Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 103 of 109
Found at i:20847752 original size:30 final size:30
Alignment explanation
Indices: 20847720--20847816 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
20847710 ACTTGGACCT
*
20847720 GAATGCAGTTGTACAAGAAAGCCGTGGACT
1 GAATGCAGTTGTACAAGAAAGCCGTGGACA
*
20847750 GAATGCAGTTGTACAAGAAAGCCGCGGACA
1 GAATGCAGTTGTACAAGAAAGCCGTGGACA
*
20847780 GAATGCAGTTGTACATGAAAGCCGTGGACA
1 GAATGCAGTTGTACAAGAAAGCCGTGGACA
20847810 GAATGCA
1 GAATGCA
20847817 AGCCAGGATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (30 bp):
GAATGCAGTTGTACAAGAAAGCCGTGGACA
Found at i:20848377 original size:45 final size:45
Alignment explanation
Indices: 20848313--20848400 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
20848303 TCAAGCAATT
20848313 CTAATGTACAAGCAACTGGTCAACCATCAGTATTTTCTCCATTAG
1 CTAATGTACAAGCAACTGGTCAACCATCAGTATTTTCTCCATTAG
*
20848358 CTAATGTACAAGCAACTGGTCAACCATTAGTATTTTCTCCATT
1 CTAATGTACAAGCAACTGGTCAACCATCAGTATTTTCTCCATT
20848401 TGATCGCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (45 bp):
CTAATGTACAAGCAACTGGTCAACCATCAGTATTTTCTCCATTAG
Found at i:20852027 original size:101 final size:101
Alignment explanation
Indices: 20851922--20852106 Score: 273
Period size: 102 Copynumber: 1.8 Consensus size: 101
20851912 CATTATAAAT
* * * * *
20851922 TAATAA-TTTAAAAATAAGTATTATATTAATTAATAAATTTATAATTCAAATATTATACTAAAAT
1 TAATAATTTTAAAAATAAATATTACATTAATTAATAAATTTATAATTCAAAAATAATA-TAAAAA
*
20851986 TTTTTAAAATTTAAAAATTAATATGATCATTATGACC
65 ATTTTAAAATTTAAAAATTAATATGATCATTATGACC
* *
20852023 TAATAATTTTAAAAATAAATGTTACATTAATTAATAAATTTATAATTTAAAAATAATATAAAAAA
1 TAATAATTTTAAAAATAAATATTACATTAATTAATAAATTTATAATTCAAAAATAATATAAAAAA
*
20852088 TTTTAAAATTTAAATATTA
66 TTTTAAAATTTAAAAATTA
20852107 TATTAAACAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 29 0.39
102 45 0.61
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (101 bp):
TAATAATTTTAAAAATAAATATTACATTAATTAATAAATTTATAATTCAAAAATAATATAAAAAA
TTTTAAAATTTAAAAATTAATATGATCATTATGACC
Found at i:20852077 original size:19 final size:20
Alignment explanation
Indices: 20852025--20852078 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
20852015 TTATGACCTA
20852025 ATAATTTTAAAAATAAATGTT
1 ATAA-TTTAAAAATAAATGTT
* *
20852046 A-CA-TTAATTAATAAAT-TT
1 ATAATTTAA-AAATAAATGTT
20852064 ATAATTTAAAAATAA
1 ATAATTTAAAAATAA
20852079 TATAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 5 0.19
21 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAATTTAAAAATAAATGTT
Found at i:20853461 original size:24 final size:26
Alignment explanation
Indices: 20853435--20853491 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
20853425 AATGAGTATT
*
20853435 AAATTATTTTAT-TTTTTAATATGTA
1 AAATTATTTTATATTATTAATATGTA
* *
20853460 AATATTTTTTTATATTATTAATATGTC
1 AA-ATTATTTTATATTATTAATATGTA
20853487 AAATT
1 AAATT
20853492 TATTAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 12 0.44
27 13 0.48
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
AAATTATTTTATATTATTAATATGTA
Found at i:20853492 original size:26 final size:25
Alignment explanation
Indices: 20853435--20853492 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
20853425 AATGAGTATT
* *
20853435 AAATTATTTTATTTTTTAATATGTA
1 AAATTTTTTTATTTATTAATATGTA
*
20853460 AATATTTTTTTATATTATTAATATGTC
1 AA-ATTTTTTTAT-TTATTAATATGTA
20853487 AAATTT
1 AAATTT
20853493 ATTAAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 13 0.46
27 13 0.46
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (25 bp):
AAATTTTTTTATTTATTAATATGTA
Found at i:20853615 original size:29 final size:29
Alignment explanation
Indices: 20853552--20853622 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
20853542 TGTTCTTGCA
* * *
20853552 TATATTCGTGTATATCTTTATTAATTGTG
1 TATATTCGTGTATATATGTATTAATTATG
* * *
20853581 TCTATTTGTGTATATATGTATTAGTTATG
1 TATATTCGTGTATATATGTATTAATTATG
*
20853610 TATATTCATGTAT
1 TATATTCGTGTAT
20853623 TGTTTAAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (29 bp):
TATATTCGTGTATATATGTATTAATTATG
Found at i:20853674 original size:139 final size:138
Alignment explanation
Indices: 20853531--20853798 Score: 464
Period size: 139 Copynumber: 1.9 Consensus size: 138
20853521 AATTATTTAT
* *
20853531 TATTTTAGTCGTGTTCTTGCATATATTCGTGTATATCTTTATTAATTGTGTCTATTTGTGTATAT
1 TATTTTAGTCATGTTCTTGCATATATTCGTGTATATCTTTATTAATTGTGTCTATTCGTGTATAT
* *
20853596 ATGTATTAGTTATGTATATTCATGTATTGTTTAAAAAGAATTAATTGTACACATGTTAATCATGT
66 ATATATTAGTTATGTATATTCATGTATTGTTTAAAAA-AATTAATTATACACATGTTAATCATGT
20853661 GTTCTTGCA
130 GTTCTTGCA
20853670 TATTTTAGTCATGTTCTTGCATATATTCGTGTATATCTTTATTAATTGTGTCTATTCGTGTATAT
1 TATTTTAGTCATGTTCTTGCATATATTCGTGTATATCTTTATTAATTGTGTCTATTCGTGTATAT
* * *
20853735 ATATATTAGTTATGTATGTTCATGTATTGTTTAAAAAAATTAATTATACGCGTGTTAATCATGT
66 ATATATTAGTTATGTATATTCATGTATTGTTTAAAAAAATTAATTATACACATGTTAATCATGT
20853799 CGTATCATGT
Statistics
Matches: 122, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
138 24 0.20
139 98 0.80
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.50
Consensus pattern (138 bp):
TATTTTAGTCATGTTCTTGCATATATTCGTGTATATCTTTATTAATTGTGTCTATTCGTGTATAT
ATATATTAGTTATGTATATTCATGTATTGTTTAAAAAAATTAATTATACACATGTTAATCATGTG
TTCTTGCA
Found at i:20854289 original size:19 final size:21
Alignment explanation
Indices: 20854247--20854289 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
20854237 AGTATATTAC
*
20854247 TTTTAATCTTTCTTGTTTACA
1 TTTTAATCTTTCTTGTTTAAA
*
20854268 TTTTAAT-TTT-TTTTTTAAA
1 TTTTAATCTTTCTTGTTTAAA
20854287 TTT
1 TTT
20854290 CATTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 3 0.15
21 7 0.35
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTAATCTTTCTTGTTTAAA
Found at i:20857544 original size:173 final size:175
Alignment explanation
Indices: 20857255--20857599 Score: 649
Period size: 173 Copynumber: 2.0 Consensus size: 175
20857245 CTGGGGATAA
20857255 AGCTGAAGATGATTACCTCAATCATTGAGTTTATGATAATAAATGTCTTATCTATCTATAACATG
1 AGCTGAAGATGATTACCTCAATCATTGAGTTTATGATAATAAATGTCTTATCTATCTATAACATG
20857320 ATATTAGGTCAACTTATCTAGGCTGTTATATGGCTTTTAAGCGTAACTCCCTA-TTGAAAGTAAA
66 ATATTAGGTCAACTTATCTAGGCTGTTATATGGCTTTTAAGCGTAACTCCCTATTTGAAAGTAAA
20857384 ATTTTCAACA-CTACAAGGGTTGAAGAAGTACGAGAAGACCATAG
131 ATTTTCAACACCTACAAGGGTTGAAGAAGTACGAGAAGACCATAG
*
20857428 AGCTGAAGATGATTACCTCGATCATTGAGTTTATGATAATAAATGTCTTATCTATCTATAACATG
1 AGCTGAAGATGATTACCTCAATCATTGAGTTTATGATAATAAATGTCTTATCTATCTATAACATG
20857493 ATATTAGGTCAACTTATCTAGGCTGTTATATGGCTTTTAAGCGTAACTCCCTATTTGAAAGTAAA
66 ATATTAGGTCAACTTATCTAGGCTGTTATATGGCTTTTAAGCGTAACTCCCTATTTGAAAGTAAA
* *
20857558 ATTTTCAACACCTATAAGGGTTGAAGAAGTACGTGAAGACCA
131 ATTTTCAACACCTACAAGGGTTGAAGAAGTACGAGAAGACCA
20857600 GTCCATAGCA
Statistics
Matches: 167, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
173 117 0.70
174 21 0.13
175 29 0.17
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (175 bp):
AGCTGAAGATGATTACCTCAATCATTGAGTTTATGATAATAAATGTCTTATCTATCTATAACATG
ATATTAGGTCAACTTATCTAGGCTGTTATATGGCTTTTAAGCGTAACTCCCTATTTGAAAGTAAA
ATTTTCAACACCTACAAGGGTTGAAGAAGTACGAGAAGACCATAG
Found at i:20866074 original size:32 final size:32
Alignment explanation
Indices: 20866038--20866098 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
20866028 CAGGTTCATT
20866038 TGGCTTTTCTAACCAAGAAATCTTTCCCCATG
1 TGGCTTTTCTAACCAAGAAATCTTTCCCCATG
20866070 TGGCTTTTCTAACCAAGAAATCTTTCCCC
1 TGGCTTTTCTAACCAAGAAATCTTTCCCC
20866099 TCTTCTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (32 bp):
TGGCTTTTCTAACCAAGAAATCTTTCCCCATG
Found at i:20870616 original size:96 final size:96
Alignment explanation
Indices: 20870452--20870644 Score: 359
Period size: 96 Copynumber: 2.0 Consensus size: 96
20870442 GCATCAGATG
*
20870452 TGGTTTCTTTTTTGGTTTTTAAAATGCATAATATAATAAATTTTAAAAATTTAATCCGAATCCAA
1 TGGTTTCGTTTTTGGTTTTTAAAATGCATAATATAATAAATTTTAAAAATTTAATCCGAATCCAA
20870517 ACAGATTTTTTCTTAAAAATCAATTTGAATT
66 ACAGATTTTTTCTTAAAAATCAATTTGAATT
* *
20870548 TGGTTTCGTTTTTGGTTTTTAAAATGCATAATATAATAAATTTTAAAAATTTAATTCGAATTCAA
1 TGGTTTCGTTTTTGGTTTTTAAAATGCATAATATAATAAATTTTAAAAATTTAATCCGAATCCAA
20870613 ACAGATTTTTTCTTAAAAATCAATTTGAATT
66 ACAGATTTTTTCTTAAAAATCAATTTGAATT
20870644 T
1 T
20870645 TATCAATTTG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (96 bp):
TGGTTTCGTTTTTGGTTTTTAAAATGCATAATATAATAAATTTTAAAAATTTAATCCGAATCCAA
ACAGATTTTTTCTTAAAAATCAATTTGAATT
Found at i:20870651 original size:15 final size:15
Alignment explanation
Indices: 20870631--20870662 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
20870621 TTTCTTAAAA
20870631 ATCAATTTGAATTTT
1 ATCAATTTGAATTTT
20870646 ATCAATTTGAATTTT
1 ATCAATTTGAATTTT
20870661 AT
1 AT
20870663 TGGTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
ATCAATTTGAATTTT
Found at i:20870867 original size:13 final size:13
Alignment explanation
Indices: 20870848--20870881 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20870838 ATTTGATTTG
20870848 AATTTAATATATA
1 AATTTAATATATA
* *
20870861 TATTTAATATTTA
1 AATTTAATATATA
20870874 AATTTAAT
1 AATTTAAT
20870882 TTAAATCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTTAATATATA
Found at i:20882855 original size:109 final size:109
Alignment explanation
Indices: 20882664--20882883 Score: 413
Period size: 109 Copynumber: 2.0 Consensus size: 109
20882654 CGGTTACGTG
* *
20882664 TAAGGAAGGTTAAAGTACCCTCACAACGTCTATCAAAAGATGATACCAGCTTAAATTTGTGTTAT
1 TAAGGAAGGTTAAAGCACCCTCACAACGTCCATCAAAAGATGATACCAGCTTAAATTTGTGTTAT
20882729 CCAATGAGCCTTAAAAATTTATCAAGTGATTAATTATTAGAAAT
66 CCAATGAGCCTTAAAAATTTATCAAGTGATTAATTATTAGAAAT
*
