Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 684 of 770
Found at i:215623634 original size:40 final size:40
Alignment explanation
Indices: 215623579--215623826 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
215623569 TGAATGATAC
* * *
215623579 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
215623619 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
215623659 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
215623699 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
215623739 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
215623779 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
215623819 CC-GGCTAA
1 CCGGGCTAA
215623827 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 5 0.03
40 185 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:215627424 original size:40 final size:39
Alignment explanation
Indices: 215627378--215627475 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 39
215627368 ATTTCAATTC
*
215627378 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACCAAATCCGGACTAAG-T
* * **
215627418 CCGAAGGCATTTGTACGAGTTCCCAAATCCGGGTTAAGT
1 CCGAAGGCATTTGTGCGAGTTACCAAATCCGGACTAAGT
215627457 CCGAAGGCATTTGTGCGAG
1 CCGAAGGCATTTGTGCGAG
215627476 CTATTATAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 19 0.37
40 33 0.63
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACCAAATCCGGACTAAGT
Found at i:215629341 original size:38 final size:39
Alignment explanation
Indices: 215629221--215629404 Score: 274
Period size: 38 Copynumber: 4.9 Consensus size: 39
215629211 AATGTTCGAG
215629221 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGA---A
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
215629256 TGATA-CCGGGCTAAG-CCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
215629293 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
215629332 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
215629370 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
215629405 GGTTACCATA
Statistics
Matches: 137, Mismatches: 4, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
34 20 0.15
35 12 0.09
37 6 0.04
38 46 0.34
39 36 0.26
40 17 0.12
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:215629376 original size:77 final size:73
Alignment explanation
Indices: 215629220--215629404 Score: 282
Period size: 77 Copynumber: 2.5 Consensus size: 73
215629210 GAATGTTCGA
215629220 GTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAATGATACCGGGCTAAGCCGAAGGCAATTG
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATGATACCGGGCTAAGCCGAAGGCAATTG
215629284 TGCGAGCT
66 TGCGAGCT
*
215629292 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCA
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA---ATGATACCGGGCTAAG-CCGAAGGCA
*
215629357 ATTGTGCGAGTT
62 ATTGTGCGAGCT
* *
215629369 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
215629405 GGTTACCATA
Statistics
Matches: 102, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
72 8 0.08
73 26 0.25
76 16 0.16
77 35 0.34
78 17 0.17
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (73 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATGATACCGGGCTAAGCCGAAGGCAATTG
TGCGAGCT
Found at i:215636789 original size:39 final size:39
Alignment explanation
Indices: 215636735--215636847 Score: 167
Period size: 39 Copynumber: 2.9 Consensus size: 39
215636725 AATGTTCGAG
215636735 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
215636774 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
215636813 TGATATCCGGGTTAAGTCCCGAAGGC-ATT-TGCGAG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAG
215636848 TGCGGGTTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
38 6 0.09
39 53 0.78
40 9 0.13
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:215636879 original size:24 final size:27
Alignment explanation
Indices: 215636820--215636880 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 27
215636810 TTGTGATATC
215636820 CGGGTTAAGTCCCGAAGGCATTTGCGAGTG
1 CGGGTTAAGTCCCGAAGGCATTT--G-GTG
215636850 CGGGTTAAGT-CC-AAGGCATTT-GTG
1 CGGGTTAAGTCCCGAAGGCATTTGGTG
215636874 CGGGTTA
1 CGGGTTA
215636881 CCATAACCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.32
28 9 0.29
29 2 0.06
30 10 0.32
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (27 bp):
CGGGTTAAGTCCCGAAGGCATTTGGTG
Found at i:215641787 original size:27 final size:27
Alignment explanation
Indices: 215641757--215641816 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
215641747 CAAATTGTAA
*
215641757 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAG
****
215641784 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
215641811 AATTAC
1 AATTAC
215641817 TTGTGACAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:215644519 original size:43 final size:44
Alignment explanation
Indices: 215644448--215644582 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
215644438 TATCGAAATG
* *
215644448 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
215644492 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
215644535 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
215644580 TGA
1 TGA
215644583 AATGTTATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 8 0.10
45 32 0.41
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:215644564 original size:45 final size:43
Alignment explanation
Indices: 215644465--215644582 Score: 166
Period size: 45 Copynumber: 2.7 Consensus size: 43
215644455 CGGGCTTCGG
*
215644465 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * *
215644508 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
215644553 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
215644583 AATGTTATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.42
44 3 0.05
45 32 0.50
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:215644894 original size:38 final size:38
Alignment explanation
Indices: 215644879--215645087 Score: 285
Period size: 38 Copynumber: 5.5 Consensus size: 38
215644869 GCAGGCTATA
* *
215644879 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCT
1 TGCTGGTAA-TATATCCGGGTTAAATCCTGCAGGCTTCG
215644917 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
*
215644955 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTTG
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
* *
215644993 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
* * * * * *
215645031 TGCTGGTATTATATCTGGGTTAAATCCCGCAAGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
* *
215645069 TGCTGGTATTATATTCGGG
1 TGCTGGTAATATATCCGGG
215645088 CCTTTGATCC
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 154 0.99
39 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
Found at i:215644978 original size:76 final size:76
Alignment explanation
Indices: 215644852--215645087 Score: 298
Period size: 76 Copynumber: 3.1 Consensus size: 76
215644842 ATGATATTTG
* ** *
215644852 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTT
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTT
215644915 CT-TGCTGGTAATA
64 -TGTGCTGGTAATA
* *
215644928 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTTG
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTTG
215644993 TGCTGGTAATA
66 TGCTGGTAATA
* * * * * *
215645004 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCAAGCCTAG
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTTG
*
215645069 TGCTGGTATTA
66 TGCTGGTAATA
*
215645080 TATTCGGG
1 TATCCGGG
215645088 CCTTTGATCC
Statistics
Matches: 141, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
75 2 0.01
76 137 0.97
77 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (76 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTTG
TGCTGGTAATA
Found at i:215645052 original size:114 final size:114
Alignment explanation
Indices: 215644852--215645087 Score: 314
Period size: 114 Copynumber: 2.1 Consensus size: 114
215644842 ATGATATTTG
* *
215644852 TATCCGGCTTAAAGACCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCT
1 TATCCGGGTTAAAGACCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
215644917 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
66 TGCTGGTAATATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAATA
* * * *
215644966 TATCCGGGTTAAA-TCCTGCAGGCTTTGTGCTGGTAA-TATATCCGGGTTAATTCCCGCAGGCTT
1 TATCCGGGTTAAAGACC-GCAGGCTATATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTT
* * *
215645029 CGTGCTGGTATTATATCTGGGTTAAATCCCGCAAGCCTAGTGCTGGTATTA
64 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAATA
*
215645080 TATTCGGG
1 TATCCGGG
215645088 CCTTTGATCC
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
113 2 0.02
114 102 0.96
115 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (114 bp):
TATCCGGGTTAAAGACCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
TGCTGGTAATATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAATA
Found at i:215645173 original size:45 final size:45
Alignment explanation
Indices: 215645080--215645206 Score: 179
Period size: 44 Copynumber: 2.9 Consensus size: 45
215645070 GCTGGTATTA
*
215645080 TATTCGGGCCTTTGATCCTAGCAGGCTAT-ATGCCGATGAGACAC
1 TATTCGGGCCTTTGATCCTAGCAGGCTATAATGCCGGTGAGACAC
** *
215645124 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGATCCTAGCAGGCTATAATGCCGGTGAGACAC
* *
215645169 TATTCGGGCC-TCGATCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGATCCTAGCAGGCTATAATGCCGGTGA
215645207 TTTGAGAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 11 0.15
44 40 0.54
45 23 0.31
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGATCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:215646050 original size:27 final size:27
Alignment explanation
Indices: 215646012--215646098 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
215646002 AGGGTGTTAC
* *
215646012 ATTACCGTTTTACCCTCGATTTATAGA
1 ATTACTGTTTTACCCTCGATTTACAGA
*
215646039 ATTACTGTTTTACCCTTGATTTACAGA
1 ATTACTGTTTTACCCTCGATTTACAGA
*
215646066 ATTACTGTTTTACCCTCGATTTACAAA
1 ATTACTGTTTTACCCTCGATTTACAGA
215646093 ATTACT
1 ATTACT
215646099 AAAATACCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (27 bp):
ATTACTGTTTTACCCTCGATTTACAGA
