i:72598929 original size:18 final size:19
Alignment explanation
Indices: 72598889--72598932 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
72598879 AATAATAATT
*
72598889 TAAAATTAAAAAAAATTCA
1 TAAAATTAAAAAAAAATCA
72598908 -AAAATTAAAAAAAAAT-A
1 TAAAATTAAAAAAAAATCA
72598925 TAAAATTA
1 TAAAATTA
72598933 TTCATAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAAATTAAAAAAAAATCA
Found at i:72598929 original size:29 final size:31
Alignment explanation
Indices: 72598897--72598954 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
72598887 TTTAAAATTA
72598897 AAAAAAATTCA-AAA-ATTAAAAAAAAATAT
1 AAAAAAATTCATAAAGATTAAAAAAAAATAT
** *
72598926 AAAATTATTCATAAAGATTCAAAAAAAAT
1 AAAAAAATTCATAAAGATTAAAAAAAAAT
72598955 TAGCATGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 3 0.12
31 12 0.50
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (31 bp):
AAAAAAATTCATAAAGATTAAAAAAAAATAT
Found at i:72599071 original size:8 final size:7
Alignment explanation
Indices: 72599022--72599070 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
72599012 TGTTAATAAT
*
72599022 AATTTAA
1 AATTAAA
72599029 AATTAAA
1 AATTAAA
72599036 AA--AAA
1 AATTAAA
*
72599041 ATTTAAA
1 AATTAAA
*
72599048 AATTCAA
1 AATTAAA
72599055 AATTAAA
1 AATTAAA
72599062 AATTAAA
1 AATTAAA
72599069 AA
1 AA
72599071 AAATATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 4 0.11
7 31 0.89
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTAAA
Found at i:72605995 original size:46 final size:44
Alignment explanation
Indices: 72605943--72606028 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
72605933 AGAACAGAAA
*
72605943 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
72605989 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
72606029 TGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:72606042 original size:44 final size:45
Alignment explanation
Indices: 72605936--72606050 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 45
72605926 ACAGGACAGA
* * *
72605936 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
72605982 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* **
72606026 ACATGAATAATTCATGTAAGTCCAT
1 ACAGGAATAAGCCATGTAAGTCCAT
72606051 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:72616401 original size:47 final size:47
Alignment explanation
Indices: 72616260--72616526 Score: 305
Period size: 47 Copynumber: 5.7 Consensus size: 47
72616250 ATGAAATGTG
* * **
72616260 TAAGACCATGGTTGAAAGATACTATGG-AACATGATATG-AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
*
72616305 T-AGAACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGAA
1 TAAG-ACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* *
72616351 TAAGACCATGGTTGAAAGATACCCATGGCAGCGGTGACATG-AAATG-A
1 TAAGACCATGGTTGAAAGATA-CCATGGCAAC-ATGACATGAAAATGAA
**
72616398 TAAGACCATGGTTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGG-TTGAAAGATACCATGGCAACATGACATGAAAATGAA
* * *
72616446 TAAGAACATGGTTGAAAAGATACCATGGAAACATGACA-GAAAATGAG
1 TAAGACCATGGTTG-AAAGATACCATGGCAACATGACATGAAAATGAA
* * *
72616493 TAAGACCATAGTTGAAAGACACCATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
72616527 TCAAAGATAA
Statistics
Matches: 192, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
44 2 0.01
45 24 0.12
46 54 0.28
47 60 0.31
48 51 0.27
49 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
Found at i:72616507 original size:142 final size:138
Alignment explanation
Indices: 72616250--72616521 Score: 368
Period size: 142 Copynumber: 1.9 Consensus size: 138
72616240 GCTCTCTGAT
* * * * **
72616250 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGAACATGATATGAAATGTGTAGAACCATG
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGAACATGACAGGAAATGAATAGAACCATG
* * * *
72616315 GTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAGACCATGGTTGAAAGATACCCATGGC
66 GTTGAAAGATACCATGGAAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACA-CCATGGC
72616380 AGCGGTGAC
130 AGCGGTGAC
*
72616389 ATGAAATG-ATAAGACCATGGTTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGAA-
1 ATGAAATGTATAAGACCATGG-TTGAAAGATACCATGG-AACATGACAGG-AAATGAAT-AGAAC
*
72616452 CATGGTTGAAAAGATACCATGGAAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCA
62 CATGGTTG-AAAGATACCATGGAAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCA
72616517 TGGCA
126 TGGCA
72616522 TCATGTCAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
138 11 0.09
139 23 0.20
140 8 0.07
141 22 0.19
142 52 0.45
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (138 bp):
ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGAACATGACAGGAAATGAATAGAACCATG
GTTGAAAGATACCATGGAAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCA
GCGGTGAC
Found at i:72618738 original size:16 final size:16
Alignment explanation
Indices: 72618717--72618752 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
72618707 TAAAATAGTT
**
72618717 AAAAATTATTTTTTTA
1 AAAAATTAACTTTTTA
72618733 AAAAATTAACTTTTTA
1 AAAAATTAACTTTTTA
72618749 AAAA
1 AAAA
72618753 TATATAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAAATTAACTTTTTA
Found at i:72640966 original size:46 final size:46
Alignment explanation
Indices: 72640843--72640968 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
72640833 TGTAACCCGC
* * *
72640843 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
72640889 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
72640935 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
72640969 AGATGCTCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:72643402 original size:30 final size:30
Alignment explanation
Indices: 72643358--72643446 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
72643348 CAAAGATAAC
*
72643358 AAGAAAACC-GAATAAAAAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
72643387 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
72643417 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
72643447 TGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:72643412 original size:15 final size:15
Alignment explanation
Indices: 72643358--72643437 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
72643348 CAAAGATAAC
*
72643358 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
72643372 AAAAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
72643387 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
72643402 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
72643417 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
72643432 AAGAAA
1 AAGAAA
72643438 CCCAAGATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 8 0.15
15 44 0.83
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:72643446 original size:15 final size:15