20882773 TAAGGAAGGTTAAAGCACCCTCACAACGTCCATCAAAAGATGGTACCAGCTTAAATTTGTGTTAT
1 TAAGGAAGGTTAAAGCACCCTCACAACGTCCATCAAAAGATGATACCAGCTTAAATTTGTGTTAT
20882838 CCAATGAGCCTTAAAAATTTATCAAGTGATTAATTATTAGAAAT
66 CCAATGAGCCTTAAAAATTTATCAAGTGATTAATTATTAGAAAT
20882882 TA
1 TA
20882884 TTCTCAATTG
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (109 bp):
TAAGGAAGGTTAAAGCACCCTCACAACGTCCATCAAAAGATGATACCAGCTTAAATTTGTGTTAT
CCAATGAGCCTTAAAAATTTATCAAGTGATTAATTATTAGAAAT
Found at i:20883137 original size:27 final size:27
Alignment explanation
Indices: 20883107--20883197 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
20883097 TATTTTCAAG
20883107 AAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTCCTC
* ** * * *
20883134 AAAAA-TAATTTTTTTGAAACTTTAACTTC
1 AAAAATTGA-TACTTT-CAACTTT-TCCTC
20883163 GAGAAAAATTGATACTTTCAACTTTTCCTC
1 ---AAAAATTGATACTTTCAACTTTTCCTC
20883193 AAAAA
1 AAAAA
20883198 CCTTTTGTTG
Statistics
Matches: 45, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
26 2 0.04
27 14 0.31
28 6 0.13
29 3 0.07
30 3 0.07
31 6 0.13
32 9 0.20
33 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.38
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCCTC
Found at i:20883176 original size:59 final size:58
Alignment explanation
Indices: 20883049--20883336 Score: 350
Period size: 58 Copynumber: 4.9 Consensus size: 58
20883039 TTGTACAGGA
* * *
20883049 AAAAATTGATACTTTCAACTTTTCCCCCAAAAT-TTTTTTTAGAAAGTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAACTTTATTTTCAAG
** *
20883107 AAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTTGAAACTTTAACTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTGAAACTTTATTTTCAAG
** * * *
20883166 AAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTGTTGAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAAG
* *
20883224 AAAAATTGATACTTTCAACTTTT-CTCAAAAAATATTTTTTAGAAAAGC-TTATTTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTG-AAA-CTTTATTTTCAAG
* * *
20883283 GAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTGAAATTATTATTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACT-TTATTTT
20883337 TTATTATTAA
Statistics
Matches: 198, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
57 6 0.03
58 96 0.48
59 86 0.43
60 10 0.05
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAAG
Found at i:20883337 original size:117 final size:116
Alignment explanation
Indices: 20883049--20883337 Score: 386
Period size: 117 Copynumber: 2.5 Consensus size: 116
20883039 TTGTACAGGA
* * * * *
20883049 AAAAATTGATACTTTCAACTTTTCCCCCAAAATTTTTTTTAGAAAGTTTATTTTCAAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAATTTATTTTTAAGAAAAATT
*
20883114 GATACTTTCAACTTTTCCTCAAAAATAATTTTTTTGAAACTTTAACTTCGAG
65 GATACTTTCAACTTTTCCTCAAAAATAATTTTTTAGAAACTTTAACTTCGAG
**
20883166 AAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTGTTGAAAATTTATTTTTAAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT-TTGAAAATTTATTTTTAAGAAAAATT
**
20883231 GATACTTTCAACTTTT-CTCAAAAA-ATATTTTTTAGAAAAGC-TTATTTTCGAG
65 GATACTTTCAACTTTTCCTCAAAAATA-ATTTTTTAG-AAA-CTTTAACTTCGAG
* * *
20883283 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAATTATTATTTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAAT-TTATTTTT
20883338 TATTATTAAC
Statistics
Matches: 153, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
115 1 0.01
116 23 0.15
117 126 0.82
118 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAATAATTTTTTAGAAACTTTAACTTCGAG
Found at i:20885752 original size:14 final size:13
Alignment explanation
Indices: 20885735--20885792 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
20885725 AAAAAAAAAT
20885735 AAATCATAAAATAA
1 AAAT-ATAAAATAA
20885749 AAAT-TAAAA-AGA
1 AAATATAAAATA-A
*
20885761 TAAATATGAAATAAA
1 -AAATATAAAAT-AA
20885776 AAATATAAAATAA
1 AAATATAAAATAA
20885789 AAAT
1 AAAT
20885793 GAATAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
11 1 0.03
12 6 0.16
13 10 0.27
14 18 0.49
15 1 0.03
16 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATATAAAATAA
Found at i:20885763 original size:20 final size:20
Alignment explanation
Indices: 20885740--20885792 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
20885730 AAAATAAATC
*
20885740 ATAAAATAAAAATTAAAAAG
1 ATAAAATAAAAATAAAAAAG
* *
20885760 AT-AAATATGAAATAAAAAAT
1 ATAAAATA-AAAATAAAAAAG
20885780 ATAAAATAAAAAT
1 ATAAAATAAAAAT
20885793 GAATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 17 0.63
21 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (20 bp):
ATAAAATAAAAATAAAAAAG
Found at i:20885778 original size:27 final size:25
Alignment explanation
Indices: 20885721--20885801 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
20885711 CAGATAATCA
* *
20885721 AAAAAAAAAAAAATAAATCATAAAAT
1 AAAAAATAAAAAATAAAT-ATGAAAT
*
20885747 AAAAATTAAAAAGATAAATATGAAAT
1 AAAAAATAAAAA-ATAAATATGAAAT
* *
20885773 AAAAAATATAAAATAAAAATG-AAT
1 AAAAAATAAAAAATAAATATGAAAT
20885797 AAAAA
1 AAAAA
20885802 TTCCTGCAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.17
25 8 0.17
26 26 0.54
27 6 0.12
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAAATAAAAAATAAATATGAAAT
Found at i:20886739 original size:27 final size:26
Alignment explanation
Indices: 20886701--20886763 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
20886691 ATAAAATAAG
20886701 ATAATATTATTTAAT-TTAATCATATTC
1 ATAATATTATTTAATCTTAATC-TA-TC
* *
20886728 ATAATATTATTTTATCTTATTCTATC
1 ATAATATTATTTAATCTTAATCTATC
20886754 ATAATATTAT
1 ATAATATTAT
20886764 GTACCAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 12 0.36
27 16 0.48
28 5 0.15
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (26 bp):
ATAATATTATTTAATCTTAATCTATC
Found at i:20887261 original size:1 final size:1
Alignment explanation
Indices: 20887255--20887280 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
20887245 TTCATTTTGG
20887255 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
20887281 CAGATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:20903480 original size:19 final size:18
Alignment explanation
Indices: 20903456--20903526 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 18
20903446 TAAGATGAAT
20903456 TTAAATATTAAATTATGTA
1 TTAAATATTAAATTAT-TA
* *
20903475 TTAAAT-TTTAA-TATAA
1 TTAAATATTAAATTATTA
20903491 TATAAA-ATT-AATTATATA
1 T-TAAATATTAAATTAT-TA
*
20903509 TTAAATTATTAAAATATT
1 TTAAA-TATTAAATTATT
20903527 TTTATCATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
16 4 0.10
17 16 0.39
18 6 0.15
19 10 0.24
20 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
TTAAATATTAAATTATTA
Found at i:20904568 original size:23 final size:25
Alignment explanation
Indices: 20904541--20904586 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
20904531 TTATGTTAAA
*
20904541 TAAATTTTATTAA-AAT-TAATATT
1 TAAATTTAATTAATAATATAATATT
20904564 TAAATTTAATTAATAATATAATA
1 TAAATTTAATTAATAATATAATA
20904587 AATTTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAATTTAATTAATAATATAATATT
Found at i:20904659 original size:26 final size:26
Alignment explanation
Indices: 20904630--20904723 Score: 93
Period size: 26 Copynumber: 3.6 Consensus size: 26
20904620 CCCCACTTAA
20904630 AAAATTTATAATTAAAAAAATTTATT
1 AAAATTTATAATTAAAAAAATTTATT
* * **
20904656 AAAA-CTACAATTAAAAAAATTATAAA
1 AAAATTTATAATTAAAAAAATT-TATT
*
20904682 AAAATTTAT-ATTAAACAAATTTCATT
1 AAAATTTATAATTAAAAAAATTT-ATT
* *
20904708 AAAATTAATATTTAAA
1 AAAATTTATAATTAAA
20904724 TTTAATTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
25 16 0.30
26 30 0.57
27 7 0.13
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAATTTATAATTAAAAAAATTTATT
Found at i:20906362 original size:19 final size:20
Alignment explanation
Indices: 20906340--20906383 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
20906330 ATAGATTATA
20906340 TTTATA-TTAAAAATAATAT
1 TTTATACTTAAAAATAATAT
20906359 TTTATACTTAAAAATAATAT
1 TTTATACTTAAAAATAATAT
20906379 TTTAT
1 TTTAT
20906384 TAATTTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTATACTTAAAAATAATAT
Found at i:20912222 original size:12 final size:12
Alignment explanation
Indices: 20912207--20912236 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20912197 GTCTATCAAT
20912207 TTAAATTTTTTA
1 TTAAATTTTTTA
*
20912219 TTAAAGTTTTTA
1 TTAAATTTTTTA
20912231 TTAAAT
1 TTAAAT
20912237 AATTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:20913534 original size:22 final size:22
Alignment explanation
Indices: 20913490--20913534 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
20913480 GATTTAATAT
* * *
20913490 TTTAGTAAAAATTATAAATAAA
1 TTTAATAAAAATTAAAAAAAAA
*
20913512 TTTAATAAAATTTAAAAAAAAA
1 TTTAATAAAAATTAAAAAAAAA
20913534 T
1 T
20913535 ATTTCATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAATAAAAATTAAAAAAAAA
Found at i:20916554 original size:19 final size:20
Alignment explanation
Indices: 20916512--20916555 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
20916502 GTAATTTTTA
20916512 AATTAAAATAATAAAAATAT
1 AATTAAAATAATAAAAATAT
* *
20916532 -ATTAAAAT-TTAAAAATTT
1 AATTAAAATAATAAAAATAT
20916550 AATTAA
1 AATTAA
20916556 GCTAACGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTAAAATAATAAAAATAT
Found at i:20920201 original size:38 final size:38
Alignment explanation
Indices: 20920159--20920234 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
20920149 ATTTTCATGA
*
20920159 GTTTTTATGCATGATAAGATGTTAAACAGGCCAAGTTC
1 GTTTTTATGCATGATAAGATATTAAACAGGCCAAGTTC
*
20920197 GTTTTTATGCATGATAGGATATTAAACAGGCCAAGTTC
1 GTTTTTATGCATGATAAGATATTAAACAGGCCAAGTTC
20920235 ATGGATGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (38 bp):
