Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 328 of 770
Found at i:100434757 original size:11 final size:11
Alignment explanation
Indices: 100434741--100434765 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
100434731 CTTTATATTT
100434741 ATATACAATAA
1 ATATACAATAA
100434752 ATATACAATAA
1 ATATACAATAA
100434763 ATA
1 ATA
100434766 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:100435460 original size:14 final size:15
Alignment explanation
Indices: 100435429--100435468 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
100435419 TATCTTTATC
100435429 TTATTTATATTCTATT
1 TTATTTAT-TTCTATT
100435445 TTATTTATTTCT-TT
1 TTATTTATTTCTATT
*
100435459 TTTTTTATTT
1 TTATTTATTT
100435469 ATCCATCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 4 0.17
16 8 0.35
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTATTTCTATT
Found at i:100440153 original size:23 final size:23
Alignment explanation
Indices: 100440123--100440168 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
100440113 TATATTTTGA
100440123 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
100440146 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
100440169 CTAATATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (23 bp):
GTTCGTATATAACTAGTCAATAT
Found at i:100440728 original size:14 final size:14
Alignment explanation
Indices: 100440709--100440736 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100440699 TCAAGATAAA
100440709 GATAATATTGATCG
1 GATAATATTGATCG
100440723 GATAATATTGATCG
1 GATAATATTGATCG
100440737 AAGGTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GATAATATTGATCG
Found at i:100441937 original size:29 final size:29
Alignment explanation
Indices: 100441895--100441952 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
100441885 TATTAACCGA
100441895 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
100441924 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
100441953 AATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCCATAGATCTATGTAGTTCCAAAAAAG
Found at i:100458021 original size:15 final size:15
Alignment explanation
Indices: 100458001--100458043 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
100457991 TATTAGAAAT
100458001 AAATAGATATTATAA
1 AAATAGATATTATAA
100458016 AAATAGA-A--AT--
1 AAATAGATATTATAA
100458026 AAATAGATATTATAA
1 AAATAGATATTATAA
100458041 AAA
1 AAA
100458044 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:100458022 original size:25 final size:25
Alignment explanation
Indices: 100457994--100458043 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
100457984 AAATATTTAT
100457994 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
100458019 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
100458044 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:100467657 original size:28 final size:28
Alignment explanation
Indices: 100467616--100467670 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
100467606 TGCCGTATTT
**
100467616 TTTCCAGCTTGCACACTTAGTGCCAATA
1 TTTCCAGCACGCACACTTAGTGCCAATA
100467644 TTTCCAGCACGCACACTTAGTGCCAAT
1 TTTCCAGCACGCACACTTAGTGCCAAT
100467671 CTCGTCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
TTTCCAGCACGCACACTTAGTGCCAATA
Found at i:100469015 original size:15 final size:15
Alignment explanation
Indices: 100468995--100469025 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100468985 AGGATGAGCA
*
100468995 TTCTTTTTTTTTCTT
1 TTCTTTTTCTTTCTT
100469010 TTCTTTTTCTTTCTT
1 TTCTTTTTCTTTCTT
100469025 T
1 T
100469026 ACTAACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTCTTTTTCTTTCTT
Found at i:100474393 original size:40 final size:40
Alignment explanation
Indices: 100474319--100474472 Score: 148
Period size: 40 Copynumber: 3.9 Consensus size: 40
100474309 CCGCACCAAG
* * * * * *
100474319 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
100474359 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
100474399 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
100474439 GTCC-TCGGGACTTAGCCCGAATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
100474473 TCATGCACAC
Statistics
Matches: 92, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 90 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:100475386 original size:13 final size:13
Alignment explanation
Indices: 100475368--100475392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100475358 CACTAAATTC
100475368 TCATGGATTCAAA
1 TCATGGATTCAAA
100475381 TCATGGATTCAA
1 TCATGGATTCAA
100475393 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:100481031 original size:27 final size:26
Alignment explanation
Indices: 100480979--100481038 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
100480969 ATATATATAT
*
100480979 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
100481005 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
100481032 ATATCTG
1 ATATCTG
100481039 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:100487313 original size:42 final size:43
Alignment explanation
Indices: 100487210--100487347 Score: 124
Period size: 43 Copynumber: 3.2 Consensus size: 43
100487200 TGAGACATCG
* * * *
100487210 TGTAAGACCGTGTCTGGGACATAGGCCTCG--ATTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATTGA-A-TTACA
* *
100487253 TATAAGACCATGTCTGGGACATCA-GCATCG-TATCT-AATTTCA
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGATAT-TGAATTACA
* * *
100487295 TGTAAGACCTTGTTTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATTGAATTACA
100487338 TGTAAGACCA
1 TGTAAGACCA
100487348 CGTTCGCAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.36
43 43 0.56
44 4 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATATTGAATTACA
Found at i:100490006 original size:24 final size:24
Alignment explanation
Indices: 100489979--100490067 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 24
100489969 GTCGCGTTTC
* *
100489979 CTCGTACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCCATATAAT
* * *
100490003 CTCGCAGATATAGTGCCATATAGTT
1 CTCGCACACATAGTGCCATATA-AT
* * ** *
100490028 TTTGCACACATAGTGCCGCATAAC
1 CTCGCACACATAGTGCCATATAAT
100490052 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
100490068 TGAAATTTCT
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
24 32 0.65
25 17 0.35
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (24 bp):
CTCGCACACATAGTGCCATATAAT
Found at i:100497492 original size:47 final size:45
Alignment explanation
Indices: 100497437--100497614 Score: 146
Period size: 47 Copynumber: 3.8 Consensus size: 45
100497427 TGTCGAGGCT
*
100497437 GATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCT-TGTGCC
* * *
100497483 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA-CAATATG-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATC--T-TGTGCC
* * * * * *
100497531 GAAGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTG-TGCC
*
100497577 GATGCCATGTCCCAGACATGGT-TCTACACTGGCTCTCA
1 GATG-CATGTCCCAGACAT-GTCT-TACACTGGCACTCA
100497615 AATCACCCAA
Statistics
Matches: 105, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 23 0.22
47 43 0.41
48 34 0.32
49 3 0.03
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTGTGCC
Found at i:100497580 original size:94 final size:94
Alignment explanation
Indices: 100497433--100497614 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 94
100497423 TCTCTGTCGA
* * * *
100497433 GGCTGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGCCGATGCCATGTCCCAA
1 GGCTGAAGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGGTGCCGATGCCATGTCCCAA
100497498 ACATGG-TCTTACACTGGCTCTCACAATAT
66 ACATGGTTC-TACACTGGCTCTCACAATAT
* * *
100497527 GGCTGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCT-GGATGTCGATGCCATGTCCCA
1 GGCTGAAGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGG-TGCCGATGCCATGTCCCA
*
100497591 GACATGGTTCTACACTGGCTCTCA
65 AACATGGTTCTACACTGGCTCTCA
100497615 AATCACCCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 1 0.01
94 75 0.96
95 2 0.03
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (94 bp):
GGCTGAAGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGGTGCCGATGCCATGTCCCAA
ACATGGTTCTACACTGGCTCTCACAATAT
Found at i:100504110 original size:30 final size:30
Alignment explanation
Indices: 100504074--100504174 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