Alignment explanation
Indices: 72643369--72643446 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
72643359 AGAAAACCGA
*
72643369 ATAAAAAAATCCAAG
1 ATAAAGAAATCCAAG
* *
72643384 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
72643398 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
72643413 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
72643429 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
72643444 ATA
1 ATA
72643447 TGATACTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 4 0.08
15 44 0.86
16 3 0.06
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:72646495 original size:93 final size:93
Alignment explanation
Indices: 72646336--72646505 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
72646326 CCCATAAGCA
* * * *
72646336 AACTCGGAATCAATTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
72646401 GAGTTCGGATGCCTAGTTACATCTCATG
66 GAGTTCGGATGCCTAGTTACATCTCATG
* * *
72646429 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
72646494 GAGTTCGGATGC
66 GAGTTCGGATGC
72646506 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCATG
Found at i:72646502 original size:46 final size:46
Alignment explanation
Indices: 72646327--72646502 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
72646317 TGTAACCCGC
** * * * * * *
72646327 CCATAAGCAAACTCGGAATCAATTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
72646373 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
72646423 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
72646466 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
72646503 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 30 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:72646521 original size:46 final size:45
Alignment explanation
Indices: 72646378--72646521 Score: 145
Period size: 46 Copynumber: 3.1 Consensus size: 45
72646368 CGCATCCATG
72646378 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * *
72646425 CA-TGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
72646471 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
72646517 AGTGA
1 AGTGA
72646522 CATGTCACTT
Statistics
Matches: 81, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.02
46 34 0.42
47 32 0.40
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:72649414 original size:24 final size:23
Alignment explanation
Indices: 72649387--72649434 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
72649377 TTTTGGGGAA
72649387 TATTTGTGTTTACGTTTTGAGGGT
1 TATTTGTGTTTACGTTTT-AGGGT
* *
72649411 TATTTGTTTTTAGGTTTTAGGGT
1 TATTTGTGTTTACGTTTTAGGGT
72649434 T
1 T
72649435 TAGTTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.12, C:0.02, G:0.27, T:0.58
Consensus pattern (23 bp):
TATTTGTGTTTACGTTTTAGGGT
Found at i:72655219 original size:24 final size:24
Alignment explanation
Indices: 72655192--72655237 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
72655182 AAGCTCATGT
* *
72655192 GAGCTAATAACGGGTAGCTTTGAA
1 GAGCCAATAACGGGAAGCTTTGAA
72655216 GAGCCAATAACGGGAAGCTTTG
1 GAGCCAATAACGGGAAGCTTTG
72655238 GATAGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTTTGAA
Found at i:72656388 original size:14 final size:14
Alignment explanation
Indices: 72656352--72656388 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
72656342 TGATATTAGA
72656352 TATTTA-TTTTATT
1 TATTTACTTTTATT
72656365 TA-TTATCTTTTATT
1 TATTTA-CTTTTATT
72656379 TATTTACTTT
1 TATTTACTTT
72656389 CCAACTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 2 0.10
14 13 0.62
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTACTTTTATT
Found at i:72667616 original size:35 final size:35
Alignment explanation
Indices: 72667577--72667652 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
72667567 AGTACAGAGA
72667577 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
1 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
72667612 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
1 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
72667647 CTAAAA
1 CTAAAA
72667653 CTTTCACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (35 bp):
CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
Found at i:72669161 original size:46 final size:45
Alignment explanation
Indices: 72669114--72669286 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
72669104 TTGAGCATCT
* *
72669114 GAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
72669160 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* *
72669207 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*
72669253 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72669287 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:72669267 original size:93 final size:93
Alignment explanation
Indices: 72669108--72669278 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
72669098 GGATGGTTGA
* * * *
72669108 GCATCTGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72669173 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
72669201 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72669266 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
72669279 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:72672234 original size:15 final size:15
Alignment explanation
Indices: 72672214--72672282 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
72672204 GTATCTTGGG
72672214 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
72672229 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
72672244 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
72672259 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
72672274 TTTCTTTAT
1 TTTCTTTAT
72672283 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:72672283 original size:30 final size:30
Alignment explanation
Indices: 72672205--72672292 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
72672195 CATAGTATCG
* * * *
72672205 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
72672235 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
72672265 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
72672293 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:72674050 original size:46 final size:45
Alignment explanation
Indices: 72674003--72674175 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 45
72673993 TTGAGCATCT
*
72674003 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
72674049 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* *
72674096 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*
72674142 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72674176 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:72674156 original size:93 final size:93
