Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 46 of 138
Found at i:9936935 original size:36 final size:36
Alignment explanation
Indices: 9936883--9936969 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
9936873 GTTTTGTCAG
* * * * *
9936883 TTGTGCATTCACTCATTCATTCATTCATTTATTCAT
1 TTGTGTATTCATTCATTCATTCATCCATTCATCCAT
9936919 TTGTGTATTCATTCATTCATTCATCCATTCATCCAT
1 TTGTGTATTCATTCATTCATTCATCCATTCATCCAT
*
9936955 TTATGTATTCATTCA
1 TTGTGTATTCATTCA
9936970 ATATAATGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.23, C:0.22, G:0.06, T:0.49
Consensus pattern (36 bp):
TTGTGTATTCATTCATTCATTCATCCATTCATCCAT
Found at i:9940112 original size:14 final size:15
Alignment explanation
Indices: 9940093--9940125 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9940083 CCATTAAACC
9940093 CTTTC-AAAAAAATT
1 CTTTCAAAAAAAATT
9940107 CTTTCAAAAAAAATT
1 CTTTCAAAAAAAATT
9940122 CTTT
1 CTTT
9940126 TCCTCTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (15 bp):
CTTTCAAAAAAAATT
Found at i:9940758 original size:32 final size:33
Alignment explanation
Indices: 9940686--9940775 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 33
9940676 ATTGCCAAAT
* * ** *
9940686 TCAAAGAAAATTTAAGCCCGGTTTATCTGGCCA
1 TCAATGAAATTTTAAGCCTAGTTTATCTAGCCA
9940719 TCAATGAAATTTTAAGCCTAGTTTATCTAGCCA
1 TCAATGAAATTTTAAGCCTAGTTTATCTAGCCA
* *
9940752 T-TATGAAGTTTTAAGCCTAGTTTA
1 TCAATGAAATTTTAAGCCTAGTTTA
9940776 GATGGCATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 21 0.42
33 29 0.58
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (33 bp):
TCAATGAAATTTTAAGCCTAGTTTATCTAGCCA
Found at i:9940868 original size:32 final size:32
Alignment explanation
Indices: 9940798--9940869 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
9940788 ACTTAGATTA
* * * *
9940798 TCTGGCACCAATGAAGTTTAAGCCTAGTTTAG
1 TCTGGCACCAATAAAATTTAAGCCCAGTATAG
*
9940830 TTTGGCACCAATTAAAATTTAAGCCCAGTATAG
1 TCTGGCACCAA-TAAAATTTAAGCCCAGTATAG
9940863 -CTGGCAC
1 TCTGGCAC
9940870 GTAAACCCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 16 0.48
33 17 0.52
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (32 bp):
TCTGGCACCAATAAAATTTAAGCCCAGTATAG
Found at i:9940911 original size:22 final size:22
Alignment explanation
Indices: 9940849--9940950 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 22
9940839 AATTAAAATT
* **
9940849 TAAGCCCAG-TATAGCTGGCACG
1 TAAGCCCAGAT-TAACTGGCATA
*
9940871 TAAACCCAGATTAGA-TGGCATA
1 TAAGCCCAGATTA-ACTGGCATA
* *
9940893 TAAGCCCCG-TTCAACTGGCACAA
1 TAAGCCCAGATT-AACTGGCA-TA
*
9940916 TAAGCCCAGATTAGCTGGCATA
1 TAAGCCCAGATTAACTGGCATA
* *
9940938 TAAGTCTAGATTA
1 TAAGCCCAGATTA
9940951 GCTAAAAAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
21 3 0.05
22 40 0.65
23 17 0.27
24 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (22 bp):
TAAGCCCAGATTAACTGGCATA
Found at i:9941152 original size:33 final size:32
Alignment explanation
Indices: 9941115--9941492 Score: 277
Period size: 33 Copynumber: 11.7 Consensus size: 32
9941105 CTACGTAAAA
* * *
9941115 TTTAAGCCCAATTTATTTGGCCATTAATGAAGT
1 TTTAAGCCCAGTTTATCTGGCC-TTAATGAAAT
* * *
9941148 TTTAAGCCTAGTTTAAT-TGGCCTCCAAGGAAAT
1 TTTAAGCCCAGTTT-ATCTGGCCT-TAATGAAAT
* * *
9941181 TTTAAGCCCATTTTATTTGGCCTTCAAT----C
1 TTTAAGCCCAGTTTATCTGGCCTT-AATGAAAT
* * * *
9941210 TTTAAGCCCAGTTTATTTGGCTTTCAAAGAAAA
1 TTTAAGCCCAGTTTATCTGGCCTT-AATGAAAT
*
9941243 TTTAAGCCTAGTTTATCTGGCCATTAATGAAAT
1 TTTAAGCCCAGTTTATCTGGCC-TTAATGAAAT
* *
9941276 TTTAAGCCCAATTTAGCTGGCCCTTAATGAAA-
1 TTTAAGCCCAGTTTATCTGG-CCTTAATGAAAT
* **
9941308 TTTAAGCCCAGTTTATCTGGCCTCAAATGAGGT
1 TTTAAGCCCAGTTTATCTGGCCT-TAATGAAAT
* * *
9941341 TTTAAG-CCAGTTTAGCTAGCCCTTAAAGAAAT
1 TTTAAGCCCAGTTTATCT-GGCCTTAATGAAAT
* * *
9941373 TTTAAGCCCAGTTTATCTAGCCAGTAATGAAGT
1 TTTAAGCCCAGTTTATCTGGCC-TTAATGAAAT
* * * * *
9941406 TTTAAGTCCAGTTTATTTTGCCTCAAATGAGAT
1 TTTAAGCCCAGTTTATCTGGCCT-TAATGAAAT
* *
9941439 TTTAAGCTCAGTTTAGCTGGCTCTTAATGAAA-
1 TTTAAGCCCAGTTTATCTGGC-CTTAATGAAAT
* * *
9941471 TTTAAACCTAGTTTATTTGGCC
1 TTTAAGCCCAGTTTATCTGGCC
9941493 CTAAAAAAGT
Statistics
Matches: 270, Mismatches: 58, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
29 25 0.09
31 4 0.01
32 65 0.24
33 168 0.62
34 8 0.03
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (32 bp):
TTTAAGCCCAGTTTATCTGGCCTTAATGAAAT
Found at i:9941196 original size:66 final size:64
Alignment explanation
Indices: 9941115--9941492 Score: 288
Period size: 65 Copynumber: 5.8 Consensus size: 64
9941105 CTACGTAAAA
* * * *
9941115 TTTAAGCCCAATTTATTTGGCCATTAATGAAGTTTTAAGCCTAGTTTAATTGGCCTCCAAGGAAA
1 TTTAAGCCCAGTTTATCTGGCC-TTAATGAAGTTTTAAGCC-AGTTTATTTGGCCTCCAAAGAAA
9941180 T
64 T
* * * * *
9941181 TTTAAGCCCATTTTATTTGGCCTTCAAT----CTTTAAGCCCAGTTTATTTGGCTTTCAAAGAAA
1 TTTAAGCCCAGTTTATCTGGCCTT-AATGAAGTTTTAAG-CCAGTTTATTTGGCCTCCAAAGAAA
*
9941242 A
64 T
* * * ** * *
9941243 TTTAAGCCTAGTTTATCTGGCCATTAATGAAATTTTAAGCCCAATTTAGCTGGCC-CTTAATGAA
1 TTTAAGCCCAGTTTATCTGGCC-TTAATGAAGTTTTAAG-CCAGTTTATTTGGCCTC-CAAAGAA
9941307 A-
63 AT
* * ** * *
9941308 TTTAAGCCCAGTTTATCTGGCCTCAAATGAGGTTTTAAGCCAGTTTAGCTAGCC-CTTAAAGAAA
1 TTTAAGCCCAGTTTATCTGGCCT-TAATGAAGTTTTAAGCCAGTTTATTTGGCCTC-CAAAGAAA
9941372 T
64 T
* * * *
9941373 TTTAAGCCCAGTTTATCTAGCCAGTAATGAAGTTTTAAGTCCAGTTTATTTTGCCT-CAAATGAG
1 TTTAAGCCCAGTTTATCTGGCC-TTAATGAAGTTTTAAG-CCAGTTTATTTGGCCTCCAAA-GAA
9941437 AT
63 AT
* * * *
9941439 TTTAAGCTCAGTTTAGCTGGCTCTTAATGAA-ATTTAAACCTAGTTTATTTGGCC
1 TTTAAGCCCAGTTTATCTGGC-CTTAATGAAGTTTTAAGCC-AGTTTATTTGGCC
9941493 CTAAAAAAGT
Statistics
Matches: 255, Mismatches: 41, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
62 47 0.18
63 4 0.02
64 25 0.10
65 89 0.35
66 89 0.35
67 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (64 bp):
TTTAAGCCCAGTTTATCTGGCCTTAATGAAGTTTTAAGCCAGTTTATTTGGCCTCCAAAGAAAT
Found at i:9941224 original size:29 final size:29
Alignment explanation
Indices: 9941181--9941236 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
9941171 CCAAGGAAAT
*
9941181 TTTAAGCCCATTTTATTTGGCCTTCAATC
1 TTTAAGCCCAGTTTATTTGGCCTTCAATC
*
9941210 TTTAAGCCCAGTTTATTTGGCTTTCAA
1 TTTAAGCCCAGTTTATTTGGCCTTCAA
9941237 AGAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (29 bp):
TTTAAGCCCAGTTTATTTGGCCTTCAATC
Found at i:9941247 original size:62 final size:63
Alignment explanation
Indices: 9941111--9941270 Score: 171
Period size: 62 Copynumber: 2.5 Consensus size: 63
9941101 AAATCTACGT
* * *
9941111 AAAATTTAAGCCCAATTTATTTGGCCATTAATGAAGTTTTAAGCCTAGTTTAATTGGCCTCCAAG
1 AAAATTTAAGCCCAATTTATTTGGCCATTAAT--A-CTTTAAGCCCAGTTTAATTGGCCTCCAAA
9941176 G
63 G
* * * * *
9941177 AAATTTTAAGCCCATTTTATTTGGCC-TTCAAT-CTTTAAGCCCAGTTTATTTGGCTTTCAAAG
1 AAAATTTAAGCCCAATTTATTTGGCCATT-AATACTTTAAGCCCAGTTTAATTGGCCTCCAAAG
* * *
9941239 AAAATTTAAGCCTAGTTTATCTGGCCATTAAT
1 AAAATTTAAGCCCAATTTATTTGGCCATTAAT
9941271 GAAATTTTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
62 49 0.61
63 2 0.03
65 2 0.03
66 27 0.34
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (63 bp):
AAAATTTAAGCCCAATTTATTTGGCCATTAATACTTTAAGCCCAGTTTAATTGGCCTCCAAAG
Found at i:9941278 original size:95 final size:94
Alignment explanation
Indices: 9941113--9941473 Score: 286
Period size: 95 Copynumber: 3.7 Consensus size: 94
9941103 ATCTACGTAA
* * * *
9941113 AATTTAAGCCCAATTTATTTGGCCATT-AATGAAGTTTTAAGCCTAGTTTAAT-TGGCCTCCAAG
1 AATTTAAGCCCAGTTTATTTGG-C-TTCAAAGAAGTTTTAAGCCTAGTTT-ATCTGGCCT-TAAA
* *
9941176 GAAATTTTAAGCCCATTTTATTTGG-CCTTCAAT
62 GAAATTTTAAGCCCAATTTATCTGGCCCTT-AAT
* ** *
9941209 -CTTTAAGCCCAGTTTATTTGGCTTTCAAAGAAAATTTAAGCCTAGTTTATCTGGCCATTAATGA
1 AATTTAAGCCCAGTTTATTTGGC-TTCAAAGAAGTTTTAAGCCTAGTTTATCTGGCC-TTAAAGA
*
9941273 AATTTTAAGCCCAATTTAGCTGGCCCTTAAT
64 AATTTTAAGCCCAATTTATCTGGCCCTTAAT
* * * * *
9941304 GAAATTTAAGCCCAGTTTATCTGGCCTCAAATGAGGTTTTAAGCC-AGTTTAGCTAGCCCTTAAA
1 --AATTTAAGCCCAGTTTATTTGGCTTCAAA-GAAGTTTTAAGCCTAGTTTATCT-GGCCTTAAA
* * **
9941368 GAAATTTTAAGCCCAGTTTATCTAGCCAGTAAT
62 GAAATTTTAAGCCCAATTTATCTGGCCCTTAAT
* * * *
9941401 GAAGTTTTAAGTCCAGTTTATTTTGCCTCAAATG-AGATTTTAAG-CTCAGTTTAGCTGGCTCTT
1 -AA--TTTAAGCCCAGTTTATTTGGCTTCAAA-GAAG-TTTTAAGCCT-AGTTTATCTGGC-CTT
*
9941464 AATGAAATTT
59 AAAGAAATTT
9941474 AAACCTAGTT
Statistics
Matches: 218, Mismatches: 32, Indels: 27
0.79 0.12 0.10
Matches are distributed among these distances:
94 5 0.02
95 70 0.32
96 7 0.03
97 47 0.22
98 68 0.31
99 21 0.10
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (94 bp):
AATTTAAGCCCAGTTTATTTGGCTTCAAAGAAGTTTTAAGCCTAGTTTATCTGGCCTTAAAGAAA
TTTTAAGCCCAATTTATCTGGCCCTTAAT
Found at i:9941771 original size:25 final size:23
Alignment explanation
Indices: 9941737--9941845 Score: 139
Period size: 24 Copynumber: 4.5 Consensus size: 23
9941727 TTTGCATCAC
*
9941737 TTGCATTTGCACTTGTATAAG-ATAT
1 TTGCATTTGCA--T-TATAAGAAAAT
9941762 TTGCATTTGCATTATAAGAAAAAT
1 TTGCATTTGCATTATAAG-AAAAT
9941786 TTGCATTTGCATTATAAGAAAAAT
1 TTGCATTTGCATTATAAG-AAAAT
*
9941810 TTGCATTTGTATTATAAGAAAAAT
1 TTGCATTTGCATTATAAG-AAAAT
9941834 TTGCATTTGCAT
1 TTGCATTTGCAT
9941846 CATGGCATCT
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
22 6 0.08
23 1 0.01
24 61 0.77
25 11 0.14
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (23 bp):
TTGCATTTGCATTATAAGAAAAT
Found at i:9941792 original size:24 final size:24
Alignment explanation
Indices: 9941760--9941845 Score: 163
Period size: 24 Copynumber: 3.6 Consensus size: 24
9941750 TGTATAAGAT
9941760 ATTTGCATTTGCATTATAAGAAAA
1 ATTTGCATTTGCATTATAAGAAAA
9941784 ATTTGCATTTGCATTATAAGAAAA
1 ATTTGCATTTGCATTATAAGAAAA
*
9941808 ATTTGCATTTGTATTATAAGAAAA
1 ATTTGCATTTGCATTATAAGAAAA
9941832 ATTTGCATTTGCAT
1 ATTTGCATTTGCAT
9941846 CATGGCATCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (24 bp):
ATTTGCATTTGCATTATAAGAAAA
Found at i:9942166 original size:22 final size:21
Alignment explanation
Indices: 9942110--9942178 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 21
9942100 ATTTGGAAAT
* *
9942110 TTTTAAAACCTTCGAGCATGA
1 TTTTAAAACCTTTGAGCATCA
*
9942131 TTTCTAAAATCTTTGAGCATCA
1 TTT-TAAAACCTTTGAGCATCA
* *
9942153 TCTTTAAAACCTTTGGGCATAA
1 T-TTTAAAACCTTTGAGCATCA
9942175 TTTT
1 TTTT
9942179 GATTCGCGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 6 0.15
22 32 0.80
23 2 0.05
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
TTTTAAAACCTTTGAGCATCA
Found at i:9942317 original size:87 final size:87
Alignment explanation
Indices: 9942168--9942349 Score: 203
Period size: 87 Copynumber: 2.1 Consensus size: 87
9942158 AAAACCTTTG
* * *
9942168 GGCATAATTTTGATTCGCGATATTATCTCGATTGATTCTATAATTTTGACTCACGATGTTGTCCC
1 GGCATAATTTTGATTCACGATATTATCTCGATCGATTCTATAATTTTGACTCACGATATTGTCCC