100504064 GACAAGATTG
* * *
100504074 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100504104 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100504132 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
100504161 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100504175 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:100504186 original size:29 final size:28
Alignment explanation
Indices: 100504103--100504178 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
100504093 AAAATTGTAC
* *
100504103 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
100504131 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
100504160 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
100504179 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:100509148 original size:33 final size:33
Alignment explanation
Indices: 100509111--100509176 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
100509101 TTATTATTCT
100509111 CCATAGCAGCAAAAACAAACCCTAAGTAAATCC
1 CCATAGCAGCAAAAACAAACCCTAAGTAAATCC
* * * *
100509144 CCATAGCAGCAAAAATACATCCTAGGTAAATCC
1 CCATAGCAGCAAAAACAAACCCTAAGTAAATCC
100509177 TCTAGCCGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.29, G:0.11, T:0.15
Consensus pattern (33 bp):
CCATAGCAGCAAAAACAAACCCTAAGTAAATCC
Found at i:100514499 original size:43 final size:43
Alignment explanation
Indices: 100514452--100514568 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
100514442 TTGATGGCAC
* * *
100514452 TGTCCCAGATAGGGTCTTACACGAAATC-GAATAACAATGCCAA
1 TGTCCCAGACAGGGACTTACACGAAATCACAAT-ACAATGCCAA
* * *
100514495 TGTCCCAGACATGGACTTACATGTAATCACAATACAATGCCAA
1 TGTCCCAGACAGGGACTTACACGAAATCACAATACAATGCCAA
* * * *
100514538 TGTCCCTGACATGGACTTACATGTAATCACA
1 TGTCCCAGACAGGGACTTACACGAAATCACA
100514569 TCTTTGTAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 63 0.95
44 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
TGTCCCAGACAGGGACTTACACGAAATCACAATACAATGCCAA
Found at i:100516962 original size:24 final size:24
Alignment explanation
Indices: 100516930--100516989 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
100516920 AATCTCAAAT
100516930 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
100516954 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
100516978 GCACTATGTGTG
1 GCACTATGTGTG
100516990 AGAACATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:100526426 original size:31 final size:31
Alignment explanation
Indices: 100526390--100526456 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
100526380 AATCAAATAT
100526390 AATTTACATACATAATTGAAAATATAACAAA
1 AATTTACATACATAATTGAAAATATAACAAA
100526421 AATTTACATACATAATTGAAAATATAACAAA
1 AATTTACATACATAATTGAAAATATAACAAA
100526452 AATTT
1 AATTT
100526457 TGTGGATGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (31 bp):
AATTTACATACATAATTGAAAATATAACAAA
Found at i:100527143 original size:20 final size:19
Alignment explanation
Indices: 100527097--100527144 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
100527087 TTTTGGTAGA
100527097 ATTTTTT-ATTACTTTTCT
1 ATTTTTTAATTACTTTTCT
*
100527115 ATATTTTAATATACATTTT-T
1 ATTTTTTAAT-TAC-TTTTCT
100527135 ATTTTTTAAT
1 ATTTTTTAAT
100527145 CTGATTACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 13 0.52
21 4 0.16
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTAATTACTTTTCT
Found at i:100529104 original size:36 final size:36
Alignment explanation
Indices: 100529057--100529128 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
100529047 CTTTTGCCTA
100529057 AGCATAAAAATTTAAAATTTTGTGGATACAATTGTC
1 AGCATAAAAATTTAAAATTTTGTGGATACAATTGTC
100529093 AGCATAAAAATTTAAAATTTTGTGGATACAATTGTC
1 AGCATAAAAATTTAAAATTTTGTGGATACAATTGTC
100529129 GAAACCATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (36 bp):
AGCATAAAAATTTAAAATTTTGTGGATACAATTGTC
Found at i:100529663 original size:5 final size:5
Alignment explanation
Indices: 100529637--100529694 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
100529627 ATGTGTTAAA
* *
100529637 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
100529686 ATATT ATAT
1 ATATT ATAT
100529695 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:100529673 original size:10 final size:9
Alignment explanation
Indices: 100529638--100529695 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
100529628 TGTGTTAAAA
100529638 TATATATAT
1 TATATATAT
*
100529647 TAAAT-TAT
1 TATATATAT
100529655 TAT-TATAT
1 TATATATAT
100529663 TATAGTATAT
1 TATA-TATAT
100529673 TATAT-TA-
1 TATATATAT
100529680 TATATTATAT
1 TATA-TATAT
100529690 TATATA
1 TATATA
100529696 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:100529685 original size:12 final size:12
Alignment explanation
Indices: 100529640--100529695 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
100529630 TGTTAAAATA
*
100529640 TATATATTAAAT
1 TATATATTATAT
100529652 TAT-TATTATATT
1 TATATATTATA-T
100529664 ATAGTATATTATAT
1 -TA-TATATTATAT
100529678 TATATATTATAT
1 TATATATTATAT
100529690 TATATA
1 TATATA
100529696 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:100531039 original size:18 final size:19
Alignment explanation
Indices: 100531018--100531056 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
100531008 ATATATAGAT
100531018 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
100531036 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
100531055 AT
1 AT
100531057 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:100531043 original size:2 final size:2
Alignment explanation
Indices: 100530995--100531025 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
100530985 TGAATTGGCG
*
100530995 TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100531026 TGAATATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:100531406 original size:39 final size:39
Alignment explanation
Indices: 100531296--100531430 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
100531286 GACCTCGAGT
* * * *
100531296 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
100531337 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
100531375 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
100531414 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
100531431 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:100531574 original size:18 final size:19
Alignment explanation
Indices: 100531553--100531593 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
100531543 AATGAAATGA
100531553 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
100531571 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
100531590 GAAA
1 GAAA
100531594 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:100532949 original size:132 final size:132
Alignment explanation
Indices: 100532712--100532951 Score: 336
Period size: 132 Copynumber: 1.8 Consensus size: 132
100532702 TCTCGCTTTG
* * * * * * *
100532712 GAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
* * *
100532777 GCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAAAGGTTTT
66 ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGGTTTT
100532842 TA
131 TA
* ** *
100532844 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAATAAATTACAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
* *
100532909 ACACGATAGGGCGCGATTCCCCGAATTGCTAAACATCGAACAT
66 ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
100532952 CGTCTCCGTT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 92 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (132 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGGTTTT
TA
Found at i:100533268 original size:3 final size:3
Alignment explanation
Indices: 100533262--100533325 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
100533252 ATGATAAAAA
*
100533262 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100533310 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
100533326 TAGAAATACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:100533655 original size:3 final size:3
Alignment explanation
Indices: 100533642--100533721 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
100533632 GAGGGCATAT
100533642 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
100533686 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
100533722 AAAAAATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.15
