Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 73 of 199
Found at i:20563689 original size:16 final size:18
Alignment explanation
Indices: 20563670--20563707 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
20563660 ATTTTTTAAA
20563670 AAAATTA-TAAAAAAT-T
1 AAAATTATTAAAAAATAT
*
20563686 AAAATTATTTAAAAATAT
1 AAAATTATTAAAAAATAT
20563704 AAAA
1 AAAA
20563708 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATTATTAAAAAATAT
Found at i:20563696 original size:29 final size:28
Alignment explanation
Indices: 20563649--20563712 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
20563639 ATGTTTCATC
* *
20563649 AAAAATTAATTATTTTTTAAAAAAATTATA
1 AAAAATTAATAATTATTTAAAAAAA-TA-A
*
20563679 AAAAATTAA-AATTATTTAAAAATATAA
1 AAAAATTAATAATTATTTAAAAAAATAA
20563706 AAAAATT
1 AAAAATT
20563713 TTAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 8 0.26
28 2 0.06
29 12 0.39
30 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAAATTAATAATTATTTAAAAAAATAA
Found at i:20563713 original size:18 final size:18
Alignment explanation
Indices: 20563665--20563713 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
20563655 TAATTATTTT
20563665 TTAAAAAAATTATAAAAAA
1 TTAAAAAAATT-TAAAAAA
**
20563684 TTAAAATTATTT-AAAAA
1 TTAAAAAAATTTAAAAAA
20563701 TATAAAAAAATTT
1 T-TAAAAAAATTT
20563714 TAATAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 10 0.40
19 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAAAATTTAAAAAA
Found at i:20563715 original size:19 final size:18
Alignment explanation
Indices: 20563666--20563721 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
20563656 AATTATTTTT
*
20563666 TAAAAAAATTATAAAAAA
1 TAAAAAAATTTTAAAAAA
* *
20563684 T-TAAAATTATTTAAAAATA
1 TAAAAAAAT-TTTAAAAA-A
20563703 TAAAAAAATTTTAATAAAA
1 TAAAAAAATTTTAA-AAAA
20563722 AAATTAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
17 5 0.17
18 8 0.28
19 8 0.28
20 8 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAAAATTTTAAAAAA
Found at i:20573608 original size:14 final size:14
Alignment explanation
Indices: 20573589--20573616 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20573579 TATTTTCTGG
20573589 CTTCTTGAAAACAT
1 CTTCTTGAAAACAT
20573603 CTTCTTGAAAACAT
1 CTTCTTGAAAACAT
20573617 ACTTTGGCGT
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:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CTTCTTGAAAACAT
Found at i:20585963 original size:42 final size:41
Alignment explanation
Indices: 20585913--20586018 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 41
20585903 CTACGGGTCA
*
20585913 CACCACAACACCACCTACCAATCTTCCTACTCCTATGGACCC
1 CACCACAACACCACC-ACCAATCTTCCCACTCCTATGGACCC
* *
20585955 CATCACAACACCACCCACCAATCTTCCCACTCCTATGGATCC
1 CACCACAACACCA-CCACCAATCTTCCCACTCCTATGGACCC
20585997 CACCACAACACCATCCACCAAT
1 CACCACAACACCA-CCACCAAT
20586019 TAAACGTCTC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 56 0.97
43 2 0.03
ACGTcount: A:0.31, C:0.48, G:0.04, T:0.17
Consensus pattern (41 bp):
CACCACAACACCACCACCAATCTTCCCACTCCTATGGACCC
Found at i:20588771 original size:59 final size:59
Alignment explanation
Indices: 20588705--20588874 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
20588695 TCAAGTTTGT
*
20588705 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
20588764 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
20588823 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
20588875 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:20588906 original size:16 final size:16
Alignment explanation
Indices: 20588885--20588926 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
20588875 AATAATTTGA
*
20588885 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
20588901 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
20588917 TAGTTTTAAT
1 TAATTTTAAT
20588927 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:20588910 original size:22 final size:23
Alignment explanation
Indices: 20588900--20588961 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
20588890 TTACTAACAA
* * *
20588900 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
20588922 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
20588945 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
20588962 CGGGCTGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:20589635 original size:147 final size:151
Alignment explanation
Indices: 20589452--20589771 Score: 389
Period size: 153 Copynumber: 2.1 Consensus size: 151
20589442 CCCAAGACCT
* * *
20589452 CAACACAAACAAAATTTTTTACAAACAAAAATATAATCTTAAACATTAAATTTAAATATT-AA-A
1 CAACACAAAC-AAATTTTTTACAAACAAAAATATAATATTAAACATTAAATCTAAAGATTAAATA
* * *
20589515 AA-TAAAAAATAGACATATAATATAAAAATTATTATTACAA-ACTAAAAAA-AAACCTTAAAACT
65 AATTAAAAAATAAACATATAATATAAAAATTATTATTACAACAATAAAAAACAAACATTAAAA-T
* *
20589577 ATCATAAACTATCTCTAAAACTC
129 ATCACAAACTATCCCTAAAACTC
* * * *
20589600 CAACACAAACAGATTTTTTATAAACAAAAATATAATATTAAATATTTAATCTAAAGATTAACAAT
1 CAACACAAACAAATTTTTTACAAACAAAAATATAATATTAAACATTAAATCTAAAGATT-A-AAT
* * *
20589665 AAATTAAAATATAAACATATAATATACAAATTATTATTACAACAATAAAAAACACACATTAAAAT
64 AAATTAAAAAATAAACATATAATATAAAAATTATTATTACAACAATAAAAAACAAACATTAAAAT
* ** * *
20589730 TTCACAATTTCTCCCTAAAATTC
129 ATCACAAACTATCCCTAAAACTC
20589753 CAACACAAACAAATTTTTT
1 CAACACAAACAAATTTTTT
20589772 TCCTCCCAAA
Statistics
Matches: 144, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
147 42 0.29
148 10 0.07
150 2 0.01
151 3 0.02
152 35 0.24
153 43 0.30
154 9 0.06
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (151 bp):
CAACACAAACAAATTTTTTACAAACAAAAATATAATATTAAACATTAAATCTAAAGATTAAATAA
ATTAAAAAATAAACATATAATATAAAAATTATTATTACAACAATAAAAAACAAACATTAAAATAT
CACAAACTATCCCTAAAACTC
Found at i:20589715 original size:152 final size:148
Alignment explanation
Indices: 20589452--20589771 Score: 376
Period size: 147 Copynumber: 2.1 Consensus size: 148
20589442 CCCAAGACCT
* * *
20589452 CAACACAAACAAAATTTTTTACAAACAAAAATATAATCTTAAACATTAAATTTAAATATTAAAAA
1 CAACACAAAC-AAATTTTTTACAAACAAAAATATAATATTAAACATTAAATCTAAAGATTAAAAA
* * *
20589517 TAAAAAATAGACATATAATATAAAAATTATTATTACAAACTAAAAAAA-A-ACCTTAAAACTATC
65 TAAAAAATAAACATATAATATAAAAATTATTATTACAAAATAAAAAAACACACATTAAAA-TATC
* *
20589580 ATAAACTATCTCTAAAACTC
129 ACAAACTATCCCTAAAACTC
* * * *
20589600 CAACACAAACAGATTTTTTATAAACAAAAATATAATATTAAATATTTAATCTAAAGATTAACAAT
1 CAACACAAACAAATTTTTTACAAACAAAAATATAATATTAAACATTAAATCTAAAGATT---AA-
* *
20589665 AAATTAAAATATAAACATATAATATACAAATTATTATTACAACAAT-AAAAAACACACATTAAAA
62 AAA-TAAAAAATAAACATATAATATAAAAATTATTATTACAA-AATAAAAAAACACACATTAAAA
* ** * *
20589729 TTTCACAATTTCTCCCTAAAATTC
125 TATCACAAACTATCCCTAAAACTC
20589753 CAACACAAACAAATTTTTT
1 CAACACAAACAAATTTTTT
20589772 TCCTCCCAAA
Statistics
Matches: 144, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
147 42 0.29
148 10 0.07
150 2 0.01
151 3 0.02
152 41 0.28
153 38 0.26
154 8 0.06
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (148 bp):
CAACACAAACAAATTTTTTACAAACAAAAATATAATATTAAACATTAAATCTAAAGATTAAAAAT
AAAAAATAAACATATAATATAAAAATTATTATTACAAAATAAAAAAACACACATTAAAATATCAC
AAACTATCCCTAAAACTC
Found at i:20601389 original size:19 final size:17
Alignment explanation
Indices: 20601356--20601408 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
20601346 TGGTAAAAAA
*
20601356 ATAAAAATCAATAAAAGTT
1 ATAAAAATTAAT-AAA-TT
*
20601375 ATAAAAATTATTAAATT
1 ATAAAAATTAATAAATT
*
20601392 AAAAAAATTAA-AAATT
1 ATAAAAATTAATAAATT
20601408 A
1 A
20601409 GAATTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 6 0.20
17 11 0.37
18 3 0.10
19 10 0.33
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAATTAATAAATT
Found at i:20601747 original size:29 final size:28
Alignment explanation
Indices: 20601715--20601813 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 28
20601705 TTCAATATAT
*
20601715 TTTATAATTCTTTTACGATTTTTATAAAA
1 TTTATAATT-TTTTAAGATTTTTATAAAA
* * * *
20601744 TTTACAATTTTTTTTATG-TTTTTTTATAA
1 TTTATAA--TTTTTTAAGATTTTTATAAAA
* *
20601773 TTTTTAATATTTTTAATATTTTTATTAAAA
1 TTTATAAT-TTTTTAAGATTTTTA-TAAAA
20601803 TTTAATAATTT
1 TTT-ATAATTT
20601814 GTATAACTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
27 1 0.02
28 6 0.11
29 25 0.47
30 15 0.28
31 6 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATAATTTTTTAAGATTTTTATAAAA
Found at i:20601776 original size:10 final size:9
Alignment explanation
Indices: 20601772--20601796 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20601762 TTTTTTTATA
20601772 ATTTTTAAT
1 ATTTTTAAT
20601781 ATTTTTAAT
1 ATTTTTAAT
20601790 ATTTTTA
1 ATTTTTA