Found at i:215646106 original size:27 final size:27
Alignment explanation
Indices: 215646076--215646350 Score: 209
Period size: 27 Copynumber: 10.2 Consensus size: 27
215646066 ATTACTGTTT
* *
215646076 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
215646103 TA-CCTCCGGTTTACAAAATTACCAAAA
1 TACCCT-CGATTTATAAAATTACCAAAA
*
215646130 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
215646157 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * **
215646183 TACCCTTGGTTTGTAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
215646210 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
215646237 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * *
215646264 TACCATTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
215646291 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
215646318 TACCC-CTAATTTACAAAGTTCCCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
215646345 TACCCT
1 TACCCT
215646351 TGACTTTCTA
Statistics
Matches: 204, Mismatches: 35, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
26 27 0.13
27 174 0.85
28 3 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:215646134 original size:54 final size:53
Alignment explanation
Indices: 215646076--215646432 Score: 230
Period size: 54 Copynumber: 6.6 Consensus size: 53
215646066 ATTACTGTTT
** * *
215646076 TACCCTCGATTTACAAAATTACTAAAATACCTCCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACC-CCAGTTTACAAAATTACCAAAA
** * * ** * *
215646130 TACCCTCGATCAGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCAGTTTACAAAATTACCAAAA
* * ** * **
215646183 TACCCTTGGTTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCC-CAGTTTACAAAATTACCAAAA
* *** ** *
215646237 TACCC-CTAGTTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CCAGTTTACAAAATTACCAAAA
* * * *
215646291 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTCCCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCC-AGTTTACAAAATTACCAAAA
* * *** *** **
215646345 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACC-CCAGTTTACAAAATTACCAAAA
* * * * *
215646401 TACCCTTGGTTTGTAGATTTACCAAAACACCC
1 TACCCTCGATTTGTAAAATTACCAAAATACCC
215646433 TTGTAGGATG
Statistics
Matches: 229, Mismatches: 66, Indels: 17
0.73 0.21 0.05
Matches are distributed among these distances:
53 41 0.18
54 142 0.62
55 10 0.04
56 36 0.16
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (53 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCCAGTTTACAAAATTACCAAAA
Found at i:215646161 original size:81 final size:80
Alignment explanation
Indices: 215646076--215646348 Score: 282
Period size: 81 Copynumber: 3.4 Consensus size: 80
215646066 ATTACTGTTT
* * ** * * *
215646076 TACCCTCGATTTACAAAATTACTAAAATACCTCCGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCC-CGATTTACAAAATTACCAAAATACCTCTGGTTTGTAAAATTACCGAAATACCCTCAATT
*
215646141 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * * *
215646157 TA-CCCTAGTCTGTAAAATTGCTAAAATACC-CTTGGTTTGTAAAATTACTGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACCAAAATACCTC-TGGTTTGTAAAATTACCGAAATACCCTCAAT
215646220 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* **
215646237 TACCCCTAGTTTGTAAAATTACCAAAATACCAT-TGGTTTGTAAAATTACCGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACCAAAATACC-TCTGGTTTGTAAAATTACCGAAATACCCTCAAT
215646301 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* * *
215646318 TACCCCTAATTTACAAAGTTCCCAAAATACC
1 TACCCC-GATTTACAAAATTACCAAAATACC
215646349 CTTGACTTTC
Statistics
Matches: 164, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.02
80 62 0.38
81 98 0.60
82 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACCAAAATACCTCTGGTTTGTAAAATTACCGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:215646394 original size:27 final size:27
Alignment explanation
Indices: 215646361--215646412 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
215646351 TGACTTTCTA
215646361 AAAATTA-TGGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
215646388 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
215646413 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:215646494 original size:26 final size:26
Alignment explanation
Indices: 215646465--215646550 Score: 120
Period size: 26 Copynumber: 3.3 Consensus size: 26
215646455 TACCCCTATT
215646465 AGGTAAAGAGACCTAAAGCCCCTGTA
1 AGGTAAAGAGACCTAAAGCCCCTGTA
215646491 AGGTAAAGAGACCTAAAGCCCCTGTA
1 AGGTAAAGAGACCTAAAGCCCCTGTA
* *
215646517 GGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAGAGACC-TAA-AGCCCCTGTA
*
215646544 TGGTAAA
1 AGGTAAA
215646551 ATGACCAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 37 0.67
27 17 0.31
28 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
AGGTAAAGAGACCTAAAGCCCCTGTA
Found at i:215647385 original size:26 final size:26
Alignment explanation
Indices: 215647356--215647543 Score: 249
Period size: 26 Copynumber: 7.3 Consensus size: 26
215647346 GAGGAAGTGC
215647356 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
215647382 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
215647408 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
215647434 AAAAGGGCTTATGCTCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
215647460 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* ***
215647486 AAAAGGGCTT-TGCCCTAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
215647511 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
215647534 AAAAGAGGCT
1 AAAAG-GGCT
215647544 AGGCCTCCAG
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
23 5 0.04
24 7 0.05
25 28 0.20
26 102 0.72
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:215647434 original size:52 final size:52
Alignment explanation
Indices: 215647356--215647543 Score: 303
Period size: 52 Copynumber: 3.7 Consensus size: 52
215647346 GAGGAAGTGC
215647356 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
215647408 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCTCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
215647460 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCTAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
215647511 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
215647544 AGGCCTCCAG
Statistics
Matches: 129, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
48 5 0.04
49 9 0.07
50 8 0.06
51 22 0.17
52 85 0.66
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:215647735 original size:42 final size:42
Alignment explanation
Indices: 215647676--215647767 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
215647666 TAGTCTCCCC
* ** *
215647676 AAATGGGCTTGCATACATTCATTGGTATTTCATGCT-ATATTG
1 AAATGGGCTTGCATACATACATTGACATTACATG-TGATATTG
215647718 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
215647760 AAATGGGC
1 AAATGGGC
215647768 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
Found at i:215647855 original size:31 final size:31
Alignment explanation
Indices: 215647791--215647873 Score: 107
Period size: 30 Copynumber: 2.7 Consensus size: 31
215647781 CGTTTACAAT
* * *
215647791 AAAGGCTTCAGACCAATGATAT-ATTCATGA
1 AAAGGCTTCGGCCCAGTGATATGATTCATGA
* *
215647821 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTCATGA
215647852 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
215647874 TCGAGACTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 23 0.50
31 23 0.50
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTCATGA
Found at i:215655128 original size:40 final size:39
Alignment explanation
Indices: 215654968--215655130 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
215654958 TGTGTATGAA
*
215654968 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
215655007 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
215655046 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
215655085 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
215655125 TGTGCG
1 TGTGCG
215655131 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:215655146 original size:40 final size:39
Alignment explanation
Indices: 215654968--215655161 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
215654958 TGTGTATGAA
* *
215654968 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
215655007 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
215655046 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
215655085 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
215655125 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
215655162 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:215663023 original size:40 final size:39
Alignment explanation
Indices: 215662863--215663025 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
215662853 TGTGTATGAA
*
215662863 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
215662902 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
215662941 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
215662980 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
215663020 TGTGCG
1 TGTGCG
215663026 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:215663041 original size:40 final size:39
Alignment explanation
Indices: 215662863--215663056 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
215662853 TGTGTATGAA
* *
215662863 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
215662902 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
215662941 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
215662980 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
215663020 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
215663057 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:215670840 original size:39 final size:39
Alignment explanation
Indices: 215670786--215670948 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
215670776 TGTGTATGAA
*
215670786 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
215670825 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
215670864 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
215670903 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
215670943 TGTGCG
1 TGTGCG