3 42 0.68
4 9 0.15
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:100533664 original size:12 final size:12
Alignment explanation
Indices: 100533640--100533722 Score: 71
Period size: 12 Copynumber: 6.6 Consensus size: 12
100533630 GAGAGGGCAT
100533640 ATATAATATAATA
1 ATATAA-ATAATA
100533653 ATATAAATAATA
1 ATATAAATAATA
100533665 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
100533680 ATA-ATAATAATA
1 ATATA-AATAATA
100533692 ATATAAATAATA
1 ATATAAATAATA
* *
100533704 GTAAAAATAATA
1 ATATAAATAATA
*
100533716 AAATAAA
1 ATATAAA
100533723 AAAAATAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.02
12 37 0.63
13 10 0.17
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:100533683 original size:21 final size:18
Alignment explanation
Indices: 100533642--100533703 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
100533632 GAGGGCATAT
*
100533642 ATAAT-ATAATAATATAA
1 ATAATAATAATAATAGAA
100533659 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-AGAA
*
100533680 ATAATAATAATAATATAA
1 ATAATAATAATAATAGAA
100533698 ATAATA
1 ATAATA
100533704 GTAAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.13
18 12 0.31
19 5 0.13
20 5 0.13
21 12 0.31
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAATAGAA
Found at i:100533712 original size:27 final size:27
Alignment explanation
Indices: 100533640--100533729 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
100533630 GAGAGGGCAT
* *
100533640 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
100533667 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
100533692 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
* *
100533718 ATAAAAAAAATA
1 ATATAAATAATA
100533730 AAACAAAGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 2 0.04
24 10 0.20
25 7 0.14
26 13 0.26
27 15 0.30
28 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:100534105 original size:19 final size:18
Alignment explanation
Indices: 100534075--100534121 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
100534065 AAATAAAAAA
* *
100534075 CAAAAAACAACCCTCCTT
1 CAAAAAACAAACCTCCTC
100534093 CAAAAAACAAACCTCCTC
1 CAAAAAACAAACCTCCTC
100534111 CAAAAAACAAA
1 CAAAAAACAAA
100534122 GAAAACACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.11
Consensus pattern (18 bp):
CAAAAAACAAACCTCCTC
Found at i:100534275 original size:4 final size:4
Alignment explanation
Indices: 100534266--100534304 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
100534256 GGCCAAGGTT
100534266 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
100534305 GTGTTTGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:100537279 original size:25 final size:25
Alignment explanation
Indices: 100537251--100537308 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
100537241 AATTAAACTC
* *
100537251 TCTTGAAATTAAAAAAATTGTAATT
1 TCTTTAAATTAAAAAAATTATAATT
*
100537276 TCTTTTAA-TAAAAAAATTATAATT
1 TCTTTAAATTAAAAAAATTATAATT
100537300 T-TTTAAATT
1 TCTTTAAATT
100537309 TGTTTGATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 5 0.18
24 17 0.61
25 6 0.21
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (25 bp):
TCTTTAAATTAAAAAAATTATAATT
Found at i:100539042 original size:44 final size:42
Alignment explanation
Indices: 100538979--100539133 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 42
100538969 ATGTGTTTTC
*
100538979 GTGTAAGACCACGTCTGGGACGTTGGCATCGAATTATGATTTA
1 GTGTAAGACCACGTCTGGGACATTGGCATCGAATT-TGATTTA
* * *
100539022 TGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTCA
1 -GTGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTT-A
* *
100539066 -TGTAAGACC-CTGTTTGGGACAATGGCATCGATATTTG-TTTA
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGA-ATTTGATTTA
* *
100539107 CATGTAAGACCACGTCTGGGACGTTGG
1 -GTGTAAGACCACGTCTGGGACATTGG
100539134 TATTGTACGA
Statistics
Matches: 93, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 31 0.33
44 33 0.35
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTTA
Found at i:100539127 original size:43 final size:43
Alignment explanation
Indices: 100538980--100539128 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 43
100538970 TGTGTTTTCG
* **
100538980 TGTAAGACCACGTCTGGGACGTTGGCATCGA-ATTATGATTTATG
1 TGTAAGACCACGTCTGGGAC-ATGGCATCGATATT-TGATTTACA
*
100539024 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTT-CA
1 TGTAAGACCACGTCTGGGACAT-GGCATCGATATTTGATTTACA
*
100539066 TGTAAGACC-CTGTTTGGGACAATGGCATCGATATTTG-TTTACA
1 TGTAAGACCAC-GTCTGGGAC-ATGGCATCGATATTTGATTTACA
100539109 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
100539129 GTTGGTATTG
Statistics
Matches: 91, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
42 27 0.30
43 34 0.37
44 30 0.33
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATGGCATCGATATTTGATTTACA
Found at i:100541471 original size:79 final size:80
Alignment explanation
Indices: 100541291--100541513 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 80
100541281 TCGAATGATG
* * *
100541291 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
100541355 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
*
100541371 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGG-ATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
100541434 TGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* * * *
100541450 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
100541513 T
64 T
100541514 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 2 0.02
79 66 0.52
80 51 0.40
81 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:100541507 original size:119 final size:120
Alignment explanation
Indices: 100541291--100541515 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
100541281 TCGAATGATG
* * *
100541291 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGACTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
100541356 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* * **
100541411 TCCGGACTAAGAT-CCGAAGGATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGACTAAG-TCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* *
100541472 TCTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TC-GTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
100541516 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 4 0.04
119 60 0.66
120 26 0.29
121 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:100541522 original size:40 final size:40
Alignment explanation
Indices: 100541291--100541515 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
100541281 TCGAATGATG
* * * *
100541291 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
100541331 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
100541371 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
100541411 TCCGGACTAAGATCCGAAGG-ATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
** *
100541450 TCCGGGTTAAG-TCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
100541491 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
100541516 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.21
40 123 0.73
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:100541537 original size:79 final size:79
Alignment explanation
Indices: 100541298--100541538 Score: 278
Period size: 79 Copynumber: 3.0 Consensus size: 79
100541288 ATGTCCGGGC
* * * *
100541298 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATTTGTGCGA
*
100541362 GTTACTAAATCCGGAC
65 GTTACTAAATCCGG-T
100541378 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGATCCGAAGG-ATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGACTAAGATCCGAAGGCATTTGTGCG
100541440 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * * **
100541457 TAAGTCCCGAAGGCATCTGTGCGAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGAT-CCGAAGGCATTTGTGCGA
*
100541521 G-TAGCTATATCCGGT
65 GTTA-CTAAATCCGGT
100541536 TAA
1 TAA
100541539 ACTCCGAAGG
Statistics
Matches: 141, Mismatches: 11, Indels: 19
0.82 0.06 0.11
Matches are distributed among these distances:
78 2 0.01
79 73 0.52
80 58 0.41
81 8 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:100547082 original size:29 final size:29
Alignment explanation
Indices: 100547043--100547122 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
100547033 CTTAATAATC
*
100547043 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