* *
9942233 AGTCGATTTTATAAGACCTCCA
66 AGTCAATTCTATAAGACCTCCA
*
9942255 GGCATAATTTTGATTCAC-AGTGTTATC-CTGATCGATT-TCATAATTTTGACTTGCA-G-TATT
1 GGCATAATTTTGATTCACGA-TATTATCTC-GATCGATTCT-ATAATTTTGAC-T-CACGATATT
* * *
9942315 GTCCCAGTCAATTCTGTAAGATCTCTA
61 GTCCCAGTCAATTCTATAAGACCTCCA
9942342 GGCATAAT
1 GGCATAAT
9942350 CTTTAAGACC
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
86 3 0.04
87 74 0.91
88 2 0.02
89 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (87 bp):
GGCATAATTTTGATTCACGATATTATCTCGATCGATTCTATAATTTTGACTCACGATATTGTCCC
AGTCAATTCTATAAGACCTCCA
Found at i:9942469 original size:110 final size:109
Alignment explanation
Indices: 9942244--9942481 Score: 293
Period size: 110 Copynumber: 2.2 Consensus size: 109
9942234 GTCGATTTTA
* * *
9942244 TAAGACCTCCAGGCATAATTTTGATTCACAGTGTTATCCTGATCGATTTCATAATTTTGACTTGC
1 TAAGACCTCCAGGCATAATTTCGATTCACAGTGTTATCCTAATCGATTTCATAATTTTAACTTGC
* *
9942309 AGTATTGTCCCAGTCAATTCTGTAAGATCTCTAGGCATAATCTT
66 AGTATTGTCCCAATCAATTATGTAAGATCTCTAGGCATAATCTT
** * *
9942353 TAAGACCTCCAGGCATAATTTCGATTCGTAGTGTTAT-CTCAATCGATTTCTTATTTTTCAACTT
1 TAAGACCTCCAGGCATAATTTCGATTCACAGTGTTATCCT-AATCGATTTCATAATTTT-AACTT
* * *
9942417 GC-GATGTTGTCCCAATCAATTATGTAAGATCTCTGGGCATGAT-TT
64 GCAG-TATTGTCCCAATCAATTATGTAAGATCTCTAGGCATAATCTT
* *
9942462 CTAAGACCTTCGGGCATAAT
1 -TAAGACCTCCAGGCATAAT
9942482 CTTTAAAACC
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
108 2 0.02
109 52 0.47
110 57 0.51
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.37
Consensus pattern (109 bp):
TAAGACCTCCAGGCATAATTTCGATTCACAGTGTTATCCTAATCGATTTCATAATTTTAACTTGC
AGTATTGTCCCAATCAATTATGTAAGATCTCTAGGCATAATCTT
Found at i:9942575 original size:132 final size:132
Alignment explanation
Indices: 9942341--9942613 Score: 329
Period size: 132 Copynumber: 2.1 Consensus size: 132
9942331 TAAGATCTCT
* * *
9942341 AGGCATAATCTTTAAGACCTCCAGGCATAATTTCGATTCGTAGTGTTATCTCAATCGATTTCTTA
1 AGGCATAATCTTTAAAACCTCCAGGCATAATTTCGATTCGCAGTATTATCTCAATCGATTTCTTA
* * * *
9942406 TTTTTCAACTTGCGATGTTGTCCCAATCAATTATGTAAGATCTCTGGGCATGAT-TTCTAAGACC
66 TTTTTCAACTTACGATGTTATCCCAATCAATTATGTAAGACCTCTGGGCATAATCTT-TAAGA-C
9942470 TT-C
129 TTCC
* * * * *
9942473 GGGCATAATCTTTAAAACCTCCAGGCATAATTTTGATTCGCGGTATTATC-CTGATTGA-TTCTT
1 AGGCATAATCTTTAAAACCTCCAGGCATAATTTCGATTCGCAGTATTATCTC-AATCGATTTC-T
** * * *
9942536 TATTTTTTGACTTACGGTGTTATCCCAATCGATTCTGTAAGACCTCTGGGCATAATCTTTAAGAC
64 TATTTTTCAACTTACGATGTTATCCCAATCAATTATGTAAGACCTCTGGGCATAATCTTTAAGAC
9942601 TTCC
129 TTCC
9942605 AGGCATAAT
1 AGGCATAAT
9942614 TTTGATTTGG
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
131 7 0.06
132 110 0.92
133 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (132 bp):
AGGCATAATCTTTAAAACCTCCAGGCATAATTTCGATTCGCAGTATTATCTCAATCGATTTCTTA
TTTTTCAACTTACGATGTTATCCCAATCAATTATGTAAGACCTCTGGGCATAATCTTTAAGACTT
CC
Found at i:9942672 original size:110 final size:110
Alignment explanation
Indices: 9942463--9942811 Score: 468
Period size: 110 Copynumber: 3.2 Consensus size: 110
9942453 GCATGATTTC
* *
9942463 TAAGACCT-TCGGGCATAATCTTTAAAACCTCCAGGCATAATTTTGATTCGCGGTATTATCCTGA
1 TAAGACCTCT-GGGCATAATCTTTAAGACCTCCAGGCATAATTTTGATTCGGGGTATTATCCTGA
* * *
9942527 TTGATTCTTTATTTTTTGACTTACGGTGTTATCCCAATCGATTCTG
65 TCGATTCTTTATTTTTTAACTTGCGGTGTTATCCCAATCGATTCTG
* *
9942573 TAAGACCTCTGGGCATAATCTTTAAGACTTCCAGGCATAATTTTGATTTGGGGTATTATCCTGAT
1 TAAGACCTCTGGGCATAATCTTTAAGACCTCCAGGCATAATTTTGATTCGGGGTATTATCCTGAT
* * *
9942638 CGATTCCTTATTTTTTAACTTGCGATGTTGTCCCAATCGATTCTG
66 CGATTCTTTATTTTTTAACTTGCGGTGTTATCCCAATCGATTCTG
* * * **
9942683 TAAGACTTCTGGGTATAATCTTTAAGACCTCCAGGCATAATTTTGATTCGGGGTGTTATCCCAAT
1 TAAGACCTCTGGGCATAATCTTTAAGACCTCCAGGCATAATTTTGATTCGGGGTATTATCCTGAT
* ** * *
9942748 CGATTTTTTA-TTTTTAGACTTGCGGTGTTATCTTAGTCGATTATG
66 CGATTCTTTATTTTTTA-ACTTGCGGTGTTATCCCAATCGATTCTG
* *
9942793 TAAGACCTCCGAGCATAAT
1 TAAGACCTCTGGGCATAAT
9942812 TTTGATTCGT
Statistics
Matches: 208, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
109 6 0.03
110 201 0.97
111 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (110 bp):
TAAGACCTCTGGGCATAATCTTTAAGACCTCCAGGCATAATTTTGATTCGGGGTATTATCCTGAT
CGATTCTTTATTTTTTAACTTGCGGTGTTATCCCAATCGATTCTG
Found at i:9942672 original size:242 final size:241
Alignment explanation
Indices: 9942248--9942723 Score: 618
Period size: 242 Copynumber: 2.0 Consensus size: 241
9942238 ATTTTATAAG
* *
9942248 ACCTCCAGGCATAATTTTGATTCACAGTGTTATCCTGATCGATTTCATAATTTTGACTTGCAGTA
1 ACCTCCAGGCATAATTTTGATTCACAGTATTATCCTGATCGATTTCATAATTTTGACTTACAGTA
* * *
9942313 TTGTCCCAGTCAATTCTGTAAGATCTCTAGGCATAATCTTTAAGACCTCCAGGCATAATTTCGAT
66 TTATCCCAATCAATTCTGTAAGACCTCTAGGCATAATCTTTAAGACCTCCAGGCATAATTTCGAT
* * *
9942378 TCGTAGTGTTATCTCAATCGATTTCTTATTTTTCAACTTGCGATGTTGTCCCAATCAATTATGTA
131 TCGGAGTATTATCTCAATCGATTCCTTATTTTTCAACTTGCGATGTTGTCCCAATCAATTATGTA
* * *
9942443 AGA-TCTCTGGGCATGAT-TTCTAAGACCTTCGGGCATAATCTTTAAA
196 AGACT-TCTGGGCATAATCTT-TAAGACCTCCAGGCATAATCTTTAAA
* * * * * *
9942489 ACCTCCAGGCATAATTTTGATTCGCGGTATTATCCTGATTGA-TTCTTTATTTTTTGACTTACGG
1 ACCTCCAGGCATAATTTTGATTCACAGTATTATCCTGATCGATTTC-ATA-ATTTTGACTTACAG
* * * * *
9942553 TGTTATCCCAATCGATTCTGTAAGACCTCTGGGCATAATCTTTAAGACTTCCAGGCATAATTTTG
64 TATTATCCCAATCAATTCTGTAAGACCTCTAGGCATAATCTTTAAGACCTCCAGGCATAATTTCG
* * * * * *
9942618 ATTTGGGGTATTATC-CTGATCGATTCCTTATTTTTTAACTTGCGATGTTGTCCCAATCGATTCT
129 ATTCGGAGTATTATCTC-AATCGATTCCTTATTTTTCAACTTGCGATGTTGTCCCAATCAATTAT
*
9942682 GTAAGACTTCTGGGTATAATCTTTAAGACCTCCAGGCATAAT
193 GTAAGACTTCTGGGCATAATCTTTAAGACCTCCAGGCATAAT
9942724 TTTGATTCGG
Statistics
Matches: 201, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
240 3 0.01
241 41 0.20
242 154 0.77
243 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (241 bp):
ACCTCCAGGCATAATTTTGATTCACAGTATTATCCTGATCGATTTCATAATTTTGACTTACAGTA
TTATCCCAATCAATTCTGTAAGACCTCTAGGCATAATCTTTAAGACCTCCAGGCATAATTTCGAT
TCGGAGTATTATCTCAATCGATTCCTTATTTTTCAACTTGCGATGTTGTCCCAATCAATTATGTA
AGACTTCTGGGCATAATCTTTAAGACCTCCAGGCATAATCTTTAAA
Found at i:9942863 original size:88 final size:88
Alignment explanation
Indices: 9942705--9942901 Score: 229
Period size: 88 Copynumber: 2.2 Consensus size: 88
9942695 GTATAATCTT
*
9942705 TAAGACCTCC-AGGCATAATTTTGATTCGGGGTGTTATCCCAATCGATTTTTTATTTTTAGACTT
1 TAAGACCTCCGA-GCATAATTTTGATTCGGGGTGTTATCCCAATCGATTTCTTATTTTTAGACTT
* * **
9942769 GCGGTGTTAT-CTTAGTCGATTATG
65 ACGGTGTTATCCCT-GTAAATTATG
* * **
9942793 TAAGACCTCCGAGCATAATTTTGATTCGTGGTGTTGTCCTGATCGATTTCTTATTTTTTA-ACTT
1 TAAGACCTCCGAGCATAATTTTGATTCGGGGTGTTATCCCAATCGATTTCTTA-TTTTTAGACTT
* * *
9942857 ATGGTGTTGTCCCTGTAAATTCTG
65 ACGGTGTTATCCCTGTAAATTATG
*
9942881 TAAGACCTCCGAGCATGATTT
1 TAAGACCTCCGAGCATAATTT
9942902 CTAAGAGCTC
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
88 84 0.90
89 9 0.10
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (88 bp):
TAAGACCTCCGAGCATAATTTTGATTCGGGGTGTTATCCCAATCGATTTCTTATTTTTAGACTTA
CGGTGTTATCCCTGTAAATTATG
Found at i:9942869 original size:198 final size:198
Alignment explanation
Indices: 9942607--9942998 Score: 480
Period size: 198 Copynumber: 2.0 Consensus size: 198
9942597 AGACTTCCAG
* *
9942607 GCATAATTTTGATTTGGGGTATTATCCTGATCGATTCCTTATTTTTTAACTTGCGATGTTGTCCC
1 GCATAATTTTGATTCGGGGTATTATCCTGATCGATTCCTTATTTTTTAACTTACGATGTTGTCCC
** * * * *
9942672 AATCGATTCTGTAAGACTTCTGGGTATAATCTT-TAAGACCTCCAGGCATAATTTTGATTCGGGG
66 AATAAATTCTGTAAGACCTCCGAGCATAAT-TTCTAAGACCTCCAGGCATAATTTTGATTCGGGG
* * * * *
9942736 TGTTATCCCAATCGATTTTTTATTTTTAGACTTGCGGTGTTATCTTAGTCGATTATGTAAGACCT
130 TATTATCCCAATCGATTTTTTATTTTTAGACTTGCAGTGTTATCCTAGTCAATTATATAAGACCT
9942801 CCGA
195 CCGA
* * * * * *
9942805 GCATAATTTTGATTCGTGGTGTTGTCCTGATCGATTTCTTATTTTTTAACTTATGGTGTTGTCCC
1 GCATAATTTTGATTCGGGGTATTATCCTGATCGATTCCTTATTTTTTAACTTACGATGTTGTCCC
** * * * *
9942870 TGTAAATTCTGTAAGACCTCCGAGCATGATTTCTAAGAGCTCCGGGCATAATTTTGATTCGTGGT
66 AATAAATTCTGTAAGACCTCCGAGCATAATTTCTAAGACCTCCAGGCATAATTTTGATTCGGGGT
* *** * * *
9942935 ATTGTCTTGATCGATTTTTTATTTTTTGACTTGCAGTGTTGTCCTAGTCAATTCTATAAGACCT
131 ATTATCCCAATCGATTTTTTATTTTTAGACTTGCAGTGTTATCCTAGTCAATTATATAAGACCT
9942999 TTGAGTATGA
Statistics
Matches: 161, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
197 2 0.01
198 159 0.99
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (198 bp):
GCATAATTTTGATTCGGGGTATTATCCTGATCGATTCCTTATTTTTTAACTTACGATGTTGTCCC
AATAAATTCTGTAAGACCTCCGAGCATAATTTCTAAGACCTCCAGGCATAATTTTGATTCGGGGT
ATTATCCCAATCGATTTTTTATTTTTAGACTTGCAGTGTTATCCTAGTCAATTATATAAGACCTC
CGA
Found at i:9942906 original size:22 final size:22
Alignment explanation
Indices: 9942881--9942923 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9942871 GTAAATTCTG
*
9942881 TAAGACCTCCGAGCATGATTTC
1 TAAGACCTCCGAGCATAATTTC
* *
9942903 TAAGAGCTCCGGGCATAATTT
1 TAAGACCTCCGAGCATAATTT
9942924 TGATTCGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTC
Found at i:9942988 original size:110 final size:110
Alignment explanation
Indices: 9942793--9943018 Score: 310
Period size: 110 Copynumber: 2.1 Consensus size: 110
9942783 GTCGATTATG
*
9942793 TAAGACCTCCGAGCATAATTTTGATTCGTGGTGTTGTCCTGATCGATTTCTTATTTTTTAACTTA
1 TAAGACCTCCGAGCATAATTTTGATTCGTGGTATTGTCCTGATCGATTTCTTATTTTTTAACTTA
** *
9942858 TGGTGTTGTCCCTGTAAATTCTGTAAGACCTCCGAGCATGATTTC
66 CAGTGTTGTCCCTGTAAATTCTATAAGACCTCCGAGCATGATTTC
* * * * * *
9942903 TAAGAGCTCCGGGCATAATTTTGATTCGTGGTATTGTCTTGATCGATTTTTTATTTTTTGACTTG
1 TAAGACCTCCGAGCATAATTTTGATTCGTGGTATTGTCCTGATCGATTTCTTATTTTTTAACTTA
* ** *
9942968 CAGTGTTGT-CCTAGTCAATTCTATAAGACCTTTGAGTATGATTTC
66 CAGTGTTGTCCCT-GTAAATTCTATAAGACCTCCGAGCATGATTTC
9943013 TAAGAC
1 TAAGAC
9943019 ATTTGGCATA
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 3 0.03
110 97 0.97
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (110 bp):
TAAGACCTCCGAGCATAATTTTGATTCGTGGTATTGTCCTGATCGATTTCTTATTTTTTAACTTA
CAGTGTTGTCCCTGTAAATTCTATAAGACCTCCGAGCATGATTTC
Found at i:9943297 original size:133 final size:132
Alignment explanation
Indices: 9942903--9943413 Score: 530
Period size: 131 Copynumber: 3.9 Consensus size: 132
9942893 GCATGATTTC
* * * * ** * *
9942903 TAAGAGCTCCGGGCATAATTTTGATTCGTGGTATTGTCTTGATCGATTTTTTATTTTTTGACTTG
1 TAAGACCTCTGGGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTA
* * * * * * *
9942968 CAGTGTTGTCCTAGTCAATTCTATAAGACCT-TTGAGTATGATTTCTAAGACATTT--GGCATAA
66 TAGTGTTATCCCAGTCGATTCTGTAAGACCTCTAG-GCATGATTTCTAAGAC-TTTCGGGCATAA
9943030 TCTT
129 TCTT
* * *
9943034 TAAGACATCTGGGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTA
1 TAAGACCTCTGGGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTA
* * * * * **
9943099 TAGTATTATTCCAGTCGATTCTGTAAGACTTTTAGGCATGATTTCTAAGACCTTCGAACATAATC
66 TAGTGTTATCCCAGTCGATTCTGTAAGACCTCTAGGCATGATTTCTAAGACTTTCGGGCATAATC
9943164 TT
131 TT
* * *
9943166 TAAGACCTCTAGGCATAATTTTGATTCATGATGTTGTCCTGATCGATTCTTTATTTTTTTGACTT
1 TAAGACCTCTGGGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTA-TTTTTTGACTT
* * * *
9943231 GTGGTGTTATCCCGGTCGATTCTGTAAGACCTCTAGGCATGATTTCTAAAACTTTCGGGCATAAT
65 ATAGTGTTATCCCAGTCGATTCTGTAAGACCTCTAGGCATGATTTCTAAGACTTTCGGGCATAAT
9943296 CTT
130 CTT
* * * * * * *
9943299 TAAGGA-CTCTGGGCATAATTTCGATT-TTGGTGTTTTCCCAATTGACTCTTTATTTTTTGACAT
1 TAA-GACCTCTGGGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTT
* * * * **
9943362 AT-GATGTTGTCCCAGTTGATTCTCTAAGACCTCTGGGCACAATTTCTAAGAC
65 ATAG-TGTTATCCCAGTCGATTCTGTAAGACCTCTAGGCATGATTTCTAAGAC
9943414 CTCAAAGCAT
Statistics
Matches: 314, Mismatches: 60, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
130 3 0.01
131 143 0.46
132 77 0.25
133 89 0.28
134 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (132 bp):
TAAGACCTCTGGGCATAATTTTGATTCATGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTA
TAGTGTTATCCCAGTCGATTCTGTAAGACCTCTAGGCATGATTTCTAAGACTTTCGGGCATAATC
TT
Found at i:9943409 original size:264 final size:263
Alignment explanation
Indices: 9942914--9943415 Score: 618
Period size: 264 Copynumber: 1.9 Consensus size: 263
9942904 AAGAGCTCCG
* * * * *
9942914 GGCATAATTTTGATTCGTGGTATTGTCTTGATCGATTTTTTATTTTTTGACTTGCAGTGTTGTCC
1 GGCATAATTTTGATTCATGATATTGTCCTGATCGATTCTTTATTTTTTGACTTGCAGTGTTATCC
* * * *
9942979 TAGTCAATTCTATAAGACCTTTGAGTATGATTTCTAAGACATTTGGCATAATCTTTAAGACATCT
66 CAGTCAATTCTATAAGACCTTAGAGCATGATTTCTAAAACATTTGGCATAATCTTTAAGACATCT
* * * * *
9943044 GGGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTATAGTATTATT
131 GGGCATAATTTCGATTCACGGTGTTATCCCAATCGACTCTTTATTTTTTGACATATAGTATTATC
* * * **
9943109 CCAGTCGATTCTGTAAGACTTTTAGGCATGATTTCTAAGACCTTCGAACATAATCTTTAAGACCT
196 CCAGTCGATTCTCTAAGACCTCTAGGCACAATTTCTAAGACCTTCGAACATAATCTTTAAGACCT
9943174 CTA
261 CTA
* **
9943177 GGCATAATTTTGATTCATGATGTTGTCCTGATCGATTCTTTATTTTTTTGACTTGTGGTGTTATC
1 GGCATAATTTTGATTCATGATATTGTCCTGATCGATTCTTTA-TTTTTTGACTTGCAGTGTTATC
* * *
9943242 CCGGTCGATTCTGTAAGACCTCTAG-GCATGATTTCTAAAAC-TTTCGGGCATAATCTTTAAGGA
65 CCAGTCAATTCTATAAGACCT-TAGAGCATGATTTCTAAAACATTT--GGCATAATCTTTAA-GA
** * *
9943305 C-TCTGGGCATAATTTCGATT-TTGGTGTTTTCCCAATTGACTCTTTATTTTTTGACATAT-GAT
126 CATCTGGGCATAATTTCGATTCACGGTGTTATCCCAATCGACTCTTTATTTTTTGACATATAG-T
* * * *
9943367 GTTGTCCCAGTTGATTCTCTAAGACCTCTGGGCACAATTTCTAAGACCT
190 ATTATCCCAGTCGATTCTCTAAGACCTCTAGGCACAATTTCTAAGACCT
9943416 CAAAGCATAA
Statistics
Matches: 200, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
263 41 0.20
264 122 0.61
265 34 0.17
266 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (263 bp):
GGCATAATTTTGATTCATGATATTGTCCTGATCGATTCTTTATTTTTTGACTTGCAGTGTTATCC
CAGTCAATTCTATAAGACCTTAGAGCATGATTTCTAAAACATTTGGCATAATCTTTAAGACATCT
GGGCATAATTTCGATTCACGGTGTTATCCCAATCGACTCTTTATTTTTTGACATATAGTATTATC
CCAGTCGATTCTCTAAGACCTCTAGGCACAATTTCTAAGACCTTCGAACATAATCTTTAAGACCT
CTA
Found at i:9943427 original size:22 final size:22
Alignment explanation
Indices: 9943384--9943433 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
9943374 CAGTTGATTC
***
9943384 TCTAAGACCTCTGGGCACAATT
1 TCTAAGACCTCAAAGCACAATT
*
9943406 TCTAAGACCTCAAAGCATAATT
1 TCTAAGACCTCAAAGCACAATT
9943428 TCTAAG
1 TCTAAG
9943434 GCCTTTGGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (22 bp):
TCTAAGACCTCAAAGCACAATT
Found at i:9943478 original size:264 final size:263
Alignment explanation
Indices: 9942942--9943479 Score: 576
Period size: 264 Copynumber: 2.0 Consensus size: 263
9942932 GGTATTGTCT
* * * * *
9942942 TGATCGATTTTTTATTTTTTGACTTGCAGTGTTGTCCTAGTCAATTCTATAAGACCTTTGAGTAT
1 TGATCGATTCTTTATTTTTTGACTTGCAGTGTTATCCCAGTCAATTCTATAAGACCTTAGAGCAT
* *
9943007 GATTTCTAAGACATTTGGCATAATCTTTAAGACATCTGGGCATAATTTTGATTCACGGTGTTATC
66 GATTTCTAAAACATTTGGCATAATCTTTAAGACATCTGGGCATAATTTCGATTCACGGTGTTATC
* * * * * * *
9943072 CCGATCGATTCTTTATTTTTTGACTTATAGTATTATTCCAGTCGATTCTGTAAGACTTTTAGGCA
131 CCAATCGACTCTTTATTTTTTGACATATAGTATTATCCCAGTCGATTCTCTAAGACCTCTAGGCA
** * * **
9943137 TGATTTCTAAGACCTTCGAACATAATCTTTAAGACCTCTAGGCATAATTTTGATTCATGATGTTG
196 CAATTTCTAAGACCTTCAAACATAATCTTTAAGACCTCTAGGCATAATTTTGATACATGATGTCA
9943202 TCC
261 TCC
** * * *
9943205 TGATCGATTCTTTATTTTTTTGACTTGTGGTGTTATCCCGGTCGATTCTGTAAGACCTCTAG-GC
1 TGATCGATTCTTTA-TTTTTTGACTTGCAGTGTTATCCCAGTCAATTCTATAAGACCT-TAGAGC
**
9943269 ATGATTTCTAAAAC-TTTCGGGCATAATCTTTAAGGAC-TCTGGGCATAATTTCGATT-TTGGTG
64 ATGATTTCTAAAACATTT--GGCATAATCTTTAA-GACATCTGGGCATAATTTCGATTCACGGTG
* * * * *
9943331 TTTTCCCAATTGACTCTTTATTTTTTGACATAT-GATGTTGTCCCAGTTGATTCTCTAAGACCTC
126 TTATCCCAATCGACTCTTTATTTTTTGACATATAG-TATTATCCCAGTCGATTCTCTAAGACCTC
* * *
9943395 TGGGCACAATTTCTAAGACC-TCAAAGCATAAT-TTCTAAGGCCT-TTGGACATAATTTT-A-AC
190 TAGGCACAATTTCTAAGACCTTCAAA-CATAATCTT-TAAGACCTCTAGG-CATAATTTTGATAC
9943455 ATGCAATGTCATCC
252 ATG--ATGTCATCC
9943469 T-AGTCGATTCT
1 TGA-TCGATTCT
9943480 CTAATACCTC
Statistics
Matches: 228, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
262 4 0.02
263 28 0.12
264 159 0.70
265 34 0.15
266 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (263 bp):
TGATCGATTCTTTATTTTTTGACTTGCAGTGTTATCCCAGTCAATTCTATAAGACCTTAGAGCAT
GATTTCTAAAACATTTGGCATAATCTTTAAGACATCTGGGCATAATTTCGATTCACGGTGTTATC
CCAATCGACTCTTTATTTTTTGACATATAGTATTATCCCAGTCGATTCTCTAAGACCTCTAGGCA
CAATTTCTAAGACCTTCAAACATAATCTTTAAGACCTCTAGGCATAATTTTGATACATGATGTCA
TCC
Found at i:9943705 original size:73 final size:73
Alignment explanation
Indices: 9943565--9943729 Score: 170
Period size: 73 Copynumber: 2.3 Consensus size: 73
9943555 TTGGGCATTA
* * * ** * * *
9943565 TTTCGACTTATGGTATTGTCTCGATCGATTTCATAATTTTGACTTACGGTGTTGTCCCGGTCAAT
1 TTTCGACTTACGGTGTTGTCTCGATCAATTTCATAATTTCAACTTACAGTATTGTCCCAGTCAAT
* *
9943630 TCTTTACT
66 TCTATAAT
* * * * *
9943638 TTTCGACTTACGGTGTTGTTTCGGTCAATTTCATAATTTCAACTTGCAGTATTGTCCTAGTCGAT
1 TTTCGACTTACGGTGTTGTCTCGATCAATTTCATAATTTCAACTTACAGTATTGTCCCAGTCAAT
9943703 TCTATAAT
66 TCTATAAT
* *
9943711 TTT-GACTTGCGATGTTGTC
1 TTTCGACTTACGGTGTTGTC
9943730 CTGATCATTT
Statistics
Matches: 74, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
72 13 0.18
73 61 0.82
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (73 bp):
TTTCGACTTACGGTGTTGTCTCGATCAATTTCATAATTTCAACTTACAGTATTGTCCCAGTCAAT
TCTATAAT
Found at i:9951998 original size:43 final size:45
Alignment explanation
Indices: 9951950--9952038 Score: 155
Period size: 43 Copynumber: 2.0 Consensus size: 45
9951940 TTGAAAGAAG
*
9951950 AGTTCAAGTTGAAAACTTGAAAGGGCAGCTTGAAC-AAAA-AAAA
1 AGTTCAAGTTGAAAACTTGAAAAGGCAGCTTGAACTAAAATAAAA
9951993 AGTTCAAGTTGAAAACTTGAAAAGGCAGCTTGAACTAAAATAAAA
1 AGTTCAAGTTGAAAACTTGAAAAGGCAGCTTGAACTAAAATAAAA
9952038 A
1 A
9952039 CAAAAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 34 0.79
44 4 0.09
45 5 0.12
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.20
Consensus pattern (45 bp):
AGTTCAAGTTGAAAACTTGAAAAGGCAGCTTGAACTAAAATAAAA
Found at i:9952048 original size:14 final size:14
Alignment explanation
Indices: 9952029--9952060 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9952019 AGCTTGAACT
9952029 AAAATAAAAACAAA
1 AAAATAAAAACAAA
*
9952043 AAAATAAAAATAAA
1 AAAATAAAAACAAA
9952057 AAAA
1 AAAA
9952061 GAGTTCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAATAAAAACAAA
Found at i:9953253 original size:119 final size:119
Alignment explanation
Indices: 9952774--9953257 Score: 522
Period size: 119 Copynumber: 4.1 Consensus size: 119
9952764 CCATTCATTC
* * *
9952774 GATCTTAGCTCAATCTAGATCATTTTTTATGATTCGTGGTTTCATTCC-GATCATTTATTTTTGA
1 GATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTTCA-TCCTGATCATTTATTTTTGA
* * *
9952838 CCTCAACTCAATCCTAGTCGCTTTATTTTGACTTATGGTTTCATCCCAGTCATTT
65 CCTCAACTCGATCCTAGTCGCTTTATTTTGACTCATGGTTTCATCCCAGTCACTT
* * * * * *
9952893 GATCTTGGCTCAGTCCAGTTTTATTTCTTATGATTCATGGTTTCAT-CTCAATTATTTATTTTTG
1 GATCTTGGCTCAATCCAG-ATCATTTCTTATGATTCGTGGTTTCATCCT-GATCATTTATTTTTG
* * * * * **
9952957 ACCTCGACTCGGTCCTAGTCACTTTATTTTGACTCATTGTTTCGTCCCAACCACTT
64 ACCTCAACTCGATCCTAGTCGCTTTATTTTGACTCATGGTTTCATCCCAGTCACTT
* * * ** *
9953013 AATCTTGGCTCAATCCAGATCATTTCTTATGATTCATGATTTTGTCTTGATCATTTATTTTTGAC
1 GATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTTCATCCTGATCATTTATTTTTGAC
* * * * * * * *
9953078 CTCAACTTGATCTTGGTAGCTTTATTTTGACTCGTGGTTTCATCTCAGTTAATT
66 CTCAACTCGATCCTAGTCGCTTTATTTTGACTCATGGTTTCATCCCAGTCACTT
* * * * * *
9953132 GATCTTGGCTCAGTCTAAATCATTTCTTATGATTCGTTGTTTTATCCTGATCATTTATTTTTTAC
1 GATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTTCATCCTGATCATTTATTTTTGAC
* * * ***
9953197 CTCGACTCGATCCTGGTCGCTTTATTTTGACTCGTGGTTTCATCTTGGTCACTT
66 CTCAACTCGATCCTAGTCGCTTTATTTTGACTCATGGTTTCATCCCAGTCACTT
9953251 GATCTTG
1 GATCTTG
9953258 AACTATTTAT
Statistics
Matches: 299, Mismatches: 62, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
118 1 0.00
119 200 0.67
120 98 0.33
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (119 bp):
GATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTTCATCCTGATCATTTATTTTTGAC
CTCAACTCGATCCTAGTCGCTTTATTTTGACTCATGGTTTCATCCCAGTCACTT
Found at i:9953355 original size:165 final size:165
Alignment explanation
Indices: 9953098--9953397 Score: 415
Period size: 165 Copynumber: 1.8 Consensus size: 165
9953088 TCTTGGTAGC
* * *
9953098 TTTATTTTGACTCGTGGTTTCATCTCAGTTAATTGATCTTGGCTCAGTCTAAATCATTTCTTATG
1 TTTATTTTGACTCGTGATTTCATCTCAGTCAATTGATCTTGGCTCAGTCCAAATCATTTCTTATG
* * ** * *
9953163 ATTCGTTGTTTTATCCTGATCATTTATTTTTTACCTCGACTC-GATCCTGGTCGCTTTATTTTGA
66 ATTCATGGTTTTATCCTGATCATTTATTTTCGACCTCGACTCAG-TCCTGGTCACTTTATTTTAA
9953227 CTCGTGGTTTCATCTTGGTCACTTGATCTTGAACTA
130 CTCGTGGTTTCATCTTGGTCACTTGATCTTGAACTA
** ** * *
9953263 TTTATTTTGACTCGTGATTTTGTCTTGGTCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATG
1 TTTATTTTGACTCGTGATTTCATCTCAGTCAATTGATCTTGGCTCAGTCCAAATCATTTCTTATG
* *
9953328 ATTCATGGTTTTAT-CTCGATTATTTATTTTCGACCTCGACTCAGTCTTGGTCACTTTATTTTAA
66 ATTCATGGTTTTATCCT-GATCATTTATTTTCGACCTCGACTCAGTCCTGGTCACTTTATTTTAA
9953392 CTCGTG
130 CTCGTG
9953398 ATTTTGTTCC
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
164 2 0.02
165 113 0.97
166 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (165 bp):
TTTATTTTGACTCGTGATTTCATCTCAGTCAATTGATCTTGGCTCAGTCCAAATCATTTCTTATG
ATTCATGGTTTTATCCTGATCATTTATTTTCGACCTCGACTCAGTCCTGGTCACTTTATTTTAAC
TCGTGGTTTCATCTTGGTCACTTGATCTTGAACTA
Found at i:9953472 original size:119 final size:119