Alignment explanation
Indices: 72673997--72674167 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
72673987 GGATGGTTGA
* * * *
72673997 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72674062 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
72674090 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72674155 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
72674168 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:72676847 original size:16 final size:16
Alignment explanation
Indices: 72676826--72676860 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
72676816 GGTATGTAAC
72676826 AGAAAAAAAAAAGAAA
1 AGAAAAAAAAAAGAAA
*
72676842 AGAAAAAGAAAAGAAA
1 AGAAAAAAAAAAGAAA
72676858 AGA
1 AGA
72676861 GAGACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAGAAA
Found at i:72681988 original size:17 final size:17
Alignment explanation
Indices: 72681959--72681991 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
72681949 TAATCTTTCA
72681959 TTATTGTTATTATTTAT
1 TTATTGTTATTATTTAT
72681976 TTATATGTT-TTATTTA
1 TTAT-TGTTATTATTTA
72681992 CATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTATTGTTATTATTTAT
Found at i:72687467 original size:13 final size:13
Alignment explanation
Indices: 72687449--72687483 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
72687439 ATAGTACTGG
72687449 CTTCATCATGGGT
1 CTTCATCATGGGT
72687462 CTTCATCATGGGT
1 CTTCATCATGGGT
*
72687475 ATTCATCAT
1 CTTCATCAT
72687484 ATGCTGTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (13 bp):
CTTCATCATGGGT
Found at i:72694818 original size:20 final size:21
Alignment explanation
Indices: 72694768--72694822 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
72694758 CTTGTTAAAC
* *
72694768 ATTAGATATTTTGGTAAATCT
1 ATTAGATATATTGATAAATCT
* *
72694789 -TTAAAAATATTGATAAAT-T
1 ATTAGATATATTGATAAATCT
72694808 ATTAGATATATTGAT
1 ATTAGATATATTGAT
72694823 GACTCCTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (21 bp):
ATTAGATATATTGATAAATCT
Found at i:72706837 original size:21 final size:22
Alignment explanation
Indices: 72706811--72706857 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
72706801 CTCTGCTCAA
*
72706811 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
72706832 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
72706854 ACTC
1 ACTC
72706858 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:72714296 original size:8 final size:8
Alignment explanation
Indices: 72714283--72714321 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
72714273 TATATGTGTT
*
72714283 TATATATA
1 TATATATG
72714291 TATATATG
1 TATATATG
*
72714299 TATGTATG
1 TATATATG
*
72714307 TATGTATG
1 TATATATG
72714315 TATATAT
1 TATATAT
72714322 AAACAGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:72715408 original size:11 final size:12
Alignment explanation
Indices: 72715382--72715411 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
72715372 GGATATTTCC
72715382 TTAAGAAAAATA
1 TTAAGAAAAATA
72715394 TTAAGAAAAAT-
1 TTAAGAAAAATA
72715405 TTAAGAA
1 TTAAGAA
72715412 TTGAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (12 bp):
TTAAGAAAAATA
Found at i:72715562 original size:15 final size:13
Alignment explanation
Indices: 72715544--72715577 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
72715534 TTGATGTTTA
72715544 AAAAAACTTATATAT
1 AAAAAA-TTATA-AT
72715559 AAAAAATTATAAT
1 AAAAAATTATAAT
72715572 AAAAAA
1 AAAAAA
72715578 AGTTTATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 5 0.26
15 6 0.32
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAAATTATAAT
Found at i:72721984 original size:28 final size:28
Alignment explanation
Indices: 72721942--72721995 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
72721932 AAGTCATAGC
*
72721942 AAAGGGTTGCGGGTTCGAACACTGTAGT
1 AAAGGGTTGCGGGTTCAAACACTGTAGT
*
72721970 AAAGGGTTGCTGGTTCAAACACTGTA
1 AAAGGGTTGCGGGTTCAAACACTGTA
72721996 CTTACATCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
AAAGGGTTGCGGGTTCAAACACTGTAGT
Found at i:72722987 original size:172 final size:172
Alignment explanation
Indices: 72722646--72723034 Score: 557
Period size: 172 Copynumber: 2.3 Consensus size: 172
72722636 GACAGATATG
* * * *
72722646 TACCAAAATGGGTTACCTTACCAATTTGTAACAAACGACCCATTTCAGTACTTAATTTGTAATGT
1 TACCAAAATGAGTCACCTTACCAATTTGTAACAAACGACCCATTTCAGTAATTAATTTGTAAGGT
** * ** *
72722711 CGTCCATTTTGGTATTTAATTATTTTTAAATTATTTAGGTAAAATTGTTGTACCATACACCATTT
66 CACCCATTTTGATATTTAATTATTTTTAAATTACCTAGGTAAAAATGTTGTACCATACACCATTT
72722776 CTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
131 CTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
* * * *
72722818 TGCCAAAATGAGTCACCTTACCAATTTGCAACAAACGACTCATTTCGGTAATTAATTTGTAAGGT
1 TACCAAAATGAGTCACCTTACCAATTTGTAACAAACGACCCATTTCAGTAATTAATTTGTAAGGT
* **
72722883 CACCCATTTTGATATTTAATTATTTTTTATATTACCTAGGTAAAAATGTTGTACCATACACTGTT
66 CACCCATTTTGATATTTAATTA-TTTTTAAATTACCTAGGTAAAAATGTTGTACCATACACCATT
* *
72722948 TCTTGACCTTTTTACCCCAATAATCCAAAAAA-CATAATAAAT
130 TCTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
* *
72722990 TACCAAAAT-AGAACACCTTACCAATTTGTAGCAAACGACCCATTT
1 TACCAAAATGAG-TCACCTTACCAATTTGTAACAAACGACCCATTT
72723035 TGAAATTTAA
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
171 2 0.01
172 121 0.63
173 68 0.36
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (172 bp):
TACCAAAATGAGTCACCTTACCAATTTGTAACAAACGACCCATTTCAGTAATTAATTTGTAAGGT
CACCCATTTTGATATTTAATTATTTTTAAATTACCTAGGTAAAAATGTTGTACCATACACCATTT
CTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
Found at i:72723077 original size:32 final size:31
Alignment explanation
Indices: 72723012--72723082 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
72723002 ACACCTTACC
* *
72723012 AATTTGTAGCAAACGACCCATTTTGAAATTT
1 AATTTGTAGCAAACAACCCATTTGGAAATTT
* *
72723043 AATATTGTAGCAAACAATCCATTTCGGTAA-TT
1 AAT-TTGTAGCAAACAACCCATTT-GGAAATTT
72723075 AATTTGTA
1 AATTTGTA
72723083 AGCTAGCCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 23 0.68
33 3 0.09
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (31 bp):
AATTTGTAGCAAACAACCCATTTGGAAATTT
Found at i:72723156 original size:3 final size:3
Alignment explanation
Indices: 72723148--72723191 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
72723138 GTACTACGCA
*
72723148 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
72723192 ATATACACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:72724751 original size:79 final size:79
Alignment explanation
Indices: 72724661--72724823 Score: 299
Period size: 79 Copynumber: 2.1 Consensus size: 79