100547073 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
100547102 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
100547123 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:100547676 original size:2 final size:2
Alignment explanation
Indices: 100547669--100547700 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
100547659 ATATGCATAC
100547669 AT 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 AT
100547701 CAACGATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100554386 original size:27 final size:29
Alignment explanation
Indices: 100554312--100554386 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
100554302 GTGACGAGAT
*
100554312 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
*
100554341 TGGCACTAAGTGTGC-AGCTGGAAA-ATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
*
100554368 CGGCACT-GGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
100554387 CGAGGGTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.15
27 13 0.32
28 8 0.20
29 14 0.34
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:100566834 original size:24 final size:25
Alignment explanation
Indices: 100566792--100566844 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
100566782 TTTTCTTTCT
100566792 ATATTATTAATATTATTT-ATTTAA
1 ATATTATTAATATTATTTAATTTAA
*
100566816 ATATTATTAATA-TATTTTAATTTAT
1 ATATTATTAATATTA-TTTAATTTAA
100566841 ATAT
1 ATAT
100566845 ATTTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 15 0.58
25 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTAATATTATTTAATTTAA
Found at i:100566847 original size:24 final size:23
Alignment explanation
Indices: 100566791--100566860 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
100566781 ATTTTCTTTC
100566791 TATAT-TATTAATATTATTTATT
1 TATATATATTAATATTATTTATT
*
100566813 TAAATATTATTAATA-TATTTTAATT
1 TATATA-TATTAATATTA-TTT-ATT
*
100566838 TATATATATTTAA-ATTATATATT
1 TATATATA-TTAATATTATTTATT
100566861 GAAATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 16 0.41
25 14 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATATTAATATTATTTATT
Found at i:100566855 original size:15 final size:14
Alignment explanation
Indices: 100566825--100566860 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
100566815 AATATTATTA
*
100566825 ATATATTTTAATTT
1 ATATATTTTAAATT
100566839 ATATATATTTAAATT
1 ATATAT-TTTAAATT
100566854 ATATATT
1 ATATATT
100566861 GAAATGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:100567072 original size:21 final size:21
Alignment explanation
Indices: 100567032--100567070 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
100567022 AAATCATGGA
100567032 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
100567053 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
100567071 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:100569614 original size:12 final size:12
Alignment explanation
Indices: 100569597--100569621 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100569587 ATTTTATAAC
100569597 ATAAATATTGTT
1 ATAAATATTGTT
100569609 ATAAATATTGTT
1 ATAAATATTGTT
100569621 A
1 A
100569622 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:100581380 original size:13 final size:15
Alignment explanation
Indices: 100581354--100581393 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
100581344 CCTTAATTTA
100581354 TTAATATTTATTAAT
1 TTAATATTTATTAAT
100581369 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
100581382 TTAATATTTATT
1 TTAATATTTATT
100581394 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:100584180 original size:14 final size:14
Alignment explanation
Indices: 100584161--100584189 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100584151 ACAGATGGAT
100584161 TCGTATAATTCTTA
1 TCGTATAATTCTTA
100584175 TCGTATAATTCTTA
1 TCGTATAATTCTTA
100584189 T
1 T
100584190 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:100588422 original size:20 final size:21
Alignment explanation
Indices: 100588356--100588424 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
100588346 TCACTTCGTT
100588356 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
100588377 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
100588398 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
100588419 -CTTTTT
1 TCTTTTT
100588425 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:100590823 original size:18 final size:18
Alignment explanation
Indices: 100590790--100590883 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
100590780 AAGGTTTTCT
100590790 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
100590805 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
100590823 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
100590841 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
100590859 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
100590877 TATTGAT
1 TATTGAT
100590884 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:100599150 original size:14 final size:14
Alignment explanation
Indices: 100599131--100599158 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100599121 TATATTAGTA
100599131 TTTTCTATTCTATT
1 TTTTCTATTCTATT
100599145 TTTTCTATTCTATT
1 TTTTCTATTCTATT
100599159 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:100599166 original size:6 final size:6
Alignment explanation
Indices: 100599155--100599233 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
100599145 TTTTCTATTC
* *
100599155 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
100599202 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
100599234 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:100599181 original size:11 final size:11
Alignment explanation
Indices: 100599156--100599237 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
100599146 TTTCTATTCT
100599156 ATTAGTATTAG
1 ATTAGTATTAG
100599167 ---AGTATTAG
1 ATTAGTATTAG
**
100599175 ATTAGTATTCT
1 ATTAGTATTAG
*
100599186 ATT-CTATTAG
1 ATTAGTATTAG
100599196 TATTAG-ATTAG
1 -ATTAGTATTAG
100599207 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
100599222 ATTAGTATTAG
1 ATTAGTATTAG
100599233 -TTAGT
1 ATTAGT
100599238 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:100599222 original size:20 final size:21
Alignment explanation
Indices: 100599192--100599237 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
100599182 TTCTATTCTA
100599192 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
100599213 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
100599233 TTAGT
1 TTAGT
100599238 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:100607450 original size:32 final size:32
Alignment explanation
Indices: 100607409--100607470 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
100607399 CATCTATTTT
100607409 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
100607441 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
100607471 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:100611615 original size:22 final size:22
Alignment explanation
Indices: 100611589--100611632 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100611579 TTATCTCTTT
100611589 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
100611611 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
100611633 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:100613888 original size:21 final size:21
Alignment explanation
Indices: 100613864--100613907 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
100613854 ACGACCTAAT
*
100613864 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
100613885 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
100613906 TA
1 TA
100613908 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:100623830 original size:13 final size:13
Alignment explanation
Indices: 100623812--100623839 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100623802 AATATAGGGG
100623812 AAAATGTACCATT
1 AAAATGTACCATT
100623825 AAAATGTACCATT
1 AAAATGTACCATT
100623838 AA
1 AA
100623840 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:100631168 original size:32 final size:32
Alignment explanation
Indices: 100631132--100631193 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
100631122 AGCTTTTGGT
100631132 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
100631164 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