20601797 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:20613030 original size:113 final size:111
Alignment explanation
Indices: 20612892--20613184 Score: 383
Period size: 111 Copynumber: 2.6 Consensus size: 111
20612882 TTATTAATTA
*
20612892 TTATAAATTGTTTGTGTTTAGTTTAGTATTTTGTAATTTTTTATGAATGTAAATTTTTTGTTTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTATTTTGTGATTTTTTATGAATGTAAATTTTTT-TTTTT
** * * * *
20612957 TGTTTTTAAATTATTTTATAGTTATTTTGTTAGTAATTTATTATTAGG
65 T-TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGATTAGG
* * * * *
20613005 TTATAAATTATTTGTGTTTAGTTTAGTGTTTTGTGAGTTTTTGTGAATGTAAATTTTTTTGTTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTATTTTGTGATTTTTTATGAATGTAAATTTTTTTTTTTT
*
20613070 TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGGTTAGG
66 TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGATTAGG
* * *
20613116 TTAT--ATTGTTTATGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTTG
1 TTATAAATTGTTTGTGTTTAGTTTAGT-ATT-TTGTGATTTTTTATGAATGTAAATTTTTTTTT-
20613179 TTTTTT
63 TTTTTT
20613185 CTAAGGGTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
109 19 0.12
110 2 0.01
111 71 0.45
112 11 0.07
113 54 0.34
ACGTcount: A:0.23, C:0.01, G:0.15, T:0.61
Consensus pattern (111 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTATTTTGTGATTTTTTATGAATGTAAATTTTTTTTTTTT
TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGATTAGG
Found at i:20613129 original size:20 final size:18
Alignment explanation
Indices: 20613104--20613146 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20613094 TTGTCAGTAA
*
20613104 TTTATGGTTAGGTTATATTG
1 TTTATGGTTA-GTT-TAGTG
*
20613124 TTTATGTTTAGTTTAGTG
1 TTTATGGTTAGTTTAGTG
20613142 TTTAT
1 TTTAT
20613147 TGTGATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (18 bp):
TTTATGGTTAGTTTAGTG
Found at i:20613243 original size:31 final size:29
Alignment explanation
Indices: 20613205--20613278 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
20613195 ACTACCAAAA
* *
20613205 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
20613236 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
20613265 TAGTCACTTATGTT
1 TAGTCACTTATGTT
20613279 ATCATGTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:20613300 original size:31 final size:29
Alignment explanation
Indices: 20613230--20613303 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
20613220 GACTCAGGTT
* *
20613230 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
20613259 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
20613290 ACATTTTAGTCACT
1 ACATTTTAGTCACT
20613304 AAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:20614157 original size:112 final size:107
Alignment explanation
Indices: 20613999--20614266 Score: 369
Period size: 112 Copynumber: 2.4 Consensus size: 107
20613989 ATTATAAATT
* * *
20613999 GTTT-GTGTTTATTGTGATTTTTTATGAATGTAAATTTTCTTTTGTTTTTTTAATTAATTTAAAG
1 GTTTAGTGTTTATTGTGATTTGTTAT-AATGT-AATTTT-ATTTGTTTTTTAAATTAATTTAAAG
*
20614063 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTA
63 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTA
* *
20614110 GTTTAGTGTTTATTGTGACTTGTTATAAATGTATATATTT-TTGTGTTTTTTAAATTATTTTAAA
1 GTTTAGTGTTTATTGTGATTTGTTAT-AATGTA-AT-TTTATT-TGTTTTTTAAATTAATTTAAA
20614174 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTA
62 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTA
* *
20614220 GTTTAATGTGTATTGTGATTTGTTATAATGTAATTTTATTTGTTTTT
1 GTTTAGTGTTTATTGTGATTTGTTATAATGTAATTTTATTTGTTTTT
20614267 GATTTATTTG
Statistics
Matches: 143, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
107 10 0.07
108 4 0.03
109 6 0.04
110 29 0.20
111 9 0.06
112 82 0.57
113 3 0.02
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.59
Consensus pattern (107 bp):
GTTTAGTGTTTATTGTGATTTGTTATAATGTAATTTTATTTGTTTTTTAAATTAATTTAAAGTTA
TTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTA
Found at i:20614556 original size:21 final size:22
Alignment explanation
Indices: 20614505--20614557 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
20614495 TTTTTGTAAT
* *
20614505 TATATTATTATTGTACTATATT
1 TATAATATTATTGTACTATATG
** *
20614527 TATCGTATTATT-TACTGTATG
1 TATAATATTATTGTACTATATG
20614548 TATAATATTA
1 TATAATATTA
20614558 ATGTGTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
TATAATATTATTGTACTATATG
Found at i:20618582 original size:26 final size:25
Alignment explanation
Indices: 20618539--20618587 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
20618529 ATAAACATTA
*
20618539 AACTAAAAAATTAATTTATAATAGT
1 AACTAAAAAATTAATTTAAAATAGT
20618564 AACTAACAAAA-TAACTTTAAAATA
1 AACTAA-AAAATTAA-TTTAAAATA
20618588 AATTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (25 bp):
AACTAAAAAATTAATTTAAAATAGT
Found at i:20618598 original size:108 final size:103
Alignment explanation
Indices: 20618335--20618596 Score: 339
Period size: 106 Copynumber: 2.5 Consensus size: 103
20618325 ACTAACTAAT
* * * *
20618335 AATTAATTTATAATAGTTACTAA-AAAATACCTTTCAAATAAATTAAAAATATTAAAAGATTACA
1 AATTAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAATAATAAAAAATTACA
*
20618399 TTCATAACCTAACAAATCACAATAAAACCTAAACAAAC
66 TTCATAACCTAACAAATCACAATAAAACCTAAACAAAA
** * *
20618437 AATTAACCTAATTGCAAAATTTACTAACAAAATAACTTTAAAATAAATTAAAAATTAATAAAAAA
1 AATTAA--T--TTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA-TAATAAAAAA
*
20618502 TTACATTCATAACCTAACAAAATCACAAT-AAACATTAAACTAAAA
61 TTACATTCATAACCTAAC-AAATCACAATAAAAC-CTAAAC-AAAA
*
20618547 AATTAATTTATAATAGTAACTAACAAAATAACTTTAAAATAAATTAAAAA
1 AATTAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA
20618597 AACAACATAA
Statistics
Matches: 136, Mismatches: 15, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
102 6 0.04
104 1 0.01
106 50 0.37
107 24 0.18
108 31 0.23
109 15 0.11
110 9 0.07
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (103 bp):
AATTAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAATAATAAAAAATTACA
TTCATAACCTAACAAATCACAATAAAACCTAAACAAAA
Found at i:20618709 original size:16 final size:18
Alignment explanation
Indices: 20618688--20618724 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
20618678 AATAAAAATA
20618688 TCTTATAC-TTCTTT-TT
1 TCTTATACTTTCTTTCTT
*
20618704 TCTTATCCTTTCTTTCTT
1 TCTTATACTTTCTTTCTT
20618722 TCT
1 TCT
20618725 CCTTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (18 bp):
TCTTATACTTTCTTTCTT
Found at i:20633472 original size:4 final size:4
Alignment explanation
Indices: 20633463--20633487 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20633453 AAACTAAGTA
20633463 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
20633488 GATATAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:20637401 original size:22 final size:22
Alignment explanation
Indices: 20637360--20637402 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
20637350 ATATCAAATC
*
20637360 TAAATCTATTATTCATAACAAT
1 TAAATCTATTATCCATAACAAT
20637382 TAAAGTCTATTATCCA-AACAA
1 TAAA-TCTATTATCCATAACAA
20637403 CCATTACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAATCTATTATCCATAACAAT
Found at i:20639248 original size:11 final size:11
Alignment explanation
Indices: 20639232--20639262 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20639222 AAGTATGGGT
20639232 AGGTATGGGAA
1 AGGTATGGGAA
*
20639243 AGGTATGGGCA
1 AGGTATGGGAA
20639254 AGGTATGGG
1 AGGTATGGG
20639263 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:20643338 original size:18 final size:18
Alignment explanation
Indices: 20643315--20643407 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
20643305 CCCAACTACT
* *
20643315 GTATACGTGAACAGTGCC
1 GTATACGTGAATAGTACC
*
20643333 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
20643351 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
20643369 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
20643387 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
20643405 GTA
1 GTA
20643408 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:20643969 original size:11 final size:11
Alignment explanation
Indices: 20643953--20643983 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20643943 AAGTATGGGT
20643953 AGGTATGGGAA
1 AGGTATGGGAA
*
20643964 AGGTATGGGCA
1 AGGTATGGGAA
20643975 AGGTATGGG
1 AGGTATGGG
20643984 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:20672867 original size:28 final size:28
Alignment explanation
Indices: 20672835--20672891 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
20672825 AACAATAACA
20672835 TAGCAACCTAAGTTTCAAGTGGAAAAAG
1 TAGCAACCTAAGTTTCAAGTGGAAAAAG
20672863 TAGCAACCTAAGTTTCAAGTGGAAAAAG
1 TAGCAACCTAAGTTTCAAGTGGAAAAAG
20672891 T