215670949 GTTACCATAA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:215670974 original size:39 final size:39
Alignment explanation
Indices: 215670786--215670978 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
215670776 TGTGTATGAA
* *
215670786 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
215670825 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
215670864 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
215670903 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
** * *
215670943 TGTGCG-GTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
215670979 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 121 0.88
40 17 0.12
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:215670999 original size:79 final size:78
Alignment explanation
Indices: 215670803--215671016 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 78
215670793 ATTGTGATAT
** * *
215670803 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
** *
215670868 CGAGCTATGATAT
66 CGAGCTACCATAA
** * * *
215670881 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATGGT
*
215670946 GCG-GTTACCATAA
65 GCGAGCTACCATAA
* ** *
215670959 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
215671017 TATGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 76 0.64
79 40 0.34
80 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
CGAGCTACCATAA
Found at i:215673680 original size:48 final size:45
Alignment explanation
Indices: 215673536--215673849 Score: 167
Period size: 49 Copynumber: 6.7 Consensus size: 45
215673526 ATGGATGTGT
* * * *
215673536 GCTAGTGTAAGACATGTCAGGGACAT-GTATCGGTCA-CATTATGAG
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-G-CATCAATATGAA
* * * *
215673581 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTAAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATC-GCATCAATATGA-A
*
215673629 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGATATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATC-A-ATATG-AA
* * * * * *
215673677 GCTAGTGTAAGACCTATCTGAGACATGGCATCGGCAT-GACATG-T
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATCAATATGAA
* * * * *
215673721 G-TCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGAGGACA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCG-CATC-A-ATATGA-A
* * *
215673770 TCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATC-A-ATATG-AA
*
215673819 G-TCAGTGTAAGATC-TGTTTGGGACATGGCAT
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCAT
215673850 AGACTTAGAT
Statistics
Matches: 213, Mismatches: 36, Indels: 36
0.75 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 31 0.15
45 11 0.05
46 26 0.12
47 28 0.13
48 40 0.19
49 71 0.33
50 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGCATCAATATGAA
Found at i:215677357 original size:27 final size:27
Alignment explanation
Indices: 215677327--215677841 Score: 617
Period size: 27 Copynumber: 19.1 Consensus size: 27
215677317 ATACTCCCGG
*
215677327 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
215677354 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
215677381 TTTATAGAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
215677407 GTTTACAGAATTACTGTTTTACCCTTGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
215677435 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** * *
215677462 TTTGTAAAATTATCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
215677489 TTTACAGAATTACCGTTTTACACTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
*
215677515 GTTTACAGAATTACTGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
* * *
215677543 TTTATAAAATTACCATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** *
215677570 TTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
215677597 TTTACAGAATTACCGTTTTACCCT-TA
1 TTTACAGAATTACCGTTTTACCCTCGA
** *
215677623 GTTTACAGAATTACTATTTTACCCTCAA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
215677651 TTTACAGAATTACCATTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
*
215677677 GTTTACAGAATTACTGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
* *
215677705 TTTACAGAATTATCGTTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** * *
215677732 TTTGTAAAATTACCGTTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
215677759 TTTACAGAATTACTGGTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* * *
215677785 GTTTACAAAATTATCGTTTTACCCTTGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
** *
215677813 TTTACAGAATTACAATTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
215677840 TT
1 TT
215677842 GTGAAATTAC
Statistics
Matches: 422, Mismatches: 56, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 412 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTACAGAATTACCGTTTTACCCTCGA
Found at i:215677841 original size:108 final size:109
Alignment explanation
Indices: 215677327--215677837 Score: 685
Period size: 108 Copynumber: 4.7 Consensus size: 109
215677317 ATACTCCCGG
* *
215677327 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
*
215677392 ACCGTTTTACCC-TCAGTTTACAGAATTACTGTTTTACCCTTGA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
** *
215677435 TTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
*
215677500 ACCGTTTTACAC-TCAGTTTACAGAATTACTGTTTTACCCTCGA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
* * **
215677543 TTTATAAAATTACCATTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
* *
215677608 ACCGTTTTACCCTT-AGTTTACAGAATTACTATTTTACCCTCAA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
* * * *
215677651 TTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCTCGATTTACAGAAT
1 TTTATAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
* * * * *
215677715 TATCGTTTTACCCTTGATTTGTA-A-AATTACCGTTTTACCCTTGA
65 TACCGTTTTACCCTTCAGTT-TACAGAATTACTGTTTTACCCTCGA
* * * * *
215677759 TTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTTGATTTACAGAAT
1 TTTATAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
**
215677823 TACAATTTTACCCTT
65 TACCGTTTTACCCTT
215677838 GATTGTGAAA
Statistics
Matches: 364, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
107 1 0.00
108 356 0.98
109 5 0.01
110 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (109 bp):
TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
Found at i:215677876 original size:27 final size:27
Alignment explanation
Indices: 215677846--215678041 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
215677836 TTGATTGTGA
*
215677846 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
215677873 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
215677900 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
215677927 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
215677954 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
215677981 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
215678008 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
215678035 AATTACC
1 AATTACC
215678042 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:215678278 original size:27 final size:26
Alignment explanation
Indices: 215678240--215678322 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
215678230 CGGAGGAAGC
*
215678240 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
215678267 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
215678293 GTATTTGGTGACTCTACCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
215678320 GTT
1 GTT
215678323 GACGATCGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:215678654 original size:27 final size:27
Alignment explanation
Indices: 215678632--215678698 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
215678622 TAGGTGGGTT
*
215678632 TGCCACATTATCTGAT-TCTGGTGGCTC
1 TGCCACAATATCT-ATATCTGGTGGCTC
*
215678659 TGCCACAATATCTATATCTGGTGACTC
1 TGCCACAATATCTATATCTGGTGGCTC
* *
215678686 TGACACGATATCT
1 TGCCACAATATCT
215678699 GTTCTGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (27 bp):
TGCCACAATATCTATATCTGGTGGCTC
Found at i:215678831 original size:6 final size:6
Alignment explanation
Indices: 215678822--215678923 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
215678812 TTGCATTCAC
* * *
215678822 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
215678871 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
215678919 ATTCT
1 ATTCT
215678924 CATTTTGGTT
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.08
6 66 0.84
7 5 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:215678944 original size:30 final size:30
Alignment explanation
Indices: 215678822--215678923 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
215678812 TTGCATTCAC
*
215678822 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
215678853 ATTTTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
215678883 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
215678913 ATTCTGATTCT
1 ATTCTGATTCT
215678924 CATTTTGGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
29 1 0.02
30 43 0.66
31 21 0.32
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:215702035 original size:30 final size:30
Alignment explanation
Indices: 215701999--215702099 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
215701989 GACAAGATTG
* * *
215701999 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
215702029 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
215702057 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
215702086 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
215702100 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:215702111 original size:29 final size:28
Alignment explanation
Indices: 215702028--215702103 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
215702018 AAAATTGTAC
* *
215702028 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
215702056 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
215702085 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
215702104 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:215714512 original size:31 final size:31
Alignment explanation
Indices: 215714474--215714537 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
215714464 CCTTTTCATA
215714474 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