100631194 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:100639380 original size:6 final size:6
Alignment explanation
Indices: 100639369--100639447 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
100639359 GGGATCACTA
100639369 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
100639412 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
100639448 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:100639391 original size:20 final size:21
Alignment explanation
Indices: 100639365--100639410 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
100639355 AGCCGGGATC
100639365 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
100639386 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
100639406 ACTAA
1 ACTAA
100639411 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:100639435 original size:11 final size:11
Alignment explanation
Indices: 100639365--100639411 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
100639355 AGCCGGGATC
100639365 ACTAA-CTAAT
1 ACTAATCTAAT
100639375 ACTAATCTAAT
1 ACTAATCTAAT
100639386 -CTAA-CTAAT
1 ACTAATCTAAT
100639395 ACTAATCTAAT
1 ACTAATCTAAT
100639406 ACTAAT
1 ACTAAT
100639412 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:100639461 original size:14 final size:14
Alignment explanation
Indices: 100639444--100639471 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100639434 CTCTAATACT
100639444 AATAGAATAGAAAA
1 AATAGAATAGAAAA
100639458 AATAGAATAGAAAA
1 AATAGAATAGAAAA
100639472 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:100647798 original size:18 final size:18
Alignment explanation
Indices: 100647719--100647812 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
100647709 CAAGGTCACG
*
100647719 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
100647737 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
100647755 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
100647773 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
100647791 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
100647806 ATCAATA
1 ATCAATA
100647813 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:100647799 original size:9 final size:9
Alignment explanation
Indices: 100647719--100647799 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
100647709 CAAGGTCACG
*
100647719 ATCAATAGC
1 ATCAATATC
* *
100647728 GTCACTATC
1 ATCAATATC
*
100647737 ATCAATAGC
1 ATCAATATC
* * *
100647746 GTCACTAGC
1 ATCAATATC
100647755 ATCAATATC
1 ATCAATATC
* * *
100647764 GTCACTAGC
1 ATCAATATC
100647773 ATCAATATC
1 ATCAATATC
* *
100647782 GTCACTATC
1 ATCAATATC
100647791 ATCAATATC
1 ATCAATATC
100647800 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:100650208 original size:21 final size:21
Alignment explanation
Indices: 100650178--100650266 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
100650168 CTCACAAAGA
* *
100650178 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
100650198 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
100650219 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
100650240 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
100650264 AAA
1 AAA
100650267 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:100650259 original size:24 final size:21
Alignment explanation
Indices: 100650178--100650246 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
100650168 CTCACAAAGA
* * *
100650178 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
100650198 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
100650219 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
100650240 AAAAAGA
1 AAAAAGA
100650247 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:100654431 original size:14 final size:14
Alignment explanation
Indices: 100654412--100654440 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100654402 TACAATATAT
100654412 ATAAGAATTATACG
1 ATAAGAATTATACG
100654426 ATAAGAATTATACG
1 ATAAGAATTATACG
100654440 A
1 A
100654441 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:100658263 original size:40 final size:41
Alignment explanation
Indices: 100658203--100658329 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 41
100658193 CGGAATACAA
100658203 CCGGATA-TAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* *
100658243 CCGGATAG-AACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
100658283 CTGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAGTAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
100658323 CCGGATA
1 CCGGATA
100658330 TAATTTCCAG
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (41 bp):
CCGGATAGTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:100661059 original size:34 final size:34
Alignment explanation
Indices: 100660974--100661049 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
100660964 GGGTGTTACA
* *
100660974 AAGGCCCATCTGGTACTATCTGTTATAATGGGCT
1 AAGGCCCATCTGGTACTGTCTATTATAATGGGCT
*
100661008 AAGGCCTATCTGGTACTGTCTATTATAATGGGCT
1 AAGGCCCATCTGGTACTGTCTATTATAATGGGCT
100661042 AAGGCCCA
1 AAGGCCCA
100661050 ATTGATACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (34 bp):
AAGGCCCATCTGGTACTGTCTATTATAATGGGCT
Found at i:100664614 original size:39 final size:39
Alignment explanation
Indices: 100664560--100664872 Score: 513
Period size: 39 Copynumber: 8.1 Consensus size: 39
100664550 ATTATATTAT
* *
100664560 CAGCACAAAG-CTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
100664598 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
100664637 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
100664676 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
100664715 CAGCACGAAG-CTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
100664753 CAGCACGAAGCCTGCGGGACTTTGGCTCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
100664792 CAGCACGAAGCCTGCGGTACTTTAGCCCGGATACATTTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
100664831 CAGTACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
100664870 CAG
1 CAG
100664873 TGTCTTGCAT
Statistics
Matches: 254, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
38 45 0.18
39 209 0.82
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:100664839 original size:155 final size:155
Alignment explanation
Indices: 100664552--100664872 Score: 545
Period size: 155 Copynumber: 2.1 Consensus size: 155
100664542 AACCCGAAAT
100664552 TATATTAT-CAGCACAAAGCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGG
1 TATATT-TCCAGCACAAAGCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGG
100664616 ACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCA
65 ACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCA
*
100664681 CGAAGCCTGCGGGACTTTGGCCCGGA
130 CGAAGCCTGCGGGACTTTAGCCCGGA
* *
100664707 TATATTTCCAGCACGAAGCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
1 TATATTTCCAGCACAAAGCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGA
* * * * *
100664772 CTTTGGCTCGGATATATTTCCAGCACGAAGCCTGCGGTACTTTAGCCCGGATACATTTTCAGTAC
66 CTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCAC
100664837 GAAGCCTGCGGGACTTTAGCCCGGA
131 GAAGCCTGCGGGACTTTAGCCCGGA
*
100664862 TACATTTCCAG
1 TATATTTCCAG
100664873 TGTCTTGCAT
Statistics
Matches: 156, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
154 1 0.01
155 155 0.99
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (155 bp):
TATATTTCCAGCACAAAGCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGA
CTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCAC
GAAGCCTGCGGGACTTTAGCCCGGA
Found at i:100669536 original size:29 final size:30
Alignment explanation
Indices: 100669483--100669540 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
100669473 CGGAAGTTTT
100669483 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
*
100669513 GGCACTAAGTGTGCTATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
100669541 CGGCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:100675437 original size:13 final size:13
Alignment explanation
Indices: 100675419--100675451 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
100675409 GGTACTCAGT
100675419 TACATTTTAGCAC
1 TACATTTTAGCAC
100675432 TACATTTTAGCAC
1 TACATTTTAGCAC
100675445 TACATTT
1 TACATTT
100675452 CATCCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (13 bp):
TACATTTTAGCAC