72724651 ATCTTATAGG
72724661 TTTCTAAACTTCTTTTCTAGTCAAAGTAATATTCAAAGTTTGATTCTACAAGTTTGTGAGATCAA
1 TTTCTAAACTTCTTTTCTAGTCAAAGTAATATTCAAAGTTTGATTCTACAAGTTTGTGAGATCAA
72724726 ACTATTCTTAATAT
66 ACTATTCTTAATAT
* * *
72724740 TTTCTAAACTTCTTTTCTAGTCCAAGTAATATTTAAAGTTTGATTCTACAAGTTTGTGAGATCGA
1 TTTCTAAACTTCTTTTCTAGTCAAAGTAATATTCAAAGTTTGATTCTACAAGTTTGTGAGATCAA
72724805 ACTATTCTTAATAT
66 ACTATTCTTAATAT
72724819 TTTCT
1 TTTCT
72724824 TAGTTCTTTA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (79 bp):
TTTCTAAACTTCTTTTCTAGTCAAAGTAATATTCAAAGTTTGATTCTACAAGTTTGTGAGATCAA
ACTATTCTTAATAT
Found at i:72725114 original size:23 final size:23
Alignment explanation
Indices: 72725077--72725138 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
72725067 TTGATTCTTT
*
72725077 TTTTTATTTTGTTTTACAATATC
1 TTTTTATTTTATTTTACAATATC
* * *
72725100 TTTTTACTTTATTTTGCGATATC
1 TTTTTATTTTATTTTACAATATC
72725123 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
72725139 ATTTTGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.19, C:0.08, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTTTATTTTATTTTACAATATC
Found at i:72727837 original size:66 final size:66
Alignment explanation
Indices: 72727731--72727864 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 66
72727721 ATTCTGAAGC
* * * * * *
72727731 TGTAGCTGGAGTTCGTCATATTTTTTTGTTGCCTCTGCTTCCCTCGCA-ATTGTCTCTGCTTTAA
1 TGTAGCTGGAGTTCATCACATTTTTTTGTAGCCTCTGCTTCCCTCG-ATACTGCCTCCGCTTTAA
72727795 GT
65 GT
* *
72727797 TGTAGCTGGAGTTCATCACATTTTCTTTG-AGCGTCTGCTTCTCTCGATACTGCCTCCGCTTTAA
1 TGTAGCTGGAGTTCATCACATTTT-TTTGTAGCCTCTGCTTCCCTCGATACTGCCTCCGCTTTAA
72727861 GT
65 GT
72727863 TG
1 TG
72727865 AGCAATTTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 1 0.02
66 53 0.91
67 4 0.07
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (66 bp):
TGTAGCTGGAGTTCATCACATTTTTTTGTAGCCTCTGCTTCCCTCGATACTGCCTCCGCTTTAAG
T
Found at i:72734618 original size:59 final size:58
Alignment explanation
Indices: 72734376--72734975 Score: 728
Period size: 59 Copynumber: 10.3 Consensus size: 58
72734366 TATGATTATC
* *
72734376 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAAATAA-TATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
** *
72734434 ATTATTATGAAATATGATTATTTATTT-A--ATCGAAAATTAATTAATTATTCATAGA
1 ATTATTATGAAATATGATTATTTATTTAATTATTAAAAATTAATTAATTATTCATAAA
* * * *
72734489 ATTATTTTGAAATATGATTAATTAATTAATTAATT-AAAATTAAATAA-TATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* * * * **
72734546 ATTACTATAAAATATGATTATTTATTTATTTATTTTAAAATTAATTAATTATTCATATT
1 ATTATTATGAAATATGATTATTTATTTAATTA-TTAAAAATTAATTAATTATTCATAAA
72734605 ATTATTATGAAATATGATTATTTATTTAATT-TGTACAAAGATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTAT-TA-AAA-ATTAATTAATTATTCATAAA
* ** * * *
72734665 ATTATTATGAAATATGAATATTTATTTAATTAATCGAAAATTAATAAATTATTTATAGA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* * *
72734724 ATTATTTTGAAATATGATTATTTATGTAATTAATAAAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* * * * * *
72734783 ATTATTATGAAATATGATTTTTTATTTATTTAATCAGAAATTAATTAATTATTCGTATA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* *
72734842 ATTATTATGAAATATGATTATTTATTTAATTAATAAAAAATAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTATTAAAAATTAATTAATTATTCATAAA
* * * * *
72734900 ATTATTATGAAATATAATTATTTATTTAATTAATCAGAAATTAATTAATTATTCGTATA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
72734959 ATTATTATGAAATATGA
1 ATTATTATGAAATATGA
72734976 CCCAGCTTTT
Statistics
Matches: 466, Mismatches: 62, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
54 14 0.03
55 33 0.07
56 2 0.00
57 38 0.08
58 101 0.22
59 226 0.48
60 51 0.11
62 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (58 bp):
ATTATTATGAAATATGATTATTTATTTAATTATTAAAAATTAATTAATTATTCATAAA
Found at i:72734696 original size:176 final size:175
Alignment explanation
Indices: 72734376--72734975 Score: 800
Period size: 176 Copynumber: 3.4 Consensus size: 175
72734366 TATGATTATC
* *
72734376 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAAATAA-TATTCATAAAATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAATTAAAAATTAATTAATTATTCATAAAATTATT
* * *
72734440 ATGAAATATGATTATTTATTTAA-TCG--AAAATTAATTAATTATTCATAGAATTATTTTGAAAT
66 ATGAAATATGATTATTTATTTAATTTGACAAAATTAATTAATTATTCATAAAATTATTATGAAAT
* * *
72734502 ATGATTAATTAATTAATTAATTAAAATTAAATAA-TATTCATAAA
131 ATGATTATTTATTTAATTAATAAAAATTAAATAATTATTCATAAA
* * * * * **
72734546 ATTACTATAAAATATGATTATTTATTTATTTATTTTAAAATTAATTAATTATTCATATTATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAATTAAAAATTAATTAATTATTCATAAAATTATT
72734611 ATGAAATATGATTATTTATTTAATTTGTACAAAGATTAATTAATTATTCATAAAATTATTATGAA
66 ATGAAATATGATTATTTATTTAATTTG-ACAAA-ATTAATTAATTATTCATAAAATTATTATGAA
* * * *
72734676 ATATGAATATTTATTTAATTAATCGAAAATT-AATAAATTATTTATAGA
129 ATATGATTATTTATTTAATTAAT-AAAAATTAAAT-AATTATTCATAAA
* * *
72734724 ATTATTTTGAAATATGATTATTTATGTAATTAATAAAAAATTAATTAATTATTCATAAAATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAATTAAAAATTAATTAATTATTCATAAAATTATT
* * * *
72734789 ATGAAATATGATTTTTTATTT-ATTTAATCAGAAATTAATTAATTATTCGTATAATTATTATGAA
66 ATGAAATATGATTATTTATTTAATTTGA-CA-AAATTAATTAATTATTCATAAAATTATTATGAA
* *
72734853 ATATGATTATTTATTTAATTAATAAAAAATAATTAATTATTCATAAA
129 ATATGATTATTTATTTAATTAATAAAAATTAAATAATTATTCATAAA
* * * * *
72734900 ATTATTATGAAATATAATTATTTATTTAATTAATCAGAAATTAATTAATTATTCGTATAATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAATTAAAAATTAATTAATTATTCATAAAATTATT
72734965 ATGAAATATGA
66 ATGAAATATGA
72734976 CCCAGCTTTT
Statistics
Matches: 373, Mismatches: 45, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
170 41 0.11
171 37 0.10
172 2 0.01
175 3 0.01
176 138 0.37
177 67 0.18
178 85 0.23
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (175 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATTAAAAATTAATTAATTATTCATAAAATTATT
ATGAAATATGATTATTTATTTAATTTGACAAAATTAATTAATTATTCATAAAATTATTATGAAAT
ATGATTATTTATTTAATTAATAAAAATTAAATAATTATTCATAAA
Found at i:72734889 original size:235 final size:233
Alignment explanation
Indices: 72734376--72734975 Score: 876
Period size: 235 Copynumber: 2.6 Consensus size: 233
72734366 TATGATTATC
*
72734376 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAAATAA-TATTCATAAAATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAAT-AAAAATTAATTAATTATTCATAAAATTATT
*
72734440 ATGAAATATG---A-TTATTTATTTAATCGAAAATTAATTAATTATTCATAGAATTATTTTGAAA
65 ATGAAATATGAATATTTATTTAATTAATCGAAAATTAATTAATTATTCATAGAATTATTTTGAAA
*
72734501 TATGATTAATTAATTAATTAATTAAAATTAAATAATATTCATAAAATTACTATAAAATATGATTA
130 TATGATTAATTAATTAATTAATAAAAATTAAATAATATTCATAAAATTACTATAAAATATGATTA