Alignment explanation
Indices: 9953263--9953502 Score: 347
Period size: 119 Copynumber: 2.0 Consensus size: 119
9953253 TCTTGAACTA
* * *
9953263 TTTATTTTGACTCGTGATTTTGTCTTGGTCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATG
1 TTTATTTTAACTCGTGATTTTGTCTCGATCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATG
* * * * *
9953328 ATTCATGGTTTTATCTCGATTATTTATTTTCGACCTCGACTCAGTCTTGGTCAC
66 ATTCATGATTTCATCTCGATCATTTATTTTCAACCTCAACTCAGTCTTGGTCAC
9953382 TTTATTTTAACTCGTGATTTTGT-TCCGATCACTTGATCTTGGCTTAGTCCAAATCATTTCTTAT
1 TTTATTTTAACTCGTGATTTTGTCT-CGATCACTTGATCTTGGCTTAGTCCAAATCATTTCTTAT
* * * * *
9953446 GATTCGTGATTTCATGTCGGTCATTTATTTTTAATCTCAACTCAGTCTTGGTCAC
65 GATTCATGATTTCATCTCGATCATTTATTTTCAACCTCAACTCAGTCTTGGTCAC
9953501 TT
1 TT
9953503 CATCTTGACT
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
118 1 0.01
119 106 0.99
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (119 bp):
TTTATTTTAACTCGTGATTTTGTCTCGATCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATG
ATTCATGATTTCATCTCGATCATTTATTTTCAACCTCAACTCAGTCTTGGTCAC
Found at i:9953520 original size:284 final size:284
Alignment explanation
Indices: 9953008--9953520 Score: 651
Period size: 284 Copynumber: 1.8 Consensus size: 284
9952998 TCGTCCCAAC
* * *
9953008 CACTTAATCTTGGCTCAATCCAGATCATTTCTTATGATTCATGATTTTGTCTTGATCATTTATTT
1 CACTTAATCTTGGCTCAATCCAAATCATTTCTTATGATTCATGATTTTATCTCGATCATTTATTT
* * * * *
9953073 TTGACCTCAACTTGATCTTGGTAGCTTTATTTTGACTCGTGGTTTCATCTCAGTTAATTGATCTT
66 TCGACCTCAACTAGATCTTGGTAGCTTTATTTTAACTCGTGATTTCATCTCAGTCAATTGATCTT
* * * *
9953138 GGCTCAGTCTAAATCATTTCTTATGATTCGTTGTTTTATCCTGATCATTTATTTTTTACCTCGAC
131 GGCTCAGTCCAAATCATTTCTTATGATTCGTTGTTTCATCCTGATCATTTATTTTTAACCTCAAC
* * * *
9953203 TCGATCCTGGTCGCTTTATTTTGACTCGTGGTTTCATCTTGGTCACTTGATCTTGAACTATTTAT
196 TCGATCCTGGTCACTTCATCTTGACTAGTGGTTTCATCTTGGTCACTTGATCTTGAACTATTTAT
9953268 TTTGACTCGTGATTTTGTCTTGGT
261 TTTGACTCGTGATTTTGTCTTGGT
* * * * *
9953292 CACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCATGGTTTTATCTCGATTATTTATTT
1 CACTTAATCTTGGCTCAATCCAAATCATTTCTTATGATTCATGATTTTATCTCGATCATTTATTT
* ** * *
9953357 TCGACCTCGACTCAG-TCTTGGTCA-CTTTATTTTAACTCGTGATTTTGT-TCCGATCACTTGAT
66 TCGACCTCAACT-AGATCTTGGT-AGCTTTATTTTAACTCGTGATTTCATCTCAG-TCAATTGAT
* * * *
9953419 CTTGGCTTAGTCCAAATCATTTCTTATGATTCG-TGATTTCAT-GTCGGTCATTTATTTTTAATC
128 CTTGGCTCAGTCCAAATCATTTCTTATGATTCGTTG-TTTCATCCT-GATCATTTATTTTTAACC
*
9953482 TCAACTC-AGTCTTGGTCACTTCATCTTGACTAGTGGTTT
191 TCAACTCGA-TCCTGGTCACTTCATCTTGACTAGTGGTTT
9953521 AGTCCTAGTC
Statistics
Matches: 192, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
283 7 0.04
284 183 0.95
285 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (284 bp):
CACTTAATCTTGGCTCAATCCAAATCATTTCTTATGATTCATGATTTTATCTCGATCATTTATTT
TCGACCTCAACTAGATCTTGGTAGCTTTATTTTAACTCGTGATTTCATCTCAGTCAATTGATCTT
GGCTCAGTCCAAATCATTTCTTATGATTCGTTGTTTCATCCTGATCATTTATTTTTAACCTCAAC
TCGATCCTGGTCACTTCATCTTGACTAGTGGTTTCATCTTGGTCACTTGATCTTGAACTATTTAT
TTTGACTCGTGATTTTGTCTTGGT
Found at i:9953533 original size:119 final size:120
Alignment explanation
Indices: 9953290--9953542 Score: 321
Period size: 119 Copynumber: 2.1 Consensus size: 120
9953280 TTTTGTCTTG
* * *
9953290 GTCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCATGGTTTTATCTCGATTATTTAT
1 GTCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCATGATTTCATCTCGATCATTTAT
* * * * * *
9953355 TTTCGACCTCGACTCAGTCTTGGTCACTTTATTTTAACTCGTGATTTTGTTCCGA
66 TTTCAACCTCAACTCAGTCTTGGTCACTTCATCTTAACTAGTGATTTAGTTCCGA
* * *
9953410 -TCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCGTGATTTCATGTCGGTCATTTAT
1 GTCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCATGATTTCATCTCGATCATTTAT
* * * * *
9953474 TTTTAATCTCAACTCAGTCTTGGTCACTTCATCTTGACTAGTGGTTTAG-TCCTA
66 TTTCAACCTCAACTCAGTCTTGGTCACTTCATCTTAACTAGTGATTTAGTTCCGA
**
9953528 GTCACTCAATCTTGG
1 GTCACTTGATCTTGG
9953543 TTCAATCTTG
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
118 4 0.04
119 109 0.96
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (120 bp):
GTCACTTGATCTTGGCTTAGTCCAAATCATTTCTTATGATTCATGATTTCATCTCGATCATTTAT
TTTCAACCTCAACTCAGTCTTGGTCACTTCATCTTAACTAGTGATTTAGTTCCGA
Found at i:9953723 original size:26 final size:26
Alignment explanation
Indices: 9953674--9953749 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
9953664 TACCTATTTA
* *
9953674 TGTCCAAGCCCAATTAGGCCCATTGG
1 TGTCCGAGCCCAATTAAGCCCATTGG
* * *
9953700 TGTTCGAGCCTAATTAAGCTCATTGG
1 TGTCCGAGCCCAATTAAGCCCATTGG
* *
9953726 TGTCCGAGCCCAACTAGGCCCATT
1 TGTCCGAGCCCAATTAAGCCCATT
9953750 TATGTCTGGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (26 bp):
TGTCCGAGCCCAATTAAGCCCATTGG
Found at i:9953755 original size:26 final size:26
Alignment explanation
Indices: 9953673--9953769 Score: 86
Period size: 26 Copynumber: 3.7 Consensus size: 26
9953663 ATACCTATTT
*
9953673 ATGTCCAAGCCCAATTAGGCCCATTG
1 ATGTCCGAGCCCAATTAGGCCCATTG
* * * * *
9953699 GTGTTCGAGCCTAATTAAGCTCATTG
1 ATGTCCGAGCCCAATTAGGCCCATTG
* * *
9953725 GTGTCCGAGCCCAACTAGGCCCATTT
1 ATGTCCGAGCCCAATTAGGCCCATTG
* * *
9953751 ATGTCTGGGCCTAATTAGG
1 ATGTCCGAGCCCAATTAGG
9953770 TCGACTCTTT
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (26 bp):
ATGTCCGAGCCCAATTAGGCCCATTG
Found at i:9953810 original size:3 final size:3
Alignment explanation
Indices: 9953802--9953935 Score: 86
Period size: 3 Copynumber: 46.0 Consensus size: 3
9953792 CTGTTATTTG
*
9953802 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * ** * *
9953849 ATT -TT TTT TTT CTT -TCT -TT GGT ATT TTT GTGT ATAT ATT -TAT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT-T AT-T ATT AT-T ATT
* *
9953894 CTT ATT A-T ATT ATT A-T GTT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9953936 TCCTTTTTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
2 12 0.11
3 89 0.83
4 6 0.06
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:9953903 original size:11 final size:11
Alignment explanation
Indices: 9953887--9953934 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
9953877 GTGTATATAT
*
9953887 TTATATTCTTA
1 TTATATTATTA
9953898 TTATATTATTA
1 TTATATTATTA
9953909 TGT-TATTATTA
1 T-TATATTATTA
9953920 TTATTATTATT-
1 TTA-TATTATTA
9953931 TTAT
1 TTAT
9953935 TTCCTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 2 0.06
11 23 0.70
12 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATATTATTA
Found at i:9955031 original size:32 final size:33
Alignment explanation
Indices: 9954955--9955040 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 33
9954945 ATTGTTTTAA
* *
9954955 AAAAAATCTTCTC-AAATAAAAAAAATATTTGT
1 AAAAAATCTTTTCAAAATAAAAAAAATATATGT
* **
9954987 AAATAAGGTTTTCAAAATAATAAAAAATA-AT-T
1 AAAAAATCTTTTCAAAATAA-AAAAAATATATGT
9955019 AAAAAATCTTTTC--AATAAAAAA
1 AAAAAATCTTTTCAAAATAAAAAA
9955041 GGTCTTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
29 4 0.09
30 5 0.11
32 20 0.45
33 7 0.16
34 8 0.18
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.30
Consensus pattern (33 bp):
AAAAAATCTTTTCAAAATAAAAAAAATATATGT
Found at i:9955067 original size:19 final size:18
Alignment explanation
Indices: 9955019--9955059 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
9955009 AAAAATAATT
9955019 AAAAA-ATCTTTTCAATA
1 AAAAAGATCTTTTCAATA
*
9955036 AAAAAGGTCTTTTCAAATA
1 AAAAAGATCTTTTC-AATA
9955055 AAAAA
1 AAAAA
9955060 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 7 0.33
19 9 0.43
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAAAGATCTTTTCAATA
Found at i:9976172 original size:12 final size:12
Alignment explanation
Indices: 9976139--9976164 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9976129 AATCAACAAT
9976139 TAAAATAATATA
1 TAAAATAATATA
9976151 TAAAATAATATA
1 TAAAATAATATA
9976163 TA
1 TA
9976165 TAAAAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAATAATATA
Found at i:9976605 original size:11 final size:11
Alignment explanation
Indices: 9976571--9976618 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
9976561 AAATGTAAGT
9976571 ATTCATAAAAAA
1 ATTCA-AAAAAA
9976583 ATTCATACAAAAA
1 ATTCA-A-AAAAA
*
9976596 ACTCAAAAAAA
1 ATTCAAAAAAA
*
9976607 TTTCAAAAAAA
1 ATTCAAAAAAA
9976618 A
1 A
9976619 AAAAACCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 14 0.45
12 8 0.26
13 9 0.29
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (11 bp):
ATTCAAAAAAA
Found at i:9977218 original size:14 final size:13
Alignment explanation
Indices: 9977178--9977219 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9977168 CATTAAATCA
*
9977178 TTGATTCCCAAGA-
1 TTGAATCCCAA-AT
9977191 TTGAATCCCAAAT
1 TTGAATCCCAAAT
9977204 TTGAATCCACAAAT
1 TTGAATCC-CAAAT
9977218 TT
1 TT
9977220 CCTTTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.69
14 7 0.27
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (13 bp):
TTGAATCCCAAAT
Found at i:9977305 original size:16 final size:15
Alignment explanation
Indices: 9977257--9977308 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
9977247 GGTTTTCCTT
9977257 TTTTTTTTTTTTAAC
1 TTTTTTTTTTTTAAC
*
9977272 TTTTTGCTTCTTTT-AC
1 TTTTT--TTTTTTTAAC
9977288 TTCTTTTTTTTTTAAC
1 TT-TTTTTTTTTTAAC
9977304 TTTTT
1 TTTTT
9977309 GACTCTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 14 0.45
16 8 0.26
17 9 0.29
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTTTTTTTTAAC
Found at i:9978894 original size:21 final size:23
Alignment explanation
Indices: 9978860--9978904 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
9978850 CTGTGTTGGT
9978860 TTTTCCTTTAATTTTT-ATGTAA
1 TTTTCCTTTAATTTTTGATGTAA
*
9978882 TTTT-CTTTTATTTTTGATGTAA
1 TTTTCCTTTAATTTTTGATGTAA
9978904 T
1 T
9978905 CAAGCCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTCCTTTAATTTTTGATGTAA
Found at i:9985711 original size:21 final size:22
Alignment explanation
Indices: 9985671--9985716 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
9985661 CTCCTTTTTT
* *
9985671 TTGTTTATGCTCTTTATACCAA
1 TTGTTTAGGCTCTCTATACCAA
9985693 TTGTTTAGGCTC-CTATACCAA
1 TTGTTTAGGCTCTCTATACCAA
9985714 TTG
1 TTG
9985717 CTATAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.46
Consensus pattern (22 bp):
TTGTTTAGGCTCTCTATACCAA
Found at i:9992544 original size:181 final size:180
Alignment explanation
Indices: 9992240--9992565 Score: 555
Period size: 181 Copynumber: 1.8 Consensus size: 180
9992230 GCTTTGGTTT
* * *
9992240 AACTTTGAAAATCATATTATTTATTTAGGACCGAAATATAAAACTTAAGAACATGTACTAAATAA
1 AACTTTGAAAATCATATTATTTATGTAAGACCAAAATATAAAACTTAAGAACATGTACTAAATAA
9992305 ATCATTTTCAAAATCTTGATCAAGCTTATTTAGCTTAATGTTTTGTCATTTCAAAATAAGGATCA