215714505 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
215714536 TT
1 TT
215714538 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:215714828 original size:70 final size:70
Alignment explanation
Indices: 215714728--215714892 Score: 253
Period size: 70 Copynumber: 2.3 Consensus size: 70
215714718 TGCTTTATCA
*
215714728 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
215714791 AGCCCTT
64 AGCCCTT
* * *
215714798 TAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 T-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
215714863 GCCCTT
65 GCCCTT
215714869 TATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
215714893 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
70 51 0.58
71 37 0.42
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAG
CCCTT
Found at i:215714832 original size:24 final size:24
Alignment explanation
Indices: 215714729--215714892 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
215714719 GCTTTATCAT
*
215714729 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
215714754 ATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
215714777 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
215714800 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
215714824 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
215714848 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
215714870 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
215714893 TCACTTCCTC
Statistics
Matches: 132, Mismatches: 4, Indels: 8
0.92 0.03 0.06
Matches are distributed among these distances:
22 19 0.14
23 51 0.39
24 50 0.38
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:215714970 original size:11 final size:11
Alignment explanation
Indices: 215714939--215714993 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
215714929 ATTTATGAAC
215714939 ATCATGTGCAT
1 ATCATGTGCAT
*
215714950 ATCA--TACAT
1 ATCATGTGCAT
215714959 ATCATGTGCAT
1 ATCATGTGCAT
*
215714970 ATCA--TACAT
1 ATCATGTGCAT
215714979 -TCATGTGCAT
1 ATCATGTGCAT
215714989 ATCAT
1 ATCAT
215714994 ACATACCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 3 0.09
9 12 0.34
10 4 0.11
11 16 0.46
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:215714984 original size:19 final size:20
Alignment explanation
Indices: 215714939--215714998 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
215714929 ATTTATGAAC
215714939 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
215714959 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
215714979 -TCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
215714998 A
1 A
215714999 CCATTTTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.49
20 20 0.51
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:215722588 original size:38 final size:35
Alignment explanation
Indices: 215722529--215722646 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
215722519 TCAATCATGC
*
215722529 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
215722568 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
215722599 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
215722630 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
215722647 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:215722590 original size:31 final size:31
Alignment explanation
Indices: 215722552--215722646 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
215722542 CCTTTTCATA
*
215722552 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
215722583 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
215722614 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
215722645 TT
1 TT
215722647 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:215722940 original size:24 final size:24
Alignment explanation
Indices: 215722838--215723025 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
215722828 GCTTTATCAT
*
215722838 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
215722863 ATAACTGGGGCAAAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
215722885 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
215722908 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
215722932 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
215722956 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
215722980 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
215723003 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
215723026 TCACTTCCTC
Statistics
Matches: 154, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.14
23 44 0.29
24 77 0.50
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:215723098 original size:20 final size:20
Alignment explanation
Indices: 215723073--215723139 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
215723063 ATTTATGAAC
215723073 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
215723093 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
215723113 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
215723133 ACCATGT
1 ATCATGT
215723140 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:215723104 original size:11 final size:11
Alignment explanation
Indices: 215723073--215723128 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
215723063 ATTTATGAAC
215723073 ATCATGTGCAT
1 ATCATGTGCAT
*
215723084 ATCA--TACAT
1 ATCATGTGCAT
215723093 ATCATGTGCAT
1 ATCATGTGCAT
*
215723104 ATCA--TACAT
1 ATCATGTGCAT
*
215723113 GTCATGTGCAT
1 ATCATGTGCAT
215723124 ATCAT
1 ATCAT
215723129 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:215725284 original size:14 final size:14
Alignment explanation
Indices: 215725250--215725299 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
215725240 AGGACTTAAG
*
215725250 GATTAATGCAGAAAA
1 GATTAAT-CACAAAA
215725265 GATTAATCACAAAA
1 GATTAATCACAAAA
*
215725279 GGTTAATCACAAAA
1 GATTAATCACAAAA
215725293 GATTAAT
1 GATTAAT
215725300 GTAATTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 25 0.78
15 7 0.22
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (14 bp):
GATTAATCACAAAA
Found at i:215726642 original size:12 final size:13
Alignment explanation
Indices: 215726618--215726646 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
215726608 GGGCTATAAC
215726618 TATTGCATTTATT
1 TATTGCATTTATT
215726631 TATTGC-TTTATT
1 TATTGCATTTATT
215726643 TATT
1 TATT
215726647 CATGTACGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:215734214 original size:40 final size:40
Alignment explanation
Indices: 215734127--215734276 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
215734117 AATTGAATGA
* * * **
215734127 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
215734167 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
215734208 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
215734247 TAT-CGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
215734277 AAATCGTGAT
Statistics
Matches: 89, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 28 0.31
40 60 0.67
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:215738206 original size:40 final size:40
Alignment explanation
Indices: 215738161--215738289 Score: 156
Period size: 39 Copynumber: 3.3 Consensus size: 40
215738151 CGGAATATAA
215738161 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
215738201 CCGGATAGAATAACTCGCACGAATGCCTTC-GGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
215738240 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
215738279 CCGGATATAAT
1 CCGGATATAAT
215738290 TTCCAGCATA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 16 0.22
39 31 0.42
40 26 0.36
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:215739168 original size:17 final size:19
Alignment explanation
Indices: 215739145--215739190 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
215739135 AAGAAGCATG
215739145 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
215739163 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
215739181 AATCATGCTC
1 AATCATGCTC
215739191 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:215741501 original size:29 final size:29
Alignment explanation
Indices: 215741468--215741628 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 29
215741458 GCGACGAGAT
*
215741468 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
215741497 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
215741526 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
215741555 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
215741584 CGGCACTGGGTGTGCGAGCTTGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
215741613 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
215741629 GGCTTAAATT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:215744266 original size:18 final size:18
Alignment explanation
Indices: 215744224--215744271 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
215744214 CTTGGCCCAT
215744224 TGCAGTAACAGTAAATAA
1 TGCAGTAACAGTAAATAA
* * * *
215744242 AGTAGTAACAGTAATTAG
1 TGCAGTAACAGTAAATAA
215744260 TGCAGTAACAGT
1 TGCAGTAACAGT
215744272 TTAAACAGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAA
Found at i:215744695 original size:27 final size:27
Alignment explanation
Indices: 215744662--215744834 Score: 177
Period size: 27 Copynumber: 6.4 Consensus size: 27
215744652 AAGGGCATTT
* *
215744662 TAGTCATTTAACCACATAAGAGCAAAA
1 TAGTCATTTTACCACATAAGGGCAAAA
* * * *
215744689 GAATCATTTTACCTCATAAGGGAAAAA
1 TAGTCATTTTACCACATAAGGGCAAAA
* * *
215744716 TTA-TCATTTTACCGCATAGGGGAAAAA
1 -TAGTCATTTTACCACATAAGGGCAAAA
*
215744743 TTGTCATTTTACCACATAAGGGCAAAA
1 TAGTCATTTTACCACATAAGGGCAAAA
* * *
215744770 CAGTCATTTCACCTCATAAGGGCAAAA
1 TAGTCATTTTACCACATAAGGGCAAAA
** *
215744797 TAGTCATTTTACTTCATAAGGGAAAAA
1 TAGTCATTTTACCACATAAGGGCAAAA
*
215744824 TACTCATTTTA
1 TAGTCATTTTA
215744835 TCGATTCAGG
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 120 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (27 bp):
TAGTCATTTTACCACATAAGGGCAAAA
Found at i:215744757 original size:81 final size:81
Alignment explanation
Indices: 215744662--215744834 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 81