GTTTTTATGCATGATAAGATATTAAACAGGCCAAGTTC
Found at i:20926450 original size:41 final size:41
Alignment explanation
Indices: 20926400--20926479 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
20926390 ATTTAAAAAT
* * *
20926400 TTTACAATTTTATCTTAT-AAAAAATATTTTATAAATATATA
1 TTTAAAATTTAAT-TTATCAAAAAATATTTTAAAAATATATA
* *
20926441 TTTAAAATTTAATTTATCATAACATATTTTAAAAATATA
1 TTTAAAATTTAATTTATCAAAAAATATTTTAAAAATATA
20926480 CCGACGTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (41 bp):
TTTAAAATTTAATTTATCAAAAAATATTTTAAAAATATATA
Found at i:20927728 original size:22 final size:22
Alignment explanation
Indices: 20927703--20927760 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
20927693 TATTAATATT
20927703 TTATATGATATAAATATATAAA
1 TTATATGATATAAATATATAAA
* *
20927725 TTATATGATTTAAATATATATA
1 TTATATGATATAAATATATAAA
20927747 TATATAT-ATATAAA
1 T-TATATGATATAAA
20927761 GAGTTATACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (22 bp):
TTATATGATATAAATATATAAA
Found at i:20934807 original size:6 final size:6
Alignment explanation
Indices: 20934798--20934824 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20934788 ACAACTAAAA
20934798 CTGGTT CTGGTT CTGGTT CTGGTT CTG
1 CTGGTT CTGGTT CTGGTT CTGGTT CTG
20934825 ACTCTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.33, T:0.48
Consensus pattern (6 bp):
CTGGTT
Found at i:20939512 original size:22 final size:23
Alignment explanation
Indices: 20939486--20939540 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
20939476 ATTAAAATTA
20939486 ATATTTAAATCTAATTG-ATGAT
1 ATATTTAAATCTAATTGTATGAT
*
20939508 ATA-TTAAATTTAATTGTATGAT
1 ATATTTAAATCTAATTGTATGAT
* *
20939530 AGATTTTAATC
1 ATATTTAAATC
20939541 CCTCCTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 12 0.44
22 10 0.37
23 5 0.19
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (23 bp):
ATATTTAAATCTAATTGTATGAT
Found at i:20941831 original size:23 final size:23
Alignment explanation
Indices: 20941781--20941832 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
20941771 TTGAAAGATT
*
20941781 TCTTAAAAATAAATTTTTAAGAA
1 TCTTAAAAATAAAATTTTAAGAA
20941804 T-TTAAAAATAAAATTTTAA-AA
1 TCTTAAAAATAAAATTTTAAGAA
20941825 GTCTTAAA
1 -TCTTAAA
20941833 CATGAGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 18 0.69
23 6 0.23
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTTAAAAATAAAATTTTAAGAA
Found at i:20943162 original size:8 final size:7
Alignment explanation
Indices: 20943150--20943185 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
20943140 CTAAAATAAA
20943150 AAAATTT
1 AAAATTT
20943157 ATAAATATT
1 A-AAAT-TT
20943166 AAAATTT
1 AAAATTT
20943173 AAAATTT
1 AAAATTT
20943180 AAAATT
1 AAAATT
20943186 ATTAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 16 0.59
8 8 0.30
9 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAAATTT
Found at i:20943181 original size:14 final size:16
Alignment explanation
Indices: 20943150--20943196 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
20943140 CTAAAATAAA
20943150 AAAATTTATAAATATT
1 AAAATTTATAAATATT
20943166 AAAATTTA-AAAT-TT
1 AAAATTTATAAATATT
20943180 AAAA-TTATTAAATATT
1 AAAATTTA-TAAATATT
20943196 A
1 A
20943197 CTTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.11
14 6 0.21
15 8 0.29
16 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTTATAAATATT
Found at i:20945895 original size:23 final size:24
Alignment explanation
Indices: 20945869--20945920 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
20945859 ATAATTTAAA
20945869 ATTTTAAC-AAAAAACATAAATAG
1 ATTTTAACGAAAAAACATAAATAG
* * *
20945892 A-TTTAACGAAAAAATATATATAT
1 ATTTTAACGAAAAAACATAAATAG
20945915 ATTTTA
1 ATTTTA
20945921 TATTTTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTTTAACGAAAAAACATAAATAG
Found at i:20950229 original size:15 final size:15
Alignment explanation
Indices: 20950189--20950231 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
20950179 CACTGTTGAA
20950189 TTCATCATCATCTTC
1 TTCATCATCATCTTC
* * *
20950204 CTCCTCCTCATCTTC
1 TTCATCATCATCTTC
20950219 TTCATCATCATCT
1 TTCATCATCATCT
20950232 GAAAAATGAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.40, G:0.00, T:0.44
Consensus pattern (15 bp):
TTCATCATCATCTTC
Found at i:20954594 original size:29 final size:28
Alignment explanation
Indices: 20954552--20954625 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
20954542 TGATTCATCT
* *
20954552 AATTATATCATATAAAATATTTAAATTTA
1 AATTATATAATATAAAATAATTAAA-TTA
* *
20954581 AATTTTATAATATAAACTAATTAAATTA
1 AATTATATAATATAAAATAATTAAATTA
* *
20954609 AATTCTA-AATTTAAAAT
1 AATTATATAATATAAAAT
20954626 TGCATCTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 8 0.21
28 9 0.24
29 21 0.55
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (28 bp):
AATTATATAATATAAAATAATTAAATTA
Found at i:20955170 original size:17 final size:17
Alignment explanation
Indices: 20955148--20955193 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 17
20955138 GAATTATTAA
20955148 TATTTTAATAATAACAT
1 TATTTTAATAATAACAT
20955165 TATTTT-A-AATAA-A-
1 TATTTTAATAATAACAT
20955178 -ATTTTAATAATAACAT
1 TATTTTAATAATAACAT
20955194 GTTAAATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 6 0.24
15 6 0.24
16 1 0.04
17 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTTTAATAATAACAT
Found at i:20961947 original size:14 final size:14
Alignment explanation
Indices: 20961902--20961950 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
20961892 CAAATATTAA
20961902 TTTTAATAAAATTT
1 TTTTAATAAAATTT
*
20961916 ATTTAATATAAATTT
1 TTTTAATA-AAATTT
20961931 TTTT-ATAAAATTT
1 TTTTAATAAAATTT
20961944 TTTTAAT
1 TTTTAAT
20961951 CACAATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 10 0.32
14 12 0.39
15 9 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAATAAAATTT
Found at i:20963266 original size:25 final size:24
Alignment explanation
Indices: 20963232--20963284 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
20963222 GGAGTTTGAC
20963232 AAAGAAAAAAGA-AAGCAGAGATGAG
1 AAAGAAAAAAGAGAAG-AG-GATGAG
* *
20963257 AAAGACAAAAGAGAAGTGGATGAG
1 AAAGAAAAAAGAGAAGAGGATGAG
20963281 AAAG
1 AAAG
20963285 TCAATATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
25 12 0.48
26 3 0.12
ACGTcount: A:0.60, C:0.04, G:0.30, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAAGAGAAGAGGATGAG
Found at i:20991828 original size:35 final size:33
Alignment explanation
Indices: 20991755--20991828 Score: 78
Period size: 35 Copynumber: 2.2 Consensus size: 33
20991745 AGCTTTTAGA
* * *
20991755 ATTTTTTTTTTGGTATTTGTGGTATTTGTAGTT
1 ATTTTTTTTTTGGTATTTGTAGAATTTGTAATT
*
20991788 TTTTTTTTTTTGGGTATTTTGTAGAATTTG-AATCT
1 ATTTTTTTTTT-GGTA-TTTGTAGAATTTGTAAT-T
20991823 ATTTTT
1 ATTTTT
20991829 GTGACAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
33 10 0.30
34 6 0.18
35 17 0.52
ACGTcount: A:0.15, C:0.01, G:0.18, T:0.66
Consensus pattern (33 bp):
ATTTTTTTTTTGGTATTTGTAGAATTTGTAATT
Found at i:20998396 original size:4 final size:4
Alignment explanation
Indices: 20998387--20998420 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
20998377 GTGAATTCCA
20998387 ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
20998421 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:21005122 original size:23 final size:23
Alignment explanation
Indices: 21005095--21005141 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21005085 TTAATTTATT
21005095 CACTGTCTTCATAATTAATGGTG
1 CACTGTCTTCATAATTAATGGTG
21005118 CACTGTCTTCATAATTAATGGTG
1 CACTGTCTTCATAATTAATGGTG
21005141 C
1 C
21005142 CTCAGCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (23 bp):
CACTGTCTTCATAATTAATGGTG
Found at i:21011985 original size:29 final size:29
Alignment explanation
Indices: 21011921--21011995 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
21011911 AATAAATTTC
*
21011921 ATATTA-ATTATCAAA--TTTACAATTTAA
1 ATATTATATTAT-AAATTTTTAAAATTTAA
**
21011948 ATACGATATTATAAATTTTTAAAATTTAA
1 ATATTATATTATAAATTTTTAAAATTTAA
21011977 ATATTATATTA-AATATTTT
1 ATATTATATTATAA-ATTTT
21011996 ATTATAATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.18
28 7 0.18
29 25 0.64
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (29 bp):
ATATTATATTATAAATTTTTAAAATTTAA
Found at i:21014414 original size:32 final size:33
Alignment explanation
Indices: 21014337--21014415 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 33
21014327 TATATATGAG
* *
21014337 TTTA-ATAAAATTTAAAATATATATTTTATATT
1 TTTATATAAAATATAAAATATAAATTTTATATT
* *
21014369 TTTATAT-AGATATAAATTATAAATTTTA-ATT
1 TTTATATAAAATATAAAATATAAATTTTATATT
*
21014400 TTTGTATAAAATATAA
1 TTTATATAAAATATAA
21014416 TAAGAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 9 0.23
32 28 0.72
33 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (33 bp):
TTTATATAAAATATAAAATATAAATTTTATATT
Found at i:21019432 original size:14 final size:14
Alignment explanation
Indices: 21019405--21019445 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
21019395 GTTTTGATTT
21019405 AAAA-ATTTTA-AA
1 AAAATATTTTACAA
21019417 AAAAT-TTTTCACAA
1 AAAATATTTT-ACAA
21019431 AAAATATTTTACAA
1 AAAATATTTTACAA
21019445 A
1 A
21019446 TTTAAACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.32
13 1 0.04
14 12 0.48
15 4 0.16
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATATTTTACAA
Found at i:21020786 original size:21 final size:21
Alignment explanation
Indices: 21020744--21020786 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
21020734 ATAATGTTAT
* *
21020744 ATGAAAAACTTTAAATAAAAA
1 ATGAAAAACTATAAACAAAAA
21020765 ATGAAAAA-TATAAACAACAAA