66 ATCATTTTCAAAATCTTGATCAAGCTTATTTAGCTTAATGTTTTGTCATTTCAAAATAAGGATCA
9992370 ATTCAAGGCTAACAAAGCCAATATTATTAAAATTGTATTATATCTATTTA
131 ATTCAAGGCTAACAAAGCCAATATTATTAAAATTGTATTATATCTATTTA
*
9992420 AACTTTGAAAATCATATTATTTATGTAATACCAAAATAATAAAACTTAAGAACATGTACTAAATA
1 AACTTTGAAAATCATATTATTTATGTAAGACCAAAAT-ATAAAACTTAAGAACATGTACTAAATA
* * * *
9992485 AAT-ATTTTTCAAAATCTTGATCAAGTTTATTTAGTTTAATGTTTTGTTATTTTAAAATAAGGAT
65 AATCA-TTTTCAAAATCTTGATCAAGCTTATTTAGCTTAATGTTTTGTCATTTCAAAATAAGGAT
9992549 CAATTCAAGGCTAACAA
129 CAATTCAAGGCTAACAA
9992566 TCTTCTTTTT
Statistics
Matches: 136, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
180 34 0.25
181 102 0.75
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (180 bp):
AACTTTGAAAATCATATTATTTATGTAAGACCAAAATATAAAACTTAAGAACATGTACTAAATAA
ATCATTTTCAAAATCTTGATCAAGCTTATTTAGCTTAATGTTTTGTCATTTCAAAATAAGGATCA
ATTCAAGGCTAACAAAGCCAATATTATTAAAATTGTATTATATCTATTTA
Found at i:9993196 original size:87 final size:85
Alignment explanation
Indices: 9993047--9993220 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 85
9993037 GGATGGGACA
* *
9993047 AAATGCATGATACCAATAATATCAAGAGTATTGAATGCATGTAATCAAGTGTAATATGCACAATA
1 AAATCCATGATACCAATAACATCAAGAGTATTGAATGCATGTAATCAAGTGTAATATGCACAATA
9993112 AAGTTCAAATACACGTATTC
66 AAGTTCAAATACACGTATTC
*
9993132 AAATCCATGATACCAATAACATCAAGAGTATTTTGGATGCATGTAATCAAGTGTAATATGCACAA
1 AAATCCATGATACCAATAACATCAAGAGTA--TTGAATGCATGTAATCAAGTGTAATATGCACAA
*
9993197 TAAAGTTCAAATACATGTATTC
64 TAAAGTTCAAATACACGTATTC
9993219 AA
1 AA
9993221 GTACGAGAGT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
85 28 0.34
87 55 0.66
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (85 bp):
AAATCCATGATACCAATAACATCAAGAGTATTGAATGCATGTAATCAAGTGTAATATGCACAATA
AAGTTCAAATACACGTATTC
Found at i:9995624 original size:14 final size:16
Alignment explanation
Indices: 9995599--9995633 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
9995589 AAATTAAAAA
9995599 TAAAAGGTCAAA-GGT
1 TAAAAGGTCAAAGGGT
9995614 TAAAA-GTCAAAGGGT
1 TAAAAGGTCAAAGGGT
9995629 TAAAA
1 TAAAA
9995634 AGGGTGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.51, C:0.06, G:0.23, T:0.20
Consensus pattern (16 bp):
TAAAAGGTCAAAGGGT
Found at i:9995779 original size:21 final size:21
Alignment explanation
Indices: 9995736--9995780 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9995726 TCTATAAGGG
* *
9995736 GATTGATCCTGTCATTTGGGT
1 GATTGATCCTCTCATTTGAGT
9995757 GATTGATCC-CTCATGTTGAGT
1 GATTGATCCTCTCAT-TTGAGT
9995778 GAT
1 GAT
9995781 CGATTCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.40
Consensus pattern (21 bp):
GATTGATCCTCTCATTTGAGT
Found at i:9998987 original size:3 final size:3
Alignment explanation
Indices: 9998973--9999013 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
9998963 AGACAAGGAA
*
9998973 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9999014 ACATCTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9999062 original size:26 final size:26
Alignment explanation
Indices: 9999026--9999091 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
9999016 ATCTAATTGA
*
9999026 ACCAAAATGGGC-CAACTTGGGCCAAG
1 ACCAGAATGGGCTC-ACTTGGGCCAAG
* *
9999052 ACCAGAATGGGCTCAGTTGGGCTAAG
1 ACCAGAATGGGCTCACTTGGGCCAAG
*
9999078 ACTAGAATGGGCTC
1 ACCAGAATGGGCTC
9999092 CATTGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 34 0.97
27 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (26 bp):
ACCAGAATGGGCTCACTTGGGCCAAG
Found at i:9999821 original size:55 final size:55
Alignment explanation
Indices: 9999635--9999850 Score: 166
Period size: 55 Copynumber: 3.7 Consensus size: 55
9999625 CAAAAATGAT
* * * *
9999635 TGATCGAGATGAAACCACGAATCAAAAGAAATGATCTGGATTGAGCCAAGATTAAG
1 TGATCAAGATGAAACCACAAATCAAAA-AAATGACCTAGATTGAGCCAAGATTAAG
* * * * * *
9999691 TGA-CTAGGATAAAACCACAAATCAAAATAAAATGACCAAGATCGAGTCAAGGTTAATAATAAA
1 TGATC-AAGATGAAACCACAAATC-AAA-AAAATGACCTAGATTGAGCCAA-G---AT--TAAG
*
9999754 TGATCAAGATGAAACCACAAATCATAAAAAAGGA-CTAGATTGAGCCAAGATTAAG
1 TGATCAAGATGAAACCACAAATCA-AAAAAATGACCTAGATTGAGCCAAGATTAAG
** * *
9999809 TGATCGGGATGAAACCACAAGTCAAAATAAAGTGACCAAGAT
1 TGATCAAGATGAAACCACAAATCAAAA-AAA-TGACCTAGAT
9999851 CAAGTCAAGG
Statistics
Matches: 124, Mismatches: 22, Indels: 27
0.72 0.13 0.16
Matches are distributed among these distances:
54 3 0.02
55 28 0.23
56 19 0.15
57 26 0.21
58 2 0.02
60 1 0.01
61 13 0.10
62 7 0.06
63 24 0.19
64 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (55 bp):
TGATCAAGATGAAACCACAAATCAAAAAAATGACCTAGATTGAGCCAAGATTAAG
Found at i:9999845 original size:118 final size:119
Alignment explanation
Indices: 9999282--9999930 Score: 582
Period size: 119 Copynumber: 5.4 Consensus size: 119
9999272 GTCGAAATCA
** * * * *
9999282 AAACCACGAATCATAAGCAATGATTTGGACTT-AGCCAAGATCGAGTGA-TCGGGGTGAAACCAC
1 AAACCACGAATCATAAAAAATGATCTGGA-TTGAGCCAAGATCAAGTGACT-GGGATAAAACCAC
* * * * * * **
9999345 GAGTCATACGAAATGAAGCT-ACTAGGATCGAGTTTAAGGTCAAAAATAAATGATCGGGACA
64 AAGTC--A--AAATAAAG-TGACCAAGATCGAG-TCAAGGTCAAAAATAAATGATCGAGATG
* * * *
9999406 AAACCAAGAATCATAAAAAATGATTTAGGCA--GAGCCAATATCAAGTGACTGGGATAAAACCAT
1 AAACCACGAATCATAAAAAATGATCT-GG-ATTGAGCCAAGATCAAGTGACTGGGATAAAACCAC
* * * * * * *
9999469 AAGTCAAAATGAAGCGACCAAGATCGAGTCGAGATAAAAAAAATGAATGATTGAGAT-
64 AAGTCAAAATAAAGTGACCAAGATCGAGTCAAGGT--CAAAAATAAATGATCGAGATG
* * * * * * *
9999526 AGAATCACGAATCATAAGAAATGATCTGGACTGAGCTAAGATCAAGAGA-TCGAGATAAAATCAC
1 A-AACCACGAATCATAAAAAATGATCTGGATTGAGCCAAGATCAAGTGACT-GGGATAAAACCAC
* * * *
9999590 AAGTCAAAATAAAGTGACCCAGACCGAGTCAAGGTCAAAAATGATTGATCGAGATG
64 AAGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTCAAAAATAAATGATCGAGATG
* *
9999646 AAACCACGAATCA-AAAGAAATGATCTGGATTGAGCCAAGATTAAGTGACTAGGATAAAACCACA
1 AAACCACGAATCATAAA-AAATGATCTGGATTGAGCCAAGATCAAGTGACTGGGATAAAACCACA
* * * * *
9999710 AATCAAAATAAAATGACCAAGATCGAGTCAAGGTTAATAATAAATGATCAAGATG
65 AGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTCAAAAATAAATGATCGAGATG
* * * * *
9999765 AAACCACAAATCATAAAAAAGGA-CTAGATTGAGCCAAGATTAAGTGA-TCGGGATGAAACCACA
1 AAACCACGAATCATAAAAAATGATCTGGATTGAGCCAAGATCAAGTGACT-GGGATAAAACCACA
* * *
9999828 AGTCAAAATAAAGTGACCAAGATCAAGTCAAGGTCAAGAATAAATGATCGGGATG
65 AGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTCAAAAATAAATGATCGAGATG
* * *
9999883 GAACCACGAATCATAAGAAATGAT-TTGAGTTGAGCCAAGATCAAGTGA
1 AAACCACGAATCATAAAAAATGATCTGGA-TTGAGCCAAGATCAAGTGA
9999931 GTGATGTAAT
Statistics
Matches: 432, Mismatches: 75, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
117 1 0.00
118 107 0.25
119 152 0.35
120 27 0.06
121 89 0.21
122 1 0.00
124 51 0.12
125 3 0.01
126 1 0.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (119 bp):
AAACCACGAATCATAAAAAATGATCTGGATTGAGCCAAGATCAAGTGACTGGGATAAAACCACAA
GTCAAAATAAAGTGACCAAGATCGAGTCAAGGTCAAAAATAAATGATCGAGATG
Found at i:9999905 original size:237 final size:238
Alignment explanation
Indices: 9999380--9999930 Score: 635
Period size: 237 Copynumber: 2.3 Consensus size: 238
9999370 GATCGAGTTT
** * *
9999380 AAGGTCAAAAATAAATGATCGGGACAAAACCAAGAATCATAAAAAATGATTTAGGCA--GAGCCA
1 AAGGTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGA-TT-GG-ATTGAGCCA
* * * * * * *
9999443 ATATCAAGTGACTGGGATAAAACCATAAGTCAAAATGAAGCGACCAAGATCGAGTCGAGATAAAA
63 AGATCAAGTGACTAGGATAAAACCACAAATCAAAATAAAACGACCAAGATCGAGTCAAGAT-AAA
* ** * * * * * *
9999508 AAAATGAATGATTGAGATAGAATCACGAATCATAAGAAATGATCTGGACTGAGCTAAGATCAAGA
127 AAAATAAATGATCAAGATAGAACCACAAATCATAAAAAAGGATCTAGACTGAGCCAAGATCAAGA
* * *
9999573 GATCGAGATAAAATCACAAGTCAAAATAAAGTGACCCAGACCGAGTC
192 GATCGAGATAAAACCACAAGTCAAAATAAAGTGACCAAGACCAAGTC
* * * *
9999620 AAGGTCAAAAATGATTGATCGAGATGAAACCACGAATCAAAAGAAATGATCTGGATTGAGCCAAG
1 AAGGTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGAT-TGGATTGAGCCAAG
* * * * *
9999685 ATTAAGTGACTAGGATAAAACCACAAATCAAAATAAAATGACCAAGATCGAGTCAAGGT-TAATA
65 ATCAAGTGACTAGGATAAAACCACAAATCAAAATAAAACGACCAAGATCGAGTCAAGATAAAAAA
* * *
9999749 ATAAATGATCAAGAT-GAAACCACAAATCATAAAAAAGGA-CTAGATTGAGCCAAGATTAAGTGA
130 ATAAATGATCAAGATAG-AACCACAAATCATAAAAAAGGATCTAGACTGAGCCAAGATCAAGAGA
* * *
9999812 TCGGGATGAAACCACAAGTCAAAATAAAGTGACCAAGATCAAGTC
194 TCGAGATAAAACCACAAGTCAAAATAAAGTGACCAAGACCAAGTC
* * *
9999857 AAGGTCAAGAATAAATGATCGGGATGGAACCACGAATCATAAGAAATGATTTGAGTTGAGCCAAG
1 AAGGTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATTGGA-TTGAGCCAAG
9999922 ATCAAGTGA
65 ATCAAGTGA
9999931 GTGATGTAAT
Statistics
Matches: 260, Mismatches: 46, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
236 3 0.01
237 121 0.47
238 34 0.13
239 3 0.01
240 99 0.38
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (238 bp):
AAGGTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATTGGATTGAGCCAAGA
TCAAGTGACTAGGATAAAACCACAAATCAAAATAAAACGACCAAGATCGAGTCAAGATAAAAAAA
TAAATGATCAAGATAGAACCACAAATCATAAAAAAGGATCTAGACTGAGCCAAGATCAAGAGATC
GAGATAAAACCACAAGTCAAAATAAAGTGACCAAGACCAAGTC
Found at i:10008612 original size:63 final size:63
Alignment explanation
Indices: 10008545--10008679 Score: 270
Period size: 63 Copynumber: 2.1 Consensus size: 63
10008535 TTGGACTTCT
10008545 AGTTTCTCTACTTTGTTTTGCCATTGCTCCTTTTCTTCATGTAGCTTCAAGACTTCTTGTCTC
1 AGTTTCTCTACTTTGTTTTGCCATTGCTCCTTTTCTTCATGTAGCTTCAAGACTTCTTGTCTC
10008608 AGTTTCTCTACTTTGTTTTGCCATTGCTCCTTTTCTTCATGTAGCTTCAAGACTTCTTGTCTC
1 AGTTTCTCTACTTTGTTTTGCCATTGCTCCTTTTCTTCATGTAGCTTCAAGACTTCTTGTCTC
10008671 AGTTTCTCT
1 AGTTTCTCT
10008680 TTCTTCATCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.13, C:0.25, G:0.13, T:0.50
Consensus pattern (63 bp):
AGTTTCTCTACTTTGTTTTGCCATTGCTCCTTTTCTTCATGTAGCTTCAAGACTTCTTGTCTC
Found at i:10011975 original size:3 final size:3
Alignment explanation
Indices: 10011967--10012007 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10011957 AGAAAAGGAA
10011967 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10012008 ACATCTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10016600 original size:20 final size:20
Alignment explanation
Indices: 10016575--10016624 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 20
10016565 TTATTATTAA
10016575 AATTATTAATATTTAAGAAT
1 AATTATTAATATTTAAGAAT
*
10016595 AATTA-T-AT-TTTAATAAT
1 AATTATTAATATTTAAGAAT
*
10016612 AATAATTAATATT
1 AATTATTAATATT
10016625 AAAATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 3 0.12
20 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AATTATTAATATTTAAGAAT
Found at i:10016722 original size:20 final size:20
Alignment explanation
Indices: 10016697--10016735 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10016687 TTTAAAATAT
10016697 TTAAAATAGTATTACTATTC
1 TTAAAATAGTATTACTATTC