1 T
20672892 TATGTTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (28 bp):
TAGCAACCTAAGTTTCAAGTGGAAAAAG
Found at i:20676468 original size:21 final size:21
Alignment explanation
Indices: 20676443--20676484 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20676433 GGCATGTACA
20676443 TAGGCTTAGAATCATGTGTAT
1 TAGGCTTAGAATCATGTGTAT
20676464 TAGGCTTAGAATCATGTGTAT
1 TAGGCTTAGAATCATGTGTAT
20676485 CGTTGTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (21 bp):
TAGGCTTAGAATCATGTGTAT
Found at i:20677973 original size:2 final size:2
Alignment explanation
Indices: 20677966--20678037 Score: 135
Period size: 2 Copynumber: 36.0 Consensus size: 2
20677956 ATCCCAATTT
*
20677966 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
20678008 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
20678038 TACATATAAC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.49, G:0.00, T:0.01
Consensus pattern (2 bp):
CA
Found at i:20686432 original size:705 final size:705
Alignment explanation
Indices: 20685083--20686480 Score: 2679
Period size: 705 Copynumber: 2.0 Consensus size: 705
20685073 GTTACGGCAA
20685083 GTTTTTGAAGAGGGCTGCTAACTGGCAGTCAAAAGTGGCCATTTCCATCATTTATGCAATAGTAT
1 GTTTTTGAAGAGGGCTGCTAACTGGCAGTCAAAAGTGGCCATTTCCATCATTTATGCAATAGTAT
20685148 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
66 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
* *
20685213 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAATCATTTAAAGTAATTATCCTTGAAGA
131 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAATCAATTAAAGTAACTATCCTTGAAGA
*
20685278 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATCTTCCACCAAACGTGTG
196 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATCTTCCACCAAACATGTG
20685343 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
261 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
20685408 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTAAGATAGTGACGCATGGTGCCAG
326 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTAAGATAGTGACGCATGGTGCCAG
*
20685473 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTGTGAAGAAGTAAAAGATTGTTTGGAAGAAGAAT
391 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTGTGAAGAAGCAAAAGATTGTTTGGAAGAAGAAT
*
20685538 GAGCCAAAGTGTTTACTTGTATCTAATTAATATTTGAAGAATTCTTTAGATAATGTGTGGTACTT
456 GAGCCAAAGTGTTTACTTGCATCTAATTAATATTTGAAGAATTCTTTAGATAATGTGTGGTACTT
20685603 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
521 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
20685668 ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
586 ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
*
20685733 GTCCTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGCACAAAATAATGT
651 GTACTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGCACAAAATAATGT
* *
20685788 GTTTTTGAAGAGGGCTGCTAATTGGCAGTCAAAAGTGGCCATTTCCATCGTTTATGCAATAGTAT
1 GTTTTTGAAGAGGGCTGCTAACTGGCAGTCAAAAGTGGCCATTTCCATCATTTATGCAATAGTAT
20685853 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
66 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
20685918 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAATCAATTAAAGTAACTATCCTTGAAGA
131 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAATCAATTAAAGTAACTATCCTTGAAGA
*
20685983 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATGTTCCACCAAACATGTG
196 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATCTTCCACCAAACATGTG
*
20686048 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTACACT
261 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
*
20686113 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTGAGATAGTGACGCATGGTGCCAG
326 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTAAGATAGTGACGCATGGTGCCAG
20686178 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTGTGAAGAAGCAAAAGATTGTTTGGAAGAAGAAT
391 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTGTGAAGAAGCAAAAGATTGTTTGGAAGAAGAAT
*
20686243 GAGCCAAAGTGTTTGCTTGCATCTAATTAATATTTGAAGAATTCTTTAGATAATGTGTGGTACTT
456 GAGCCAAAGTGTTTACTTGCATCTAATTAATATTTGAAGAATTCTTTAGATAATGTGTGGTACTT
20686308 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
521 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
*
20686373 ATTTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
586 ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
20686438 GTACTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGC
651 GTACTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGC
20686481 CCTGAAGTCT
Statistics
Matches: 680, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
705 680 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (705 bp):
GTTTTTGAAGAGGGCTGCTAACTGGCAGTCAAAAGTGGCCATTTCCATCATTTATGCAATAGTAT
GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAATCAATTAAAGTAACTATCCTTGAAGA
GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATCTTCCACCAAACATGTG
TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTAAGATAGTGACGCATGGTGCCAG
TTGAAGTGCCCACTTTACGTGGCTCATTGTCTGTGAAGAAGCAAAAGATTGTTTGGAAGAAGAAT
GAGCCAAAGTGTTTACTTGCATCTAATTAATATTTGAAGAATTCTTTAGATAATGTGTGGTACTT
CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
GTACTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGCACAAAATAATGT
Found at i:20686937 original size:20 final size:20
Alignment explanation
Indices: 20686912--20686952 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20686902 AATGTTTCTG
20686912 TGTATGCTAATTTTATAAAC
1 TGTATGCTAATTTTATAAAC
20686932 TGTATGCTAATTTTATAAAC
1 TGTATGCTAATTTTATAAAC
20686952 T
1 T
20686953 ATTTTGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TGTATGCTAATTTTATAAAC
Found at i:20689185 original size:53 final size:53
Alignment explanation
Indices: 20689125--20689237 Score: 172
Period size: 53 Copynumber: 2.1 Consensus size: 53
20689115 GTCTTACACA
* * * *
20689125 CTTCTTTTTATATGGTGTCATAACTCACTAGTTACGATCTTACATGATATGGT
1 CTTCTTTTCATATGATGTCATAACCCACTAGTTACGATCTTACATGATATGAT
* *
20689178 CTTCTTTTCATATGATGTCATAACCCACTAGTTATGGTCTTACATGATATGAT
1 CTTCTTTTCATATGATGTCATAACCCACTAGTTACGATCTTACATGATATGAT
20689231 CTTCTTT
1 CTTCTTT
20689238 AGTGACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (53 bp):
CTTCTTTTCATATGATGTCATAACCCACTAGTTACGATCTTACATGATATGAT
Found at i:20699637 original size:32 final size:31
Alignment explanation
Indices: 20699577--20699647 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
20699567 ATCTACAAGT
*
20699577 TAAGTATATTAAATTAATAAAACATATTAAGA
1 TAAGTAT-TTAAATTAATAAAACATATTAAAA
*
20699609 TAAGTATTTAATTTAATATTAAAC-TATTAAAA
1 TAAGTATTTAAATTAATA--AAACATATTAAAA
20699641 TAA-TATT
1 TAAGTATT
20699648 ATTTTTGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 14 0.40
32 17 0.49
33 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (31 bp):
TAAGTATTTAAATTAATAAAACATATTAAAA
Found at i:20704967 original size:21 final size:21
Alignment explanation
Indices: 20704951--20705004 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
20704941 GGGTACATGG
20704951 CCGTGTGACTGACGTACACGC
1 CCGTGTGACTGACGTACACGC
*
20704972 CCGTGTGACTGATGTACACGC
1 CCGTGTGACTGACGTACACGC
20704993 CCGTGTGACTGA
1 CCGTGTGACTGA
20705005 GAGACATGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.22
Consensus pattern (21 bp):
CCGTGTGACTGACGTACACGC
Found at i:20708862 original size:16 final size:16
Alignment explanation
Indices: 20708841--20708872 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20708831 TACAAGAATT
20708841 TACAACGAAATTGAAA
1 TACAACGAAATTGAAA
*
20708857 TACAACGAGATTGAAA
1 TACAACGAAATTGAAA
20708873 ATGGAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (16 bp):
TACAACGAAATTGAAA
Found at i:20709064 original size:22 final size:22
Alignment explanation
Indices: 20709021--20709065 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20709011 GCAATTTGAA
* *
20709021 TATTTGATATTTTTTCTTTTGG
1 TATTTGAGATTTTTTCTATTGG
20709043 TATTTGAGATTGTTTT-TATTGG
1 TATTTGAGATT-TTTTCTATTGG
20709065 T
1 T
20709066 TGACGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (22 bp):
TATTTGAGATTTTTTCTATTGG
Found at i:20717277 original size:9 final size:10
Alignment explanation
Indices: 20717266--20717324 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 10
20717256 GGTACAAATA
20717266 AATAAATAA-
1 AATAAATAAT
*
20717275 AATGCAATAAT
1 AAT-AAATAAT
*
20717286 AAT-GATAAT
1 AATAAATAAT
20717295 AAT-AATAAT
1 AATAAATAAT
20717304 AATAAACTCAAT
1 AATAAA-T-AAT
20717316 AATAAATAA
1 AATAAATAA
20717325 AATGATAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
9 19 0.45
10 9 0.21
11 5 0.12
12 9 0.21
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (10 bp):