* * *
72734566 TTTATTTATTTATTTTAAAATTAATTAATTATTCATATT
195 TTTATTTATTTATATCAAAATTAATTAATTATTCATATA
**
72734605 ATTATTATGAAATATGATTATTTATTTAATTTGTACAAAGATTAATTAATTATTCATAAAATTAT
1 ATTATTATGAAATATGATTATTTATTTAATTAATA-AAA-ATTAATTAATTATTCATAAAATTAT
* *
72734670 TATGAAATATGAATATTTATTTAATTAATCGAAAATTAATAAATTATTTATAGAATTATTTTGAA
64 TATGAAATATGAATATTTATTTAATTAATCGAAAATTAATTAATTATTCATAGAATTATTTTGAA
* * * *
72734735 ATATGATT-ATTTATGTAATTAATAAAAAATTAATTAATTATTCATAAAATTATTATGAAATATG
129 ATATGATTAATTAAT-TAATTAAT-AAAAATTAAATAA-TATTCATAAAATTACTATAAAATATG
* *
72734799 ATTTTTTATTTATTTA-ATCAGAAATTAATTAATTATTCGTATA
191 ATTATTTATTTATTTATATCA-AAATTAATTAATTATTCATATA
*
72734842 ATTATTATGAAATATGATTATTTATTTAATTAATAAAAAATAATTAATTATTCATAAAATTATTA
1 ATTATTATGAAATATGATTATTTATTTAATTAATAAAAATTAATTAATTATTCATAAAATTATTA
* * *
72734907 TGAAATAT-AATTATTTATTTAATTAATC-AGAAATTAATTAATTATTCGTATAATTATTATGAA
66 TGAAATATGAA-TATTTATTTAATTAATCGA-AAATTAATTAATTATTCATAGAATTATTTTGAA
72734970 ATATGA
129 ATATGA
72734976 CCCAGCTTTT
Statistics
Matches: 334, Mismatches: 24, Indels: 20
0.88 0.06 0.05
Matches are distributed among these distances:
228 1 0.00
229 35 0.10
230 8 0.02
231 26 0.08
234 9 0.03
235 147 0.44
236 16 0.05
237 92 0.28
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (233 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATAAAAATTAATTAATTATTCATAAAATTATTA
TGAAATATGAATATTTATTTAATTAATCGAAAATTAATTAATTATTCATAGAATTATTTTGAAAT
ATGATTAATTAATTAATTAATAAAAATTAAATAATATTCATAAAATTACTATAAAATATGATTAT
TTATTTATTTATATCAAAATTAATTAATTATTCATATA
Found at i:72743541 original size:122 final size:122
Alignment explanation
Indices: 72743397--72744006 Score: 356
Period size: 122 Copynumber: 4.8 Consensus size: 122
72743387 ATTTTTTAAA
*
72743397 AAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT-T
* ** *
72743462 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA-ATTTTT-GTTTTTC
65 -TTTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTGAGATTTTTAGTTTTTC
* ** * ** *
72743519 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT-AGTTTT
* * * **
72743584 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
65 TT-TAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTGA-G-ATTTTTAG-
*
72743649 TTATGTTT
117 TT-T-TTC
* ** * * ***
72743657 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-G-TTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTTT
* * * *
72743708 TCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATT
66 TTAAAATCAACTCATATTGCGAG--A-G-G-TGAG--TTAAG-C-CTTTGA-G-ATTTTT--AGT
*
72743773 TTTTAA
118 TTTT-C
72743779 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT-T
* ** *
72743844 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA-ATTTTT-GTTTTTC
65 -TTTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTGAGATTTTTAGTTTTTC
* ** * ** *
72743901 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT-AGTTTT
* * *
72743966 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
65 TT--TAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
72744007 CGGGGCACGC
Statistics
Matches: 374, Mismatches: 65, Indels: 97
0.70 0.12 0.18
Matches are distributed among these distances:
121 6 0.02
122 200 0.53
123 51 0.14
124 2 0.01
126 13 0.03
127 4 0.01
129 10 0.03
130 2 0.01
131 7 0.02
133 4 0.01
134 13 0.03
135 3 0.01
136 5 0.01
137 2 0.01
138 52 0.14
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTTT
TTAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTGAGATTTTTAGTTTTTC
Found at i:72743719 original size:191 final size:192
Alignment explanation
Indices: 72743135--72744130 Score: 1942
Period size: 191 Copynumber: 5.2 Consensus size: 192
72743125 CTTTCCAAGG
72743135 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
72743200 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCTAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72743265 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72743327 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
72743392 TTAAAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72743457 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72743519 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72743584 TT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72743648 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72743710 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72743775 TT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72743839 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72743901 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72743966 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72744031 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
72744093 AAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
72744131 GGGGCACGCC
Statistics
Matches: 798, Mismatches: 4, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
191 381 0.48
192 381 0.48
193 36 0.05
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:72743975 original size:383 final size:384
Alignment explanation
Indices: 72743135--72744130 Score: 1942
Period size: 383 Copynumber: 2.6 Consensus size: 384
72743125 CTTTCCAAGG
72743135 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
72743200 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCTAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72743265 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
72743330 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTA
196 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTA
*
72743395 AAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
261 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
72743460 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
326 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72743519 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72743584 TT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72743648 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
72743713 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT-
196 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTA
72743777 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
261 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
72743842 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
326 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72743901 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72743966 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72744031 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AA
*
72744096 AATCAACTCATATTGCAAGAAATGAGTTGAGCCTC
195 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