* *
10016717 TTAAAATATTATTTCTATT
1 TTAAAATAGTATTACTATT
10016736 AATATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
TTAAAATAGTATTACTATTC
Found at i:10016779 original size:44 final size:44
Alignment explanation
Indices: 10016692--10016789 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
10016682 AATATTTTAA
* * *
10016692 AATATTTAAAATAGTATTACTATTCTTAAAATATTATTTCTATT
1 AATATTTAAAATAGTAATACTATTATTAAAATATTATTACTATT
*
10016736 AATA-TTAAAATAGTAATATTTATTATTAAAATATT-TATACTATTAT
1 AATATTTAAAATAGTAATA-CTATTATTAAAATATTAT-TACTA-T-T
10016782 AATATTTA
1 AATATTTA
10016790 TATTTTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
43 14 0.31
44 22 0.49
45 1 0.02
46 5 0.11
47 3 0.07
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (44 bp):
AATATTTAAAATAGTAATACTATTATTAAAATATTATTACTATT
Found at i:10016785 original size:17 final size:16
Alignment explanation
Indices: 10016749--10016798 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
10016739 ATTAAAATAG
10016749 TAATATTTAT-TATTA
1 TAATATTTATATATTA
*
10016764 AAATATTTATACTATTA
1 TAATATTTATA-TATTA
*
10016781 TAATATTTATATTTTA
1 TAATATTTATATATTA
10016797 TA
1 TA
10016799 TAAAAAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.30
16 6 0.20
17 15 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTTATATATTA
Found at i:10016994 original size:39 final size:39
Alignment explanation
Indices: 10016951--10017039 Score: 92
Period size: 42 Copynumber: 2.2 Consensus size: 39
10016941 ATATTACGAA
*
10016951 AATAATATTATTATATTAT-TTA-ACATTAATTGTTAAAAT
1 AATAATATTATTATA-TATGTTATAC-TTAATTATTAAAAT
* *
10016990 AATAAAAATATTATTATATATGTTATTCTTTATTATTAAAAT
1 AAT---AATATTATTATATATGTTATACTTAATTATTAAAAT
10017032 AATAATAT
1 AATAATAT
10017040 ACGAATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
39 8 0.19
41 3 0.07
42 30 0.71
43 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (39 bp):
AATAATATTATTATATATGTTATACTTAATTATTAAAAT
Found at i:10017090 original size:24 final size:23
Alignment explanation
Indices: 10017031--10017091 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
10017021 ATTATTAAAA
*
10017031 TAATAATATACGAATATTTATTAT
1 TAATAATATA-AAATATTTATTAT
* *
10017055 TGA-AATATTAAAATTATTTATTTT
1 TAATAATA-TAAAA-TATTTATTAT
10017079 TAATAATATAAAA
1 TAATAATATAAAA
10017092 AATAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
23 6 0.20
24 20 0.67
25 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (23 bp):
TAATAATATAAAATATTTATTAT
Found at i:10017229 original size:18 final size:17
Alignment explanation
Indices: 10017206--10017261 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
10017196 TCAAATCAAA
10017206 TAAAATCAAGTTCAAGCT
1 TAAAATCAA-TTCAAGCT
* *
10017224 TAAAAT--ATT-ATGTT
1 TAAAATCAATTCAAGCT
10017238 TAAAATCAAATTCAAGCT
1 TAAAATC-AATTCAAGCT
10017256 TAAAAT
1 TAAAAT
10017262 ATTATGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 9 0.30
15 2 0.07
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (17 bp):
TAAAATCAATTCAAGCT
Found at i:10017242 original size:14 final size:14
Alignment explanation
Indices: 10017223--10017275 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
10017213 AAGTTCAAGC
10017223 TTAAAATATTATGT
1 TTAAAATATTATGT
* *
10017237 TTAAAATCAAATTCAAGC
1 TTAAAAT---ATT-ATGT
10017255 TTAAAATATTATGT
1 TTAAAATATTATGT
10017269 TTAAAAT
1 TTAAAAT
10017276 CTTACTTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 16 0.52
15 3 0.10
17 3 0.10
18 9 0.29
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (14 bp):
TTAAAATATTATGT
Found at i:10017242 original size:32 final size:32
Alignment explanation
Indices: 10017206--10017276 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
10017196 TCAAATCAAA
*
10017206 TAAAATCAAGTTCAAGCTTAAAATATTATGTT
1 TAAAATCAAATTCAAGCTTAAAATATTATGTT
10017238 TAAAATCAAATTCAAGCTTAAAATATTATGTT
1 TAAAATCAAATTCAAGCTTAAAATATTATGTT
10017270 TAAAATC
1 TAAAATC
10017277 TTACTTGAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (32 bp):
TAAAATCAAATTCAAGCTTAAAATATTATGTT
Found at i:10019093 original size:20 final size:20
Alignment explanation
Indices: 10019068--10019107 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10019058 CCTCCAAATT
10019068 GACTTTTTATTTCGATATGC
1 GACTTTTTATTTCGATATGC
10019088 GACTTTTTATTTCGATATGC
1 GACTTTTTATTTCGATATGC
10019108 CATCCATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (20 bp):
GACTTTTTATTTCGATATGC
Found at i:10022722 original size:30 final size:29
Alignment explanation
Indices: 10022688--10022747 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
10022678 AACCTAATTT
10022688 TTAAATTCATA-ATAAAAGAAAAATAAAATA
1 TTAAATT-ATATATAAAAGAAAAA-AAAATA
* *
10022718 TTAAATTATATATAAAATATAAAAAAATA
1 TTAAATTATATATAAAAGAAAAAAAAATA
10022747 T
1 T
10022748 AAAAAATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
TTAAATTATATATAAAAGAAAAAAAAATA
Found at i:10022747 original size:19 final size:19
Alignment explanation
Indices: 10022710--10022755 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10022700 TAAAAGAAAA
* **
10022710 ATAAAATATTAAATTATAT
1 ATAAAATATAAAAAAATAT
10022729 ATAAAATATAAAAAAATAT
1 ATAAAATATAAAAAAATAT
*
10022748 AAAAAATA
1 ATAAAATA
10022756 CAAATTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAATATAAAAAAATAT
Found at i:10022991 original size:20 final size:20
Alignment explanation
Indices: 10022966--10023014 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
10022956 AAGATAGTAA
*
10022966 TATGATTACTT-TCGATGATT
1 TATGATTA-TTCTCGATAATT
*
10022986 TATGATCATTCTCGATAATT
1 TATGATTATTCTCGATAATT
*
10023006 TAAGATTAT
1 TATGATTAT
10023015 CGTCACATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TATGATTATTCTCGATAATT
Found at i:10023424 original size:3 final size:3
Alignment explanation
Indices: 10023416--10023447 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10023406 AAACCTTTAA
10023416 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10023448 AAATATATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10025691 original size:21 final size:21
Alignment explanation
Indices: 10025662--10025702 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10025652 GTAGGGGAGA
*
10025662 GGATTGATCCCTTCCCTCAAG
1 GGATCGATCCCTTCCCTCAAG
*
10025683 GGATCGATCCCTTCCTTCAA
1 GGATCGATCCCTTCCCTCAA
10025703 AACATGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.29
Consensus pattern (21 bp):
GGATCGATCCCTTCCCTCAAG
Found at i:10026066 original size:18 final size:18
Alignment explanation
Indices: 10026043--10026080 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10026033 GAATTTGTTC
10026043 ATACCATCAAGATCATCA
1 ATACCATCAAGATCATCA
10026061 ATACCATCAAGATCATCA
1 ATACCATCAAGATCATCA
10026079 AT
1 AT
10026081 CAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (18 bp):
ATACCATCAAGATCATCA
Found at i:10043773 original size:14 final size:15
Alignment explanation
Indices: 10043736--10043770 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10043726 ACAAACCCCT
*
10043736 AAAAAAATC-AACCA
1 AAAAAAATCAAAACA
10043750 AAAAAAATCAAAACA
1 AAAAAAATCAAAACA
10043765 AAAAAA
1 AAAAAA
10043771 TCACAGTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAAAATCAAAACA
Found at i:10045369 original size:30 final size:30
Alignment explanation
Indices: 10045324--10045384 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
10045314 AACCCCTAAA
* *
10045324 AAACCTTAAACCCTTTTAACCCTAAAATCT
1 AAACCCTAAACCCTTTAAACCCTAAAATCT
* *
10045354 AAACCCTAAATCCTTTAAATCCTAAAATCT
1 AAACCCTAAACCCTTTAAACCCTAAAATCT
10045384 A
1 A
10045385 TAGCTCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.30
Consensus pattern (30 bp):
AAACCCTAAACCCTTTAAACCCTAAAATCT
Found at i:10045411 original size:31 final size:29
Alignment explanation
Indices: 10045344--10045411 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
10045334 CCCTTTTAAC
*
10045344 CCTAAAATCTAAACCCTAAATCCTTTAAA
1 CCTAAAATCTAAACCCTAAATCCTTCAAA
* * *
10045373 TCCTAAAATCTATAGCTCTAAATTCTTCAAA
1 -CCTAAAATCTA-AACCCTAAATCCTTCAAA
10045404 CCGTAAAA
1 CC-TAAAA
10045412 CCTCAAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.29
Consensus pattern (29 bp):
CCTAAAATCTAAACCCTAAATCCTTCAAA
Found at i:10054431 original size:18 final size:18
Alignment explanation
Indices: 10054408--10054472 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
10054398 GACATTTTTA
*
10054408 CATTCGCATTAACATTTG
1 CATTCGCATCAACATTTG
* *
10054426 CATTCGTATCGACATTTG
1 CATTCGCATCAACATTTG
* *
10054444 CATTCGTATCGACATTTG
1 CATTCGCATCAACATTTG
* *
10054462 TATTCACATCA
1 CATTCGCATCA
10054473 TTTAATGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (18 bp):
CATTCGCATCAACATTTG
Found at i:10054931 original size:129 final size:129
Alignment explanation
Indices: 10054752--10055015 Score: 359
Period size: 129 Copynumber: 2.0 Consensus size: 129
10054742 GACATATTTC
*
10054752 TAAAACCTTCAGGCACAATCTTTAAAACCTCCAGGCAAAACATTTTAAATTTTCAAAAGTTTCAA
1 TAAAACCTTCAGGCACAATCTTTAAAACCTCCAAGCAAAACATTTTAAATTTTCAAAAGTTTCAA
* *
10054817 CACCTCTA-AAGTATGAGGAGCATTCAAAAATTTTTAAATCTCTAAGACCTCCAGGTATAATCCT
66 CACCTCTATAA-TATGAGGAGCATTCAAAAATTTTGAAATCTATAAGACCTCCAGGTATAATCCT
* ** *
10054881 TAAAACCTTCGGGCACAATCTTTAAGTCCTCTAAGCAAAACATTTTAAATTTTCAAAAGTTTCAA
1 TAAAACCTTCAGGCACAATCTTTAAAACCTCCAAGCAAAACATTTTAAATTTTCAAAAGTTTCAA
* * * * * * * * **
10054946 CTCCTCTATTATATTATGAGCATTCAAAGATTTTGAAATTTATAAGACCTTCGGGTATAATTTT
66 CACCTCTATAATATGAGGAGCATTCAAAAATTTTGAAATCTATAAGACCTCCAGGTATAATCCT
10055010 TAAAAC
1 TAAAAC
10055016 ATCTGGGCAA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
129 116 0.99
130 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (129 bp):
TAAAACCTTCAGGCACAATCTTTAAAACCTCCAAGCAAAACATTTTAAATTTTCAAAAGTTTCAA
CACCTCTATAATATGAGGAGCATTCAAAAATTTTGAAATCTATAAGACCTCCAGGTATAATCCT
Found at i:10056504 original size:30 final size:31
Alignment explanation
Indices: 10056468--10056527 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
10056458 GAACTGTCTT
10056468 TTGTTGACTG-TCGTTGAC-CGACATTGACCA
1 TTGTTGACTGAT-GTTGACTCGACATTGACCA
* *
10056498 TTGTTGATTGATGTTGACTCGTCATTGACC
1 TTGTTGACTGATGTTGACTCGACATTGACC
10056528 GATGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (31 bp):
TTGTTGACTGATGTTGACTCGACATTGACCA
Found at i:10056891 original size:17 final size:17
Alignment explanation
Indices: 10056860--10056901 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10056850 GAAATTTTTT
10056860 TAAAAAAAATAAATAAA
1 TAAAAAAAATAAATAAA
10056877 TAAAAGAAAAT-AATAACA
1 TAAAA-AAAATAAATAA-A
10056895 -AAAAAAA
1 TAAAAAAA
10056902 GCTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (17 bp):