1 ATGAAAAACTATAAACAA-AAA
21020786 A
1 A
21020787 AAAGGTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (21 bp):
ATGAAAAACTATAAACAAAAA
Found at i:21021278 original size:21 final size:23
Alignment explanation
Indices: 21021245--21021302 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
21021235 TTTAAAAGTG
*
21021245 TATTTGTAA-ATTATTTTTAT-A
1 TATTTATAATATTATTTTTATGA
21021266 TATTT-TAATATTA--TTTATGA
1 TATTTATAATATTATTTTTATGA
*
21021286 TATTTATAATTTTATTT
1 TATTTATAATATTATTT
21021303 ATATTATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 5 0.16
20 9 0.29
21 16 0.52
23 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (23 bp):
TATTTATAATATTATTTTTATGA
Found at i:21021303 original size:21 final size:19
Alignment explanation
Indices: 21021256--21021306 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
21021246 ATTTGTAAAT
21021256 TATT-TTTATATATTTTAA
1 TATTATTTATATATTTTAA
21021274 TATTATTTATGATATTTATAA
1 TATTATTTAT-ATATTT-TAA
*
21021295 TTTTATTTATAT
1 TATTATTTATAT
21021307 TATCAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 5 0.17
20 8 0.28
21 12 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTATTTATATATTTTAA
Found at i:21022286 original size:15 final size:16
Alignment explanation
Indices: 21022266--21022295 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21022256 ATTTTATATT
21022266 TTTATA-TTATTTAAG
1 TTTATATTTATTTAAG
21022281 TTTATATTTATTTAA
1 TTTATATTTATTTAA
21022296 AAATAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTATATTTATTTAAG
Found at i:21022293 original size:27 final size:25
Alignment explanation
Indices: 21022236--21022289 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 25
21022226 ATATATAAAA
21022236 ATATTTTTATTATTTATTTAATTTT
1 ATATTTTTATTATTTATTTAATTTT
*
21022261 ATATTTTTA-TA-TTATTTAAGTTT
1 ATATTTTTATTATTTATTTAATTTT
21022284 ATATTT
1 ATATTT
21022290 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 17 0.61
24 2 0.07
25 9 0.32
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
ATATTTTTATTATTTATTTAATTTT
Found at i:21026092 original size:2 final size:2
Alignment explanation
Indices: 21026085--21026118 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21026075 ACATCTGAGT
21026085 TA TA TA TA TA TA TA TA 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
21026119 GGATGAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21030549 original size:23 final size:23
Alignment explanation
Indices: 21030497--21030549 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
21030487 AAAAAATTAT
* *
21030497 AAATATTAAATTTTAAATTTTAA
1 AAATAATAAATATTAAATTTTAA
** *
21030520 ACCTAATAAATATTAATTTTTAA
1 AAATAATAAATATTAAATTTTAA
21030543 AAATAAT
1 AAATAAT
21030550 TACATGAATC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATAATAAATATTAAATTTTAA
Found at i:21033440 original size:2 final size:2
Alignment explanation
Indices: 21033435--21033483 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
21033425 TTGCTGAAAA
21033435 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21033477 AG AG AG A
1 AG AG AG A
21033484 AAGTTATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21035656 original size:8 final size:8
Alignment explanation
Indices: 21035643--21035675 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
21035633 ATGTGATGAG
21035643 ATTTTTTA
1 ATTTTTTA
21035651 ATTTTTTA
1 ATTTTTTA
21035659 ATTTTTTA
1 ATTTTTTA
*
21035667 ATTTATTA
1 ATTTTTTA
21035675 A
1 A
21035676 ATTTGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTTTA
Found at i:21036700 original size:19 final size:18
Alignment explanation
Indices: 21036660--21036700 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
21036650 ATCATTTTCA
* *
21036660 TATTTTTTCATGTAATAT
1 TATTTTATCATGTAAAAT
21036678 TATTTTATCATGTATAAAT
1 TATTTTATCATGTA-AAAT
21036697 TATT
1 TATT
21036701 AAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TATTTTATCATGTAAAAT
Found at i:21036762 original size:11 final size:12
Alignment explanation
Indices: 21036739--21036767 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21036729 GACTTATTTT
21036739 ATAAAAAATAAA
1 ATAAAAAATAAA
21036751 ATAAAAAA-AAA
1 ATAAAAAATAAA
21036762 ATAAAA
1 ATAAAA
21036768 TTCACTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:21041134 original size:18 final size:18
Alignment explanation
Indices: 21041081--21041147 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
21041071 AGACTCTTTA
* *
21041081 ATTTTTTAAAATAATATT
1 ATTTATTAATATAATATT
* * *
21041099 AATATAATTATTAAAATATT
1 -AT-TTATTAATATAATATT
21041119 ATTTATTAATATAATATT
1 ATTTATTAATATAATATT
*
21041137 ATTTATAAATA
1 ATTTATTAATA
21041148 AATTATACTA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
18 23 0.61
19 4 0.11
20 11 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATTAATATAATATT
Found at i:21048952 original size:2 final size:2
Alignment explanation
Indices: 21048945--21048970 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21048935 ACATCTGAGT
21048945 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21048971 GGATGAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21051186 original size:99 final size:99
Alignment explanation
Indices: 21051015--21051194 Score: 324
Period size: 99 Copynumber: 1.8 Consensus size: 99
21051005 AGAATATCAC
* *
21051015 AGATCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTTACTGGGATATAAAAGG
1 AGATCTAAGGAAGAGTCATGAATCCCACATCGAACATAATAAGAAGGTTACTGGGATATAAAAGG
21051080 GTTCTCACCACCTCTGCACATCGAACATAATAAG
66 GTTCTCACCACCTCTGCACATCGAACATAATAAG
* *
21051114 AGATCTAAGGAAGAGTCATGAATCCCACATCGAACATAATAAGAGGGTTACTGGGGTATAAAAGG
1 AGATCTAAGGAAGAGTCATGAATCCCACATCGAACATAATAAGAAGGTTACTGGGATATAAAAGG
21051179 GTTCTCACCACCTCTG
66 GTTCTCACCACCTCTG
21051195 TCTTATGAGG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (99 bp):
AGATCTAAGGAAGAGTCATGAATCCCACATCGAACATAATAAGAAGGTTACTGGGATATAAAAGG
GTTCTCACCACCTCTGCACATCGAACATAATAAG
Found at i:21051709 original size:28 final size:28
Alignment explanation
Indices: 21051669--21051727 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
21051659 AGGAGGGTCA
21051669 CTGAGGTATAAAAGGGTTCTCACCACCT
1 CTGAGGTATAAAAGGGTTCTCACCACCT
21051697 CTGAGGTATAAAAGGGTTCTCACCACCT
1 CTGAGGTATAAAAGGGTTCTCACCACCT
21051725 CTG
1 CTG
21051728 TCTTATGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (28 bp):
CTGAGGTATAAAAGGGTTCTCACCACCT
Found at i:21051840 original size:268 final size:264
Alignment explanation
Indices: 21051138--21051842 Score: 1055
Period size: 265 Copynumber: 2.7 Consensus size: 264
21051128 GTCATGAATC
*
21051138 CCACATCGAACATAATAAGAGGGTTACTGGGGTATAAAAGGGTTCTCACCACCTCTGTCTTATGA
1 CCACATCGAACATAATAAGAGGGTTACTGAGGTATAAAAGGGTTCTCACCACCTCTGTCTTATGA
21051203 GGCGTCTTTTATAAGACAAAACCGTGAGGTCAAGGGGGCCAAAGCGGATAATACCTCACAAGGGT
66 GGCGTCTTTTATAAGACAAAACCGTGAGGTCAAGGGGGCCAAAGCGGATAATACCTCACAAGGGT
21051268 GTGAACCGTGCCGGTTAGGCTGATCTGAGACGCCGGATGAGTAGAATGCCCGGGTCCCGAAGTCG
131 GTGAACCGTGCCGGTTAGGCTGATCTGAGACGCCGGATGAGTAGAATGCCCGGGTCCCGAAGTCG
*
21051333 CGCGAGTTCGGAGCTTAAGTCTCGACCCGTAGAAGAGTCCTGAATCCCATATGGAACACAATAGG
196 CGCGAGTTCAGAGCTTAAGTCTCGACCCGTAGAAGAGTCCTGAATCCCATATGGAACACAATAGG
21051398 AGAT
261 AGAT
* *
21051402 CCCACATCGAACATAATAAGAGGGTTACTGGGGTATAAAAGGGTTCTCACCACCTCTGTATTATG
1 -CCACATCGAACATAATAAGAGGGTTACTGAGGTATAAAAGGGTTCTCACCACCTCTGTCTTATG
21051467 AGGCGTCTTTTATAAGACAAAACCGTGAGGTCAAGGGGGCCAAAGCGGATAATACCTCACAAGGG
65 AGGCGTCTTTTATAAGACAAAACCGTGAGGTCAAGGGGGCCAAAGCGGATAATACCTCACAAGGG
21051532 TGTGAACCGTGCCGGTTAGGCTGATCTGAGACGCCGGATGAGTAG-ATGCCCGGGTCCCGAAGTC
130 TGTGAACCGTGCCGGTTAGGCTGATCTGAGACGCCGGATGAGTAGAATGCCCGGGTCCCGAAGTC
*
21051596 GCGCGAGTTCAGAGCTTAAGTCTCGACCCGTAGAAGAGT-CTCGAATCCCATATGGAACATAATA
195 GCGCGAGTTCAGAGCTTAAGTCTCGACCCGTAGAAGAGTCCT-GAATCCCATATGGAACACAATA
*
21051660 GGAGGGT
259 GGA-GAT
** *
21051667 -CAC-T-GAGGTATAA-AAG-GGTTCTCACCACCTCTGAGGTATAAAAGGGTTCTCACCACCTCT
1 CCACATCGA-ACATAATAAGAGGGT-T----A---CTGAGGTATAAAAGGGTTCTCACCACCTCT
* * * *
21051727 GTCTTATGAGACGTCTTTTATAGGACAAAACCGTGAGGTCAAAGGGGCCAAAGCGGATAATACTT
57 GTCTTATGAGGCGTCTTTTATAAGACAAAACCGTGAGGTCAAGGGGGCCAAAGCGGATAATACCT
* * * ** ** * *
21051792 CACAAGAGTGTGAATCATATCAATTAGGTTGATCTGAGACGTCGGATGAGT
122 CACAAGGGTGTGAACCGTGCCGGTTAGGCTGATCTGAGACGCCGGATGAGT
21051843 GGAGGACAAT
Statistics
Matches: 407, Mismatches: 22, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
260 3 0.01
261 6 0.01
262 5 0.01
263 5 0.01
264 81 0.20
265 176 0.43
268 131 0.32
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (264 bp):
CCACATCGAACATAATAAGAGGGTTACTGAGGTATAAAAGGGTTCTCACCACCTCTGTCTTATGA
GGCGTCTTTTATAAGACAAAACCGTGAGGTCAAGGGGGCCAAAGCGGATAATACCTCACAAGGGT
GTGAACCGTGCCGGTTAGGCTGATCTGAGACGCCGGATGAGTAGAATGCCCGGGTCCCGAAGTCG
CGCGAGTTCAGAGCTTAAGTCTCGACCCGTAGAAGAGTCCTGAATCCCATATGGAACACAATAGG
AGAT
Found at i:21052707 original size:43 final size:44
Alignment explanation
Indices: 21052634--21052722 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 44
21052624 TCTCTATCCA
*
21052634 ATTTTATATTTATAATATTCAAATTTGATTCAATTTAATAAAAT
1 ATTTTATATTTATAATATTCAAATTCGATTCAATTTAATAAAAT
* * * * *
21052678 ATTTTAT-TTTTTTATATTCGAATTCGATTCGATTTAATATAAT
1 ATTTTATATTTATAATATTCAAATTCGATTCAATTTAATAAAAT
21052721 AT
1 AT
21052723 AAAAATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 32 0.82
44 7 0.18
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (44 bp):
ATTTTATATTTATAATATTCAAATTCGATTCAATTTAATAAAAT
Found at i:21054178 original size:21 final size:22
Alignment explanation
Indices: 21054154--21054199 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