72744131 GGGGCACGCC
Statistics
Matches: 607, Mismatches: 3, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
382 190 0.31
383 314 0.52
384 103 0.17
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (384 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTA
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:72744097 original size:123 final size:123
Alignment explanation
Indices: 72743970--72744288 Score: 539
Period size: 123 Copynumber: 2.6 Consensus size: 123
72743960 AATTTTTTAA
*
72743970 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
72744035 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
72744093 AAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
72744158 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * ** * * *
72744216 AAAAATCAACTCATATTTCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCAC--GCCGAGGTATTTTTAGTT
72744281 TATGTTTT
64 TATGTTTT
72744289 TTTCAATCTA
Statistics
Matches: 184, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 161 0.88
125 23 0.12
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (123 bp):
AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:72744111 original size:54 final size:54
Alignment explanation
Indices: 72744047--72744252 Score: 142
Period size: 54 Copynumber: 3.5 Consensus size: 54
72744037 TTTTAAATTG
*
72744047 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCAAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
** * *** ***
72744101 ACTCATATTGCAAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCAAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTT-T-TCAAAA
**
72744166 ATTG
51 ATCA
*
72744170 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCAAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* *
72744224 ACTCATATTTCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCAAGAGGTGAGTTAAGCCT
72744253 CGGCTCACAT
Statistics
Matches: 110, Mismatches: 27, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
54 56 0.51
55 1 0.01
56 4 0.04
57 6 0.05
60 1 0.01
63 1 0.01
66 6 0.05
67 4 0.04
68 1 0.01
69 30 0.27
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCAAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:72744293 original size:16 final size:17
Alignment explanation
Indices: 72744272--72744305 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
72744262 TGCTGAGGTA
*
72744272 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
72744288 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
72744305 T
1 T
72744306 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:72744417 original size:176 final size:181
Alignment explanation
Indices: 72744211--72744617 Score: 470
Period size: 191 Copynumber: 2.2 Consensus size: 181
72744201 TAATTTTTGT
* *
72744211 TTTTCAAAAATCAACTCATATTTCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* * * *
72744275 TCAATTTATG-TTTT-TTTC-AATCTATGCT-TTTC-AAAAATCAACTTATATTGCGAGAGGTGA
64 TCAAATTATGTTTTTATTTCTAATCTATG-TGTTTCAAAAAATCAACTCATATTGCAAGAGGCGA
72744335 GTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACTAA-TTCTAC
128 GTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTAC-AATTTCTAC
* *
72744389 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
* *
72744453 AAATTATGTTTTTAATTTCTGTTTTTTTAATTTCTGTGTTTCAAAAAAAATCAACTCATATTGCA
66 AAATTATGTTTTT-ATTTC--------TAATCTATGTGTTTC--AAAAAATCAACTCATATTGCA
* * * **
72744518 ATAGGCGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTCAATTTCTGT
120 AGAGGCGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
*
72744580 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGA
72744618 ACCTTTTAAT
Statistics
Matches: 193, Mismatches: 16, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
176 58 0.30
177 7 0.04
178 5 0.03
179 4 0.02
187 1 0.01
188 10 0.05
190 2 0.01
191 76 0.39
193 30 0.16
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (181 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AAATTATGTTTTTATTTCTAATCTATGTGTTTCAAAAAATCAACTCATATTGCAAGAGGCGAGTT
GAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:72744469 original size:85 final size:87
Alignment explanation
Indices: 72744211--72744469 Score: 289
Period size: 91 Copynumber: 2.9 Consensus size: 87
72744201 TAATTTTTGT
* *
72744211 TTTTCAAAAATCAACTCATATTTCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
72744275 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTATG--TTTTT-AATTCTA-GC
* *
72744302 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
* * *
72744364 TCAATTTCTACTTTACTAATTCTA-C
64 TCAATTTAT-GTTT-TTAATTCTAGC
* *
72744389 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
72744453 AAATTATGTTTTTAATT
66 AATTTATGTTTTTAATT
72744470 TCTGTTTTTT
Statistics
Matches: 145, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
84 3 0.02
85 38 0.26
86 3 0.02
87 27 0.19
88 5 0.03
89 27 0.19
91 40 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (87 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTATGTTTTTAATTCTAGC
Found at i:72744481 original size:15 final size:15
Alignment explanation
Indices: 72744461--72744489 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
72744451 TCAAATTATG
72744461 TTTTTAATTTCTGTT
1 TTTTTAATTTCTGTT
72744476 TTTTTAATTTCTGT
1 TTTTTAATTTCTGT
72744490 GTTTCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTAATTTCTGTT
Found at i:72744648 original size:54 final size:55
Alignment explanation
Indices: 72744565--72744671 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 55
72744555 TCAATTTCTA
* * *
72744565 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATAGCAAGAGGTGAGTTGAAC
72744620 CTTTT-AATTTCTATTTTTCAAAAATCAACTCATATAGCAAGAGGTGAGTTGA
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATAGCAAGAGGTGAGTTGA
72744672 GCCTCAGGGC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 44 0.90
55 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATAGCAAGAGGTGAGTTGAAC
Found at i:72744734 original size:141 final size:141
Alignment explanation
Indices: 72744498--72744901 Score: 541
Period size: 141 Copynumber: 2.9 Consensus size: 141
72744488 GTGTTTCAAA
* * *
72744498 AAAAATCAACTCATATTGCAATAGGCGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAATTTC
72744563 TACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTT-AA
66 TACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTCAA
* *
72744627 TTTCTATTTTTC
131 ATTCT-GTTTTC
*
72744639 AAAAATCAACTCATATAGCAAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAATTTC
*
72744704 TACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCA
66 TACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTT-CA
72744769 AATTCTGTTTTC