Found at i:100676780 original size:49 final size:50
Alignment explanation
Indices: 100676690--100676935 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
100676680 ATCTATTGTG
* * *
100676690 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
100676740 -GGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * * * * **
100676790 CGATCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* **
100676840 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
100676890 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
100676936 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 81 0.50
50 45 0.28
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:100682255 original size:20 final size:20
Alignment explanation
Indices: 100682230--100682281 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
100682220 GAGGCAATGC
100682230 ACACGCCTGTGTGCTTTGGG
1 ACACGCCTGTGTGCTTTGGG
* *
100682250 ACACGCCCGCGTGCTTTGGG
1 ACACGCCTGTGTGCTTTGGG
*
100682270 ACATGCCTGTGT
1 ACACGCCTGTGT
100682282 CCCCTACCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.29, G:0.33, T:0.27
Consensus pattern (20 bp):
ACACGCCTGTGTGCTTTGGG
Found at i:100686311 original size:40 final size:40
Alignment explanation
Indices: 100686248--100686338 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
100686238 CTATGTTCGA
* * *
100686248 CACTAAGGGTGCGATTTGAAATAGCTTCGGCTATAAGTA-G
1 CACTAAGTGTGCGAATTGAAATAGCTTCAGCTATAAG-AGG
* * *
100686288 CACTAAGTGTGTGAATTGGAATAGCTTCAGCTATATGAGG
1 CACTAAGTGTGCGAATTGAAATAGCTTCAGCTATAAGAGG
100686328 CACTAAGTGTG
1 CACTAAGTGTG
100686339 GGATAACGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (40 bp):
CACTAAGTGTGCGAATTGAAATAGCTTCAGCTATAAGAGG
Found at i:100694493 original size:13 final size:13
Alignment explanation
Indices: 100694475--100694499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100694465 AAATTGATAT
100694475 GTGTGAAAATTTC
1 GTGTGAAAATTTC
100694488 GTGTGAAAATTT
1 GTGTGAAAATTT
100694500 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:100695296 original size:43 final size:43
Alignment explanation
Indices: 100695136--100695306 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
100695126 ATAGGATTTT
* * ** *
100695136 GATATGTGA-TTTCGTGTAAGACCACGTCCCGGACGTTGGCATC
1 GATATGTGAGTTACATGTAAGACCACGTCTGGGAAG-TGGCATC
* * ** *
100695179 GATTTGTGATTTACATGTAAGACCGTGTCTGGGACATTGGCATC
1 GATATGTGAGTTACATGTAAGACCACGTCTGGGA-AGTGGCATC
* **
100695223 -ATATATGAGTT-TGTGTAAGACC-CTGTCTGGGATAGTGGCATC
1 GATATGTGAGTTACATGTAAGACCAC-GTCTGGGA-AGTGGCATC
*
100695265 GATATGTG-GTTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGAGTTACATGTAAGACCACGTCTGGGAAG-TGGCAT
100695307 TGTACAAGCT
Statistics
Matches: 100, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
42 29 0.29
43 45 0.45
44 26 0.26
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
GATATGTGAGTTACATGTAAGACCACGTCTGGGAAGTGGCATC
Found at i:100699174 original size:42 final size:43
Alignment explanation
Indices: 100699115--100699239 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
100699105 AATTAAGAAG
* * * *
100699115 TCCGAACTCATTGAGTGGTCTGAGTTCGTGATATATGTG-GCA
1 TCCGAACTCGTTGAGTGGTCCGAGTTCGTGATAGATGCGAGCA
* * * * *
100699157 TCCGAGCTCGTTGAGTGGTCCAAGTTCATTATGGATGCGAGCA
1 TCCGAACTCGTTGAGTGGTCCGAGTTCGTGATAGATGCGAGCA
* * *
100699200 TTCGAACTCGTTGAGTGGTCCGAGTTCGTAATGGATGCGA
1 TCCGAACTCGTTGAGTGGTCCGAGTTCGTGATAGATGCGA
100699240 TACATGTGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 30 0.44
43 38 0.56
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
TCCGAACTCGTTGAGTGGTCCGAGTTCGTGATAGATGCGAGCA
Found at i:100705304 original size:26 final size:26
Alignment explanation
Indices: 100705275--100705324 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
100705265 TGTGTTACTG
100705275 TTACTGGCAGCTTTGCTGCGATATGT
1 TTACTGGCAGCTTTGCTGCGATATGT
100705301 TTACTGGCAGCTTTGCTGCGATAT
1 TTACTGGCAGCTTTGCTGCGATAT
100705325 TGGTGTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATATGT
Found at i:100711546 original size:40 final size:40
Alignment explanation
Indices: 100711469--100711686 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
100711459 AAACCAAGTA
* *
100711469 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
100711508 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
100711548 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
100711588 CTTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
100711628 CCTTTGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
100711668 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
100711687 TTATCATCCG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 149 0.91
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:100714502 original size:24 final size:25
Alignment explanation
Indices: 100714469--100714516 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
100714459 TGGGTAGGTA
*
100714469 GTTGAGTTGGACA-GAGACTTTGAG
1 GTTGAATTGGACATGAGACTTTGAG
* *
100714493 GTTGAATTGGTCATGAGAGTTTGA
1 GTTGAATTGGACATGAGACTTTGA
100714517 ATAGAGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.25, C:0.06, G:0.35, T:0.33
Consensus pattern (25 bp):
GTTGAATTGGACATGAGACTTTGAG
Found at i:100715807 original size:27 final size:27
Alignment explanation
Indices: 100715761--100715830 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
100715751 CACCAAGACT
* * *
100715761 GGTAAAATGACCAAAATACCCTTATAG
1 GGTAAAATGACTAAAATACCCCTAGAG
** *
100715788 GGTAAAATGACTAATTTACCCCTCGAG
1 GGTAAAATGACTAAAATACCCCTAGAG
100715815 GGT-AAATGACTAAAAT
1 GGTAAAATGACTAAAAT
100715831 GTGCTATGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 11 0.31
27 24 0.69
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCCTAGAG
Found at i:100718952 original size:43 final size:43
Alignment explanation
Indices: 100718883--100718997 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
100718873 AATTAAGAAG
* * ** * * *
100718883 TCCGAACTCGTTGAGTAGTCTGAGTTCGTGATATATGTG-GCA
1 TCCGAGCTCGTTGAGTGGTCCAAGTTCATGATAGATGCGAGCA
* *
100718925 TACCGAGCTCGTTGAGTGGTCCAAGTTCATTATGGATGCGAGCA
1 T-CCGAGCTCGTTGAGTGGTCCAAGTTCATGATAGATGCGAGCA
100718969 TCCGAGCTCGTTGAGTGGTCCAAGTTCAT
1 TCCGAGCTCGTTGAGTGGTCCAAGTTCAT
100718998 AACGGATGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 57 0.92
44 4 0.06
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCAAGTTCATGATAGATGCGAGCA
Found at i:100719005 original size:43 final size:44
Alignment explanation
Indices: 100718922--100719005 Score: 143
Period size: 43 Copynumber: 1.9 Consensus size: 44
100718912 GATATATGTG
* *
100718922 GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATTATGGATGCGA
1 GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATGCGA
100718966 GCAT-CCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATG
1 GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATG
100719006 TGAAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (44 bp):
GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATGCGA
Found at i:100725439 original size:48 final size:48
Alignment explanation
Indices: 100725387--100725650 Score: 327
Period size: 48 Copynumber: 5.7 Consensus size: 48
100725377 CCTATCAGTG
*
100725387 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCA
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACA
* *
100725435 TCGATGCCATGTCTCAAACATGGTCTTACACTGGCACACATATC-A-A
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACA
*
100725481 -CG-T-CGATG---C---CATGGTCTTACACTGGCACACATATCAACA
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACA
* * *
100725520 CCGATGCCATGTCCCAAACATGTTCTTACACTGGCACACATATCAAC-
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACA
* * * *
100725567 TCTGATGCCACGTCCCAGAAATGGTCTTACACTAGCACACATATCAACG
1 TC-GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACA
*
100725616 TCGATGCCATGTCTCAGACATGGTCTTACACTGGC
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGC
100725651 TCTCATGTCA
Statistics
Matches: 187, Mismatches: 16, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
37 26 0.14
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 4 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 1 0.01
48 139 0.74
49 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACA
Found at i:100725503 original size:37 final size:37
Alignment explanation