21054144 TAAAAATATA
*
21054154 AAATATATTT-TTAATTTTATT
1 AAATATATTTATCAATTTTATT
*
21054175 AAATTTATTTATCAATTTTATT
1 AAATATATTTATCAATTTTATT
21054197 AAA
1 AAA
21054200 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AAATATATTTATCAATTTTATT
Found at i:21054222 original size:11 final size:11
Alignment explanation
Indices: 21054208--21054261 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
21054198 AAATTTTAAA
21054208 TTATATTATTT
1 TTATATTATTT
*
21054219 TTATATTTTTTAT
1 TTATA-TTATT-T
*
21054232 TTATATTAATT
1 TTATATTATTT
21054243 TTATATTATATT
1 TTATATTAT-TT
21054255 ATTATAT
1 -TTATAT
21054262 CTTATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 14 0.40
12 9 0.26
13 12 0.34
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATTATTT
Found at i:21054222 original size:40 final size:40
Alignment explanation
Indices: 21054160--21054257 Score: 92
Period size: 40 Copynumber: 2.5 Consensus size: 40
21054150 TATAAAATAT
* * **
21054160 ATTTTTAATTTTATTAAATTTAT-TTATCAATTT-TATTAAA
1 ATTTTAAATTATATTATTTTTATATTATCAATTTATATT--A
* **
21054200 ATTTTAAATTATATTATTTTTATATTTTTTATTTATATTA
1 ATTTTAAATTATATTATTTTTATATTATCAATTTATATTA
*
21054240 ATTTTATATTATATTATT
1 ATTTTAAATTATATTATT
21054258 ATATCTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 37 0.77
41 7 0.15
42 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTAAATTATATTATTTTTATATTATCAATTTATATTA
Found at i:21054228 original size:24 final size:24
Alignment explanation
Indices: 21054201--21054249 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
21054191 TTTATTAAAA
*
21054201 TTTTAAATTATATTATTTTTATAT
1 TTTTAAATTATATTAATTTTATAT
* *
21054225 TTTTTATTTATATTAATTTTATAT
1 TTTTAAATTATATTAATTTTATAT
21054249 T
1 T
21054250 ATATTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTAAATTATATTAATTTTATAT
Found at i:21054236 original size:13 final size:14
Alignment explanation
Indices: 21054218--21054257 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
21054208 TTATATTATT
21054218 TTTATATT-TTTTA
1 TTTATATTATTTTA
21054231 TTTATATTAATTTTA
1 TTTATATT-ATTTTA
21054246 TATTATATTATT
1 T-TTATATTATT
21054258 ATATCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.33
15 9 0.38
16 7 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATATTATTTTA
Found at i:21054259 original size:24 final size:24
Alignment explanation
Indices: 21054207--21054276 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
21054197 AAAATTTTAA
* *
21054207 ATTATATTATTTTTATATT-TTTT
1 ATTATATTAATTTTATATTATATT
21054230 ATTTATATTAATTTTATATTATATT
1 A-TTATATTAATTTTATATTATATT
* *
21054255 ATTATATCTTATTTTAAATTAT
1 ATTATAT-TAATTTTATATTAT
21054277 CATATTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 23 0.57
25 16 0.40
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTATATTAATTTTATATTATATT
Found at i:21054267 original size:13 final size:12
Alignment explanation
Indices: 21054207--21054267 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
21054197 AAAATTTTAA
21054207 ATTATA-TTATT
1 ATTATATTTATT
* *
21054218 TTTATATTTTTT
1 ATTATATTTATT
*
21054230 ATTTATATTAATT
1 A-TTATATTTATT
21054243 -TTATATTATATT
1 ATTATATT-TATT
21054255 ATTATATCTTATT
1 ATTATAT-TTATT
21054268 TTAAATTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 12 0.31
12 7 0.18
13 19 0.49
14 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTATATTTATT
Found at i:21060134 original size:3 final size:3
Alignment explanation
Indices: 21060117--21060149 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
21060107 ACAATGAAGC
*
21060117 CTT C-T CTT TTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
21060150 GGCTTTGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:21063889 original size:18 final size:18
Alignment explanation
Indices: 21063834--21063902 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
21063824 TGAAGAATCT
* *
21063834 TTATTTTTTAAAATAATA
1 TTATTTATTAATATAATA
* * *
21063852 TTAATATAATTATTAAAATA
1 TT-AT-TTATTAATATAATA
21063872 TTATTTATTAATATAATA
1 TTATTTATTAATATAATA
*
21063890 TTATTTATAAATA
1 TTATTTATTAATA
21063903 AAATTATATT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 25 0.62
19 4 0.10
20 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATTTATTAATATAATA
Found at i:21067958 original size:33 final size:33
Alignment explanation
Indices: 21067921--21067990 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
21067911 TAAAATCTAA
21067921 TATAGATAATTGGAAAGTTAATGAGATTTTTTT
1 TATAGATAATTGGAAAGTTAATGAGATTTTTTT
21067954 TATAGATAATTGGAAAGTTAATGAGATTTTTTT
1 TATAGATAATTGGAAAGTTAATGAGATTTTTTT
21067987 TATA
1 TATA
21067991 AGTTTATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (33 bp):
TATAGATAATTGGAAAGTTAATGAGATTTTTTT
Found at i:21071922 original size:135 final size:135
Alignment explanation
Indices: 21071722--21072421 Score: 1035
Period size: 135 Copynumber: 5.2 Consensus size: 135
21071712 ACACCAGGGA
* * * *
21071722 ACAGCCCTGGTG-TTGATCATTCTTTTGTAGAAGATGATGAAGATACTCAACAAAAATCAGGAAG
1 ACAGCCCTGGTGCTGGA-CATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAG
21071786 CATTAGCCCAAGCAATGATAAGCATTCTATTGCAGAAGATAAGGAAGATTTCCGACCTACCGACC
65 CATTAGCCCAAGCAATGATAAGCATTCTATTGCAGAAGATAAGGAAGATTTCCGACCTACCGACC
21071851 CAGGAC
130 CAGGAC
* *
21071857 ATAGCCCTGATGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
1 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
* * * *
21071922 ATTAGCCAAAGCAATTACAAGCATTCTACTGCAGAA-ACTAAGGAAGATTTCCGACCTACCGACC
66 ATTAGCCCAAGCAATGATAAGCATTCTATTGCAGAAGA-TAAGGAAGATTTCCGACCTACCGACC
21071986 CAGGAC
130 CAGGAC
* *
21071992 ACAGCCCTGGTGCTGGACATTCTATAGCAGAAGATGATGAAGATACTGAACAAAAATCAGTAAGC
1 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
** * * * *
21072057 ATTAGCGGAAACAACGATAAGCATTCTATTGCAGAAGCTAAGGAAGATTTCCGACCTACCCACCC
66 ATTAGCCCAAGCAATGATAAGCATTCTATTGCAGAAGATAAGGAAGATTTCCGACCTACCGACCC
21072122 AGGAC
131 AGGAC
* * *
21072127 ACAGCCCCGGTGCTGGACATTCTTTAGCAGAAGATGATAAAGATACTGAACAAAAATCCGGAAGC
1 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
* *
21072192 ATTAGCCCAAGCAAAGATAAGCATTCTATTGCAGAAGGTAAGGAAGATTTCCGACCTACCGACCC
66 ATTAGCCCAAGCAATGATAAGCATTCTATTGCAGAAGATAAGGAAGATTTCCGACCTACCGACCC
21072257 AGGAC
131 AGGAC
* * * * **
21072262 ACAGCCCTGGTGTTGGACATTCTATAGCAGAAGATGATGAATATGCTGAACAAAAATCATTAAGC
1 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
* * * *
21072327 ATTAGCCCAAGCAATGATAAGCATTCGACTGCAGAAGGTAAGGAAGATTTCCGACCTACCAACCC
66 ATTAGCCCAAGCAATGATAAGCATTCTATTGCAGAAGATAAGGAAGATTTCCGACCTACCGACCC
21072392 AGGAC
131 AGGAC
* * * *
21072397 ACAGCCCGGGAGCTGGTCATGCTTT
1 ACAGCCCTGGTGCTGGACATTCTTT
21072422 CCCAAGCAAA
Statistics
Matches: 509, Mismatches: 53, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
134 1 0.00
135 505 0.99
136 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (135 bp):
ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
ATTAGCCCAAGCAATGATAAGCATTCTATTGCAGAAGATAAGGAAGATTTCCGACCTACCGACCC
AGGAC
Found at i:21074924 original size:2 final size:2
Alignment explanation
Indices: 21074912--21074944 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21074902 AATATAGTAA
21074912 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21074945 CAAGGGGAGG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21076052 original size:6 final size:6
Alignment explanation
Indices: 21076041--21076068 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21076031 ATAAAATATA
21076041 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
21076069 AAATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:21076077 original size:18 final size:18
Alignment explanation
Indices: 21076028--21076078 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
21076018 TACATAATTT
*
21076028 ATTAT-AAAA-TATAATA
1 ATTATAAAAATTATTATA
** *
21076044 ATTATAATTATAATTATA
1 ATTATAAAAATTATTATA
21076062 ATTATAAAAATTATTAT
1 ATTATAAAAATTATTAT
21076079 TCAATGATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
16 5 0.19
17 2 0.08
18 19 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTATAAAAATTATTATA
Found at i:21076476 original size:18 final size:18
Alignment explanation
Indices: 21076449--21076571 Score: 112
Period size: 18 Copynumber: 7.1 Consensus size: 18
21076439 TCTTTGTTCT
21076449 TGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
*
21076467 TGATATATTTGA---GGA
1 TGATACATTTGAGGTGGA
*
21076482 TGATACATTTGTGGTGGA
1 TGATACATTTGAGGTGGA
* * * * *
21076500 GGGTATATTTGTGGT-AA
1 TGATACATTTGAGGTGGA
*
21076517 CTAATACATTTGAGGTGGA
1 -TGATACATTTGAGGTGGA
* *
21076536 TGATATATTTGAGGAGG-
1 TGATACATTTGAGGTGGA
21076553 TGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
21076571 T
1 T
21076572 AATAACCATA
Statistics
Matches: 81, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.16
17 16 0.20
18 51 0.63
19 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.32, T:0.37
Consensus pattern (18 bp):
TGATACATTTGAGGTGGA
Found at i:21076484 original size:15 final size:15
Alignment explanation
Indices: 21076449--21076492 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
21076439 TCTTTGTTCT
21076449 TGATACATTTGAGGTGGA
1 TGATACATTTGA---GGA
*
21076467 TGATATATTTGAGGA
1 TGATACATTTGAGGA
21076482 TGATACATTTG
1 TGATACATTTG
21076493 TGGTGGAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
18 11 0.46
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.39
Consensus pattern (15 bp):
TGATACATTTGAGGA
Found at i:21076959 original size:27 final size:27
Alignment explanation
Indices: 21076921--21076972 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
21076911 TCACACCATC