TAAAAAAAATAAATAAA
Found at i:10056948 original size:15 final size:16
Alignment explanation
Indices: 10056917--10056948 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10056907 AAAAAATCTT
10056917 AAAAAATGATAATAAG
1 AAAAAATGATAATAAG
10056933 AAAAAATGATAA-AAG
1 AAAAAATGATAATAAG
10056948 A
1 A
10056949 TTTTTCTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (16 bp):
AAAAAATGATAATAAG
Found at i:10057314 original size:14 final size:14
Alignment explanation
Indices: 10057268--10057329 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
10057258 AGTTGAAAAT
*
10057268 CTAAAATCAAAACC
1 CTAAAACCAAAACC
* *
10057282 CTAAATCTCTAAACC
1 CTAAAAC-CAAAACC
*
10057297 CTAAAACCAAAACG
1 CTAAAACCAAAACC
* *
10057311 CTAAAATCAAAACT
1 CTAAAACCAAAACC
10057325 CTAAA
1 CTAAA
10057330 CGTTCAAACC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.18
Consensus pattern (14 bp):
CTAAAACCAAAACC
Found at i:10057339 original size:43 final size:44
Alignment explanation
Indices: 10057268--10057350 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 44
10057258 AGTTGAAAAT
10057268 CTAAAATCAAAACCCTAAATCTCTAAACCCT-AAAACCAAAACG
1 CTAAAATCAAAACCCTAAATCTCTAAACCCTCAAAACCAAAACG
* *
10057311 CTAAAATCAAAACTCTAAA-CGT-TCAAACCCTCAAATCCAA
1 CTAAAATCAAAACCCTAAATC-TCT-AAACCCTCAAAACCAA
10057351 GACTTCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 2 0.06
43 26 0.74
44 7 0.20
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.18
Consensus pattern (44 bp):
CTAAAATCAAAACCCTAAATCTCTAAACCCTCAAAACCAAAACG
Found at i:10057539 original size:8 final size:8
Alignment explanation
Indices: 10057434--10057565 Score: 67
Period size: 8 Copynumber: 16.6 Consensus size: 8
10057424 AAACCCCTAA
10057434 AAAACCTT
1 AAAACCTT
10057442 -AAACCATT
1 AAAACC-TT
*
10057450 TAAACCTT
1 AAAACCTT
*
10057458 AAAATC-T
1 AAAACCTT
*
10057465 -AAATCTT
1 AAAACCTT
*
10057472 AAATCCTT
1 AAAACCTT
* *
10057480 TAAATCTT
1 AAAACCTT
10057488 AAAATCC--
1 AAAA-CCTT
* *
10057495 ATAACCCT
1 AAAACCTT
**
10057503 AAATTCTT
1 AAAACCTT
* *
10057511 CAAACCAT
1 AAAACCTT
*
10057519 AAAACCTC
1 AAAACCTT
*
10057527 CAAACCTT
1 AAAACCTT
10057535 AAAACCATT
1 AAAACC-TT
10057544 AAAAACCTT
1 -AAAACCTT
10057553 AAAACCTT
1 AAAACCTT
10057561 AAAAC
1 AAAAC
10057566 TCAAAACTCT
Statistics
Matches: 91, Mismatches: 24, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
6 7 0.08
7 10 0.11
8 58 0.64
9 10 0.11
10 6 0.07
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAACCTT
Found at i:10057551 original size:18 final size:17
Alignment explanation
Indices: 10057528--10057564 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
10057518 TAAAACCTCC
10057528 AAACCTTAAAACCATTAA
1 AAACCTTAAAACC-TTAA
10057546 AAACCTTAAAACCTTAA
1 AAACCTTAAAACCTTAA
10057563 AA
1 AA
10057565 CTCAAAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (17 bp):
AAACCTTAAAACCTTAA
Found at i:10057551 original size:26 final size:24
Alignment explanation
Indices: 10057512--10057565 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
10057502 TAAATTCTTC
*
10057512 AAACCATAAAACCTCCAAACCTTA
1 AAACCATAAAACCTCAAAACCTTA
*
10057536 AAACCATTAAAAACCTTAAAACCTTA
1 AAACCA-T-AAAACCTCAAAACCTTA
10057562 AAAC
1 AAAC
10057566 TCAAAACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 6 0.23
25 1 0.04
26 19 0.73
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.19
Consensus pattern (24 bp):
AAACCATAAAACCTCAAAACCTTA
Found at i:10059812 original size:33 final size:33
Alignment explanation
Indices: 10059728--10059813 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
10059718 GTAAGTTTTC
* * * **
10059728 TAGTTAGAGGAATCTTCCAAGTCTTACTACCTC
1 TAGTTAGAGGAATCTTTCAAATCTCACTACCAA
10059761 TAGTTAGAGGAA-CATTTCAAATCTCACTACCAA
1 TAGTTAGAGGAATC-TTTCAAATCTCACTACCAA
* *
10059794 TGGTTAGAAGAATCTTTCAA
1 TAGTTAGAGGAATCTTTCAA
10059814 GTTTGATAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 1 0.02
33 42 0.95
34 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (33 bp):
TAGTTAGAGGAATCTTTCAAATCTCACTACCAA
Found at i:10059831 original size:33 final size:33
Alignment explanation
Indices: 10059794--10059865 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
10059784 TCACTACCAA
* *
10059794 TGGTTAGAAGAATCTTTCAAGTTTGATAGCTTC
1 TGGTTAAAAGAATCTTTCAAGTTTCATAGCTTC
* * **
10059827 TGGTTAAAAGAGTTTTTTTAGTTTCATAGCTTC
1 TGGTTAAAAGAATCTTTCAAGTTTCATAGCTTC
10059860 TGGTTA
1 TGGTTA
10059866 TATGAGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (33 bp):
TGGTTAAAAGAATCTTTCAAGTTTCATAGCTTC
Found at i:10059885 original size:33 final size:33
Alignment explanation
Indices: 10059819--10059886 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
10059809 TTCAAGTTTG
* ** *
10059819 ATAGCTTCTGGTTAAAAGAGTTTTTTTAGTTTC
1 ATAGCTTCTGGTTAAAAGAGATTTTAAAATTTC
* *
10059852 ATAGCTTCTGGTTATATGAGATTTTAAAATTTC
1 ATAGCTTCTGGTTAAAAGAGATTTTAAAATTTC
10059885 AT
1 AT
10059887 TGCCTATGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (33 bp):
ATAGCTTCTGGTTAAAAGAGATTTTAAAATTTC
Found at i:10059935 original size:71 final size:72
Alignment explanation
Indices: 10059846--10059982 Score: 181
Period size: 71 Copynumber: 1.9 Consensus size: 72
10059836 GAGTTTTTTT
* * * * *
10059846 AGTTTCATAGCTTCTGGTTATATGAGA-TTTTAAAA-TTTCATTGCCTATGGTTAGAGGAGTTTT
1 AGTTTCATAGCTTCTGGTTAGAGGA-ATTTTTAAAAGTGTCATTGCCTATAGTTAAAGGAGTTTT
10059909 TTAAAAAA
65 TTAAAAAA
*
10059917 AGTTTCATAGCATT-TGGTTAGAGGAATTTTTAAAAGTGTCATTGCCTCTAGTTAAAGGAGTTTT
1 AGTTTCATAGC-TTCTGGTTAGAGGAATTTTTAAAAGTGTCATTGCCTATAGTTAAAGGAGTTTT
10059981 TT
65 TT
10059983 TAAAGTCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
70 1 0.02
71 28 0.49
72 28 0.49
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (72 bp):
AGTTTCATAGCTTCTGGTTAGAGGAATTTTTAAAAGTGTCATTGCCTATAGTTAAAGGAGTTTTT
TAAAAAA
Found at i:10059988 original size:35 final size:35
Alignment explanation
Indices: 10059873--10060019 Score: 118
Period size: 35 Copynumber: 4.2 Consensus size: 35
10059863 TTATATGAGA
* * * * *
10059873 TTTTAAAA-TTTCATTGCCTATGGTTAGAGGAGTT
1 TTTTAAAAGTCTCATTGCATCTAGTTAAAGGAGTT
* * * * * *
10059907 TTTTAAAAAAAGTTTCATAGCATTTGGTTAGAGGA-AT
1 TTTT---AAAAGTCTCATTGCATCTAGTTAAAGGAGTT
* *
10059944 TTTTAAAAGTGTCATTGCCTCTAGTTAAAGGAGTT
1 TTTTAAAAGTCTCATTGCATCTAGTTAAAGGAGTT
* *
10059979 TTTTTAAAGTCTCATTGCATCTAGTTATAGGAGTT
1 TTTTAAAAGTCTCATTGCATCTAGTTAAAGGAGTT
10060014 TTTTAA
1 TTTTAA
10060020 GTTTTGTAGC
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
34 26 0.28
35 37 0.40
37 9 0.10
38 20 0.22
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (35 bp):
TTTTAAAAGTCTCATTGCATCTAGTTAAAGGAGTT
Found at i:10061038 original size:3 final size:3
Alignment explanation
Indices: 10061030--10061070 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
10061020 AAACTTTAAG
*
10061030 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10061071 TTCCTTCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10062190 original size:19 final size:18
Alignment explanation
Indices: 10062142--10062198 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
10062132 TTTTCACTCA
*
10062142 ATTTTTTTATATATTTTT
1 ATTTTTTTATTTATTTTT
*
10062160 ATTGTTTTTATTTCTTTGTT
1 ATT-TTTTTATTTATTT-TT
10062180 ATTTTTTTATTTTATTTTT
1 ATTTTTTTA-TTTATTTTT
10062199 GTGTGAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 19 0.58
20 11 0.33
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.79
Consensus pattern (18 bp):
ATTTTTTTATTTATTTTT
Found at i:10062450 original size:52 final size:52
Alignment explanation
Indices: 10062404--10062592 Score: 265
Period size: 52 Copynumber: 3.7 Consensus size: 52
10062394 AAAATGCTAG
* *
10062404 GAAAAAAGTTAAAATATCAA-TTTTCCTTAAAATAAAAATTTTAAAATATTTA
1 GAAAAAAGTTGAAATATCAATTTTTCCTTAAAAT-AAATTTTTAAAATATTTA
* * **
10062456 GAAAAAAGTTGCAATATCAATTTTTTCTTGGAATAAATTTTTAAAATATTTA
1 GAAAAAAGTTGAAATATCAATTTTTCCTTAAAATAAATTTTTAAAATATTTA
* * *
10062508 GAAAAAAATTGAAATATCAATTTTTCCTTAGAATAAATTTTTAAAATATATA
1 GAAAAAAGTTGAAATATCAATTTTTCCTTAAAATAAATTTTTAAAATATTTA
*
10062560 GAAAAAAGTTGAAATATCAAATTTTCC-TAAAAT
1 GAAAAAAGTTGAAATATCAATTTTTCCTTAAAAT
10062593 TCTTTAAGAA
Statistics
Matches: 122, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
51 5 0.04
52 107 0.88
53 10 0.08
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (52 bp):
GAAAAAAGTTGAAATATCAATTTTTCCTTAAAATAAATTTTTAAAATATTTA
Found at i:10062619 original size:5 final size:6
Alignment explanation
Indices: 10062601--10062625 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10062591 ATTCTTTAAG
10062601 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
10062626 CAAACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:10063670 original size:2 final size:2
Alignment explanation
Indices: 10063665--10063694 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10063655 ATGTATTAGA
10063665 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10063695 AGCAACGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10065309 original size:2 final size:2
Alignment explanation
Indices: 10065302--10065330 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10065292 AGCTAGGTAT
10065302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10065331 GAGGCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10066762 original size:16 final size:16
Alignment explanation
Indices: 10066657--10066803 Score: 83
Period size: 16 Copynumber: 9.4 Consensus size: 16
10066647 GAAGGTTTAA
10066657 GGTTTT-GATTTTA-G
1 GGTTTTGGATTTTAGG
* *
10066671 AGTTTGGAGATTTTA-G
1 GGTTTTG-GATTTTAGG
*
10066687 GG-TTTGAATTTTAGG
1 GGTTTTGGATTTTAGG
* * *
10066702 GGTTTCGAACTTTT-TG
1 GGTTTTGGA-TTTTAGG
*
10066718 GG-TTTGGATTTAAGG
1 GGTTTTGGATTTTAGG
* **
10066733 GATTTTACATTTTTAGG
1 GGTTTTGGA-TTTTAGG
*
10066750 GGTTTCGGATTTTA-G
1 GGTTTTGGATTTTAGG
* *
10066765 GATTTTGGATTTTGGGG
1 GGTTTTGGATTTT-AGG
*
10066782 GGTTTTGGATTTTAGA
1 GGTTTTGGATTTTAGG
10066798 GGTTTT
1 GGTTTT
10066804 AGAAACCTAA
Statistics
Matches: 98, Mismatches: 25, Indels: 18
0.70 0.18 0.13
Matches are distributed among these distances:
14 13 0.13
15 24 0.24
16 33 0.34
17 28 0.29
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.49
Consensus pattern (16 bp):
GGTTTTGGATTTTAGG
Found at i:10067915 original size:12 final size:11
Alignment explanation
Indices: 10067900--10067935 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
10067890 TTTGTCCTTT
10067900 TTTTTGTTTTTG
1 TTTTT-TTTTTG
10067912 TTTTTTTGTTTG
1 TTTTTTT-TTTG
10067924 TTTTTTTTTTG
1 TTTTTTTTTTG
10067935 T
1 T