AATAAATAAT
Found at i:20718786 original size:44 final size:44
Alignment explanation
Indices: 20718723--20718831 Score: 191
Period size: 44 Copynumber: 2.5 Consensus size: 44
20718713 TTGACCCGCT
* *
20718723 CCACTGCAACTTTAGGGAGATCGGACTCATATCTTCAACCTGCC
1 CCACTACAACTTCAGGGAGATCGGACTCATATCTTCAACCTGCC
20718767 CCACTACAACTTCAGGGAGATCGGACTCATATCTTCAACCTGCC
1 CCACTACAACTTCAGGGAGATCGGACTCATATCTTCAACCTGCC
*
20718811 CCACTACAACTTCAGAGAGAT
1 CCACTACAACTTCAGGGAGAT
20718832 AAGGTTTGTG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (44 bp):
CCACTACAACTTCAGGGAGATCGGACTCATATCTTCAACCTGCC
Found at i:20719108 original size:43 final size:44
Alignment explanation
Indices: 20719009--20719489 Score: 163
Period size: 44 Copynumber: 11.1 Consensus size: 44
20718999 ATCTACTCTG
* *** * *
20719009 CTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCAC-TGGCTTCAATCTGCTCCA
* * * * * *
20719053 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
* * * *
20719096 TTGTAATCTCAGGGAGACAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
** ** *
20719140 CTGTAACCTCAGGGAGATAAGAT--CTGAAATTCTCTGTTCTACTCCA
1 CTGTAACCTCAGGGAGATAAGATCACTG--GCT-TC-AATCTGCTCCA
* * * * *
20719186 CTGTAACCTCAGGGAAATAAGA-C-CT-GATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCACTGGCT-TCAATCTGCTCCA
* * *
20719227 CTGTAACTTCAGAGAGATAAGATC-CT---TT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
* * * * * ** ** *
20719266 TTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
* ** * ** *
20719310 CTG-ATATCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCA
1 CTGTA-ACCTCAGGGAGATAAGATC--ACTGGCTTCAATCTGCTCCA
* * **
20719356 CTGTAACCTCAGGGAGATAAGA-C-CTGG-TGCGATCTGCTCTG
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
* * * *** * *
20719397 CTGTAACTTCAGAGAAATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCAC-TGGCTTCAATCTGCTCCA
* * * * * *
20719441 CTGTAACTTCAGGGAGATAGGATTA-TGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
20719484 CTGTAA
1 CTGTAA
20719490 TTTCAGGGGA
Statistics
Matches: 321, Mismatches: 95, Indels: 43
0.70 0.21 0.09
Matches are distributed among these distances:
39 25 0.08
40 3 0.01
41 55 0.17
42 9 0.03
43 52 0.16
44 110 0.34
45 3 0.01
46 63 0.20
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
Found at i:20719307 original size:170 final size:170
Alignment explanation
Indices: 20719125--20719489 Score: 495
Period size: 170 Copynumber: 2.1 Consensus size: 170
20719115 AGATCTCTGG
* * * *
20719125 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTC-TCTGTTCTACTCCACTG
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTC-GGTCTACTCCACTG
* * *
20719189 TAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC-T
65 TAACCTCAGGGAAATAAGACCTGATGCGATCTGCTCTACTGTAACTTCAGAGAAATAAGATCCTT
*
20719253 TTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTAT
130 TTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGATTA-TAT
* *
20719295 CTTTGATCTGCTCCGCTG-ATATCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTG
1 CTTCGATCTGCTCCGCTGTA-ACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTG
* * *
20719359 TAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTGCTGTAACTTCAGAGAAATAAGATCCTT
65 TAACCTCAGGGAAATAAGACCTGATGCGATCTGCTCTACTGTAACTTCAGAGAAATAAGATCC--
* *
20719424 TATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGT
128 --TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTATAT
20719469 CTTCGATCTGCTCCGCTGTAA
1 CTTCGATCTGCTCCGCTGTAA
20719490 TTTCAGGGGA
Statistics
Matches: 170, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
169 1 0.01
170 110 0.65
171 2 0.01
174 20 0.12
175 36 0.21
176 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (170 bp):
CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGT
AACCTCAGGGAAATAAGACCTGATGCGATCTGCTCTACTGTAACTTCAGAGAAATAAGATCCTTT
TAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTATAT
Found at i:20719513 original size:87 final size:85
Alignment explanation
Indices: 20719351--20719510 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 85
20719341 CTTCGGTCTA
* * *
20719351 CTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTGCTCTGCTGTAACTTCAGAGAAATA
1 CTCCACTGTAACCTCAGGGAGATAAGACATGCTGCGATCTGCTCCGCTGTAACTTCAGAGAAATA
20719416 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCCG
* * * * * * *
20719436 CTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAATTTCAGGGGAA
1 CTCCACTGTAACCTCAGGGAGATAAGA-CATG-CTGCGATCTGCTCCGCTGTAACTTCAGAGAAA
20719501 TAAGA-CCTTT
64 TAAGATCCTTT
20719511 TATAATGAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
85 25 0.40
86 7 0.11
87 31 0.49
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (85 bp):
CTCCACTGTAACCTCAGGGAGATAAGACATGCTGCGATCTGCTCCGCTGTAACTTCAGAGAAATA
AGATCCTTTATTTTAATCCG
Found at i:20731945 original size:43 final size:43
Alignment explanation
Indices: 20731831--20731998 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 43
20731821 TGCATGATAT
* * * * *
20731831 GTTTTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT--TT
1 GTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATA
* * *
20731872 GTTCTATAGCGGCGTTTGTGATAAACAGCGCCGCTAAAGGTCATG
1 GTT-TTTAGCGGCGTTTGTGAGAAA-AGCGCCGCTAAAGGTCATA
*
20731917 GTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATA
1 GTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATA
*
20731960 GTCTTTAGCGGCGTTTGTGTA-AAAAGCGCCGCTAAAGGT
1 GTTTTTAGCGGCGTTTGTG-AGAAAAGCGCCGCTAAAGGT
20731999 TAAAAAATGC
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.03
42 16 0.15
43 68 0.62
44 18 0.17
45 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
GTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATA
Found at i:20731988 original size:86 final size:86
Alignment explanation
Indices: 20731831--20731998 Score: 241
Period size: 86 Copynumber: 2.0 Consensus size: 86
20731821 TGCATGATAT
* * * *
20731831 GTTTTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGTTTGTTCTATAGCGGCGTTTGTGATAA
1 GTTTTTAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTTAGTTCTATAGCGGCGTTTGTGATAA
*
20731896 ACAGCGCCGCTAAAGGTCATG
66 AAAGCGCCGCTAAAGGTCATG
* *
20731917 GTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATAG-TCTTTAGCGGCGTTTGTG-T
1 GTTTTTAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGT--TAGTTCTATAGCGGCGTTTGTGAT
20731980 AAAAAGCGCCGCTAAAGGT
64 AAAAAGCGCCGCTAAAGGT
20731999 TAAAAAATGC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 54 0.74
87 17 0.23
88 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (86 bp):
GTTTTTAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTTAGTTCTATAGCGGCGTTTGTGATAA
AAAGCGCCGCTAAAGGTCATG
Found at i:20734134 original size:21 final size:20
Alignment explanation
Indices: 20734079--20734135 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
20734069 CCTCAATCCC
20734079 ATTTTTCAATTTTATATTTTCA
1 ATTTTT-AATTTT-TATTTTCA
* * *
20734101 ATCTTCAAATTTTAGTTTTCA
1 ATTTTTAATTTTTA-TTTTCA
20734122 ATTTTTAATTTTTA
1 ATTTTTAATTTTTA
20734136 ATCCTCAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.07
21 22 0.79
22 4 0.14
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTAATTTTTATTTTCA
Found at i:20734187 original size:15 final size:15
Alignment explanation
Indices: 20734167--20734196 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20734157 TATTTTTTGA
20734167 ATTTTATTATCTTCT
1 ATTTTATTATCTTCT
*
20734182 ATTTTATTATTTTCT
1 ATTTTATTATCTTCT
20734197 TATAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTATTATCTTCT
Found at i:20735599 original size:24 final size:23
Alignment explanation
Indices: 20735568--20735614 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
20735558 TATTCACACA
20735568 TATTCTTAC-TTAATTTCAAATGT
1 TATTCTTACATTAATTT-AAATGT
*
20735591 TATTACTTACATTACTTTAAATGT
1 TATT-CTTACATTAATTTAAATGT
20735615 CTCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACATTAATTTAAATGT
Found at i:20735894 original size:22 final size:24
Alignment explanation
Indices: 20735852--20735895 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
20735842 TAACTAAGCT
20735852 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
20735876 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
20735896 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:20736512 original size:5 final size:5
Alignment explanation
Indices: 20736493--20736572 Score: 73
Period size: 5 Copynumber: 16.6 Consensus size: 5
20736483 TTAGTTTATT
20736493 TAATA T-ATAA TAATA TAATA TAATA TAATA TAAT- T-ATA TAATA TATTATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA--ATA
* *