*
21076921 ACCATCACCATCATCA-TCTGGACTTAA
1 ACCACCACCATCATCACTCT-GACTTAA
21076948 ACCACCACCATCATCACTCTGACTT
1 ACCACCACCATCATCACTCTGACTT
21076973 GGTGTTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (27 bp):
ACCACCACCATCATCACTCTGACTTAA
Found at i:21080001 original size:27 final size:27
Alignment explanation
Indices: 21079971--21080058 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
21079961 ATTAAATAAC
21079971 TTAATCTTTTTGATGCACTAATTGATA
1 TTAATCTTTTTGATGCACTAATTGATA
* *
21079998 TTAAT-TTTTTTAT-CA-TAAAT-A-A
1 TTAATCTTTTTGATGCACTAATTGATA
21080020 CTTAATCTTTTTGATGCACTAATTGATA
1 -TTAATCTTTTTGATGCACTAATTGATA
*
21080048 TTAATTTTTTT
1 TTAATCTTTTT
21080059 ATCATAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
22 1 0.02
23 6 0.12
24 11 0.22
25 4 0.08
26 11 0.22
27 16 0.32
28 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (27 bp):
TTAATCTTTTTGATGCACTAATTGATA
Found at i:21080017 original size:50 final size:50
Alignment explanation
Indices: 21079963--21080072 Score: 220
Period size: 50 Copynumber: 2.2 Consensus size: 50
21079953 AGAATATTAT
21079963 TAAATAACTTAATCTTTTTGATGCACTAATTGATATTAATTTTTTTATCA
1 TAAATAACTTAATCTTTTTGATGCACTAATTGATATTAATTTTTTTATCA
21080013 TAAATAACTTAATCTTTTTGATGCACTAATTGATATTAATTTTTTTATCA
1 TAAATAACTTAATCTTTTTGATGCACTAATTGATATTAATTTTTTTATCA
21080063 TAAATAACTT
1 TAAATAACTT
21080073 CAAATAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (50 bp):
TAAATAACTTAATCTTTTTGATGCACTAATTGATATTAATTTTTTTATCA
Found at i:21080030 original size:25 final size:23
Alignment explanation
Indices: 21079963--21080072 Score: 80
Period size: 26 Copynumber: 4.4 Consensus size: 23
21079953 AGAATATTAT
*
21079963 TAAATAACTTAATCTTTTTGATGCA
1 TAAATAACTTAAT-TTTTTTAT-CA
*
21079988 CTAATTGATA-TTAATTTTTTTATCA
1 -TAAAT-A-ACTTAATTTTTTTATCA
*
21080013 TAAATAACTTAATCTTTTTGATGCA
1 TAAATAACTTAAT-TTTTTTAT-CA
*
21080038 CTAATTGATA-TTAATTTTTTTATCA
1 -TAAAT-A-ACTTAATTTTTTTATCA
21080063 TAAATAACTT
1 TAAATAACTT
21080073 CAAATAATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
22 2 0.03
23 9 0.13
24 15 0.22
25 6 0.09
26 22 0.32
27 12 0.18
28 2 0.03
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (23 bp):
TAAATAACTTAATTTTTTTATCA
Found at i:21080751 original size:60 final size:59
Alignment explanation
Indices: 21080562--21081204 Score: 821
Period size: 57 Copynumber: 10.7 Consensus size: 59
21080552 TTTTTTTTAG
*
21080562 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTT--ATTTTCTAA
* * *
21080621 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCA-CTTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTG-AAATTTATTTTCTAA
21080680 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAA-TTT-ATTTTCTAA
21080740 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTT-GAAATTTATTTTC---TAA
* *
21080805 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTT-GAAATTTATTTTCTAA
* *
21080865 GGAAAATTGATACTTTCAA-TTTCTCCCTAAAAATA--TTTTTTGAAAATTTATTCT-TAA
1 GGAAAATTGATACTTTCAACTTT-TCCCCAAAAATATTTTTTTTG-AAATTTATTTTCTAA
* *
21080922 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTT-TTTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAATTTATTTTCTAA
*
21080982 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTCTAA
*
21081039 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTT-TTTT-GAAATTTA-TTTTC---TAA
*
21081104 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTCTAA
* *
21081161 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTT
21081205 AGATTTTTTT
Statistics
Matches: 527, Mismatches: 23, Indels: 68
0.85 0.04 0.11
Matches are distributed among these distances:
56 1 0.00
57 136 0.26
58 16 0.03
59 92 0.17
60 132 0.25
61 23 0.04
62 23 0.04
63 11 0.02
64 21 0.04
65 72 0.14
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTCTAA
Found at i:21080938 original size:117 final size:117
Alignment explanation
Indices: 21080562--21081204 Score: 890
Period size: 117 Copynumber: 5.4 Consensus size: 117
21080552 TTTTTTTTAG
*
21080562 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTCGATTT-TCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTT--ATTTCT-AAGG
* * *
21080623 AAAATTGATACTTTCAACTTTTCCTCAAAAACCACTTTTTTGAAAATTTATTTCTAA
63 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TA-TTTTTTGGAAATTTATTTCTAA
*
21080680 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTT-GAAATTTTGATTT-TCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAA-TTT-ATTTCT-AAGG
21080742 AAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTCTTTTAA
63 AAAATTGATACTTTCAACTTTTCCCCAAAAATA----TTTTTTGGAAATTTA-TTTC---TAA
*
21080805 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAA
* *
21080870 ATTGATACTTTCAA-TTTCTCCCTAAAAATATTTTTTGAAAATTTA-TTCTTAA
66 ATTGATACTTTCAACTTT-TCCCCAAAAATATTTTTTGGAAATTTATTTC-TAA
* * *
21080922 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTTTTTCTGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAA
21080987 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
*
21081039 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTA--TTTC---TAA
21081104 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
61 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
* *
21081161 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
21081205 AGATTTTTTT
Statistics
Matches: 483, Mismatches: 21, Indels: 38
0.89 0.04 0.07
Matches are distributed among these distances:
117 157 0.33
118 42 0.09
119 52 0.11
120 9 0.02
121 28 0.06
122 104 0.22
124 3 0.01
125 72 0.15
126 12 0.02
127 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:21081307 original size:12 final size:11
Alignment explanation
Indices: 21081290--21081348 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 11
21081280 TAATAAATAA
21081290 AAAATAAAAAAT
1 AAAA-AAAAAAT
21081302 AAAATAAACAAAT
1 AAAA-AAA-AAAT
*
21081315 AAACAAAGAAAT
1 AAA-AAAAAAAT
*
21081327 AAAAAAAAATT
1 AAAAAAAAAAT
21081338 CAAAAAAAAAA
1 -AAAAAAAAAA
21081349 AAACCTGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 6 0.15
12 24 0.60
13 9 0.22
14 1 0.03
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:21081314 original size:8 final size:7
Alignment explanation
Indices: 21081284--21081350 Score: 52
Period size: 8 Copynumber: 9.4 Consensus size: 7
21081274 CTAATCTAAT
21081284 AAATAAA
1 AAATAAA
21081291 AAATAAA
1 AAATAAA
21081298 AAAT--A
1 AAATAAA
21081303 AAATAAA
1 AAATAAA
21081310 CAAATAAA
1 -AAATAAA
*
21081318 CAAAGAAA
1 -AAATAAA
21081326 TAAA-AAA
1 -AAATAAA
21081333 AAATTCAAA
1 AAA-T-AAA
21081342 AAA-AAA
1 AAATAAA
21081348 AAA
1 AAA
21081351 ACCTGGAGCG
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
5 5 0.10
6 9 0.17
7 15 0.29
8 17 0.33
9 6 0.12
ACGTcount: A:0.82, C:0.04, G:0.01, T:0.12
Consensus pattern (7 bp):
AAATAAA
Found at i:21081326 original size:20 final size:19
Alignment explanation
Indices: 21081284--21081332 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
21081274 CTAATCTAAT
21081284 AAATAAAAAATAAAAAATA
1 AAATAAAAAATAAAAAATA
*
21081303 AAATAAACAAATAAACAAA-G
1 AAATAAA-AAATAAA-AAATA
21081323 AAATAAAAAA
1 AAATAAAAAA
21081333 AAATTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 14 0.52
21 3 0.11
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (19 bp):
AAATAAAAAATAAAAAATA
Found at i:21081771 original size:19 final size:19
Alignment explanation
Indices: 21081729--21081773 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
21081719 TCTGGGATTC
* *
21081729 TTCGCCGGAAACTGGACTG
1 TTCGCCGGAAACTGCAATG
* *
21081748 GTCGCCGGAAACTTCAATG
1 TTCGCCGGAAACTGCAATG
21081767 TTCGCCG
1 TTCGCCG
21081774 AAATTGTTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.22
Consensus pattern (19 bp):
TTCGCCGGAAACTGCAATG
Found at i:21082523 original size:21 final size:20
Alignment explanation
Indices: 21082468--21082525 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
21082458 CTTACCCCTT
21082468 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
21082488 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
*
21082508 TGGGCCCGGACCCAATTG
1 TGGGCCAGG-CCCAATTG
21082526 GGTGTCTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 28 0.78
21 8 0.22
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (20 bp):
TGGGCCAGGCCCAATTGATC
Found at i:21083146 original size:19 final size:20
Alignment explanation
Indices: 21083122--21083159 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21083112 AACAACAAAA
*
21083122 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
21083141 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
21083160 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:21086691 original size:2 final size:2
Alignment explanation
Indices: 21086684--21086708 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21086674 GTCTAGGGAT
21086684 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21086709 CAAGTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21088221 original size:2 final size:2
Alignment explanation
Indices: 21088214--21088243 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21088204 AACATATCTA
21088214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21088244 GCACAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21088385 original size:9 final size:9
Alignment explanation
Indices: 21088362--21088391 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21088352 AATTTTAAAT
21088362 TTATTCAAA
1 TTATTCAAA
21088371 -TATTCAAA
1 TTATTCAAA
21088379 TTATTCAAA
1 TTATTCAAA
21088388 TTAT
1 TTAT
21088392 AATTGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (9 bp):
TTATTCAAA