Indices: 100725453--100725530 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
100725443 ATGTCTCAAA
**
100725453 CATGGTCTTACACTGGCACACATATCAACGTCGATGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGC
100725490 CATGGTCTTACACTGGCACACATATCAACACCGATGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGC
100725527 CATG
1 CATG
100725531 TCCCAAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
CATGGTCTTACACTGGCACACATATCAACACCGATGC
Found at i:100725548 original size:85 final size:85
Alignment explanation
Indices: 100725405--100725650 Score: 296
Period size: 85 Copynumber: 2.8 Consensus size: 85
100725395 ATGTCCCAGA
* * *
100725405 CATGGTCTTACACTGGCACACATATCATCATCGATGCCATGTCTCAAACATGGTCTTACACTGGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTGGC
100725470 ACACATATCAACGTC-GATGC
66 ACACATATCAAC-TCTGATGC
*
100725490 CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGTTCTTACACTGGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTGGC
100725555 ACACATATCAACTCTGATGCCACGTCC
66 ACACATATCAACTCTGAT-----G--C
* ** * *
100725582 CAGAAATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCTCAGACATGGTCTTACAC
1 C----ATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACAC
100725647 TGGC
62 TGGC
100725651 TCTCATGTCA
Statistics
Matches: 139, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
84 2 0.01
85 76 0.55
90 1 0.01
92 2 0.01
96 58 0.42
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (85 bp):
CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTGGC
ACACATATCAACTCTGATGC
Found at i:100733110 original size:47 final size:48
Alignment explanation
Indices: 100733040--100733309 Score: 187
Period size: 47 Copynumber: 5.8 Consensus size: 48
100733030 GTAAGGTGCC
*
100733040 AATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-ATCTCATGTA
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGTA
* **
100733087 AATGCCACGTCCCAGACATGGTCTTAC-CCCGACT-ATCATCT--TGTA
1 AATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCATGTA
* * * *
100733132 ACCGATG-CATGTCCCAGACAT-GTCTTACGCTAGCAC-TCGTCTCAATGTC
1 A---ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-ATGTA
* * *
100733181 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAAT-ATGGCT-
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT-CTCAT-G-TA
* * *
100733229 GATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCATAAT-ATGGCT-
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT-CTCAT-G-TA
*
100733276 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCA
100733310 CATAAGTGAC
Statistics
Matches: 190, Mismatches: 17, Indels: 32
0.79 0.07 0.13
Matches are distributed among these distances:
45 5 0.03
46 34 0.18
47 123 0.65
48 23 0.12
49 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
AATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGTA
Found at i:100733233 original size:94 final size:93
Alignment explanation
Indices: 100733135--100733314 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 93
100733125 TCTTGTAACC
* * *
100733135 GATGCATGTCCCAGACAT-GTCTTACGCTAGCACTCGTC-TCA-ATGTC-GATGCCATGTCCCAG
1 GATGCATGTCCCAGACATGGTCTTACACT-G-ACTC-TCATAATATGGCTGATG-CATGTCCCAG
* *
100733196 ACATGGTCTTACACTGGCTCTCATAATATGGCT
62 ACAT-GTCTTACACTAGCTCACATAATATGGCT
*
100733229 GATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGGTCTTACACTGACTCTCATAATATGGCTGATGCATGTCCCAGACAT
100733294 GTCTTACACTAGCTCACATAA
66 GTCTTACACTAGCTCACATAA
100733315 GTGACCCAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
92 2 0.03
93 24 0.32
94 37 0.49
95 13 0.17
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
GATGCATGTCCCAGACATGGTCTTACACTGACTCTCATAATATGGCTGATGCATGTCCCAGACAT
GTCTTACACTAGCTCACATAATATGGCT
Found at i:100740502 original size:27 final size:28
Alignment explanation
Indices: 100740472--100740541 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
100740462 ATAGTGAGTC
* *
100740472 CGCACACTTAGTGCTATAT-AACCAACT
1 CGCACACTTAGTGCTACATGAACAAACT
*
100740499 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATGAACAAACT
100740527 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100740542 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 18 0.46
28 21 0.54
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATGAACAAACT
Found at i:100744805 original size:71 final size:71
Alignment explanation
Indices: 100744721--100744884 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
100744711 CGATTTGTCT
100744721 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
100744786 CTTTCA
66 CTTTCA
100744792 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
100744857 CTTTCA
66 CTTTCA
100744863 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
100744885 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:100744922 original size:71 final size:70
Alignment explanation
Indices: 100744721--100744918 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
100744711 CGATTTGTCT
* * * *
100744721 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
100744786 CTTTCA
65 CTTTCA
* * * *
100744792 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
100744857 CTTTCA
65 CTTTCA
* *
100744863 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
100744919 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:100752376 original size:71 final size:71
Alignment explanation
Indices: 100752292--100752455 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
100752282 CGATTTGTCT
100752292 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
100752357 CTTTCA
66 CTTTCA
100752363 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
100752428 CTTTCA
66 CTTTCA
100752434 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
100752456 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:100752493 original size:71 final size:70
Alignment explanation
Indices: 100752292--100752489 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
100752282 CGATTTGTCT
* * * *
100752292 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
100752357 CTTTCA
65 CTTTCA
* * * *
100752363 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
100752428 CTTTCA
65 CTTTCA
* *
100752434 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
100752490 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:100761729 original size:40 final size:40
Alignment explanation
Indices: 100761670--100761811 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
100761660 AAATTGAATG
* * *
100761670 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
100761710 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
100761750 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
100761790 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
100761812 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:100761812 original size:40 final size:39
Alignment explanation
Indices: 100761709--100761837 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
100761699 TGCTGGAAAT
* * *
100761709 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
100761749 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
100761789 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
100761829 TATATCCGG
1 TATATCCGG
100761838 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:100772811 original size:123 final size:123
Alignment explanation
Indices: 100772592--100773053 Score: 843
Period size: 123 Copynumber: 3.8 Consensus size: 123
100772582 GAATTATGTG
100772592 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
100772657 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
100772715 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
100772780 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCTTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
100772838 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
100772903 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
100772961 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
100773026 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
100773054 AATTATATCC
Statistics
Matches: 329, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 329 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:100772943 original size:64 final size:64
Alignment explanation
Indices: 100772743--100772935 Score: 159
Period size: 64 Copynumber: 3.1 Consensus size: 64
100772733 TAATGATTAT