10067936 GGTTGGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:10067917 original size:15 final size:15
Alignment explanation
Indices: 10067897--10067935 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
10067887 ATATTTGTCC
10067897 TTTTTTTTGTTT-TT
1 TTTTTTTTGTTTGTT
*
10067911 GTTTTTTTGTTTGTT
1 TTTTTTTTGTTTGTT
10067926 TTTTTTTTGT
1 TTTTTTTTGT
10067936 GGTTGGTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTTTTTGTTTGTT
Found at i:10067918 original size:18 final size:17
Alignment explanation
Indices: 10067897--10067933 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10067887 ATATTTGTCC
10067897 TTTTT-TTTGTTTTTGTT
1 TTTTTGTTTGTTTTT-TT
10067914 TTTTTGTTTGTTTTTTT
1 TTTTTGTTTGTTTTTTT
10067931 TTT
1 TTT
10067934 GTGGTTGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (17 bp):
TTTTTGTTTGTTTTTTT
Found at i:10068617 original size:2 final size:2
Alignment explanation
Indices: 10068610--10068642 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10068600 ACTATTCCTC
10068610 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10068643 AACATTTCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10068630 original size:15 final size:15
Alignment explanation
Indices: 10068610--10068639 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10068600 ACTATTCCTC
10068610 TATATATATATATAT
1 TATATATATATATAT
10068625 TATATATATATATAT
1 TATATATATATATAT
10068640 ATAAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:10071489 original size:17 final size:16
Alignment explanation
Indices: 10071470--10071511 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
10071460 ATTTCAAGCA
*
10071470 AAAAATTAATTTATGT
1 AAAAATTAATTTAGGT
*
10071486 AAAAATCTTATTTAGGT
1 AAAAAT-TAATTTAGGT
10071503 AAAAATTAA
1 AAAAATTAA
10071512 CAACTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (16 bp):
AAAAATTAATTTAGGT
Found at i:10073749 original size:6 final size:6
Alignment explanation
Indices: 10073738--10073768 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10073728 GCGGTGGGGA
10073738 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG G
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG G
10073769 TGGGGGTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:10074915 original size:2 final size:2
Alignment explanation
Indices: 10074910--10074934 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10074900 GCACACATAC
10074910 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10074935 GCCTGACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10079077 original size:31 final size:30
Alignment explanation
Indices: 10079034--10079102 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
10079024 AATTTTTTTA
*
10079034 AATTTATTTATTAACAAGTTAATATCATCT
1 AATTTATTTATTAACAAGATAATATCATCT
* ** *
10079064 GATTTATCTTATTAATGAGATATTATCATCT
1 AATTTAT-TTATTAACAAGATAATATCATCT
10079095 AATTTATT
1 AATTTATT
10079103 GATAATGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (30 bp):
AATTTATTTATTAACAAGATAATATCATCT
Found at i:10088738 original size:2 final size:2
Alignment explanation
Indices: 10088731--10088763 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10088721 GGATCCCTAC
10088731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10088764 TGAACAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10090085 original size:49 final size:44
Alignment explanation
Indices: 10090042--10090183 Score: 166
Period size: 43 Copynumber: 3.3 Consensus size: 44
10090032 AGATTTACGG
* * * *
10090042 TTTTCTATTTTTGTTCTTAATTGCTTAAATTTATAGTTAAGA-T
1 TTTTTTATTGTTGTTCTTAATTGCTCAAATTTATAATTAAGATT
10090085 TTTTTTATTGTTGTTCTTAATTGCTCAAATTTATAATTAAGA--
1 TTTTTTATTGTTGTTCTTAATTGCTCAAATTTATAATTAAGATT
* * *
10090127 TTTTCTGTTGTTGTTCTTAATTGCTCAAATTTATATTTGAA-ATT
1 TTTTTTATTGTTGTTCTTAATTGCTCAAATTTATAATT-AAGATT
*
10090171 TTCTGTTATTGTT
1 TT-TTTTATTGTT
10090184 TTTAATTGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 36 0.42
43 40 0.47
44 2 0.02
45 7 0.08
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (44 bp):
TTTTTTATTGTTGTTCTTAATTGCTCAAATTTATAATTAAGATT
Found at i:10090231 original size:84 final size:85
Alignment explanation
Indices: 10090040--10090249 Score: 225
Period size: 85 Copynumber: 2.5 Consensus size: 85
10090030 TCAGATTTAC
* *
10090040 GGTTTTCTATTTTTGTTCTTAATTGCTTAAATTTATAGTTAAGATTTTTTTATTGTTGTTCTTAA
1 GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGATTTTTTTATTGTTGTTCTTAA
*
10090105 TTGCTCAAATTTATAATTAA
66 TTGCTCAAATTAATAATTAA
* * * *
10090125 GATTTTCTGTTGTTGTTCTTAATTGCTCAAATTTATATTTGAA-ATTTTCTGTTATTG-T-TT-T
1 GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTT-AAGATTTT-T-TTATTGTTGTTCT
* * * *
10090186 TAATTGGTTGAAA-TAATAGTTAT
63 TAATT-GCTCAAATTAATAATTAA
*
10090209 GGTTTTCTACTATTGTTCTTAATTGCTCGAAA-TTATAGTTA
1 GGTTTTCTATTATTGTTCTTAATTGCTC-AAATTTATAGTTA
10090250 GGGTTTTCTA
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
83 1 0.01
84 44 0.42
85 50 0.48
86 4 0.04
87 6 0.06
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (85 bp):
GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGATTTTTTTATTGTTGTTCTTAA
TTGCTCAAATTAATAATTAA
Found at i:10090303 original size:42 final size:42
Alignment explanation
Indices: 10090042--10090301 Score: 256
Period size: 42 Copynumber: 6.2 Consensus size: 42
10090032 AGATTTACGG
* *
10090042 TTTTCTATTTTTGTTCTTAATTGCTTAAATTTATAGTTAAGA
1 TTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGA
* * *
10090084 TTTTTTTATTGTTGTTCTTAATTGCTCAAATTTATAATTAAGA
1 -TTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGA
* * *
10090127 TTTTCTGTTGTTGTTCTTAATTGCTCAAATTTATATTTGAA-A
1 TTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTT-AAGA
* * * * * * *
10090169 TTTTCTGTTATTGTTTTTAATTGGTTGAAA-TAATAGTTATGG
1 TTTTCTATTATTGTTCTTAATT-GCTCAAATTTATAGTTAAGA
* * *
10090211 TTTTCTACTATTGTTCTTAATTGCTCGAAA-TTATAGTTAGGG
1 TTTTCTATTATTGTTCTTAATTGCTC-AAATTTATAGTTAAGA
* * * **
10090253 TTTTCTACTATTGTTCTTATTTACTTGAATTTATAGTTAAGA
1 TTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGA
10090295 TTTTCTA
1 TTTTCTA
10090302 CTGTTTGGGC
Statistics
Matches: 184, Mismatches: 28, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
41 5 0.03
42 134 0.73
43 45 0.24
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (42 bp):
TTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGA
Found at i:10090891 original size:32 final size:32
Alignment explanation
Indices: 10090828--10090891 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
10090818 AGACCATTGG
* * *
10090828 TTATAACAAAGTAAAAGCTTATAATAGAAATT
1 TTATAACAAAGTAAAAGATTATAACAAAAATT
10090860 TTATAACAAAGTAAAAGATTATAACAAAAATT
1 TTATAACAAAGTAAAAGATTATAACAAAAATT
10090892 AGATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (32 bp):
TTATAACAAAGTAAAAGATTATAACAAAAATT
Found at i:10091499 original size:42 final size:42
Alignment explanation
Indices: 10091453--10091546 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
10091443 AGATAATAAA
* * *
10091453 GAATGAAAGGGTAGAAAATCAACATGTAGTTGATGCAGTAGG
1 GAATGAAAGGGTAGAAAATCAACATATAGGTGACGCAGTAGG
10091495 GAATGAAAGGGTAGAAAATCAACATATAGGTGACGCAGTAGG
1 GAATGAAAGGGTAGAAAATCAACATATAGGTGACGCAGTAGG
10091537 GAATGAAAGG
1 GAATGAAAGG
10091547 ATAGGAATTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.43, C:0.07, G:0.32, T:0.18
Consensus pattern (42 bp):
GAATGAAAGGGTAGAAAATCAACATATAGGTGACGCAGTAGG
Found at i:10097656 original size:20 final size:20
Alignment explanation
Indices: 10097631--10097670 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10097621 ATAGTTCAAT
10097631 CAAAATCATACAAGC-ATATA
1 CAAAAT-ATACAAGCAATATA
*
10097651 CAAAATATATAAGCAATATA
1 CAAAATATACAAGCAATATA
10097671 TCTAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (20 bp):
CAAAATATACAAGCAATATA
Found at i:10104176 original size:22 final size:23
Alignment explanation
Indices: 10104151--10104208 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
10104141 ATTATGAAAC
10104151 AAATACCAACAAAAATACCAAA-
1 AAATACCAACAAAAATACCAAAG
* ** **
10104173 AAATACTAGTAAAAATATTAAAG
1 AAATACCAACAAAAATACCAAAG
10104196 AAATACCAACAAA
1 AAATACCAACAAA
10104209 TTTATCGGAT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.66, C:0.16, G:0.03, T:0.16
Consensus pattern (23 bp):
AAATACCAACAAAAATACCAAAG
Found at i:10108465 original size:23 final size:25
Alignment explanation
Indices: 10108439--10108484 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
10108429 TATTGCGCCT
*
10108439 GAAGCAATA-ATCATAA-CAATACA
1 GAAGCAATAGACCATAATCAATACA
10108462 GAAGCAATAGACCATAATCAATA
1 GAAGCAATAGACCATAATCAATA
10108485 ATAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (25 bp):
GAAGCAATAGACCATAATCAATACA
Found at i:10113584 original size:17 final size:17
Alignment explanation
Indices: 10113558--10113598 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10113548 TTCAACTAAC
*
10113558 TCTCT-CTTTTTTT-TC
1 TCTCTACTTTTTTTCTT
10113573 TCTCTACTTTTTTTCTT
1 TCTCTACTTTTTTTCTT
10113590 TCTCTACTT
1 TCTCTACTT
10113599 GATTTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.22
16 8 0.35
17 10 0.43
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (17 bp):
TCTCTACTTTTTTTCTT
Found at i:10116393 original size:41 final size:41
Alignment explanation
Indices: 10116332--10116412 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
10116322 ATATATATGT
*
10116332 AATAAATCATACAATTAATTAAACCCATGCAAAATATCATA
1 AATAAATCATACAATAAATTAAACCCATGCAAAATATCATA
** *
10116373 AATAAATCATGA-AATAAATTAAATTCATGTAAAATATCAT
1 AATAAATCAT-ACAATAAATTAAACCCATGCAAAATATCAT
10116413 GCAAATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (41 bp):
AATAAATCATACAATAAATTAAACCCATGCAAAATATCATA
Found at i:10117655 original size:12 final size:11
Alignment explanation
Indices: 10117628--10117666 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10117618 TGAAGCTAAA
* *
10117628 AAAATTAAACT
1 AAAATAAAAAT
10117639 AAAATAAAAAT
1 AAAATAAAAAT
10117650 ACAAATAAAAAT
1 A-AAATAAAAAT
10117662 AAAAT
1 AAAAT
10117667 TTTAGGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:10118087 original size:18 final size:19
Alignment explanation
Indices: 10118060--10118121 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 19
10118050 TAAAGATCTG
10118060 AAGATTCACAAATGATTCA
1 AAGATTCACAAATGATTCA
* *
10118079 AA-TTTCACAAAT-ATCCA
1 AAGATTCACAAATGATTCA
*
10118096 AAGATTCACAAATGATT-T
1 AAGATTCACAAATGATTCA
10118114 AAGATTCA
1 AAGATTCA
10118122 AAGATTTGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.17
18 26 0.72
19 4 0.11
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (19 bp):
AAGATTCACAAATGATTCA
Done.