Found at i:21092511 original size:3 final size:3
Alignment explanation
Indices: 21092503--21092542 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
21092493 CACCAAAGGT
*
21092503 TTA TTA TTA TTA TTA TTA TTTA TTGA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TT
21092543 TTTTTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21092533 original size:20 final size:19
Alignment explanation
Indices: 21092502--21092543 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
21092492 CCACCAAAGG
*
21092502 TTTATTATTATTATTATTA
1 TTTATTATTATTATCATTA
21092521 TTTATTGATTATTATCATTA
1 TTTATT-ATTATTATCATTA
21092541 TTT
1 TTT
21092544 TTTTTTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATTATTATTATCATTA
Found at i:21092558 original size:26 final size:27
Alignment explanation
Indices: 21092502--21092559 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
21092492 CCACCAAAGG
*
21092502 TTTATTATTATTATTATTATTTATTGA
1 TTTATTATCATTATTATTATTTATTGA
* * *
21092529 -TTATTATCATTATTTTTTTTTCTT-A
1 TTTATTATCATTATTATTATTTATTGA
21092554 TTTATT
1 TTTATT
21092560 TATTGACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTATTATCATTATTATTATTTATTGA
Found at i:21092863 original size:57 final size:57
Alignment explanation
Indices: 21092712--21093178 Score: 335
Period size: 58 Copynumber: 7.8 Consensus size: 57
21092702 AAAAGTAAAT
* * *
21092712 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAATTATAAAAA
1 ATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTT---TCA-AAAAC
* * *
21092774 ATATTTTGAGGAAAAATTTGAAAGTATTAATTTTCCTTAAAAA-AGAAATTTTGAAAAAC
1 AT-TTTTGAGGAAAAA-TTGAAAGTATCAATTTTTCTTAAAAATA-AAATTTTCAAAAAC
*
21092833 ATTTTTGAGGAAAAATTGAAAGTGTCAATTTTTCTTAAAAATAAAATTTTCAAAAAGC
1 ATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAA-C
*
21092891 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAGAATAAAAATAAAATTTTTTCAAAAAA
1 ATTTTTGAGGAAAAATTGAAAGTATCAATTTTTC-T-----TAAAAATAAAA--TTTTC-AAAAA
*
21092956 A
57 C
* * * * * * *
21092957 ATATCTTTGA-GAAAAGTTAAAAATATCAATTTTTCTTCAAAATAAAATCGTTAAAAAGGAA
1 AT-T-TTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAAT-TTTCAAAA--AC
* * * * *
21093018 ATATTTTAAAGAAAAATTGAAAGTATCAATTTTCCTT-GAAATAAAATTTTCAAAAAAGG
1 AT-TTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTC-AAAAA-C
* * * *
21093077 ATTTTTTGA-GAAAAAGCTG-AA--AT---TTTTT-TTAAAAATGAAATTTTTAAGAAAAAT
1 A-TTTTTGAGGAAAAA-TTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTT--CAAAAAC
*
21093131 ATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAGAAAT
1 ATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATA-AAAT
21093179 GTCAAAATGC
Statistics
Matches: 332, Mismatches: 36, Indels: 76
0.75 0.08 0.17
Matches are distributed among these distances:
52 2 0.01
53 17 0.05
54 16 0.05
55 5 0.02
56 4 0.01
57 35 0.11
58 56 0.17
59 28 0.08
60 32 0.10
61 39 0.12
62 3 0.01
63 18 0.05
64 35 0.11
66 8 0.02
67 29 0.09
68 5 0.02
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (57 bp):
ATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAC
Found at i:21092936 original size:121 final size:123
Alignment explanation
Indices: 21092712--21093170 Score: 392
Period size: 121 Copynumber: 3.8 Consensus size: 123
21092702 AAAAGTAAAT
* *
21092712 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAATTATAAAAAATA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTC-A--A-AAAGAATA
* * * * *
21092777 TTTTGAGGAAAAATTTGAAAGTATTAATTTTCCTT---A-AAAAA-GAAA-TTTT-GAAAAAC
62 TTTTGAGGAAAAA-TTGAAAGTATCAATTTTTCTTGAAATAAAAATAAAATTTTTCAAAAAAA
* * *
21092833 ATTTTTGAGGAAAAATTGAAAGTGTCAATTTTTCTTAAAAATAAAATTTTCAAAAAGCAT-TTTT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAGAATATTTT
*
21092897 GAGGAAAAGTTGAAAGTATCAATTTTTCTTGAGAATAAAAATAAAATTTTTTCAAAAAAA
66 GAGGAAAAATTGAAAGTATCAATTTTTCTTGA-AATAAAAATAAAA-TTTTTCAAAAAAA
* * * *
21092957 ATATCTTTGA-GAAAAGTTAAAAATATCAATTTTTCTTCAAAATAAAATCGTT-AAAAAGGAAAT
1 AT-T-TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAT-TTTCAAAAA-G-AAT
* * *
21093020 ATTTTAAAGAAAAATTGAAAGTATCAATTTTCCTTG------AAATAAAA-TTTTCAAAAAAGGA
61 ATTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAATAAAAATAAAATTTTTCAAAAAA--A
* * * * *
21093078 TTTTTTGAGAAAAAGCTG-AA--AT---TTTTT-TTAAAAATGAAATTTTTAAGAAA-AATATTT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAA-AAAGAATA-TT
21093135 TTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAA
64 TTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAA
21093171 ATAGAAATGT
Statistics
Matches: 282, Mismatches: 32, Indels: 54
0.77 0.09 0.15
Matches are distributed among these distances:
111 4 0.01
112 34 0.12
113 13 0.05
114 8 0.03
115 19 0.07
116 12 0.04
117 7 0.02
118 1 0.00
119 19 0.07
120 13 0.05
121 61 0.22
123 4 0.01
124 7 0.02
125 39 0.14
126 8 0.03
127 2 0.01
128 31 0.11
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (123 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAGAATATTTT
GAGGAAAAATTGAAAGTATCAATTTTTCTTGAAATAAAAATAAAATTTTTCAAAAAAA
Found at i:21093128 original size:18 final size:18
Alignment explanation
Indices: 21093079--21093130 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
21093069 AAAAAAGGAT
*
21093079 TTTTTGAGAAAAAGCTGAAA
1 TTTTTAAGAAAAA--TGAAA
***
21093099 TTTTTTTTAAAAATGAAA
1 TTTTTAAGAAAAATGAAA
21093117 TTTTTAAGAAAAAT
1 TTTTTAAGAAAAAT
21093131 ATTTTTGAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 16 0.62
20 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (18 bp):
TTTTTAAGAAAAATGAAA
Found at i:21103775 original size:52 final size:52
Alignment explanation
Indices: 21103690--21103796 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
21103680 TTTTTTTAAC
*
21103690 AAAAAAAAAGAGGTCAAATTGAAAACCCGTAAAGGGCGATTTGAG-TTCAAA
1 AAAAAAAAAGAGGTCAAATTGAAAACCCATAAAGGGCGATTTGAGTTTCAAA
* * * * *
21103741 AAAAAAAAAGAGATTCAGATTTAAAATCCATAAAGGGTGATTTGAGTTTCAAA
1 AAAAAAAAAGAG-GTCAAATTGAAAACCCATAAAGGGCGATTTGAGTTTCAAA
21103794 AAA
1 AAA
21103797 GGAGGGCTCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 12 0.25
52 27 0.56
53 9 0.19
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.21
Consensus pattern (52 bp):
AAAAAAAAAGAGGTCAAATTGAAAACCCATAAAGGGCGATTTGAGTTTCAAA
Found at i:21104824 original size:85 final size:85
Alignment explanation
Indices: 21104658--21104881 Score: 251
Period size: 85 Copynumber: 2.6 Consensus size: 85
21104648 TCAAATCTTT
* *
21104658 CTTAGTCCAAGTTATTCATTTCAGACTTCGGTTCAGTCTAGGTCATTTTGTTTTGGATTTTAACT
1 CTTAGTCCAAGTTATTCATTTCAGACTTCAGTTCAGTCTAGGTCATTTTGTTTTAGATTTTAACT
*
21104723 TTTGTCAAATCTTTCTTCGA
66 TTTGCCAAATCTTTCTTCGA
* *
21104743 CTTAGTCCAAGTTATTCATTTTAGACTTTAGTTCAGT-TCAGGTCATTTTGTTTTAGATTTTAA-
1 CTTAGTCCAAGTTATTCATTTCAGACTTCAGTTCAGTCT-AGGTCATTTTGTTTTAGATTTTAAC
*
21104806 TTTATGCCAGAT-TCTTCTTC-A
65 TTT-TGCCAAATCT-TTCTTCGA
* * * * * * *
21104827 GCTCAGTCCAAATTGTTTATTTCAGACTTC-GATTCAATCCAGGTCATTTTATTTT
1 -CTTAGTCCAAGTTATTCATTTCAGACTTCAG-TTCAGTCTAGGTCATTTTGTTTT
21104882 TGGGTGCTAT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
84 7 0.06
85 111 0.94
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (85 bp):
CTTAGTCCAAGTTATTCATTTCAGACTTCAGTTCAGTCTAGGTCATTTTGTTTTAGATTTTAACT
TTTGCCAAATCTTTCTTCGA
Found at i:21105829 original size:25 final size:23
Alignment explanation
Indices: 21105795--21105841 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
21105785 AAAGGTTTCT
*
21105795 TTTATTATTATTATTATTTATTTA
1 TTTATTATTATTATCA-TTATTTA
21105819 TTTATTTATTATTATCATTATTT
1 TTTA-TTATTATTATCATTATTT
21105842 TTTCCTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTATTATTATTATCATTATTTA
Found at i:21105839 original size:31 final size:31
Alignment explanation
Indices: 21105796--21105859 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
21105786 AAGGTTTCTT
* *
21105796 TTATTATTATTATTATTTATTTATTTATTTA
1 TTATTATCATTATTATTTACTTATTTATTTA
* *
21105827 TTATTATCATTATTTTTTCCTTATTTATTTA
1 TTATTATCATTATTATTTACTTATTTATTTA
21105858 TT
1 TT
21105860 GACTAAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (31 bp):
TTATTATCATTATTATTTACTTATTTATTTA
Found at i:21105859 original size:28 final size:28
Alignment explanation
Indices: 21105795--21105855 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
21105785 AAAGGTTTCT
* *
21105795 TTTATTATTATTATTATTTATTTATTTA
1 TTTATTATTATCATTATTTATTTACTTA
*
21105823 TTTATTATTATCATTATTT-TTTCCTTA
1 TTTATTATTATCATTATTTATTTACTTA
21105850 TTTATT
1 TTTATT
21105856 TATTGACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTATTATTATCATTATTTATTTACTTA
Found at i:21106152 original size:57 final size:59
Alignment explanation
Indices: 21105942--21106534 Score: 363
Period size: 57 Copynumber: 9.8 Consensus size: 59
21105932 TCTAAAATTT
* * * * * * *
21105942 TTTTTGACGAAAAATTGAAGGTGTCAATTTTTCTT-AAAATAAAATTTACAGAAAAAAGGAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC---AATAA--AAA-A
* * * *
21106006 TTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAATTTCAATTATAAAAA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAA-TA-AAAAA
* * * * **
21106067 TATTTTGAAGAAAAATTGAAAGTATCAATTTTCCTTAAAAATGAAA-TTTCGA-AAAGCA
1 T-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAATAAAAAA
* * *
21106125 TTTTTGAGGAAAAGTTGAAAGTGTCAATTTTTCTTGAAAATAAAATTTTCAATTCTAAAAAA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAA---TAAAAAA
** * **
21106187 TATCTTAAAGGAAAAGTTGAAAGTATTAATTTT-CTTAAAAATAAAATTTTCAA-AAAGCA
1 T-T-TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAATAAAAAA
*
21106246 TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGAGAATAAAAATAAAAATTTTTTCAA-AAA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-----TAAAAAT-AAAA--TTTTCAATAAA