100772743 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
* * * * * *** * *** * * *
100772807 TGATATGTTTGTGTTTGAG-CTTT--A--GTA-ACGAAAATGAAATATGGATGTGTAATGAT--T
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCG-GGCT-AAGTCCCGAAG-GCAATTATGCT
*
100772864 AT
63 AG
100772866 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
100772930 TGATAT
1 TGATAT
100772936 GTTTGTGTTC
Statistics
Matches: 86, Mismatches: 32, Indels: 22
0.61 0.23 0.16
Matches are distributed among these distances:
58 2 0.02
59 22 0.26
60 9 0.10
61 7 0.08
62 7 0.08
63 9 0.10
64 28 0.33
65 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.35
Consensus pattern (64 bp):
TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
Found at i:100773219 original size:40 final size:40
Alignment explanation
Indices: 100773022--100773225 Score: 228
Period size: 40 Copynumber: 5.1 Consensus size: 40
100773012 TGAATGATAC
* * * * **
100773022 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
100773062 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * *
100773102 CCAGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
100773142 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * **
100773182 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
100773222 CCGG
1 CCGG
100773226 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:100778924 original size:6 final size:6
Alignment explanation
Indices: 100778901--100778956 Score: 60
Period size: 6 Copynumber: 9.0 Consensus size: 6
100778891 TGAATCCTCC
* *
100778901 TATTTT TTTTTCT TATTTT TA-TTT TATTTT ATTTATTT TATTTT TATTTT
1 TATTTT TATTT-T TATTTT TATTTT TATTTT -TAT-TTT TATTTT TATTTT
100778951 TATTTT
1 TATTTT
100778957 CAATTCAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 5 0.12
6 25 0.60
7 9 0.21
8 3 0.07
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:100778925 original size:5 final size:5
Alignment explanation
Indices: 100778917--100778956 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
100778907 TTTTTCTTAT
100778917 TTTTA TTTTA TTTTA -TTTA TTTTA TTTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT
100778957 CAATTCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 18 0.55
6 11 0.33
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:100778954 original size:37 final size:38
Alignment explanation
Indices: 100778901--100778981 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 38
100778891 TGAATCCTCC
* * **
100778901 TATTTTTTTTTCTTATTTT-TATTTTATTTTATTTATTT
1 TATTTTTATTTCTTATTTTCAATTCAATTTTA-TTATTT
100778939 TATTTTTATTT-TTATTTTCAATTCAATTTTATTATTT
1 TATTTTTATTTCTTATTTTCAATTCAATTTTATTATTT
100778976 TATTTT
1 TATTTT
100778982 GAAAAACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 19 0.50
38 19 0.50
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (38 bp):
TATTTTTATTTCTTATTTTCAATTCAATTTTATTATTT
Found at i:100780143 original size:115 final size:115
Alignment explanation
Indices: 100780000--100780231 Score: 464
Period size: 115 Copynumber: 2.0 Consensus size: 115
100779990 TAATATTATT
100780000 ACCTCACTATGTTCCCATTTTTTGTTACTGAATCATGAAATATGATTTCTATATTGTATTGACTT
1 ACCTCACTATGTTCCCATTTTTTGTTACTGAATCATGAAATATGATTTCTATATTGTATTGACTT
100780065 GATGAGTTGATAAAAAAAATGTAATTCTCAGCAAGCTAAAGTTGTCATGA
66 GATGAGTTGATAAAAAAAATGTAATTCTCAGCAAGCTAAAGTTGTCATGA
100780115 ACCTCACTATGTTCCCATTTTTTGTTACTGAATCATGAAATATGATTTCTATATTGTATTGACTT
1 ACCTCACTATGTTCCCATTTTTTGTTACTGAATCATGAAATATGATTTCTATATTGTATTGACTT
100780180 GATGAGTTGATAAAAAAAATGTAATTCTCAGCAAGCTAAAGTTGTCATGA
66 GATGAGTTGATAAAAAAAATGTAATTCTCAGCAAGCTAAAGTTGTCATGA
100780230 AC
1 AC
100780232 TCATGCAAAA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (115 bp):
ACCTCACTATGTTCCCATTTTTTGTTACTGAATCATGAAATATGATTTCTATATTGTATTGACTT
GATGAGTTGATAAAAAAAATGTAATTCTCAGCAAGCTAAAGTTGTCATGA
Found at i:100786513 original size:64 final size:62
Alignment explanation
Indices: 100786347--100786564 Score: 183
Period size: 64 Copynumber: 3.4 Consensus size: 62
100786337 CATAATTTTG
* * *
100786347 GCTCTCTTGTACACATGGTGTACACATAG-TCACCCATGTGACCTAGCCACTTTATCTCGT-
1 GCTCTCTTGTACACATGGTGTACACATAGATCACCCATGCGACCTAGCTACTCTATCTCGTA
** * * * * *
100786407 GCTCTC-TGTTTACATGGTGTCCTTCACCTAGAACCACACATGCAACCTAGCTACATCTATCTCG
1 GCTCTCTTGTACACATGGTG---TACACATAG-ATCACCCATGCGACCTAGCTAC-TCTATCTCG
100786471 TA
61 TA
*
100786473 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGGCCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAG-ATCACCCATGCGACCTAGCTA-CTC-T-A--TCT
100786537 CGTA
59 CGTA
* *
100786541 GCACTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
100786565 TCCCGTATTA
Statistics
Matches: 123, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
59 11 0.09
60 6 0.05
62 7 0.06
64 42 0.34
65 11 0.09
66 7 0.06
67 11 0.09
68 27 0.22
69 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (62 bp):
GCTCTCTTGTACACATGGTGTACACATAGATCACCCATGCGACCTAGCTACTCTATCTCGTA
Found at i:100791617 original size:27 final size:28
Alignment explanation
Indices: 100791561--100791630 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
100791551 AAATTTGTAC
100791561 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
100791589 AGCACTAAGTGTGCTAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
100791616 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
100791631 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:100791641 original size:27 final size:27
Alignment explanation
Indices: 100791561--100791642 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
100791551 AAATTTGTAC
* *
100791561 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * * *
100791589 AGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
100791616 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
100791643 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.62
28 17 0.36
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:100801512 original size:6 final size:6
Alignment explanation
Indices: 100801485--100801551 Score: 75
Period size: 6 Copynumber: 11.0 Consensus size: 6
100801475 TTGAATCCTC
* *
100801485 TTATTT TT-TTAT TTATTC TTATTT TTA-TT TTATTT TATTTTAT TTATTT
1 TTATTT TTATT-T TTATTT TTATTT TTATTT TTATTT T-TATT-T TTATTT
100801534 TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT
100801552 CAATTTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 7 0.13
6 35 0.67
7 8 0.15
8 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:100801529 original size:31 final size:32
Alignment explanation
Indices: 100801491--100801571 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 32
100801481 CCTCTTATTT
*
100801491 TTTTATTTATTCTTATTTTTA-TTTTATTT-TA
1 TTTTATTTATT-TTATTTTTATTTTTATTTCAA
100801522 TTTTATTTATTTTTATTTTTATTTTTATTTCAA
1 TTTTATTTA-TTTTATTTTTATTTTTATTTCAA
100801555 TTTTA-TTATTTTATTTT
1 TTTTATTTATTTTATTTT
100801572 GAAAACATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
31 27 0.59
32 13 0.28
33 6 0.13
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (32 bp):
TTTTATTTATTTTATTTTTATTTTTATTTCAA
Found at i:100801544 original size:37 final size:37
Alignment explanation
Indices: 100801485--100801571 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
100801475 TTGAATCCTC
*
100801485 TTATTTTTTTA--TTTATTCTTATTTTTATTT-TATT
1 TTATTTTTTTATTTTTATTCTTATTTTTATTTCAATT
*
100801519 TTATTTTATTTATTTTTATTTTTATTTTTATTTCAATT
1 TTATTTT-TTTATTTTTATTCTTATTTTTATTTCAATT
*
100801557 TTATTATTTTATTTT
1 TTATTTTTTTATTTT
100801572 GAAAACATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
34 7 0.15
35 4 0.09
37 26 0.57
38 9 0.20
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (37 bp):
TTATTTTTTTATTTTTATTCTTATTTTTATTTCAATT
Found at i:100801557 original size:12 final size:10
Alignment explanation
Indices: 100801490--100801570 Score: 69
Period size: 10 Copynumber: 7.9 Consensus size: 10
100801480 TCCTCTTATT
100801490 TTTTTATTTA
1 TTTTTATTTA
* *
100801500 TTCTTATTTT
1 TTTTTATTTA
100801510 TATTTTATTT-
1 T-TTTTATTTA
100801520 TATTTTATTTA
1 T-TTTTATTTA
100801531 TTTTTATTTTTA
1 TTTTTA--TTTA
100801543 TTTTTATTTCA
1 TTTTTATTT-A
*
100801554 ATTTTA-TTA
1 TTTTTATTTA
100801563 -TTTTATTT
1 TTTTTATTT
100801571 TGAAAACATA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
8 5 0.08
9 3 0.05
10 29 0.48
11 14 0.23
12 10 0.16
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTATTTA
Done.