20736543 TTATA TTATA TAATA -AA-A TAATA T-ATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAA
20736573 AACATAAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
3 3 0.05
4 12 0.19
5 43 0.67
6 2 0.03
7 4 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAATA
Found at i:20736695 original size:23 final size:23
Alignment explanation
Indices: 20736669--20736713 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20736659 ATTAATCTAT
20736669 AATTCAACT-TTTACTCCTAATTC
1 AATTCAACTCTTT-CTCCTAATTC
* *
20736692 AATTTAACTCTTTTTCCTAATT
1 AATTCAACTCTTTCTCCTAATT
20736714 TCTCTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTCAACTCTTTCTCCTAATTC
Found at i:20743378 original size:21 final size:23
Alignment explanation
Indices: 20743349--20743395 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20743339 CGTGAATTAA
20743349 GTTTATAATA-TT-TAATCTATT
1 GTTTATAATAGTTATAATCTATT
* *
20743370 GTTTTTAATAGTTATAATGTATT
1 GTTTATAATAGTTATAATCTATT
20743393 GTT
1 GTT
20743396 ACAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
GTTTATAATAGTTATAATCTATT
Found at i:20746338 original size:17 final size:18
Alignment explanation
Indices: 20746307--20746341 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20746297 ATTTAATTAT
20746307 CAATTTATACAAATTTTG
1 CAATTTATACAAATTTTG
*
20746325 CAATTTATTC-AATTTTG
1 CAATTTATACAAATTTTG
20746342 TCCCTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (18 bp):
CAATTTATACAAATTTTG
Found at i:20757846 original size:30 final size:29
Alignment explanation
Indices: 20757812--20757889 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 29
20757802 ATAAAAGTAG
* *
20757812 AAAATTATAAAAATTATAGAATAACTATAA
1 AAAATTATAAAAATTATACAA-AACTACAA
*
20757842 AAAATTATAAAAATATTATACAAAATTACAA
1 AAAATTAT-AAAA-ATTATACAAAACTACAA
*
20757873 AAAAATATAAAAATTAT
1 AAAATTATAAAAATTAT
20757890 TAATATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.12
30 12 0.29
31 17 0.40
32 8 0.19
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
AAAATTATAAAAATTATACAAAACTACAA
Found at i:20757854 original size:11 final size:11
Alignment explanation
Indices: 20757812--20757885 Score: 59
Period size: 10 Copynumber: 7.2 Consensus size: 11
20757802 ATAAAAGTAG
20757812 AAAATTAT--A
1 AAAATTATAAA
*
20757821 AAAATTATAGA
1 AAAATTATAAA
* *
20757832 ATAACTAT-AA
1 AAAATTATAAA
20757842 AAAATTATAAA
1 AAAATTATAAA
* *
20757853 AATATTAT-AC
1 AAAATTATAAA
*
20757863 AAAATTACAAA
1 AAAATTATAAA
20757874 AAAA-TATAAA
1 AAAATTATAAA
20757884 AA
1 AA
20757886 TTATTAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
9 8 0.16
10 21 0.42
11 21 0.42
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:20757861 original size:21 final size:21
Alignment explanation
Indices: 20757815--20757925 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 21
20757805 AAAGTAGAAA
*
20757815 ATTAT-AAAAATTAT-AGAAT
1 ATTATAAAAAATTATAAAAAT
*
20757834 AACTATAAAAAATTATAAAAAT
1 -ATTATAAAAAATTATAAAAAT
* *
20757856 ATTATACAAAATTACAAAAA-
1 ATTATAAAAAATTATAAAAAT
* * *
20757876 AATAT-AAAAATTATTAATAT
1 ATTATAAAAAATTATAAAAAT
* **
20757896 ATTATGAAAAA-TATGCAAAT
1 ATTATAAAAAATTATAAAAAT
20757916 ATTATAAAAA
1 ATTATAAAAA
20757926 CTAGAATTAT
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
19 10 0.14
20 27 0.38
21 31 0.43
22 4 0.06
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (21 bp):
ATTATAAAAAATTATAAAAAT
Found at i:20757973 original size:11 final size:11
Alignment explanation
Indices: 20757957--20757989 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
20757947 TAAAGTATAT
20757957 AAAATTGATAA
1 AAAATTGATAA
20757968 AAAATTG-TAA
1 AAAATTGATAA
20757978 AAAATT-ATAA
1 AAAATTGATAA
20757988 AA
1 AA
20757990 CTATATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (11 bp):
AAAATTGATAA
Found at i:20758285 original size:8 final size:8
Alignment explanation
Indices: 20758272--20758298 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
20758262 TAAAAATTAT
20758272 TTAAAATA
1 TTAAAATA
20758280 TTAAAATA
1 TTAAAATA
20758288 TTAAAATA
1 TTAAAATA
20758296 TTA
1 TTA
20758299 TGAAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAAATA
Found at i:20758430 original size:20 final size:21
Alignment explanation
Indices: 20758405--20758450 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
20758395 TGATTTTATG
20758405 ATTTTA-ATAAATTTTAA-ATA
1 ATTTTATAT-AATTTTAACATA
*
20758425 ATTTTATATCATTTTAACATA
1 ATTTTATATAATTTTAACATA
20758446 ATTTT
1 ATTTT
20758451 CTATGACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTATATAATTTTAACATA
Found at i:20758953 original size:4 final size:4
Alignment explanation
Indices: 20758944--20759020 Score: 136
Period size: 4 Copynumber: 19.2 Consensus size: 4
20758934 ATCTAACCTC
* *
20758944 GTAT GTAT GTAT GTAC GTAC GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
20758992 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
20759021 AGTTTAGAGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.25, C:0.03, G:0.26, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:20762013 original size:16 final size:17
Alignment explanation
Indices: 20761994--20762025 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20761984 GTTAAAGAAC
20761994 TAGTGT-AATAAAAATA
1 TAGTGTGAATAAAAATA
20762010 TAGTGTGAATAAAAAT
1 TAGTGTGAATAAAAAT
20762026 GAAGAACGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (17 bp):
TAGTGTGAATAAAAATA
Found at i:20768492 original size:15 final size:15
Alignment explanation
Indices: 20768472--20768504 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
20768462 TTCCAAATGT
20768472 TAGTTGTTCTCAACA
1 TAGTTGTTCTCAACA
*
20768487 TAGTTGTTCTCAATA
1 TAGTTGTTCTCAACA
20768502 TAG
1 TAG
20768505 AGATTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (15 bp):
TAGTTGTTCTCAACA
Found at i:20768610 original size:16 final size:16
Alignment explanation
Indices: 20768589--20768648 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
20768579 GGAAAAAAAA
20768589 TTGTTCTAAATACA-AG
1 TTGTTCTAAA-ACATAG
* *
20768605 TTGTTCCAAAACATGG
1 TTGTTCTAAAACATAG
20768621 TTGTTCT-AAACATAG
1 TTGTTCTAAAACATAG
*
20768636 TTATTCCTAAAAC
1 TTGTT-CTAAAAC
20768649 GTCATTATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 14 0.39
16 18 0.50
17 4 0.11
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (16 bp):
TTGTTCTAAAACATAG
Found at i:20777296 original size:23 final size:22
Alignment explanation
Indices: 20777254--20777296 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
20777244 TATGAGACAA
*
20777254 AAAAAATTCAAGTATCAATTTG
1 AAAAAATTCAAGTATAAATTTG
20777276 AAAAAATT-AAGGTACTAAATT
1 AAAAAATTCAA-GTA-TAAATT
20777297 AAATATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.11
22 11 0.61
23 5 0.28
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAAAATTCAAGTATAAATTTG
Found at i:20787504 original size:25 final size:25
Alignment explanation
Indices: 20787423--20787529 Score: 121
Period size: 25 Copynumber: 4.3 Consensus size: 25
20787413 CTATAGCTCT
*
20787423 TATGAGCTTATCGATTCTCAACTCG
1 TATGAGCTTACCGATTCTCAACTCG
*
20787448 TATGAGCTTACTGATTCTCAACTCG
1 TATGAGCTTACCGATTCTCAACTCG
*
20787473 TATGAGCTTACCGATT-TACAACTCA
1 TATGAGCTTACCGATTCT-CAACTCG
* *
20787498 TGA-GAGCATACCGATTCAT-AGCTCG
1 T-ATGAGCTTACCGATTC-TCAACTCG
20787523 TATGAGC
1 TATGAGC
20787530 ATACATGTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
24 2 0.03
25 66 0.94
26 1 0.01
27 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (25 bp):
TATGAGCTTACCGATTCTCAACTCG
Found at i:20796028 original size:18 final size:18
Alignment explanation
Indices: 20796005--20796042 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
20795995 TTATTAACCA
20796005 AGCGAGACTCCACAAAGT
1 AGCGAGACTCCACAAAGT
20796023 AGCGAGACTCCACAAAGT
1 AGCGAGACTCCACAAAGT
20796041 AG
1 AG
20796043 GATTTGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.24, T:0.11
Consensus pattern (18 bp):
AGCGAGACTCCACAAAGT
Found at i:20804591 original size:24 final size:24
Alignment explanation
Indices: 20804564--20804609 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
20804554 AATCTGCGTC
* *
20804564 TGCATTTGTATCTAAATTTGAATA
1 TGCATATGTATCTAAATCTGAATA
20804588 TGCATATGTATCTAAATCTGAA
1 TGCATATGTATCTAAATCTGAA
20804610 AATACATCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (24 bp):
TGCATATGTATCTAAATCTGAATA
Found at i:20806066 original size:21 final size:21
Alignment explanation
Indices: 20806022--20806066 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20806012 TTTGTAGAAA
*
20806022 TTAAAAATATTTGAAATTTCT
1 TTAAAAATATTAGAAATTTCT
*
20806043 TTAAAAACTATTAGAACTTT-T
1 TTAAAAA-TATTAGAAATTTCT
20806064 TTA
1 TTA