215744652 AAGGGCATTT
* * *
215744662 TAGTCATTTAACCACATAAGAGCAAAAGAATCATTTTACCTCATAAGGGAAAAATTA-TCATTTT
1 TAGTCATTTTACCACATAAGAGCAAAACAATCATTTCACCTCATAAGGGAAAAA-TAGTCATTTT
*
215744726 ACCGCATAGGGGAAAAA
65 ACCGCATAAGGGAAAAA
* * * *
215744743 TTGTCATTTTACCACATAAGGGCAAAACAGTCATTTCACCTCATAAGGGCAAAATAGTCATTTTA
1 TAGTCATTTTACCACATAAGAGCAAAACAATCATTTCACCTCATAAGGGAAAAATAGTCATTTTA
**
215744808 CTTCATAAGGGAAAAA
66 CCGCATAAGGGAAAAA
*
215744824 TACTCATTTTA
1 TAGTCATTTTA
215744835 TCGATTCAGG
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.03
81 77 0.97
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (81 bp):
TAGTCATTTTACCACATAAGAGCAAAACAATCATTTCACCTCATAAGGGAAAAATAGTCATTTTA
CCGCATAAGGGAAAAA
Found at i:215746907 original size:27 final size:27
Alignment explanation
Indices: 215746884--215747069 Score: 230
Period size: 27 Copynumber: 6.9 Consensus size: 27
215746874 CTTGATTTGT
*
215746884 AAAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCGTTTTACCCTCGATTTAC
* * *
215746911 AGAATTACCGTTTCACCCTCAATTTAC
1 AAAATTACCGTTTTACCCTCGATTTAC
* *
215746938 AAAATTACCGTTTTACCCTCAATTTAT
1 AAAATTACCGTTTTACCCTCGATTTAC
* * * *
215746965 AGAATTACCATTTTACCCTTGATTTAT
1 AAAATTACCGTTTTACCCTCGATTTAC
* *
215746992 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACCGTTTTACCCTCGATTTAC
* *
215747019 AAAATTACCATTTTACCCAC-AGTTTAC
1 AAAATTACCGTTTTACCCTCGA-TTTAC
215747046 AAAATTACCGTTTTACCCTCGATT
1 AAAATTACCGTTTTACCCTCGATT
215747070 GTGAAATTAC
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 134 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.38
Consensus pattern (27 bp):
AAAATTACCGTTTTACCCTCGATTTAC
Found at i:215746942 original size:54 final size:54
Alignment explanation
Indices: 215746884--215747069 Score: 255
Period size: 54 Copynumber: 3.4 Consensus size: 54
215746874 CTTGATTTGT
* * *
215746884 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTAC
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
* * ** *
215746938 AAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTTGATTTAT
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
* * * * *
215746992 AGAATTATCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCACAGTTTAC
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
215747046 AAAATTACCGTTTTACCCTCGATT
1 AAAATTACCGTTTTACCCTCGATT
215747070 GTGAAATTAC
Statistics
Matches: 112, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.38
Consensus pattern (54 bp):
AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
Found at i:215746989 original size:81 final size:81
Alignment explanation
Indices: 215746884--215747069 Score: 273
Period size: 81 Copynumber: 2.3 Consensus size: 81
215746874 CTTGATTTGT
*
215746884 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTACAAAATTACCGT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTACAAAATTACCAT
* *
215746949 TTTACCCTCAATTTAT
66 TTTACCCACAATTTAC
* * * * * *
215746965 AGAATTACCATTTTACCCTTGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACCAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTACAAAATTACCAT
*
215747030 TTTACCCACAGTTTAC
66 TTTACCCACAATTTAC
*
215747046 AAAATTACCGTTTTACCCTCGATT
1 AAAATTACCATTTTACCCTCGATT
215747070 GTGAAATTAC
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.38
Consensus pattern (81 bp):
AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTACAAAATTACCAT
TTTACCCACAATTTAC
Found at i:215747131 original size:27 final size:27
Alignment explanation
Indices: 215747101--215747238 Score: 179
Period size: 27 Copynumber: 5.1 Consensus size: 27
215747091 TGTAGGATAG
*
215747101 AATTACCAAAATACCCCTAGTTTGCAA
1 AATTACCAAAATACCCCTAGTTTGTAA
215747128 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
215747155 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
215747182 AATTATCGAAATACCACTATTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** *
215747209 AATTACCGGAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
215747236 AAT
1 AAT
215747239 ACCCTTGACT
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 3 0.03
27 96 0.97
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:215747145 original size:54 final size:54
Alignment explanation
Indices: 215747073--215747196 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
215747063 CTCGATTGTG
* * *
215747073 AAATTACTGAAATGCCCCT-GTAGGATAGAATTACCAAAATACCCCTAGTTTGCA
1 AAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCCCTAGTTTGCA
* ** *
215747127 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCCCTAGTTTGCA
*
215747181 AAATTATCGAAATACC
1 AAATTACCGAAATACC
215747197 ACTATTTTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 57 0.95
55 3 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.27
Consensus pattern (54 bp):
AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCCCTAGTTTGCA
Found at i:215747293 original size:27 final size:27
Alignment explanation
Indices: 215747254--215747305 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
215747244 TGACTTTCTA
215747254 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
215747281 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
215747306 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:215747434 original size:27 final size:28
Alignment explanation
Indices: 215747359--215747435 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
215747349 ACCCCTAATA
* *
215747359 GGTAAAAAGACTGTAA-AGCCCTTGTAG
1 GGTAAAATGACCGTAATAGCCCTTGTAG
* *
215747386 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAATAGCCCTTGTAG
215747413 GGTAAAATGA-CG-AATATGCCCTT
1 GGTAAAATGACCGTAATA-GCCCTT
215747436 ATGTTCTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 4 0.10
26 2 0.05
27 35 0.83
28 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (28 bp):
GGTAAAATGACCGTAATAGCCCTTGTAG
Found at i:215748191 original size:16 final size:16
Alignment explanation
Indices: 215748170--215748200 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
215748160 CAAATATGGG
*
215748170 CATGACATTTTGCATA
1 CATGACATATTGCATA
215748186 CATGACATATTGCAT
1 CATGACATATTGCAT
215748201 GGGATATGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATATTGCATA
Found at i:215748315 original size:24 final size:24
Alignment explanation
Indices: 215748233--215748315 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
215748223 AGGAAGTGCT
* * *
215748233 AAAAGCGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
215748257 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
215748282 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
215748306 AAAAGAGGCT
1 AAAAG-GGCT
215748316 AGGCCTTCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:215748515 original size:42 final size:42
Alignment explanation
Indices: 215748450--215748541 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
215748440 TAGTCTCCCC
* *
215748450 AAATTGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
215748492 AAATGGGCTTGTATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
215748534 AAATGGGC
1 AAATGGGC
215748542 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:215748600 original size:31 final size:31
Alignment explanation
Indices: 215748565--215748679 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
215748555 TGTTTACAGT
215748565 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
215748596 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
215748627 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
215748658 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
215748680 TCAAGACTAA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
30 5 0.06
31 77 0.94
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:215750751 original size:43 final size:43
Alignment explanation
Indices: 215750703--215750849 Score: 158
Period size: 43 Copynumber: 3.4 Consensus size: 43
215750693 GTTAGCAAGA
215750703 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCAGT-GTAT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCA-TCGTAT
** *
215750746 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* ** * *
215750790 T-CGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
215750831 ATGTGA-TAACATGTAAGAC
1 -TGTGATTAA-ATGTAAGAC
215750850 AACATCTGGG
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 80 0.92
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:215752227 original size:20 final size:20
Alignment explanation
Indices: 215752202--215752239 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
215752192 GTTTATTCGC
*
215752202 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
215752222 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
215752240 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:215753901 original size:28 final size:28
Alignment explanation
Indices: 215753869--215753937 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
215753859 GCGTAGATCA
*
215753869 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
215753897 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
215753925 CGATA-TACCCCTA
1 CGAAATTACCCCTA
215753938 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:215756912 original size:40 final size:40
Alignment explanation
Indices: 215756867--215756996 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
215756857 CGGAATACAA
215756867 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
215756907 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
215756947 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*
215756987 CCGGAAATAA
1 CCGGATATAA
215756997 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:215763393 original size:20 final size:20
Alignment explanation
Indices: 215763370--215763407 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
215763360 TTTATTCCGC
*
215763370 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
215763390 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
215763408 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:215770482 original size:40 final size:40
Alignment explanation
Indices: 215770427--215770636 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
215770417 AACATTGGAA