130 AATTCTGTTTTC
* * * * *
72744781 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-GCA--TGCTGAGGTATTTTCAAT
* * * **
72744845 TTCTA-TTTT-TATTGTCTAG-TTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGA
63 TTCTACTTTTCAATT-TCT-GTTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
72744902 GCTCAGGATC
Statistics
Matches: 237, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
141 124 0.52
142 47 0.20
143 43 0.18
144 23 0.10
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (141 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAATTTC
TACTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTCAA
ATTCTGTTTTC
Found at i:72744780 original size:55 final size:55
Alignment explanation
Indices: 72744706--72744818 Score: 192
Period size: 55 Copynumber: 2.1 Consensus size: 55
72744696 TCAATTTCTA
* *
72744706 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
72744761 CTTTTGCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
72744816 CTT
1 CTT
72744819 GGCTCACGTG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 47 0.85
56 8 0.15
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTTCAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
Found at i:72745080 original size:14 final size:15
Alignment explanation
Indices: 72745061--72745094 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
72745051 TTAATTTTCC
72745061 AAATTTCAAAAA-AA
1 AAATTTCAAAAATAA
*
72745075 AAATTTTAAAAATAA
1 AAATTTCAAAAATAA
72745090 AAATT
1 AAATT
72745095 GCATTTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTTCAAAAATAA
Found at i:72745124 original size:30 final size:31
Alignment explanation
Indices: 72745090--72745191 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
72745080 TTAAAAATAA
*
72745090 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
72745120 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
72745150 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
72745180 AAATTTCATTTT
1 AAATTTCATTTT
72745192 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:72745473 original size:10 final size:10
Alignment explanation
Indices: 72745454--72745503 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
72745444 TTTTTCGAAG
*
72745454 GAAAAAAGAA
1 GAAAAGAGAA
72745464 GAAAAGAGAA
1 GAAAAGAGAA
72745474 GAAAAGAGAA
1 GAAAAGAGAA
* *
72745484 -AGAGGAGAA
1 GAAAAGAGAA
72745493 GAAAAGA-AA
1 GAAAAGAGAA
72745502 GA
1 GA
72745504 GCACCGTGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:72745504 original size:17 final size:19
Alignment explanation
Indices: 72745457--72745499 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
72745447 TTCGAAGGAA
72745457 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
72745475 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
72745494 AAAAGA
1 AAAAGA
72745500 AAGAGCACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:72745573 original size:3 final size:3
Alignment explanation
Indices: 72745565--72745635 Score: 65
Period size: 3 Copynumber: 23.0 Consensus size: 3
72745555 GCTAGACTTT
*
72745565 GAA GAA GAA GAAA GAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAAA
1 GAA GAA GAA G-AA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA
* *
72745612 GAAA GAA AAA GAA AAA GAA -AA GAA
1 G-AA GAA GAA GAA GAA GAA GAA GAA
72745636 ATAATAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 40 0.70
4 13 0.23
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:72745581 original size:10 final size:10
Alignment explanation
Indices: 72745566--72745636 Score: 69
Period size: 10 Copynumber: 7.2 Consensus size: 10
72745556 CTAGACTTTG
72745566 AAGAAGAAGA
1 AAGAAGAAGA
72745576 AAGAAGAAGA
1 AAGAAGAAGA
*
72745586 AGGAAGAAGAA
1 AAGAAGAAG-A
*
72745597 AAGAGGAAG-
1 AAGAAGAAGA
72745606 AAGAAAGAAAGA
1 AAG-AAG-AAGA
72745618 AA-AAGAA-A
1 AAGAAGAAGA
72745626 AAGAA-AAGA
1 AAGAAGAAGA
72745635 AA
1 AA
72745637 TAATAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 5 0.10
9 10 0.20
10 23 0.45
11 11 0.22
12 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGA
Found at i:72745611 original size:34 final size:34
Alignment explanation
Indices: 72745568--72745634 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
72745558 AGACTTTGAA
* *
72745568 GAAGAAGAAAG-AAGAAGAAGGAAGAAGAAAAGAG
1 GAAGAAGAAAGAAAGAA-AAAGAAAAAGAAAAGAG
72745602 GAAGAAGAAAGAAAGAAAAAGAAAAAGAAAAGA
1 GAAGAAGAAAGAAAGAAAAAGAAAAAGAAAAGA
72745635 AATAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (34 bp):
GAAGAAGAAAGAAAGAAAAAGAAAAAGAAAAGAG
Found at i:72745636 original size:17 final size:18
Alignment explanation
Indices: 72745569--72745636 Score: 65
Period size: 17 Copynumber: 4.0 Consensus size: 18
72745559 GACTTTGAAG
72745569 AAGAAGAAAG--AAGAAGA
1 AAGAAGAAAGAAAAGAA-A
* **
72745586 AGGAAG-AAGAAAAGAGG
1 AAGAAGAAAGAAAAGAAA
72745603 AAGAAGAAAG-AAAGAAA
1 AAGAAGAAAGAAAAGAAA
72745620 AAGAA-AAAGAAAAGAAA
1 AAGAAGAAAGAAAAGAAA
72745637 TAATAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
16 7 0.17
17 27 0.66
18 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAGAAGAAAGAAAAGAAA
Found at i:72745730 original size:6 final size:6
Alignment explanation
Indices: 72745719--72745748 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
72745709 AAGAAAAAAC
72745719 AACAAA AACAAA AACAAA AACAAA AA-AAA A
1 AACAAA AACAAA AACAAA AACAAA AACAAA A
72745749 GAAACAAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:72745739 original size:21 final size:20
Alignment explanation
Indices: 72745713--72745755 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
72745703 CAGCCCAAGA
72745713 AAAAACAACAAAAACAA-AAAC
1 AAAAACAA-AAAAA-AAGAAAC
72745734 AAAAACAAAAAAAAAGAAAC
1 AAAAACAAAAAAAAAGAAAC
72745754 AA
1 AA
72745756 GCCCCCCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 11 0.52
21 8 0.38
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAGAAAC
Found at i:72745935 original size:19 final size:19
Alignment explanation
Indices: 72745908--72745972 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
72745898 GGCCCAGCAG
* *
72745908 AGAAAAAAAAGAAAAGAAA
1 AGAAGAAAAAGAAAAAAAA
72745927 AGAAGAAAAAGAGAAGGAAAAA
1 AGAAGAAAAAGA-AA--AAAAA
72745949 AGAAGGAAAAAAGAAAAAAAA
1 AGAA-G-AAAAAGAAAAAAAA
72745970 AGA
1 AGA
72745973 GGTTCAATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 11 0.28
20 2 0.05
21 8 0.21
22 8 0.21
23 3 0.08
24 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AGAAGAAAAAGAAAAAAAA
Found at i:72745941 original size:11 final size:9
Alignment explanation
Indices: 72745908--72745969 Score: 61
Period size: 11 Copynumber: 6.1 Consensus size: 9
72745898 GGCCCAGCAG
72745908 AGAAAAAAA
1 AGAAAAAAA
72745917 AGAAAAGAAA