20806067 GAACTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (21 bp):
TTAAAAATATTAGAAATTTCT
Found at i:20806155 original size:11 final size:11
Alignment explanation
Indices: 20806141--20806166 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20806131 TTTAGTTGAA
20806141 TTTTTTTCTAT
1 TTTTTTTCTAT
20806152 TTTTTTTCTAT
1 TTTTTTTCTAT
20806163 TTTT
1 TTTT
20806167 ATAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTAT
Found at i:20806690 original size:18 final size:19
Alignment explanation
Indices: 20806655--20806693 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
20806645 TTTTAATAAC
**
20806655 TTTTTATATATTTTTAAAA
1 TTTTTATATATTAATAAAA
20806674 TTTTTATA-ATTAATAAAA
1 TTTTTATATATTAATAAAA
20806692 TT
1 TT
20806694 ATATCTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTATATATTAATAAAA
Found at i:20807050 original size:9 final size:9
Alignment explanation
Indices: 20807032--20807071 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
20807022 TTTGGTTAAA
20807032 AATTAACCG
1 AATTAACCG
*
20807041 AATTACCCG
1 AATTAACCG
*
20807050 AATTAACTG
1 AATTAACCG
20807059 AATTAACCG
1 AATTAACCG
20807068 AATT
1 AATT
20807072 GAATCACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:20807122 original size:6 final size:6
Alignment explanation
Indices: 20807091--20807139 Score: 62
Period size: 6 Copynumber: 7.7 Consensus size: 6
20807081 CATAATTAAA
*
20807091 TTAGTT TTAGACTT TTAGACT TTAGTT TTAGTT TTAGTT TTAGTT TTAG
1 TTAGTT TTAG--TT TTAG-TT TTAGTT TTAGTT TTAGTT TTAGTT TTAG
20807140 AATTTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 27 0.71
7 5 0.13
8 6 0.16
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.59
Consensus pattern (6 bp):
TTAGTT
Found at i:20807220 original size:18 final size:18
Alignment explanation
Indices: 20807180--20807223 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20807170 AATTTTTATG
**
20807180 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
20807198 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
20807216 TTTGGGTT
1 ATTGGGTT
20807224 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:20831730 original size:11 final size:11
Alignment explanation
Indices: 20831700--20831745 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
20831690 ATATTCAAAC
*
20831700 AATAATAACAA
1 AATAATAGCAA
*
20831711 AATAGTAGCAA
1 AATAATAGCAA
*
20831722 TATAATAGCAA
1 AATAATAGCAA
*
20831733 AATAATAGTAA
1 AATAATAGCAA
20831744 AA
1 AA
20831746 CGGCAACAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:20854614 original size:37 final size:37
Alignment explanation
Indices: 20854535--20854636 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 37
20854525 AAGGAGCTAT
* * *
20854535 GCTCAAAATTTAGTGAG-TAGAATCTGAGAAGGTATAA
1 GCTCAAAATTTAGTGAGTTATACT-TGAGAAGGTACAA
* *
20854572 ACTCAAAATTTAGTGAGTTATACTTGAGAAGGTACGA
1 GCTCAAAATTTAGTGAGTTATACTTGAGAAGGTACAA
** *
20854609 GCTCAATTTTTAAG-GAGTTGTACTTGAG
1 GCTCAAAATTT-AGTGAGTTATACTTGAG
20854637 GTGTAAACTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 48 0.89
38 6 0.11
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (37 bp):
GCTCAAAATTTAGTGAGTTATACTTGAGAAGGTACAA
Found at i:20854658 original size:71 final size:71
Alignment explanation
Indices: 20854564--20854701 Score: 168
Period size: 71 Copynumber: 1.9 Consensus size: 71
20854554 GAATCTGAGA
* * * * * * *
20854564 AGGTATAAACTCAAAATTTAGTGAGTTATACTTGAGAAGGTACGAGCTCAATTTTTAAGGAGTTG
1 AGGTATAAACTAAAAACTTAGTGAGATATACCTGAAAAGGTACGAGCTCAAATTTTAAGGACTTG
20854629 TACTTG
66 TACTTG
* * ** *
20854635 AGGTGTAAACTAAAAACTTAGTGAGATGTACCTGAAAAGGTGTGAGCTCAAATTTTAGGGACTTG
1 AGGTATAAACTAAAAACTTAGTGAGATATACCTGAAAAGGTACGAGCTCAAATTTTAAGGACTTG
20854700 TA
66 TA
20854702 TTTAGGAAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (71 bp):
AGGTATAAACTAAAAACTTAGTGAGATATACCTGAAAAGGTACGAGCTCAAATTTTAAGGACTTG
TACTTG
Found at i:20855360 original size:4 final size:4
Alignment explanation
Indices: 20855351--20855383 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
20855341 TAAGCATCAC
20855351 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
20855384 TACAACTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:20857633 original size:7 final size:7
Alignment explanation
Indices: 20857595--20857632 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
20857585 AGAGTAGTGA
20857595 GTGGAGG
1 GTGGAGG
20857602 GTGGAGG
1 GTGGAGG
20857609 GTGGAGG
1 GTGGAGG
20857616 GTGGAGG
1 GTGGAGG
*
20857623 GTGAAGG
1 GTGGAGG
20857630 GTG
1 GTG
20857633 ATTTGGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (7 bp):
GTGGAGG
Found at i:20860608 original size:107 final size:103
Alignment explanation
Indices: 20860345--20860608 Score: 297
Period size: 101 Copynumber: 2.5 Consensus size: 103
20860335 AAAAATTTAC
* * * *
20860345 TTATTTTTTATTTTTAAATTTTTTAATATTTAAAAATTATTTTTGAAAA-CTTCTAAAACTCTTT
1 TTATTTTATATTTTTAAATTTTTTAACATTT-AAAATTATTTTTGAAAATC-TCTAAAACTCGTG
* * **
20860409 CCCATGTTAGTGGTGTTTTAAGGAGGTATATAAATATTTT
64 CCCATGTTAATGGTCTTTTAAGGAGACATATAAATATTTT
* *
20860449 TTATTTTAT-TTTATT---TTTATTTACCATTTAAAATTATTTTTGAAAATCTCTAAAGCT-GTG
1 TTATTTTATATTT-TTAAATTT-TTTAACATTTAAAATTATTTTTGAAAATCTCTAAAACTCGTG
* *
20860509 CCTCGTGTTAATGGTCTTTTAATGAGACATATAAATATTTTTT
64 CC-CATGTTAATGGTCTTTTAAGGAGACATATAAATA--TTTT
20860552 TATATTTTATATTTTTAAATTCTTTTAACATTTAAAATTATTTTTGAAAATCTCTAA
1 T-TATTTTATATTTTTAAATT-TTTTAACATTTAAAATTATTTTTGAAAATCTCTAA
20860609 CGGTCGCATA
Statistics
Matches: 135, Mismatches: 13, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
100 3 0.02
101 56 0.41
102 9 0.07
103 8 0.06
104 20 0.15
105 3 0.02
107 35 0.26
108 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (103 bp):
TTATTTTATATTTTTAAATTTTTTAACATTTAAAATTATTTTTGAAAATCTCTAAAACTCGTGCC
CATGTTAATGGTCTTTTAAGGAGACATATAAATATTTT
Found at i:20869751 original size:23 final size:23
Alignment explanation
Indices: 20869724--20869769 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
20869714 AAAAATAAGT
20869724 ATAAAAATACATGGTATTGGATA
1 ATAAAAATACATGGTATTGGATA
20869747 ATAAAAATACATGGTATTGGATA
1 ATAAAAATACATGGTATTGGATA
20869770 TTTACATCAG
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:0.48, C:0.04, G:0.17, T:0.30
Consensus pattern (23 bp):
ATAAAAATACATGGTATTGGATA
Found at i:20873798 original size:12 final size:12
Alignment explanation
Indices: 20873767--20873816 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
20873757 TCCTTCTGCT
20873767 TCATCACATTCCA
1 TCATC-CATTCCA
20873780 T-ATCCATGT-CA
1 TCATCCAT-TCCA
20873791 TCATCCATTCCA
1 TCATCCATTCCA
20873803 TCATCCATTTCCA
1 TCATCCA-TTCCA
20873816 T
1 T
20873817 ACTCTCATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 7 0.21
12 19 0.58
13 7 0.21
ACGTcount: A:0.26, C:0.36, G:0.02, T:0.36
Consensus pattern (12 bp):
TCATCCATTCCA
Found at i:20875529 original size:15 final size:15
Alignment explanation
Indices: 20875509--20875559 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
20875499 ACAAAACGAT
20875509 AACGTAAGTGACTAA
1 AACGTAAGTGACTAA
*
20875524 AACGTAA-T-ACTTCA
1 AACGTAAGTGAC-TAA
*
20875538 AACATAAGTGACTAA
1 AACGTAAGTGACTAA
*
20875553 AATGTAA
1 AACGTAA
20875560 ATTGAGACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (15 bp):
AACGTAAGTGACTAA
Found at i:20878162 original size:9 final size:9
Alignment explanation
Indices: 20878148--20878264 Score: 135
Period size: 9 Copynumber: 12.6 Consensus size: 9
20878138 TTTGGTTAAA
20878148 AATTACCCG
1 AATTACCCG
20878157 AATTACCCG
1 AATTACCCG
*
20878166 ACTTACCCG
1 AATTACCCG
*
20878175 ACTTACCCG
1 AATTACCCG
*
20878184 AATTACCCA
1 AATTACCCG
*
20878193 AATTACTCG
1 AATTACCCG
*
20878202 AATTACCCAAA
1 AATTACCC--G
*
20878213 AATTACCCA
1 AATTACCCG
20878222 AATTACCCG
1 AATTACCCG
*
20878231 AATTACCCACA
1 AATTA-CC-CG
20878242 AATTACCCG
1 AATTACCCG
20878251 AATTACCCG
1 AATTACCCG
20878260 AATTA
1 AATTA
20878265 AATCACTACA
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
9 76 0.81
10 4 0.04
11 14 0.15
ACGTcount: A:0.38, C:0.32, G:0.07, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:20878222 original size:29 final size:29
Alignment explanation
Indices: 20878209--20878264 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
20878199 TCGAATTACC
20878209 CAAAAATTACCCAAATTACCCGAATTACC
1 CAAAAATTACCCAAATTACCCGAATTACC
* *
20878238 CACAAATTACCCGAATTACCCGAATTA
1 CAAAAATTACCCAAATTACCCGAATTA
20878265 AATCACTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.30, G:0.05, T:0.21
Consensus pattern (29 bp):
CAAAAATTACCCAAATTACCCGAATTACC
Found at i:20878293 original size:17 final size:17
Alignment explanation