215770427 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
215770467 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
215770507 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
215770547 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
215770586 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
215770627 CTATATCCGG
1 ATATATCCGG
215770637 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:215772412 original size:40 final size:40
Alignment explanation
Indices: 215772333--215772575 Score: 314
Period size: 40 Copynumber: 6.1 Consensus size: 40
215772323 CGGGATTTAA
* * *
215772333 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTTGGGACTTAGC
*
215772372 CCGGATATAGTAACTCGCACCAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGC
* *
215772412 CCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGC
* * *
215772452 CCGGATGTAATAACTCACACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGC
*
215772492 CCGGATATAGTAGCTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGC
* * *
215772532 CCGGA-ACTAGTCAC-CAGCGCAAATGCCTTTAGGACTTAGC
1 CCGGATA-TAGTAACTC-GCACAAATGCCTTTGGGACTTAGC
215772572 CCGG
1 CCGG
215772576 TTATCATCCG
Statistics
Matches: 181, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 19 0.10
40 161 0.89
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGC
Found at i:215775304 original size:29 final size:28
Alignment explanation
Indices: 215775272--215775350 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
215775262 ATACCCTCCG
* *
215775272 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCC-AATATTTCC
* **
215775301 AGCTTGCACACTTAGTGCCAATATTTCC
1 AGCTCGCACACCCAGTGCCAATATTTCC
* **
215775329 AGCACGCACACTTAGTGCCAAT
1 AGCTCGCACACCCAGTGCCAAT
215775351 CTCGTCACCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 27 0.63
29 16 0.37
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (28 bp):
AGCTCGCACACCCAGTGCCAATATTTCC
Found at i:215775337 original size:28 final size:28
Alignment explanation
Indices: 215775296--215775350 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
215775286 GTGCCGTATT
**
215775296 TTTCCAGCTTGCACACTTAGTGCCAATA
1 TTTCCAGCACGCACACTTAGTGCCAATA
215775324 TTTCCAGCACGCACACTTAGTGCCAAT
1 TTTCCAGCACGCACACTTAGTGCCAAT
215775351 CTCGTCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
TTTCCAGCACGCACACTTAGTGCCAATA
Found at i:215783333 original size:29 final size:28
Alignment explanation
Indices: 215783301--215783379 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
215783291 ATACCCTCCG
* *
215783301 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCC-AATATTTCC
* **
215783330 AGCTTGCACACTTAGTGCCAATATTTCC
1 AGCTCGCACACCCAGTGCCAATATTTCC
* **
215783358 AGCACGCACACTTAGTGCCAAT
1 AGCTCGCACACCCAGTGCCAAT
215783380 CTCGTCACCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 27 0.63
29 16 0.37
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (28 bp):
AGCTCGCACACCCAGTGCCAATATTTCC
Found at i:215783366 original size:28 final size:28
Alignment explanation
Indices: 215783325--215783379 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
215783315 GTGCCGTATT
**
215783325 TTTCCAGCTTGCACACTTAGTGCCAATA
1 TTTCCAGCACGCACACTTAGTGCCAATA
215783353 TTTCCAGCACGCACACTTAGTGCCAAT
1 TTTCCAGCACGCACACTTAGTGCCAAT
215783380 CTCGTCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
TTTCCAGCACGCACACTTAGTGCCAATA
Found at i:215785153 original size:48 final size:50
Alignment explanation
Indices: 215785099--215785218 Score: 127
Period size: 57 Copynumber: 2.3 Consensus size: 50
215785089 CACAAAAGCT
* *
215785099 CTTTT-TCCTTCTTTTTCTTTCTTCTATTTGGCCAAGAACAACATGAGAG
1 CTTTTCTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAG
*
215785148 CTTTTCTCTTTTTTTTTTCTTTTTCTTTCTTCTATTCGGCCAAGAATAACATGAGAG
1 CTTTTCTC-------TTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAG
*
215785205 CTTTT-TTTTTCTTT
1 CTTTTCTCTTTCTTT
215785219 CTTTTCCTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
49 12 0.20
50 2 0.03
56 1 0.02
57 44 0.75
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (50 bp):
CTTTTCTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAG
Found at i:215786211 original size:28 final size:28
Alignment explanation
Indices: 215786171--215786290 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
215786161 TGGGAAGTAG
215786171 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
215786199 TTGGGCCTGATGGACCATATGAAGGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
215786227 GTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * *
215786255 TTGGGCTTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
215786283 TTGGGCCT
1 TTGGGCCT
215786291 AAAGGGGCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.20, C:0.15, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:215786646 original size:27 final size:27
Alignment explanation
Indices: 215786616--215787046 Score: 379
Period size: 27 Copynumber: 16.1 Consensus size: 27
215786606 AAATTACTGG
*
215786616 AATACCCTAGATTTGTAAAATTATCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
215786643 AATACCC-CTAATTTGGAAAATTATCGA
1 AATACCCTC-GATTTGTAAAATTATCGA
* *
215786670 AATACCCTCGA-TTGTGAAGTTA-CTGA
1 AATACCCTCGATTTGTAAAATTATC-GA
*
215786696 AATACCCTCGATTTG-ACAAATTATTGA
1 AATACCCTCGATTTGTA-AAATTATCGA
* *
215786723 AATACCCTCGATTTGAAAAATTA-CTAA
1 AATACCCTCGATTTGTAAAATTATC-GA
*
215786750 AATACCCTCGA-TTGTGAAATTA-CTGA
1 AATACCCTCGATTTGTAAAATTATC-GA
* * *
215786776 AATACCCTCAATTTGTGAAATTA-CAAA
1 AATACCCTCGATTTGTAAAATTATC-GA
* * *
215786803 AATACCC-CGATTTATGAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* * *
215786829 AACACCCTCAATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
215786856 AATA-CCTTGATTTGTAAAATTATTGA
1 AATACCCTCGATTTGTAAAATTATCGA
**
215786882 AATACCCTTAATTATG--AAATTA-CTGA
1 AATACCCTCGATT-TGTAAAATTATC-GA
* *
215786908 AATACCCTCGATTTATAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
215786935 AATATCTTCGATTTGTAAAATTATCGA
1 AATACCCTCGATTTGTAAAATTATCGA
*
215786962 AATACCC-CTGATTTGTAAAATTACCGA
1 AATACCCTC-GATTTGTAAAATTATCGA
* *
215786989 AATACCCTCGATTTCTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* * *
215787016 AACACACC-CAATTTGTAAAATTATCAA
1 AATAC-CCTCGATTTGTAAAATTATCGA
215787043 AATA
1 AATA
215787047 ACCTTTGTAG
Statistics
Matches: 335, Mismatches: 49, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.01
26 105 0.31
27 220 0.66
28 8 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATACCCTCGATTTGTAAAATTATCGA
Found at i:215786710 original size:53 final size:53
Alignment explanation
Indices: 215786606--215787001 Score: 310
Period size: 53 Copynumber: 7.4 Consensus size: 53
215786596 TAATAAAGAG
* * * * *
215786606 AAATTACTGGAATACCCTAGATTTGTAAAATTA-TCGAAATACCC-CTAATTTGGA
1 AAATTACCGAAATACCCTCGA-TTGTGAAATTACT-GAAATACCCTC-GATTTGGA
* *
215786660 AAATTATCGAAATACCCTCGATTGTGAAGTTACTGAAATACCCTCGATTT-GA
1 AAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCTCGATTTGGA
** *
215786712 CAAATTATTGAAATACCCTCGATT-TGAAAAATTACTAAAATACCCTCGA-TTGTG-
1 -AAATTACCGAAATACCCTCGATTGTG--AAATTACTGAAATACCCTCGATTTG-GA
* * ** *
215786766 AAATTACTGAAATACCCTCAATTTGTGAAATTACAAAAATACCC-CGATTTATG-
1 AAATTACCGAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTCGATTT-GGA
* * * * * *
215786819 AAATTACCGAAACACCCTCAATTTGTAAAATTACCGAAATA-CCTTGATTTGTA
1 AAATTACCGAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTCGATTTGGA
** ** * **
215786872 AAATTATTGAAATACCCTTAATTATGAAATTACTGAAATACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCTCGATTTGGA
* * * *
215786925 AAATTACCGAAATATCTTCGATTTGTAAAATTA-TCGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTCGA-TTGTGAAATTACT-GAAATACCCTC-GATTTGGA
215786979 AAATTACCGAAATACCCTCGATT
1 AAATTACCGAAATACCCTCGATT
215787002 TCTAAAATTA
Statistics
Matches: 283, Mismatches: 42, Indels: 35
0.79 0.12 0.10
Matches are distributed among these distances:
52 25 0.09
53 171 0.60
54 84 0.30
55 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (53 bp):
AAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCTCGATTTGGA
Found at i:215786743 original size:80 final size:78
Alignment explanation
Indices: 215786606--215787046 Score: 410
Period size: 80 Copynumber: 5.5 Consensus size: 78
215786596 TAATAAAGAG
* * * *
215786606 AAATTACTGGAATACCCTAGATTTGTAAAATTATCGAAATACCCCTAATTTGGAAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCC-GATTTGAAAAATTA-CGAA
*
215786671 ATACCCTCGATTGTG
64 ATACCCTCGATTGTA
* * *
215786686 AAGTTACTGAAATACCCTCGATTTG-ACAAATTATTGAAATACCCTCGATTTGAAAAATTACTAA
1 AAATTACTGAAATACCCTCGATTTGTA-AAATTATCGAAATACCC-CGATTTGAAAAATTAC-GA
*
215786750 AATACCCTCGATTGTG
63 AATACCCTCGATTGTA
* * * *
215786766 AAATTACTGAAATACCCTCAATTTGTGAAATTA-CAAAAATACCCCGATTT-ATGAAATTACCGA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCCGATTTGA-AAAATTA-CGA
* *
215786829 AACACCCTCAATTTGTA
63 AATACCCTCGA-TTGTA
* * * **
215786846 AAATTACCGAAATA-CCTTGATTTGTAAAATTATTGAAATACCCTTAATTATG--AAATTACTGA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCC-CGATT-TGAAAAATTAC-GA
*
215786908 AATACCCTCGATTTATA
63 AATACCCTCGA-TTGTA
* * * *
215786925 AAATTACCGAAATATCTTCGATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCC-GATTTGAAAAATTA-CGAA
*
215786990 ATACCCTCGATTTCTA
64 ATACCCTCGA-TTGTA
* * * *
215787006 AAATTACCGAAACACACC-CAATTTGTAAAATTATCAAAATA
1 AAATTACTGAAATAC-CCTCGATTTGTAAAATTATCGAAATA
215787047 ACCTTTGTAG
Statistics
Matches: 303, Mismatches: 39, Indels: 37
0.80 0.10 0.10
Matches are distributed among these distances:
78 2 0.01
79 85 0.28
80 154 0.51
81 60 0.20
82 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (78 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCGATTTGAAAAATTACGAAAT
ACCCTCGATTGTA
Found at i:215786843 original size:106 final size:107
Alignment explanation
Indices: 215786606--215786997 Score: 424
Period size: 106 Copynumber: 3.7 Consensus size: 107
215786596 TAATAAAGAG
* * * * *
215786606 AAATTACTGGAATACCCTAGATTTGTAAAATTA-TCGAAATACCC-CTAATTTGGAAAATTA-TC
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTC-GATTTGTAAAATTACT-
* * *
215786668 GAAATACCCTCGATTGTGAAGTTACTGAAATACCCTCGATTTGA-C