1 AGAAAA-AAA
72745927 AGAAGAAAAA
1 AGAA-AAAAA
72745937 GAGAAGGAAAAA
1 -AGAA--AAAAA
72745949 AGAAGGAAAAA
1 AGAA--AAAAA
72745960 AGAAAAAAA
1 AGAAAAAAA
72745969 A
1 A
72745970 AGAGGTTCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
9 12 0.24
10 10 0.20
11 21 0.43
12 6 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:72746138 original size:16 final size:17
Alignment explanation
Indices: 72746112--72746149 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
72746102 TTATATTTAT
72746112 ATTTTTAATTTGATTTG
1 ATTTTTAATTTGATTTG
* *
72746129 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTGATTTG
72746145 ATTTT
1 ATTTT
72746150 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTGATTTG
Found at i:72746346 original size:18 final size:18
Alignment explanation
Indices: 72746302--72746818 Score: 265
Period size: 17 Copynumber: 29.8 Consensus size: 18
72746292 TCTATAATCC
*
72746302 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
72746320 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
72746337 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
* *
72746354 TAGTG-TTTCGAAAATTT
1 TCGTGTTTTCAAAAATTT
*
72746371 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
72746392 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * *
72746409 CCGTATTTTCAAAAA--A
1 TCGTGTTTTCAAAAATTT
*
72746425 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
**
72746444 TCGTGTTTTCAAAAAAAATGA
1 TCGTGTTTTC---AAAAATTT
*
72746465 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* ** *
72746482 CCGTG-TTAAAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
72746499 TCGTATTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
*
72746518 TCGTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
72746535 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
72746552 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
*
72746570 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* **
72746587 CCGGTGATTTT-AAAAA-AA
1 TC-GTG-TTTTCAAAAATTT
*
72746605 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
*
72746623 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
72746640 TAGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
72746657 TCGTGTTTTTAAAAATTC
1 TCGTGTTTTCAAAAATTT
*
72746675 TCGTATTTT---AAATTT
1 TCGTGTTTTCAAAAATTT
***
72746690 T--T-TTAAGAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
72746705 T-GTG-TTTCAAAAAAATG
1 TCGTGTTTTC-AAAAATTT
* *
72746722 TCTTGTTTT--AAAATTC
1 TCGTGTTTTCAAAAATTT
* *
72746738 TCGTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
72746755 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
**
72746772 TCGTG-TTTCTGAAATTT
1 TCGTGTTTTCAAAAATTT
* *
72746789 CCGTG-TTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
72746805 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
72746819 AAAACTTTCA
Statistics
Matches: 381, Mismatches: 77, Indels: 83
0.70 0.14 0.15
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
15 19 0.05
16 36 0.09
17 184 0.48
18 85 0.22
19 25 0.07
20 4 0.01
21 25 0.07
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:72746398 original size:38 final size:37
Alignment explanation
Indices: 72746312--72746671 Score: 178
Period size: 35 Copynumber: 10.1 Consensus size: 37
72746302 TCGTGCTTTT
* * *
72746312 AAAAATTCTCATGTTTCAAAAATCTTCGTGTTTTC--
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAA
* * * *
72746347 -AAAATTCTAGTGTTTCGAAAATTTTCTTGTTTTCAGA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCA-A
* * * * *
72746384 AAAAATTTTCGTGTTTTATAAATTTCCGTATTTTC-A
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAA
* *
72746420 AAAAATCAT-GTCTTTCAAAAATTTTCGTGTTTTCAAA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTC-AA
* * *
72746457 AAAAATGACCGTGTTTCAAAAATTTCCGTG--TT-AA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAA
*
72746491 AAAAATCT-TCGTATTTTCAAAAAATTTTCGTG-TTTC--
1 AAAAAT-TATCGT-GTTTC-AAAAATTTTCGTGTTTTCAA
72746527 AAAAATCT-TCGTGTTTTCAAAAA-TTTCG-GTGTTTC--
1 AAAAAT-TATCGTG-TTTCAAAAATTTTCGTGT-TTTCAA
* * * *
72746562 AAAGATTTTCGTGTTTTCAAAAA-CTCCGGTGATTTT--A
1 AAAAATTATCGTG-TTTCAAAAATTTTC-GTG-TTTTCAA
*
72746599 AAAAA--ATCGT-TTTCTAAAAAATTTCCGTG-TTTC--
1 AAAAATTATCGTGTTTC--AAAAATTTTCGTGTTTTCAA
* * * *
72746632 AAAAATTTTAGTGTTTTAAAAATTTTCGTGTTTTTAA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAA
72746669 AAA
1 AAA
72746672 TTCTCGTATT
Statistics
Matches: 255, Mismatches: 40, Indels: 58
0.72 0.11 0.16
Matches are distributed among these distances:
33 13 0.05
34 58 0.23
35 73 0.29
36 45 0.18
37 21 0.08
38 45 0.18
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (37 bp):
AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAA
Found at i:72746462 original size:73 final size:73
Alignment explanation
Indices: 72746359--72746531 Score: 190
Period size: 73 Copynumber: 2.4 Consensus size: 73
72746349 AATTCTAGTG
* * * *** * * * *
72746359 TTTCGAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCG--TGTTAAAAAA
72746424 ATCAT-GT-C
64 ATCATCGTAC
72746432 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAT
* *
72746497 CTTCGTAT
66 CATCGTAC
72746505 TTTCAAAAAATTTTCGTG-TTTCAAAAA
1 TTTC-AAAAATTTTCGTGTTTTCAAAAA
72746532 TCTTCGTGTT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
71 12 0.14
72 2 0.02
73 58 0.68
74 13 0.15
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (73 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAT
CATCGTAC
Found at i:72746509 original size:35 final size:35
Alignment explanation
Indices: 72746384--72746664 Score: 200
Period size: 35 Copynumber: 8.0 Consensus size: 35
72746374 TGTTTTCAGA
* * *
72746384 AAAAATTTTCGTGTTTT-ATAAATTTCCGTATTTTC
1 AAAAATCTTCGTGTTTTCAAAAATTTCCGT-GTTTC
* * *
72746419 AAAAAATCAT-GT-CTTTCAAAAATTTTCGTGTTTTC
1 -AAAAATCTTCGTGTTTTCAAAAATTTCCGTG-TTTC
*** **
72746454 AAAAAAAATGACCGTG-TTTCAAAAATTTCCGTGTTAA
1 ---AAAAATCTTCGTGTTTTCAAAAATTTCCGTGTTTC
* *
72746491 AAAAATCTTCGTATTTTCAAAAAATTTTCGTGTTTC
1 AAAAATCTTCGTGTTTTC-AAAAATTTCCGTGTTTC
*
72746527 AAAAATCTTCGTGTTTTCAAAAATTTCGGTGTTTC
1 AAAAATCTTCGTGTTTTCAAAAATTTCCGTGTTTC
* * * *
72746562 AAAGATTTTCGTGTTTTCAAAAA-CTCCGGTGATTTT
1 AAAAATCTTCGTGTTTTCAAAAATTTCC-GTG-TTTC
** *
72746598 AAAAA-AATCGT-TTTCTAAAAAATTTCCGTGTTTC
1 AAAAATCTTCGTGTTT-TCAAAAATTTCCGTGTTTC
* * *
72746632 AAAAATTTTAGTGTTTT-AAAAATTTTCGTGTTT
1 AAAAATCTTCGTGTTTTCAAAAATTTCCGTGTTT
72746665 TTAAAAATTC
Statistics
Matches: 195, Mismatches: 36, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
34 40 0.21
35 76 0.39
36 51 0.26
37 10 0.05
38 18 0.09
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (35 bp):
AAAAATCTTCGTGTTTTCAAAAATTTCCGTGTTTC
Done.