Indices: 20878260--20878368 Score: 69
Period size: 17 Copynumber: 6.1 Consensus size: 17
20878250 GAATTACCCG
*
20878260 AATT-AAATCACTACAT
1 AATTAAAATCATTACAT
*
20878276 AATTAAAAGCATTACAT
1 AATTAAAATCATTACAT
* *
20878293 AAATCTTTAAATCACTACAT
1 -AA--TTAAAATCATTACAT
20878313 AATTAAAA-CTATTACAT
1 AATTAAAATC-ATTACAT
** *
20878330 AAGTTTTTGAATCACTACAT
1 AA---TTAAAATCATTACAT
*
20878350 AATTAAAAACATTACAT
1 AATTAAAATCATTACAT
20878367 AA
1 AA
20878369 GTCTTGAATT
Statistics
Matches: 70, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
16 5 0.07
17 36 0.51
18 2 0.03
19 2 0.03
20 24 0.34
21 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.33
Consensus pattern (17 bp):
AATTAAAATCATTACAT
Found at i:20878308 original size:37 final size:36
Alignment explanation
Indices: 20878262--20878373 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 36
20878252 ATTACCCGAA
*
20878262 TTAAATCACTACATAATTAAAAGCATTACATAAATCT
1 TTAAATCACTACATAATTAAAA-CATTACATAAGTCT
*
20878299 TTAAATCACTACATAATTAAAACTATTACATAAGTTT
1 TTAAATCACTACATAATTAAAAC-ATTACATAAGTCT
*
20878336 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTAAATCACTACATAATT-AAAACATTACATAAGTCT
20878373 T
1 T
20878374 GAATTAACAC
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.01
37 63 0.91
38 5 0.07
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (36 bp):
TTAAATCACTACATAATTAAAACATTACATAAGTCT
Found at i:20878313 original size:20 final size:18
Alignment explanation
Indices: 20878262--20878314 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
20878252 ATTACCCGAA
20878262 TTAAATCACTACAT-AAT
1 TTAAATCACTACATAAAT
* * *
20878279 TAAAAGCATTACATAAATCT
1 TTAAATCACTACATAAA--T
20878299 TTAAATCACTACATAA
1 TTAAATCACTACATAA
20878315 TTAAAACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
20 14 0.52
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAATCACTACATAAAT
Found at i:20881216 original size:15 final size:16
Alignment explanation
Indices: 20881183--20881221 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
20881173 GGGCCTTGAT
20881183 ATTATAATGATGAAAA
1 ATTATAATGATGAAAA
20881199 ATTATAATGATG-AAA
1 ATTATAATGATGAAAA
20881214 ATTATAAT
1 ATTATAAT
20881222 ATTAGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (16 bp):
ATTATAATGATGAAAA
Found at i:20881472 original size:25 final size:25
Alignment explanation
Indices: 20881439--20881486 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
20881429 TTTATATATG
*
20881439 CTGGTTGTGTAAAGAAATTTGTACA
1 CTGGATGTGTAAAGAAATTTGTACA
20881464 CTGGATGTGTAAAGAAATTTGTA
1 CTGGATGTGTAAAGAAATTTGTA
20881487 AGTAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.35
Consensus pattern (25 bp):
CTGGATGTGTAAAGAAATTTGTACA
Found at i:20884188 original size:32 final size:32
Alignment explanation
Indices: 20884145--20884259 Score: 144
Period size: 32 Copynumber: 3.6 Consensus size: 32
20884135 TTTTAAAGGA
*
20884145 ATATTT-TTATCATTTAACAAAATTAAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
*
20884176 ATATTTGTTATCATTTCACAAAATTGAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
* * ** *
20884208 TTATTTGGTA-CAATTTCACAAAACGAAAGGTG
1 ATATTTGTTATC-ATTTCACAAAATTAAAGTTG
20884240 ATATTTGTTATCATTTCACA
1 ATATTTGTTATCATTTCACA
20884260 GAACCATGCA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
31 7 0.10
32 63 0.89
33 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (32 bp):
ATATTTGTTATCATTTCACAAAATTAAAGTTG
Found at i:20888814 original size:18 final size:18
Alignment explanation
Indices: 20888783--20888821 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20888773 TCACGTCAAC
20888783 AAATAATTTAAAAATTATA
1 AAATAATTTAAAAATT-TA
*
20888802 AAAT-ATTTTAAAATTTA
1 AAATAATTTAAAAATTTA
20888819 AAA
1 AAA
20888822 AATCATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATAATTTAAAAATTTA
Found at i:20888822 original size:18 final size:19
Alignment explanation
Indices: 20888783--20888824 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20888773 TCACGTCAAC
20888783 AAATAATTTAAAAATTATA
1 AAATAATTTAAAAATTATA
* * *
20888802 AAATATTTTAAAATTTAAA
1 AAATAATTTAAAAATTATA
20888821 AAAT
1 AAAT
20888825 CATAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATTTAAAAATTATA
Found at i:20888834 original size:11 final size:11
Alignment explanation
Indices: 20888818--20888843 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20888808 TTTAAAATTT
20888818 AAAAAATCATA
1 AAAAAATCATA
20888829 AAAAAATCATA
1 AAAAAATCATA
20888840 AAAA
1 AAAA
20888844 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATCATA
Found at i:20890664 original size:45 final size:47
Alignment explanation
Indices: 20890598--20890689 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 47
20890588 AGCGTGGCAC
20890598 TACTACACTTCTCCTATTGATTAGTTGCAGGCAATAATAAATGCCAA
1 TACTACACTTCTCCTATTGATTAGTTGCAGGCAATAATAAATGCCAA
*
20890645 TACTACAC-T-TCCTATTGATTAGTTTCAGGCAATAATAAATGCCAA
1 TACTACACTTCTCCTATTGATTAGTTGCAGGCAATAATAAATGCCAA
20890690 ATACGAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 35 0.80
46 1 0.02
47 8 0.18
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (47 bp):
TACTACACTTCTCCTATTGATTAGTTGCAGGCAATAATAAATGCCAA
Found at i:20902244 original size:5 final size:5
Alignment explanation
Indices: 20902234--20902268 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
20902224 GGTTATAATT
20902234 ATAAA ATAAA ATAAA AT-AA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
20902269 GCTTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:20902256 original size:14 final size:14
Alignment explanation
Indices: 20902237--20902267 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
20902227 TATAATTATA
20902237 AAATAAAATAAAAT
1 AAATAAAATAAAAT
20902251 AAATAAAATAAAAT
1 AAATAAAATAAAAT
20902265 AAA
1 AAA
20902268 AGCTTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:20907801 original size:23 final size:23
Alignment explanation
Indices: 20907752--20907801 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
20907742 TACTTTTTTG
* ** *
20907752 AGTTATCTCAAATAAGTGTTTCG
1 AGTTAACTCAAATAAGTAATTCA
*
20907775 AGTTAACTCGAATAAGTAATTCA
1 AGTTAACTCAAATAAGTAATTCA
20907798 AGTT
1 AGTT
20907802 TGAGTTCGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (23 bp):
AGTTAACTCAAATAAGTAATTCA
Found at i:20907946 original size:17 final size:16
Alignment explanation
Indices: 20907919--20907951 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
20907909 AATTATAAAA
20907919 ATAATTTTTAAAATTT
1 ATAATTTTTAAAATTT
20907935 ATAATATTTTAAAATTT
1 ATAAT-TTTTAAAATTT
20907952 TCAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATTTTTAAAATTT
Found at i:20907997 original size:19 final size:18
Alignment explanation
Indices: 20907964--20907999 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20907954 AAAATTTACA
*
20907964 TTTTTAAAATATATAAAT
1 TTTTTAAAAAATATAAAT
20907982 TTTTTAAAAAATTATAAA
1 TTTTTAAAAAA-TATAAA
20908000 AAATATAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTTAAAAAATATAAAT
Found at i:20910260 original size:17 final size:17
Alignment explanation
Indices: 20910208--20910261 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
20910198 TATAATAATT
20910208 AATATTTT-TATATTTA
1 AATATTTTATATATTTA
*
20910224 AATCATTTTATATTTTTA
1 AAT-ATTTTATATATTTA
* *
20910242 AATATTTTAAATATATA
1 AATATTTTATATATTTA
20910259 AAT
1 AAT
20910262 GTAGATAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 3 0.09
17 19 0.59
18 10 0.31
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATTTTATATATTTA
Found at i:20933507 original size:5 final size:5
Alignment explanation
Indices: 20933497--20933532 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
20933487 GGTTATAATT
20933497 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
20933533 GCTTTCTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:20939087 original size:23 final size:23
Alignment explanation
Indices: 20939038--20939087 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
20939028 ACTTTTTTTG
* ** *
20939038 AGTTATCTCAAATAAGTGTTTCG
1 AGTTAACTCAAATAAGTAATTCA
*
20939061 AGTTAACTCGAATAAGTAATTCA
1 AGTTAACTCAAATAAGTAATTCA
20939084 AGTT
1 AGTT
20939088 TTGAGTTCGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (23 bp):
AGTTAACTCAAATAAGTAATTCA
Found at i:20939222 original size:9 final size:9
Alignment explanation
Indices: 20939210--20939280 Score: 58
Period size: 9 Copynumber: 8.2 Consensus size: 9
20939200 TTATAAAAAT
20939210 AATTTTTAA
1 AATTTTTAA
*
20939219 AATTTATAA
1 AATTTTTAA
*
20939228 TATTTTTAA
1 AATTTTTAA
*
20939237 AATTTTCAA
1 AATTTTTAA
20939246 AA--TTT-A
1 AATTTTTAA
*
20939252 CATTTTTAA