63 GAAATACCCTCAATTGTGAAATTACTGAAATACCCTCGATTT-ATA
** * * *
215786713 AAATTATTGAAATACCCTCGATTTGAAAAATTACTAAAATACCCTCGA-TTGTGAAATTACTGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAA
** *
215786777 ATACCCTCAATTTGTGAAATTACAAAAATACCC-CGATTTATG
66 ATACCCTCAA-TTGTGAAATTACTGAAATACCCTCGATTTATA
* * * * *
215786819 AAATTACCGAAACACCCTCAATTTGTAAAATTACCGAAATA-CCTTGATTTGTAAAATTATTGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAA
* *
215786883 ATACCCTTAATTATGAAATTACTGAAATACCCTCGATTTATA
66 ATACCCTCAATTGTGAAATTACTGAAATACCCTCGATTTATA
* * *
215786925 AAATTACCGAAATATCTTCGATTTGTAAAATTA-TCGAAATACCC-CTGATTTGTAAAATTACCG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTC-GATTTGTAAAATTACTG
215786988 AAATACCCTC
64 AAATACCCTC
215786998 GATTTCTAAA
Statistics
Matches: 238, Mismatches: 37, Indels: 20
0.81 0.13 0.07
Matches are distributed among these distances:
105 25 0.11
106 127 0.53
107 84 0.35
108 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (107 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAA
ATACCCTCAATTGTGAAATTACTGAAATACCCTCGATTTATA
Found at i:215787064 original size:28 final size:27
Alignment explanation
Indices: 215787029--215787117 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
215787019 ACACCCAATT
*
215787029 TGTAAAATTA-TCAAAATAACCTTTGTAG
1 TGTAAAATTACT-AAAAT-ACCCTTGTAG
* *
215787057 TGTAAAATTACTAGAATACCCTTGTAT
1 TGTAAAATTACTAAAATACCCTTGTAG
* ** *
215787084 TGTAAAATGACCGACATA-CCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
*
215787110 GGTAAAAT
1 TGTAAAAT
215787118 GATTGTTTTG
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 14 0.28
27 21 0.42
28 14 0.28
29 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTTGTAG
Found at i:215787089 original size:27 final size:28
Alignment explanation
Indices: 215787028--215787091 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
215787018 CACACCCAAT
*
215787028 TTGTAAAATTATCAAAATAACCTTTGTA
1 TTGTAAAATTATCAAAATAACCCTTGTA
* *
215787056 GTGTAAAATTA-CTAGAAT-ACCCTTGTA
1 TTGTAAAATTATC-AAAATAACCCTTGTA
215787083 TTGTAAAAT
1 TTGTAAAAT
215787092 GACCGACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (28 bp):
TTGTAAAATTATCAAAATAACCCTTGTA
Found at i:215794211 original size:40 final size:39
Alignment explanation
Indices: 215794046--215794229 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
215794036 AAATTGAATG
* * *
215794046 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
215794086 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
215794126 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
215794166 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
215794205 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
215794230 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:215794254 original size:80 final size:81
Alignment explanation
Indices: 215794086--215794274 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
215794076 GCTGGAAATT
* * * *
215794086 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
215794151 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
215794167 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
215794230 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
215794246 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
215794275 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:215801956 original size:40 final size:40
Alignment explanation
Indices: 215801870--215802019 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
215801860 AATTGAATGA
* * **
215801870 TATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
215801909 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
215801950 -ATCCGGGCTAAGACCCGAAGG-AATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
215801989 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
215802020 AAATCGTGAT
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
38 1 0.01
39 17 0.19
40 69 0.77
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:215802033 original size:40 final size:39
Alignment explanation
Indices: 215801869--215802051 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
215801859 AAATTGAATG
* *
215801869 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
215801908 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * * *
215801948 ACATCCGGGCTAAGACCCGAAGGAATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
215801988 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
215802027 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
215802052 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 27, Indels: 11
0.74 0.18 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.14
40 90 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:215808554 original size:40 final size:40
Alignment explanation
Indices: 215808510--215808727 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
215808500 CACTCGAATA
*
215808510 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
215808550 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
215808590 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
* *
215808630 CCTTTGGGACTTAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
* * ** *
215808670 CCTTCGGG-CTTAGCTCGGAATTAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
215808709 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
215808728 TTATCAATCC
Statistics
Matches: 164, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 129 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:215808594 original size:80 final size:80
Alignment explanation
Indices: 215808471--215808727 Score: 326
Period size: 80 Copynumber: 3.2 Consensus size: 80
215808461 AAGCCAAGTA
* * * * * * *
215808471 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATACCTTCGGGACATAGCCCGGATA-T
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACT
215808533 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
215808550 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
215808614 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * *
215808630 CCTTTGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGG-CTTAGCTCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
** *
215808694 CCACTAGCACAAATG
66 TAACTCGCACAAATG
215808709 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
215808728 TTATCAATCC
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
79 59 0.37
80 98 0.62
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTCGCACAAATG
Found at i:215809940 original size:54 final size:53
Alignment explanation
Indices: 215809864--215809990 Score: 218
Period size: 54 Copynumber: 2.4 Consensus size: 53
215809854 CTCAAAGCTC
*
215809864 TTTTTCCTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAGAGCTTTTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAGAGC-TTTT
*
215809918 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAGAGCTTTT
215809971 TTTTTCTTTCTTTTTTCTTT
1 TTTTTCTTTC-TTTTTCTTT
215809991 TTCATCATCA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
53 14 0.20
54 56 0.80
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (53 bp):
TTTTTCTTTCTTTTTCTTTCTTCTATTCGACCAAGAACAACATGAGAGCTTTT
Found at i:215820392 original size:20 final size:20
Alignment explanation
Indices: 215820367--215820409 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
215820357 ATCAGTATTC
215820367 TTATCCTGAATTTTAGGATT
1 TTATCCTGAATTTTAGGATT
*
215820387 TTATCCTGAATTTTAGTATT
1 TTATCCTGAATTTTAGGATT
215820407 TTA
1 TTA
215820410 ATTTGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (20 bp):
TTATCCTGAATTTTAGGATT
Found at i:215820901 original size:26 final size:25
Alignment explanation
Indices: 215820853--215820914 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
215820843 AGAAAACAGA
215820853 GTGGACAAAACAAAAACCACAAATAAT
1 GTGGACAAAACAAAAACCAC-AA-AAT
* * *
215820880 GTGGACAAAA-TAAAACTACAAAGT
1 GTGGACAAAACAAAAACCACAAAAT
215820904 GTGGACAAAAC
1 GTGGACAAAAC
215820915 TGCGATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 12 0.39
25 2 0.06
26 7 0.23
27 10 0.32
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (25 bp):
GTGGACAAAACAAAAACCACAAAAT
Found at i:215824697 original size:16 final size:17
Alignment explanation
Indices: 215824664--215824697 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
215824654 AACAAATCTG
*
215824664 ATAATTTTAAATACAAT
1 ATAATTATAAATACAAT
215824681 ATAATTATAAA-ACAAT
1 ATAATTATAAATACAAT
215824697 A
1 A
215824698 AAAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATTATAAATACAAT
Found at i:215830892 original size:27 final size:28
Alignment explanation
Indices: 215830862--215830931 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
215830852 ATAATAAGTC
*
215830862 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
215830889 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
215830917 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
215830932 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:215838874 original size:29 final size:29
Alignment explanation
Indices: 215838842--215838919 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
215838832 ATACCCTCCG
** *
215838842 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
215838871 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
215838900 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
215838920 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:215853730 original size:28 final size:28
Alignment explanation
Indices: 215853661--215853761 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
215853651 GACAAGATTG
* * * *
215853661 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
215853691 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
215853719 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
215853748 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
215853762 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:215855508 original size:27 final size:26
Alignment explanation
Indices: 215855470--215855551 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 26
215855460 AAGCGTCCTA
*
215855470 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