21106310 AAA
57 AAA
* * * ** * **
21106313 TATCTTTGAGGAAAAGTTAAAAATATTAATTTTTTTTCAAAATAAAATCGTCAA-AAAGGAAA
1 T-T-TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAATAAA--AAA
* * * *
21106375 TATTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAATTTTCAA-AAAATGAT
1 T-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAATAAAA--AA
** * * * *
21106435 TTTTTGAGGAAAA----ACTG-A--AATTTTCTTTAAAAATGAAATTTTTAAGAAAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAATAAAAA-A
* * *
21106488 TTTTTGAGAAAAAGTTGAAAGTATCAATTCTCCTTGAAAATAGAAAT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AAAT
21106535 ATCAAAATGC
Statistics
Matches: 419, Mismatches: 72, Indels: 79
0.74 0.13 0.14
Matches are distributed among these distances:
52 9 0.02
53 26 0.06
54 5 0.01
55 2 0.00
57 65 0.16
58 13 0.03
59 17 0.04
60 40 0.10
61 38 0.09
62 58 0.14
63 27 0.06
64 62 0.15
65 16 0.04
67 12 0.03
68 2 0.00
69 27 0.06
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (59 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAATAAAAAA
Found at i:21106262 original size:121 final size:121
Alignment explanation
Indices: 21106005--21106426 Score: 447
Period size: 121 Copynumber: 3.4 Consensus size: 121
21105995 AAAAGGAAAT
* * *
21106005 ATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAATTTCAATTAT-AAAAATA
1 ATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAATTCTAAAAAATA
* * * * * *
21106069 TTTTGAA-GAAAAATTGAAAGTATCAATTTTCCTTAAAAATGAAA-TTTCGAAAAGC
66 TCTTAAAGGAAAAGTTGAAAGTATTAATTTT-CTTAAAAATAAAATTTTCAAAAAGC
* * *
21106124 ATTTTTGAGGAAAAGTTGAAAGTGTCAATTTTTCTTGAAAATAAAATTTTCAATTCTAAAAAATA
1 ATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAATTCTAAAAAATA
21106189 TCTTAAAGGAAAAGTTGAAAGTATTAATTTTCTTAAAAATAAAATTTTCAAAAAGC
66 TCTTAAAGGAAAAGTTGAAAGTATTAATTTTCTTAAAAATAAAATTTTCAAAAAGC
* * *** *
21106245 ATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGAGAATAAAAATAAAAATTTTTTCAAAAA
1 ATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAA----TTC-TAAA
** * * * * ** *
21106310 AAATATCTTTGAGGAAAAGTTAAAAATATTAATTTTTTTTCAAAATAAAATCGTCAAAAAGGAA
61 AAATATCTTAAAGGAAAAGTTGAAAGTATTAA-TTTTCTTAAAAATAAAATTTTCAAAAA-G-C
* * * *
21106374 ATATTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAATTTTCAA
1 AT-TTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAA
21106427 AAAATGATTT
Statistics
Matches: 252, Mismatches: 39, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
119 51 0.20
120 24 0.10
121 76 0.30
125 3 0.01
126 31 0.12
127 23 0.09
128 1 0.00
129 13 0.05
130 30 0.12
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (121 bp):
ATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTCAATTCTAAAAAATA
TCTTAAAGGAAAAGTTGAAAGTATTAATTTTCTTAAAAATAAAATTTTCAAAAAGC
Found at i:21110965 original size:135 final size:135
Alignment explanation
Indices: 21110765--21111329 Score: 808
Period size: 135 Copynumber: 4.2 Consensus size: 135
21110755 ACACCAGGGA
* * * * *
21110765 ACAGTCCTGGTG-TTGATCATTCTTTTGTAGAAGATGATGAAGATACTGAACAAAAAGCAGGAAG
1 ACAGCCCTGGTGCTGGA-CATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAG
* * * * *
21110829 CATTAGCCCAAGCAATGATAAGCATTCTATTGCAGACGCTAAAGAAGATTTCCAACCTACCGACC
65 CATTAGCCCAAGCAATGATAAGCATTCTACTGAAGAAGCTAAGGAAGATTTCCGACCTACCGACC
21110894 CAGGAC
130 CAGGAC
* *
21110900 ACAGCCCTGCTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGTACAAAAATCAGGAAGC
1 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
* *
21110965 ATTAGCCCAAGCAATTATAAGCATTCTACTGCAGAAGCTAAGGAAGATTTCCGACCTACCGACCC
66 ATTAGCCCAAGCAATGATAAGCATTCTACTGAAGAAGCTAAGGAAGATTTCCGACCTACCGACCC
21111030 AGGAC
131 AGGAC
* **
21111035 ACAGCCCAGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCATTAAGC
1 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
** * * * * *
21111100 ATTAGCGTAAGCAACGATAAGCATTCTATTGAAGAAGGTAAGGAAGGTTTCCGACCTACCGACAC
66 ATTAGCCCAAGCAATGATAAGCATTCTACTGAAGAAGCTAAGGAAGATTTCCGACCTACCGACCC
21111165 AGGAC
131 AGGAC
**
21111170 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCATTAAGC
1 ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
* * * *
21111235 ACTAGCCCAAGCAATGATAAGCATTCTACTGAAGAAGGTAAGGAAGGTTTCCGACCTACCAACCC
66 ATTAGCCCAAGCAATGATAAGCATTCTACTGAAGAAGCTAAGGAAGATTTCCGACCTACCGACCC
21111300 AGGAC
131 AGGAC
* * * *
21111305 ACAGCCCGGGAGCTGGTCATGCTTT
1 ACAGCCCTGGTGCTGGACATTCTTT
21111330 TCCAAGCAAA
Statistics
Matches: 391, Mismatches: 38, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
135 388 0.99
136 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (135 bp):
ACAGCCCTGGTGCTGGACATTCTTTAGCAGAAGATGATGAAGATACTGAACAAAAATCAGGAAGC
ATTAGCCCAAGCAATGATAAGCATTCTACTGAAGAAGCTAAGGAAGATTTCCGACCTACCGACCC
AGGAC
Found at i:21114792 original size:25 final size:25
Alignment explanation
Indices: 21114764--21114814 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
21114754 TAATATTTTT
*
21114764 TCTCAATATATTAAAATAAATTATC
1 TCTCAATATATTAAAACAAATTATC
21114789 TCTCAATATATTAAAACAAATTATC
1 TCTCAATATATTAAAACAAATTATC
21114814 T
1 T
21114815 TATGAGTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (25 bp):
TCTCAATATATTAAAACAAATTATC
Found at i:21115304 original size:2 final size:2
Alignment explanation
Indices: 21115297--21115338 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
21115287 GAATGGTATG
*
21115297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21115339 AGTTGTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21122021 original size:33 final size:33
Alignment explanation
Indices: 21121976--21122040 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
21121966 GGTGCTGGAC
21121976 ATTCTTTAGCAGAAGATGATGAAAATACTGAAA
1 ATTCTTTAGCAGAAGATGATGAAAATACTGAAA
*
21122009 ATTCTTTTGCAGAAGATGATGAAAATACTGAA
1 ATTCTTTAGCAGAAGATGATGAAAATACTGAA
21122041 CAAAAATCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.29
Consensus pattern (33 bp):
ATTCTTTAGCAGAAGATGATGAAAATACTGAAA
Found at i:21122124 original size:168 final size:168
Alignment explanation
Indices: 21121841--21122150 Score: 485
Period size: 168 Copynumber: 1.8 Consensus size: 168
21121831 GGTGTTGGAC
* * *
21121841 ATTCTTTTGCAGAAGATCATGAAGATACTGAACAAAAATCTGGACGCATTAGCCCAAGCAATAAT
1 ATTCTTTTGCAGAAGATCATGAAAATACTGAACAAAAATCAGGAAGCATTAGCCCAAGCAATAAT
* * * * *
21121906 AAGCATTCTATTGCAGGAGCTAAGGAAGATTCCCGACCTAGCAGCCCAGGACACAGCCCTGGTGC
66 AAGCATTCTATTGCAGAAGCTAAAGAAGATTCCCGACCTACCAACCCAGGACACAGCCCTGGAGC
*
21121971 TGGACATTCTTTAGCAGAAGATGATGAAAATACTGAAA
131 TGGACATGCTTTAGCAGAAGATGATGAAAATACTGAAA
* *
21122009 ATTCTTTTGCAGAAGATGATGAAAATACTGAACAAAAATCAGGAAGCATTAGCCCAAGCAATGAT
1 ATTCTTTTGCAGAAGATCATGAAAATACTGAACAAAAATCAGGAAGCATTAGCCCAAGCAATAAT
* * *
21122074 AAGCATTCTATTGCAGAAGTTAAAGAAGATTTCCGACCTACCAACCCAGGACCCAGCCCTGGAGC
66 AAGCATTCTATTGCAGAAGCTAAAGAAGATTCCCGACCTACCAACCCAGGACACAGCCCTGGAGC
*
21122139 TGGTCATGCTTT
131 TGGACATGCTTT
21122151 TCCAGGCAAA
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
168 127 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (168 bp):
ATTCTTTTGCAGAAGATCATGAAAATACTGAACAAAAATCAGGAAGCATTAGCCCAAGCAATAAT
AAGCATTCTATTGCAGAAGCTAAAGAAGATTCCCGACCTACCAACCCAGGACACAGCCCTGGAGC
TGGACATGCTTTAGCAGAAGATGATGAAAATACTGAAA
Found at i:21126470 original size:57 final size:57
Alignment explanation
Indices: 21126401--21126561 Score: 173
Period size: 61 Copynumber: 2.7 Consensus size: 57
21126391 GTTTTTGTAT
* *
21126401 AAGAAAACTTGATACTTTCAACTTTTTTTCAAAATATTTTTTAG-AAACTTTAATTTCG
1 AAGAAAAATTGATACTTTCAACTTTTCTTCAAAATATTTTTTAGAAAAC-TT-ATTTCG
* * * **
21126459 AA-AAAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTTTTTGAAAACTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCTTC---AAAA-TATTTTTTAGAAAACTTATTTCG
*
21126519 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 AAGAAAAATTGATACTTTCAACTTTT-CTTCAAAATATTTTTT
21126562 TTGAATTTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
57 24 0.28
58 9 0.10
59 4 0.05
60 10 0.12
61 33 0.38
62 6 0.07
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (57 bp):
AAGAAAAATTGATACTTTCAACTTTTCTTCAAAATATTTTTTAGAAAACTTATTTCG
Found at i:21126595 original size:6 final size:6
Alignment explanation
Indices: 21126575--21126636 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
21126565 AATTTTATTT
*
21126575 TAAAAA -AATAA TAAAAA T--AAA TAAAAA TAAAGAA -AAACAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA-AA TAAA-AA TAAAAA
*
21126621 T-AAAA TAAAAT TAAAA
1 TAAAAA TAAAAA TAAAA
21126637 GTATTAAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
4 4 0.09
5 9 0.20
6 28 0.61
7 5 0.11
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:21126597 original size:10 final size:10
Alignment explanation
Indices: 21126578--21126635 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
21126568 TTTATTTTAA
21126578 AAAAAT-AAT
1 AAAAATAAAT
21126587 AAAAATAAAT
1 AAAAATAAAT
*
21126597 AAAAATAAAG
1 AAAAATAAAT
*
21126607 AAAAA-CAAT
1 AAAAATAAAT
21126616 AAAAATAAAAT
1 AAAAAT-AAAT
*
21126627 AAAATTAAA
1 AAAAATAAA
21126636 AGTATTAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 13 0.32
10 20 0.49
11 8 0.20
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:21126602 original size:19 final size:20
Alignment explanation
Indices: 21126578--21126630 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
21126568 TTTATTTTAA
*
21126578 AAAAAT-AATAAAAATAAAT
1 AAAAATAAATAAAAACAAAT
*
21126597 AAAAATAAAGAAAAAC-AAT
1 AAAAATAAATAAAAACAAAT
21126616 AAAAATAAAATAAAA
1 AAAAAT-AAATAAAA
21126631 TTAAAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (20 bp):
AAAAATAAATAAAAACAAAT
Done.