1 AATTTTTAA
* *
20939261 AATATATAA
1 AATTTTTAA
*
20939270 ATTTTTTAA
1 AATTTTTAA
20939279 AA
1 AA
20939281 AATTATAAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
6 2 0.04
7 2 0.04
8 3 0.07
9 38 0.84
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (9 bp):
AATTTTTAA
Found at i:20939287 original size:19 final size:18
Alignment explanation
Indices: 20939254--20939289 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20939244 AAAATTTACA
*
20939254 TTTTTAAAATATATAAAT
1 TTTTTAAAAAATATAAAT
20939272 TTTTTAAAAAATTATAAA
1 TTTTTAAAAAA-TATAAA
20939290 AAATATAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTTAAAAAATATAAAT
Found at i:20941603 original size:15 final size:16
Alignment explanation
Indices: 20941587--20941630 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
20941577 ATAATTAATT
20941587 AATATTTTTATATTTAA
1 AATA-TTTTATATTTAA
*
20941604 AATCATTTTATATTTTTA
1 AAT-ATTTTATA-TTTAA
20941622 AATATTTTA
1 AATATTTTA
20941631 AATATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
AATATTTTATATTTAA
Found at i:20941628 original size:17 final size:18
Alignment explanation
Indices: 20941587--20941641 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
20941577 ATAATTAATT
20941587 AATATTTT-TATATTTAA
1 AATATTTTATATATTTAA
*
20941604 AATCATTTTATAT-TTTTA
1 AAT-ATTTTATATATTTAA
*
20941622 AATATTTTAAATATATTAA
1 AATATTTTATATAT-TTAA
20941641 A
1 A
20941642 TGTAGATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.35
18 13 0.42
19 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATTTTATATATTTAA
Found at i:20941631 original size:9 final size:9
Alignment explanation
Indices: 20941587--20941642 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
20941577 ATAATTAATT
20941587 AATATTTT-
1 AATATTTTA
* *
20941595 TATATTTAA
1 AATATTTTA
20941604 AATCATTTTA
1 AAT-ATTTTA
*
20941614 TAT-TTTTA
1 AATATTTTA
20941622 AATATTTTA
1 AATATTTTA
*
20941631 AATATATTA
1 AATATTTTA
20941640 AAT
1 AAT
20941643 GTAGATAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
8 13 0.34
9 18 0.47
10 7 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (9 bp):
AATATTTTA
Found at i:20942656 original size:21 final size:21
Alignment explanation
Indices: 20942627--20942681 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
20942617 GATATATCTG
* * *
20942627 TATTTAAATTTTATTTTATTT
1 TATTCAAATTTTAATCTATTT
20942648 TATTCAAATTTTAATCTATTT
1 TATTCAAATTTTAATCTATTT
*
20942669 TTTTC--ATTTTAAT
1 TATTCAAATTTTAAT
20942682 ATTGTACATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 8 0.27
21 22 0.73
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTCAAATTTTAATCTATTT
Found at i:20945889 original size:43 final size:43
Alignment explanation
Indices: 20945828--20945914 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
20945818 TTTATTCAAG
20945828 TTAGTCTCTAAACTTGATAATGTTCCTATATTGAGATCTAAAC
1 TTAGTCTCTAAACTTGATAATGTTCCTATATTGAGATCTAAAC
20945871 TTAGTCTCTAAACTTGATAATGTTCCTATATTGAGATCTAAAC
1 TTAGTCTCTAAACTTGATAATGTTCCTATATTGAGATCTAAAC
20945914 T
1 T
20945915 CAAGAATTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (43 bp):
TTAGTCTCTAAACTTGATAATGTTCCTATATTGAGATCTAAAC
Found at i:20964059 original size:19 final size:18
Alignment explanation
Indices: 20964031--20964066 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20964021 AAGGGAAGAA
20964031 GTAAAAAAAAAACTAAAT
1 GTAAAAAAAAAACTAAAT
*
20964049 GTAATAAAAAAAAGTAAA
1 GTAA-AAAAAAAACTAAA
20964067 AGATGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (18 bp):
GTAAAAAAAAAACTAAAT
Found at i:20964558 original size:25 final size:24
Alignment explanation
Indices: 20964530--20964587 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
20964520 GTTTTTCTTA
**
20964530 AATATTTGTATAATTATTTTTAATT
1 AATATTTACATAA-TATTTTTAATT
*
20964555 AATATTAACATAATATTTTTAATT
1 AATATTTACATAATATTTTTAATT
20964579 ATATATTTA
1 A-ATATTTA
20964588 TTTATAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
AATATTTACATAATATTTTTAATT
Found at i:20964614 original size:19 final size:19
Alignment explanation
Indices: 20964586--20964622 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20964576 ATTATATATT
*
20964586 TATTTATAAACTTTTTATA
1 TATTTATAAAATTTTTATA
*
20964605 TATTTTTAAAATTTTTAT
1 TATTTATAAAATTTTTAT
20964623 TTCAGTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATAAAATTTTTATA
Found at i:20967343 original size:28 final size:28
Alignment explanation
Indices: 20967284--20967343 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
20967274 AATGTTAATC
* * * *
20967284 TTTCATAGTTTGCCATAAAGGCTTCTTT
1 TTTCATAGTTTGCCACAAAGGCATATTA
20967312 TTTCATAGTTTGCCACAAAGGCATATTA
1 TTTCATAGTTTGCCACAAAGGCATATTA
20967340 TTTC
1 TTTC
20967344 CTGACATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (28 bp):
TTTCATAGTTTGCCACAAAGGCATATTA
Found at i:20969207 original size:17 final size:17
Alignment explanation
Indices: 20969170--20969217 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
20969160 GAATTTATAA
*
20969170 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
20969186 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
20969203 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
20969218 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:20970505 original size:46 final size:46
Alignment explanation
Indices: 20970435--20970616 Score: 292
Period size: 46 Copynumber: 4.0 Consensus size: 46
20970425 CATGGAAAAG
*
20970435 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
20970481 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
20970527 TGTGAAAAGTAGGTATGGTGTTTCAGTGAATAAAACCATACTGAAT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
20970573 TGTGAAAAATAGGTATGGTATTTCCGTGAAGAAAACCATACTGA
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGA
20970617 TTTATAGCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:20972333 original size:38 final size:38
Alignment explanation
Indices: 20972282--20972374 Score: 141
Period size: 38 Copynumber: 2.4 Consensus size: 38
20972272 CTACTGAGTG
* *
20972282 CATGTTAAGCATGTGTACTACTACTATTAAACAAAATA
1 CATGTTAAGCATGTCTACGACTACTATTAAACAAAATA
* **
20972320 CATGTTAAGCATGTCTACGGCTACTATTAAATTAAATA
1 CATGTTAAGCATGTCTACGACTACTATTAAACAAAATA
20972358 CATGTTAAGCATGTCTA
1 CATGTTAAGCATGTCTA
20972375 TTATTTCTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (38 bp):
CATGTTAAGCATGTCTACGACTACTATTAAACAAAATA
Found at i:20972596 original size:22 final size:23
Alignment explanation
Indices: 20972534--20972596 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
20972524 AAAAATAATA
*
20972534 GTGGTTCATCCCCAAATTTTTACTG
1 GTGGTTCATCCTCAAA--TTTACTG
* *
20972559 GTAGTTTAT-CTACAAA-TTACTG
1 GTGGTTCATCCT-CAAATTTACTG
20972581 GTGGTTCATCCTCAAA
1 GTGGTTCATCCTCAAA
20972597 ATGGAATGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
22 17 0.55
23 2 0.06
24 1 0.03
25 11 0.35
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (23 bp):
GTGGTTCATCCTCAAATTTACTG
Found at i:20974278 original size:17 final size:17
Alignment explanation
Indices: 20974247--20974293 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
20974237 ATAGCTTTTA
20974247 TATATATATTTATATTT
1 TATATATATTTATATTT
20974264 TATA-ATATTTAATATTT
1 TATATATATTT-ATATTT
20974281 T-TCATAT-TTTATA
1 TAT-ATATATTTATA
20974294 ACTTATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 10 0.37
17 15 0.56
18 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATATTTATATTT
Found at i:20974289 original size:54 final size:52
Alignment explanation
Indices: 20974194--20974308 Score: 117
Period size: 52 Copynumber: 2.2 Consensus size: 52
20974184 TGTTATATTC
* * *
20974194 ATATATATATATATATTATGTATATTTTATTATCTTTTATTTCATAGCTTTT
1 ATATATATATATATATTATGTATATTTTAATATCTTTTATTTCATAACTTAT
* * *
20974246 ATATATATATTTATATT-T-TATAATATTTAATATTTTTCATATTTTATAACTTAT
1 ATATATATATATATATTATGTAT-AT-TTTAATATCTTT--TATTTCATAACTTAT
*
20974300 ACATATATA
1 ATATATATA
20974309 CACGCATAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
50 3 0.06
51 3 0.06
52 26 0.50
54 20 0.38
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (52 bp):
ATATATATATATATATTATGTATATTTTAATATCTTTTATTTCATAACTTAT
Found at i:20974433 original size:28 final size:27
Alignment explanation
Indices: 20974387--20974444 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
20974377 ATTTTCTTAG
* *
20974387 TTTATATATATATATATACATTTACAT
1 TTTATATACATATACATACATTTACAT
* *
20974414 TTTATAATACATATACATACTTTTATAT
1 TTTAT-ATACATATACATACATTTACAT
20974442 TTT
1 TTT
20974445 TATCTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTATATACATATACATACATTTACAT
Done.