215855497 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
215855525 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
215855551 G
1 G
215855552 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 28 0.57
28 16 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:215867254 original size:40 final size:40
Alignment explanation
Indices: 215867082--215867247 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
215867072 AACCCAAGTA
* * * * *
215867082 CCTTCGGAATTTAG-CCTGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
215867121 CCTTCGGGACTTAGCCCAGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
215867161 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
215867201 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
215867241 CCTTCGG
1 CCTTCGG
215867248 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.10
40 103 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:215875953 original size:39 final size:38
Alignment explanation
Indices: 215875851--215875959 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 38
215875841 CTGGAAATTA
* * *
215875851 TATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGT-G-TAC
215875891 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-TATC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGTA-C
215875929 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
215875960 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 2 0.03
38 1 0.02
39 50 0.81
40 9 0.15
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGTAC
Found at i:215878899 original size:39 final size:40
Alignment explanation
Indices: 215878764--215878947 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
215878754 TCGAATGATG
* * *
215878764 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
215878804 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
215878844 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
215878882 TCCGAGTTAAGTACCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
215878923 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
215878948 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 25 0.20
39 18 0.15
40 71 0.57
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:215878899 original size:78 final size:80
Alignment explanation
Indices: 215878764--215878945 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 80
215878754 TCGAATGATG
* *
215878764 TCCGGGCTAAGTCCCAAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
215878829 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * *
215878843 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCC-GAGTTAAG-TACCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGA-CTAAGAT-CCGAAGGCA
215878904 TTTGTGCGAGTTACTATA
63 TTTGTGCGAGTTACTATA
* *
215878922 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
215878946 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
77 3 0.03
78 50 0.55
79 27 0.30
80 11 0.12
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:215884313 original size:43 final size:43
Alignment explanation
Indices: 215884204--215884316 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 43
215884194 ATATCATACA
* *
215884204 ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCAATCACATATCG
** *
215884247 ATGCCATTGTCCTAGACAG-GGTCTTACACGCAATCACATATCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGCAATCACATATCG
*
215884290 ATGCCAACATCCCAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
215884317 TCAAGAACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGCAATCACATATCG
Found at i:215884328 original size:43 final size:43
Alignment explanation
Indices: 215884204--215884331 Score: 113
Period size: 43 Copynumber: 3.0 Consensus size: 43
215884194 ATATCATACA
* *
215884204 ATGCCAACGTCCCAGACATGGTCTTACATGC-A-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-T-CAAGAACACATATCG
** * *
215884247 ATGCCATTGTCCTAGACAG-GGTCTTA--CACGCAATCACATATCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACTCAAG-AA-CACATATCG
*
215884290 ATGCCAACATCCCAGACGTGGTCTTACTCAAGAACACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACTCAAGAACACATATC
215884332 AAAAATCCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
39 1 0.02
42 2 0.03
43 58 0.88
44 2 0.03
45 3 0.05
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCAAGAACACATATCG
Found at i:215886229 original size:40 final size:40
Alignment explanation
Indices: 215886102--215886231 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
215886092 ATGCTGGAAA
* * * *
215886102 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
215886142 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
* *
215886182 TTCTATCCAGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
215886222 TTATATCCGG
1 TTATATCCGG
215886232 TTATATTCCG
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:215888928 original size:55 final size:56
Alignment explanation
Indices: 215888837--215888942 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 56
215888827 TCCTCTCGAG
* * *
215888837 CATATGTTATAGATTGGATTTAGCCCGGACGGGTAATCTAGATTAAGCTCTTTAGAT
1 CATATGTCATAGA-TGGATTTAGCCCGGACGAGTAATCTAGACTAAGCTCTTTAGAT
* * *
215888894 CATATGTCATAGA-GGATTTAGCCTGGACTAGTAATCTTGACTAAGCTCT
1 CATATGTCATAGATGGATTTAGCCCGGACGAGTAATCTAGACTAAGCTCT
215888943 ATTCAGTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 31 0.72
57 12 0.28
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (56 bp):
CATATGTCATAGATGGATTTAGCCCGGACGAGTAATCTAGACTAAGCTCTTTAGAT
Found at i:215889051 original size:59 final size:60
Alignment explanation
Indices: 215888906--215889051 Score: 186
Period size: 59 Copynumber: 2.4 Consensus size: 60
215888896 TATGTCATAG
* * * *
215888906 AGGATTTAGCCTGGACTAGTAATCTTGACTAAGCTCTATTCAGTATATATATATTGGAGGC
1 AGGATTTAGCCTGGACTGGTAATCCTCACTAAGCTCTATTCAG-ATATATATATTGGAGAC
* * * *
215888967 AGGATTTAGCCTGGACTGGTTATCCTCACTAAGGTCTATTGAG-TATATATGTTGGAGAC
1 AGGATTTAGCCTGGACTGGTAATCCTCACTAAGCTCTATTCAGATATATATATTGGAGAC
* *
215889026 AGGATTTAGCTTGGATTGGTAATCCT
1 AGGATTTAGCCTGGACTGGTAATCCT
215889052 GTTGTATATA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 37 0.50
61 37 0.50
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (60 bp):
AGGATTTAGCCTGGACTGGTAATCCTCACTAAGCTCTATTCAGATATATATATTGGAGAC
Found at i:215890675 original size:24 final size:24
Alignment explanation
Indices: 215890648--215890702 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
215890638 TCACATGACA
215890648 ATTGATATATGAAAATATGAGATG
1 ATTGATATATGAAAATATGAGATG
** *
215890672 ATTGATATATGGCAATATGGGATG
1 ATTGATATATGAAAATATGAGATG
215890696 A-TGATAT
1 ATTGATAT
215890703 TTGTACATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.35
Consensus pattern (24 bp):
ATTGATATATGAAAATATGAGATG
Found at i:215898108 original size:29 final size:29
Alignment explanation
Indices: 215898075--215898148 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 29
215898065 CCTTCGAGCT
* *
215898075 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
* ** *
215898104 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
**
215898133 CGCACACTTAGTGCCA
1 CGCACACCCAGTGCCA
215898149 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACCCAGTGCCATATATTTCCAGCA
Found at i:215905225 original size:68 final size:70
Alignment explanation
Indices: 215905153--215905350 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
215905143 ACACCCTGTA
* * * *
215905153 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
215905215 ATAAAT
65 ATAAAT
*
215905221 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
215905286 ATAAAT
65 ATAAAT
*
215905292 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
215905351 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:215905264 original size:41 final size:41
Alignment explanation
Indices: 215905219--215905336 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
215905209 TGAAAGATAA
215905219 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
215905260 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
215905290 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
215905331 ATGTAG
1 ATGTAG
215905337 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:215905276 original size:71 final size:71
Alignment explanation
Indices: 215905187--215905350 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
215905177 GAGATGTATC
215905187 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
215905252 AGGACA
66 AGGACA
215905258 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
215905323 AGGACA
66 AGGACA
215905329 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
215905351 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:215912741 original size:68 final size:70
Alignment explanation
Indices: 215912669--215912866 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
215912659 ACACCCTGTA
* * * *
215912669 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
215912731 ATAAAT
65 ATAAAT
*
215912737 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
215912802 ATAAAT
65 ATAAAT
*
215912808 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
215912867 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:215912780 original size:41 final size:41
Alignment explanation
Indices: 215912735--215912852 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
215912725 TGAAAGATAA
215912735 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
215912776 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
215912806 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
215912847 ATGTAG
1 ATGTAG
215912853 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:215912792 original size:71 final size:71
Alignment explanation
Indices: 215912703--215912866 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
215912693 GAGATGTATC
215912703 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
215912768 AGGACA
66 AGGACA
215912774 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
215912839 AGGACA
66 AGGACA
215912845 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
215912867 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Done.